Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 195 of 335
Found at i:58632749 original size:43 final size:43
Alignment explanation
Indices: 58632692--58632810 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 43
58632682 CACATATCAT
* *
58632692 ACAATGCCAATGTCCTAGAC-GTGGTCTTACATGTAATCACATA
1 ACAATGCCAATGTCCCAGACAG-GGTCTTACACGTAATCACATA
* * *
58632735 ACAATGCCACTGTCCCAGACAGGGTCTTATACGTAATCATATA
1 ACAATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACATA
* * * * **
58632778 TCGATGCCAACGTCCCAAACATCGTCTTACACG
1 ACAATGCCAATGTCCCAGACAGGGTCTTACACG
58632811 AGAAATATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
43 61 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACATA
Found at i:58642107 original size:93 final size:93
Alignment explanation
Indices: 58641995--58642166 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
58641985 CGCCCATAAG
* * *
58641995 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTT
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAACCATAAGTGAACTCGGACTCAACTC
58642059 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
*
58642088 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAACCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAACCATAAGTGAACTCGGACTCAACTCA
58642153 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
58642167 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAACCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:58642161 original size:46 final size:45
Alignment explanation
Indices: 58641988--58642163 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
58641978 TGTAACCCGC
* *
58641988 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGAC-TTCGCAA
* * * * **
58642034 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGATGCCTAGTTA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA--CTTCGCAA
*
58642081 -CATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAA
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGAC-TTCGCAA
*
58642127 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58642164 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
45 5 0.05
46 65 0.62
47 32 0.30
48 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACTTCGCAA
Found at i:58648047 original size:39 final size:39
Alignment explanation
Indices: 58647963--58648152 Score: 310
Period size: 39 Copynumber: 4.9 Consensus size: 39
58647953 TATGGTAACC
* * * *
58647963 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
58648003 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
58648042 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
58648080 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
58648119 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
58648153 CTCGAACATT
Statistics
Matches: 142, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
38 38 0.27
39 88 0.62
40 16 0.11
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:58648100 original size:77 final size:78
Alignment explanation
Indices: 58647963--58648153 Score: 312
Period size: 77 Copynumber: 2.4 Consensus size: 78
58647953 TATGGTAACC
* * *
58647963 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTTGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
58648028 CGGATATCATAGCT
65 CGGATATCATAGCT
* *
58648042 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
*
58648106 GGGTATCATAGCT
66 GGATATCATAGCT
58648119 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
58648154 TCGAACATTC
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
77 73 0.70
78 14 0.13
79 17 0.16
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (78 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCATAGCT
Found at i:58656037 original size:39 final size:39
Alignment explanation
Indices: 58655953--58656143 Score: 310
Period size: 39 Copynumber: 4.9 Consensus size: 39
58655943 TATGGTAACC
* * * *
58655953 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
58655993 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
58656032 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
58656071 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
58656110 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
58656144 CTCGAACATT
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 127 0.89
40 16 0.11
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:58666796 original size:55 final size:54
Alignment explanation
Indices: 58666548--58666801 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 54
58666538 ACACGGGTAC
* * * *
58666548 CTTACC-ATTTCCATGACTTGTCATGGTTTTACATGGTATCC-T--TTT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
* * * * *
58666597 CTTACC-ATTGTCATGTCTCGACATGGTCTTACATGATAT-CTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTTA-GAAA
* * * * *
58666649 CTCACTAA-TGCCATGCCTTGGCATGGTCTTACATGAG-A-CATTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATG-GTATC-CTTG-CTT-TAGAAA
* *
58666704 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
*
58666757 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
58666802 AAACCCTAAT
Statistics
Matches: 162, Mismatches: 27, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
48 1 0.01
49 33 0.20
51 2 0.01
52 30 0.19
53 10 0.06
54 14 0.09
55 71 0.44
56 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
Found at i:58668978 original size:40 final size:40
Alignment explanation
Indices: 58668822--58668983 Score: 182
Period size: 40 Copynumber: 4.0 Consensus size: 40
58668812 GAATTTAGCT
* * * *
58668822 GGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCC
1 GGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCC
* * *** *
58668862 AGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCC
* *
58668902 GGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCC
* *
58668942 GGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCC
1 GGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGCCC
58668982 GG
1 GG
58668984 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 99 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:58672253 original size:27 final size:27
Alignment explanation
Indices: 58672223--58672488 Score: 248
Period size: 27 Copynumber: 9.9 Consensus size: 27
58672213 ATTACCAAAG
* *
58672223 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
58672250 TACCCCCGATTTACAGAATTAGCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
58672277 TACCTTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
** * * *
58672304 TACCCTCGATTTGTAGAATTACCGTCT
1 TACCCTCGATTTACAAAATTACCATTT
* **
58672331 CACCCTCGATTTACAAAATTATTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
58672358 TA-CCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
58672384 TACCCTTGATTTA-AAGAATTACCATTT
1 TACCCTCGATTTACAA-AATTACCATTT
* **
58672411 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * ***
58672438 TACCTTTGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCATTT
* *
58672465 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCA
58672489 AAATACCCTC
Statistics
Matches: 193, Mismatches: 43, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 23 0.12
27 169 0.88
28 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:58672402 original size:80 final size:80
Alignment explanation
Indices: 58672199--58672459 Score: 301
Period size: 81 Copynumber: 3.2 Consensus size: 80
58672189 ACTGAAATGC
* * *** * *
58672199 CCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAA-AATTATCGTTTTACCCCCGATTTA
1 CCTCGATTTATAAAATTACCATTTTACCCTCGATTTA-AAGAATTACCGTTTTACCCTCGATTTA
58672263 CAGAATTAGC-ATTTTA
65 CAGAATTA-CTATTTTA
** * *
58672279 CCTTCGATTTATAAAATTACCATTTTACCCTCGATTTGTAGAATTACCGTCTCACCCTCGATTTA
1 CC-TCGATTTATAAAATTACCATTTTACCCTCGATTTAAAGAATTACCGTTTTACCCTCGATTTA
* *
58672344 CAAAATTATTATTTTA
65 CAGAATTACTATTTTA
* * *
58672360 CCTCGATTTATAGAATTACCATTTTACCCTTGATTTAAAGAATTACCATTTTACCCTCGATTTAC
1 CCTCGATTTATAAAATTACCATTTTACCCTCGATTTAAAGAATTACCGTTTTACCCTCGATTTAC
*
58672425 AGAATTACTGTTTTA
66 AGAATTACTATTTTA
* *
58672440 CCTTTGATTTACAAAATTAC
1 CC-TCGATTTATAAAATTAC
58672460 TAAAATACCC
Statistics
Matches: 151, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
80 73 0.48
81 78 0.52
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (80 bp):
CCTCGATTTATAAAATTACCATTTTACCCTCGATTTAAAGAATTACCGTTTTACCCTCGATTTAC
AGAATTACTATTTTA
Found at i:58672417 original size:107 final size:108
Alignment explanation
Indices: 58672224--58672458 Score: 323
Period size: 107 Copynumber: 2.2 Consensus size: 108
58672214 TTACCAAAGT
* *
58672224 ACCCTCGATTTACAAAATTATCGTTTTACCCCCGATTTACAGAATTAGCATTTTACCTTCGATTT
1 ACCCTCGATTTACAAAATTATCATTTTACCCCCGATTTACAGAATTACCATTTTACCTTCGATTT
**
58672289 ATAAAATTACCATTTTACCCTCGATTTGTAGAATTACCGTCTC
66 ATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTC
* * *
58672332 ACCCTCGATTTACAAAATTATTATTTTA-CCTCGATTTATAGAATTACCATTTTACCCTT-GATT
1 ACCCTCGATTTACAAAATTATCATTTTACCCCCGATTTACAGAATTACCATTTTA-CCTTCGATT
* * *
58672395 TA-AAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTT
65 TATAA-AATTACCATTTTACCCTCGATTTACAGAATTACCGTCTC
* *
58672439 ACCTTTGATTTACAAAATTA
1 ACCCTCGATTTACAAAATTA
58672459 CTAAAATACC
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
106 2 0.02
107 81 0.72
108 30 0.27
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (108 bp):
ACCCTCGATTTACAAAATTATCATTTTACCCCCGATTTACAGAATTACCATTTTACCTTCGATTT
ATAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTC
Found at i:58672470 original size:54 final size:54
Alignment explanation
Indices: 58672223--58672459 Score: 280
Period size: 54 Copynumber: 4.4 Consensus size: 54
58672213 ATTACCAAAG
* * * *
58672223 TACCCTCGATTTACAAAATTATCGTTTTACCCCCGATTTACAGAATTAGCATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * ** * *
58672277 TACCTTCGATTTATAAAATTACCATTTTACCCTCGATTTGTAGAATTACCGTCT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* ** *
58672331 CACCCTCGATTTACAAAATTATTATTTTA-CCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* **
58672384 TACCCTTGATTTA-AAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAA-AATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* *
58672438 TACCTTTGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
58672460 TAAAATACCC
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
52 2 0.01
53 43 0.28
54 107 0.69
55 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:58672491 original size:27 final size:27
Alignment explanation
Indices: 58672438--58672523 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
58672428 ATTACTGTTT
* * *
58672438 TACCTTTGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
58672465 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * * *
58672492 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAA
58672519 TACCC
1 TACCC
58672524 CTGATTTGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.08
27 47 0.92
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:58672537 original size:27 final size:27
Alignment explanation
Indices: 58672452--58672606 Score: 93
Period size: 27 Copynumber: 5.8 Consensus size: 27
58672442 TTTGATTTAC
* * * **
58672452 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
**
58672479 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
58672506 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * * * *
58672533 GAAATTATCGAAATA-CTCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * **
58672560 AAAA-TATCGAAATACCCCTG-TAGGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
* *
58672586 AGAATTACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
58672607 TAGGATAGAA
Statistics
Matches: 101, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.01
26 21 0.21
27 75 0.74
28 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:58672538 original size:54 final size:54
Alignment explanation
Indices: 58672452--58672579 Score: 123
Period size: 54 Copynumber: 2.4 Consensus size: 54
58672442 TTTGATTTAC
* * * *
58672452 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCTCAATCAGT
*** * * * **
58672506 AAAATTACCAAAATACCCCTGATTTGTGAAATTATCGAAATACTCTCAATTTGT
1 AAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCTCAATCAGT
* *
58672560 AAAA-TATCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
58672580 TAGGGTAGAA
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
53 14 0.23
54 46 0.77
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTACAAAATTACCAAAATACCCTCAATCAGT
Found at i:58672607 original size:27 final size:27
Alignment explanation
Indices: 58672567--58672780 Score: 281
Period size: 27 Copynumber: 8.0 Consensus size: 27
58672557 TGTAAAATAT
58672567 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
58672594 CGAAATACCCCTGTAGGATAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
58672621 TGAAATAACCTTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
58672648 TGAAATAACCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
58672675 CGAAATACCCCTGTAGGGAAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
58672702 TGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
58672729 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
58672756 CGAGATA-CCCT-T-GGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
58672780 C
1 C
58672781 ATTTTGCCCC
Statistics
Matches: 167, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
24 12 0.07
25 1 0.01
26 3 0.02
27 151 0.90
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:58673019 original size:25 final size:25
Alignment explanation
Indices: 58672985--58673054 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
58672975 AGGAAGTGCT
*
58672985 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
58673010 AAAAGGGCTTTACCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
58673035 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
58673055 ATTAACAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:58673148 original size:38 final size:38
Alignment explanation
Indices: 58673106--58673197 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
58673096 ATGTTGCCAG
58673106 TGGAGAGTTTGGTTGGGTGGGTTGAGTTATTCCCCACA
1 TGGAGAGTTTGGTTGGGTGGGTTGAGTTATTCCCCACA
*
58673144 TGGAGAGTTTGGTTGGGTGGGTTGAGTTATTCCTCACA
1 TGGAGAGTTTGGTTGGGTGGGTTGAGTTATTCCCCACA
*
58673182 TGGAGAGCTTGGTTGG
1 TGGAGAGTTTGGTTGG
58673198 TACAGGTGGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.15, C:0.11, G:0.39, T:0.35
Consensus pattern (38 bp):
TGGAGAGTTTGGTTGGGTGGGTTGAGTTATTCCCCACA
Found at i:58673348 original size:31 final size:31
Alignment explanation
Indices: 58673313--58673427 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
58673303 CGTTTATAGT
58673313 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
58673344 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
58673375 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
58673406 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
58673428 TCAAGACTAA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:58674246 original size:16 final size:16
Alignment explanation
Indices: 58674225--58674262 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
58674215 ATTTTTTTTC
58674225 TTTTTCGAAATTAGGG
1 TTTTTCGAAATTAGGG
*
58674241 TTTTTCGAAATTGGGG
1 TTTTTCGAAATTAGGG
58674257 TTTTTC
1 TTTTTC
58674263 TAAAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.50
Consensus pattern (16 bp):
TTTTTCGAAATTAGGG
Found at i:58674268 original size:17 final size:16
Alignment explanation
Indices: 58674225--58674269 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
58674215 ATTTTTTTTC
*
58674225 TTTTTCGAAATTAGGG
1 TTTTTCAAAATTAGGG
* *
58674241 TTTTTCGAAATTGGGG
1 TTTTTCAAAATTAGGG
58674257 TTTTTCTAAAATT
1 TTTTTC-AAAATT
58674270 TTATTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTTTCAAAATTAGGG
Found at i:58675726 original size:27 final size:27
Alignment explanation
Indices: 58675707--58675890 Score: 260
Period size: 27 Copynumber: 6.8 Consensus size: 27
58675697 ATTACCAAAG
*
58675707 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
58675734 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
58675761 TACTCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
58675788 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
58675815 CACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
58675842 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
58675869 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
58675891 TGAAATACCC
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:58675754 original size:54 final size:54
Alignment explanation
Indices: 58675696--58675932 Score: 251
Period size: 54 Copynumber: 4.4 Consensus size: 54
58675686 CAATTTGTAA
**
58675696 AATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAATTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAG
* * * * *
58675750 AATTACCATTTTACTCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAG
1 AATTACCAATTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAG
* * *
58675804 AATTACC-ATTTCACCCTCGATTTACAGAATTATCGTTTTACCCTTGATTTATAG
1 AATTACCAATTT-ACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAG
** * * * *** * * *
58675858 AATTACCGTTTTACCCTTGATTTACAAAATTACTGAAATACCCTTGGTTTACAA
1 AATTACCAATTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAG
**
58675912 AATTACCAAAATACCCTCGAT
1 AATTACCAATTTACCCTCGAT
58675933 CAGTAAAATT
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
53 3 0.02
54 146 0.96
55 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (54 bp):
AATTACCAATTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAG
Found at i:58675899 original size:27 final size:27
Alignment explanation
Indices: 58675842--58676033 Score: 111
Period size: 27 Copynumber: 7.2 Consensus size: 27
58675832 ATTATCGTTT
* * ***
58675842 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTTGATTTACAAAATTACCGAAA
*
58675869 TACCCTTGATTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* *
58675896 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* * * *
58675923 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-CAAAATTACCGAAA
* * ** *
58675950 TACCCCTGGTTTGTAAAATTA-CAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* *** *
58675976 TACCCCTGATTTGTGAAATTATCGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* * ** *
58676003 TACTCTCGATTTTTAAAA-TATCGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
58676029 TACCC
1 TACCC
58676034 CTGTAGGGTA
Statistics
Matches: 135, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
26 38 0.28
27 96 0.71
28 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCGAAA
Found at i:58675901 original size:81 final size:80
Alignment explanation
Indices: 58675707--58675919 Score: 264
Period size: 81 Copynumber: 2.6 Consensus size: 80
58675697 ATTACCAAAG
* *
58675707 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACTCTCGATT
1 TACCCTCGATTTACAGAATTA-CGATTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
58675772 TATAGAATTACCATTT
65 TATAGAATTACCATTT
* * * * *
58675788 TACCCTCGATTTATAGAATTACCATTTCACCCTCGATTTACAGAATTATCGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACGATTT-ACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
58675853 TATAGAATTACCGTTT
65 TATAGAATTACCATTT
* * ** * * *
58675869 TACCCTTGATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAGAATTAC-GATTTACCCTCGATTTACAGAATTACCA
58675920 AAATACCCTC
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 4 0.04
81 105 0.95
82 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (80 bp):
TACCCTCGATTTACAGAATTACGATTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTT
ATAGAATTACCATTT
Found at i:58675981 original size:26 final size:27
Alignment explanation
Indices: 58675869--58676063 Score: 121
Period size: 27 Copynumber: 7.3 Consensus size: 27
58675859 ATTACCGTTT
* ** **
58675869 TACCCTTGATTTACAAAATTACTGAAA
1 TACCCCTGATTTGTAAAATTACCAAAA
* * **
58675896 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCCTGATTTGTAAAATTACCAAAA
**
58675923 TA-CCCTCGATCAGTAAAATTACCAAAA
1 TACCCCT-GATTTGTAAAATTACCAAAA
*
58675950 TACCCCTGGTTTGTAAAATTA-CAAAA
1 TACCCCTGATTTGTAAAATTACCAAAA
* * *
58675976 TACCCCTGATTTGTGAAATTATCGAAA
1 TACCCCTGATTTGTAAAATTACCAAAA
* * * *
58676003 TA-CTCTCGATTTTTAAAA-TATCGAAA
1 TACCCCT-GATTTGTAAAATTACCAAAA
** * *
58676029 TACCCCTG-TAGGGTAGAATTACCGAAA
1 TACCCCTGAT-TTGTAAAATTACCAAAA
58676056 TACCCCTG
1 TACCCCTG
58676064 TAGGGTAGAA
Statistics
Matches: 137, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 45 0.33
27 87 0.64
28 4 0.03
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (27 bp):
TACCCCTGATTTGTAAAATTACCAAAA
Found at i:58676062 original size:27 final size:27
Alignment explanation
Indices: 58676024--58676182 Score: 227
Period size: 27 Copynumber: 6.0 Consensus size: 27
58676014 TTTAAAATAT
58676024 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
58676051 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
58676078 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** *
58676105 CG-AATACCGTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
58676131 CGAAACACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
58676158 CGAGATA-CCCT-T-GGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
58676182 C
1 C
58676183 ATTTTTCCCC
Statistics
Matches: 119, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
24 12 0.10
25 1 0.01
26 27 0.23
27 79 0.66
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:58676076 original size:80 final size:79
Alignment explanation
Indices: 58676018--58676167 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 79
58676008 TCGATTTTTA
* * *
58676018 AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AAATACCG-AATACCCCTGTAGGGTAGAAATACCGAAACACCCCTGTAGGGTAGAATTAC-GAAA
58676083 TACCCCTGTAGGGTAG
64 TACCCCTGTAGGGTAG
* ** *
58676099 AATTACCGAATACCGTTGTAGGGTAGAAATACCGAAACACCCCTGTAGGGTAGAATTACCGAGAT
1 AAATACCGAATACCCCTGTAGGGTAGAAATACCGAAACACCCCTGTAGGGTAGAATTA-CGAAAT
58676164 ACCC
65 ACCC
58676168 TTGGGTAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 54 0.89
81 7 0.11
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (79 bp):
AAATACCGAATACCCCTGTAGGGTAGAAATACCGAAACACCCCTGTAGGGTAGAATTACGAAATA
CCCCTGTAGGGTAG
Found at i:58676141 original size:53 final size:53
Alignment explanation
Indices: 58676018--58676167 Score: 228
Period size: 53 Copynumber: 2.8 Consensus size: 53
58676008 TCGATTTTTA
*
58676018 AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCG-AATACCCCTGTAGGGTAG
* * **
58676072 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAATACCGTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAATACCCCTGTAGGGTAG
*
58676125 AAATACCGAAACACCCCTGTAGGGTAGAATTACCGAGATACCC
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGA-ATACCC
58676168 TTGGGTAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 49 0.57
54 37 0.43
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (53 bp):
AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAATACCCCTGTAGGGTAG
Found at i:58676463 original size:25 final size:25
Alignment explanation
Indices: 58676387--58676456 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
58676377 AGGAAGTGCT
* *
58676387 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
58676412 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
58676437 AAAAGGGCTTTTCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
58676457 ATTCAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:58676469 original size:24 final size:24
Alignment explanation
Indices: 58676388--58676469 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
58676378 GGAAGTGCTA
*
58676388 AAAG-GGCTTTGCCCCAGTTTACC
1 AAAGAGGCTTTGCCCCAGTTTATC
58676411 GAAA-AGGGCTTTGCCCCAGTTTATC
1 -AAAGA-GGCTTTGCCCCAGTTTATC
* *
58676436 AAAAAGGGCTTTTCCCCAG-TTATTC
1 AAAGA-GGCTTTGCCCCAGTTTA-TC
58676461 AAAGAGGCT
1 AAAGAGGCT
58676470 AGGCTTCTAG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 13 0.25
25 38 0.75
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAGAGGCTTTGCCCCAGTTTATC
Found at i:58676712 original size:31 final size:31
Alignment explanation
Indices: 58676677--58676822 Score: 231
Period size: 31 Copynumber: 4.7 Consensus size: 31
58676667 CGTTTATAGT
58676677 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
58676708 AAAGGTTTTGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
58676739 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
58676770 AAAGGCTTCGGGCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
58676801 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
58676823 TCAAGACTAA
Statistics
Matches: 104, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 5 0.05
31 99 0.95
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:58678814 original size:32 final size:32
Alignment explanation
Indices: 58678778--58678845 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
58678768 GAATGAGGGC
*
58678778 ACATTGGTTAGGCATTTAGGTTGAATCTTTTA
1 ACATTAGTTAGGCATTTAGGTTGAATCTTTTA
58678810 ACATTAGTTAGGCATTTAGGTTGAATCTTTTA
1 ACATTAGTTAGGCATTTAGGTTGAATCTTTTA
58678842 ACAT
1 ACAT
58678846 GTTTTGGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (32 bp):
ACATTAGTTAGGCATTTAGGTTGAATCTTTTA
Found at i:58682204 original size:21 final size:21
Alignment explanation
Indices: 58682178--58682222 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
58682168 ATTTGTCGAG
*
58682178 GTAAGTTCTTGTAACTAAATT
1 GTAAGTTCGTGTAACTAAATT
58682199 GTAAGTTCGTGTAACTAAATT
1 GTAAGTTCGTGTAACTAAATT
58682220 GTA
1 GTA
58682223 TATGTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (21 bp):
GTAAGTTCGTGTAACTAAATT
Found at i:58682356 original size:17 final size:19
Alignment explanation
Indices: 58682310--58682356 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
58682300 CGTTAAAGCT
58682310 CGAT-AAATGA-AAGTGCC
1 CGATCAAATGATAAGTGCC
*
58682327 CGATC-AATTATAA-TGCC
1 CGATCAAATGATAAGTGCC
58682344 CGA-CAAATGATAA
1 CGATCAAATGATAA
58682357 ATGATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.04
17 22 0.88
18 2 0.08
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (19 bp):
CGATCAAATGATAAGTGCC
Found at i:58684020 original size:15 final size:17
Alignment explanation
Indices: 58684002--58684033 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
58683992 AGCATAATTT
58684002 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
58684017 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
58684034 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:58691387 original size:24 final size:24
Alignment explanation
Indices: 58691360--58691446 Score: 174
Period size: 24 Copynumber: 3.6 Consensus size: 24
58691350 CTTATTATGT
58691360 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
58691384 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
58691408 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
58691432 TCGCACACATAGTGC
1 TCGCACACATAGTGC
58691447 ATTTGAGATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:58693757 original size:26 final size:26
Alignment explanation
Indices: 58693673--58693808 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
58693663 CTGGAGGCCT
*
58693673 AGCCTCTTTT-AAT-AACTGGGGC-CA
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
58693697 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
58693722 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
58693748 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
58693774 AGCCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
58693800 AGCCCTTTT
1 AGCCCTTTT
58693809 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 32 0.32
26 57 0.58
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:58693798 original size:52 final size:51
Alignment explanation
Indices: 58693673--58693808 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
58693663 CTGGAGGCCT
*
58693673 AGCCTCTTTT-AAT-AACTGGGGC-CAAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
58693722 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
*
58693774 AGCCCTTTTCAATAAATTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
58693809 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 9 0.11
51 25 0.31
52 35 0.43
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:58701178 original size:6 final size:6
Alignment explanation
Indices: 58701146--58701332 Score: 145
Period size: 6 Copynumber: 30.8 Consensus size: 6
58701136 AACCAAAATG
* * *
58701146 AGAATC AGAATT AGAATT AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
58701194 AGTAA-C AGAATC AGAATC AGAATC AGAATT AGGTGAT- AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * * *
58701243 AGAATC AGTAA-C AGAATC AGAATT AGAATC TGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
58701291 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
58701333 GTGAATGCAA
Statistics
Matches: 146, Mismatches: 19, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
5 12 0.08
6 120 0.82
7 10 0.07
8 4 0.03
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:58701180 original size:30 final size:30
Alignment explanation
Indices: 58701146--58701332 Score: 244
Period size: 30 Copynumber: 6.4 Consensus size: 30
58701136 AACCAAAATG
*
58701146 AGAATCAGAATTAGAATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
58701176 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
58701206 AGAATCAGAATCAGAATTAGGT----G-AT-
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
58701231 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* * *
58701261 AGAATTAGAATCTGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
58701291 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
58701322 AGAATCAGAAT
1 AGAATCAGAAT
58701333 GTGAATGCAA
Statistics
Matches: 137, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.01
25 18 0.13
26 2 0.01
27 1 0.01
28 1 0.01
29 3 0.02
30 86 0.63
31 24 0.18
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:58701247 original size:85 final size:85
Alignment explanation
Indices: 58701146--58701332 Score: 311
Period size: 85 Copynumber: 2.2 Consensus size: 85
58701136 AACCAAAATG
* *
58701146 AGAATCAGAATTAGAATTAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
* *
58701211 CAGAATCAGAATTAGGTGAT
66 CAGAATCAGAATTACGTGAC
* **
58701231 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATTAGAATCTGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
58701296 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
58701316 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
58701333 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 95 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:58701507 original size:27 final size:26
Alignment explanation
Indices: 58701451--58701523 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
58701441 GCATGGCTGC
* * ** *
58701451 CAGAACAGATATCGTGACAGAGTTAC
1 CAGAACAGATATTGTGGCAGAGCCAA
58701477 CAGATACAGATATTGTGGCAGAGCCAA
1 CAGA-ACAGATATTGTGGCAGAGCCAA
*
58701504 CAGAATCAGATAATGTGGCA
1 CAGAA-CAGATATTGTGGCA
58701524 AACCCACCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
26 5 0.13
27 34 0.87
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGAACAGATATTGTGGCAGAGCCAA
Found at i:58701736 original size:22 final size:22
Alignment explanation
Indices: 58701688--58701746 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
58701678 GTAAATACTT
*
58701688 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
58701710 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
58701732 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
58701747 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:58701913 original size:27 final size:26
Alignment explanation
Indices: 58701834--58701916 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
58701824 TCGATCGATC
* * *
58701834 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
58701860 ATACAGATATTGTGGTAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
58701887 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
58701914 AAC
1 AAC
58701917 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:58702136 original size:27 final size:27
Alignment explanation
Indices: 58702106--58702293 Score: 204
Period size: 27 Copynumber: 7.0 Consensus size: 27
58702096 AACACCCTAG
*
58702106 GGGTAAAATGGTAATTTTAAAAATCGA
1 GGGTAAAACGGTAATTTTAAAAATCGA
*
58702133 GGGTAAAACGGTAATTCTGT-AAACT-GA
1 GGGTAAAACGGTAATT-T-TAAAAATCGA
*
58702160 GGGTAAAACGGTAATTCTGT-AAACT-GA
1 GGGTAAAACGGTAATT-T-TAAAAATCGA
* ** *
58702187 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACGGTAATTTTAAAAATCGA
58702214 GGGTAAAACGGTAATTTTAAAAATCGA
1 GGGTAAAACGGTAATTTTAAAAATCGA
** *
58702241 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTTTAAAAATCGA
* *
58702268 GGGTAAAACGGTAATTCTATAAATCG
1 GGGTAAAACGGTAATTTTAAAAATCG
58702294 GGAGTACTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
25 1 0.01
26 3 0.02
27 132 0.93
28 5 0.04
29 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTAAAAATCGA
Found at i:58702165 original size:54 final size:53
Alignment explanation
Indices: 58702106--58702293 Score: 263
Period size: 54 Copynumber: 3.5 Consensus size: 53
58702096 AACACCCTAG
*
58702106 GGGTAAAATGGTAATTTTAAAAATCGAGGGTAAAACGGTAATTCTGTAAACTGA
1 GGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGGTAATTCTGTAAA-TGA
*
58702160 GGGTAAAACGGTAATTCTGT-AAACT-GAGGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACGGTAATT-T-TAAAAATCGAGGGTAAAACGGTAATTCTGTAAA-TGA
* *
58702214 GGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGGTAATTCTGTAAAT-GA
* *
58702268 GGGTAAAACGGTAATTCTATAAATCG
1 GGGTAAAACGGTAATTTTAAAAATCG
58702294 GGAGTACTTT
Statistics
Matches: 121, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
52 1 0.01
53 6 0.05
54 108 0.89
55 5 0.04
56 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (53 bp):
GGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGGTAATTCTGTAAATGA
Found at i:58702324 original size:81 final size:81
Alignment explanation
Indices: 58702106--58702293 Score: 256
Period size: 81 Copynumber: 2.3 Consensus size: 81
58702096 AACACCCTAG
* * * *
58702106 GGGTAAAATGGTAATTTTAAAAATCGAGGGTAAAACGGTAATTCTGT-AAACT-GAGGGTAAAAC
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATT-T-TAAAAATCGAGGGTAAAAC
*
58702169 GGTAATTCTGTAAACTGA
64 GGTAATTCTGTAAACTAA
* *
58702187 GGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGG
*
58702252 TAATTTTGTAAA-TCAA
66 TAATTCTGTAAACT-AA
58702268 GGGTAAAACGGTAATTCTATAAATCG
1 GGGTAAAACGGTAATTCTATAAATCG
58702294 GGAGTACTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
79 1 0.01
80 6 0.06
81 87 0.93
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAAAAATCGAGGGTAAAACGG
TAATTCTGTAAACTAA
Found at i:58706187 original size:27 final size:27
Alignment explanation
Indices: 58706149--58706308 Score: 200
Period size: 27 Copynumber: 6.0 Consensus size: 27
58706139 GTTAAGACCT
*
58706149 CAGTTTGTAAAATTACTGAAATACCCC
1 CAGTTTGTAAAATTACTAAAATACCCC
*
58706176 CAGTTTGTAAAATTA-TCGAAATACCCC
1 CAGTTTGTAAAATTACT-AAAATACCCC
*
58706203 CAGTTTGTAAAATTACTAAAATATCCC
1 CAGTTTGTAAAATTACTAAAATACCCC
*
58706230 CAGTTTGTAAAATTACCAAAATA-CCC
1 CAGTTTGTAAAATTACTAAAATACCCC
* * * *
58706256 TAGTTTGTAAAATTTCTGAAATACCCT
1 CAGTTTGTAAAATTACTAAAATACCCC
*
58706283 C-GATTTGTGAAATTACTAAAATACCC
1 CAG-TTTGTAAAATTACTAAAATACCC
58706309 ATGTAGTGTA
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
26 24 0.21
27 92 0.79
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
CAGTTTGTAAAATTACTAAAATACCCC
Found at i:58706231 original size:54 final size:53
Alignment explanation
Indices: 58706149--58706308 Score: 214
Period size: 53 Copynumber: 3.0 Consensus size: 53
58706139 GTTAAGACCT
* *
58706149 CAGTTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAATTATCGAAATACCCC
1 CAGTTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAATTACCAAAATA-CCC
* *
58706203 CAGTTTGTAAAATTACTAAAATATCCCCAGTTTGTAAAATTACCAAAATACCC
1 CAGTTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAATTACCAAAATACCC
* * * * *
58706256 TAGTTTGTAAAATTTCTGAAATACCCTC-GATTTGTGAAATTACTAAAATACCC
1 CAGTTTGTAAAATTACTGAAATACCCCCAG-TTTGTAAAATTACCAAAATACCC
58706309 ATGTAGTGTA
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
52 1 0.01
53 47 0.50
54 46 0.49
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (53 bp):
CAGTTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAATTACCAAAATACCC
Found at i:58706319 original size:80 final size:80
Alignment explanation
Indices: 58706149--58706322 Score: 212
Period size: 80 Copynumber: 2.2 Consensus size: 80
58706139 GTTAAGACCT
* **
58706149 CAGTTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAATTATCGAAATACCCCCAGTTTGTAAA
1 CAGTGTGTAAAATTACCAAAATACCCCCAGTTTGTAAAATTATCGAAATACCCCCAGTTTGTAAA
58706214 ATTACTAAAATATCCC
66 ATTACTAAAATA-CCC
* * * *
58706230 CAGTTTGTAAAATTACCAAAATA-CCCTAGTTTGTAAAATT-TCTGAAATACCCTC-GATTTGTG
1 CAGTGTGTAAAATTACCAAAATACCCCCAGTTTGTAAAATTATC-GAAATACCCCCAG-TTTGTA
58706292 AAATTACTAAAATA-CC
64 AAATTACTAAAATACCC
58706308 CATGTAGTGTAAAAT
1 CA-GT-GTGTAAAAT
58706323 GACCGTAATG
Statistics
Matches: 83, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
78 4 0.05
79 5 0.06
80 53 0.64
81 21 0.25
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (80 bp):
CAGTGTGTAAAATTACCAAAATACCCCCAGTTTGTAAAATTATCGAAATACCCCCAGTTTGTAAA
ATTACTAAAATACCC
Found at i:58706346 original size:27 final size:27
Alignment explanation
Indices: 58706316--58706377 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
58706306 CCCATGTAGT
* *
58706316 GTAAAATGACCGTAATGCCCCTATAAG
1 GTAAAATGACCGTAATACCCCCATAAG
*
58706343 GTAAAATGACCGTAATACCCCCATATG
1 GTAAAATGACCGTAATACCCCCATAAG
*
58706370 GTAGAATG
1 GTAAAATG
58706378 GCGATTATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCCATAAG
Found at i:58709968 original size:39 final size:40
Alignment explanation
Indices: 58709860--58710044 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
58709850 TCGAATGATG
* * *
58709860 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTCAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
58709899 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
58709940 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
58709979 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
58710018 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
58710045 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:58710066 original size:79 final size:79
Alignment explanation
Indices: 58709915--58710067 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 79
58709905 ACTAAGATCT
* **
58709915 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
58709980 CCGGGTTAAGTCCC
66 CCGGGTTAAGTCCC
* *
58709994 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
*
58710057 TATCC-GGTTAA
63 AATCCGGGTTAA
58710068 ATTCCAAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAGTCCC
Found at i:58714302 original size:40 final size:40
Alignment explanation
Indices: 58714247--58714436 Score: 326
Period size: 40 Copynumber: 4.8 Consensus size: 40
58714237 GAATTGAGAA
58714247 TGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
* *
58714287 TGATGTATCCGGACTAAGTTTCGAGGAGCATTCGTGCTAG
1 TGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
*
58714327 TGATGTATCCGGACTAAGTTCTGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
58714367 TGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
* * *
58714407 TGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 TGATGTATCCGGACTAAGTTCCGAAGAGCA
58714437 ATCATGCTGG
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.27
Consensus pattern (40 bp):
TGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAG
Found at i:58715273 original size:40 final size:40
Alignment explanation
Indices: 58715183--58715319 Score: 154
Period size: 40 Copynumber: 3.4 Consensus size: 40
58715173 AATGGTATCT
* * * *
58715183 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCC
1 GGGCTAATTCCCGAAGGCATTTGTGC-GAGTCACTAAATCC
*
58715224 GGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCT-AATTCCCGAAGGCATTTGTGCGAGTCACTAAATCC
* *
58715264 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CC
1 GGGCTAATTCCCGAAGGCATTTGTGCGAGTCACTA-AATCC
58715304 GGGCT-ATGTCCCGAAG
1 GGGCTAAT-TCCCGAAG
58715320 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.02
40 58 0.68
41 25 0.29
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCATTTGTGCGAGTCACTAAATCC
Found at i:58715340 original size:40 final size:40
Alignment explanation
Indices: 58715262--58715345 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
58715252 GTTACTAAAT
* * *
58715262 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
58715302 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
58715342 CCGG
1 CCGG
58715346 TTGAATCCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:58718238 original size:49 final size:49
Alignment explanation
Indices: 58718169--58718419 Score: 475
Period size: 49 Copynumber: 5.1 Consensus size: 49
58718159 GTACATAATA
*
58718169 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
*
58718218 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
58718267 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
58718316 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
*
58718365 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
58718414 ATATAT
1 ATATAT
58718420 ATGTGGTAAA
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 200 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
Found at i:58722403 original size:26 final size:26
Alignment explanation
Indices: 58722354--58722405 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
58722344 TACGTTACTG
**
58722354 TTACTGGCAGCTTTGCTGTGATATTA
1 TTACTGGCAGCTTTGCTGCAATATTA
58722380 TTACTGGCAGCTTTGCTGCAATATTA
1 TTACTGGCAGCTTTGCTGCAATATTA
58722406 GTGTGTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCAATATTA
Found at i:58728591 original size:19 final size:20
Alignment explanation
Indices: 58728567--58728604 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58728557 GGTACCACCA
58728567 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
58728586 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
58728605 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:58729001 original size:46 final size:46
Alignment explanation
Indices: 58728829--58729001 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
58728819 AACCCGCCCC
* * *
58728829 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
58728875 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
58728923 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
58728968 TAAGTGAACTCGGACTCAACTCAACGAGATCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58729002 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 6 0.06
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:58733461 original size:31 final size:31
Alignment explanation
Indices: 58733423--58733486 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
58733413 CCTTTTCATA
58733423 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
58733454 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
58733485 TT
1 TT
58733487 ATTGTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:58733729 original size:24 final size:24
Alignment explanation
Indices: 58733678--58733820 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
58733668 GCTTTATCAT
*
58733678 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
58733703 ATAACTGGGGCA-ATAGCCCTTTCA
1 ATAACTGGGGCATA-AGCCCTTTTA
58733727 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
58733750 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
58733774 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
58733798 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
58733821 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 23 0.21
24 75 0.68
25 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:58733757 original size:47 final size:48
Alignment explanation
Indices: 58733678--58733819 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 48
58733668 GCTTTATCAT
*
58733678 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-ATAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATA-AGCCCTTTCA
**
58733727 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
58733774 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
58733820 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
47 43 0.49
48 32 0.37
49 12 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:58733778 original size:71 final size:72
Alignment explanation
Indices: 58733677--58733820 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 72
58733667 TGCTTTATCA
*
58733677 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCA-ATAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATA-AGCCCTTTCAATAACTGGGGCATA
58733741 AGCCCTTT
65 AGCCCTTT
* **
58733749 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
58733812 AGCCCTTT
65 AGCCCTTT
58733820 T
1 T
58733821 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
71 52 0.79
72 14 0.21
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:58733896 original size:20 final size:20
Alignment explanation
Indices: 58733871--58733930 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
58733861 TATGATTACC
58733871 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
58733891 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
58733911 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
58733931 CCTTATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:58733901 original size:11 final size:11
Alignment explanation
Indices: 58733871--58733925 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
58733861 TATGATTACC
58733871 TCATGTGCATA
1 TCATGTGCATA
*
58733882 TCA--TACATA
1 TCATGTGCATA
58733891 TCATGTGCATA
1 TCATGTGCATA
* *
58733902 TCA--TACATT
1 TCATGTGCATA
58733911 TCATGTGCATA
1 TCATGTGCATA
58733922 TCAT
1 TCAT
58733926 ACATACCTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:58737197 original size:27 final size:28
Alignment explanation
Indices: 58737167--58737235 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
58737157 TAGTGAGTCT
58737167 GCACACTTAGTGCTATAAAATC-AACTC
1 GCACACTTAGTGCTATAAAATCAAACTC
* *
58737194 GCACACCTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATAAAATCAAACTC
58737222 GCACACTTAGTGCT
1 GCACACTTAGTGCT
58737236 GTACAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
GCACACTTAGTGCTATAAAATCAAACTC
Found at i:58738122 original size:7 final size:7
Alignment explanation
Indices: 58738112--58738136 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58738102 TCATCACCAC
58738112 AACATCA
1 AACATCA
58738119 AACATCA
1 AACATCA
58738126 AACATCA
1 AACATCA
58738133 AACA
1 AACA
58738137 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:58740731 original size:40 final size:40
Alignment explanation
Indices: 58740687--58740879 Score: 207
Period size: 40 Copynumber: 4.8 Consensus size: 40
58740677 GGATATAGCT
* * *
58740687 ACTCGTTCAAACGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
58740727 ACTCGCGT-AAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGC-TCAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
58740767 ACTCGCAT-AAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGC-TCAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
58740807 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCTCAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
58740847 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCTCAAATGCCTTCGGGACTTAGCCCGGA
58740880 CATCATTCGA
Statistics
Matches: 135, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
39 3 0.02
40 118 0.87
41 14 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:58741507 original size:38 final size:38
Alignment explanation
Indices: 58741456--58741549 Score: 188
Period size: 38 Copynumber: 2.5 Consensus size: 38
58741446 TGCTTACCTA
58741456 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
58741494 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
58741532 TGGCCGAACATACACATC
1 TGGCCGAACATACACATC
58741550 TATGCTAAGG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.27
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:58745152 original size:19 final size:20
Alignment explanation
Indices: 58745128--58745165 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58745118 GGTACCACCA
58745128 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
58745147 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
58745166 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:58745458 original size:45 final size:45
Alignment explanation
Indices: 58745394--58745560 Score: 182
Period size: 45 Copynumber: 3.7 Consensus size: 45
58745384 CGCCCCTAAG
*
58745394 TGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCACATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTT-ACATCCATAAA
*
58745439 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTACATCCATAAA
* * * *
58745486 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTACATCCATAAA
58745532 TGAACTC-GACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
58745561 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 51 0.49
46 6 0.06
47 30 0.29
48 1 0.01
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTACATCCATAAA
Found at i:58745509 original size:92 final size:92
Alignment explanation
Indices: 58745395--58745563 Score: 277
Period size: 92 Copynumber: 1.8 Consensus size: 92
58745385 GCCCCTAAGT
*
58745395 GAACTCGGACTCAACTCAACGAGCTCGG-CGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTC-GACTCAACTCAA
58745459 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** *
58745487 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGACTCAACTCAAC
58745552 GAGTTCGGATGC
66 GAGTTCGGATGC
58745564 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 52 0.73
93 19 0.27
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:58749989 original size:21 final size:21
Alignment explanation
Indices: 58749947--58749995 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
58749937 TTCAGTACTT
*
58749947 TTATTTTATTTTTCTTTATTA
1 TTATTTTATTTTACTTTATTA
*
58749968 TTATTTTAATTTTAGTTT-TTA
1 TTATTTT-ATTTTACTTTATTA
*
58749989 TAATTTT
1 TTATTTT
58749996 TATTGAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTATTTTATTTTACTTTATTA
Found at i:58761890 original size:40 final size:40
Alignment explanation
Indices: 58761800--58761912 Score: 129
Period size: 40 Copynumber: 2.9 Consensus size: 40
58761790 TATCACGATT
* * ** *
58761800 GCACAAATGCCTTCGGGTCTTAG-CCGGATAGAATGACTC
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *
58761839 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
58761879 GCACCATTGCCTTCGGGTCTTAACCCGGTTATAA
1 GCACCAATGCCTTCGGGTCTTAGCCCGGATATAA
58761913 TTTCCAGCAT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 22 0.35
40 40 0.65
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACCAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:58766668 original size:39 final size:39
Alignment explanation
Indices: 58766614--58766717 Score: 127
Period size: 39 Copynumber: 2.6 Consensus size: 39
58766604 GAGTTGTGAC
58766614 AGCCCGAAGGCAATTGTGCGAGTTATGATATCCGAGCTA
1 AGCCCGAAGGCAATTGTGCGAGTTATGATATCCGAGCTA
* * * * *
58766653 AGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTA
1 AGCCCGAAGGCAATTGTGCGAGTTATGATATCCGAGCTA
** *
58766692 AGTCCCGAAGGCCTTTGTGCGGGTTA
1 AG-CCCGAAGGCAATTGTGCGAGTTA
58766718 CCATAACCGG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
39 36 0.68
40 17 0.32
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (39 bp):
AGCCCGAAGGCAATTGTGCGAGTTATGATATCCGAGCTA
Found at i:58772837 original size:30 final size:30
Alignment explanation
Indices: 58772803--58772863 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
58772793 TTCCCGAGCC
58772803 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
58772833 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
58772863 T
1 T
58772864 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:58780057 original size:49 final size:48
Alignment explanation
Indices: 58779985--58780178 Score: 201
Period size: 51 Copynumber: 3.9 Consensus size: 48
58779975 GCCGAAGCTA
*
58779985 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAGCAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCA-CAG
* * *
58780034 TCTGGTACACGTAGTAGCCTGCACTTAGTACTGCACATGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CA-CAG
** * * * * *
58780084 TCTAATACACGTAATAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG
* *
58780132 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
58780179 TCACAATAGA
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 2 0.02
49 38 0.32
50 38 0.32
51 39 0.33
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG
Found at i:58780172 original size:101 final size:99
Alignment explanation
Indices: 58779999--58780182 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 99
58779989 GTACGCATAG
* * *
58779999 TAGCCTGCACTTAGTACTACACATGCGACCAGCAGTCTGGTACACGTAGTAGCCTGCACTTAGTA
1 TAGCCTGCACTTAGTACTACACACGCGACCAGCAGTCGGGTACACATAGTAGCCTGCACTTAGTA
* *
58780064 CTGCACATGTGACCTCACCATCTAATACACGTAA
66 CTACACATGCGACCTCACCATCTAATACACGTAA
* * *
58780098 TAGCCTGCACTTAGTACTACACACGTGATCA-CAGTTTTCGGGTACGCATAGTAGCCTGCACTTA
1 TAGCCTGCACTTAGTACTACACACGCGACCAGCAG---TCGGGTACACATAGTAGCCTGCACTTA
58780162 GTACTACACATGCGACCTCAC
63 GTACTACACATGCGACCTCAC
58780183 AATAGATCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
98 3 0.04
99 28 0.38
101 43 0.58
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGCCTGCACTTAGTACTACACACGCGACCAGCAGTCGGGTACACATAGTAGCCTGCACTTAGTA
CTACACATGCGACCTCACCATCTAATACACGTAA
Found at i:58784321 original size:32 final size:32
Alignment explanation
Indices: 58784259--58784322 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
58784249 CACAAAGAAA
* ***
58784259 GAAGAAAATAAATGAACACTCTAGTTGTGTTT
1 GAAGAAAATAAATGAACACTCCACCCGTGTTT
58784291 GAAGAAAATAAATGAACACTCCACCCGTGTTT
1 GAAGAAAATAAATGAACACTCCACCCGTGTTT
58784323 CGCTATAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (32 bp):
GAAGAAAATAAATGAACACTCCACCCGTGTTT
Found at i:58784619 original size:14 final size:14
Alignment explanation
Indices: 58784600--58784628 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
58784590 ACAACTAGCC
58784600 TCTTTTTTCCTTTT
1 TCTTTTTTCCTTTT
58784614 TCTTTTTTCCTTTT
1 TCTTTTTTCCTTTT
58784628 T
1 T
58784629 GTATGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTTTCCTTTT
Found at i:58787376 original size:16 final size:16
Alignment explanation
Indices: 58787338--58787369 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58787328 TCGGTAAATC
58787338 CTGAAATACCGAAAAG
1 CTGAAATACCGAAAAG
*
58787354 CTGAAATACTGAAAAG
1 CTGAAATACCGAAAAG
58787370 TCGAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.16, G:0.19, T:0.16
Consensus pattern (16 bp):
CTGAAATACCGAAAAG
Found at i:58787667 original size:28 final size:29
Alignment explanation
Indices: 58787595--58787674 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
58787585 CTATGTATTT
* *
58787595 GATTTGGGCCTAATGGGCCATACGAATGT
1 GATTTGGGCCTAATGGGCCATATGAATGA
*
58787624 GATTTGGGCCCAATGGGCCATATGAATGA
1 GATTTGGGCCTAATGGGCCATATGAATGA
58787653 GA-TTGGGCCTAATGGGCCATAT
1 GATTTGGGCCTAATGGGCCATAT
58787675 ACATGTATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 19 0.40
29 28 0.60
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
GATTTGGGCCTAATGGGCCATATGAATGA
Found at i:58788822 original size:17 final size:18
Alignment explanation
Indices: 58788789--58788822 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58788779 TTTAAGGAAG
58788789 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
58788807 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
58788823 CTTCAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:58798102 original size:38 final size:38
Alignment explanation
Indices: 58798051--58798211 Score: 207
Period size: 38 Copynumber: 4.2 Consensus size: 38
58798041 GCAGACTATA
*
58798051 TGCTGG-AATTATATCCGGGTTAAATCCCGTAGGCTTCG
1 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
58798089 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
58798127 TGCTGGTATTATATCCGGGTTAAATCCCACAGGCCTAG
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
58798165 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGTAATATATCCG-GGTTAAA-TCCCGCAGGCTTCG
58798205 TGCTGGT
1 TGCTGGT
58798212 GTTATGTTTG
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 84 0.77
39 8 0.07
40 17 0.16
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:58798150 original size:76 final size:78
Alignment explanation
Indices: 58798051--58798216 Score: 228
Period size: 76 Copynumber: 2.2 Consensus size: 78
58798041 GCAGACTATA
* ** * *
58798051 TGCTGGAATTATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATATATCCG-GGTTAAA-T
1 TGCTGGTATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAATATATCCGAGGTTAAAGT
58798114 CCCGCAGGCTTCG
66 CCCGCAGGCTTCG
* * *
58798127 TGCTGGTATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTATTATATCTGAGTTTAAAGT
1 TGCTGGTATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAATATATCCGAGGTTAAAGT
*
58798192 CCCGTAGGCTTCG
66 CCCGCAGGCTTCG
*
58798205 TGCTGGTGTTAT
1 TGCTGGTATTAT
58798217 GTTTGGGTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
76 48 0.62
77 6 0.08
78 24 0.31
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (78 bp):
TGCTGGTATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAATATATCCGAGGTTAAAGT
CCCGCAGGCTTCG
Found at i:58799722 original size:40 final size:40
Alignment explanation
Indices: 58799614--58799783 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
58799604 CGGGATTTAA
* * * * *
58799614 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58799654 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58799694 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58799734 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58799774 CCGGATATAT
1 CCGGATATAT
58799784 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58807818 original size:40 final size:40
Alignment explanation
Indices: 58807710--58807879 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
58807700 CGGGATTTAA
* * * * *
58807710 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58807750 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58807790 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58807830 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58807870 CCGGATATAT
1 CCGGATATAT
58807880 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58817078 original size:28 final size:28
Alignment explanation
Indices: 58817026--58817080 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
58817016 ATTTTCCTTC
*
58817026 GCACACTTAGTGCTCGATAATCAAACTT
1 GCACACTTAGTGCTCGATAACCAAACTT
*
58817054 GCACACTTGGTGCTC-ATTAACCAAACT
1 GCACACTTAGTGCTCGA-TAACCAAACT
58817081 CGCATGCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCTCGATAACCAAACTT
Found at i:58821584 original size:42 final size:43
Alignment explanation
Indices: 58821507--58821645 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 43
58821497 TCCCAGACGT
* * * * *
58821507 GGTCTTACATGTAATTCAGTATCGATGCCTTTGTCCTAGACAG
1 GGTCTTACACGTAAGTCAGTATCGATGCCTATGTCCCAAACAG
*
58821550 GGTCTTACACG-AAGTCAGATAT-GATGCCTATGTCCCAAACAT
1 GGTCTTACACGTAAGTCAG-TATCGATGCCTATGTCCCAAACAG
* * * * * *
58821592 GGTCTTACACATAAATCTCA-AATCGAGGCCTGTGTCCCAAACAC
1 GGTCTTACACGT-AA-GTCAGTATCGATGCCTATGTCCCAAACAG
*
58821636 GGTTTTACAC
1 GGTCTTACAC
58821646 AATATCTCAG
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 32 0.41
43 15 0.19
44 28 0.36
45 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (43 bp):
GGTCTTACACGTAAGTCAGTATCGATGCCTATGTCCCAAACAG
Found at i:58825920 original size:18 final size:18
Alignment explanation
Indices: 58825897--58825943 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
58825887 GGACTTGCAT
58825897 ACTGTTTACTGTTACCGC
1 ACTGTTTACTGTTACCGC
* **
58825915 ACTGTTTACTATTATTGC
1 ACTGTTTACTGTTACCGC
*
58825933 ACTATTTACTG
1 ACTGTTTACTG
58825944 CTACTGTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (18 bp):
ACTGTTTACTGTTACCGC
Found at i:58828984 original size:49 final size:49
Alignment explanation
Indices: 58828924--58829111 Score: 346
Period size: 49 Copynumber: 3.9 Consensus size: 49
58828914 GTATGAGATA
58828924 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
58828973 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
58829022 TATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
58829068 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
58829112 TATATGTGTG
Statistics
Matches: 136, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
46 28 0.21
47 17 0.12
48 17 0.12
49 74 0.54
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:58829092 original size:95 final size:97
Alignment explanation
Indices: 58828922--58829111 Score: 357
Period size: 95 Copynumber: 2.0 Consensus size: 97
58828912 ATGTATGAGA
58828922 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTGTATATATGTGATAA
58828987 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
65 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
58829020 TATATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAA-GTGTATATATGTGATAAG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTGTATATATGTGATAAG
58829083 GCCTAATGGCCGATGTGATGAATGTGAAA
66 GCCTAATGGCCGATGTGATGAATGTGAAA
58829112 TATATGTGTG
Statistics
Matches: 92, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
95 47 0.51
97 17 0.18
98 28 0.30
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (97 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTGTATATATGTGATAAG
GCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:58829252 original size:37 final size:37
Alignment explanation
Indices: 58829198--58829288 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
58829188 AACTTGGAAA
*
58829198 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
58829236 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
58829273 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
58829289 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:58831148 original size:40 final size:40
Alignment explanation
Indices: 58831104--58831334 Score: 403
Period size: 40 Copynumber: 5.8 Consensus size: 40
58831094 GAGAATTGAG
*
58831104 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
58831144 AGTGATGTATCCGGACTAAGTTCCGAAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAA-GAGCATTCGTGCT
58831185 AGTGATGTATCCGGACTAAGTT-CG-AGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
58831223 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
58831263 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
58831303 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
58831335 ATCATGCTGG
Statistics
Matches: 184, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
38 35 0.19
39 3 0.02
40 111 0.60
41 35 0.19
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:58834961 original size:49 final size:49
Alignment explanation
Indices: 58834901--58835091 Score: 364
Period size: 49 Copynumber: 3.9 Consensus size: 49
58834891 GTATGAGATA
58834901 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
58834950 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
58834999 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
58835048 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
58835092 TATATGTGTG
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 139 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:58835230 original size:37 final size:37
Alignment explanation
Indices: 58835176--58835266 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
58835166 AACTTGGAAA
*
58835176 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
58835214 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
58835251 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
58835267 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:58839270 original size:38 final size:39
Alignment explanation
Indices: 58839157--58839299 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
58839147 CCGCACAAAG
*
58839157 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
58839197 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
58839236 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
58839274 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
58839300 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:58839278 original size:77 final size:79
Alignment explanation
Indices: 58839117--58839298 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
58839107 TCGTTCAAAC
* * **
58839117 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
58839182 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
58839197 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
58839260 CAATTTGCACAATT
66 CAATTTGCACAATT
58839274 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
58839299 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:58847025 original size:39 final size:39
Alignment explanation
Indices: 58846941--58847091 Score: 198
Period size: 39 Copynumber: 3.9 Consensus size: 39
58846931 TATGGTAACC
** * *
58846941 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
58846981 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
58847020 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAA-T
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
**
58847058 -TTACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
58847092 TCAACATTCA
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
37 31 0.31
38 1 0.01
39 52 0.53
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:58847083 original size:76 final size:78
Alignment explanation
Indices: 58846910--58847090 Score: 249
Period size: 79 Copynumber: 2.3 Consensus size: 78
58846900 TCGTTCAAAC
* * **
58846910 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
58846975 ACAATTTGCACAATT
65 ACAATTT-CACAATT
* ** * *
58846990 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
58847054 CAATTT-ACAATT
66 CAATTTCACAATT
58847066 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
58847091 CTCAACATTC
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
76 31 0.34
78 20 0.22
79 32 0.35
80 9 0.10
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTCACAATT
Found at i:58849602 original size:27 final size:27
Alignment explanation
Indices: 58849573--58849725 Score: 171
Period size: 27 Copynumber: 5.7 Consensus size: 27
58849563 TATCACATAG
* * * *
58849573 GGGCAAAATAGTCAATTTACCATGTAG
1 GGGCAAAACAGTCATTTTACCATATAA
*** *
58849600 GGGCATTTCAGTTATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
*
58849627 GGGCAAAACAGTCATTTTATCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* * *
58849654 AGGTAAAACAGTCATTTTACCAAATAA
1 GGGCAAAACAGTCATTTTACCATATAA
*
58849681 GGGCAAAACAGTCATGTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* *
58849708 GAGCAAAATAGTCATTTT
1 GGGCAAAACAGTCATTTT
58849726 GATCAACTAG
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCATATAA
Found at i:58869146 original size:68 final size:67
Alignment explanation
Indices: 58869074--58869223 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
58869064 CATCATGTGT
* * * *
58869074 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
58869136 ATGTAG
62 ATGTAG
** * *
58869142 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
58869207 AG
66 AG
58869209 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
58869224 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:58869179 original size:64 final size:64
Alignment explanation
Indices: 58869098--58869281 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
58869088 AGACATTATG
* *
58869098 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
58869162 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
58869227 AA
63 AA
* * * *
58869229 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
58869282 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:58870371 original size:2 final size:2
Alignment explanation
Indices: 58870364--58870398 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
58870354 TCATGACATG
58870364 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58870399 GACTAGTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58877954 original size:40 final size:40
Alignment explanation
Indices: 58877909--58878076 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58877899 CGGAATATAA
58877909 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58877949 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58877989 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
58878029 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58878069 CCGGATAT
1 CCGGATAT
58878077 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58885979 original size:40 final size:40
Alignment explanation
Indices: 58885934--58886100 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58885924 CGGAATATAA
58885934 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58885974 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58886014 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58886054 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58886093 CCGGATAT
1 CCGGATAT
58886101 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58890817 original size:40 final size:40
Alignment explanation
Indices: 58890763--58890953 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
58890753 ATAACAACTC
58890763 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* * *
58890803 GCATAAATGCCTTCGGGACTTAGCCCGGATATAGTC-GTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
*
58890842 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTA
* *
58890882 GCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
58890922 GCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
58890954 CATTCGAATA
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.25
40 98 0.73
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
Found at i:58890855 original size:79 final size:80
Alignment explanation
Indices: 58890763--58890953 Score: 289
Period size: 79 Copynumber: 2.4 Consensus size: 80
58890753 ATAACAACTC
*
58890763 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAATGCCTTCGGGA-CTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTC-GGATCTTAG
*
58890826 CCCGGATATAGTC-GTA
64 CCCGGATATAGTCACTA
* *
58890842 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGCC
58890907 CGGATATAGTCACTA
66 CGGATATAGTCACTA
* *
58890922 GCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
58890954 CATTCGAATA
Statistics
Matches: 103, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
78 4 0.04
79 67 0.65
80 32 0.31
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGCC
CGGATATAGTCACTA
Found at i:58899294 original size:39 final size:39
Alignment explanation
Indices: 58899234--58899362 Score: 222
Period size: 39 Copynumber: 3.3 Consensus size: 39
58899224 TTCGAGACAA
58899234 CCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAG
1 CCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAG
* * *
58899273 CCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAG
1 CCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAG
*
58899312 CCCGGGTATCACAATTTGCACAATTGCCTTCGGGCTTAG
1 CCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAG
58899351 CCCGGATATCAC
1 CCCGGATATCAC
58899363 TCGAACATTC
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (39 bp):
CCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAG
Found at i:58899302 original size:77 final size:77
Alignment explanation
Indices: 58899181--58899361 Score: 238
Period size: 78 Copynumber: 2.3 Consensus size: 77
58899171 TCGTTCAAAC
* * **
58899181 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGAGAC-AACCCGGATATCA
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCG-GACTAACCCGGATATCA
58899245 CAATTTGCACAATT
64 CAATTTGCACAATT
* ** * * *
58899259 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGAC-TAACCCGGATATCAC
58899324 AATTTGCACAATT
65 AATTTGCACAATT
58899337 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
58899362 CTCGAACATT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
76 2 0.02
77 30 0.33
78 59 0.65
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (77 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGACTAACCCGGATATCACA
ATTTGCACAATT
Found at i:58902271 original size:40 final size:40
Alignment explanation
Indices: 58902224--58902414 Score: 292
Period size: 40 Copynumber: 4.8 Consensus size: 40
58902214 TAACAACTCA
58902224 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
* * *
58902264 CATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
* *
58902304 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTCG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
* *
58902344 CACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
* * *
58902384 CACAAAAGCCTTTGGGACTTAGCCCGGATAT
1 CACAAATGCCTTCGGGTCTTAGCCCGGATAT
58902415 CATTCGAATA
Statistics
Matches: 134, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
Found at i:58907270 original size:28 final size:28
Alignment explanation
Indices: 58907230--58907332 Score: 93
Period size: 28 Copynumber: 3.7 Consensus size: 28
58907220 ATTGCATGAC
* * *
58907230 TATGAATGTGATTAGGCCTGACGGGTCA
1 TATGAAAGTGATTAGGCCTGATGGGCCA
58907258 TATGAAAGTGATT-GTGCCTGATGGGCCA
1 TATGAAAGTGATTAG-GCCTGATGGGCCA
* * * * *
58907286 TACGAATGTGGTTGGGCCCGATGGGCCA
1 TATGAAAGTGATTAGGCCTGATGGGCCA
*
58907314 TAT-AAATGAGATTAGGCCT
1 TATGAAA-GTGATTAGGCCT
58907333 AAAGGGGCCA
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
27 3 0.05
28 55 0.93
29 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (28 bp):
TATGAAAGTGATTAGGCCTGATGGGCCA
Found at i:58908472 original size:48 final size:48
Alignment explanation
Indices: 58908414--58908769 Score: 649
Period size: 48 Copynumber: 7.4 Consensus size: 48
58908404 ATATACACAC
* *
58908414 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
58908462 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
58908510 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58908558 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
58908606 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
58908654 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58908702 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
58908750 ATCTCATACATATTTCACAT
1 ATCTCATACATATTTCACAT
58908770 CTCATATATA
Statistics
Matches: 299, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 299 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:58908528 original size:96 final size:96
Alignment explanation
Indices: 58908414--58909297 Score: 991
Period size: 96 Copynumber: 9.0 Consensus size: 96
58908404 ATATACACAC
*
58908414 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
58908479 CACTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* *
58908510 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
58908575 CAGTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
58908606 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
58908671 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
58908702 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*** * * * * *
58908767 CATCTCATATATATTTC-ACATTAGCCATTCGGCTTTAC-C
66 CA--T--TAGCCA-TTCGGCTTTA-CCA--C--ATATACAT
* * * * * * *
58908806 A-CAT-ATACATATCTCATACATA---TTTC-ACTTTAGCCATTCGGCTTTAC-CA-CAT-ATAC
1 ATC-TCATACATATTTCACAC-TAGCCATTCGGCTTTA-CCA--C--ATATACATATC-TCATAC
* ** * * * * ** * * *
58908862 ATATCTCATACATATTTCACACTAGCCATT-CGGCTTTACCACAC
58 ATATTTC--ACAT-TAGC-CATTCGGCTTTACCAC-ATA-TACAT
* *
58908906 ATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
1 AT-C-T----CATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
*
58908971 ATCTCACATTAGCCATTCGGCTTTACCACATATACAT
60 ATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
58909008 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
58909073 CATTAGCCATTCGGCTTTACCACATATACAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
*
58909104 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
58909169 CATTAGCCATTCGGCTTTACCACACATGCAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
* * *
58909200 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
58909265 CATTAGCCATTCGGATTTACCACATATATAT
66 CATTAGCCATTCGGCTTTACCACATATACAT
58909296 AT
1 AT
58909298 TTATCTTGTA
Statistics
Matches: 676, Mismatches: 73, Indels: 78
0.82 0.09 0.09
Matches are distributed among these distances:
96 521 0.77
98 2 0.00
99 3 0.00
100 15 0.02
101 14 0.02
102 12 0.02
103 42 0.06
104 10 0.01
105 18 0.03
106 4 0.01
107 24 0.04
109 6 0.01
110 5 0.01
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (96 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACAT
Found at i:58908576 original size:144 final size:144
Alignment explanation
Indices: 58908414--58909297 Score: 1177
Period size: 144 Copynumber: 6.0 Consensus size: 144
58908404 ATATACACAC
* *
58908414 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
*
58908479 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
58908544 TACCACATATACAT
131 TACCACATATACAT
* * *
58908558 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
58908623 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
58908688 TACCACATATACAT
131 TACCACATATACAT
58908702 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
*** * * * * * *
58908767 CATCTCATATATATTTC-ACATTAGCCATTCGGCTTTAC-CA-CAT-ATACATATCTCATACATA
66 CA--T--TAGCCA-TTCGGCTTTA-CCA--C--ATATACATATC-TCATACATATTTC--ACAT-
** * * * * ** * *
58908828 TTTCACTTTAGCCATT-CGGCTTTACCACAT
117 TAGC-CATTCGGCTTTACCAC-ATA-TACAT
* *
58908858 ATACAT-ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATATA
1 AT-C-TCAT-ACATA----TTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACA
*
58908922 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCACATTAGCCAT
59 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
58908987 TCGGCTTTACCACATATACAT
124 TCGGCTTTACCACATATACAT
*
58909008 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
*
58909073 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
58909138 TACCACATATACAT
131 TACCACATATACAT
* * * *
58909152 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATGCATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
* *
58909217 CATTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCACATTAGCCATTCGGATT
66 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
*
58909282 TACCACATATATAT
131 TACCACATATACAT
58909296 AT
1 AT
58909298 TTATCTTGTA
Statistics
Matches: 654, Mismatches: 56, Indels: 60
0.85 0.07 0.08
Matches are distributed among these distances:
144 473 0.72
146 1 0.00
148 12 0.02
149 9 0.01
150 6 0.01
151 21 0.03
152 6 0.01
153 16 0.02
154 6 0.01
155 22 0.03
156 6 0.01
157 9 0.01
158 12 0.02
160 1 0.00
162 54 0.08
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (144 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
TACCACATATACAT
Found at i:58908773 original size:18 final size:18
Alignment explanation
Indices: 58908750--58908787 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
58908740 ACACATACAT
58908750 ATCTCATACATATTTCAC
1 ATCTCATACATATTTCAC
*
58908768 ATCTCATATATATTTCAC
1 ATCTCATACATATTTCAC
58908786 AT
1 AT
58908788 TAGCCATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.42
Consensus pattern (18 bp):
ATCTCATACATATTTCAC
Found at i:58908793 original size:114 final size:114
Alignment explanation
Indices: 58908654--58908882 Score: 422
Period size: 114 Copynumber: 2.0 Consensus size: 114
58908644 ACATATACAT
58908654 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
58908719 CACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCAC
66 CACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCAC
*
58908768 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
** *
58908833 CTTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
66 CACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCAC
58908882 A
1 A
58908883 CTAGCCATTC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (114 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCAC
Found at i:58908808 original size:66 final size:66
Alignment explanation
Indices: 58908702--58908833 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
58908692 ACATATACAT
58908702 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
58908767 C
66 C
* * *
58908768 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
58908833 C
66 C
58908834 TTTAGCCATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.36
Consensus pattern (66 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCATACATATTTCA
C
Done.