Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 18 of 182
Found at i:6423080 original size:47 final size:47
Alignment explanation
Indices: 6423011--6423234 Score: 167
Period size: 47 Copynumber: 4.8 Consensus size: 47
6423001 GCCACATTAT
6423011 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCATTGAGAC
* * * * *
6423059 GAGAGCTAGTGTAAGA-CATGTCTAGGACATCCATC-GACCTCGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCAG-CATTGAGAC
* * * * *
6423105 GTA-AGCCAGTGTCAGA-CATGTCTAGGACATGCATCGGC-TACGAGAT
1 G-AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCAT-TGAGAC
* * * * *
6423151 GATAGTCACTGTAAGACCATGTCTGAGACATGGCAT-TG-ATTTGAGA-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCA-TTGAGAC
* *
6423197 TATGAGCCAGTGTAAGATCATGTCTGGGACATGGCATC
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATC
6423235 GGCAACTTAC
Statistics
Matches: 143, Mismatches: 22, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 59 0.41
47 61 0.43
48 20 0.14
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCATTGAGAC
Found at i:6423122 original size:46 final size:47
Alignment explanation
Indices: 6423011--6423235 Score: 162
Period size: 46 Copynumber: 4.8 Consensus size: 47
6423001 GCCACATTAT
* *
6423011 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGAGCATCGAGAC
* * *
6423059 GAGAGCTAGTGTAAGACATGTCTAGGACATCCATCGA-CCTCGAGAC
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGAGCATCGAGAC
* *
6423105 GTA-AGCCAGTGTCAGACATGTCTAGGACATGCATCG-GC-TACGAGAT
1 G-AGAGCCAGTGTAAGACATGTCTAGGACATGCATCGAGCAT-CGAGAC
* * * * * *
6423151 GATAGTCACTGTAAGACCATGTCT-GAGACATGGCATTGA--TTTGAGA-
1 GAGAGCCAGTGTAAGA-CATGTCTAG-GACAT-GCATCGAGCATCGAGAC
* *
6423197 TATGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCG
1 GA-GAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCG
6423236 GCAACTTACC
Statistics
Matches: 145, Mismatches: 20, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
45 2 0.01
46 61 0.42
47 60 0.41
48 22 0.15
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGAGCATCGAGAC
Found at i:6435025 original size:17 final size:17
Alignment explanation
Indices: 6435003--6435038 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6434993 AACTGGAGGC
* *
6435003 TTGCTTACTTGGATTGG
1 TTGCTTACTCGCATTGG
6435020 TTGCTTACTCGCATTGG
1 TTGCTTACTCGCATTGG
6435037 TT
1 TT
6435039 CCAAACCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (17 bp):
TTGCTTACTCGCATTGG
Found at i:6438263 original size:25 final size:25
Alignment explanation
Indices: 6438235--6438304 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
6438225 CTCTTTTAAT
6438235 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
6438260 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
6438285 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
6438305 AGCACTTCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:6438408 original size:10 final size:11
Alignment explanation
Indices: 6438338--6438412 Score: 66
Period size: 10 Copynumber: 7.1 Consensus size: 11
6438328 ACCCAACCCA
*
6438338 TGCATATAATG
1 TGCATATCATG
* *
6438349 AGTATATCAT-
1 TGCATATCATG
*
6438359 AGCATATCATG
1 TGCATATCATG
6438370 TGCATATCAT-
1 TGCATATCATG
**
6438380 AACATATCATG
1 TGCATATCATG
6438391 TGCATATCATG
1 TGCATATCATG
*
6438402 T-CCTATCATG
1 TGCATATCATG
6438412 T
1 T
6438413 ATAACAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
10 26 0.50
11 26 0.50
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (11 bp):
TGCATATCATG
Found at i:6438412 original size:21 final size:21
Alignment explanation
Indices: 6438352--6438400 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
6438342 TATAATGAGT
*
6438352 ATATCATAGCATATCATGTGC
1 ATATCATAACATATCATGTGC
6438373 ATATCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
6438394 ATATCAT
1 ATATCAT
6438401 GTCCTATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:6438555 original size:27 final size:27
Alignment explanation
Indices: 6438525--6439124 Score: 936
Period size: 27 Copynumber: 22.2 Consensus size: 27
6438515 GTGCAAAATG
* * * *
6438525 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTTA
* * *
6438552 GTAATTCTACCCTATAGGGGTA-TTTC
1 GTAATTCTACCCTACAAGGGTATTTTA
* * * *
6438578 GATATTTCTACCTTATAAGGGTATTTCCA
1 G-TAATTCTACCCTACAAGGGTATTT-TA
* *
6438607 -TAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438633 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
*
6438660 GTAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTTA
* *
6438687 GTAATTCTACCCTACAGGGGTA-TTTC
1 GTAATTCTACCCTACAAGGGTATTTTA
* * *
6438713 GATAATTCTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTTA
* *
6438741 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438768 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438795 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438822 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438849 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438876 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438903 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438930 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438957 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6438984 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6439011 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
6439038 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
*
6439065 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTTA
* *
6439092 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTTA
6439119 GTAATT
1 GTAATT
6439125 TTGTAAACCA
Statistics
Matches: 536, Mismatches: 31, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
26 8 0.01
27 523 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTTA
Found at i:6439219 original size:53 final size:54
Alignment explanation
Indices: 6439144--6439274 Score: 183
Period size: 53 Copynumber: 2.4 Consensus size: 54
6439134 AAGGGTATTT
* * * * *
6439144 TGGTAATTTTACAAGTCAAGGGTAAAACGGTAATTCTATAAATCGA-GGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
*
6439197 TGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
* *
6439251 TAGTAATTCTGTAAATCGAGGGTA
1 TGGTAATTCTATAAATCGAGGGTA
6439275 CTTTGGTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
53 40 0.58
54 29 0.42
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
TGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
Found at i:6439285 original size:27 final size:27
Alignment explanation
Indices: 6439144--6439274 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
6439134 AAGGGTATTT
* * * *
6439144 TGGTAATTTTACAAGTCAAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
*
6439171 CGGTAATTCTATAAATCGA-GGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
6439197 TGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
*
6439224 TAGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCGAGGGTAAAA
* *
6439251 TAGTAATTCTGTAAATCGAGGGTA
1 TGGTAATTCTATAAATCGAGGGTA
6439275 CTTTGGTAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.26
27 70 0.74
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
TGGTAATTCTATAAATCGAGGGTAAAA
Found at i:6442180 original size:57 final size:56
Alignment explanation
Indices: 6442119--6442234 Score: 135
Period size: 57 Copynumber: 2.0 Consensus size: 56
6442109 CATACATGCA
* * * *
6442119 TATGGCCTACTAGGCCCAATAT-CATTCATATGGCCCATTAGGCCTAAATCATATTCG
1 TATGGCCCACTAGGCCCAA-ATCCATTCATAGGGCCCATTAGGCCCAAA-CACATTCG
* * *
6442176 TATGGCCCATTAGGCCCAAATGCCATTTATAGGGCCCATTCGGCCCAAACACATTCG
1 TATGGCCCACTAGGCCCAAAT-CCATTCATAGGGCCCATTAGGCCCAAACACATTCG
6442233 TA
1 TA
6442235 GTCATGCAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 2 0.04
57 26 0.52
58 22 0.44
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (56 bp):
TATGGCCCACTAGGCCCAAATCCATTCATAGGGCCCATTAGGCCCAAACACATTCG
Found at i:6442211 original size:29 final size:27
Alignment explanation
Indices: 6442118--6442224 Score: 106
Period size: 29 Copynumber: 3.8 Consensus size: 27
6442108 ACATACATGC
* * *
6442118 ATATGGCCTACTAGGCCCAATATCATTC
1 ATATGGCCCATTAGGCCCAA-ATCATTT
*
6442146 ATATGGCCCATTAGGCCTAAATCATATT
1 ATATGGCCCATTAGGCCCAAATCAT-TT
*
6442174 CGTATGGCCCATTAGGCCCAAATGCCATTT
1 -ATATGGCCCATTAGGCCCAAAT--CATTT
* *
6442204 ATAGGGCCCATTCGGCCCAAA
1 ATATGGCCCATTAGGCCCAAA
6442225 CACATTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 5 0.08
28 18 0.27
29 38 0.58
30 2 0.03
31 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (27 bp):
ATATGGCCCATTAGGCCCAAATCATTT
Found at i:6447415 original size:39 final size:39
Alignment explanation
Indices: 6447357--6447465 Score: 182
Period size: 39 Copynumber: 2.8 Consensus size: 39
6447347 AAGACACTGA
* *
6447357 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGTTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
6447396 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
6447435 AAATGTATCCGGGTTAAAGTCCCGCAGGCTT
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTT
6447466 TGTCCTGATA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:6447755 original size:31 final size:31
Alignment explanation
Indices: 6447720--6447782 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
6447710 AAATATGTGA
*
6447720 AGTTATGTGAAGTGATTCTGTGTTTATATTC
1 AGTTATGTGAAGTGATTCTATGTTTATATTC
6447751 AGTTATGTGAAGTGATTCTATGTTTATATTC
1 AGTTATGTGAAGTGATTCTATGTTTATATTC
6447782 A
1 A
6447783 AATATAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.48
Consensus pattern (31 bp):
AGTTATGTGAAGTGATTCTATGTTTATATTC
Found at i:6450133 original size:27 final size:27
Alignment explanation
Indices: 6450085--6450136 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6450075 ATTCAACACA
* *
6450085 TAGGGGTATTTTGGTCATTTTCTCTCG
1 TAGGGGCATTTTGGTCAATTTCTCTCG
6450112 TAGGGGCATTTTGGGT-AATTTCTCT
1 TAGGGGCATTTT-GGTCAATTTCTCT
6450137 TGTTATGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.46
Consensus pattern (27 bp):
TAGGGGCATTTTGGTCAATTTCTCTCG
Found at i:6455696 original size:22 final size:22
Alignment explanation
Indices: 6455668--6455710 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6455658 TTCTAAGTGT
6455668 TGAGCTTGAATATGTGGCCTAC
1 TGAGCTTGAATATGTGGCCTAC
6455690 TGAGCTTGAATATGTGGCCTA
1 TGAGCTTGAATATGTGGCCTA
6455711 ACAATTCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (22 bp):
TGAGCTTGAATATGTGGCCTAC
Found at i:6468384 original size:148 final size:148
Alignment explanation
Indices: 6468116--6468427 Score: 561
Period size: 148 Copynumber: 2.1 Consensus size: 148
6468106 TTTGGAGAGT
6468116 CACACGCCCGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
1 CACACGCCCGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
* * *
6468181 ATGGCCAAGTCAAACGCCCGTGTGCTTAGGTAGTGTGGCGAATTAAATTCCAAAAATTAAGTGCA
66 ACGGCCAAGTCAAACGCCCGTGTGCTTAGGCAGTGTGGCGAATTAAATTCCAAAAATTAAGTACA
6468246 GACTTCACACGGCTTGGG
131 GACTTCACACGGCTTGGG
*
6468264 CACACGCCTGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
1 CACACGCCCGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
*
6468329 ACGGCCAAGTCACACGCCCGTGTGCTTAGGCAGTGTGGCGAATTAAATTCCAAAAATTAAGTACA
66 ACGGCCAAGTCAAACGCCCGTGTGCTTAGGCAGTGTGGCGAATTAAATTCCAAAAATTAAGTACA
6468394 GACTTCACACGGCTTGGG
131 GACTTCACACGGCTTGGG
* *
6468412 CACACGTCCATGTCCT
1 CACACGCCCGTGTCCT
6468428 AAGGCCGTGT
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 156 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (148 bp):
CACACGCCCGTGTCCTCAGCTTGTGTAACTCTCTGACTATGACGTTATCAAGCAAATAAGGCCAC
ACGGCCAAGTCAAACGCCCGTGTGCTTAGGCAGTGTGGCGAATTAAATTCCAAAAATTAAGTACA
GACTTCACACGGCTTGGG
Found at i:6469093 original size:23 final size:23
Alignment explanation
Indices: 6469065--6469113 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
6469055 TTCGATGTAC
*
6469065 ATACCTGTGCCGACTTATACATA
1 ATACCTATGCCGACTTATACATA
6469088 ATACCTATGCCGACTTATACATA
1 ATACCTATGCCGACTTATACATA
6469111 ATA
1 ATA
6469114 ACTTAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (23 bp):
ATACCTATGCCGACTTATACATA
Found at i:6472441 original size:16 final size:16
Alignment explanation
Indices: 6472420--6472465 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
6472410 ATGTAACGCC
6472420 CCAAAAATCCCGAAA-T
1 CCAAAAATCCC-AAAGT
*
6472436 CCAAAAATCTCAAAGT
1 CCAAAAATCCCAAAGT
*
6472452 CCAAAAATCTCAAA
1 CCAAAAATCCCAAA
6472466 ATCCCAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 3 0.11
16 25 0.89
ACGTcount: A:0.52, C:0.28, G:0.04, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCAAAGT
Found at i:6474729 original size:114 final size:114
Alignment explanation
Indices: 6474529--6474758 Score: 460
Period size: 114 Copynumber: 2.0 Consensus size: 114
6474519 TGGGAATGCT
6474529 TAATAATTGATTTGTGGTTGAATTCTAGTTATGAAAATGAAATAAAGATGTGTCATGATTTACTG
1 TAATAATTGATTTGTGGTTGAATTCTAGTTATGAAAATGAAATAAAGATGTGTCATGATTTACTG
6474594 ATATGTGCATGAATATTCGGATGATAACGAAGGCATTTGTGCTAGTGAC
66 ATATGTGCATGAATATTCGGATGATAACGAAGGCATTTGTGCTAGTGAC
6474643 TAATAATTGATTTGTGGTTGAATTCTAGTTATGAAAATGAAATAAAGATGTGTCATGATTTACTG
1 TAATAATTGATTTGTGGTTGAATTCTAGTTATGAAAATGAAATAAAGATGTGTCATGATTTACTG
6474708 ATATGTGCATGAATATTCGGATGATAACGAAGGCATTTGTGCTAGTGAC
66 ATATGTGCATGAATATTCGGATGATAACGAAGGCATTTGTGCTAGTGAC
6474757 TA
1 TA
6474759 TATCCGGGCT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (114 bp):
TAATAATTGATTTGTGGTTGAATTCTAGTTATGAAAATGAAATAAAGATGTGTCATGATTTACTG
ATATGTGCATGAATATTCGGATGATAACGAAGGCATTTGTGCTAGTGAC
Found at i:6477240 original size:8 final size:8
Alignment explanation
Indices: 6477223--6477257 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
6477213 ATGCATCAGC
6477223 AAAAGCCG
1 AAAAGCCG
*
6477231 AAATGCCG
1 AAAAGCCG
*
6477239 AAAAGCCA
1 AAAAGCCG
6477247 AAAAGCCG
1 AAAAGCCG
6477255 AAA
1 AAA
6477258 GTTAGGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.54, C:0.23, G:0.20, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:6477518 original size:29 final size:29
Alignment explanation
Indices: 6477481--6477582 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
6477471 TGAATGTAAC
*
6477481 TGGGCCTAATAGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
6477510 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
6477539 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
6477567 TGGGCTTAGTGGGCCA
1 TGGGCCTAATGGGCCA
6477583 GATACAGGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 15 0.23
29 49 0.77
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:6477554 original size:58 final size:57
Alignment explanation
Indices: 6477481--6477591 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
6477471 TGAATGTAAC
* *
6477481 TGGGCCTAATAGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATAGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
6477539 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAGTGGGCCAGATACAGGT
1 TGGGCCTAATAGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
6477592 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (57 bp):
TGGGCCTAATAGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:6481929 original size:29 final size:28
Alignment explanation
Indices: 6481886--6481995 Score: 123
Period size: 29 Copynumber: 3.9 Consensus size: 28
6481876 TGATAGTATG
* *
6481886 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
6481914 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* *
6481943 CA-GATGATTTGGGCCTAATGGGCCATATG
1 AATG-TGA-TTGGGCCTAATGGGCCATATA
* * *
6481972 AATATGATTGGGCTTAGTGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
6481996 GATGTAGGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 23 0.32
29 48 0.68
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:6501920 original size:42 final size:42
Alignment explanation
Indices: 6501861--6501982 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
6501851 TTAGGGTTAC
6501861 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* ** * *
6501903 TGAGACTT-CGTGTAAGACCATACCTAGGCTTTTGGCATTGATA
1 TGAGA-TTACGTGTAAGACCATATCT-GGGATATGGCATCGATA
* *
6501946 TGAGATTACATGTAAGACCATATATGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
6501983 TGGTACGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:6505325 original size:43 final size:43
Alignment explanation
Indices: 6505275--6505425 Score: 166
Period size: 43 Copynumber: 3.5 Consensus size: 43
6505265 GATTAATGAG
**
6505275 ATGTGATTATGTGTAAGACCATGTCTGGGACATTAGCATCATT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCATT
* *
6505318 ATGTGATTACATGTAAAACCATGTCTGGGACATTGGCAT-AGTT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCA-TT
* * *
6505361 ATTTGATTTCATGTAAGACCATAGT-TGGG-CTATCAGCATCGA-T
1 ATGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTAGCATC-ATT
*
6505404 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
6505426 ATTTGGGATA
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
42 2 0.02
43 86 0.95
44 2 0.02
45 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCATT
Found at i:6506490 original size:19 final size:19
Alignment explanation
Indices: 6506454--6506492 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6506444 TTTTCATCAT
* *
6506454 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
6506473 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
6506492 A
1 A
6506493 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:6506997 original size:55 final size:56
Alignment explanation
Indices: 6506932--6507046 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
6506922 AGCATGGCTG
* *
6506932 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
6506988 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
6507043 CCAG
1 CCAG
6507047 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:6507009 original size:27 final size:27
Alignment explanation
Indices: 6506957--6507046 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
6506947 GTGACAGAGT
6506957 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
6506986 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
6507013 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
6507041 CACCAG
1 CACCAG
6507047 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:6507199 original size:28 final size:28
Alignment explanation
Indices: 6507152--6507216 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
6507142 AAATTAACCC
*
6507152 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
6507180 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
6507208 TAGGGGTAT
1 TAGGGGTAT
6507217 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:6520522 original size:40 final size:40
Alignment explanation
Indices: 6520476--6520700 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
6520466 CTTGCGCAAG
* * *
6520476 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
6520516 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
6520556 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
6520596 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGGACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
6520636 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
6520677 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
6520701 CATTCGAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.82
41 28 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:6520571 original size:80 final size:80
Alignment explanation
Indices: 6520440--6520700 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
6520430 CTCAAGTAAT
* * * * * * * *
6520440 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
6520503 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* *
6520518 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
6520582 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * * *
6520598 CTTCGGGTCTTAGCCCGGATATAGCAACTCGGACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
6520663 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
6520679 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
6520701 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:6523089 original size:49 final size:51
Alignment explanation
Indices: 6522964--6523098 Score: 159
Period size: 49 Copynumber: 2.7 Consensus size: 51
6522954 TCTATTGTGA
* *
6522964 GGTCGCATGTGTAGTACTAAGTGCA-GCTACTATGCATACCCTATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCACACCCGATAACTTC
* * * * ** *
6523014 GATCACGTGAGTAGTACTAAGTGCAGGCTACTATGTGCACCGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCACACCCGATAACTTC
*
6523063 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
6523099 GTACCAGATA
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
49 30 0.43
50 23 0.33
51 16 0.23
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCACACCCGATAACTTC
Found at i:6529202 original size:19 final size:18
Alignment explanation
Indices: 6529178--6529219 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
6529168 CACACGGCTA
*
6529178 AGGCCAAATTTGGGCTTGT
1 AGGCC-AATATGGGCTTGT
6529197 AGGCC-ATATGGGCTTGT
1 AGGCCAATATGGGCTTGT
*
6529214 GGGCCA
1 AGGCCA
6529220 CATGGGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 15 0.75
19 5 0.25
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (18 bp):
AGGCCAATATGGGCTTGT
Found at i:6529208 original size:17 final size:17
Alignment explanation
Indices: 6529188--6529244 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
6529178 AGGCCAAATT
*
6529188 TGGGCTTGTAGGCCATA
1 TGGGCTTGTAGGCCACA
*
6529205 TGGGCTTGTGGGCCACA
1 TGGGCTTGTAGGCCACA
*
6529222 TGGG-TGTGTGAGCCCACA
1 TGGGCT-TGT-AGGCCACA
6529240 TGGGC
1 TGGGC
6529245 CCGCATTATG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 22 0.67
18 10 0.30
ACGTcount: A:0.14, C:0.21, G:0.40, T:0.25
Consensus pattern (17 bp):
TGGGCTTGTAGGCCACA
Found at i:6533326 original size:26 final size:26
Alignment explanation
Indices: 6533269--6533342 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
6533259 CCAAAATTGA
* *
6533269 TAAATGACTATTTTTCCCTTATGTGG
1 TAAATGACTATTTTGCCCTTCTGTGG
6533295 TAAAATGACTATTTTGCCCTTCTAG-GG
1 T-AAATGACTATTTTGCCCTTCT-GTGG
* *
6533322 TAAATGACTGTTTGGCCCTTC
1 TAAATGACTATTTTGCCCTTC
6533343 AATGACTGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.45
27 22 0.52
28 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (26 bp):
TAAATGACTATTTTGCCCTTCTGTGG
Found at i:6540047 original size:43 final size:43
Alignment explanation
Indices: 6539999--6540106 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
6539989 GATTAATGAG
* * *
6539999 ATGTGATTATCTGTAAGACCATGTCTGGGACATTGTCATTATT
1 ATGTGATTATCTGTAAGACCATGTCTGAGACATTGGCATCATT
* *
6540042 ATGTGATTA-CGTGTAAAACCATGTCTGAGACATTGGCATCGTT
1 ATGTGATTATC-TGTAAGACCATGTCTGAGACATTGGCATCATT
* * *
6540085 ATTTGATTTTGTGTAAGACCAT
1 ATGTGATTATCTGTAAGACCAT
6540107 AATTGGGCTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (43 bp):
ATGTGATTATCTGTAAGACCATGTCTGAGACATTGGCATCATT
Found at i:6542462 original size:13 final size:13
Alignment explanation
Indices: 6542444--6542470 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6542434 TGAATTAATA
6542444 TGTGTGAAAATTT
1 TGTGTGAAAATTT
6542457 TGTGTGAAAATTT
1 TGTGTGAAAATTT
6542470 T
1 T
6542471 ATCGTTTGTG
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:6547633 original size:27 final size:27
Alignment explanation
Indices: 6547595--6547687 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
6547585 CCTTAGCGAC
*
6547595 ATTTAGGTAATTTTACAAGTCAAGGGT
1 ATTTTGGTAATTTTACAAGTCAAGGGT
* * *
6547622 ATTTCGGTAATTGTACAGGTCAAGGGT
1 ATTTTGGTAATTTTACAAGTCAAGGGT
* * * * *
6547649 ATTTTGATAATTTCACAAATTAGGGGT
1 ATTTTGGTAATTTTACAAGTCAAGGGT
6547676 ATTTTGGTAATT
1 ATTTTGGTAATT
6547688 CCCTTTTATT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTTGGTAATTTTACAAGTCAAGGGT
Found at i:6548046 original size:29 final size:28
Alignment explanation
Indices: 6547980--6548053 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
6547970 AAGTCTACAT
* *
6547980 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* * *
6548008 TCAGTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
6548037 ACATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
6548054 GTGGCCTGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:6548059 original size:29 final size:27
Alignment explanation
Indices: 6547980--6548059 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 27
6547970 AAGTCTACAT
* *
6547980 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCA-TTGGCCCAATC
* * *
6548008 TCAGTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATT-GGCCC-AATC
6548037 ACATTCATATGGCCCATGTGGCC
1 ACATTCATATGGCCCAT-TGGCC
6548060 TGAATCAGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.02
28 17 0.41
29 22 0.54
30 1 0.02
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (27 bp):
ACATTCATATGGCCCATTGGCCCAATC
Found at i:6549156 original size:4 final size:4
Alignment explanation
Indices: 6549149--6549176 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
6549139 ATATATATAC
6549149 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
6549177 ATACAAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:6552167 original size:28 final size:29
Alignment explanation
Indices: 6552130--6552220 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
6552120 AAGTCTACAT
* *
6552130 ACATGCATATGTCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
6552158 TCATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
6552187 ACATTCATGTTGCCCATCT-GGCCCGAATC
1 ACATTCATATGGCCCA-CTAGGCCCAAATC
6552216 A-ATTC
1 ACATTC
6552221 CAAGCCATGT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 23 0.46
29 26 0.52
30 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:6560007 original size:40 final size:40
Alignment explanation
Indices: 6559963--6560042 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
6559953 GGGCCAAGCT
* *
6559963 ATGTAATCCACATGGCCAAGGCCATTTCTGGGCTATGTGG
1 ATGTAATCCACACGGCCAAGGCCATTTCTAGGCTATGTGG
6560003 ATGTAATCCACACGGCCAAGGCCATTTCTAGGCTATGTGG
1 ATGTAATCCACACGGCCAAGGCCATTTCTAGGCTATGTGG
6560043 GCCACATAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATGTAATCCACACGGCCAAGGCCATTTCTAGGCTATGTGG
Found at i:6562762 original size:37 final size:37
Alignment explanation
Indices: 6562712--6562790 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
6562702 TTATTACGAA
* * *
6562712 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
6562749 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
6562786 GTCTT
1 GTCTT
6562791 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:6562987 original size:47 final size:47
Alignment explanation
Indices: 6562909--6563188 Score: 330
Period size: 47 Copynumber: 5.7 Consensus size: 47
6562899 CCTTTCAGGA
* * * * * *
6562909 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
6562956 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6563003 CTTATCACCTATATACACTTTCACATTCATCACACATTCATCACATCGGCCATTAGGC
1 CTTATCA-C-ATAT--A--TACAC-TT--T--CACATTCATCACATCGGCCATTAGGC
6563061 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6563107 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
6563154 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
6563189 AGAATCCTAA
Statistics
Matches: 205, Mismatches: 15, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
46 47 0.23
47 99 0.48
48 1 0.00
49 5 0.02
51 3 0.01
52 4 0.02
53 4 0.02
54 3 0.01
56 5 0.02
57 1 0.00
58 33 0.16
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6563046 original size:58 final size:58
Alignment explanation
Indices: 6562977--6563140 Score: 235
Period size: 58 Copynumber: 3.0 Consensus size: 58
6562967 TATACACTTT
*
6562977 CACATTCATCACATCGGCCATTAGGCCTTATCACCTATATACACTTTCACATTCATCA
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
6563035 CACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--A----CAC-TT--T--
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
6563082 CACATTCATCACATCGG-CATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
6563139 CA
1 CA
6563141 TCGGCCATTA
Statistics
Matches: 94, Mismatches: 1, Indels: 23
0.80 0.01 0.19
Matches are distributed among these distances:
46 22 0.23
47 17 0.18
48 1 0.01
49 1 0.01
51 2 0.02
52 6 0.06
53 2 0.02
55 1 0.01
56 1 0.01
57 2 0.02
58 39 0.41
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.31
Consensus pattern (58 bp):
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
Found at i:6563185 original size:151 final size:152
Alignment explanation
Indices: 6562909--6563187 Score: 427
Period size: 151 Copynumber: 1.8 Consensus size: 152
6562899 CCTTTCAGGA
* * * * *
6562909 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
6562974 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACCTATATACACTTTCACATTCATCACACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACACA
6563039 TTCATCACATCGGCCATTAGGC
131 TTCATCACATCGGCCATTAGGC
* * *
6563061 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
6563125 TTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATCCATCACA
6563188 TAGAATCCTA
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
150 1 0.01
151 79 0.69
152 34 0.30
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (152 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACACA
TTCATCACATCGGCCATTAGGC
Found at i:6569827 original size:39 final size:39
Alignment explanation
Indices: 6569784--6569923 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
6569774 ACCAGCTCGA
* * ** **
6569784 AGCCTGCGGAACTTTAGTCCAAATATTTTTCCAGCA-AGT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACA-T
6569823 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
6569862 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
6569901 AGCCTGCAGACCTTAAGTCCGGA
1 AGCCTGCGGACCTTAAGTCCGGA
6569924 ATCGCATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 92 0.99
40 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:6575522 original size:20 final size:20
Alignment explanation
Indices: 6575492--6575537 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 20
6575482 CGTAGCATCT
6575492 CTAGACCCTCTCTGACTGCCA
1 CTAG-CCCTCTCTGACTGCCA
6575513 CTAGCCCTCTCTGACTGCCA
1 CTAGCCCTCTCTGACTGCCA
6575533 CTAGC
1 CTAGC
6575538 ATTCCCCGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.17, C:0.43, G:0.15, T:0.24
Consensus pattern (20 bp):
CTAGCCCTCTCTGACTGCCA
Found at i:6578041 original size:13 final size:13
Alignment explanation
Indices: 6578023--6578047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6578013 TTTAATAATA
6578023 AAATAAAGAAATG
1 AAATAAAGAAATG
6578036 AAATAAAGAAAT
1 AAATAAAGAAAT
6578048 AAAAGAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Found at i:6579847 original size:45 final size:45
Alignment explanation
Indices: 6579797--6579905 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
6579787 CGACTGCTGT
** *
6579797 TACTGTTACCATTACTGTTACCGATTCTGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
* * *
6579842 TACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
6579887 TACTGTTACTGTTACTGTT
1 TACTGTTACTGTTACTGTT
6579906 TCTGTTTCGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:6579963 original size:6 final size:6
Alignment explanation
Indices: 6579952--6579976 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6579942 ACCGTATTGC
6579952 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
6579977 TTGGCTTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:6580139 original size:18 final size:18
Alignment explanation
Indices: 6580094--6580131 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6580084 AATTGATTAT
6580094 TTAT-GAATAATTGACTG
1 TTATCGAATAATTGACTG
6580111 TTATCGAATAATTGACTG
1 TTATCGAATAATTGACTG
6580129 TTA
1 TTA
6580132 CTGGATAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (18 bp):
TTATCGAATAATTGACTG
Found at i:6580213 original size:36 final size:36
Alignment explanation
Indices: 6580097--6580224 Score: 94
Period size: 36 Copynumber: 3.4 Consensus size: 36
6580087 TGATTATTTA
* * * *
6580097 TGAATAATTGACTGTTATCGAATAATTGACTGTTAC
1 TGAATAATTAATTGTTACCGAATAACTGACTGTTAC
* * * * ** * *
6580133 TGGATAACCAATCAATTGATACTGAATAACTGGTTATTAT
1 T-G--AA-TAATTAATTGTTACCGAATAACTGACTGTTAC
*
6580173 TGAATAATTGATTGTTACCGAATAACTGACTGTTAC
1 TGAATAATTAATTGTTACCGAATAACTGACTGTTAC
*
6580209 TGAATAAATAATTGTT
1 TGAATAATTAATTGTT
6580225 CTGATTGTTA
Statistics
Matches: 65, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
36 38 0.58
37 3 0.05
39 3 0.05
40 21 0.32
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (36 bp):
TGAATAATTAATTGTTACCGAATAACTGACTGTTAC
Found at i:6580224 original size:18 final size:18
Alignment explanation
Indices: 6580147--6580228 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 18
6580137 TAACCAATCA
* *
6580147 ATTGATACTGAATAACTG
1 ATTGTTACTGAATAAATG
* * * *
6580165 GTTATTATTGAATAATTG
1 ATTGTTACTGAATAAATG
* *
6580183 ATTGTTACCGAATAACTG
1 ATTGTTACTGAATAAATG
* *
6580201 ACTGTTACTGAATAAATA
1 ATTGTTACTGAATAAATG
6580219 ATTGTT-CTGA
1 ATTGTTACTGA
6580229 TTGTTAATGA
Statistics
Matches: 49, Mismatches: 15, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
17 4 0.08
18 45 0.92
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (18 bp):
ATTGTTACTGAATAAATG
Found at i:6580429 original size:30 final size:30
Alignment explanation
Indices: 6580393--6580452 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
6580383 GCTTAAGTGT
6580393 TTAGATTATAGAAATACCATTGAATGTATA
1 TTAGATTATAGAAATACCATTGAATGTATA
*
6580423 TTAGATTATAGAAATACCATTGAGTGTATA
1 TTAGATTATAGAAATACCATTGAATGTATA
6580453 CTCAGCGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (30 bp):
TTAGATTATAGAAATACCATTGAATGTATA
Found at i:6584689 original size:32 final size:32
Alignment explanation
Indices: 6584644--6584716 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 32
6584634 ATACGGCTTT
* * *
6584644 AAGCCTTCAGTAACGGTCTTAT-TATTGGCACA
1 AAGCCATCAGTAACGGTATTATGT-TAGGCACA
* *
6584676 AAGCCATCGGTAACTGTATTATGTTAGGCACA
1 AAGCCATCAGTAACGGTATTATGTTAGGCACA
*
6584708 TAGCCATCA
1 AAGCCATCA
6584717 ACTAGAGTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
32 32 0.97
33 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTATTATGTTAGGCACA
Found at i:6584848 original size:22 final size:22
Alignment explanation
Indices: 6584814--6584877 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
6584804 GAAAATATGT
* *
6584814 TTGGCACACAGCCATAATCAAG
1 TTGGCATAAAGCCATAATCAAG
* * *
6584836 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCATAAAGCCATAAT-CAAG
*
6584858 TTGGCGTAAAGCCATAATCA
1 TTGGCATAAAGCCATAATCA
6584878 GAATAATTGG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (22 bp):
TTGGCATAAAGCCATAATCAAG
Found at i:6585350 original size:27 final size:27
Alignment explanation
Indices: 6585318--6585605 Score: 219
Period size: 27 Copynumber: 10.7 Consensus size: 27
6585308 TTGGTAAATC
*
6585318 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
6585345 TGCAAACCAATGGTATTTCTG-TAATTTT
1 TACAAATCAAGGGTATTTC-GATAA-TTT
*
6585373 TA-AAAGTCAAGGGTATTTCTATAATTT
1 TACAAA-TCAAGGGTATTTCGATAATTT
* *
6585400 TATAAATCAAAGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTTC-GATAATTT
* * * *
6585427 TCCAAATCAATGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * * *
6585454 CCCAAATCATGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
6585481 TACAAATCGAA-GGTATTTCGATAATTT
1 TACAAATC-AAGGGTATTTCGATAATTT
* * * *
6585508 CATAAATC-AGGTGTATTTTGGTAATTT
1 TACAAATCAAGG-GTATTTCGATAATTT
* * * *
6585535 TACAAACCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
6585562 TATAAACCAAGGGTA-TTCAATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
**
6585588 TGTAAATCAAGGGTATTT
1 TACAAATCAAGGGTATTT
6585606 TAGTAATTCT
Statistics
Matches: 214, Mismatches: 35, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.00
26 23 0.11
27 165 0.77
28 25 0.12
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:6585506 original size:81 final size:81
Alignment explanation
Indices: 6585298--6585613 Score: 297
Period size: 81 Copynumber: 3.9 Consensus size: 81
6585288 TTTCACCTTA
* * * * * *
6585298 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGATAATTTTCCAAATCAAGGGTATTT
6585363 CT-GTAATTTTTA-AAAGT
66 -TGGTAA-TTTTACAAA-T
* * * * *
6585380 CAAGGGTATTTCT-ATAATTTTATAAATCAAAGGTATTTCTG-TAATTTTCCAAATCAATGGTAT
1 CAAGGGTATTT-TGGTAATTTTACAAACCAAGGGTATTTC-GATAATTTTCCAAATCAAGGGTAT
**
6585443 TTTGGTAATTTCCCAAAT
64 TTTGGTAATTTTACAAAT
* * *
6585461 CATGGGTATTTTGGTAATTTTACAAATCGAA-GGTATTTCGATAA-TTTCATAAATC-AGGTGTA
1 CAAGGGTATTTTGGTAATTTTACAAA-CCAAGGGTATTTCGATAATTTTC-CAAATCAAGG-GTA
*
6585523 TTTTGGTAATTTTACAAAC
63 TTTTGGTAATTTTACAAAT
* * * **
6585542 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTA-TTCAATAATTTTGTAAATCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGATAATTTTCCAAATCAAGGGTATTT
*
6585606 TAGTAATT
66 TGGTAATT
6585614 CTACCCTACA
Statistics
Matches: 195, Mismatches: 27, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
80 37 0.19
81 95 0.49
82 61 0.31
83 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGATAATTTTCCAAATCAAGGGTATTT
TGGTAATTTTACAAAT
Found at i:6585625 original size:27 final size:27
Alignment explanation
Indices: 6585595--6585650 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
6585585 TTTTGTAAAT
* * *
6585595 CAAGGGTATTTTAGTAATTCTACCCTA
1 CAAGGGCATTTCAGTAATACTACCCTA
*
6585622 CAAGGGCATTTCAGTAATACTAGCCTA
1 CAAGGGCATTTCAGTAATACTACCCTA
6585649 CA
1 CA
6585651 GATATGAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (27 bp):
CAAGGGCATTTCAGTAATACTACCCTA
Found at i:6587341 original size:37 final size:37
Alignment explanation
Indices: 6587291--6587369 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
6587281 TTATTACGAA
* * * *
6587291 GTCTTACCCGGACATAATCTCCAGACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
6587328 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
6587365 GTCTT
1 GTCTT
6587370 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:6587726 original size:96 final size:95
Alignment explanation
Indices: 6587488--6588102 Score: 904
Period size: 96 Copynumber: 6.5 Consensus size: 95
6587478 CCCTTCGGGA
* * * * *
6587488 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-GTATAC
*
6587551 ACCTTCACATTCATCACATTGGCCATTCA-GC
65 ACTTTCACATTCATCACATTGGCCATT-AGGC
* * ** * * *
6587582 CTTATCTC--ATATATGCAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-CATACA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAGTATACA
*
6587644 CATGTTCACATTCATCACATTGGCCATTCGGC
66 C-T-TTCACATTCATCACATTGGCCATTAGGC
*
6587676 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-GTATAC
*
6587741 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATTGGCCATTAGGC
6587772 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-GTATAC
6587837 ACTTTCACATTCATCACATTGGCCATTAGGC
65 ACTTTCACATTCATCACATTGGCCATTAGGC
*
6587868 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGGCCTTATCACATGTATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-GTATAC
6587933 ACTTTCACATTCATCACATTGGCCATTAGGC
65 ACTTTCACATTCATCACATTGGCCATTAGGC
*
6587964 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGGCCTTATCACATGTATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-GTATAC
**
6588029 ACTTTCACATTCATCACATCAGCCATTAGGC
65 ACTTTCACATTCATCACATTGGCCATTAGGC
* *
6588060 CTTATCAC--ATGTATACACTTTCACATTCATCACATCGGGCATT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
6588103 GAATAATTCA
Statistics
Matches: 487, Mismatches: 25, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
92 6 0.01
93 1 0.00
94 112 0.23
96 361 0.74
97 1 0.00
98 6 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (95 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAGTATACA
CTTTCACATTCATCACATTGGCCATTAGGC
Found at i:6588095 original size:47 final size:47
Alignment explanation
Indices: 6587488--6588094 Score: 876
Period size: 47 Copynumber: 12.7 Consensus size: 47
6587478 CCCTTCGGGA
* * * *
6587488 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
6587535 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATT-AGGC
* * ** *
6587582 CTTATCTCATATATGCAGGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
6587629 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
6587676 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
6587725 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
6587772 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
6587821 CTTATCACATGTATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
6587868 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
6587917 CTTATCACATGTATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
6587964 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* **
6588013 CTTATCACATGTATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
6588060 CTTATCACATGTATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
6588095 CGGGCATTGA
Statistics
Matches: 513, Mismatches: 35, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
47 336 0.65
49 176 0.34
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:6588322 original size:62 final size:62
Alignment explanation
Indices: 6588248--6588370 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
6588238 AACAAAATCA
6588248 CATATTCACTACGAGCTGTTTTCCTGAGCAATGGTCACTAAATTATTTATAACCGGAGCTAC
1 CATATTCACTACGAGCTGTTTTCCTGAGCAATGGTCACTAAATTATTTATAACCGGAGCTAC
*
6588310 CATATTCACTACGAGCTGTTTTCCTGAGCAATGGTCACTAAATTATTTATAACTGGAGCTA
1 CATATTCACTACGAGCTGTTTTCCTGAGCAATGGTCACTAAATTATTTATAACCGGAGCTA
6588371 AAAAACTCCA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (62 bp):
CATATTCACTACGAGCTGTTTTCCTGAGCAATGGTCACTAAATTATTTATAACCGGAGCTAC
Found at i:6596302 original size:82 final size:82
Alignment explanation
Indices: 6596151--6596547 Score: 667
Period size: 82 Copynumber: 4.9 Consensus size: 82
6596141 ATTACCACAA
* ** * * *
6596151 GCACAATTGCCTTCGGGTCTTAACCCGG--GCATAGCAACTCGCACGAATGCCTTCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
6596214 CCCGGATATATCAACTT
66 CCCGGATATATCAACTT
6596231 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
6596296 CCCGGATATATCAACTT
66 CCCGGATATATCAACTT
6596313 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
6596378 CCCGGATATATCAACTT
66 CCCGGATATATCAACTT
6596395 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
6596460 CCCGGATATATCAACTT
66 CCCGGATATATCAACTT
* * * * *
6596477 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-AAATC-ACTAGCACAATTGCCTTCGGGACTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
6596540 CCCGGATA
66 CCCGGATA
6596548 AAATTCAAAT
Statistics
Matches: 304, Mismatches: 11, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
80 58 0.19
81 4 0.01
82 242 0.80
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (82 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
CCCGGATATATCAACTT
Found at i:6596387 original size:122 final size:119
Alignment explanation
Indices: 6596150--6596547 Score: 564
Period size: 122 Copynumber: 3.3 Consensus size: 119
6596140 TATTACCACA
* ** *
6596150 AGCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC-AATGCCTTCGGGTCTTAGC
6596215 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACT
65 CCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGG--ATATATCAACT
* * * *
6596272 CGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAA-TGCCTTCGGGTCTTAGC
* * *
6596337 CCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACT
65 CCGG--ATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACT
* *
6596394 TGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTA
1 AGCACAATTGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCAC-AATGCCTTCGGGTCTTA
*
6596459 GCCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT
63 GCCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
*
6596516 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATA
6596548 AAATTCAAAT
Statistics
Matches: 247, Mismatches: 22, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
120 3 0.01
121 2 0.01
122 164 0.66
123 4 0.02
124 72 0.29
125 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (119 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACT
Found at i:6596551 original size:40 final size:41
Alignment explanation
Indices: 6596151--6596548 Score: 558
Period size: 40 Copynumber: 9.8 Consensus size: 41
6596141 ATTACCACAA
* ** *
6596151 GCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
*
6596191 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
6596231 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-ATATCAACTC
* * *
6596273 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
6596313 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-ATATCAACTC
* * *
6596355 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
6596395 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-ATATCAACTC
* * *
6596437 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
* *
6596477 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
*
6596517 GCACAATTGCCTTCGGGACTTAGCCCGGATAA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAA
6596549 AATTCAAATG
Statistics
Matches: 323, Mismatches: 25, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
39 2 0.01
40 204 0.63
41 6 0.02
42 111 0.34
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (41 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
Found at i:6601164 original size:28 final size:28
Alignment explanation
Indices: 6601101--6601278 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
6601091 ATAATAAGTC
* *
6601101 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
6601128 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
6601156 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
6601184 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
6601212 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
6601239 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
6601268 CGCACACTTAG
1 CGCACACTTAG
6601279 CACCAATCTC
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 43 0.32
28 80 0.59
29 13 0.10
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:6602809 original size:80 final size:80
Alignment explanation
Indices: 6602693--6602878 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
6602683 AGTAACTCAT
* * *
6602693 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
6602757 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
6602772 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
6602836 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
6602853 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
6602879 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:6602838 original size:40 final size:40
Alignment explanation
Indices: 6602695--6602878 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
6602685 TAACTCATAC
* *
6602695 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
6602735 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
6602775 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
6602815 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
6602856 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
6602879 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:6611479 original size:40 final size:40
Alignment explanation
Indices: 6611427--6611659 Score: 290
Period size: 40 Copynumber: 5.8 Consensus size: 40
6611417 ATTACCACAA
* ** *
6611427 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
6611467 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
6611507 GCACAATTGCCTTCGGGTCTGAGCCCGGATATATATCAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
* * *
6611549 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
6611589 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
6611629 GCAGAATTGCCTTCGGGACTTAACCCGGATA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA
6611660 AAATTCAAAT
Statistics
Matches: 170, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.02
40 125 0.74
41 6 0.04
42 36 0.21
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:6611577 original size:82 final size:81
Alignment explanation
Indices: 6611427--6611659 Score: 326
Period size: 82 Copynumber: 2.9 Consensus size: 81
6611417 ATTACCACAA
* ** * *
6611427 GCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
6611491 CCGGATATATCAACTT
66 CCGGATATATCAACTT
* *
6611507 GCACAATTGCCTTCGGGTCTGAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-ATATCAACTCGCACAAATGCCTTCGGGTCTTAG
6611572 CCCGGATATATCAACTT
65 CCCGGATATATCAACTT
* * * * * *
6611589 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCAGAATTGCCTTCGGGACTTAAC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
6611653 CCGGATA
66 CCGGATA
6611660 AAATTCAAAT
Statistics
Matches: 136, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
80 55 0.40
81 4 0.03
82 77 0.57
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
CCGGATATATCAACTT
Found at i:6611644 original size:122 final size:122
Alignment explanation
Indices: 6611427--6611659 Score: 317
Period size: 122 Copynumber: 1.9 Consensus size: 122
6611417 ATTACCACAA
* * *
6611427 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
* * * *
6611492 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTGAGCCCGGATATATATCAACTC
66 CGGATAAATCAACTAGCACAATTGCCTTCGGGACTGAACCCGGATATATATCAACTC
* * * *
6611549 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTTGCAC-AATTGCCTTCGGGTCTTAGC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
* *
6611613 CCGGATAAAATC-ACTAGCAGAATTGCCTTCGGGACTTAACCCGGATA
65 CCGGAT-AAATCAACTAGCACAATTGCCTTCGGGACTGAACCCGGATA
6611660 AAATTCAAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
121 2 0.02
122 90 0.94
123 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (122 bp):
GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
CGGATAAATCAACTAGCACAATTGCCTTCGGGACTGAACCCGGATATATATCAACTC
Found at i:6616187 original size:125 final size:126
Alignment explanation
Indices: 6616058--6616365 Score: 410
Period size: 126 Copynumber: 2.5 Consensus size: 126
6616048 GCCAAACGGT
* * ** ** *
6616058 AAATCGAAACCCAGCACGATTGGGCACGATTTGTC-ATTTGGCCAAATACGAAATATTGCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTACCTCAT
* * *
6616122 TTTAA-TTTAAGGAAA-CATGGATGAAATTTTAAAAGGATATC-CTGTATTTTAGTTGAATGAA
66 TTCAATTTTAA--AAAGCATGGATGAAATTTCAAAAGGATATCTC-GTATTTTAGTTGAACGAA
6616183 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTACCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTACCTCAT
* *
6616248 TTCAATTTTAAAAAGCATGGATGAAATTTCCAAAGGATATTTCGTATTTTAGTTGAACGAA
66 TTCAATTTTAAAAAGCATGGATGAAATTTCAAAAGGATATCTCGTATTTTAGTTGAACGAA
* * * *
6616309 AAATCGAAACCCAGCACGATTGGGCACGACCTCTCGAACT-CTCAAACACGAAATATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATT
6616366 TCCTTATGTT
Statistics
Matches: 163, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
125 51 0.31
126 106 0.65
127 6 0.04
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (126 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTACCTCAT
TTCAATTTTAAAAAGCATGGATGAAATTTCAAAAGGATATCTCGTATTTTAGTTGAACGAA
Found at i:6618745 original size:39 final size:40
Alignment explanation
Indices: 6618640--6618745 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 40
6618630 TTGAACCCGG
*
6618640 CTTTATGCCTAGCAGGCTTATTGCCGGTGTATAAAATCAAA
1 CTTTAAGCCTAGCAGGCTTA-TGCCGGTGTATAAAATCAAA
* * * * *
6618681 CTTTAAGTCTAGCAGGCCTTGTGCCGGTGTGTAATA-CAAG
1 CTTTAAGCCTAGCAGG-CTTATGCCGGTGTATAAAATCAAA
*
6618721 C-TTAGGCCTAGCAGGCTTTATGCCG
1 CTTTAAGCCTAGCAGGC-TTATGCCG
6618746 ATGAATTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
38 1 0.02
39 19 0.35
40 4 0.07
41 27 0.50
42 3 0.06
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (40 bp):
CTTTAAGCCTAGCAGGCTTATGCCGGTGTATAAAATCAAA
Found at i:6624066 original size:21 final size:20
Alignment explanation
Indices: 6624027--6624066 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6624017 CAAAACTAGT
*
6624027 ATAACTATCATTAAACATTC
1 ATAACTATCATCAAACATTC
*
6624047 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
6624067 AAAGTTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:6629781 original size:24 final size:24
Alignment explanation
Indices: 6629754--6629804 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
6629744 TTATAATATG
6629754 TAAGCATATAAACACATGTAACAT
1 TAAGCATATAAACACATGTAACAT
6629778 TAAGCATATAAACACATGTAACAT
1 TAAGCATATAAACACATGTAACAT
6629802 TAA
1 TAA
6629805 ACTTATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.25
Consensus pattern (24 bp):
TAAGCATATAAACACATGTAACAT
Found at i:6629824 original size:17 final size:16
Alignment explanation
Indices: 6629776--6629826 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
6629766 CACATGTAAC
**
6629776 ATTAAGCATATAAACAC
1 ATTAA-CATATAAACTT
6629793 ATGTAACAT-TAAACTT
1 AT-TAACATATAAACTT
6629809 ATTAATCATATAAACTT
1 ATTAA-CATATAAACTT
6629826 A
1 A
6629827 CCTCGGTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 3 0.10
16 10 0.34
17 13 0.45
18 3 0.10
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (16 bp):
ATTAACATATAAACTT
Found at i:6631551 original size:38 final size:38
Alignment explanation
Indices: 6631489--6631568 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
6631479 CAGGACACAT
* *
6631489 GGCAACCCTATTTTATCATTAACAAAGATTAAACTGTA
1 GGCAACCCTATTTTATCATCAACAAAGATTAAACTGCA
* * * *
6631527 GGCAACCCTCTTTTGTCATCAACAAAGGTTAAATTGCA
1 GGCAACCCTATTTTATCATCAACAAAGATTAAACTGCA
6631565 GGCA
1 GGCA
6631569 TAATAAGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (38 bp):
GGCAACCCTATTTTATCATCAACAAAGATTAAACTGCA
Found at i:6632680 original size:21 final size:22
Alignment explanation
Indices: 6632635--6632680 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
6632625 TTAAGGGCTC
**
6632635 ACACGCCCGTCTGGTCCGAGGG
1 ACACGCCCGTCTGACCCGAGGG
*
6632657 ACACGCCCGTGTGACCCG-GGG
1 ACACGCCCGTCTGACCCGAGGG
6632678 ACA
1 ACA
6632681 TGCTCGTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.17, C:0.37, G:0.35, T:0.11
Consensus pattern (22 bp):
ACACGCCCGTCTGACCCGAGGG
Found at i:6642330 original size:38 final size:38
Alignment explanation
Indices: 6642268--6642347 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
6642258 CAGGACACAT
* *
6642268 GGCAACCCTATTTTATCATTAACAAAGATTAAACTGTA
1 GGCAACCCTATTTTATCATCAACAAAGATTAAACTGCA
* * * *
6642306 GGCAACCCTCTTTTGTCATCAACAAAGGTTAAATTGCA
1 GGCAACCCTATTTTATCATCAACAAAGATTAAACTGCA
6642344 GGCA
1 GGCA
6642348 TAATAAGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (38 bp):
GGCAACCCTATTTTATCATCAACAAAGATTAAACTGCA
Found at i:6642889 original size:45 final size:45
Alignment explanation
Indices: 6642802--6642889 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
6642792 ATTCCTAATG
* **
6642802 GAAGGGAAAAAGATGTGGACATATCGAAGGGGAACAGTAATACTT
1 GAAGGGAAAAAGATGTGAACATATCGAAGGGGAACAACAATACTT
* * *
6642847 GAAGGGAAAGAGATGTGAACATGTCGAATGGGAACAACAATAC
1 GAAGGGAAAAAGATGTGAACATATCGAAGGGGAACAACAATAC
6642890 CTAAAACATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.43, C:0.10, G:0.31, T:0.16
Consensus pattern (45 bp):
GAAGGGAAAAAGATGTGAACATATCGAAGGGGAACAACAATACTT
Found at i:6656147 original size:37 final size:37
Alignment explanation
Indices: 6656089--6656159 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
6656079 TAGCTTGAAT
*
6656089 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
6656126 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGA
6656160 ATATATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
AATCCCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:6659479 original size:43 final size:43
Alignment explanation
Indices: 6659342--6659514 Score: 167
Period size: 43 Copynumber: 4.0 Consensus size: 43
6659332 GACATAGGAT
* * * * *
6659342 TCGATATGTGTTTTTGTGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATTTGATTTCGTGTAAGACCACGTCTAGGACAGTGGCA
* * * *
6659385 TCGACT-TATGATTTAGGTGTAAGACCATGTCTAAGACA-TCGGCA
1 TCGA-TATTTGATTT-CGTGTAAGACCACGTCTAGGACAGT-GGCA
6659429 TCG-TATTTGATTTCGTGTAAGACC-CTGTCTAGGACAGTGGCA
1 TCGATATTTGATTTCGTGTAAGACCAC-GTCTAGGACAGTGGCA
* *
6659471 TCGATATTTGATTACATGTAAGACCACGTCTAGGAC-GTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCACGTCTAGGACAG-TGGCA
6659514 T
1 T
6659515 TGTACAAGCT
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 28 0.26
43 53 0.49
44 28 0.26
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCACGTCTAGGACAGTGGCA
Found at i:6660060 original size:11 final size:11
Alignment explanation
Indices: 6660044--6660069 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6660034 AGCCATGTCA
6660044 TATGGCTTGGT
1 TATGGCTTGGT
6660055 TATGGCTTGGT
1 TATGGCTTGGT
6660066 TATG
1 TATG
6660070 AATGAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.35, T:0.46
Consensus pattern (11 bp):
TATGGCTTGGT
Found at i:6660138 original size:22 final size:23
Alignment explanation
Indices: 6660076--6660153 Score: 88
Period size: 24 Copynumber: 3.4 Consensus size: 23
6660066 TATGAATGAA
*
6660076 TTTCAGCTCGTAAGAGCTTACTG
1 TTTCAGCTCGTTAGAGCTTACTG
*
6660099 TTCTCATCTCG-TATGAGCTTACTG
1 TT-TCAGCTCGTTA-GAGCTTACTG
*
6660123 -TTCAGCTCGTTAGAGCTTACCG
1 TTTCAGCTCGTTAGAGCTTACTG
*
6660145 TTTTAGCTC
1 TTTCAGCTC
6660154 AACAGAGCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
22 16 0.35
23 13 0.28
24 17 0.37
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.38
Consensus pattern (23 bp):
TTTCAGCTCGTTAGAGCTTACTG
Found at i:6664872 original size:125 final size:126
Alignment explanation
Indices: 6664585--6664885 Score: 372
Period size: 125 Copynumber: 2.4 Consensus size: 126
6664575 TCAACATAAG
* * **
6664585 GAAATATTTCGTATCTAGAAATTTGAGAGATTGTGCCCAATCATGCTGGGTTTCGGTTTTTCATT
1 GAAATATTTCGTATTTGGAAATTTGAGAGATTGTGCCCAATCATGCTGGGTTTCAATTTTTCATT
**
6664650 CGACTAAAATACGGAATATTTTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAATGAA
66 CGACTAAAATACGGAATATTCCTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAATGAA
* * * * *
6664711 GAAATATCTCGTGTTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATT
1 GAAATATTTCGTATTTGGAAATTTGAGAGATTGTGCCCAATCATGCTGGGTTTCAATTTTTCATT
* * * * * * **
6664776 TGACTAAGATATGGGAA-A-TCCTTTTGACATTTCATCCATGTTTTCTTAAATTAGAATGTG
66 CGACTAAAATA-CGGAATATTCCTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAATGAA
* * * *
6664836 GCAATATTTCGTATTTGGAAATTCGATAAATTGTGCCCAATCATGCTGGG
1 GAAATATTTCGTATTTGGAAATTTGAGAGATTGTGCCCAATCATGCTGGG
6664886 ATGTTATTTA
Statistics
Matches: 146, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
125 76 0.52
126 66 0.45
127 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (126 bp):
GAAATATTTCGTATTTGGAAATTTGAGAGATTGTGCCCAATCATGCTGGGTTTCAATTTTTCATT
CGACTAAAATACGGAATATTCCTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAATGAA
Found at i:6676191 original size:64 final size:65
Alignment explanation
Indices: 6676068--6676192 Score: 180
Period size: 64 Copynumber: 1.9 Consensus size: 65
6676058 CATTCATGGT
* * * * * *
6676068 ACATCTAGTTAGGAGCATTTTGGTTCATTTTGATCATAGCATCCTAATTGTTTGACATAAGGATC
1 ACATCTAGCTAGGAGCATTTTGATTCATTTCGATCATAGCATCCTAACTATTCGACATAAGGATC
*
6676133 ACATCTAGCTAGGAGC-TTTTGATTCATTTCGATCATAGCATCCTAACTATTCGGCATAAG
1 ACATCTAGCTAGGAGCATTTTGATTCATTTCGATCATAGCATCCTAACTATTCGACATAAG
6676193 CATACATACA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
64 38 0.72
65 15 0.28
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (65 bp):
ACATCTAGCTAGGAGCATTTTGATTCATTTCGATCATAGCATCCTAACTATTCGACATAAGGATC
Found at i:6676456 original size:133 final size:133
Alignment explanation
Indices: 6676264--6676674 Score: 558
Period size: 133 Copynumber: 3.1 Consensus size: 133
6676254 TAAAGATATG
* * * *
6676264 AGTCTTATCTTCCTG-AGGTAGCAAGGAAGCAAATTGAAAATTTACAGATCTTATCTCCATGTAT
1 AGTCTTATCTTCCTGAAGTTA-C-AGGAAGCAGACT-AAAAATTACAGATCTTATCTCCATGTAT
*
6676328 CGGCTATGGAGCAGATCGAAAATGGAGAGTCTTATCTCTATTTATCGACTATGGAGCAGATTTTA
63 CGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCTATTTATCGACTATGGAGCAGATTTTA
6676393 GCCACT
128 GCCACT
*
6676399 AGTTTTATCTTCCTGAAGTTACAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGG
1 AGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGG
* * * * * * * *
6676464 CTATAGAACAAATC-AGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTCTAGT
66 CTATGGAGCAGATCGA-AAATGGCGAGTCTTATCTCTATTTATCGACTATGGAGCAGATTTTAGC
6676528 CACT
130 CACT
* * * *
6676532 AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTAAAAATTACATATCTTATCTCCATGTCTCGG
1 AGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGG
* *
6676597 CTATGGAGCAGATCAGAAAA-GCCGAGTCTTATCTCTATTTATCGACTATGAAGCAGATTTTAGC
66 CTATGGAGCAGATC-GAAAATGGCGAGTCTTATCTCTATTTATCGACTATGGAGCAGATTTTAGC
*
6676661 CACC
130 CACT
*
6676665 AGCCTTATCT
1 AGTCTTATCT
6676675 CTCTGAGGTA
Statistics
Matches: 241, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
132 1 0.00
133 207 0.86
134 13 0.05
135 16 0.07
136 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (133 bp):
AGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGG
CTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCTATTTATCGACTATGGAGCAGATTTTAGCC
ACT
Found at i:6676803 original size:177 final size:176
Alignment explanation
Indices: 6676532--6677142 Score: 852
Period size: 178 Copynumber: 3.4 Consensus size: 176
6676522 TCTAGTCACT
* * *
6676532 AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTAAAAATTACATATCTTATCTCCATGTCTCGG
1 AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGG
** * * *
6676597 CTATGGAGCAGATCAGAAAA-GCCGAGTCTTATCTCTATTTATCGACTATGAAGCAGATTTTAGC
66 CTATGGAGCAGAT-AGAAAATGGAGAGTCTTATCTCTATGTATAG-CTATGGAGCAGATTTTAGC
*
6676661 CACCAGCCTTATCTCTCTGAGGTACCAAGAGAGCAGGTTGAAGATACA
129 CACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
*
6676709 AGTCTTATC-TTCTTGAAGTTGCAGGAAGCAGACTGAAAATTATAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTTC-TGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCG
* * * * *
6676773 GCTATGGAGTAGATAAAAAATGGAGAGTCTTATCTCTATGTATAGGTCATGGAGTAAATTTTAGC
65 GCTATGGAGCAGATAGAAAATGGAGAGTCTTATCTCTATGTATAGCT-ATGGAGCAGATTTTAGC
6676838 CACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
129 CACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* * * * *
6676886 AATCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAGACCTACAGATCTTAGCTCCATGTATA
1 AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTGAAA-A-TTACAGATCTTATCTCCATGTATC
* * *
6676950 GGCTATGGAGCAGATCGAAGATGGCA-AGTCTTATCTCCATGTATAGGCTATGGAGCAGATTTTA
64 GGCTATGGAGCAGATAGAAAATGG-AGAGTCTTATCTCTATGTATA-GCTATGGAGCAGATTTTA
* *
6677014 GCCACCAGCCTTATCTCTCTGAGGAAGCAGGAGAGCAGGTTGAAGATACA
127 GCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* * *
6677064 AGTCTTATCTTTCTGAAGTTGCAGAAAGCAGATTGGAAATTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACT-GAAAATTACAGATCTTATCTCCATGTATCG
*
6677129 ACTATGGAGCAGAT
65 GCTATGGAGCAGAT
6677143 TTTAGCCACC
Statistics
Matches: 384, Mismatches: 40, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
176 12 0.03
177 180 0.47
178 186 0.48
179 3 0.01
180 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (176 bp):
AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGG
CTATGGAGCAGATAGAAAATGGAGAGTCTTATCTCTATGTATAGCTATGGAGCAGATTTTAGCCA
CCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
Found at i:6677050 original size:178 final size:176
Alignment explanation
Indices: 6676532--6677142 Score: 850
Period size: 177 Copynumber: 3.4 Consensus size: 176
6676522 TCTAGTCACT
* * * *
6676532 AGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACTAAAAATTACATATCTTATCTCCATGTCTCGG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGG
* * * * * * *
6676597 CTATGGAGCAGATCAGAAAAGCCGAGTCTTATCTCTATTTATCGACTATGAAGCAGATTTTAGCC
66 CTATGGAGCAGATC-GAAATGGCAAGTCTTATCTCTATGTATAGGCTATGGAGCAGATTTTAGCC
*
6676662 ACCAGCCTTATCTCTCTGAGGTACCAAGAGAGCAGGTTGAAGATACA
130 ACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* *
6676709 AGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTATAGATCTTATCTCCATGTATCGG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGG
* ** * *
6676774 CTATGGAGTAGATAAAAAATGG-AGAGTCTTATCTCTATGTATAGG-TCATGGAGTAAATTTTAG
66 CTATGGAGCAGAT-CGAAATGGCA-AGTCTTATCTCTATGTATAGGCT-ATGGAGCAGATTTTAG
6676837 CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
128 CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* * * *
6676886 AATCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-AAAGACCTACAGATCTTAGCTCCATGTATA
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAA-A-TTACAGATCTTATCTCCATGTATC
*
6676950 GGCTATGGAGCAGATCGAAGATGGCAAGTCTTATCTCCATGTATAGGCTATGGAGCAGATTTTAG
64 GGCTATGGAGCAGATCGAA-ATGGCAAGTCTTATCTCTATGTATAGGCTATGGAGCAGATTTTAG
* *
6677015 CCACCAGCCTTATCTCTCTGAGGAAGCAGGAGAGCAGGTTGAAGATACA
128 CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* * * *
6677064 AGTCTTATCTTTCTGAAGTTGCAGAAAGCAGATTGGAAATTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-GAAAATTACAGATCTTATCTCCATGTATCG
*
6677129 ACTATGGAGCAGAT
65 GCTATGGAGCAGAT
6677143 TTTAGCCACC
Statistics
Matches: 382, Mismatches: 42, Indels: 19
0.86 0.09 0.04
Matches are distributed among these distances:
176 4 0.01
177 189 0.49
178 184 0.48
179 2 0.01
180 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (176 bp):
AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGG
CTATGGAGCAGATCGAAATGGCAAGTCTTATCTCTATGTATAGGCTATGGAGCAGATTTTAGCCA
CCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
Found at i:6677296 original size:133 final size:133
Alignment explanation
Indices: 6676978--6677275 Score: 508
Period size: 133 Copynumber: 2.2 Consensus size: 133
6676968 AGATGGCAAG
*
6676978 TCTTATCTCCATGTATAGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGAAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGAAGCA
* * * *
6677043 GGAGAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAAGTTGCAGAAAGCAGATTGGAAATTTAC
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAAATTGCAAAAAGCAGACTGGAAATTTAC
6677108 AGA
131 AGA
* *
6677111 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGAAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGAAGCA
6677176 AGAGAGCAGGTTGAAGATACAAGTCTTATC-TTCTTGAAATTGCAAAAAGCAGACTGGAAATTTA
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTTC-TGAAATTGCAAAAAGCAGACTGGAAATTTA
6677240 CAGA
130 CAGA
*
6677244 TCTTATCTCCATGTATCGGCTATGGAACAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
6677276 CCTAGCTATT
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
132 3 0.02
133 152 0.98
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (133 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGAAGCA
AGAGAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAAATTGCAAAAAGCAGACTGGAAATTTAC
AGA
Found at i:6679508 original size:125 final size:125
Alignment explanation
Indices: 6679230--6679549 Score: 322
Period size: 125 Copynumber: 2.5 Consensus size: 125
6679220 CCCTCTCAAC
* * ** * * *
6679230 ATGAGGAAATATTTCGTATCTAAAAGTTTGAGAGATTGTGCCCAATCGTGCTGGGTTTCAGTTTT
1 ATGAGGCAATATTTCGTATTTGGAAGATTGAGAGATCGTGCCCAATCGTGCTGGGTTTGA-TTTT
* *
6679295 TCATTCAACTAAAATACGGAATATCTTTTTTTTTTTGAAATTTCGTCCATGTTTTCTTAAACTAA
65 TCATTCAACTAAAATACGGAATATC-----TCTTTTGAAATTTCATCCATGTTTTCTTAAACTAA
6679360 A
125 A
* * * *
6679361 ATGAAGCAATATCTCGTGTTTGGAAGCTTGAGAGATCGTGCCCAATCGTGCTGGGTTTTGATTTT
1 ATGAGGCAATATTTCGTATTTGGAAGATTGAGAGATCGTGCCCAATCGTGCTGGG-TTTGATTTT
* * * * * *
6679426 TCATTCGACTAAGATATGGGAA-ATC-CTTTTGACATTTCATCCATGTTTTCTTAAATTAGA
65 TCATTCAACTAAAATA-CGGAATATCTCTTTTGAAATTTCATCCATGTTTTCTTAAACTAAA
* * * *
6679486 ATGAGGCAATATTTTGTATTTGGAA-ATTCGATAAATCGTGCCCAATCGTGCTGGGATGTGATTT
1 ATGAGGCAATATTTCGTATTTGGAAGATT-GAGAGATCGTGCCCAATCGTGCTGGG-TTTGATTT
6679550 ACCGTTTGGC
Statistics
Matches: 159, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
124 2 0.01
125 82 0.52
131 67 0.42
132 8 0.05
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (125 bp):
ATGAGGCAATATTTCGTATTTGGAAGATTGAGAGATCGTGCCCAATCGTGCTGGGTTTGATTTTT
CATTCAACTAAAATACGGAATATCTCTTTTGAAATTTCATCCATGTTTTCTTAAACTAAA
Found at i:6679577 original size:125 final size:125
Alignment explanation
Indices: 6679327--6679589 Score: 278
Period size: 125 Copynumber: 2.1 Consensus size: 125
6679317 ATCTTTTTTT
* * *
6679327 TTTTGAAATTTCGTCCATGTTTTCTTAAACTAAAATGAAGCAATATCTCGTGTTTGGAAGCTTGA
1 TTTTGAAATTTCATCCATGTTTTCTTAAACTAAAATGAAGCAATATCTCGTATTTGGAAGATTGA
* * * ** * ****
6679392 GAGATCGTGCCCAATCGTGCTGGGTTTTGATTTTTCATTCGACTAAGATATGGGAAATCC
66 GAAATCGTGCCCAATCGTGCTGGGATGTGATTTACCATTCGACCAAGATAACCCAAATCC
* * * * * *
6679452 TTTTGACATTTCATCCATGTTTTCTTAAATTAGAATGAGGCAATATTTTGTATTTGGAA-ATTCG
1 TTTTGAAATTTCATCCATGTTTTCTTAAACTAAAATGAAGCAATATCTCGTATTTGGAAGATT-G
* * * *
6679516 ATAAATCGTGCCCAATCGTGCTGGGATGTGATTTACCGTTTGGCCAA-ATAACCCAATATCC
65 AGAAATCGTGCCCAATCGTGCTGGGATGTGATTTACCATTCGACCAAGATAACCCAA-ATCC
*
6679577 TTTTGAAAATTCA
1 TTTTGAAATTTCA
6679590 AATGCATGAG
Statistics
Matches: 111, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
124 7 0.06
125 104 0.94
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (125 bp):
TTTTGAAATTTCATCCATGTTTTCTTAAACTAAAATGAAGCAATATCTCGTATTTGGAAGATTGA
GAAATCGTGCCCAATCGTGCTGGGATGTGATTTACCATTCGACCAAGATAACCCAAATCC
Found at i:6694396 original size:15 final size:16
Alignment explanation
Indices: 6694376--6694408 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
6694366 CCAAACCATG
6694376 AACTAAAACAT-TATT
1 AACTAAAACATATATT
6694391 AACTAAAACATATATT
1 AACTAAAACATATATT
6694407 AA
1 AA
6694409 TCACACAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTAAAACATATATT
Found at i:6699001 original size:17 final size:16
Alignment explanation
Indices: 6698992--6699024 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6698982 AGAGTAGATG
6698992 AAAAAAAAGAGAAGAA
1 AAAAAAAAGAGAAGAA
6699008 AAAAAAAAGAG-AGAA
1 AAAAAAAAGAGAAGAA
6699023 AA
1 AA
6699025 TTTATGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAGAAGAA
Found at i:6702142 original size:21 final size:22
Alignment explanation
Indices: 6702118--6702161 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6702108 TTTTTTTTGC
6702118 AAAATCA-AAGTTTTCTTAAAA
1 AAAATCATAAGTTTTCTTAAAA
*
6702139 AAAATCATAATTTTTCTTAAAA
1 AAAATCATAAGTTTTCTTAAAA
6702161 A
1 A
6702162 TTAAAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATCATAAGTTTTCTTAAAA
Found at i:6702396 original size:158 final size:157
Alignment explanation
Indices: 6702150--6702555 Score: 547
Period size: 157 Copynumber: 2.6 Consensus size: 157
6702140 AAATCATAAT
*
6702150 TTTTCTTAAAAATTAAAG-TTTTATTTCGAAATAGTT-AAAAAAGATCAAAACTTTATTTTAAAA
1 TTTTCTTAAAAATCAAAGCTTTTATTTCGAAATAGTTGAAAAAA-ATCAAAACTTTATTTTAAAA
* * *
6702213 ATTTAAAATTTTCATTTAAAATGACTAAAAAAAACAGATT-TTTATTTTTAAAAATCCAAACTTT
65 TTTTAAAA-TTTCCTTTAAAATGACTAAAAAAAACAGATTATTAATTTTT-AAAATCCAAACTTT
6702277 CTCTTT-TTTTTTTCTTTTAAAAAACCACTAC
128 CTCTTTCTTTTTTT-TTTT-AAAAACCACTAC
* * * *
6702308 TTTTCTCAAATATCAAAGCTTTTATTTCGAAATAGTTGGAAAAAAAT-AAAAATTTGTTTTAAAA
1 TTTTCTTAAAAATCAAAGCTTTTATTTCGAAATAGTT-GAAAAAAATCAAAACTTTATTTTAAAA
* * *
6702372 TTTTAAACTTTCCTTTAAAATGACT--AAGAAACAGATTATTAATTTTTAAAATCTAAACTTTCT
65 TTTTAAAATTTCCTTTAAAATGACTAAAAAAAACAGATTATTAATTTTTAAAATCCAAACTTTCT
* *
6702435 CTTTCTTTTTTTTTTTAAAAATCACTAT
130 CTTTCTTTTTTTTTTTAAAAACCACTAC
*
6702463 TTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAAAAAAATCAAAACTTTATTTTAAA
1 TTTTCTTAAAAATCAAAGCTTTTATTTCGAAATAGTTG--AAAAAAATCAAAACTTTATTTTAAA
* *
6702528 AATGTAAAATTTCCTTTAAAATGACTAA
64 ATTTTAAAATTTCCTTTAAAATGACTAA
6702556 TTTTTTTTTT
Statistics
Matches: 218, Mismatches: 20, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
154 1 0.00
155 45 0.21
156 42 0.19
157 52 0.24
158 31 0.14
159 39 0.18
160 2 0.01
161 6 0.03
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (157 bp):
TTTTCTTAAAAATCAAAGCTTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAAT
TTTAAAATTTCCTTTAAAATGACTAAAAAAAACAGATTATTAATTTTTAAAATCCAAACTTTCTC
TTTCTTTTTTTTTTTAAAAACCACTAC
Found at i:6719110 original size:33 final size:32
Alignment explanation
Indices: 6719062--6719136 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 32
6719052 AATGAACAAT
* * * *
6719062 AATATTTTAAAAATAAAAATTAATTAAAGAGA
1 AATAATTTAAAAATAAAAATAAACTAAAAAGA
6719094 AATAATTTAATAAATAAAAATAAACTAAAAAG-
1 AATAATTTAA-AAATAAAAATAAACTAAAAAGA
6719126 AA-AATTTAAAA
1 AATAATTTAAAA
6719137 TTTATTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 2 0.05
31 7 0.18
32 11 0.29
33 18 0.47
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (32 bp):
AATAATTTAAAAATAAAAATAAACTAAAAAGA
Found at i:6731049 original size:41 final size:41
Alignment explanation
Indices: 6730886--6731089 Score: 187
Period size: 41 Copynumber: 5.0 Consensus size: 41
6730876 GCAGCGTAAG
* *
6730886 CGGCGTTTTTCCCATAAACGCCGCAAAAGGTAAAGCAATAG
1 CGGCGTTTTTCCCATAAACGCCGCAAAAGGTAAAACAATAA
* * * ** *
6730927 TGGAGTTTTT-GCATAAACGCCGCAAAAGGTTAAAATGATAG
1 CGGCGTTTTTCCCATAAACGCCGCAAAAGG-TAAAACAATAA
* * * * * *
6730968 TGGTGTTTTTCTCATAAACGCCACTAAAGGTAAAGCAATAA
1 CGGCGTTTTTCCCATAAACGCCGCAAAAGGTAAAACAATAA
* *
6731009 CGGCGTTTTT-GCATAAACGTCGCAAAAGGTTAAAACAATAA
1 CGGCGTTTTTCCCATAAACGCCGCAAAAGG-TAAAACAATAA
* * * * *
6731050 CGACATTTTTCCCATAAACGCTGCTATAGGTAAAACAATA
1 CGGCGTTTTTCCCATAAACGCCGCAAAAGGTAAAACAATA
6731090 GTTGCATTTT
Statistics
Matches: 131, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
40 33 0.25
41 68 0.52
42 30 0.23
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (41 bp):
CGGCGTTTTTCCCATAAACGCCGCAAAAGGTAAAACAATAA
Found at i:6731059 original size:82 final size:82
Alignment explanation
Indices: 6730891--6731089 Score: 245
Period size: 82 Copynumber: 2.4 Consensus size: 82
6730881 GTAAGCGGCG
* **
6730891 TTTTTCCCATAAACGCCGCAAAAGGTAAAGCAATAGTGGAGTTTTTGCATAAACGCCGCAAAAGG
1 TTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAACGGAGTTTTTGCATAAACGCCGCAAAAGG
** ** ***
6730956 TTAAAATGATAGTGGTG
66 TTAAAACAATAACGACA
* * * *
6730973 TTTTTCTCATAAACGCCACTAAAGGTAAAGCAATAACGGCGTTTTTGCATAAACGTCGCAAAAGG
1 TTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAACGGAGTTTTTGCATAAACGCCGCAAAAGG
6731038 TTAAAACAATAACGACA
66 TTAAAACAATAACGACA
* * *
6731055 TTTTTCCCATAAACGCTGCTATAGGTAAAACAATA
1 TTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATA
6731090 GTTGCATTTT
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 98 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (82 bp):
TTTTTCCCATAAACGCCGCTAAAGGTAAAGCAATAACGGAGTTTTTGCATAAACGCCGCAAAAGG
TTAAAACAATAACGACA
Found at i:6732328 original size:39 final size:39
Alignment explanation
Indices: 6732274--6732359 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
6732264 CCATGGGCAG
6732274 AAGAGAAGAAACTTCACTATGTCGAATTCAAATGATTAC
1 AAGAGAAGAAACTTCACTATGTCGAATTCAAATGATTAC
*
6732313 AAGAGAAGAAACTTCACTATGTCGAATTCGAATGATTAC
1 AAGAGAAGAAACTTCACTATGTCGAATTCAAATGATTAC
6732352 AAGAGAAG
1 AAGAGAAG
6732360 TATACTATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (39 bp):
AAGAGAAGAAACTTCACTATGTCGAATTCAAATGATTAC
Found at i:6738754 original size:12 final size:12
Alignment explanation
Indices: 6738726--6738763 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6738716 ATGATTTACT
*
6738726 AAACTAGT-TTT
1 AAACTAGTATTA
6738737 AAACTAGTATTA
1 AAACTAGTATTA
*
6738749 AAACTAGTACTA
1 AAACTAGTATTA
6738761 AAA
1 AAA
6738764 TCGAAAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (12 bp):
AAACTAGTATTA
Found at i:6738875 original size:44 final size:44
Alignment explanation
Indices: 6738790--6738902 Score: 109
Period size: 44 Copynumber: 2.5 Consensus size: 44
6738780 GGTGGATAAA
* *
6738790 ATTAAATAAATAATCATGTTTCATAATAATTAATTAATTAATTTTTG
1 ATTAAATAAATAA--AT-ATTCATAATAATTAAATAATTAATTTTTG
** * *
6738837 ATTAAATAAATAAATATTCATAATTTTTAAATATTTAATTTTTT
1 ATTAAATAAATAAATATTCATAATAATTAAATAATTAATTTTTG
** * *
6738881 ATTATTTAATTAAATAATCATA
1 ATTAAATAAATAAATATTCATA
6738903 TTTCATAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
44 41 0.73
45 2 0.04
47 13 0.23
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (44 bp):
ATTAAATAAATAAATATTCATAATAATTAAATAATTAATTTTTG
Found at i:6738877 original size:15 final size:15
Alignment explanation
Indices: 6738847--6738891 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6738837 ATTAAATAAA
6738847 TAAATATTCATAATTTT
1 TAAATATT--TAATTTT
6738864 TAAATATTTAATTTT
1 TAAATATTTAATTTT
* *
6738879 TTATTATTTAATT
1 TAAATATTTAATT
6738892 AAATAATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 18 0.69
17 8 0.31
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TAAATATTTAATTTT
Found at i:6749792 original size:54 final size:54
Alignment explanation
Indices: 6749734--6749864 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
6749724 TCCCTTATTC
* * * *
6749734 GCGAGATAGTCCGCCAGTCATCTTTTAGTGAGACAAACTGCCAGTCACCTGTTA
1 GCGAGATAGTCCGCCAGTCACCTATTAGCGAGACAAACTGCCAATCACCTGTTA
* * * ** *
6749788 GCGAGACAATTCGCCAGTCACCTATTAGCGAGACAGTCTGCCAATCACCTGTTT
1 GCGAGATAGTCCGCCAGTCACCTATTAGCGAGACAAACTGCCAATCACCTGTTA
** * *
6749842 GAAAGATAGTCCACCAGTTACCT
1 GCGAGATAGTCCGCCAGTCACCT
6749865 GTCCACCATG
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (54 bp):
GCGAGATAGTCCGCCAGTCACCTATTAGCGAGACAAACTGCCAATCACCTGTTA
Found at i:6749830 original size:27 final size:27
Alignment explanation
Indices: 6749720--6749837 Score: 105
Period size: 27 Copynumber: 4.4 Consensus size: 27
6749710 AGACAACCCA
* * * *
6749720 CCAGTC-CCTTATTCGCGAGATAGTCCG
1 CCAGTCACC-TATTAGCGAGACAATCTG
* * * *
6749747 CCAGTCATCTTTTAGTGAGACAAACTG
1 CCAGTCACCTATTAGCGAGACAATCTG
*
6749774 CCAGTCACCTGTTAGCGAGACAAT-TCG
1 CCAGTCACCTATTAGCGAGACAATCT-G
*
6749801 CCAGTCACCTATTAGCGAGACAGTCTG
1 CCAGTCACCTATTAGCGAGACAATCTG
*
6749828 CCAATCACCT
1 CCAGTCACCT
6749838 GTTTGAAAGA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 70 0.96
28 2 0.03
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (27 bp):
CCAGTCACCTATTAGCGAGACAATCTG
Found at i:6760171 original size:12 final size:12
Alignment explanation
Indices: 6760154--6760184 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6760144 AGGTTTCTTA
6760154 TGTTTTTAAATT
1 TGTTTTTAAATT
6760166 TGTTTTTAAATT
1 TGTTTTTAAATT
*
6760178 TATTTTT
1 TGTTTTT
6760185 CATTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
TGTTTTTAAATT
Found at i:6761122 original size:98 final size:98
Alignment explanation
Indices: 6760989--6761283 Score: 529
Period size: 98 Copynumber: 3.0 Consensus size: 98
6760979 TAAAAAATAA
* * * *
6760989 TAAAGGAAATATTTCGAGTTTGGGGTTTT-GAAGGAATTGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAGGAAATATTCCGAGTTAGGGATTTTAG-AGGAATCGTGCCCTAACGTATTGGGTGTGATTT
6761053 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
6761087 TAAAGGAAATATTCCGAGTTAGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTAGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
6761152 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
6761185 TAAAGGAAATATTCCGAGTTAGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTAGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
6761250 TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
6761283 T
1 T
6761284 TTTATTACAC
Statistics
Matches: 191, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
98 190 0.99
99 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTAGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:6772911 original size:44 final size:44
Alignment explanation
Indices: 6772858--6773230 Score: 161
Period size: 44 Copynumber: 8.6 Consensus size: 44
6772848 TGGCCAGTCT
**
6772858 TATCTCCCTGAAGTTGTGGTGGAGCAGA-TTAAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAA-CC-ATAGATCC
* *
6772902 TATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAACCATAGATCC
* ** *** * *
6772946 TATCTCTCTGAAGTTGCA-AAGAGCAGA-TCGCATC-TAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAACCATAGATCC
* * * * * * * *
6772986 TATCTCCCTGAAGTTGCAGTGTAACAGA-CTAAGCAAGCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAACCA-TAGATCC
* * * *
6773030 TATC-CTCCTGAAGTTGCAGT-GAGGCAGA-CTAAA-GATGGAAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGATTTAAACCAT---AGATCC
* * *
6773075 TATCTCCCTGAAGTTACAGTGGAGCA-AATTAAAGCCGACA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAA-CC-ATAGATCC
* * ** * *
6773119 TATCTCCCTAAAGTTGCAATGGAGTGGATTAAAACC-TAAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAACCAT-AGATCC
* * *** * *
6773163 TATCTCTCTGAAGTTGCAGAGG-GCAGA-TCGCATC-TAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAACCATAGATCC
6773203 TATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
6773231 CTGAAGAACG
Statistics
Matches: 250, Mismatches: 58, Indels: 45
0.71 0.16 0.13
Matches are distributed among these distances:
40 43 0.17
41 15 0.06
42 7 0.03
43 18 0.07
44 124 0.50
45 39 0.16
46 3 0.01
48 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAACCATAGATCC
Found at i:6773191 original size:217 final size:217
Alignment explanation
Indices: 6772670--6773281 Score: 933
Period size: 218 Copynumber: 2.8 Consensus size: 217
6772660 CAAACAGAAG
* **
6772670 AAAGCCAATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTAAGATCTTATCTCT
6772735 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* * ** *
6772800 GTAAGCAGGTTTTATCCTCCTGAAGTTGCAGTGGGGGCAGACTGAAGATGGCCAGTCTTATCTCC
131 G-AAGCAGGTCTTATCCTCCTGAAGTTGCAGTGGGGGCAGACTAAAGATGGAAAATCTTATCTCC
*** *
6772865 CTGAAGTTGTGGTGGAGCAGATT
195 CTGAAGTTACAGTGGAGCAAATT
* * *
6772888 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAACC-ATAGATCTTATCTC
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTA-AGATCTTATCTC
* * *
6772952 TCTGAAGTTGCAAAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGTAACAGACTA
65 TCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
*
6773017 AGCAAGCAGGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGAAAATCTTATCTC
130 AG-AAGCAGGTCTTATCCTCCTGAAGTTGCAGTGGGGGCAGACTAAAGATGGAAAATCTTATCTC
6773081 CCTGAAGTTACAGTGGAGCAAATT
194 CCTGAAGTTACAGTGGAGCAAATT
* *
6773105 AAAGCCGACAATCCTATCTCCCTAAAGTTGCAATGGAGTGGATTAAAACCTAAGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTAAGATCTTATCTCT
*
6773170 CTGAAGTTGCAGAGGGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-A
* *
6773235 AGAACGCAAGTCTTATCC-CCTTGAAATTGCAGTGGGGGCAGACTAAA
130 AGAA-GCAGGTCTTATCCTCC-TGAAGTTGCAGTGGGGGCAGACTAAA
6773282 CATACCAATC
Statistics
Matches: 356, Mismatches: 32, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
217 167 0.47
218 177 0.50
219 12 0.03
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (217 bp):
AAAGCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTAAGATCTTATCTCT
CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
GAAGCAGGTCTTATCCTCCTGAAGTTGCAGTGGGGGCAGACTAAAGATGGAAAATCTTATCTCCC
TGAAGTTACAGTGGAGCAAATT
Found at i:6775398 original size:98 final size:98
Alignment explanation
Indices: 6775286--6775482 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
6775276 AAAAAAATAA
* * *
6775286 TAAAGGAAATATTCCGAGTTTGGGGTTTT-GAAGGAATTATGCCCTGACGTATTGGGTGTGATTT
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAG-AGGAATCATGCCCTAACGTATTGGGTGTGATTT
6775350 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
6775384 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
*
6775449 TTAAATCTTGGGTAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
6775482 T
1 T
6775483 TTTATTACAC
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 92 0.99
99 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCATGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:6784575 original size:21 final size:20
Alignment explanation
Indices: 6784546--6784585 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6784536 CATGCACAAC
6784546 CATTAACAAAAGATATTAAGG
1 CATTAAC-AAAGATATTAAGG
* *
6784567 CATTCACAAAGTTATTAAG
1 CATTAACAAAGATATTAAG
6784586 TGAAGCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (20 bp):
CATTAACAAAGATATTAAGG
Found at i:6789293 original size:46 final size:46
Alignment explanation
Indices: 6789243--6789332 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
6789233 TTAACTAAAA
6789243 TATTTTAAAGTATTCAAATTACTCCTATAACTTTCAAAAGAATCTT
1 TATTTTAAAGTATTCAAATTACTCCTATAACTTTCAAAAGAATCTT
*
6789289 TATTTTAAAGTATTCAAATTACTCCTATTACTTTCAAAAGAATC
1 TATTTTAAAGTATTCAAATTACTCCTATAACTTTCAAAAGAATC
6789333 AAAATAGAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (46 bp):
TATTTTAAAGTATTCAAATTACTCCTATAACTTTCAAAAGAATCTT
Found at i:6790573 original size:15 final size:15
Alignment explanation
Indices: 6790553--6790581 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6790543 CACCCGTAAA
6790553 GTATTAGATGCGTAT
1 GTATTAGATGCGTAT
6790568 GTATTAGATGCGTA
1 GTATTAGATGCGTA
6790582 AGTCCGATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (15 bp):
GTATTAGATGCGTAT
Found at i:6792470 original size:37 final size:38
Alignment explanation
Indices: 6792406--6792478 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
6792396 CTGGAAGTAC
* * **
6792406 GCTCTATCGAGTCAAATCTTACTATTATACTGAATGAA
1 GCTCAATCGAGTCAAATCATAAAATTATACTGAATGAA
6792444 GCTCAATCGAG-CAAATCATAAAATTATACTGAATG
1 GCTCAATCGAGTCAAATCATAAAATTATACTGAATG
6792479 GAACTTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 21 0.68
38 10 0.32
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (38 bp):
GCTCAATCGAGTCAAATCATAAAATTATACTGAATGAA
Found at i:6800220 original size:22 final size:22
Alignment explanation
Indices: 6800195--6800243 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
6800185 TAGATTTTTC
* *
6800195 CTTAATATTATCACTAAAAAAT
1 CTTAATACTACCACTAAAAAAT
*
6800217 CTTAAATACTACCACTAAATAAT
1 CTT-AATACTACCACTAAAAAAT
6800240 -TTAA
1 CTTAA
6800244 ATTTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.09
22 5 0.22
23 16 0.70
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (22 bp):
CTTAATACTACCACTAAAAAAT
Found at i:6800811 original size:16 final size:16
Alignment explanation
Indices: 6800790--6800841 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
6800780 TTTGGTTCGC
6800790 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6800806 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
6800822 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
6800838 TGTA
1 TGTA
6800842 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6800888 original size:45 final size:44
Alignment explanation
Indices: 6800822--6800916 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
6800812 GGATTAGAGG
* * *
6800822 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* * **
6800867 TGTAATGGAATATAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
6800911 TGTAAT
1 TGTAAT
6800917 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Done.