Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001574.1 Hibiscus syriacus cultivar Beakdansim tig00003126_pilon, whole genome shotgun sequence
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: 1705968
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 2 of 7
Found at i:287105 original size:18 final size:18
Alignment explanation
Indices: 287079--287123 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
287069 GTCGATCAGA
*
287079 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
287097 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
287115 TGATGGCTC
1 TGATGGCTC
287124 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:288468 original size:20 final size:20
Alignment explanation
Indices: 288443--288480 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
288433 AATAGTTTCT
288443 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
288463 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
288481 GAGAGAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:288769 original size:22 final size:22
Alignment explanation
Indices: 288744--288787 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
288734 GATTTAGATA
288744 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
288766 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
288788 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:289000 original size:20 final size:20
Alignment explanation
Indices: 288975--289027 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
288965 GATTATGTAT
*
288975 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
288995 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
289015 TATCTCGTTGCGA
1 TATCGCGTTGCGA
289028 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:289040 original size:41 final size:41
Alignment explanation
Indices: 288995--289072 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
288985 CGAAAGTCAG
* * *
288995 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCACATTGCGATTTTTTAT
* *
289036 TATCGCATTGCGATAGTCAGTATCACATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCACATTGCGATTTT
289073 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCACATTGCGATTTTTTAT
Found at i:289088 original size:41 final size:41
Alignment explanation
Indices: 288995--289090 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
288985 CGAAAGTCAG
* * * ** *
288995 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCAA
* *
289036 TATCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCACATTGCGATTTT-CCAA
289078 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
289091 TTACTTATTC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCAA
Found at i:292616 original size:18 final size:18
Alignment explanation
Indices: 292593--292640 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
292583 CAGTCAGCTT
292593 TCACCTTTCAATCTCATA
1 TCACCTTTCAATCTCATA
292611 TCACCTTTCAATCTCATA
1 TCACCTTTCAATCTCATA
292629 TC-CTCTTTCAAT
1 TCAC-CTTTCAAT
292641 TCCATCTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (18 bp):
TCACCTTTCAATCTCATA
Found at i:296969 original size:19 final size:19
Alignment explanation
Indices: 296947--296990 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
296937 TTTGCATCAA
296947 CATTTTACTTTTTGCATTG
1 CATTTTACTTTTTGCATTG
*
296966 CA-TTTACTTTTTGTATTG
1 CATTTTACTTTTTGCATTG
296984 CATTTTA
1 CATTTTA
296991 TTCATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.18, C:0.14, G:0.09, T:0.59
Consensus pattern (19 bp):
CATTTTACTTTTTGCATTG
Found at i:305049 original size:120 final size:120
Alignment explanation
Indices: 304826--305066 Score: 392
Period size: 120 Copynumber: 2.0 Consensus size: 120
304816 ATAGTAGTAC
* * *
304826 TATATTCTAATCCTTTAGTGTTTGAGAAAGACTAAGATAGGATTTCAACGACTAAGAGGGGTAGT
1 TATACTCTAATCCCTTAGTGCTTGAGAAAGACTAAGATAGGATTTCAACGACTAAGAGGGGTAGT
* *
304891 TTTTATCAATAGCGTAGGATGCCATAATCGAGATTGAGAGGAGATATCGTGGCAT
66 TTTTATCAATAGCATAGGATGCCATAATCGAGACTGAGAGGAGATATCGTGGCAT
*
304946 TATACTCTAATCCCTTAGTGCTTGAGAAAGACTAATATAGGATTTCAACGACTAAGAGGGGTAGT
1 TATACTCTAATCCCTTAGTGCTTGAGAAAGACTAAGATAGGATTTCAACGACTAAGAGGGGTAGT
* * * *
305011 TTTTATCAATAGCATAGGTTGCCATAGTTGAGACTGAGAGGAGATGTCGTGGCAT
66 TTTTATCAATAGCATAGGATGCCATAATCGAGACTGAGAGGAGATATCGTGGCAT
305066 T
1 T
305067 CTATTCTATT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 111 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (120 bp):
TATACTCTAATCCCTTAGTGCTTGAGAAAGACTAAGATAGGATTTCAACGACTAAGAGGGGTAGT
TTTTATCAATAGCATAGGATGCCATAATCGAGACTGAGAGGAGATATCGTGGCAT
Found at i:307347 original size:90 final size:88
Alignment explanation
Indices: 307238--307411 Score: 294
Period size: 90 Copynumber: 2.0 Consensus size: 88
307228 TCCCAAAAAT
* *
307238 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCGTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAG
*
307303 GGTAACTTGGATATAAAAGGATTA
65 GGTAACTTAGATATAAAAGGATTA
307327 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
*
307392 GGTAACTTAGCTATAAAAGG
65 GGTAACTTAGATATAAAAGG
307412 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 39 0.49
90 41 0.51
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.37
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGG
GTAACTTAGATATAAAAGGATTA
Found at i:324267 original size:227 final size:227
Alignment explanation
Indices: 323872--324316 Score: 890
Period size: 227 Copynumber: 2.0 Consensus size: 227
323862 AGAGCCCCTG
323872 GTTTTTTAGAGTCGTTCTTCCTTTGTTCTTAATCTTTTTATATGTTTGGGGTTGTATTAAATGTT
1 GTTTTTTAGAGTCGTTCTTCCTTTGTTCTTAATCTTTTTATATGTTTGGGGTTGTATTAAATGTT
323937 GAAACTTGGAGGGTTTTTTATAGCACCATGTATTGGGACCGTCGGCGCACCCCATGGCGCAGCGG
66 GAAACTTGGAGGGTTTTTTATAGCACCATGTATTGGGACCGTCGGCGCACCCCATGGCGCAGCGG
324002 AAACAAAACTCGACGGTTCACCAGCGATCCAAGTACAAAAAAACTGAAATCGGGAGGAAGAGATC
131 AAACAAAACTCGACGGTTCACCAGCGATCCAAGTACAAAAAAACTGAAATCGGGAGGAAGAGATC
324067 CAAATACTTACAGCGGGTTCCTTTGTTCCTTT
196 CAAATACTTACAGCGGGTTCCTTTGTTCCTTT
324099 GTTTTTTAGAGTCGTTCTTCCTTTGTTCTTAATCTTTTTATATGTTTGGGGTTGTATTAAATGTT
1 GTTTTTTAGAGTCGTTCTTCCTTTGTTCTTAATCTTTTTATATGTTTGGGGTTGTATTAAATGTT
324164 GAAACTTGGAGGGTTTTTTATAGCACCATGTATTGGGACCGTCGGCGCACCCCATGGCGCAGCGG
66 GAAACTTGGAGGGTTTTTTATAGCACCATGTATTGGGACCGTCGGCGCACCCCATGGCGCAGCGG
324229 AAACAAAACTCGACGGTTCACCAGCGATCCAAGTACAAAAAAACTGAAATCGGGAGGAAGAGATC
131 AAACAAAACTCGACGGTTCACCAGCGATCCAAGTACAAAAAAACTGAAATCGGGAGGAAGAGATC
324294 CAAATACTTACAGCGGGTTCCTT
196 CAAATACTTACAGCGGGTTCCTT
324317 GAAAAAATAG
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 218 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (227 bp):
GTTTTTTAGAGTCGTTCTTCCTTTGTTCTTAATCTTTTTATATGTTTGGGGTTGTATTAAATGTT
GAAACTTGGAGGGTTTTTTATAGCACCATGTATTGGGACCGTCGGCGCACCCCATGGCGCAGCGG
AAACAAAACTCGACGGTTCACCAGCGATCCAAGTACAAAAAAACTGAAATCGGGAGGAAGAGATC
CAAATACTTACAGCGGGTTCCTTTGTTCCTTT
Found at i:329104 original size:23 final size:23
Alignment explanation
Indices: 329061--329104 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
329051 TGTTTGCTTG
**
329061 TTTATTTTAATTTATTTTATTTC
1 TTTATTTTAATTTATAATATTTC
329084 TTTATTTTTAATTT-TAATATT
1 TTTA-TTTTAATTTATAATATT
329105 AGTTCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTATTTTAATTTATAATATTTC
Found at i:331779 original size:14 final size:14
Alignment explanation
Indices: 331728--331779 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
331718 CAACCTGGAG
*
331728 TGAGTCAACTCTTC
1 TGAGTCAACTCATC
*
331742 GGAGTCAACTCATC
1 TGAGTCAACTCATC
* * *
331756 TGAATTAACTCGTC
1 TGAGTCAACTCATC
*
331770 TTAGTCAACT
1 TGAGTCAACT
331780 ATTGACTTCG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (14 bp):
TGAGTCAACTCATC
Found at i:333033 original size:2 final size:2
Alignment explanation
Indices: 333026--333054 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
333016 GGAAGAACTG
333026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
333055 CCGAATTTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:349885 original size:21 final size:21
Alignment explanation
Indices: 349859--349900 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
349849 GAATTAAGAA
349859 TCAAGGAG-CTTAACTTCATAG
1 TCAAGGAGCCTT-ACTTCATAG
*
349880 TCAAGGTGCCTTACTTCATAG
1 TCAAGGAGCCTTACTTCATAG
349901 CCATAGCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (21 bp):
TCAAGGAGCCTTACTTCATAG
Found at i:353989 original size:19 final size:19
Alignment explanation
Indices: 353948--353988 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
353938 TAAATAATAA
353948 TTTTATTTTTTTCCTTTAT
1 TTTTATTTTTTTCCTTTAT
353967 TTTTATTTTTATT-C-TTAT
1 TTTTATTTTT-TTCCTTTAT
353985 TTTT
1 TTTT
353989 TTGTAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 11 0.52
20 2 0.10
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTATTTTTTTCCTTTAT
Found at i:361616 original size:20 final size:21
Alignment explanation
Indices: 361591--361660 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
361581 TATTATTTGA
361591 AATTAATT-AAATATATATTT
1 AATTAATTAAAATATATATTT
* * *
361611 AATTAATTGAAATTAAATATTC
1 AATTAATT-AAAATATATATTT
*
361633 AGGATT-ATTAAAACATATATTT
1 A--ATTAATTAAAATATATATTT
361655 AATTAA
1 AATTAA
361661 CTCTAGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 11 0.29
21 1 0.03
22 20 0.53
23 3 0.08
24 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (21 bp):
AATTAATTAAAATATATATTT
Found at i:361621 original size:89 final size:89
Alignment explanation
Indices: 361457--361626 Score: 279
Period size: 89 Copynumber: 1.9 Consensus size: 89
361447 ACACACTCTT
*
361457 TTATAGCCAAGCTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGCTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
*
361522 ATTAATTTGAATTTAATAATCCTC
66 ATTAATTTGAAATTAATAATCCTC
* * *
361546 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTGAAATTAATTAAATATATATTT
1 TTATAGCCAAGCTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATATATATTT
361611 AATTAA-TTGAAATTAA
65 AATTAATTTGAAATTAA
361627 ATATTCAGGA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 38 0.51
90 37 0.49
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGCTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
ATTAATTTGAAATTAATAATCCTC
Found at i:365885 original size:118 final size:115
Alignment explanation
Indices: 365615--365917 Score: 340
Period size: 115 Copynumber: 2.6 Consensus size: 115
365605 TCGAAAATCG
* * * * *
365615 GAATATGCATACAAAGTGAAATCACATCGGAATGTATATACTAGTGTACACTCTGGTACACCACA
1 GAATATGCACACAAAGTGCAATCACATCGGAATATATATACTAGTGCACACTCAGGTACACCACA
* * *
365680 ATATATCAGATTCAAAAATGAGCACACATAGTGCTATCACATCAGAACCA
66 ATATATCAGATACAAAAATAAGCACACACAGTGCTATCACATCAGAACCA
* * *
365730 GAATATGCACACAAAGTGCAATCACATCGGAATATATATACTAGTGCACACTCCGGTACACTATA
1 GAATATGCACACAAAGTGCAATCACATCGGAATATATATACTAGTGCACACTCAGGTACACCACA
* * * * * *
365795 ATATATTAGAATAGAAACATATAAGCACACCCAGTGCTATCATATCATAATCA
66 ATATATCAG-ATACAAA-A-ATAAGCACACACAGTGCTATCACATCAGAACCA
* * * * * *
365848 TAATGTGCACACAATGTGCAATCACATCAGAA-A-ATATACTAGTGCACCCTCAGGTAACACCCC
1 GAATATGCACACAAAGTGCAATCACATCGGAATATATATACTAGTGCACACTCAGGT-ACACCAC
*
365911 AGTATAT
65 AATATAT
365918 TAGAATCACT
Statistics
Matches: 158, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
115 66 0.42
116 25 0.16
117 12 0.08
118 55 0.35
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (115 bp):
GAATATGCACACAAAGTGCAATCACATCGGAATATATATACTAGTGCACACTCAGGTACACCACA
ATATATCAGATACAAAAATAAGCACACACAGTGCTATCACATCAGAACCA
Found at i:368700 original size:42 final size:41
Alignment explanation
Indices: 368653--368750 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 41
368643 ATTGGTAAGC
* *
368653 CCTTTGGGCCATC-AGTAAGTCTTTCGAGC-ATGATGATTAAAT
1 CCTTTGGGTCATCTACT-AGTCTTTCGAGCGA-GATGA-TAAAT
*
368695 CCTTTGGGTCATCTACTAGTCTTTCGAGCGAGATGATAAGT
1 CCTTTGGGTCATCTACTAGTCTTTCGAGCGAGATGATAAAT
*
368736 CCTTCGGGTCATCTA
1 CCTTTGGGTCATCTA
368751 TAAGGCATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
41 18 0.36
42 29 0.58
43 3 0.06
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (41 bp):
CCTTTGGGTCATCTACTAGTCTTTCGAGCGAGATGATAAAT
Found at i:369059 original size:7 final size:7
Alignment explanation
Indices: 369027--369113 Score: 59
Period size: 8 Copynumber: 11.0 Consensus size: 7
369017 AGAAATGGGG
369027 AAAGAAAA
1 AAAG-AAA
369035 AAATGAAA
1 AAA-GAAA
*
369043 AATGAAA
1 AAAGAAA
369050 AAAGAAA
1 AAAGAAA
369057 AAAGGGAAA
1 AAA--GAAA
369066 AGAA-AAGA
1 A-AAGAA-A
369074 AAAGAAA
1 AAAGAAA
369081 AAAGGAAA
1 AAA-GAAA
369089 AGAGAGAAA
1 A-A-AGAAA
369098 AGAAGAAA
1 A-AAGAAA
369106 AATAGAAA
1 AA-AGAAA
369114 TGAAAAAGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 20
0.75 0.02 0.22
Matches are distributed among these distances:
7 22 0.33
8 28 0.42
9 14 0.21
10 3 0.04
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:369059 original size:16 final size:15
Alignment explanation
Indices: 369027--369113 Score: 61
Period size: 17 Copynumber: 5.5 Consensus size: 15
369017 AGAAATGGGG
369027 AAAGAAAAAAATGAAA
1 AAAGAAAAAAA-GAAA
*
369043 AATG-AAAAAAGAAA
1 AAAGAAAAAAAGAAA
*
369057 AAAGGGAAAAGAAA-AGA
1 AAA--GAAAA-AAAGAAA
*
369074 AAAGAAAAAAGGAAA
1 AAAGAAAAAAAGAAA
*
369089 AGAGAGAAAAGAAGAAA
1 A-A-AGAAAAAAAGAAA
369106 AATAGAAA
1 AA-AGAAA
369114 TGAAAAAGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
14 8 0.14
15 14 0.25
16 11 0.20
17 20 0.36
18 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAGAAA
Found at i:369070 original size:5 final size:5
Alignment explanation
Indices: 369049--369135 Score: 58
Period size: 5 Copynumber: 17.8 Consensus size: 5
369039 GAAAAATGAA
** * *
369049 AAAAG AAAA- AAGGG AAAAG AAAAG AAAAG -AAA- AAAGG AAAAG -AGAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
* *
369095 AAAAG AAGAA- AAATAG AAATG AAAAAG AAAAG AAATG AAAA
1 AAAAG AA-AAG AAA-AG AAAAG -AAAAG AAAAG AAAAG AAAA
369136 ACAAATAGAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
4 11 0.18
5 42 0.68
6 9 0.15
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:369076 original size:24 final size:23
Alignment explanation
Indices: 369049--369129 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 23
369039 GAAAAATGAA
369049 AAAAGAAAAAAGGGAAAAGAAAAG
1 AAAAGAAAAAA-GGAAAAGAAAAG
369073 AAAAGAAAAAAGGAAAAGAGAGAA-
1 AAAAGAAAAAAGGAAAAGA-A-AAG
*
369097 AAGAAGAAAAATA-GAAATGAAAAAG
1 AA-AAGAAAAA-AGGAAAAG-AAAAG
369122 AAAAGAAA
1 AAAAGAAA
369130 TGAAAAACAA
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
23 8 0.16
24 22 0.44
25 18 0.36
26 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.02
Consensus pattern (23 bp):
AAAAGAAAAAAGGAAAAGAAAAG
Found at i:369128 original size:16 final size:16
Alignment explanation
Indices: 369042--369152 Score: 66
Period size: 16 Copynumber: 6.5 Consensus size: 16
369032 AAAAAATGAA
369042 AAATGAAAAA-AGAAA-
1 AAATGAAAAAGA-AAAG
* *
369057 AAAGGGAAAAGAAAAG
1 AAATGAAAAAGAAAAG
*
369073 AAAAGAAAAAAGGAAAAG
1 AAATG-AAAAA-GAAAAG
*
369091 AGA-GAAAAGAAGAAAAATAG
1 AAATG-AAA-AAG--AAA-AG
369111 AAATGAAAAAGAAAAG
1 AAATGAAAAAGAAAAG
*
369127 AAATGAAAAACAAATAG
1 AAATGAAAAAGAAA-AG
369144 AAATAGAAA
1 AAAT-GAAA
369153 TAAACTTTCA
Statistics
Matches: 78, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
15 11 0.14
16 20 0.26
17 19 0.24
18 14 0.18
19 6 0.08
20 7 0.09
21 1 0.01
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (16 bp):
AAATGAAAAAGAAAAG
Found at i:369153 original size:6 final size:6
Alignment explanation
Indices: 369105--369154 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
369095 AAAAGAAGAA
* * *
369105 AAATAG AAAT-G AAAAAG AAA-AG AAAT-G AAAAAC AAATAG AAATAG
1 AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG
369150 AAATA
1 AAATA
369155 AACTTTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
5 13 0.36
6 23 0.64
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (6 bp):
AAATAG
Found at i:369933 original size:20 final size:21
Alignment explanation
Indices: 369908--369959 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
369898 TTTTCCCAAT
*
369908 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
369928 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
369949 TCGCAATGCGA
1 TCGCAATGCGA
369960 TAATGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:370010 original size:61 final size:61
Alignment explanation
Indices: 369945--370061 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
369935 GCGAATTGGG
* * * *
369945 AAAATCGCAATGCGATAATGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATAATGACTATCGCAACGCGATACTGACTATCGCAATGCGATAATAC
* * * *
370006 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAATGCGAT
1 AAAATCGCAACGAGATAATGACTATCGCAACGCGATACTGACTATCGCAATGCGAT
370062 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATAATGACTATCGCAACGCGATACTGACTATCGCAATGCGATAATAC
Found at i:370013 original size:41 final size:40
Alignment explanation
Indices: 369948--370041 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 40
369938 AATTGGGAAA
* * * *
369948 ATCGCAATGCGATAATGACTATCGCAATGCGATACTTACT
1 ATCGCAATGCGATAATGACAATCGCAACGAGATACTGACT
369988 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTGACT
1 ATCGCAATGCGATAATGAC--AATCGCAACGAGATACTGACT
* *
370029 TTCGCAACGCGAT
1 ATCGCAATGCGAT
370042 TCTGACTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.04
40 16 0.35
41 28 0.61
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (40 bp):
ATCGCAATGCGATAATGACAATCGCAACGAGATACTGACT
Found at i:370062 original size:20 final size:20
Alignment explanation
Indices: 369948--370061 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
369938 AATTGGGAAA
*
369948 ATCGCAATGCGATAATGACT
1 ATCGCAATGCGATACTGACT
*
369968 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
369988 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
370009 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
370029 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
*
370049 TTCGCAATGCGAT
1 ATCGCAATGCGAT
370062 TTACATAGCG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.78
21 13 0.16
22 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:370639 original size:19 final size:19
Alignment explanation
Indices: 370615--370656 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
370605 ACGAGAGAAT
*
370615 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
370634 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
370653 CGCA
1 CGCA
370657 TTGCGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:370711 original size:33 final size:33
Alignment explanation
Indices: 370666--370729 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
370656 ATTGCGGTTT
* *
370666 TCATTTCGCGTTGCAATTCTCTGGTCGCGATAG
1 TCATTTCACGTTGCAATTCTCTCGTCGCGATAG
* *
370699 TCATTTCACGTTGCGATTCTCTCGTTGCGAT
1 TCATTTCACGTTGCAATTCTCTCGTCGCGAT
370730 TCTCTCGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (33 bp):
TCATTTCACGTTGCAATTCTCTCGTCGCGATAG
Found at i:370726 original size:14 final size:14
Alignment explanation
Indices: 370707--370743 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
370697 AGTCATTTCA
370707 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
370721 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
370735 CGTTGCGAT
1 CGTTGCGAT
370744 AGTCATTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.08, C:0.27, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:370743 original size:47 final size:48
Alignment explanation
Indices: 370674--370767 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 48
370664 TTTCATTTCG
*
370674 CGTTGCAATTCTCTGGTCGCGATAGTCATTT-CACGTTGCGATTCTCT
1 CGTTGCAATTCTCTCGTCGCGATAGTCATTTCCACGTTGCGATTCTCT
* * *
370721 CGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 CGTTGCAATTCTCTCGTCGCGATAGTCATTTCCACGTTGCGATTCTC
370768 ATTATCTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 28 0.67
48 14 0.33
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.38
Consensus pattern (48 bp):
CGTTGCAATTCTCTCGTCGCGATAGTCATTTCCACGTTGCGATTCTCT
Found at i:370769 original size:20 final size:20
Alignment explanation
Indices: 370735--370792 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
370725 GCGATTCTCT
**
370735 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
370755 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
370775 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
370793 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:372446 original size:57 final size:57
Alignment explanation
Indices: 372358--372474 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
372348 GAGATGGTAG
* *
372358 TATCGTTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAGATTTTCTA
1 TATCGTTACAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAGATTTTCCA
372415 TATCGTTACAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAGATTTTCCA
1 TATCGTTACAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAGATTTTCCA
372472 TAT
1 TAT
372475 TTAACTTGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (57 bp):
TATCGTTACAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAGATTTTCCA
Found at i:372927 original size:21 final size:21
Alignment explanation
Indices: 372903--372969 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
372893 TCATTCCTCG
372903 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
372924 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
372945 AGAGGT-CCCTCCCACCGTTCA
1 AGA-GTCCCCTCCCACCGTTCA
372966 AGAG
1 AGAG
372970 CCCGATTCAC
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.22, C:0.36, G:0.22, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:372927 original size:42 final size:42
Alignment explanation
Indices: 372876--372969 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
372866 CTACTCCTAT
* *
372876 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * *
372918 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
372960 CGTTCAAGAG
1 CGTTCAAGAG
372970 CCCGATTCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 4 0.09
42 39 0.87
43 2 0.04
ACGTcount: A:0.21, C:0.35, G:0.22, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:374330 original size:14 final size:14
Alignment explanation
Indices: 374311--374346 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
374301 ATTGTTTAAT
374311 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
* *
374325 TGATTTGTAAGAGT
1 TGATTTGTAAAAGG
374339 TGATTTGT
1 TGATTTGT
374347 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:374515 original size:19 final size:19
Alignment explanation
Indices: 374453--374506 Score: 90
Period size: 20 Copynumber: 2.8 Consensus size: 19
374443 AAAAAGTAAT
*
374453 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
374472 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCG-AAATGAAA
374492 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
374507 TAAATTCGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:374522 original size:19 final size:19
Alignment explanation
Indices: 374454--374541 Score: 50
Period size: 19 Copynumber: 4.6 Consensus size: 19
374444 AAAAGTAATA
* * *
374454 TCGCAATGCGAAATGAAAA
1 TCGCATTGCGAAATTAAAT
** * *
374473 TCGCAACGCGAAAATGAAAA
1 TCGCATTGCG-AAATTAAAT
**
374493 TCGCAACGCGAAATTAAAT
1 TCGCATTGCGAAATTAAAT
* * * *
374512 TCGCGTTGCGATATTCATT
1 TCGCATTGCGAAATTAAAT
374531 TCGCATTGCGA
1 TCGCATTGCGA
374542 TTCCCTCGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 39 0.67
20 19 0.33
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (19 bp):
TCGCATTGCGAAATTAAAT
Found at i:374562 original size:33 final size:32
Alignment explanation
Indices: 374515--374641 Score: 157
Period size: 33 Copynumber: 3.9 Consensus size: 32
374505 ATTAAATTCG
*
374515 CGTTGCGATATTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
374548 CGTTGCGATTTTCATTTTGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
* *
374581 CGTTGCGATTTTCATTTTGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
374614 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
374642 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
31 3 0.04
33 75 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:374574 original size:19 final size:19
Alignment explanation
Indices: 374550--374641 Score: 51
Period size: 19 Copynumber: 5.4 Consensus size: 19
374540 GATTCCCTCG
374550 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTTGCA
* * *
374569 TTGCGA-----AATTAGCG
1 TTGCGATTTTCATTTTGCA
*
374583 TTGCGATTTTCATTTTGTA
1 TTGCGATTTTCATTTTGCA
* *
374602 TTGCGA--TTC--TCT-CG
1 TTGCGATTTTCATTTTGCA
*
374616 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTTGCA
374635 TTGCGAT
1 TTGCGAT
374642 AGTAATTTCC
Statistics
Matches: 50, Mismatches: 13, Indels: 20
0.60 0.16 0.24
Matches are distributed among these distances:
14 17 0.34
15 2 0.04
16 3 0.06
17 3 0.06
18 1 0.02
19 24 0.48
ACGTcount: A:0.16, C:0.17, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTTGCA
Found at i:374616 original size:66 final size:66
Alignment explanation
Indices: 374508--374640 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
374498 ACGCGAAATT
* *
374508 AAATTCGCGTTGCGATATTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTTGCATTGC
1 AAATTAGCGTTGCGATATTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
374573 G
66 G
* * * *
374574 AAATTAGCGTTGCGATTTTCATTTTGTATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATATTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
374639 G
66 G
374640 A
1 A
374641 TAGTAATTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATATTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:376947 original size:12 final size:12
Alignment explanation
Indices: 376930--376954 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
376920 TCTTCGGGGA
376930 CTTTTTCTTCTT
1 CTTTTTCTTCTT
376942 CTTTTTCTTCTT
1 CTTTTTCTTCTT
376954 C
1 C
376955 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:377163 original size:24 final size:24
Alignment explanation
Indices: 377129--377182 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
377119 CTGAAACATC
* *
377129 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
377153 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
377177 ATCAAA
1 ATCAAA
377183 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:378319 original size:14 final size:16
Alignment explanation
Indices: 378299--378372 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
378289 TGAAAATCGC
378299 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
378314 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
378331 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
378350 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
378366 -TTGCGAT
1 ATTGCGAT
378373 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:378336 original size:19 final size:19
Alignment explanation
Indices: 378295--378362 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
378285 GAAATGAAAA
378295 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
378311 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
378328 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
378347 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
378363 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:378338 original size:52 final size:52
Alignment explanation
Indices: 378276--378390 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
378266 AACGAGAAAA
* ***
378276 TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
** ** **
378328 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
378380 TCGCGTTGCGA
1 TCGCATTGCGA
378391 TAGTCTGTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:378498 original size:14 final size:14
Alignment explanation
Indices: 378479--378515 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
378469 CATCAATTAA
378479 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
378493 ACAAATCATCTTTT
1 ACAAATCAACATTT
378507 ACAAATCAA
1 ACAAATCAA
378516 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:380405 original size:20 final size:20
Alignment explanation
Indices: 380382--380435 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
380372 GAAATTTAAA
380382 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
380402 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGAAAATGACT
*
380422 ATCGCAATGCGAAA
1 ATCGCAACGCGAAA
380436 TGAAAAATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:380498 original size:19 final size:19
Alignment explanation
Indices: 380476--380590 Score: 126
Period size: 19 Copynumber: 6.6 Consensus size: 19
380466 GAAACACAAA
380476 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
380495 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
380514 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
380530 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
380546 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
380562 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
380579 TTGCATTGCGAT
1 TCGCATTGCGAT
380591 AGCCATTTCC
Statistics
Matches: 82, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
14 15 0.18
15 3 0.04
16 12 0.15
17 3 0.04
18 12 0.15
19 37 0.45
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:380538 original size:14 final size:14
Alignment explanation
Indices: 380519--380574 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
380509 TCATTTCGCA
380519 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
380533 TTGCGATTTCATTTCG
1 TTGCGATTT--TGTCG
380549 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
380565 TTGCGATTTT
1 TTGCGATTTT
380575 CATTTTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:380585 original size:33 final size:33
Alignment explanation
Indices: 380500--380590 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
380490 TCATTTCGCA
380500 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
380533 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
380565 TTGCGATTTTCATTTTGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
380591 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:380588 original size:51 final size:50
Alignment explanation
Indices: 380478--380590 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 50
380468 AACACAAATC
*
380478 GCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTT
1 GCATTGCGA-TTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTTT
* * *
380529 GTCGTTGCGATTTCATTTCGCATTGCGATTTTGTCGTTGCG-ATTTTC-ATTTT
1 G-CATTGCGATTTCATTTCGCATTGCGA-TTT-TCATTGCGCA-TTGCGATTTT
380581 GCATTGCGAT
1 GCATTGCGAT
380591 AGCCATTTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
51 27 0.51
52 17 0.32
53 9 0.17
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (50 bp):
GCATTGCGATTTCATTTCGCATTGCGATTTTCATTGCGCATTGCGATTTT
Found at i:380609 original size:20 final size:20
Alignment explanation
Indices: 380584--380629 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
380574 TCATTTTGCA
380584 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
380604 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
380624 TTGCGA
1 TTGCGA
380630 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:381131 original size:18 final size:18
Alignment explanation
Indices: 381105--381149 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
381095 GTCGATCAGA
*
381105 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
381123 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
381141 TGATGGCTC
1 TGATGGCTC
381150 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:382494 original size:20 final size:20
Alignment explanation
Indices: 382469--382506 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
382459 AATAGTTTCT
382469 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
382489 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
382507 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:383028 original size:20 final size:20
Alignment explanation
Indices: 383002--383072 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
382992 GATTATGTAT
383002 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
383022 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
383042 TATCGCGTTAG-GAAAGTAAG
1 TATCGCGTT-GCGAAAGTCAG
*
383062 TATCTCGTTGC
1 TATCGCGTTGC
383073 AATTTTGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:384491 original size:4 final size:4
Alignment explanation
Indices: 384482--384507 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
384472 GGTCACCTAT
384482 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
384508 ACGAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:384929 original size:29 final size:29
Alignment explanation
Indices: 384896--384964 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
384886 GATTTATTTT
384896 CTATTATTTACAATTT-TCCCTATAAATTA
1 CTATTATTTACAATTTATCCCT-TAAATTA
* * * *
384925 TTATTATTT-TAATTTATGCCTTTAATTA
1 CTATTATTTACAATTTATCCCTTAAATTA
384953 CTATTATTTACA
1 CTATTATTTACA
384965 TTTCAGTCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.32, C:0.13, G:0.01, T:0.54
Consensus pattern (29 bp):
CTATTATTTACAATTTATCCCTTAAATTA
Found at i:385471 original size:16 final size:16
Alignment explanation
Indices: 385450--385482 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
385440 CTTTTTCAAT
*
385450 TAGTTGTATATATATA
1 TAGTTGTAAATATATA
385466 TAGTTGTAAATATATA
1 TAGTTGTAAATATATA
385482 T
1 T
385483 TTATAGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (16 bp):
TAGTTGTAAATATATA
Found at i:385481 original size:20 final size:20
Alignment explanation
Indices: 385456--385500 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
385446 CAATTAGTTG
385456 TATATATATATAGTTGTAAA
1 TATATATATATAGTTGTAAA
* *
385476 TATATATTTATAGTTGTAGA
1 TATATATATATAGTTGTAAA
385496 TATAT
1 TATAT
385501 GTGAATGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (20 bp):
TATATATATATAGTTGTAAA
Found at i:388289 original size:40 final size:40
Alignment explanation
Indices: 388234--388311 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
388224 TTCATCTTTT
*
388234 ACACATGGGTAGTGATCATCATCCTATAATCCTTCAAAAA
1 ACACATGGGTAGTGATCATCATCCAATAATCCTTCAAAAA
*
388274 ACACATGGGTAGTGATCATCATCCAATAATTCTTCAAA
1 ACACATGGGTAGTGATCATCATCCAATAATCCTTCAAA
388312 TTGGGAGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (40 bp):
ACACATGGGTAGTGATCATCATCCAATAATCCTTCAAAAA
Found at i:391135 original size:25 final size:25
Alignment explanation
Indices: 391082--391135 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
391072 GGTGTAGAAG
* *
391082 AGCTGGGCGTGGTCCCCTCCTTGGT
1 AGCTGGGCGTGGTCCCCTCCTCGGC
*
391107 AGCTGGGCGTGGTCCCCTCGTCGGC
1 AGCTGGGCGTGGTCCCCTCCTCGGC
391132 AGCT
1 AGCT
391136 TGTAGCTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.06, C:0.33, G:0.37, T:0.24
Consensus pattern (25 bp):
AGCTGGGCGTGGTCCCCTCCTCGGC
Found at i:392482 original size:2 final size:2
Alignment explanation
Indices: 392475--392543 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
392465 CAACCACTTA
392475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
392517 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
392544 CCTCATATCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:392870 original size:23 final size:23
Alignment explanation
Indices: 392814--392932 Score: 99
Period size: 23 Copynumber: 5.4 Consensus size: 23
392804 CATCAAAGTG
* *
392814 CCACATTG-AATGTCCTGAATG-A
1 CCACATAGAAATGTCCCGAA-GAA
392836 CCACATAG--ATGTCCCGAAGAA
1 CCACATAGAAATGTCCCGAAGAA
*** *
392857 CCGTGTAGAAATGTCCTGAAGAA
1 CCACATAGAAATGTCCCGAAGAA
*
392880 CCACATAGAATTGTCCCGAA-AGA
1 CCACATAGAAATGTCCCGAAGA-A
*
392903 CCACATAG--ATGTCCCGAAGGA
1 CCACATAGAAATGTCCCGAAGAA
392924 CCACATAGA
1 CCACATAGA
392933 TGTCTCGAAG
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
20 1 0.01
21 33 0.42
22 8 0.10
23 36 0.46
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.18
Consensus pattern (23 bp):
CCACATAGAAATGTCCCGAAGAA
Found at i:392885 original size:44 final size:43
Alignment explanation
Indices: 392814--392942 Score: 129
Period size: 44 Copynumber: 2.9 Consensus size: 43
392804 CATCAAAGTG
*
392814 CCACATTGAATGTCCTGAATGACCACATAGATGTCCCGAAGA-A
1 CCACATAGAATGTCCTGAA-GACCACATAGATGTCCCGAAGAGA
***
392857 CCGTGTAGAAATGTCCTGAAGAACCACATAGAATTGTCCCGAA-AGA
1 CCACATAG-AATGTCCTGAAG-ACCACATAG-A-TGTCCCGAAGAGA
* *
392903 CCACATAG-ATGTCCCGAAGGACCACATAGATGTCTCGAAG
1 CCACATAGAATGTCCTGAA-GACCACATAGATGTCCCGAAG
392943 GACTGCGTAG
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
42 8 0.11
43 6 0.09
44 38 0.54
45 3 0.04
46 15 0.21
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (43 bp):
CCACATAGAATGTCCTGAAGACCACATAGATGTCCCGAAGAGA
Found at i:392953 original size:21 final size:21
Alignment explanation
Indices: 392814--392945 Score: 120
Period size: 21 Copynumber: 6.0 Consensus size: 21
392804 CATCAAAGTG
* * *
392814 CCACATTGAATGTCCTGAATGA
1 CCACATAG-ATGTCCCGAAGGA
*
392836 CCACATAGATGTCCCGAAGAA
1 CCACATAGATGTCCCGAAGGA
*** * *
392857 CCGTGTAGAAATGTCCTGAAGAA
1 CCACATAG--ATGTCCCGAAGGA
*
392880 CCACATAGAATTGTCCCGAAAGA
1 CCACATAG-A-TGTCCCGAAGGA
392903 CCACATAGATGTCCCGAAGGA
1 CCACATAGATGTCCCGAAGGA
*
392924 CCACATAGATGTCTCGAAGGA
1 CCACATAGATGTCCCGAAGGA
392945 C
1 C
392946 TGCGTAGAAC
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
21 47 0.52
22 10 0.11
23 34 0.37
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (21 bp):
CCACATAGATGTCCCGAAGGA
Found at i:393078 original size:14 final size:14
Alignment explanation
Indices: 393038--393080 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
393028 TGGTTATATC
*
393038 TTATTTCACGTAGA
1 TTATGTCACGTAGA
*
393052 TAAGTGATCACGTAGA
1 TTA-TG-TCACGTAGA
393068 TTATGTCACGTAG
1 TTATGTCACGTAG
393081 TTTGTATCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 11 0.46
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (14 bp):
TTATGTCACGTAGA
Found at i:394075 original size:42 final size:42
Alignment explanation
Indices: 394016--394111 Score: 183
Period size: 42 Copynumber: 2.3 Consensus size: 42
394006 CTACTCCTTC
*
394016 GGTATCGATACTTCTTAAAGATTTAATTCACTTATGCCTTAT
1 GGTATCGATACTTCTTAAAGATTTAATTCACTTATACCTTAT
394058 GGTATCGATACTTCTTAAAGATTTAATTCACTTATACCTTAT
1 GGTATCGATACTTCTTAAAGATTTAATTCACTTATACCTTAT
394100 GGTATCGATACT
1 GGTATCGATACT
394112 ATTCAGCCAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (42 bp):
GGTATCGATACTTCTTAAAGATTTAATTCACTTATACCTTAT
Found at i:396542 original size:23 final size:22
Alignment explanation
Indices: 396515--396577 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 22
396505 ATAGTTCAAA
396515 AAGTACACAAAGTACTCTTTCC
1 AAGTACACAAAGTACTCTTTCC
396537 ATAGTACACAAAGTACTAC--TCC
1 A-AGTACACAAAGTACT-CTTTCC
*
396559 AAGTACACAAAGCACTCTT
1 AAGTACACAAAGTACTCTT
396578 ACAAAAATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
20 1 0.03
21 14 0.39
22 5 0.14
23 15 0.42
24 1 0.03
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.24
Consensus pattern (22 bp):
AAGTACACAAAGTACTCTTTCC
Found at i:396565 original size:21 final size:21
Alignment explanation
Indices: 396515--396577 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 21
396505 ATAGTTCAAA
396515 AAGTACACAAAGTACTCTTTCC
1 AAGTACACAAAGTACTC-TTCC
396537 ATAGTACACAAAGTACTAC-TCC
1 A-AGTACACAAAGTACT-CTTCC
*
396559 AAGTACACAAAGCACTCTT
1 AAGTACACAAAGTACTCTT
396578 ACAAAAATAC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 1 0.03
21 15 0.41
22 5 0.14
23 15 0.41
24 1 0.03
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.24
Consensus pattern (21 bp):
AAGTACACAAAGTACTCTTCC
Found at i:401685 original size:13 final size:13
Alignment explanation
Indices: 401667--401714 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
401657 TGCGTCATAA
401667 ATTTATGACGCGC
1 ATTTATGACGCGC
* *
401680 ATTTATTACACGC
1 ATTTATGACGCGC
401693 ATTTATGACGCGC
1 ATTTATGACGCGC
401706 ATTTATGAC
1 ATTTATGAC
401715 TTACATTGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:401858 original size:85 final size:85
Alignment explanation
Indices: 401693--401858 Score: 251
Period size: 85 Copynumber: 2.0 Consensus size: 85
401683 TATTACACGC
* * *
401693 ATTTATGACGCGCATTTATGACTTACATTGCGCGTCATCGAAGCCCCCTTCATAAATGAAGATGA
1 ATTTATGACACGCATTTATGACTTACATTGCGCGTCATCGAAGCCCCCGTCATAAATGAAAATGA
* *
401758 CACATATTTGCGTGTCATAA
66 CACACATTCGCGTGTCATAA
* * *
401778 ATTTATGACACGCATTTATGACTTACGTTGCGTGTCATTGAAGCCCCCGTCATAAATGAAAATGA
1 ATTTATGACACGCATTTATGACTTACATTGCGCGTCATCGAAGCCCCCGTCATAAATGAAAATGA
*
401843 CACACATTCGTGTGTC
66 CACACATTCGCGTGTC
401859 GTGATTGTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATTTATGACTTACATTGCGCGTCATCGAAGCCCCCGTCATAAATGAAAATGA
CACACATTCGCGTGTCATAA
Found at i:406869 original size:17 final size:17
Alignment explanation
Indices: 406847--406887 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
406837 CTCAATCAAC
406847 AATGCTTTAAACAATTT
1 AATGCTTTAAACAATTT
406864 AATGCTTTAAACAATTT
1 AATGCTTTAAACAATTT
406881 AATGCTT
1 AATGCTT
406888 AACTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (17 bp):
AATGCTTTAAACAATTT
Found at i:410293 original size:29 final size:30
Alignment explanation
Indices: 410231--410301 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
410221 AAACTACTAT
* * * *
410231 TTTGGTCCCTAAACTTTTCAAAGTTTATAC
1 TTTGGTCACTAAACTTTTCAAAATTTACAA
*
410261 TTTGGTCACTAAAC-TTTCAAAATTTGCAA
1 TTTGGTCACTAAACTTTTCAAAATTTACAA
410290 TTTGGTCACTAA
1 TTTGGTCACTAA
410302 CCAAAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 23 0.64
30 13 0.36
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (30 bp):
TTTGGTCACTAAACTTTTCAAAATTTACAA
Found at i:413854 original size:25 final size:25
Alignment explanation
Indices: 413820--413871 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
413810 TCACCTCAAG
*
413820 TTTGTTTTTGTCCACTTCAATGCCT
1 TTTGTCTTTGTCCACTTCAATGCCT
413845 TTTGTCTTTGTCCACTTCAATGCCT
1 TTTGTCTTTGTCCACTTCAATGCCT
413870 TT
1 TT
413872 AAGAGAGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.52
Consensus pattern (25 bp):
TTTGTCTTTGTCCACTTCAATGCCT
Found at i:429812 original size:22 final size:22
Alignment explanation
Indices: 429778--429822 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
429768 CCATCAAATA
* * *
429778 ACTAAATTTCCTCAGCACTGTT
1 ACTAAAGTGCCTCAACACTGTT
429800 ACTAAAGTGCCTCAACACTGTT
1 ACTAAAGTGCCTCAACACTGTT
429822 A
1 A
429823 TAGAATTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (22 bp):
ACTAAAGTGCCTCAACACTGTT
Found at i:430274 original size:22 final size:22
Alignment explanation
Indices: 430246--430301 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
430236 CCCCTATGTG
430246 GAGTATCAATACTTCTATATTA
1 GAGTATCAATACTTCTATATTA
430268 GAGTATCAATACTTCTATATTA
1 GAGTATCAATACTTCTATATTA
*
430290 GAGTATCGATAC
1 GAGTATCAATAC
430302 CATCCTTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (22 bp):
GAGTATCAATACTTCTATATTA
Found at i:432341 original size:29 final size:29
Alignment explanation
Indices: 432308--432364 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
432298 TGGTTAAGTC
432308 CCTTGGCTATTAAAAGTTACAAAATGGTG
1 CCTTGGCTATTAAAAGTTACAAAATGGTG
* *
432337 CCTTGGCTATTAAAATTTACAAAGTGGT
1 CCTTGGCTATTAAAAGTTACAAAATGGT
432365 CATCGATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (29 bp):
CCTTGGCTATTAAAAGTTACAAAATGGTG
Found at i:439272 original size:15 final size:15
Alignment explanation
Indices: 439252--439283 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
439242 TGCCTACAAT
*
439252 AAATAAAGAAAATTG
1 AAATAAAGAAAAATG
439267 AAATAAAGAAAAATG
1 AAATAAAGAAAAATG
439282 AA
1 AA
439284 TAATGGGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (15 bp):
AAATAAAGAAAAATG
Found at i:457568 original size:17 final size:17
Alignment explanation
Indices: 457546--457584 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
457536 CTGGTCAAAG
* *
457546 GTCAATGGGTCATACTA
1 GTCAATGGGTCAGACCA
457563 GTCAATGGGTCAGACCA
1 GTCAATGGGTCAGACCA
457580 GTCAA
1 GTCAA
457585 CGGGATCGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (17 bp):
GTCAATGGGTCAGACCA
Found at i:459013 original size:20 final size:20
Alignment explanation
Indices: 458974--459013 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
458964 TGACAACAAT
*
458974 ATTAAATATTTAAACTTTAA
1 ATTAAATATTTAAACATTAA
*
458994 ATTAAATATTTTAACATTAA
1 ATTAAATATTTAAACATTAA
459014 TGCTAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAATATTTAAACATTAA
Found at i:461924 original size:18 final size:19
Alignment explanation
Indices: 461890--461935 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
461880 CTAATTTCAA
*
461890 TGAT-TTAAAGGTGGTTCT
1 TGATGTTAAAAGTGGTTCT
461908 TGATGTTAAAAGT-GTTCT
1 TGATGTTAAAAGTGGTTCT
*
461926 GGAATGTTAA
1 TG-ATGTTAA
461936 TCAAGCATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.41
Consensus pattern (19 bp):
TGATGTTAAAAGTGGTTCT
Found at i:463859 original size:20 final size:21
Alignment explanation
Indices: 463834--463885 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
463824 TTTTCCCAAT
*
463834 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
463854 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
463875 TCGCAATGCGA
1 TCGCAATGCGA
463886 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:463899 original size:20 final size:20
Alignment explanation
Indices: 463874--463987 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
463864 AATTGGGAAA
*
463874 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
463894 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
463914 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
463935 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
463955 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
463975 TTCGCAACGCGAT
1 ATCGCAACGCGAT
463988 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:463918 original size:61 final size:61
Alignment explanation
Indices: 463871--463987 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
463861 GCGAATTGGG
* * * * *
463871 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
463932 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
463988 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:464542 original size:19 final size:19
Alignment explanation
Indices: 464503--464569 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
464493 TTCGAGAATG
464503 AAAATCGCAACGCGAAAATA
1 AAAATCGCAACGCG-AAATA
**
464523 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
* **
464542 AAAAACGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
464561 AAAATCGCA
1 AAAATCGCA
464570 TTGCAATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 27 0.69
20 12 0.31
ACGTcount: A:0.51, C:0.25, G:0.15, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:464587 original size:19 final size:19
Alignment explanation
Indices: 464565--464748 Score: 154
Period size: 19 Copynumber: 10.1 Consensus size: 19
464555 GAAACCAAAA
* *
464565 TCGCATTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
464584 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
464603 TCGAGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
464622 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
464641 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* ** **
464655 TCTCGTCACGATAGTCATT
1 TCGCGTTGCGATTTTCATT
464674 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
464688 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
464707 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
464727 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
464747 TC
1 TC
464749 AACCAAAAGA
Statistics
Matches: 132, Mismatches: 21, Indels: 24
0.75 0.12 0.14
Matches are distributed among these distances:
14 18 0.14
16 4 0.03
17 5 0.04
19 73 0.55
20 31 0.23
21 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:464678 original size:33 final size:33
Alignment explanation
Indices: 464636--464723 Score: 149
Period size: 33 Copynumber: 2.6 Consensus size: 33
464626 GTTGCGATTT
464636 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
**
464669 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
464702 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
464724 ATTATCTCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 37 0.71
34 15 0.29
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
Found at i:464725 original size:20 final size:20
Alignment explanation
Indices: 464691--464748 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
464681 GCGATTCTCT
**
464691 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
464711 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
464731 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
464749 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:466493 original size:20 final size:20
Alignment explanation
Indices: 466445--466503 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
466435 AATAGTTTCT
** *
466445 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
466465 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
466485 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
466504 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:468187 original size:2 final size:2
Alignment explanation
Indices: 468182--468579 Score: 192
Period size: 2 Copynumber: 207.5 Consensus size: 2
468172 GTTCTTTTTT
*
468182 TA TA TA TA TA -A TA TA AA CTA TA TCA TA TA T- TA TA TA T- TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA TA TA TA
* * * *
468222 TT TA TA TA -A TA TA TA T- TA TA GTA TGG TA TA T- TG TA TA -A CA
1 TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA
*
468262 TA TA -A TA TA GTA TT TA TA TA GTA TA TGA TA TA TA TA T- TA TA
1 TA TA TA TA TA -TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA TA
* *
468303 TGG TA T- TA TA TA T- TA TA GTA T- TG TA T- TA TA TA T- TA TA TA
1 T-A TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
468342 T- TA TA TA GTA TA TA GTA TA -A TA T- TA TA T- TA TA TA T- TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
468381 T- TA TA T- TA TA TA TA GTA TA GTA T- TA TA TA T- TA TA T- TA T-
1 TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
468419 TA GTGG TA TA T- TT TA TA CA GTA TA TA T- TA TA TA TT TA TA T-
1 TA -T-A TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
468459 TA TA T- TA TA TA GTA TA TA TA GTA TG T- TA TA TA -A TA TA TA T-
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
468499 TA TA T- TA TA TA TA TA TA T- TA TA -A TA GTA T- TA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T-A TA TA
468539 GTA TA TA TGA TA T- TA TA TA TA TA T- TA TA -A TA TA CTA TA TA
1 -TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
468579 T
1 T
468580 TGTATTATAT
Statistics
Matches: 313, Mismatches: 20, Indels: 126
0.68 0.04 0.27
Matches are distributed among these distances:
1 40 0.13
2 233 0.74
3 40 0.13
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:468215 original size:5 final size:5
Alignment explanation
Indices: 468214--468600 Score: 157
Period size: 5 Copynumber: 76.2 Consensus size: 5
468204 TCATATATTA
* * * ** * * *
468214 TATAT TATTT TATAT AATA- TATAT TATAG TATGG TATAT TGTAT AACA-
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * **
468262 TATAA TATAG TAT-T TATAT AGTATAT GATAT ATATAT TATAT GGTAT
1 TATAT TATAT TATAT TATAT --TATAT TATAT -TATAT TATAT TATAT
*
468309 TATA- TAT-T ATAGTAT TGTAT TATA- TAT-T ATATAT TATA- TAGTAT
1 TATAT TATAT -TA-TAT TATAT TATAT TATAT -TATAT TATAT TA-TAT
* * *
468353 ATAGTAT AATAT TATATT ATATAT TATAT TATAT TATA- TATAG TATAG
1 -TA-TAT TATAT TATA-T -TATAT TATAT TATAT TATAT TATAT TATAT
* *
468401 TAT-T ATATAT TATAT TATTAGT GGTATAT TTTA- TACAGT ATATAT TATA-
1 TATAT -TATAT TATAT TA-TA-T --TATAT TATAT TATA-T -TATAT TATAT
* * *
468450 TAT-T TATAT TATAT TATA- TAGTAT ATATAG TATGT TATAT AATA- TATAT
1 TATAT TATAT TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT
* *
468499 TATAT TATA- TATA- TATAT TATAA TAGTAT TATAT CATA- TAGTA- TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TA-TAT TATAT
* * *
468547 GATAT TATAT ATATAT TATAA TATACT ATATAT TGTAT TATAT TACTAT
1 TATAT TATAT -TATAT TATAT TATA-T -TATAT TATAT TATAT TA-TAT
468596 T-TAT T
1 TATAT T
468601 TCTTTTTAAT
Statistics
Matches: 293, Mismatches: 47, Indels: 85
0.69 0.11 0.20
Matches are distributed among these distances:
4 48 0.16
5 184 0.63
6 30 0.10
7 27 0.09
8 2 0.01
9 2 0.01
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (5 bp):
TATAT
Found at i:468215 original size:12 final size:11
Alignment explanation
Indices: 468182--468589 Score: 212
Period size: 12 Copynumber: 36.3 Consensus size: 11
468172 GTTCTTTTTT
468182 TATATATA-TA
1 TATATATATTA
* *
468192 -ATATAAACTA
1 TATATATATTA
468202 TATCATATATTA
1 TAT-ATATATTA
468214 TATAT-TATT-
1 TATATATATTA
*
468223 T-TATATAATA
1 TATATATATTA
468233 TATAT-TA-TA
1 TATATATATTA
* *
468242 GTATGGTATATTG
1 -TAT-ATATATTA
* *
468255 TATAACATATAA
1 TAT-ATATATTA
468267 TATAGTAT-TTA
1 TATA-TATATTA
*
468278 TATAGTATATGA
1 TATA-TATATTA
468290 TATATATATTA
1 TATATATATTA
*
468301 TATGGTAT-TATA
1 TAT-ATATAT-TA
*
468313 TATTATAGTATTG
1 TA-TATA-TATTA
468326 TATTATATATTA
1 TA-TATATATTA
468338 TATAT-TA-TA
1 TATATATATTA
*
468347 TAGTATATAGTA
1 TA-TATATATTA
468359 TAATATTATATTA
1 T-ATA-TATATTA
468372 TATATTATATTA
1 TATA-TATATTA
468384 TAT-TATA-TA
1 TATATATATTA
468393 TAGTATAGTATTA
1 TA-TATA-TATTA
468406 TATATTATATTA
1 TATA-TATATTA
*
468418 TTAGTGGTATATT-
1 -TA-T-ATATATTA
* *
468431 T-TATACAGTA
1 TATATATATTA
468441 TATAT-TA-TA
1 TATATATATTA
*
468450 TATTTATATTA
1 TATATATATTA
*
468461 TATTATATAGTA
1 TA-TATATATTA
468473 TATATAGTATGT-
1 TATATA-TAT-TA
468485 TATATA-A-TA
1 TATATATATTA
468494 TATATTATATTA
1 TATA-TATATTA
468506 TATATATA-TA
1 TATATATATTA
468516 TTATAATAGTATTA
1 -TAT-ATA-TATTA
*
468530 TATCATATAGTA
1 TAT-ATATATTA
468542 TATATGATATTA
1 TATAT-ATATTA
468554 TATATATATTA
1 TATATATATTA
*
468565 TA-ATATACTA
1 TATATATATTA
*
468575 TATATTGTATTA
1 TATA-TATATTA
468587 TAT
1 TAT
468590 TACTATTTAT
Statistics
Matches: 315, Mismatches: 35, Indels: 94
0.71 0.08 0.21
Matches are distributed among these distances:
8 4 0.01
9 34 0.11
10 41 0.13
11 66 0.21
12 124 0.39
13 36 0.11
14 10 0.03
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.51
Consensus pattern (11 bp):
TATATATATTA
Found at i:468219 original size:7 final size:7
Alignment explanation
Indices: 468200--468580 Score: 221
Period size: 7 Copynumber: 52.9 Consensus size: 7
468190 TAATATAAAC
*
468200 TATATCA
1 TATATTA
468207 TATATTA
1 TATATTA
468214 TATATTA
1 TATATTA
468221 T-T-TTA
1 TATATTA
*
468226 TATAATA
1 TATATTA
468233 TATATTA
1 TATATTA
**
468240 TAGTATGG
1 TA-TATTA
*
468248 TATATTG
1 TATATTA
**
468255 TATAACA
1 TATATTA
*
468262 TATAATA
1 TATATTA
468269 TAGTATTTA
1 TA-TA-TTA
*
468278 TATAGTA
1 TATATTA
468285 TATGATATA
1 TAT-AT-TA
468294 TATATTA
1 TATATTA
468301 TATGGTATTA
1 TA---TATTA
468311 TATATTA
1 TATATTA
468318 TAGTA-T-
1 TA-TATTA
*
468324 TGTATTA
1 TATATTA
468331 TATATTA
1 TATATTA
468338 TATATTA
1 TATATTA
*
468345 TATAGTA
1 TATATTA
*
468352 TATAGTA
1 TATATTA
468359 TAATATTA
1 T-ATATTA
468367 TATTATATA
1 TA-TAT-TA
468376 TTATATTA
1 -TATATTA
468384 TAT-TATA
1 TATAT-TA
*
468391 TATAGTA
1 TATATTA
468398 TAGTATTA
1 TA-TATTA
468406 TATATTA
1 TATATTA
468413 TATTATTA
1 TA-TATTA
* **
468421 -GTGGTA
1 TATATTA
*
468427 TATTTTA
1 TATATTA
* *
468434 TACAGTA
1 TATATTA
468441 TATATTA
1 TATATTA
468448 TATATT-
1 TATATTA
468454 TATA-T-
1 TATATTA
468459 TATATTA
1 TATATTA
*
468466 TATAGTA
1 TATATTA
468473 TATA-TA
1 TATATTA
*
468479 GTATGTTA
1 -TATATTA
*
468487 TATAATA
1 TATATTA
468494 TATA-T-
1 TATATTA
468499 TATATTA
1 TATATTA
468506 TATA-TA
1 TATATTA
468512 TATATTA
1 TATATTA
*
468519 TAATAGTA
1 T-ATATTA
*
468527 TTATATCA
1 -TATATTA
*
468535 TATAGTA
1 TATATTA
*
468542 TATATGA
1 TATATTA
468549 TATTATATA
1 TA-TAT-TA
468558 TATATTA
1 TATATTA
468565 TAATATACTA
1 T-ATAT--TA
468575 TATATT
1 TATATT
468581 GTATTATATT
Statistics
Matches: 296, Mismatches: 42, Indels: 72
0.72 0.10 0.18
Matches are distributed among these distances:
5 15 0.05
6 23 0.08
7 167 0.56
8 57 0.19
9 22 0.07
10 12 0.04
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (7 bp):
TATATTA
Found at i:468340 original size:46 final size:45
Alignment explanation
Indices: 468290--468580 Score: 226
Period size: 44 Copynumber: 6.6 Consensus size: 45
468280 TAGTATATGA
* *
468290 TATATATATTATATGGTATTATATATTATAGTATTGTATTATATA-
1 TATATATATTATATAGTATTATATATTATA-TATTATATTATATAT
468335 T-TATATATTATATAGTA-TATAGTA-TA-ATATTATATTATATAT
1 TATATATATTATATAGTATTATA-TATTATATATTATATTATATAT
*
468377 TATATTATATTATATA-TAGTATAGTATTATATATTATATTAT-TAGT
1 TATA-TATATTATATAGTATTATA-TATTATATATTATATTATATA-T
** * *
468423 GGTATAT-TT-TATA-CAGTATATATTATATATT-TA-TATTATAT
1 TATATATATTATATAGTATTATATATTATATATTATATTA-TATAT
*
468464 TATATAGTA-TATATAGTATGTTATATAATATATATTATA-T-TATA-
1 TATATA-TATTATATAGTA--TTATATATTATATATTATATTATATAT
*
468508 TATATATATTATAATAGTATTATATCA-TATAGTA-TATATGATAT-T
1 TATATATATTAT-ATAGTATTATAT-ATTATA-TATTATATTATATAT
*
468553 ATATATATATTATAATA-TACTATATATT
1 -TATATATATTAT-ATAGTATTATATATT
468581 GTATTATATT
Statistics
Matches: 208, Mismatches: 12, Indels: 52
0.76 0.04 0.19
Matches are distributed among these distances:
40 2 0.01
41 21 0.10
42 17 0.08
43 40 0.19
44 51 0.25
45 29 0.14
46 45 0.22
47 3 0.01
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (45 bp):
TATATATATTATATAGTATTATATATTATATATTATATTATATAT
Found at i:468498 original size:158 final size:163
Alignment explanation
Indices: 468207--468559 Score: 379
Period size: 158 Copynumber: 2.2 Consensus size: 163
468197 AACTATATCA
* * * * *
468207 TATATTATATATTATTTTATATAATATATATTATAGTATGGTATATTGTATAACATATAATATAG
1 TATATTATATATTATATTATATTATATATAGTATAGTATGATATATTATATAACATATAATATAG
* * * *
468272 TATTTATATAGTATATGATATATATATTATATGGTATTATATATTATAGTATTGTA-T-TATATA
66 TATTTATACAGTATATGATATATATATTATATGATATTATATAGTATAGTATAGTATTATATATA
468335 TTA-TATATTATATAGTATATAGTAT-A-A-TAT
131 TTATTATATTATATA-TATATAGTATAATAGTAT
* * * **
468365 TATATTATATATTATATTATATTATATATAGTATAGTATTATATATTATATTA-TTAGTGGTATA
1 TATATTATATATTATATTATATTATATATAGTATAGTATGATATATTATATAACATA-TAATATA
*
468429 -T-TTTATACAGTATAT-AT-TATATATTTATATTATATTATATAGTATA-TATAGTATGTTATA
65 GTATTTATACAGTATATGATATATATA-TTATATGATATTATATAGTATAGTATAGTA--TTATA
*
468489 TAATATATATTATATTATATATATATATTATAATAGTAT
127 T-ATAT-TATTATATTATATATATATAGTATAATAGTAT
* *
468528 TATATCATATAGTATATATGATATTATATATA
1 TATATTATATA-T-TATATTATATTATATATA
468560 TATTATAATA
Statistics
Matches: 163, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
154 12 0.07
155 21 0.13
156 13 0.08
157 4 0.02
158 54 0.33
159 4 0.02
160 11 0.07
161 12 0.07
162 1 0.01
163 13 0.08
164 1 0.01
165 17 0.10
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (163 bp):
TATATTATATATTATATTATATTATATATAGTATAGTATGATATATTATATAACATATAATATAG
TATTTATACAGTATATGATATATATATTATATGATATTATATAGTATAGTATAGTATTATATATA
TTATTATATTATATATATATAGTATAATAGTAT
Found at i:471590 original size:31 final size:31
Alignment explanation
Indices: 471555--471654 Score: 175
Period size: 31 Copynumber: 3.2 Consensus size: 31
471545 AATTGGAAAA
*
471555 CAAAG-AAATAGAAGCAGAATTTGTACCGACT
1 CAAAGTAAATACAAGCAGAA-TTGTACCGACT
471586 CAAAGTAAATACAAGCAGAATTGTACCGACT
1 CAAAGTAAATACAAGCAGAATTGTACCGACT
471617 CAAAGTAAATACAAGCAGAATTGTACCGACT
1 CAAAGTAAATACAAGCAGAATTGTACCGACT
471648 CAAAGTA
1 CAAAGTA
471655 GTAGAGTCCC
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
31 54 0.81
32 13 0.19
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.19
Consensus pattern (31 bp):
CAAAGTAAATACAAGCAGAATTGTACCGACT
Found at i:472918 original size:18 final size:18
Alignment explanation
Indices: 472895--472932 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
472885 GTATCCGATG
472895 GATGAAGATATAACGGAT
1 GATGAAGATATAACGGAT
472913 GATGAAGATATAACGGAT
1 GATGAAGATATAACGGAT
472931 GA
1 GA
472933 GAAAAATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.29, T:0.21
Consensus pattern (18 bp):
GATGAAGATATAACGGAT
Found at i:476824 original size:198 final size:196
Alignment explanation
Indices: 476600--477015 Score: 697
Period size: 198 Copynumber: 2.1 Consensus size: 196
476590 CTCTAGATTG
* *
476600 GATTTCAACTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGCTTCCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCAAAGGGGCTTCCCA
*
476665 GTTTCATTCAAAGCCAATTTCAACTTCACGGCGAAGGATATTGAACTTGAAACAATACAAGCTTG
66 GTTTCATTCAAAGCCAATTTCAACTTCACGGCGAAGGATATTGAACTCGAAACAATACAAGCTTG
* *
476730 GATTTCAACTTCACGGCGAAGGATATTCAAGTCAAGGCTCTCAACTTCACAACGAAGGGGCCATC
131 GATTTCAACTTCACGACGAAGAATATTCAAGTCAAGG--CTCAACTTCACAACGAAGGGGCCATC
476795 CAC
194 CAC
*
476798 GATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACGGCAAAGGGGCTTCCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCAAAGGGGCTTCCCA
* * *
476863 GTTTCATTCAGAGCCAATTTCAACTTCACGGCGAATGATATTGGACTCGAAACAATACAAGCTTG
66 GTTTCATTCAAAGCCAATTTCAACTTCACGGCGAAGGATATTGAACTCGAAACAATACAAGCTTG
* * *
476928 GATTTCAACTTCATGACGAAGAATATTCAAGTCAAGGCTCAACTTCACAACGAATGGGTCATCCA
131 GATTTCAACTTCACGACGAAGAATATTCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
476993 C
196 C
*
476994 GGTTTCAACTTCACGACGAAGG
1 GATTTCAACTTCACGACGAAGG
477016 GAATCGTGCC
Statistics
Matches: 204, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
196 47 0.23
198 157 0.77
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (196 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCAAAGGGGCTTCCCA
GTTTCATTCAAAGCCAATTTCAACTTCACGGCGAAGGATATTGAACTCGAAACAATACAAGCTTG
GATTTCAACTTCACGACGAAGAATATTCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCATCCA
C
Found at i:477304 original size:83 final size:83
Alignment explanation
Indices: 477150--477378 Score: 278
Period size: 83 Copynumber: 2.7 Consensus size: 83
477140 ATATCTTGTT
* * * * * * *
477150 CATTTGCAACATATCTCAAGGAAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCAAGAAGGGTTATATGCCAAC-AAAGACCTTCGAGTTCGATTAC
* * *
477215 GCTCAGCTTAAAGGCAAAT
65 ACTCAGCTCAAAGGCAAAC
* * * *
477234 TATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
1 CATTTACAGCATAACTCAAGGCAAGAAGGGTTATATGCCAACAAAGACCTTCGAGTTCGATTACA
*
477299 CTCAGCTCAAAGGCACAC
66 CTCAGCTCAAAGGCAAAC
* * *
477317 CATTTGCAGCATAGCTCAAGGCAAGAATGGTTATATGCCAACCAAAGACCTTCGAGTTCGAT
1 CATTTACAGCATAACTCAAGGCAAGAAGGGTTATATGCCAA-CAAAGACCTTCGAGTTCGAT
477379 GGGCACATCA
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
83 70 0.57
84 53 0.43
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (83 bp):
CATTTACAGCATAACTCAAGGCAAGAAGGGTTATATGCCAACAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCAAAC
Found at i:477519 original size:83 final size:83
Alignment explanation
Indices: 477380--477865 Score: 591
Period size: 83 Copynumber: 5.8 Consensus size: 83
477370 GAGTTCGATG
* * *
477380 GGCACATCATTTATAGCATAACTCAAGGCTAAAAGGGTTATCTGTCAATAAAGACCTTTGAGTTC
1 GGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTC
477445 GATTACACTCAGCTCAAA
66 GATTACACTCAGCTCAAA
* *
477463 GGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTGAACAAAGACCTTCAAGTTC
1 GGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTC
*
477528 GATTACACTCAACTCAAA
66 GATTACACTCAGCTCAAA
** * * * *
477546 CACACATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTCTCAACAAAGACCTTCAAGTTC
1 GGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTC
*
477611 GATTACATTCAGCTCAAA
66 GATTACACTCAGCTCAAA
* * * * * * * *
477629 GACACATCATTTGTAGTATAGCTTAAGGCAAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
1 GGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTT
* *
477694 TGATTACACTCAGCTCAAG
65 CGATTACACTCAGCTCAAA
* * *
477713 GGCACATCATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTTT
1 GGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTC
* *
477778 GATTACATTCAACTCAAA
66 GATTACACTCAGCTCAAA
* * * ** * *
477796 GGCAAATCAAATTTACAGCATAGCTCAAGG-TAAGAAATGTTATCTGTTAACAAA-A-TTGTCGA
1 GGCACATC--ATTTATAGCATAACTCAAGGCT-AGAAGGGTTATCTGTCAACAAAGACCT-TCGA
477858 GTTCGATT
62 GTTCGATT
477866 CCATTCAACT
Statistics
Matches: 347, Mismatches: 51, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
83 229 0.66
84 82 0.24
85 36 0.10
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (83 bp):
GGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTC
GATTACACTCAGCTCAAA
Found at i:477860 original size:167 final size:166
Alignment explanation
Indices: 477379--477876 Score: 617
Period size: 167 Copynumber: 3.0 Consensus size: 166
477369 CGAGTTCGAT
*
477379 GGGCACATCATTTATAGCATAACTCAAGGCTAAAAGGGTTATCTGTCAAT-AAAGACCTTTGAGT
1 GGGCACATCATTTATAGCATAACTCAAGGCTAAAAGGGTTATCTGTC-ATCAAAGACCTTCGAGT
* *
477443 TCGATTACACTCAGCTCAAAGGCACATCATTTATAGCATAACTCAAGGCT-AGAAGGGTTATCTG
65 TCGATTACATTCAGCTCAAAGGCACATCATTTATAGCATAGCTCAAGG-TAAGAAGGGTTATCTG
* *
477507 TGAACAAAGACCTTCAAGTTCGATTACACTCAACTCAA
129 TCAACAAAGACCTTCGAGTTCGATTACACTCAACTCAA
*** * * * *
477545 ACACACATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATCTCTCAACAAAGACCTTCAAGTT
1 GGGCACATCATTTATAGCATAACTCAAGGCTAAAAGGGTTATCTGTCATCAAAGACCTTCGAGTT
* * * * * * *
477610 CGATTACATTCAGCTCAAAGACACATCATTTGTAGTATAGCTTAAGGCAAGAAGGGCTATCTGCC
66 CGATTACATTCAGCTCAAAGGCACATCATTTATAGCATAGCTCAAGGTAAGAAGGGTTATCTGTC
* *
477675 AACCAAAGACCTTCGAGTTTGATTACACTCAGCTCAA
131 AA-CAAAGACCTTCGAGTTCGATTACACTCAACTCAA
* *
477712 GGGCACATCATTTATAGCATAACTCAAGGCGAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTT
1 GGGCACATCATTTATAGCATAACTCAAGGCTAAAAGGGTTATCTGTCATCAAAGACCTTCGAGTT
* * * * **
477777 TGATTACATTCAACTCAAAGGCAAATCAAATTTACAGCATAGCTCAAGGTAAGAAATGTTATCTG
66 CGATTACATTCAGCTCAAAGGCACATC--ATTTATAGCATAGCTCAAGGTAAGAAGGGTTATCTG
* * * *
477842 TTAACAAA-A-TTGTCGAGTTCGATTCCATTCAACTC
129 TCAACAAAGACCT-TCGAGTTCGATTACACTCAACTC
477877 GATGACATGT
Statistics
Matches: 277, Mismatches: 49, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
165 1 0.00
166 112 0.40
167 130 0.47
168 4 0.01
169 30 0.11
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (166 bp):
GGGCACATCATTTATAGCATAACTCAAGGCTAAAAGGGTTATCTGTCATCAAAGACCTTCGAGTT
CGATTACATTCAGCTCAAAGGCACATCATTTATAGCATAGCTCAAGGTAAGAAGGGTTATCTGTC
AACAAAGACCTTCGAGTTCGATTACACTCAACTCAA
Found at i:479353 original size:6 final size:6
Alignment explanation
Indices: 479242--479376 Score: 55
Period size: 6 Copynumber: 21.8 Consensus size: 6
479232 TTTTTTATCT
* * * * *
479242 TTTTTA TTATTA TTTCTTA -TTCTA TTTCTTA TTTTTT TTATTTA -TATGA
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTT-TTA TTTTTA TT-TTTA TTTTTA
* * * *
479291 TATTATA TATTTA TATTT- TTTTTA TTTTT- TATTTTA TTTTAA TCCTTTTA
1 T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA T--TTTTA
* *
479341 TTATTA TTTTTA TTTGTTTA TTTTT- TTATTA TTTTT
1 TTTTTA TTTTTA -TT-TTTA TTTTTA TTTTTA TTTTT
479377 TTCTACTACT
Statistics
Matches: 95, Mismatches: 20, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
5 13 0.14
6 54 0.57
7 19 0.20
8 9 0.09
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:479520 original size:4 final size:4
Alignment explanation
Indices: 479511--479746 Score: 60
Period size: 4 Copynumber: 57.5 Consensus size: 4
479501 TCATATATAC
* * * **
479511 TTAT TTAT TTAT TTAT TTAT TATCT TTAT TGAAT TTAT TTTT TTCC TT-T
1 TTAT TTAT TTAT TTAT TTAT T-TAT TTAT T-TAT TTAT TTAT TTAT TTAT
* * ** * *
479560 CTAG TT-T TTAT TTAT TTAT TTAT TATAT TT-T TT-T TGCT TTTT TCTTT
1 TTAT TTAT TTAT TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTAT T-TAT
* * * * * * *
479607 TTCT TTAT ATTTT TTA- TTA- TTGT TTCT TTAT TATAT CTAT CATGT TTATCT
1 TTAT TTAT -TTAT TTAT TTAT TTAT TTAT TTAT T-TAT TTAT -TTAT TTA--T
* *
479658 TTAT TT-T ATT-T TTAT TT-T TATTT TTATT TTCT TTAT CTTAT CTTAT
1 TTAT TTAT -TTAT TTAT TTAT T-TAT TTA-T TTAT TTAT -TTAT -TTAT
* *
479704 TTAT TTCAT TTAT TT-T TTAA TTAT TTTT TTAT CTTAT TTAT TT
1 TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TT
479747 TCATTACTTT
Statistics
Matches: 176, Mismatches: 34, Indels: 44
0.69 0.13 0.17
Matches are distributed among these distances:
3 21 0.12
4 107 0.61
5 44 0.25
6 4 0.02
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:479592 original size:40 final size:41
Alignment explanation
Indices: 479548--479626 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 41
479538 ATTGAATTTA
*
479548 TTTTTTTCCTTTCTAGTTTTTATTTAT-TTATTTATTATAT
1 TTTTTTTCCTTTCTACTTTTTATTTATATTATTTATTATAT
* * * * *
479588 TTTTTTTGCTTTTTTCTTTTTCTTTATATTTTTTATTAT
1 TTTTTTTCCTTTCTACTTTTTATTTATATTATTTATTAT
479627 TGTTTCTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
40 22 0.69
41 10 0.31
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.76
Consensus pattern (41 bp):
TTTTTTTCCTTTCTACTTTTTATTTATATTATTTATTATAT
Found at i:479620 original size:52 final size:56
Alignment explanation
Indices: 479511--479640 Score: 139
Period size: 53 Copynumber: 2.4 Consensus size: 56
479501 TCATATATAC
*
479511 TTATTTATTTATTTATTTATTATCTTTATTGAATTTATTTTTTTCCTTTCTAGTTT
1 TTATTTATTTATTTATTTATTATCTTTATTGAATTTATTTTTTTCCTTTATAGTTT
* * *
479567 TTATTTATTTATTTATTATATT-T-TTT-TTG-CTTT-TTTCTTTTTCTTTATATTTT
1 TTATTTATTTATTTATT-TATTATCTTTATTGAATTTATTT-TTTTCCTTTATAGTTT
* *
479620 TTA-TTA-TTGTTTCTTTATTAT
1 TTATTTATTTATTTATTTATTAT
479641 ATCTATCATG
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
50 4 0.06
51 8 0.12
52 6 0.09
53 19 0.29
54 3 0.05
55 3 0.05
56 18 0.28
57 4 0.06
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (56 bp):
TTATTTATTTATTTATTTATTATCTTTATTGAATTTATTTTTTTCCTTTATAGTTT
Found at i:479670 original size:6 final size:6
Alignment explanation
Indices: 479651--479687 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
479641 ATCTATCATG
*
479651 TTTATC TTTA-T TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
479688 CTTTATCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:479677 original size:17 final size:18
Alignment explanation
Indices: 479651--479687 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
479641 ATCTATCATG
479651 TTTATCTTTA-TTTTATT
1 TTTATCTTTATTTTTATT
*
479668 TTTATTTTTATTTTTATT
1 TTTATCTTTATTTTTATT
479686 TT
1 TT
479688 CTTTATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTATCTTTATTTTTATT
Found at i:479749 original size:38 final size:40
Alignment explanation
Indices: 479651--479759 Score: 111
Period size: 37 Copynumber: 2.7 Consensus size: 40
479641 ATCTATCATG
* * *
479651 TTTATCTTTATTTTATTTTTATTT-TTATTTTTATTTTCTTTA
1 TTTATC-TTA-TTTATTTTCATTTATT-TTTTAATTATCTTTA
479693 TCTTATCTTATTTA-TTTCATTTATTTTTTAATTAT-TTT-
1 T-TTATCTTATTTATTTTCATTTATTTTTTAATTATCTTTA
479731 TTTATCTTATTTATTTTCA-TTACTTTTTT
1 TTTATCTTATTTATTTTCATTTA-TTTTTT
479760 CCCTTCTATC
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
37 15 0.25
38 12 0.20
39 3 0.05
40 15 0.25
41 6 0.10
42 4 0.07
43 5 0.08
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.74
Consensus pattern (40 bp):
TTTATCTTATTTATTTTCATTTATTTTTTAATTATCTTTA
Found at i:480155 original size:38 final size:37
Alignment explanation
Indices: 480087--480159 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
480077 GCGACAGTTG
*
480087 TCAACCAAAAATATTATGAAAATATAACATTTTATGT
1 TCAACCAAAAATATTACGAAAATATAACATTTTATGT
* *
480124 TCAACCGAAAATGTTACGAATAATATAACATTTTAT
1 TCAACCAAAAATATTACGAA-AATATAACATTTTAT
480160 ATTGTGTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (37 bp):
TCAACCAAAAATATTACGAAAATATAACATTTTATGT
Found at i:480553 original size:2 final size:2
Alignment explanation
Indices: 480548--480590 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
480538 ACACACACAC
480548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
480590 A
1 A
480591 AATTATTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:480918 original size:2 final size:2
Alignment explanation
Indices: 480906--480947 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
480896 ATATGATAAA
480906 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
480947 A
1 A
480948 AGTTTAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:495167 original size:140 final size:140
Alignment explanation
Indices: 494893--495306 Score: 677
Period size: 139 Copynumber: 3.0 Consensus size: 140
494883 CAAATTCTAA
* * *
494893 ATCTAATCTTAATTCTATCTAGAGGGTAAGGGGAAGGGGAAATCTAAGAGAATAAAAATGAGCAA
1 ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
* **
494958 CTTGACCAACCAGCCAAAAATACTTGCCCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCATA
66 CTTGACCAACCAGCCAAAAATACTTGCTCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCCGA
*
495023 TTTTTGCCAT
131 TTTTTTCCAT
495033 ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
1 ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
* *
495098 CTTGACCAATCAGCCAAAAATACTTGCTC-GTTTCTACTCATTTATTTTCTTTCTTTTCTTCCGA
66 CTTGACCAACCAGCCAAAAATACTTGCTCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCCGA
*
495162 TTTTTTCTAT
131 TTTTTTCCAT
* * * *
495172 ATGTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGAAAATATAAGGGAATAAAAATGAACAA
1 ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
* *
495237 CTTGACCAACCAGTCAAAAATACTTGCTCGGTTTCTACTGATTTGTTTTCTTTCTTTTCTTCCGA
66 CTTGACCAACCAGCCAAAAATACTTGCTCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCCGA
495302 TTTTT
131 TTTTT
495307 GCTATGCTTT
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
139 128 0.50
140 127 0.50
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (140 bp):
ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
CTTGACCAACCAGCCAAAAATACTTGCTCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCCGA
TTTTTTCCAT
Found at i:495205 original size:139 final size:140
Alignment explanation
Indices: 494893--495311 Score: 687
Period size: 140 Copynumber: 3.0 Consensus size: 140
494883 CAAATTCTAA
* * *
494893 ATCTAATCTTAATTCTATCTAGAGGGTAAGGGGAAGGGGAAATCTAAGAGAATAAAAATGAGCAA
1 ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
* **
494958 CTTGACCAACCAGCCAAAAATACTTGCCCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCATA
66 CTTGACCAACCAGCCAAAAATACTTGCTCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCCGA
*
495023 TTTTTGCCAT
131 TTTTTGCTAT
495033 ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
1 ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
* *
495098 CTTGACCAATCAGCCAAAAATACTTGCTC-GTTTCTACTCATTTATTTTCTTTCTTTTCTTCCGA
66 CTTGACCAACCAGCCAAAAATACTTGCTCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCCGA
*
495162 TTTTTTCTAT
131 TTTTTGCTAT
* * * *
495172 ATGTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGAAAATATAAGGGAATAAAAATGAACAA
1 ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
* *
495237 CTTGACCAACCAGTCAAAAATACTTGCTCGGTTTCTACTGATTTGTTTTCTTTCTTTTCTTCCGA
66 CTTGACCAACCAGCCAAAAATACTTGCTCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCCGA
495302 TTTTTGCTAT
131 TTTTTGCTAT
495312 GCTTTGACAT
Statistics
Matches: 259, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
139 128 0.49
140 131 0.51
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (140 bp):
ATCTAATCTTAATTCTATCTAGAGGATAAGGGGAAAGGGAAATCTAAGGGAATAAAAATGAGCAA
CTTGACCAACCAGCCAAAAATACTTGCTCGGTTTCTACTCATTTGTTTTCTTTCTTTTCTTCCGA
TTTTTGCTAT
Found at i:496287 original size:261 final size:261
Alignment explanation
Indices: 495835--500059 Score: 3355
Period size: 261 Copynumber: 16.7 Consensus size: 261
495825 AAAAATTTCA
* * * * *
495835 AGGTACTGAGCATCATTCAAGCTTTTCATTCTTTTGTTTCTCTGGTTATCAAGAACTTGGCGACA
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * * * * *
495900 TGAATCAAAAACCCT-GTTTTTCCGTTGAAATTGGTGGAAATTTGAT-GAAAGTATTGAGCTTTG
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTG-TGGAAAGTACTGAGCTTAG
* * * * * * * *
495963 TTTAATCTTTTTATTGTTCTTAGAGTTAATTTCCTGTGTTTTTGTTTTATTCGTCCTCTAATAAT
130 TTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAAT
* * *
496028 CAAGAACTTGGCAACGTGCATCAAAAACACTATTTTTGAAAATCAGTGGAAATTTGTGGAAATTC
195 CAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATTC
*
496093 CG
260 TG
* * ** * *
496095 AGGTACTAAGCTTCGTTCAAGCTTTTCATTCTTTTCTTTCTCTACTTATCAAGGACTTGGTGAAC
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCG-AC
* * * **
496160 -TGCATCAAAAACCCTATTTTTTCTGTTAAAATTTGTGGAAATTTGTTAAAAGTACTGAGCTTAG
65 GTGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAG
* *
496224 TTCAATCTTTTGATTGTTCTTGGTC-TTAATTTTCTGTGTTTTTGTTATATTCTTCCCCTAATAA
130 TTCAATCTTTTGATTGTTCTTGG-CGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAA
* * * * * * * *
496288 TGAACAACTTGGGAACGTGCATGAAAAACACTATTTTTGAAAATCAGTGGACATTTGTGGAAATT
194 TCAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATT
496353 -TCG
259 CT-G
* * **
496356 AGGTACTGAGATTCGTTCAAACTTTTCGTTC-TTT-TTTCTCACGTTATCAAGAACTTGGCGACG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * * ** * * * * *
496419 TGCATCTGAAACCATGTTTTACCCGTTGAAATTGGTGCAAATTTGTAGAAAATACTGAGCCTAGT
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAGT
* * * * * * *
496484 ACAATCTTTTGATTGTTCTTGGCATTAATTTTCTACATTTTTGTTTTATTC-TCCATCTGATATT
131 TCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCC-TCTAATAAT
*
496548 CAAGAACTCGGTAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATTC
195 CAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATTC
*
496613 TA
260 TG
* * * * *
496615 AGGTACTAAGCTTCGTTCAAGCATTTCGTTCTTTTCTTTCTCTTGTTATGAAGAACTTGGCAACG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * * * * * *
496680 TGCTTCATAAACCCTATTTTTTAAT-TAGAAATTGGTGGAAATTTTTGGAAATTACCGAGCTTCA
66 TGCATCAGAAACCCTATTTTTT-CTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTT-A
** * * * * * *
496744 -TTCAATCTTTTGATTAATCTTGACATTAAATTTCTGTGTTTTTGTTCTATATCTTTCTCTAATA
129 GTTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATAT-TCTTCCTCTAATA
* * * * * *
496808 ATCAAGAAATCGGCAACCTGCATAAAAAACTA-TGTATTTGGAAATC------AA----TGGAAA
193 ATCAAGAACTCGGCAGCGTGCATCAAAAAC-ACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAA
*
496862 TTCTA
257 TTCTG
* * * * * *
496867 AGGCACTGAGCTTCGTTCAACCTTTTCGTTATTTTCTTTCTCTGATTATGAAGAACTTGGCGACA
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * * ** *
496932 TGCATCAGAAACCATGTTTTTTC-GTTGAAATTGGTGGAAATTTATCAAAATTACTGAGCTTTA-
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGC-TTAG
* ** * *
496995 TTCAATCTTTTGATTGCTT-TTGGCATTAATTTTCTATGTTTTTGTTCTA-ACATTCCTCTAATA
130 TTCAATCTTTTGATTG-TTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTC-TTCCTCTAATA
* * * *
497058 ATCAAGAACTCAGCAGCATGCATCAAAAACATTGTTTTTGAAAATCAGAGGAAATTTGTGGAAAT
193 ATCAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAAT
497123 TCTG
258 TCTG
* * * * *
497127 AGGTACTGATCTTCGTTCAAGCTTTTCTTTCTTTTCTTTCTCTGGTTATGAAGAACTTGGCCACT
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* ** * * *
497192 TGCATCAGAAA-CCT-TGTTTTTCTCGTTAAAATCAGTGGAAATTTATGGAAAGTACTAAGCTTC
66 TGCATCAGAAACCCTAT-TTTTTCT-GTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTA
* * *
497255 GTTCAATCTTTTGATTGTTCTTGGAGTTAATTCTCTGCGTTTTTGTTCA-ATTCCT-CTCTAATA
129 GTTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTT-ATATTCTTCCTCTAATA
* ** * * *
497318 ATCAAGAA-ACAACAGCGTGCAT-TAAAACAATATTTTTGAAAATC------AA----TGGAAAT
193 ATCAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAAT
497371 TCTG
258 TCTG
* * * * * * *
497375 AGGTACTGAGATTCGTTCAAGTTTTTTGTTCTTTTCTTTATCTGGATATGAAGAACTTGGTGACG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * * * * * *
497440 TGCATCAGAAA-CCAAGTTTTTCTCATTGAAATTGGTGGAAATTTATGGAAATTACTGAGTTTTG
66 TGCATCAGAAACCCTATTTTTTCT-GTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAG
* * * * *
497504 TTAAATC-TTT-A------TTAGCGTTAATTTTCTGCTTTTTTTTTTCTATTCTTCCTCTTAA-A
130 TTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGC-GTTTTTGTTATATTCTTCCTC-TAATA
* * * * *
497560 ATCAAAAACTCGACAGCATGTATCAAAAACACTATTTTTGAAAATC-------A---GTGGAAAT
193 ATCAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAAT
497615 TCTG
258 TCTG
* * * * *
497619 AGGTATTGAGATTCGTTCAAGCTTTTTGTT-TTTT-TCTCTCTGGTTATCAAGAACTTGGCGACA
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * * * * * **
497682 TGAATCAAAAACCCTATTTTTCCTTTTGAAATTGGTGGAAATTTTTGGAAAGTACCGAGCTTCTT
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAGT
* * * * **
497747 TCAATCTTTTGATTGTTGTTGGCGATAATTTTCTACG-TTTT-TTCTATTCTTCCTCTAATGTTC
131 TCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAATC
* * *
497810 GAGAACTAGGCAGCGTGCATCAAAAACATTGTTTTTG-AAA--A-T-----TTT-TGGAAATTCT
196 AAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATTCT
*
497865 A
261 G
* ** * *
497866 AGGTACCGAAATTTGTTCAAGCTTTTCGTTCTTTTCTTTCTC----T-T------C---GCGATG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * *
497917 TGCATCAGAAACCTTA-TTTTT-TGTTGAAATTGGT----A------GAAAGTACTAACCTTTA-
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGC-TTAG
* * * *** * *
497969 TTAAATCTTTTGATTGTTCTTGGCATAAATTTTCTATATTTTCGTTATATTCTTCCTCTGATAAT
130 TTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAAT
* * * *
498034 CAAGAACTCGGCAGCGTGCATGAAAAACATTGTTTTTGAAAATCAGT-TAAATATGTGGAAATT-
195 CAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATTC
498097 TAG
260 T-G
* *
498100 AGGTACTAAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGATTATCAAGAACTTGGCGA-G
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* ** * * ** * * * * * *
498164 TTGCGTTTGGAGCCCTGGTTGTTATGTTGAAATTGGTAGAAATTTTTGGAAACTACTTAGCTTCA
66 -TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTT-A
* * * * * * * *
498229 -TTGAATCTTTTGAATGCTATTGACGTTACTTTT-TGCGTTTTTGTTATATTCTTCCTATGATAA
129 GTTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAA
* * *
498292 TCAAGAAATCGGTAGCGTGCTTCAAAAACACTGTTTTTGAAAATC------AA----TGGAAATT
194 TCAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATT
*
498347 TTG
259 CTG
* * *
498350 AGGTATTGAGCTTCATTCAAGCTTTTCGTTCTTTTCTTTCTTTGGTTATCAAGAACTTGGCGACG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * * * *
498415 TGCATCATATACCCTATTTTTCCCGTTGAAA-T--T-G------GTGGAAAGTACTGAGCTTCGT
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAGT
* * * *
498470 TCAACCTTTTGATTATTCTTGGCGTTAATTTTCTGCATTTTTGTTATACTCTTCCTCTAATAATC
131 TCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAATC
* * * ** * * *
498535 AATAACTCGGTAGAGCACACCAAAAACACTATTTTTTGAAAATCATTGGAAATTTGTGGAAATTC
196 AAGAACTCGGCAGCGTGCATCAAAAACACT-GTTTTTGAAAATCAGTGGAAATTTGTGGAAATTC
**
498600 CA
260 TG
* * * * * *
498602 AGGTACCGAGCTTTGTTCAATCTTTTAGTTCTTTT-TTTTTCTGGTTATCAACAACTTGGCGACG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * * ** * *
498666 TGCATTAGAAACACTACTTTTTCAATTAAAATTGGTGGAAATTTGT-GAAAGTACTGAGCTTCGT
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAGT
* * * * *
498730 TCAATCTTTTAATTGTTCTTGACGTTAATTATCTACG-TTTT-TTATATTCTTCCTCTGATAATC
131 TCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAATC
* * * * * *
498793 AAGAACTCGTCATCGTGCATCAAAAACATTGTTTTTGAAAATCAGTGGAAATTTGTGTAATTTCC
196 AAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATTCT
*
498858 A
261 G
* * * *
498859 AGGTACTGAGCTTCGTTCAAGCTTTTTGTTCTTTTCTTTCTTTGGTTATCAAGAACATGGAGACG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * * ** *
498924 TGCATCAGAAACCCTATTTTTTCTATTAAAATTGGTGGAAATTTATGGAAAGTACCAAGCTT-CT
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAGT
* *** * * * *
498988 TACAATCTTTTGATTGTTTTTGGAAATAATTTTCTACGTTTTT-TCTATA--C-T--TATGATAT
131 T-CAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGT-TATATTCTTCCTCTAATAA
* * * * * *
499047 TCAAAAACTCGACAGCGTGCCTCAATAAGACTATTTTTGAAAATC-------A---GTGGAAATT
194 TCAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATT
*
499102 CTA
259 CTG
* * *
499105 AGGTACTGAGCTTGGTTCAAGTTTTTTGTTCTTTTCTTTCTCATGG---T---GAAC-T-GC-A-
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTC-TGGTTATCAAGAACTTGGCGAC
* * *
499160 -T---T-AGAAACCCTA-TTTTTCTGTTTAAATTAGTGGAAATTTGTGGAAAGTACTAAGCTTTA
65 GTGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGC-TTA
* * * * * * *
499219 -TCCAATCTTCTGATTGTTCTTGGAGTTAATTTTCTGCATTTTTGTTCTATTCTTCCAGC-GATA
129 GTTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCC-TCTAATA
* * * * * * *
499282 ATCAAGAACTTGGCAACATGCATCAAAAACATTGTTTTTAAAAATAAGT-GAATTTTGTGGAAAT
193 ATCAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAAT
*
499346 TCAG
258 TCTG
* * *
499350 AGTTACTG-GCTTCGTTCAAGCTTTTCGTTCTTTTCTTTATCTGGTTATCAAGAACTTGGCGATG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * ** * * * * *
499414 TG-AGTCAAAAACCCTA-TTTTCCAATTGAACTTTGTAGAAATTTGTGGAAAGTACTGAGTTTTG
66 TGCA-TCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAG
* * * * *
499477 TTCAATCATTTGATTGTTATTAGG-GTTAATTTTTTGCGTTTTTGTTATATTATTCCTCTGATAA
130 TTCAATCTTTTGATTGTTCTT-GGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAA
** * * * * *
499541 TCAAGAACTCGATAGCATGCATCAAAAACATTGTTTTTGAAAATAAGTGGAATTTTGTGGAAACT
194 TCAAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATT
*
499606 CCG
259 CTG
* * * * * * *
499609 AGGTACTAAGCTTCATTCAAGTTTTTCGTTCTTTTCTCTCTCTGTTTATCAAGAACTTGGCAATG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
* * *
499674 TGCATCAGAAACCCTATTTTTCCTGTTGAAATTGGTGGAAATTTGTGAAAAGTACTAAGCTTCA-
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTT-AG
* * * * * *
499738 TTCAACCTTTTGAATGTTTTTTGCGTTAATTTTCTGCGTTTTTGTTCTATTCTTCCTCTGATAAT
130 TTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAAT
* *** ** * * * * * *
499803 TAAGAACTCAAAAAAGTGCACCAAAAACACTCTTTTTTTCAAAATCATTGGAAATTTATGGAAAC
195 CAAGAACTCGGCAGCGTGCATCAAAAACA--CTGTTTTTGAAAATCAGTGGAAATTTGTGGAAAT
499868 TCTG
258 TCTG
** * * * * * * *
499872 AGACATTGTGCTTCGTTCAATCTTTTTGTTCTTTTCTTTTTCTGGGTATCAAGAACTTGG-AACG
1 AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
** * ** *
499936 TGCATCAGAAACATTGTTTTTTCAATTG-AATTGGTGGAAATTTGTGGAAAGTACTGAGCTTCGT
66 TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAGT
* * * * * * *
500000 TCAATCATTTAATTATTTTTGGTGTTAATTATATGCG-TTTTGTTATATTCTTCCTCTAAT
131 TCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAAT
500060 GATGATAACG
Statistics
Matches: 3204, Mismatches: 581, Indels: 360
0.77 0.14 0.09
Matches are distributed among these distances:
223 41 0.01
224 5 0.00
225 52 0.02
226 3 0.00
228 1 0.00
229 2 0.00
231 76 0.02
232 14 0.00
233 17 0.01
234 50 0.02
235 17 0.01
236 38 0.01
238 3 0.00
239 2 0.00
240 56 0.02
241 67 0.02
242 94 0.03
243 33 0.01
244 91 0.03
245 19 0.01
246 57 0.02
247 88 0.03
248 148 0.05
249 17 0.01
250 161 0.05
251 125 0.04
252 129 0.04
254 5 0.00
255 1 0.00
256 47 0.01
257 67 0.02
258 271 0.08
259 363 0.11
260 348 0.11
261 545 0.17
262 71 0.02
263 80 0.02
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (261 bp):
AGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGACG
TGCATCAGAAACCCTATTTTTTCTGTTGAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTAGT
TCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTGCGTTTTTGTTATATTCTTCCTCTAATAATC
AAGAACTCGGCAGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAATTTGTGGAAATTCT
G
Found at i:499539 original size:750 final size:752
Alignment explanation
Indices: 495831--499858 Score: 2868
Period size: 750 Copynumber: 5.3 Consensus size: 752
495821 TTATAAAAAT
* * * ** * *
495831 TTCAAGGTACTGAGCATCATTCAAGCTTTTCATTCTTTTGTTTCTCTGGTTATCAAGAACTTGGC
1 TTCAAGGTACTAAGCTTCGTTCAAGCTTTTTGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGA
* * * * ** * *
495896 GACATGAATCAAAAACCCT-GTTTTTCCGTTGAAATTGGTGGAAATTTGAT-GAAAGTATTGAGC
66 GACGTGCATCAGAAACCCTATTTTTTCTATTGAAATTGGTGGAAATTT-ATGGAAAGTACTAAGC
** * * * ** * * * * *
495959 TTTGTTTAATCTTTTTATTGTTCTTAGA-GTTAATTTCCTGTGTTTTTGT-TTTATTCGTCCTCT
130 TTCATTCAATCTTTTGATTGTT-TTTGACAATAATTTTCTGCGTTTTT-TCTATA-TC-TTCTAT
* * * * *
496022 AATAATCAAGAACTTGGCAACGTGCATCAAAAACACTATTTTTGAAAATCAGTGGAAATTTGTGG
191 GATAATCAAGAAATCGACAGCGTGCATCAAAAACACTATTTTTGAAAATC------AA----TGG
** * *
496087 AAATTCCGAGGTACTAAGCTTCGTTCAAGCTTTTCATTCTTTTCTTTCTCTACTTATCAAGGACT
246 AAATTCTAAGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTC--T-T-T-C---TC----A--
* * * * **
496152 TGGTGAAC-TGCATCAAAAACCCTATTTTTTCTGTTAAAATTTGTGGAAATTTGTTAAAAGTACT
297 TGGTGAACATGCATTAGAAACCCTA-TTTTTCTGTTTAAATTGGTGGAAATTTGTGGAAAGTACT
** ** *
496216 GAGC-TTAGTTCAATCTTTTGATTGTTCTTGGTCTTAATTTTCTGTGTTTTTGTTATATTCTTCC
361 GAGCTTTA-TTCAATCTTTTGATTGTTCTTGGAGTTAATTTTCTGCATTTTTGTTCTATTCTTCC
* * * * * * * * * * *
496280 CCTAATAATGAACAACTTGGGAACGTGCATGAAAAACACTATTTTTGAAAATCAGTGGACATTTG
425 TCTAATAATCAAGAACTCGGCAACATGCATCAAAAACATTGTTTTTGAAAATAAGT-GAAATTTG
* * **
496345 TGGAAATTTC-GAGGTACTGAGATTCGTTCAAACTTTTCGTTC-TTT-TTTCTCACGTTATCAAG
489 TGGAAA-TTCAGAGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAG
* * * * * *
496407 AACTTGGCGACGTGCATCTGAAACCATGTTTTACCCGTTGAAATTGGTGCAAATTTGTAGAAAAT
553 AACTTGGCGATGTGCATCAGAAACCCTATTTT--CCATTGAAATTGGTG-AAATTTGTAGAAAGT
* * * * * *
496472 ACTGAGCCTAGTACAATCTTTTGATTGTTCTTGGCATTAATTTTCTACATTTTTGTTTTATTC-T
615 ACTGAGCTTCGTTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTACGTTTTTGTTATATTCTT
* *
496536 CCATCTGATATTCAAGAACTCGGT-AGCGTGCATCAAAAACACTGTTTTTGAAAATCAGTGGAAA
680 CC-TCTGATAATCAAGAACTC-GTCAGCGTGCATCAAAAACATTGTTTTTGAAAATCAGTGGAAA
496600 TTTGTGGAAA
743 TTTGTGGAAA
* * * *
496610 TTCTAAGGTACTAAGCTTCGTTCAAGCATTTCGTTCTTTTCTTTCTCTTGTTATGAAGAACTTGG
1 TTC-AAGGTACTAAGCTTCGTTCAAGCTTTTTGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGG
* * * * * **
496675 CA-ACGTGCTTCATAAACCCTATTTTTT-AATTAGAAATTGGTGGAAATTTTTGGAAATTACCGA
65 -AGACGTGCATCAGAAACCCTATTTTTTCTATT-GAAATTGGTGGAAATTTATGGAAAGTACTAA
** * * * * *
496738 GCTTCATTCAATCTTTTGATTAATCTTGACATTAAATTTCTGTGTTTTTGTTCTATATCTTTCTC
128 GCTTCATTCAATCTTTTGATTGTTTTTGACAATAATTTTCTGCG-TTTT-TTCTATATC-TTCTA
* * * * *
496803 TAATAATCAAGAAATCGGCAACCTGCAT-AAAAA-ACTATGTATTTGGAAATCAATGGAAATTCT
190 TGATAATCAAGAAATCGACAGCGTGCATCAAAAACACTAT-T-TTTGAAAATCAATGGAAATTCT
* * * *
496866 AAGGCACTGAGCTTCGTTCAACCTTTTCGTTATTTTCTTTCTCTGATTATGAAGAACTTGGCGAC
253 AAGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTC-----ATG--G----T-G-AAC
* * * * * ** *
496931 ATGCATCAGAAACCATGTTTTT-TCGTTGAAATTGGTGGAAATTTATCAAAATTACTGAGCTTTA
305 ATGCATTAGAAACCCTATTTTTCT-GTTTAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTTA
*** *
496995 TTCAATCTTTTGATTGCTT-TTGGCA-TTAATTTTCTATGTTTTTGTTCTA-ACATTCCTCTAAT
369 TTCAATCTTTTGATTG-TTCTTGG-AGTTAATTTTCTGCATTTTTGTTCTATTC-TTCCTCTAAT
* *
497057 AATCAAGAACTCAGCAGCATGCATCAAAAACATTGTTTTTGAAAATCAGAG-GAAATTTGTGGAA
431 AATCAAGAACTCGGCAACATGCATCAAAAACATTGTTTTTGAAAAT-A-AGTGAAATTTGTGGAA
* * * *
497121 ATTCTGAGGTACTGATCTTCGTTCAAGCTTTTCTTTCTTTTCTTTCTCTGGTTATGAAGAACTTG
494 ATTCAGAGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTG
* * * * * ** * * *
497186 GCCACT-TGCATCAGAAACCTTGTTTTTCTCGTTAAAATCAGTGGAAATTTATGGAAAGTACTAA
559 GCGA-TGTGCATCAGAAACCCT-ATTTTC-CATTGAAATTGGT-GAAATTTGTAGAAAGTACTGA
* * * *
497250 GCTTCGTTCAATCTTTTGATTGTTCTTGGAGTTAATTCTCTGCGTTTTTGTTCA-ATTCCT-CTC
620 GCTTCGTTCAATCTTTTGATTGTTCTTGGCGTTAATTTTCTACGTTTTTGTT-ATATTCTTCCTC
* * ** * * * * *
497313 TAATAATCAAGAA-ACAACAGCGTGCAT-TAAAACAATATTTTTGAAAATCAATGGAAA-TTCT-
684 TGATAATCAAGAACTCGTCAGCGTGCATCAAAAACATTGTTTTTGAAAATCAGTGGAAATTTGTG
497374 G---
749 GAAA
* * * * * * *
497375 ----AGGTACTGAGATTCGTTCAAGTTTTTTGTTCTTTTCTTTATCTGGATATGAAGAACTTGGT
1 TTCAAGGTACTAAGCTTCGTTCAAGCTTTTTGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGA
* * * * *
497436 GACGTGCATCAGAAA-CCAAGTTTTTCTCATTGAAATTGGTGGAAATTTATGGAAATTACTGAGT
66 GACGTGCATCAGAAACCCTATTTTTTCT-ATTGAAATTGGTGGAAATTTATGGAAAGTACTAAGC
** * * ** * *
497500 TTTGTTAAATC-TTT-A-----TTAG-CGTTAATTTTCTGCTTTTTTTTTTCTAT-TCTTCCTCT
130 TTCATTCAATCTTTTGATTGTTTTTGACAATAATTTTCTGC---GTTTTTTCTATATCTT-CTAT
* * * * * *
497556 TAAAATCAA-AAACTCGACAGCATGTATCAAAAACACTATTTTTGAAAATCAGTGGAAATTCTGA
191 GATAATCAAGAAA-TCGACAGCGTGCATCAAAAACACTATTTTTGAAAATCAATGGAAATTCTAA
* * * * * *
497620 GGTATTGAGATTCGTTCAAGCTTTTTGTTTTTTTCTCTCTGGTTATCAAGAACTTGGCG-ACATG
255 GGTACTGAGCTTCGTTCAAGCTTTTCG--TTCTT-T-TCT--TTCTC----A--TGGTGAACATG
* * * * *
497684 AATCAAAAACCCTATTTTTCCT-TTTGAAATTGGTGGAAATTTTTGGAAAGTACCGAGCTTCT-T
308 CATTAGAAACCCTATTTTT-CTGTTT-AAATTGGTGGAAATTTGTGGAAAGTACTGAGCTT-TAT
* * * * * **
497747 TCAATCTTTTGATTGTTGTTGGCGATAATTTTCTAC-GTTTT-TTCTATTCTTCCTCTAATGTTC
370 TCAATCTTTTGATTGTTCTTGGAGTTAATTTTCTGCATTTTTGTTCTATTCTTCCTCTAATAATC
* * * *
497810 GAGAACTAGGCAGCGTGCATCAAAAACATTGTTTTTG--AA-AA-T----TTT-TGGAAATTCTA
435 AAGAACTCGGCAACATGCATCAAAAACATTGTTTTTGAAAATAAGTGAAATTTGTGGAAATTC-A
* ** *
497866 -AGGTACCGAAATTTGTTCAAGCTTTTCGTTCTTTTCTTTCTC----T-T------C---GCGAT
499 GAGGTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGAT
* * * * ** *
497916 GTGCATCAGAAACCTTATTTT---TTG----T--TGAAATTGGTAGAAAGTACTAACCTTTATTA
564 GTGCATCAGAAACCCTATTTTCCATTGAAATTGGTGAAATTTGTAGAAAGTACTGAGCTTCGTTC
* * ** *
497972 AATCTTTTGATTGTTCTTGGCATAAATTTTCTATATTTTCGTTATATTCTTCCTCTGATAATCAA
629 AATCTTTTGATTGTTCTTGGCGTTAATTTTCTACGTTTTTGTTATATTCTTCCTCTGATAATCAA
* * * *
498037 GAACTCGGCAGCGTGCATGAAAAACATTGTTTTTGAAAATCAGT-TAAATATGTGGAAA
694 GAACTCGTCAGCGTGCATCAAAAACATTGTTTTTGAAAATCAGTGGAAATTTGTGGAAA
* * *
498095 TTTAGAGGTACTAAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGATTATCAAGAACTTGG
1 TTCA-AGGTACTAAGCTTCGTTCAAGCTTTTTGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGG
* * ** * * ** * * * * * * *
498160 CGA-GTTGCGTTTGGAGCCCTGGTTGTTATGTTGAAATTGGTAGAAATTTTTGGAAACTACTTAG
65 AGACG-TGCATCAGAAACCCTATTTTTTCTATTGAAATTGGTGGAAATTTATGGAAAGTACTAAG
* * * * ** *
498224 CTTCATTGAATCTTTTGAATGCTATTGACGTTACTTTT-TGCGTTTTTGT-TATATTCTTCCTAT
129 CTTCATTCAATCTTTTGATTGTTTTTGACAATAATTTTCTGCGTTTTT-TCTATA-TCTT-CTAT
** * * * *
498287 GATAATCAAGAAATCGGTAGCGTGCTTCAAAAACACTGTTTTTGAAAATCAATGGAAATTTTGAG
191 GATAATCAAGAAATCGACAGCGTGCATCAAAAACACTATTTTTGAAAATCAATGGAAATTCTAAG
* * * * * * * * **
498352 GTATTGAGCTTCATTCAAGCTTTTCGTTCTTTTCTTTCT-TTGGTTATCAAGAACTTGGCGACGT
256 GTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCATGGTGAACATGCA-TTAGAAAC--
* *** * * * * ** *
498416 GCATCATATACCCTATTT---TTCCCGTTGAAATTGGTGGAAAGTACTGAGCTTCGTTCAACCTT
318 -CCT-AT-TTTTCTGTTTAAATT--GGTGGAAATTTGTGGAAAGTACTGAGCTTTATTCAATCTT
* * * * *
498478 TTGATTATTCTTGGCGTTAATTTTCTGCATTTTTGTTATACTCTTCCTCTAATAATCAATAACTC
378 TTGATTGTTCTTGGAGTTAATTTTCTGCATTTTTGTTCTATTCTTCCTCTAATAATCAAGAACTC
* * * *
498543 GGTAGAGCA--CACCAAAAACACTAT-TTTTTGAAAATCATTGGAAATTTGTGGAAATTCCA-AG
443 GGCA-A-CATGCATCAAAAACA-T-TGTTTTTGAAAATAAGT-GAAATTTGTGGAAATT-CAGAG
* * * * * * *
498604 GTACCGAGCTTTGTTCAATCTTTTAGTTCTTTT-TTTTTCTGGTTATCAACAACTTGGCGACGTG
502 GTACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGATGTG
* * * *
498668 CATTAGAAACACTACTTTTTCAATTAAAATTGGTGGAAATTTGT-GAAAGTACTGAGCTTCGTTC
567 CATCAGAAACCCTA--TTTTCCATTGAAATTGGT-GAAATTTGTAGAAAGTACTGAGCTTCGTTC
* * *
498732 AATCTTTTAATTGTTCTTGACGTTAATTATCTACG-TTTT-TTATATTCTTCCTCTGATAATCAA
629 AATCTTTTGATTGTTCTTGGCGTTAATTTTCTACGTTTTTGTTATATTCTTCCTCTGATAATCAA
* * *
498795 GAACTCGTCATCGTGCATCAAAAACATTGTTTTTGAAAATCAGTGGAAATTTGTGTAAT
694 GAACTCGTCAGCGTGCATCAAAAACATTGTTTTTGAAAATCAGTGGAAATTTGTGGAAA
* * *
498854 TTCCAAGGTACTGAGCTTCGTTCAAGCTTTTTGTTCTTTTCTTTCTTTGGTTATCAAGAACATGG
1 TT-CAAGGTACTAAGCTTCGTTCAAGCTTTTTGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGG
* *
498919 AGACGTGCATCAGAAACCCTATTTTTTCTATTAAAATTGGTGGAAATTTATGGAAAGTACCAAGC
65 AGACGTGCATCAGAAACCCTATTTTTTCTATTGAAATTGGTGGAAATTTATGGAAAGTACTAAGC
*
498984 TTC-TTACAATCTTTTGATTGTTTTTGGA-AATAATTTTCTACGTTTTTTCTATA-C-T-TATGA
130 TTCATT-CAATCTTTTGATTGTTTTT-GACAATAATTTTCTGCGTTTTTTCTATATCTTCTATGA
* * * * *
499044 TATTCAA-AAACTCGACAGCGTGCCTCAATAAGACTATTTTTGAAAATCAGTGGAAATTCTAAGG
193 TAATCAAGAAA-TCGACAGCGTGCATCAAAAACACTATTTTTGAAAATCAATGGAAATTCTAAGG
* * *
499108 TACTGAGCTTGGTTCAAGTTTTTTGTTCTTTTCTTTCTCATGGTGAAC-TGCATTAGAAACCCTA
257 TACTGAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCATGGTGAACATGCATTAGAAACCCTA
* * * *
499172 TTTTTCTGTTTAAATTAGTGGAAATTTGTGGAAAGTACTAAGCTTTATCCAATCTTCTGATTGTT
322 TTTTTCTGTTTAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTTATTCAATCTTTTGATTGTT
* * *
499237 CTTGGAGTTAATTTTCTGCATTTTTGTTCTATTCTTCCAGC-GATAATCAAGAACTTGGCAACAT
387 CTTGGAGTTAATTTTCTGCATTTTTGTTCTATTCTTCC-TCTAATAATCAAGAACTCGGCAACAT
* * *
499301 GCATCAAAAACATTGTTTTTAAAAATAAGTGAATTTTGTGGAAATTCAGAGTTACTG-GCTTCGT
451 GCATCAAAAACATTGTTTTTGAAAATAAGTGAAATTTGTGGAAATTCAGAGGTACTGAGCTTCGT
* *
499365 TCAAGCTTTTCGTTCTTTTCTTTATCTGGTTATCAAGAACTTGGCGATGTG-AGTCAAAAACCCT
516 TCAAGCTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGATGTGCA-TCAGAAACCCT
* * * * * *
499429 ATTTTCCAATTGAACTTTGTAGAAATTTGTGGAAAGTACTGAGTTTTGTTCAATCATTTGATTGT
580 ATTTTCC-ATTGAAATTGGT-GAAATTTGTAGAAAGTACTGAGCTTCGTTCAATCTTTTGATTGT
* * * *
499494 TATTAGG-GTTAATTTTTTGCGTTTTTGTTATATTATTCCTCTGATAATCAAGAACTCGAT-AGC
643 TCTT-GGCGTTAATTTTCTACGTTTTTGTTATATTCTTCCTCTGATAATCAAGAACTCG-TCAGC
* * *
499557 ATGCATCAAAAACATTGTTTTTGAAAATAAGTGGAATTTTGTGGAAA
706 GTGCATCAAAAACATTGTTTTTGAAAATCAGTGGAAATTTGTGGAAA
* * * * *
499604 CTCCGAGGTACTAAGCTTCATTCAAG-TTTTTCGTTCTTTTCTCTCTCTGTTTATCAAGAACTTG
1 -TTCAAGGTACTAAGCTTCGTTCAAGCTTTTT-GTTCTTTTCTTTCTCTGGTTATCAAGAACTTG
* * * * *
499668 GCA-ATGTGCATCAGAAACCCTATTTTTCCTGTTGAAATTGGTGGAAATTTGTGAAAAGTACTAA
64 G-AGACGTGCATCAGAAACCCTATTTTTTCTATTGAAATTGGTGGAAATTTATGGAAAGTACTAA
* * **
499732 GCTTCATTCAACCTTTTGAATGTTTTTTG-CGTTAATTTTCTGCGTTTTTGTTCTAT-TCTTCCT
128 GCTTCATTCAATCTTTTGATTG-TTTTTGACAATAATTTTCTGCG-TTTT-TTCTATATCTT-CT
* * * * * ** * * * *
499795 CTGATAATTAAGAACTCAAAAAAGTGCACCAAAAACACTCTTTTTTTCAAAATCATTGGAAATT
189 ATGATAATCAAGAAATCGACAGCGTGCATCAAAAACA--CTATTTTTGAAAATCAATGGAAATT
499859 TATGGAAACT
Statistics
Matches: 2580, Mismatches: 481, Indels: 398
0.75 0.14 0.12
Matches are distributed among these distances:
712 1 0.00
713 63 0.02
714 16 0.01
715 14 0.01
716 23 0.01
717 1 0.00
718 3 0.00
719 5 0.00
720 5 0.00
721 2 0.00
723 58 0.02
724 14 0.01
725 159 0.06
726 18 0.01
727 6 0.00
728 4 0.00
729 13 0.01
730 2 0.00
731 82 0.03
732 8 0.00
733 9 0.00
734 1 0.00
735 9 0.00
736 40 0.02
737 1 0.00
739 47 0.02
740 4 0.00
744 1 0.00
745 1 0.00
746 6 0.00
747 46 0.02
748 105 0.04
749 98 0.04
750 336 0.13
751 85 0.03
752 89 0.03
753 15 0.01
754 23 0.01
755 114 0.04
756 11 0.00
757 26 0.01
758 74 0.03
759 154 0.06
760 162 0.06
761 11 0.00
763 2 0.00
764 2 0.00
765 3 0.00
767 1 0.00
768 2 0.00
769 5 0.00
770 33 0.01
771 176 0.07
772 75 0.03
773 113 0.04
774 6 0.00
776 2 0.00
779 3 0.00
780 78 0.03
781 65 0.03
782 45 0.02
783 4 0.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (752 bp):
TTCAAGGTACTAAGCTTCGTTCAAGCTTTTTGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGA
GACGTGCATCAGAAACCCTATTTTTTCTATTGAAATTGGTGGAAATTTATGGAAAGTACTAAGCT
TCATTCAATCTTTTGATTGTTTTTGACAATAATTTTCTGCGTTTTTTCTATATCTTCTATGATAA
TCAAGAAATCGACAGCGTGCATCAAAAACACTATTTTTGAAAATCAATGGAAATTCTAAGGTACT
GAGCTTCGTTCAAGCTTTTCGTTCTTTTCTTTCTCATGGTGAACATGCATTAGAAACCCTATTTT
TCTGTTTAAATTGGTGGAAATTTGTGGAAAGTACTGAGCTTTATTCAATCTTTTGATTGTTCTTG
GAGTTAATTTTCTGCATTTTTGTTCTATTCTTCCTCTAATAATCAAGAACTCGGCAACATGCATC
AAAAACATTGTTTTTGAAAATAAGTGAAATTTGTGGAAATTCAGAGGTACTGAGCTTCGTTCAAG
CTTTTCGTTCTTTTCTTTCTCTGGTTATCAAGAACTTGGCGATGTGCATCAGAAACCCTATTTTC
CATTGAAATTGGTGAAATTTGTAGAAAGTACTGAGCTTCGTTCAATCTTTTGATTGTTCTTGGCG
TTAATTTTCTACGTTTTTGTTATATTCTTCCTCTGATAATCAAGAACTCGTCAGCGTGCATCAAA
AACATTGTTTTTGAAAATCAGTGGAAATTTGTGGAAA
Found at i:505899 original size:156 final size:157
Alignment explanation
Indices: 505598--505901 Score: 389
Period size: 156 Copynumber: 1.9 Consensus size: 157
505588 CAAACTTTTA
*
505598 GTTCTTTTCTTTCACTGGTTATCAAGAACTTGGAGACGTGTATCAAAAACCCTATTTTTCCGTTG
1 GTTCTTTTCTTTCACTGGTTATCAAGAACTTGGAGACGTGTATCAAAAACCCTATTTTTCCGTTA
* * * * * * *
505663 AAATTGGTAGATATTTGTGGAAGGTATTGAGCTTCTTTCAATCTTTTAATTGTTATTGACGTTAA
66 AAATTGGTAGAAATTTATGAAAAGTACTAAGCTTCGTTCAATCTTTTAATTGTTATTGACGTTAA
*
505728 TTTTTAGCGGTTTTGTTCAAGCTATTC
131 TTTTTAGCGCTTTTGTTCAAGCTATTC
* * * * * * *
505755 GTTCTTTT-TTTCTCTTGTTATCAAGAACTTGGCGGCGTGTATCATAAACCTTAATTTTT-TGTT
1 GTTCTTTTCTTTCACTGGTTATCAAGAACTTGGAGACGTGTATCAAAAACCCT-ATTTTTCCGTT
* * * *
505818 AAAATTGGTGGAAATTTATGAAAAGTACTAAGCTTCGTTCAATCTTTTCATTGTTCTTGGCGTTA
65 AAAATTGGTAGAAATTTATGAAAAGTACTAAGCTTCGTTCAATCTTTTAATTGTTATTGACGTTA
505883 ATTTTCTA-CGCTTTTGTTC
130 ATTTT-TAGCGCTTTTGTTC
505902 TAATTTTCCT
Statistics
Matches: 125, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
156 109 0.87
157 16 0.13
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.45
Consensus pattern (157 bp):
GTTCTTTTCTTTCACTGGTTATCAAGAACTTGGAGACGTGTATCAAAAACCCTATTTTTCCGTTA
AAATTGGTAGAAATTTATGAAAAGTACTAAGCTTCGTTCAATCTTTTAATTGTTATTGACGTTAA
TTTTTAGCGCTTTTGTTCAAGCTATTC
Done.