Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 194 of 325
Found at i:59657550 original size:18 final size:18
Alignment explanation
Indices: 59657527--59657562 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59657517 ATTTCCTGAA
59657527 GAAAATTTTTCACTATAT
1 GAAAATTTTTCACTATAT
59657545 GAAAATTTTTCACTATAT
1 GAAAATTTTTCACTATAT
59657563 CTGACCTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (18 bp):
GAAAATTTTTCACTATAT
Found at i:59660925 original size:29 final size:29
Alignment explanation
Indices: 59660888--59661043 Score: 154
Period size: 29 Copynumber: 5.3 Consensus size: 29
59660878 CAACAACGTA
* *
59660888 TCGACCCATTGAATATAAAAAGGGATGATT
1 TCGA-CCATCGAATATAAAAAGGGATGGTT
* * *
59660918 TCGACCATCAAATATGAAAAGGGATGGTG
1 TCGACCATCGAATATAAAAAGGGATGGTT
* * *
59660947 ACAACTATCGAATATGAAAAA-GGATGGTT
1 TCGACCATCGAATAT-AAAAAGGGATGGTT
* * *
59660976 TTGACCATCGAATATGAAAAGGGATGGTG
1 TCGACCATCGAATATAAAAAGGGATGGTT
* *
59661005 ACAACCATCGAATATGAAAAA-GGATGGTT
1 TCGACCATCGAATAT-AAAAAGGGATGGTT
59661034 TCGACCATCG
1 TCGACCATCG
59661044 TTTAACACAC
Statistics
Matches: 99, Mismatches: 24, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
28 4 0.04
29 83 0.84
30 12 0.12
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (29 bp):
TCGACCATCGAATATAAAAAGGGATGGTT
Found at i:59660990 original size:58 final size:58
Alignment explanation
Indices: 59660893--59661043 Score: 241
Period size: 58 Copynumber: 2.6 Consensus size: 58
59660883 ACGTATCGAC
* * *
59660893 CCATTGAATAT-AAAAAGGGATGATTTCGACCATCAAATATGAAAAGGGATGGTGACAA
1 CCATCGAATATGAAAAA-GGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAA
* *
59660951 CTATCGAATATGAAAAAGGATGGTTTTGACCATCGAATATGAAAAGGGATGGTGACAA
1 CCATCGAATATGAAAAAGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAA
59661009 CCATCGAATATGAAAAAGGATGGTTTCGACCATCG
1 CCATCGAATATGAAAAAGGATGGTTTCGACCATCG
59661044 TTTAACACAC
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
58 80 0.94
59 5 0.06
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (58 bp):
CCATCGAATATGAAAAAGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTGACAA
Found at i:59664978 original size:49 final size:49
Alignment explanation
Indices: 59664922--59665185 Score: 465
Period size: 49 Copynumber: 5.4 Consensus size: 49
59664912 TACATATATG
* * * *
59664922 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
59664971 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
59665020 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
59665069 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
59665118 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
59665167 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
59665186 TAATGTAAAA
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 209 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:59670274 original size:18 final size:18
Alignment explanation
Indices: 59670251--59670286 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
59670241 TGTTTCAGTC
*
59670251 AAAAACCCTAAACCCTAA
1 AAAAACCCCAAACCCTAA
*
59670269 AAAAACCCCAAATCCTAA
1 AAAAACCCCAAACCCTAA
59670287 TCCTAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAACCCCAAACCCTAA
Found at i:59675458 original size:38 final size:39
Alignment explanation
Indices: 59675407--59675482 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
59675397 CTCACAGTTC
*
59675407 ACCAACATGTTTGGTC-TTTGCAGTTAGGTGACATGATG
1 ACCAACATGTTTGGTCTTTTGCAATTAGGTGACATGATG
* *
59675445 ACCAACATGTTTGGTCTTTTGCAATTAGTTGTCATGAT
1 ACCAACATGTTTGGTCTTTTGCAATTAGGTGACATGAT
59675483 CGGTTGTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 16 0.47
39 18 0.53
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (39 bp):
ACCAACATGTTTGGTCTTTTGCAATTAGGTGACATGATG
Found at i:59676331 original size:140 final size:140
Alignment explanation
Indices: 59676079--59676354 Score: 498
Period size: 140 Copynumber: 2.0 Consensus size: 140
59676069 AGTGTGTTGC
*
59676079 AGTAGGAAATGTGAAAGATCCAAGGGAGTTGTCTCAACTCGATGCTAAGATGGAAGTCGAGTTAG
1 AGTAGGAAATGTGAAAGATCCAAGGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
* *
59676144 AGGCTCAGTTATAGGGTTTCGAGAGGATTTCAAAGGAAACCTTTTTGAGAAATATTTTGGTAATC
66 AGGCTCAATTATAGGGTTTCGAGAGGATTTCAAAAGAAACCTTTTTGAGAAATATTTTGGTAATC
59676209 CTACCTCCTT
131 CTACCTCCTT
*
59676219 AGTAGGAAATGTTAAAGATCCAAGGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
1 AGTAGGAAATGTGAAAGATCCAAGGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
* *
59676284 AGGCTCAATTATAGGGTTTCGAGAGGATTTTAAAAGAAACTTTTTTGAGAAATATTTTGGTAATC
66 AGGCTCAATTATAGGGTTTCGAGAGGATTTCAAAAGAAACCTTTTTGAGAAATATTTTGGTAATC
59676349 CTACCT
131 CTACCT
59676355 TCTCGAGTAC
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 130 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (140 bp):
AGTAGGAAATGTGAAAGATCCAAGGGAGTTGTCTCAACTCGATGCCAAGATGGAAGTCGAGTTAG
AGGCTCAATTATAGGGTTTCGAGAGGATTTCAAAAGAAACCTTTTTGAGAAATATTTTGGTAATC
CTACCTCCTT
Found at i:59680767 original size:20 final size:21
Alignment explanation
Indices: 59680666--59680768 Score: 70
Period size: 20 Copynumber: 4.6 Consensus size: 21
59680656 GTTCAACTAT
59680666 TATTAAACTTAAT-TAATTTAA
1 TATTAAA-TTAATATAATTTAA
59680687 TATTAAATTAATATAATACATATGAA
1 TATTAAATTAATATAAT---T-T-AA
* *
59680713 GA-TAAATAGTAGATAAAATTTAA
1 TATTAAAT--TA-ATATAATTTAA
59680736 TATTAAGA-TAAT-TAATTTAA
1 TATTAA-ATTAATATAATTTAA
59680756 TATTAAATTAATA
1 TATTAAATTAATA
59680769 AAATACTATC
Statistics
Matches: 65, Mismatches: 4, Indels: 26
0.68 0.04 0.27
Matches are distributed among these distances:
19 1 0.02
20 22 0.34
21 13 0.20
22 2 0.03
23 3 0.05
24 5 0.08
25 8 0.12
26 3 0.05
27 2 0.03
28 6 0.09
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (21 bp):
TATTAAATTAATATAATTTAA
Found at i:59683292 original size:24 final size:24
Alignment explanation
Indices: 59683265--59683312 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
59683255 ACTTATAAGA
*
59683265 TAAGATAAGTGTGTTAAGACAAGT
1 TAAGATAAGTATGTTAAGACAAGT
*
59683289 TAAGATAAGTATGTTAAGATAAGT
1 TAAGATAAGTATGTTAAGACAAGT
59683313 GCGAGAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.31
Consensus pattern (24 bp):
TAAGATAAGTATGTTAAGACAAGT
Found at i:59683801 original size:20 final size:21
Alignment explanation
Indices: 59683756--59683802 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
59683746 ATTATGAGGT
*
59683756 ATTACTGGATAATTCGTAACA
1 ATTACTGGATAATTCATAACA
* *
59683777 TTTAC-GGATAATTCATGACA
1 ATTACTGGATAATTCATAACA
59683797 ATTACT
1 ATTACT
59683803 ATTCATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (21 bp):
ATTACTGGATAATTCATAACA
Found at i:59686771 original size:40 final size:40
Alignment explanation
Indices: 59686694--59686911 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
59686684 AAACCAAGTA
* *
59686694 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
59686733 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59686773 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59686813 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
59686853 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59686893 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59686912 TTATCATCCG
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 15 0.09
40 153 0.91
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59689727 original size:34 final size:34
Alignment explanation
Indices: 59689682--59689755 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
59689672 GCATACTATG
* * *
59689682 CTGAAAAGGGCTAAGGCCCAGATTGCCACTGTTA
1 CTGAAATGGGCTAAGGCCCAGACTACCACTGTTA
* *
59689716 CTGAAATGGGCTCAGGCCCAGACTACTACTGTTA
1 CTGAAATGGGCTAAGGCCCAGACTACCACTGTTA
59689750 CT-AAAT
1 CTGAAAT
59689756 TAGGCTAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 4 0.11
34 31 0.89
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (34 bp):
CTGAAATGGGCTAAGGCCCAGACTACCACTGTTA
Found at i:59692075 original size:40 final size:40
Alignment explanation
Indices: 59691993--59692198 Score: 254
Period size: 40 Copynumber: 5.2 Consensus size: 40
59691983 AAACCAAGTA
* * *
59691993 CCTTCGGGATTTAG-CTGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
59692032 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59692072 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** * *
59692112 CCTTCGGGACTTAGCCCGGATATAATCGCTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** *
59692152 CCTTCGGGACATAGCCTAGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59692192 CCTTCGG
1 CCTTCGG
59692199 ATCTTAGTCT
Statistics
Matches: 142, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
39 14 0.10
40 128 0.90
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59700124 original size:40 final size:40
Alignment explanation
Indices: 59700047--59700252 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
59700037 AAACCAAGTA
* *
59700047 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
59700086 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59700126 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** * *
59700166 CCTTCGGGACTTAGCCCGGATATAATCGCTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59700206 CCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59700246 CCTTCGG
1 CCTTCGG
59700253 ATCTTAGTCC
Statistics
Matches: 149, Mismatches: 16, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 14 0.09
40 135 0.91
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59703259 original size:40 final size:39
Alignment explanation
Indices: 59703094--59703277 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
59703084 AAATTGAATG
* * *
59703094 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
59703134 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
59703174 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
59703214 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
59703253 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
59703278 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:59703302 original size:80 final size:81
Alignment explanation
Indices: 59703134--59703322 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
59703124 GCTGGAAATT
* * * *
59703134 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
59703199 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
59703215 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
59703278 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
59703294 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
59703323 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:59711277 original size:40 final size:41
Alignment explanation
Indices: 59711233--59711333 Score: 129
Period size: 40 Copynumber: 2.5 Consensus size: 41
59711223 GAAATTATAA
* *
59711233 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATACTAT
*
59711273 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATACTAT
59711313 CCGGGCTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
59711334 TGTTGTGCCA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.02
39 5 0.09
40 48 0.89
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.19
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATACTAT
Found at i:59716736 original size:30 final size:29
Alignment explanation
Indices: 59716692--59716795 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
59716682 CCTTCGAGCT
** * *
59716692 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
59716721 TGCACACATTAGTGCCTTATATTTCCAGCA
1 CGCACAC-TTAGTGCCATATATTTCCAGCA
59716751 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
59716780 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
59716796 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 43 0.64
30 24 0.36
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:59717627 original size:143 final size:141
Alignment explanation
Indices: 59717437--59717731 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
59717427 AAATTCTATA
59717437 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
59717502 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
59717567 GAAGACAACAT
131 GAAAACAACAT
59717578 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
59717643 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
59717708 AGGAAAACAACAT
129 AGGAAAACAACAT
59717721 GCATGGCCGAA
1 GCATGGCCGAA
59717732 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:59724526 original size:29 final size:29
Alignment explanation
Indices: 59724493--59724595 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
59724483 CCTTCGAGCT
** * *
59724493 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
59724522 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
59724551 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
59724580 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
59724596 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:59724535 original size:58 final size:58
Alignment explanation
Indices: 59724464--59724595 Score: 147
Period size: 58 Copynumber: 2.3 Consensus size: 58
59724454 AATTTAAGCC
** * * * * *
59724464 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
59724522 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
59724580 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
59724596 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:59725497 original size:143 final size:143
Alignment explanation
Indices: 59725239--59725535 Score: 585
Period size: 143 Copynumber: 2.1 Consensus size: 143
59725229 AAATTCTATA
59725239 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
59725304 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
*
59725369 AGGAAGACAACAT
131 AGGAAAACAACAT
59725382 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
59725447 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
59725512 AGGAAAACAACAT
131 AGGAAAACAACAT
59725525 GCATGGCCGAA
1 GCATGGCCGAA
59725536 ATTTAACTCA
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 153 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.21
Consensus pattern (143 bp):
GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
AGGAAAACAACAT
Found at i:59727198 original size:31 final size:31
Alignment explanation
Indices: 59727163--59727226 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
59727153 CGTTTACAGT
* *
59727163 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
**
59727194 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
59727225 AA
1 AA
59727227 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:59743165 original size:21 final size:21
Alignment explanation
Indices: 59743132--59743172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
59743122 TATTTTGTCC
*
59743132 AACACTTCAAAAATAATTTTA
1 AACACTTCAAAAACAATTTTA
**
59743153 AACACTTTGAAAACAATTTT
1 AACACTTCAAAAACAATTTT
59743173 TGCAAATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (21 bp):
AACACTTCAAAAACAATTTTA
Found at i:59749495 original size:46 final size:46
Alignment explanation
Indices: 59749346--59749517 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 46
59749336 GGTTGAGCAT
* * *
59749346 CCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* *
59749391 CCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
59749435 ATCCGAACT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* *
59749482 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59749518 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 9, Indels: 23
0.77 0.07 0.17
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 4 0.04
45 43 0.41
46 41 0.39
47 4 0.04
49 5 0.05
50 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:59749497 original size:91 final size:92
Alignment explanation
Indices: 59749342--59749510 Score: 279
Period size: 91 Copynumber: 1.8 Consensus size: 92
59749332 GGATGGTTGA
* *
59749342 GCATCCGAACTCGTTGAGTTGAGTCCAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
59749407 GAGT-CGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
59749433 GCATCCGAACT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59749497 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
59749511 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
90 14 0.19
91 50 0.69
92 8 0.11
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59756939 original size:46 final size:46
Alignment explanation
Indices: 59756889--59757064 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59756879 TGGTTGAGCA
59756889 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59756935 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59756980 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59757028 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59757065 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59757045 original size:93 final size:93
Alignment explanation
Indices: 59756886--59757057 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59756876 GGATGGTTGA
* *
59756886 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59756951 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59756979 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59757044 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59757058 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59761959 original size:47 final size:47
Alignment explanation
Indices: 59761877--59762042 Score: 298
Period size: 47 Copynumber: 3.6 Consensus size: 47
59761867 TTAGGATTTT
* *
59761877 ATGTGATGAATGTGAA-ATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
59761923 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
59761970 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
59762017 ATGTGATGAATGTGAATATGCATATG
1 ATGTGATGAATGTGAACATGCATATG
59762043 GCCAATGTGA
Statistics
Matches: 116, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
46 16 0.14
47 100 0.86
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:59761976 original size:22 final size:22
Alignment explanation
Indices: 59761949--59762023 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
59761939 CATGCATATG
59761949 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
59761971 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
59761994 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
59762018 TGTGAT
1 TGTGAT
59762024 GAATGTGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:59762044 original size:30 final size:30
Alignment explanation
Indices: 59762010--59762071 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
59762000 ATAAGGCCGA
*
59762010 ATGGCCAATGTGATGAATGTGAATATGCAT
1 ATGGCCAATGTGATGAATGTGAACATGCAT
59762040 ATGGCCAATGTGATGAATGTGAACATGCAT
1 ATGGCCAATGTGATGAATGTGAACATGCAT
59762070 AT
1 AT
59762072 ATGTGATAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (30 bp):
ATGGCCAATGTGATGAATGTGAACATGCAT
Found at i:59762063 original size:124 final size:124
Alignment explanation
Indices: 59761916--59762143 Score: 368
Period size: 124 Copynumber: 1.8 Consensus size: 124
59761906 ATAAGGCCGA
* * *
59761916 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAAC
*
59761981 GT-GAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATGCAT
66 GTGGAA-ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATGCAT
59762040 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAAC
1 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAAC
* * * *
59762105 GTGGAAGTGTATATATGTGGTAAGGCCGAATGGCTAATG
66 GTGGAAATGCATATATGTGATAAGGCCGAATGGCCAATG
59762144 CGAAATGTGT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
124 92 0.97
125 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (124 bp):
ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAAC
GTGGAAATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATGCAT
Found at i:59762097 original size:47 final size:47
Alignment explanation
Indices: 59762040--59762143 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 47
59762030 GAATATGCAT
*
59762040 ATGGCCAATGTGATGAATGT-GAACATGCATATATGTGATAAGGCAGA
1 ATGGCCAATGTGATGAACGTGGAA-ATGCATATATGTGATAAGGCAGA
* * * *
59762087 ATGGCCAATGTGATGAACGTGGAAGTGTATATATGTGGTAAGGCCGA
1 ATGGCCAATGTGATGAACGTGGAAATGCATATATGTGATAAGGCAGA
*
59762134 ATGGCTAATG
1 ATGGCCAATG
59762144 CGAAATGTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
47 47 0.94
48 3 0.06
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGGCCAATGTGATGAACGTGGAAATGCATATATGTGATAAGGCAGA
Found at i:59762179 original size:46 final size:46
Alignment explanation
Indices: 59762117--59762298 Score: 260
Period size: 46 Copynumber: 4.0 Consensus size: 46
59762107 GGAAGTGTAT
* * *
59762117 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
59762163 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
59762209 ATATGAGGTAAAGCCGAATGGCTAATGCG-AACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * **
59762254 ATAT-ATGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGA-GGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
59762299 TGTATATATA
Statistics
Matches: 124, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
44 1 0.01
45 41 0.33
46 82 0.66
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:59762292 original size:91 final size:92
Alignment explanation
Indices: 59762117--59762298 Score: 260
Period size: 91 Copynumber: 2.0 Consensus size: 92
59762107 GGAAGTGTAT
* * * *
59762117 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGCCGAAT
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCAAAT
*
59762182 GGCTAATGCAAAACGTGTATGAGATGG
66 GGCTAATGCAAAACATGTATGAGATGG
59762209 ATATGAGGTAAAGCCGAATGGCTAATGCG-AACGTGTATGAGATGGATAT-ATGGTAAAGCCAAA
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGA-GGTAAAGCCAAA
** * *
59762272 TGGCTAATGTGAGATATGTATGAGATG
65 TGGCTAATGCAAAACATGTATGAGATG
59762299 TGTATATATA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 52 0.65
92 27 0.34
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (92 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCAAAT
GGCTAATGCAAAACATGTATGAGATGG
Found at i:59763885 original size:38 final size:39
Alignment explanation
Indices: 59763778--59764054 Score: 420
Period size: 39 Copynumber: 7.4 Consensus size: 39
59763768 ATTGAGAGTT
59763778 ATATATCC-GGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTG
59763817 ATATATCC-GGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTG
*
59763856 ATGTATCC-GGCTAAGTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTG
59763894 ATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTG
59763933 ATATATCCGGGCTAAGT-CGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTG
59763971 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTG
59764011 ATA-A-----G-T---TCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTG
59764040 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
59764055 ACCTCGAAGG
Statistics
Matches: 224, Mismatches: 2, Indels: 25
0.89 0.01 0.10
Matches are distributed among these distances:
29 26 0.12
30 1 0.00
33 1 0.00
34 1 0.00
35 1 0.00
36 1 0.00
38 66 0.29
39 103 0.46
40 24 0.11
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
ATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTG
Found at i:59763886 original size:77 final size:76
Alignment explanation
Indices: 59763781--59764054 Score: 415
Period size: 77 Copynumber: 3.7 Consensus size: 76
59763771 GAGAGTTATA
59763781 TATCCGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC-GGCTAAGTCCCGAAGAGCAT
1 TATCCGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGT-CCGAAGAGCAT
59763845 TCGTGCTAGTGAT
64 TCGTGCTAGTGAT
59763858 GTATCCGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGAAGAGCATT
1 -TATCCGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGAAGAGCATT
59763923 CGTGCTAGTGAT
65 CGTGCTAGTGAT
59763935 ATATCCGGGCTAAGT-CGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCA
1 -TATCC-GGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAG-TCCGAAGAGCA
59763999 TTCGTGCTAGTGA-
63 TTCGTGCTAGTGAT
*
59764012 TA---AG-T---TCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA
1 TATCCGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA
59764055 ACCTCGAAGG
Statistics
Matches: 190, Mismatches: 2, Indels: 17
0.91 0.01 0.08
Matches are distributed among these distances:
68 1 0.01
69 36 0.19
71 1 0.01
72 1 0.01
76 2 0.01
77 96 0.51
78 53 0.28
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (76 bp):
TATCCGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGAAGAGCATTC
GTGCTAGTGAT
Found at i:59764025 original size:29 final size:29
Alignment explanation
Indices: 59763983--59764042 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
59763973 ATATCCGGGC
59763983 TAAGTTCCGAAGAGCATTCGTGCTAGTGA
1 TAAGTTCCGAAGAGCATTCGTGCTAGTGA
59764012 TAAGTTCCGAAGAGCATTCGTGCTAGTGA
1 TAAGTTCCGAAGAGCATTCGTGCTAGTGA
59764041 TA
1 TA
59764043 TATCCGGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (29 bp):
TAAGTTCCGAAGAGCATTCGTGCTAGTGA
Found at i:59764177 original size:28 final size:27
Alignment explanation
Indices: 59764141--59764238 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 27
59764131 AGTAGTTGAG
59764141 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
** *
59764169 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
59764197 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
*
59764226 GCGCTATGTGTGC
1 GCACTATGTGTGC
59764239 AAATCAGTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 35 0.58
29 25 0.42
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:59764199 original size:57 final size:57
Alignment explanation
Indices: 59764082--59764246 Score: 210
Period size: 57 Copynumber: 2.9 Consensus size: 57
59764072 GCTGGAATTA
* * * * *
59764082 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTA--TGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* **
59764137 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* * *
59764194 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTG-CAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGT
59764247 CAGTGGGCAC
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
55 34 0.36
56 5 0.05
57 55 0.59
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
Found at i:59768219 original size:47 final size:47
Alignment explanation
Indices: 59768040--59768460 Score: 665
Period size: 47 Copynumber: 9.1 Consensus size: 47
59768030 TTAGGATTTT
* *
59768040 ATGTGATGAATGTGAA-ATGCATAAATGAGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59768085 ATGTGATGAATGTGAACATGCATATATGAGATAAGG-CGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59768131 ATGTGAT-AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
59768177 ATGTGATGAATGTGAACATGCATATATGTGATATGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59768224 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59768271 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59768318 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59768365 ATGTGATGAATGTGAACATGCATATATGTGATAAGG-CAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
59768411 ATGTGATGAATGTGGAA-GTGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
59768458 ATG
1 ATG
59768461 CGAAATGTGT
Statistics
Matches: 354, Mismatches: 16, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
45 51 0.14
46 82 0.23
47 221 0.62
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:59768484 original size:46 final size:46
Alignment explanation
Indices: 59768434--59768616 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
59768424 GGAAGTGTAT
* * * *
59768434 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTACGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
59768480 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTCTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
59768526 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
59768572 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
59768617 TGTATATATA
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:59774371 original size:39 final size:40
Alignment explanation
Indices: 59774327--59774491 Score: 183
Period size: 39 Copynumber: 4.2 Consensus size: 40
59774317 CGGAATATAA
*
59774327 CCGGATATAATCAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59774366 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
59774406 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59774445 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59774484 CCGGATAT
1 CCGGATAT
59774492 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 58 0.55
40 48 0.45
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59774475 original size:79 final size:78
Alignment explanation
Indices: 59774342--59774491 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
59774332 TATAATCAGT
*
59774342 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
59774407 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
59774421 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
59774484 CCGGATAT
64 CCGGATAT
59774492 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:59775337 original size:17 final size:19
Alignment explanation
Indices: 59775314--59775359 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59775304 AAGAAGCATG
59775314 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
59775332 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
59775350 AATCATGCTC
1 AATCATGCTC
59775360 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:59782439 original size:40 final size:40
Alignment explanation
Indices: 59782313--59782478 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
59782303 CGGAATATAA
* *
59782313 CCGGATATAATCAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
* * *
59782352 CCGGATAGAATAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCAC-AATTGCCTTCGGGTCTTAGC
* *
59782392 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
** * * *
59782432 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
59782471 CCGGATAT
1 CCGGATAT
59782479 CATTCAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
39 27 0.25
40 80 0.73
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:59783321 original size:17 final size:19
Alignment explanation
Indices: 59783298--59783343 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59783288 AAGAAGCATG
59783298 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
59783316 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
59783334 AATCATGCTC
1 AATCATGCTC
59783344 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:59788206 original size:35 final size:35
Alignment explanation
Indices: 59788160--59788226 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
59788150 TCTATCATAC
59788160 TGTAGACCTCAAAATAATAATAAAATAATTATTTT
1 TGTAGACCTCAAAATAATAATAAAATAATTATTTT
59788195 TGTAGACCTCAAAATAATAATAAAATAATTAT
1 TGTAGACCTCAAAATAATAATAAAATAATTAT
59788227 CTTAACTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (35 bp):
TGTAGACCTCAAAATAATAATAAAATAATTATTTT
Found at i:59790347 original size:40 final size:40
Alignment explanation
Indices: 59790123--59790319 Score: 294
Period size: 40 Copynumber: 5.0 Consensus size: 40
59790113 TCGAATGATG
* *
59790123 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
59790163 TCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
59790203 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
59790243 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59790283 TCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
59790320 TAACCGGGCT
Statistics
Matches: 148, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 28 0.19
40 112 0.76
41 7 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59790378 original size:79 final size:78
Alignment explanation
Indices: 59790136--59790380 Score: 246
Period size: 79 Copynumber: 3.1 Consensus size: 78
59790126 GGGCTAAGTC
* * * **
59790136 CCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACT
1 CCGAAGGCATTTGTGC-GAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACT
*
59790200 AAATCCGGACTAAGAT
65 AAATCCGGA-TAA-CT
* **
59790216 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
* *
59790281 AATCGGGATAAGT
66 AATCCGGATAACT
* * *
59790294 CCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAG-TA
1 -CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA
* *
59790356 GCTATATCCGGTTAAACT
63 -CTAAATCCGGAT-AACT
59790374 CCGAAGG
1 CCGAAGG
59790381 TACGTGATTC
Statistics
Matches: 145, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
78 4 0.03
79 67 0.46
80 67 0.46
81 7 0.05
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
AATCCGGATAACT
Found at i:59797701 original size:77 final size:77
Alignment explanation
Indices: 59797612--59797769 Score: 271
Period size: 77 Copynumber: 2.1 Consensus size: 77
59797602 CGGCCCAGCC
*
59797612 TCTAACTCGGCCAAAACTGAACCATCATCAAGAAATATCAAATGAGTATCCATGGCTCTCAAAGC
1 TCTAACTCGGCCAAAACCGAACCATCATCAAGAAATATCAAATGAGTATCCATGGCTCTCAAAGC
*
59797677 AATCCGGGATTT
66 AATCCAGGATTT
*
59797689 TCTAACTTGGCCAAAACCGAACCATCATCAAGAAATATCAAATGAGTATCCATGGCTCTCAAAGC
1 TCTAACTCGGCCAAAACCGAACCATCATCAAGAAATATCAAATGAGTATCCATGGCTCTCAAAGC
* *
59797754 AGTCTAGGATTT
66 AATCCAGGATTT
59797766 TCTA
1 TCTA
59797770 CTCAATGCAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (77 bp):
TCTAACTCGGCCAAAACCGAACCATCATCAAGAAATATCAAATGAGTATCCATGGCTCTCAAAGC
AATCCAGGATTT
Found at i:59804146 original size:49 final size:49
Alignment explanation
Indices: 59804048--59804147 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
59804038 TTCGTGTGCG
* * *
59804048 TTATTGAGATATCTTTGGCTATATATATATTGGCACTTCTGGTGCAAGA
1 TTATTGAGATAGCTTCGGCTATATATATATTGGCACTTATGGTGCAAGA
* * * *
59804097 TTATTGAGATAGCTTCGGCTATATTTTTATTGGCACTTATTGTGTAAGA
1 TTATTGAGATAGCTTCGGCTATATATATATTGGCACTTATGGTGCAAGA
59804146 TT
1 TT
59804148 CCTGGGTATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (49 bp):
TTATTGAGATAGCTTCGGCTATATATATATTGGCACTTATGGTGCAAGA
Found at i:59806830 original size:40 final size:40
Alignment explanation
Indices: 59806774--59806968 Score: 198
Period size: 40 Copynumber: 4.8 Consensus size: 40
59806764 GGATATAGCG
* * * *
59806774 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * * *
59806814 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
59806854 ACTCGCAGAAATGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* * *
59806894 ACTCACACAAATGCCTTCGGGAATT-GACCCGGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAG-CCCGGATTTAGTA
* *
59806934 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
59806969 ACCATTCGAA
Statistics
Matches: 126, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
39 4 0.03
40 90 0.71
41 31 0.25
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:59812622 original size:24 final size:24
Alignment explanation
Indices: 59812593--59812725 Score: 135
Period size: 24 Copynumber: 5.5 Consensus size: 24
59812583 TATCTCAAAT
*
59812593 GCACTATGTGTACAATTTATTA-A
1 GCACTATGTGTGCAATTTATTATA
59812616 TGCACTATGTGTGCAATTTATTATA
1 -GCACTATGTGTGCAATTTATTATA
* * *
59812641 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCAATTTATTATA
* ** *
59812665 GCACTATGTGTGCGATTTGCTATG
1 GCACTATGTGTGCAATTTATTATA
** *
59812689 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGC-AATTTATTATA
59812713 GCACTATGTGTGC
1 GCACTATGTGTGC
59812726 CACATTCGGT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
24 91 0.95
25 5 0.05
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCAATTTATTATA
Found at i:59817947 original size:38 final size:39
Alignment explanation
Indices: 59817858--59818041 Score: 167
Period size: 40 Copynumber: 4.7 Consensus size: 39
59817848 GGATATAGCG
* * * * *
59817858 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTA-ACCGGATT-TAGTA
* *
59817898 GCTCGCACAAATGCCTTCGGGACTTAACCGGATTT-GGA
1 ACTCGCACAAATGCCTTCGGGACTTAACCGGATTTAGTA
*
59817936 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGA-CTTA-ACCGGATTTAGTA
* * * * *
59817976 ACTCACACAAATGCCTTCGGGAATTGACCCGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAACCGGATTTAGTA
* *
59818015 ACTTAGCACAAAAGCCTTCGGGACTTA
1 AC-TCGCACAAATGCCTTCGGGACTTA
59818042 GCCCGGATAC
Statistics
Matches: 117, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
37 3 0.03
38 22 0.19
39 25 0.21
40 64 0.55
41 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCGGATTTAGTA
Found at i:59834947 original size:29 final size:29
Alignment explanation
Indices: 59834914--59834971 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
59834904 AGTTTGTTTG
59834914 TATATGGCTTACTAAGCTTTTGAAAGCTT
1 TATATGGCTTACTAAGCTTTTGAAAGCTT
*
59834943 TATATGGCTTACTAATCTTTTGAAAGCTT
1 TATATGGCTTACTAAGCTTTTGAAAGCTT
59834972 ACTTTGAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (29 bp):
TATATGGCTTACTAAGCTTTTGAAAGCTT
Found at i:59840043 original size:37 final size:37
Alignment explanation
Indices: 59839993--59840078 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
59839983 TTATTACGAA
59839993 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
59840030 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
59840067 GTCTCACCCGGA
1 GTCTTACCCGGA
59840079 ATATATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:59840210 original size:48 final size:48
Alignment explanation
Indices: 59840127--59840394 Score: 437
Period size: 48 Copynumber: 5.6 Consensus size: 48
59840117 ACAACATTCT
* * * * *
59840127 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
* * * * * *
59840175 CATTCGCCATTCGGCTTTACGACATATACACATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
59840223 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
59840271 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
59840319 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
59840367 CATTAGCCATTCGGCTTTACCACATATA
1 CATTAGCCATTCGGCTTTACCACATATA
59840395 TACACTTTCA
Statistics
Matches: 207, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 207 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
Found at i:59840438 original size:47 final size:47
Alignment explanation
Indices: 59840372--59840494 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
59840362 TTTCACATTA
* * *
59840372 GCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
59840419 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
59840466 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
59840495 ACGAGCTGTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:59840454 original size:144 final size:143
Alignment explanation
Indices: 59840122--59840441 Score: 365
Period size: 144 Copynumber: 2.2 Consensus size: 143
59840112 AGGTTACAAC
* * * * * * * * * * *
59840122 ATTCTCATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTC
1 ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
* * *
59840187 GGCTTTACGACATATACACATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
66 GGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
*
59840252 ATATCACACATGT
131 ACATCACACATGT
* * * *
59840265 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* *
59840330 CGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATA
65 CGGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATA
* **
59840395 TACACTTTCACAT-T
130 CACA-TCACACATGT
* *
59840409 CA-TCACATCGGCCATTAGGCCTTATCACATATA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATA
59840442 TACACTTTCA
Statistics
Matches: 153, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
143 27 0.18
144 119 0.78
145 7 0.05
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (143 bp):
ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
GGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ACATCACACATGT
Found at i:59844156 original size:39 final size:40
Alignment explanation
Indices: 59843965--59844471 Score: 830
Period size: 40 Copynumber: 12.8 Consensus size: 40
59843955 CCAGCATGAT
* * *
59843965 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
59844005 TGCTCTTCGG-ACTTAGTCCGGTTGC-TTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
59844043 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCTA-GAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGC-ACGAA
59844083 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
59844123 TGCTCTTCGGAACTTAGT-CGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
59844162 TGCTCTTCGGAACTTA-TCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
59844201 TGCTCTTCGGAACTTA-TCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
59844240 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
59844280 TGCTCTTCGGAACTTAATCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
59844320 TGCTCTTCGGAACTTAATCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
59844360 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
59844400 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
59844440 TGCTCTTCGGGATTTAG-CCTGGATATATCACT
1 TGCTCTTCGGAACTTAGTCC-GGATACATCACT
59844472 CTCAATTCTT
Statistics
Matches: 443, Mismatches: 17, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
38 23 0.05
39 140 0.32
40 279 0.63
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:59846418 original size:37 final size:37
Alignment explanation
Indices: 59846368--59846453 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
59846358 TTATTACGAA
59846368 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
59846405 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
59846442 GTCTCACCCGGA
1 GTCTTACCCGGA
59846454 ATATATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:59846585 original size:48 final size:48
Alignment explanation
Indices: 59846502--59846721 Score: 341
Period size: 48 Copynumber: 4.6 Consensus size: 48
59846492 ACAACATTCT
* * * * *
59846502 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
* * * * * *
59846550 CATTCGCCATTCGGCTTTACGACATATACACATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
59846598 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
59846646 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
59846694 CATTAGCCATTCGGCTTTACCACATATA
1 CATTAGCCATTCGGCTTTACCACATATA
59846722 TACACTTTCA
Statistics
Matches: 159, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 159 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
Found at i:59846765 original size:47 final size:47
Alignment explanation
Indices: 59846699--59846868 Score: 313
Period size: 47 Copynumber: 3.6 Consensus size: 47
59846689 TTTCACATTA
* * *
59846699 GCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
59846746 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
59846793 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
59846840 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
59846869 ACGAGCTGTT
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:59846781 original size:96 final size:93
Alignment explanation
Indices: 59846502--59846862 Score: 329
Period size: 96 Copynumber: 3.8 Consensus size: 93
59846492 ACAACATTCT
* * * *
59846502 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATT-TCACATTC-GCCATTCGGC
1 CATTAGCCATTCGGCTTTACCACATA-T-ATA-CACTTACACATTATCACA-TCGGCCATTAGGC
* *
59846565 TTTA-CGACATATACACATCTCATATATATTTCA
62 CTTATC-ACATATACACATCTCACAT-TATTTCA
* * * ** * *
59846598 CATTAGCCATTCGGCTTTACCACATATACATA-TCACACATGTATTTCACATTAGCCATTCGGCT
1 CATTAGCCATTCGGCTTTACCACATATATACACTTACACAT-TA--TCACATCGGCCATTAGGCC
* * *
59846662 TTACCACATATACATATCACACATGTATTTCA
63 TTATCACATATACACATCTCACAT-TATTTCA
*
59846694 CATTAGCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 CATTAGCCATTCGGCTTTACCACATATATACACTTACACATT-ATCACATCGGCCATTAGGCCTT
* *
59846759 ATCACATATATACACTTTCACATTCA--TCA
65 ATCACATATACACA-TCTCACATT-ATTTCA
** * * * *
59846788 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 CATTAGCCATTCGGCTTTACCACATATATACACTTACACATT-ATCACATCGGCCATTAGGCCTT
59846853 ATCACATATA
65 ATCACATATA
59846863 TACACTACGA
Statistics
Matches: 226, Mismatches: 29, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
92 5 0.02
93 1 0.00
94 75 0.33
95 31 0.14
96 106 0.47
97 8 0.04
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (93 bp):
CATTAGCCATTCGGCTTTACCACATATATACACTTACACATTATCACATCGGCCATTAGGCCTTA
TCACATATACACATCTCACATTATTTCA
Found at i:59846781 original size:144 final size:143
Alignment explanation
Indices: 59846502--59846768 Score: 349
Period size: 144 Copynumber: 1.9 Consensus size: 143
59846492 ACAACATTCT
* * * *
59846502 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTCGGCTT
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACACGCATTTCACATTAGCCATTCGGCTT
* * * * * *
59846567 TACGACATATACACATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
66 TACCACATATACACATCTCACATATA-TTCACATCAGCCATTAGGCCTTACCACATATACACATC
59846632 ACACATGTATTTCA
130 ACACATGTATTTCA
* *
59846646 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTT
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACACGCATTTCACATTAGCCATTCGGCTT
* * * *
59846711 TACCACATATATACACTTTCACAT-TCA-TCACATCGGCCATTAGGCCTTATCACATATA
66 TACCACATATACACA-TCTCACATAT-ATTCACATCAGCCATTAGGCCTTACCACATATA
59846769 TACACTTTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
143 26 0.25
144 73 0.69
145 7 0.07
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (143 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACACGCATTTCACATTAGCCATTCGGCTT
TACCACATATACACATCTCACATATATTCACATCAGCCATTAGGCCTTACCACATATACACATCA
CACATGTATTTCA
Found at i:59854463 original size:40 final size:40
Alignment explanation
Indices: 59854419--59854642 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
59854409 GCTACTCGTT
* * *
59854419 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
59854459 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
59854499 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
59854539 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
59854579 C-AATGCCTTCGGATCTTAGTCCGGATTTAGT-ACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
59854618 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
59854643 CATCATTCGA
Statistics
Matches: 171, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
38 2 0.01
39 54 0.32
40 113 0.66
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:59854595 original size:39 final size:40
Alignment explanation
Indices: 59854447--59854642 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
59854437 AGCCCGGTTA
*
59854447 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
59854487 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
59854527 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
59854567 TAGTAACTCGCAC-AATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
59854606 TAGT-ACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
59854643 CATCATTCGA
Statistics
Matches: 148, Mismatches: 3, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
38 2 0.01
39 54 0.36
40 91 0.61
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:59862655 original size:40 final size:40
Alignment explanation
Indices: 59862611--59862834 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
59862601 GCTACTCGTT
* * *
59862611 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
59862651 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
59862691 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
*
59862731 CAAATGCCTTC-GGATCTTAG-TCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
59862770 CAATTGCCTT-AGGATCTTAG-TCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
59862810 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59862835 CATCATTCGA
Statistics
Matches: 166, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
39 63 0.38
40 101 0.61
41 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:59862767 original size:39 final size:40
Alignment explanation
Indices: 59862639--59862834 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
59862629 AGCCCGGTTA
*
59862639 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
59862679 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
59862719 TAGTAACTCGCACAAATGCCTTCGGATCTTAGT-CGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
59862758 TAGTAACTCGCACAATTGCCTTAGGATCTTAGT-CGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
59862797 TAGTAACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
59862835 CATCATTCGA
Statistics
Matches: 144, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
39 63 0.44
40 80 0.56
41 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:59862785 original size:79 final size:77
Alignment explanation
Indices: 59862639--59862827 Score: 265
Period size: 79 Copynumber: 2.4 Consensus size: 77
59862629 AGCCCGGTTA
* *
59862639 TAGTAGCTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTC-GGACTTAT-CCGGATTTAGTAACTCGCACAAATGCCTTAGG
59862704 ATCTTAGTCCGGATT
64 ATCTTAGT-CGGATT
*
59862719 TAGTAACTCGCACAAATGCCTTCGGATCTTAGT-CGGATTTAGTAACTCGCACAATTGCCTTAGG
1 TAGTAACTCGCACAAATGCCTTCGGA-CTTA-TCCGGATTTAGTAACTCGCACAAATGCCTTAGG
59862783 ATCTTAGTCGGATT
64 ATCTTAGTCGGATT
*
59862797 TAGTAACTTAGCACAAA-GCCTTCGGGACTTA
1 TAGTAAC-TCGCACAAATGCCTTC-GGACTTA
59862828 GCCCGGACAT
Statistics
Matches: 101, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
78 23 0.23
79 51 0.50
80 26 0.26
81 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (77 bp):
TAGTAACTCGCACAAATGCCTTCGGACTTATCCGGATTTAGTAACTCGCACAAATGCCTTAGGAT
CTTAGTCGGATT
Found at i:59868751 original size:40 final size:39
Alignment explanation
Indices: 59868640--59868753 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
59868630 GAATGTTCGA
59868640 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* * *
59868679 ATGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* *
59868718 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
59868754 GGTTACCATA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 50 0.75
40 17 0.25
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
Found at i:59868769 original size:40 final size:39
Alignment explanation
Indices: 59868641--59868783 Score: 169
Period size: 39 Copynumber: 3.6 Consensus size: 39
59868631 AATGTTCGAG
* *
59868641 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
59868680 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * *
59868719 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** *
59868759 CCATAACCGGGCTATGTCCCGAAGG
1 TGATAACCGGGCTAAG-CCCGAAGG
59868784 TGTTTGAACG
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 50 0.56
40 40 0.44
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:59878221 original size:16 final size:16
Alignment explanation
Indices: 59878185--59878221 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
59878175 GTCAACAACT
59878185 TTTTCGGCTTTTCAGC
1 TTTTCGGCTTTTCAGC
* *
59878201 CTTTCGGCTTTTCAGG
1 TTTTCGGCTTTTCAGC
59878217 TTTTC
1 TTTTC
59878222 AGCCTTTGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.05, C:0.24, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTTCGGCTTTTCAGC
Found at i:59883774 original size:79 final size:82
Alignment explanation
Indices: 59883634--59883818 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
59883624 TCGAATGATG
* * *
59883634 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
59883698 CGTGCGAGAT-AATA-AA
66 CGTGCGAG-TCAATATAA
* **
59883714 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
59883776 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
59883794 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59883819 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:59883798 original size:40 final size:40
Alignment explanation
Indices: 59883635--59883826 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 40
59883625 CGAATGATGT
* * * *
59883635 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
* * * * *
59883675 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGAT-AATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TCACTAAAC
* *
59883715 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
* *
59883754 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
** *
59883794 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTC
59883827 GTTATATCCG
Statistics
Matches: 124, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.25
40 82 0.66
41 10 0.08
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:59883849 original size:79 final size:79
Alignment explanation
Indices: 59883634--59883851 Score: 176
Period size: 79 Copynumber: 2.7 Consensus size: 79
59883624 TCGAATGATG
* * * * ** *
59883634 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
59883697 TCGTGCGAGATAATAAA
63 TCGTGCGAGATAATAAA
* * * *
59883714 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
59883779 TGCGAG-TCACTATAA
66 TGCGAGAT-AATA-AA
** * ** * *
59883794 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
59883852 TACGTGATTC
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
78 1 0.01
79 68 0.60
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGATAATAAA
Found at i:59891814 original size:79 final size:82
Alignment explanation
Indices: 59891674--59891858 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
59891664 TCGAATGATG
* * *
59891674 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
59891738 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
59891754 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
59891816 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
59891834 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59891859 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:59891866 original size:40 final size:40
Alignment explanation
Indices: 59891675--59891866 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
59891665 CGAATGATGT
* * * * *
59891675 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
59891715 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
59891755 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
59891794 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
59891834 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
59891867 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:59891889 original size:79 final size:79
Alignment explanation
Indices: 59891674--59891891 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
59891664 TCGAATGATG
* * * * ** *
59891674 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
59891737 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
59891754 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
59891819 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
59891834 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
59891892 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:59903245 original size:40 final size:40
Alignment explanation
Indices: 59903172--59903379 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
59903162 CAATTGAATG
* * ** *
59903172 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
59903212 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* * **
59903252 ACATCCGGGCTAAGACCCGAAGGGATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
59903292 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
59903332 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
59903372 ATATCCGG
1 ATATCCGG
59903380 TTGTATTCCG
Statistics
Matches: 137, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
39 3 0.02
40 130 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:59903310 original size:80 final size:80
Alignment explanation
Indices: 59903174--59903379 Score: 209
Period size: 80 Copynumber: 2.6 Consensus size: 80
59903164 ATTGAATGAT
* * ** * ** * * *
59903174 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGG-CAT
*
59903238 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
59903254 ATCCGGGCTAAGACCCGAAGGGATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
** *
59903319 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
59903334 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
59903380 TTGTATTCCG
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
79 2 0.02
80 100 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:59909737 original size:40 final size:40
Alignment explanation
Indices: 59909692--59909821 Score: 158
Period size: 40 Copynumber: 3.2 Consensus size: 40
59909682 CGGAATATAA
*
59909692 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
59909732 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
59909772 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
59909812 CCGGATATAA
1 CCGGATATAA
59909822 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 72 0.94
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59909836 original size:40 final size:40
Alignment explanation
Indices: 59909708--59909859 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
59909698 ATAAGCATGT
* * *
59909708 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
59909748 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
59909788 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * * *
59909828 GCATAATTGTCTTCGGGGCTTAGCCCAGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
59909860 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:59909842 original size:80 final size:80
Alignment explanation
Indices: 59909708--59909859 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
59909698 ATAAGCATGT
* *
59909708 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
*
59909773 CGGATATAGCCACTA
66 CAGATATAGCCACTA
* * ** * *
59909788 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
59909851 CCCAGATAT
64 CCCAGATAT
59909860 CATTCAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CAGATATAGCCACTA
Found at i:59921895 original size:37 final size:37
Alignment explanation
Indices: 59921784--59921896 Score: 181
Period size: 37 Copynumber: 3.1 Consensus size: 37
59921774 CTTTAGCTCA
* *
59921784 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
59921821 AACAAAATCTCCACACGTAGTCATCGAGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
59921858 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
59921895 GA
1 GA
59921897 ATATATTTCC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:59922181 original size:50 final size:50
Alignment explanation
Indices: 59922046--59922192 Score: 244
Period size: 50 Copynumber: 3.0 Consensus size: 50
59922036 CATCGCCTAC
* *
59922046 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
59922096 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
59922146 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
59922193 TCACCACATT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 6 0.06
50 86 0.92
51 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:59922242 original size:47 final size:47
Alignment explanation
Indices: 59922151--59922295 Score: 222
Period size: 47 Copynumber: 3.1 Consensus size: 47
59922141 TATATATATT
* * *
59922151 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
59922196 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
59922243 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
59922290 TCACAT
1 TCACAT
59922296 AAAATCCTAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 19 0.21
46 1 0.01
47 70 0.78
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:59926097 original size:18 final size:19
Alignment explanation
Indices: 59926076--59926112 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
59926066 TGAAAACACT
59926076 TCTTAA-AATAAAAAAAAA
1 TCTTAATAATAAAAAAAAA
*
59926094 TCTTAATTATAAAAAAAAA
1 TCTTAATAATAAAAAAAAA
59926113 ACTCATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
TCTTAATAATAAAAAAAAA
Found at i:59927175 original size:29 final size:29
Alignment explanation
Indices: 59927138--59927239 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
59927128 GACCCAGCTT
* **
59927138 CATTTATATGGCCCATCAGGCTAAATTCA
1 CATTCATATGGCCCATCAGGCCGAATTCA
* *
59927167 CATTCATATGGCCCATCAGGCCGACTACA
1 CATTCATATGGCCCATCAGGCCGAATTCA
*
59927196 TATTCATATGGCCCATCAGGCCGAATTCA
1 CATTCATATGGCCCATCAGGCCGAATTCA
*
59927225 TATTCATATGGCCCA
1 CATTCATATGGCCCA
59927240 AATCACCTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCGAATTCA
Found at i:59927517 original size:16 final size:16
Alignment explanation
Indices: 59927493--59927536 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
59927483 GCAGCTAAAC
*
59927493 TTTCGGCTTTTCGA-CA
1 TTTCAGCTTTT-GAGCA
*
59927509 TTTCAGCTTTTTAGCA
1 TTTCAGCTTTTGAGCA
59927525 TTTCAGCTTTTG
1 TTTCAGCTTTTG
59927537 CCGATCTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.14, C:0.20, G:0.16, T:0.50
Consensus pattern (16 bp):
TTTCAGCTTTTGAGCA
Found at i:59928791 original size:16 final size:16
Alignment explanation
Indices: 59928770--59928801 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59928760 AAATTCAAGA
59928770 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
59928786 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
59928802 GCGTTACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.38, T:0.50
Consensus pattern (16 bp):
TTTCGGGATTTTTGGG
Found at i:59930216 original size:11 final size:11
Alignment explanation
Indices: 59930197--59930227 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
59930187 TTAAATGTTA
*
59930197 TATTCTATGCT
1 TATTATATGCT
59930208 TATTATATGCT
1 TATTATATGCT
59930219 TATTATATG
1 TATTATATG
59930228 TGGAAGTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (11 bp):
TATTATATGCT
Found at i:59932408 original size:39 final size:39
Alignment explanation
Indices: 59932352--59932465 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
59932342 TAGTGATGTT
* *
59932352 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAATCA
59932391 TATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAATCA
1 TATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAATCA
* *
59932430 TAACTGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
59932466 ATATGTCTAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (39 bp):
TATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAATCA
Found at i:59938381 original size:29 final size:29
Alignment explanation
Indices: 59938305--59938420 Score: 112
Period size: 29 Copynumber: 4.0 Consensus size: 29
59938295 TTGGCCCAGT
* *
59938305 TTCAT-TT-ATATGGCCCATCAGGCTAAA
1 TTCATATTCATATGGCCCATTAGGCCAAA
* *
59938332 TTCACATTCATATGGCCCATTAGGCCGAA
1 TTCATATTCATATGGCCCATTAGGCCAAA
*
59938361 TTCATATTCATATGGCCCATTAGACCCAAA
1 TTCATATTCATATGGCCCATTAG-GCCAAA
* * * *
59938391 -TCATCTTTATATGACCCGTTAGGCCCAAA
1 TTCATATTCATATGGCCCATTAGG-CCAAA
59938420 T
1 T
59938421 CACCTTATAT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.06
28 2 0.03
29 62 0.86
30 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
TTCATATTCATATGGCCCATTAGGCCAAA
Found at i:59945731 original size:35 final size:35
Alignment explanation
Indices: 59945685--59945756 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
59945675 GCACCACTAG
*
59945685 TAGGCTTCTTCCCTAAGTAGTGACACGGCTCCTTT
1 TAGGCTTCTTCCCTAAGTAGTGACACAGCTCCTTT
*
59945720 TAGGCTTCTTCCTTAAGTAGTGACACAGCTCCTTT
1 TAGGCTTCTTCCCTAAGTAGTGACACAGCTCCTTT
59945755 TA
1 TA
59945757 ACTTTTGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.36
Consensus pattern (35 bp):
TAGGCTTCTTCCCTAAGTAGTGACACAGCTCCTTT
Found at i:59951061 original size:13 final size:13
Alignment explanation
Indices: 59951043--59951069 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59951033 GAAGAAATCG
59951043 CACACGGGCGTGT
1 CACACGGGCGTGT
59951056 CACACGGGCGTGT
1 CACACGGGCGTGT
59951069 C
1 C
59951070 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:59953340 original size:34 final size:34
Alignment explanation
Indices: 59953265--59953340 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
59953255 ATTGCATTTT
* * * *
59953265 TGTTACAGTTACTGTAATGGGCTAAGGCTCACAT
1 TGTTACTGATACTGTAATGGGCTAAGGCTCAAAC
* *
59953299 TGCTACTGATACTGTATTGGGCTAAGGC-CATAAC
1 TGTTACTGATACTGTAATGGGCTAAGGCTCA-AAC
59953333 TGTTACTG
1 TGTTACTG
59953341 GACTATTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
33 2 0.06
34 32 0.94
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (34 bp):
TGTTACTGATACTGTAATGGGCTAAGGCTCAAAC
Found at i:59954659 original size:22 final size:23
Alignment explanation
Indices: 59954634--59954676 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
59954624 GAAAATTTTT
59954634 AATTTTAATTAATTTT-ATAATA
1 AATTTTAATTAATTTTGATAATA
*
59954656 AATTTTGATTAATTTTGATAA
1 AATTTTAATTAATTTTGATAA
59954677 ATTTCGGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (23 bp):
AATTTTAATTAATTTTGATAATA
Found at i:59956939 original size:40 final size:41
Alignment explanation
Indices: 59956894--59957060 Score: 182
Period size: 40 Copynumber: 4.2 Consensus size: 41
59956884 CGGAATATAA
*
59956894 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
59956934 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
59956974 CCGGATATAA-CCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59957014 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
59957053 CCGGATAT
1 CCGGATAT
59957061 CATTCAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
39 16 0.15
40 93 0.85
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59957905 original size:17 final size:19
Alignment explanation
Indices: 59957882--59957927 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59957872 AAGAAGCATG
59957882 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
59957900 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
59957918 AATCATGCTC
1 AATCATGCTC
59957928 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:59971666 original size:28 final size:29
Alignment explanation
Indices: 59971635--59971711 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
59971625 CATACCCTCG
** *
59971635 AGCTCGCACACCCAGTGCCGTAT-TTTTC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
59971663 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
59971692 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
59971712 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 19 0.47
29 21 0.52
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:59979956 original size:43 final size:43
Alignment explanation
Indices: 59979791--59979957 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
59979781 CATAAGCTCG
* * * * *
59979791 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
* * * ** * *
59979832 TATCGATGCCATTGTCCCAGACAAGGTCTTACACAAAAT-TGAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
* * *
59979875 TAACGATGCCAATGACCCAGACATGGCCTTACACGTAATCTCAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
*
59979919 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
59979958 ATCTCGATAA
Statistics
Matches: 97, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 85 0.88
44 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
Found at i:59982084 original size:41 final size:41
Alignment explanation
Indices: 59982017--59982242 Score: 269
Period size: 41 Copynumber: 5.5 Consensus size: 41
59982007 TAATATCTCA
* *
59982017 CACACTAAGTGTCATACATAGCCGAAGCTATCTCGATCTTG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCGATCTTG
* *
59982058 CACACTAAGTGCCATATATAGTCGAAGCTATCTCAATCTCT-
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCGATCT-TG
* * *
59982099 CACACTAAGTGCTAGATGTAGCCGAAGCTATCTCGATCTTG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCGATCTTG
* * *
59982140 CACACTAAGTGCTATATGTAGCCGAAGCTATCTCGATCTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCGATCTTG
* * * * *
59982181 CACACTAAGTGCCATATATATCTGAAGCTATGTCAAATC--A
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTC-GATCTTG
*
59982221 CACACTAAGTGCCACATATAGC
1 CACACTAAGTGCCATATATAGC
59982243 TGAATTGTCG
Statistics
Matches: 162, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
40 21 0.13
41 137 0.85
42 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (41 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCGATCTTG
Found at i:59993230 original size:11 final size:12
Alignment explanation
Indices: 59993198--59993239 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
59993188 ATTTCAACAT
59993198 ATAAATAAAGATA
1 ATAAATAAA-ATA
59993211 A-AAATAAAATA
1 ATAAATAAAATA
59993222 ATAAA-AAAATA
1 ATAAATAAAATA
59993233 A-AAATAA
1 ATAAATAA
59993240 TAGGTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.11
11 13 0.48
12 10 0.37
13 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (12 bp):
ATAAATAAAATA
Found at i:59993236 original size:17 final size:16
Alignment explanation
Indices: 59993210--59993241 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
59993200 AAATAAAGAT
59993210 AAAAATAAAATAATAA
1 AAAAATAAAATAATAA
59993226 AAAAATAAAAATAATA
1 AAAAAT-AAAATAATA
59993242 GGTGTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATAAAATAATAA
Found at i:59994752 original size:40 final size:40
Alignment explanation
Indices: 59994696--59994875 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 40
59994686 TCAAAACACG
* * ** * *
59994696 TTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATCATAACTCGCACAATTGCC
* *
59994736 TTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCC
1 TTCGGGACTTAGCCCGGATATCATAACTCGCACAATTGCC
*
59994776 TTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTGCC
1 TTCGGGACTTAGCCCGGATATCATAACTCGCACAATTGCC
* * * *
59994815 TTCGGG-GTGAGCCCGGATATCACAATTCGCACAATTGCC
1 TTCGGGACTTAGCCCGGATATCATAACTCGCACAATTGCC
*
59994854 TTCGGG-CTTAGCCCGTATATCA
1 TTCGGGACTTAGCCCGGATATCA
59994876 CTCGAACATT
Statistics
Matches: 121, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 83 0.69
40 38 0.31
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATCATAACTCGCACAATTGCC
Found at i:59994805 original size:39 final size:39
Alignment explanation
Indices: 59994724--59994876 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
59994714 TATGGTAACC
* *
59994724 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
59994764 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
59994803 CGCACAATTGCCTTCGGGGTGAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
59994842 CGCACAATTGCCTTCGGGCTTAGCCCGTATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
59994877 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 84 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:60018706 original size:43 final size:42
Alignment explanation
Indices: 60018659--60018755 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
60018649 CCAGACGTGT
*
60018659 TCTTACATGTAATCAAACATCGATG-CCACTGTCCCAAATAGGG
1 TCTTACATGTAATCAAACA-CGATGTCCA-TGTCCCAAACAGGG
* * * * *
60018702 TCTTACATGAAATCAGATACGATGTCGATGTCCCAAACATGG
1 TCTTACATGTAATCAAACACGATGTCCATGTCCCAAACAGGG
*
60018744 TCTTACACGTAA
1 TCTTACATGTAA
60018756 AACAAAAGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
42 27 0.60
43 18 0.40
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
TCTTACATGTAATCAAACACGATGTCCATGTCCCAAACAGGG
Found at i:60024613 original size:13 final size:13
Alignment explanation
Indices: 60024595--60024624 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
60024585 TCACTAACAC
60024595 ATTAGACTTACGA
1 ATTAGACTTACGA
60024608 ATTAGACTTACGA
1 ATTAGACTTACGA
60024621 ATTA
1 ATTA
60024625 ACGATAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATTAGACTTACGA
Found at i:60024646 original size:31 final size:31
Alignment explanation
Indices: 60024608--60024668 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
60024598 AGACTTACGA
60024608 ATTAGACTTACGAATTAACGATAACTAACAC
1 ATTAGACTTACGAATTAACGATAACTAACAC
60024639 ATTAGACTTACGAATTAACGATAACTAACA
1 ATTAGACTTACGAATTAACGATAACTAACA
60024669 TAAATCCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (31 bp):
ATTAGACTTACGAATTAACGATAACTAACAC
Found at i:60024789 original size:27 final size:27
Alignment explanation
Indices: 60024759--60024958 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
60024749 GGGGCAAAAT
* * * *
60024759 GGTAATTTTACCCCAGAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
60024786 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
60024813 AGTATTTCTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
60024840 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
60024867 GGTAATTCTACCCTTCAGGGGGATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
60024894 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
60024921 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
60024948 AGTAATTCTAC
1 GGTAATTCTAC
60024959 AACTTATCCA
Statistics
Matches: 149, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:60027419 original size:44 final size:43
Alignment explanation
Indices: 60027277--60027440 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
60027267 AGCTCGTACA
* * * * * *
60027277 ATGCCAACGTCCCAGATATGGTCTCACATGTAATC-AAATAAGG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCTCAA-AACG
* * * * *
60027320 ATGCCACTGTCTCAGACAGGGTCTTACACGAAA--TCAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCTCAAA-ACG
*
60027362 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCTCAAACCG
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AAATCTCAAAACG
*
60027406 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATC
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATC
60027441 ACATATCGAA
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 33 0.33
44 30 0.30
45 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCTCAAAACG
Found at i:60033098 original size:7 final size:7
Alignment explanation
Indices: 60033086--60033123 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
60033076 AAATTAAAGT
60033086 AAAATCC
1 AAAATCC
60033093 AAAATCC
1 AAAATCC
*
60033100 AAAGTCC
1 AAAATCC
60033107 ACAAA-CC
1 A-AAATCC
60033114 AAAATCC
1 AAAATCC
60033121 AAA
1 AAA
60033124 TAGTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 3 0.11
7 22 0.81
8 2 0.07
ACGTcount: A:0.58, C:0.29, G:0.03, T:0.11
Consensus pattern (7 bp):
AAAATCC
Found at i:60035797 original size:46 final size:45
Alignment explanation
Indices: 60035703--60035823 Score: 120
Period size: 46 Copynumber: 2.6 Consensus size: 45
60035693 TCAGGTTATT
**
60035703 TGTATGCCAGTGTAAGACATGTATGGGACATGCATCGGCCTCGAGA
1 TGTA-GCCAGTGTAAGACATGTATGGGACACACATCGGCCTCGAGA
* * * *
60035749 TGTAAGCCAGTGAAAGACATGTCTGGGACACACATTGG-CTACGTGA
1 TGT-AGCCAGTGTAAGACATGTATGGGACACACATCGGCCT-CGAGA
* *
60035795 TGT-GTCAGTGTAAGACCATGTTTGGGACA
1 TGTAGCCAGTGTAAGA-CATGTATGGGACA
60035824 TGGCATCGGC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
44 10 0.16
45 14 0.22
46 38 0.60
47 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
TGTAGCCAGTGTAAGACATGTATGGGACACACATCGGCCTCGAGA
Found at i:60035918 original size:47 final size:49
Alignment explanation
Indices: 60035800--60035927 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 49
60035790 CGTGATGTGT
*
60035800 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCACTGATACGTGAGAGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCACTGATACAT-AGAGC
* * *
60035850 TAGTGTAAGACCATGTCTGGGAAATGGCATC-G-ACTTGATGA-AT-GAGC
1 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCAC-TGAT-ACATAGAGC
60035897 CAGTGTAAGACCATGTTTGGGACATGGCATC
1 CAGTGTAAGACCATGTTTGGGACATGGCATC
60035928 AGCATTATAC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
47 32 0.46
48 2 0.03
49 6 0.09
50 29 0.42
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTTTGGGACATGGCATCGGCACTGATACATAGAGC
Found at i:60038696 original size:28 final size:28
Alignment explanation
Indices: 60038631--60038731 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
60038621 ATAGTGAATC
*
60038631 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
60038660 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
60038688 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
60038718 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60038732 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:60044386 original size:6 final size:6
Alignment explanation
Indices: 60044375--60044410 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
60044365 AAATTTTGAA
*
60044375 AAAAAT AAAAAT AAAAAT AAAAAT AAAAGT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
60044411 GAATTCTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:60046594 original size:17 final size:18
Alignment explanation
Indices: 60046552--60046600 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
60046542 AGTTGAAAAG
60046552 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
60046571 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
60046588 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
60046601 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:60047485 original size:40 final size:40
Alignment explanation
Indices: 60047419--60047585 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
60047409 AAATTGAATG
* * *
60047419 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
60047458 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
60047498 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
60047538 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
60047578 ATATCCGG
1 ATATCCGG
60047586 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Done.