Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 126 of 284
Found at i:41998941 original size:17 final size:17
Alignment explanation
Indices: 41998919--41998952 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
41998909 ATCGTGTTGT
41998919 GGGAAACTTGCATACAA
1 GGGAAACTTGCATACAA
41998936 GGGAAACTTGCATACAA
1 GGGAAACTTGCATACAA
41998953 CTTCTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (17 bp):
GGGAAACTTGCATACAA
Found at i:42000758 original size:15 final size:15
Alignment explanation
Indices: 42000738--42000767 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
42000728 ATAATCCTAA
42000738 TAATTATCCTAATAT
1 TAATTATCCTAATAT
42000753 TAATTATCCTAATAT
1 TAATTATCCTAATAT
42000768 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:42006269 original size:12 final size:12
Alignment explanation
Indices: 42006247--42006275 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
42006237 TTAGGCTCAA
42006247 TTTTC-CTTAGC
1 TTTTCTCTTAGC
42006258 TTTTCTCTTAGC
1 TTTTCTCTTAGC
42006270 TTTTCT
1 TTTTCT
42006276 TCCTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.07, C:0.24, G:0.07, T:0.62
Consensus pattern (12 bp):
TTTTCTCTTAGC
Found at i:42017249 original size:20 final size:20
Alignment explanation
Indices: 42017211--42017250 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
42017201 AATTATTAAA
*
42017211 CACTTATTCTACATATATGT
1 CACTTATTCCACATATATGT
42017231 CACTTATTCACACAT-TATGT
1 CACTTATTC-CACATATATGT
42017251 AAAATACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (20 bp):
CACTTATTCCACATATATGT
Found at i:42028727 original size:123 final size:123
Alignment explanation
Indices: 42028508--42028753 Score: 492
Period size: 123 Copynumber: 2.0 Consensus size: 123
42028498 GAGTAAGATA
42028508 GCAATGTTAAAGGATTTATATCTTTTAAGCATGACAAGTTACCATTTGACGAATATGATTTTCTT
1 GCAATGTTAAAGGATTTATATCTTTTAAGCATGACAAGTTACCATTTGACGAATATGATTTTCTT
42028573 TCAGTTACACTTTATTTGCATATATGTACTTACTAAGCTCCCACGCTTACCCTCATTT
66 TCAGTTACACTTTATTTGCATATATGTACTTACTAAGCTCCCACGCTTACCCTCATTT
42028631 GCAATGTTAAAGGATTTATATCTTTTAAGCATGACAAGTTACCATTTGACGAATATGATTTTCTT
1 GCAATGTTAAAGGATTTATATCTTTTAAGCATGACAAGTTACCATTTGACGAATATGATTTTCTT
42028696 TCAGTTACACTTTATTTGCATATATGTACTTACTAAGCTCCCACGCTTACCCTCATTT
66 TCAGTTACACTTTATTTGCATATATGTACTTACTAAGCTCCCACGCTTACCCTCATTT
42028754 CTTTTCTTTC
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (123 bp):
GCAATGTTAAAGGATTTATATCTTTTAAGCATGACAAGTTACCATTTGACGAATATGATTTTCTT
TCAGTTACACTTTATTTGCATATATGTACTTACTAAGCTCCCACGCTTACCCTCATTT
Found at i:42029624 original size:21 final size:22
Alignment explanation
Indices: 42029584--42029625 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
42029574 GCCTAAATAG
*
42029584 TCACACGGGCGTGTTGCCCCTC
1 TCACACGGGCATGTTGCCCCTC
42029606 TCACACGGGCATG-TGCCCCT
1 TCACACGGGCATGTTGCCCCT
42029626 GTGTTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.12, C:0.40, G:0.26, T:0.21
Consensus pattern (22 bp):
TCACACGGGCATGTTGCCCCTC
Found at i:42036009 original size:15 final size:15
Alignment explanation
Indices: 42035965--42036017 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
42035955 ATCCCCAATT
* *
42035965 CCACCACCACCACCA
1 CCACCACCGCCGCCA
*
42035980 CCACCACCTCCGCCA
1 CCACCACCGCCGCCA
* *
42035995 CCGCCACCGCTGCCA
1 CCACCACCGCCGCCA
*
42036010 ACACCACC
1 CCACCACC
42036018 ACCCTCGCAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.25, C:0.64, G:0.08, T:0.04
Consensus pattern (15 bp):
CCACCACCGCCGCCA
Found at i:42036343 original size:39 final size:42
Alignment explanation
Indices: 42036280--42036377 Score: 121
Period size: 39 Copynumber: 2.4 Consensus size: 42
42036270 ACCAGTTTTG
* * *
42036280 CCGCCACCACCTCCTGTACCTAGAAGTACATCATTACCA-C-
1 CCGCCACCACCTCCTATACATAGAACTACATCATTACCACCA
* *
42036320 CC-CCACCACCTCCTATTCATAGAACTGCATCATTACCACCA
1 CCGCCACCACCTCCTATACATAGAACTACATCATTACCACCA
*
42036361 CCGCCACCACCACCTAT
1 CCGCCACCACCTCCTAT
42036378 GGCACCTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 31 0.63
40 3 0.06
41 2 0.04
42 13 0.27
ACGTcount: A:0.28, C:0.46, G:0.07, T:0.19
Consensus pattern (42 bp):
CCGCCACCACCTCCTATACATAGAACTACATCATTACCACCA
Found at i:42053063 original size:12 final size:12
Alignment explanation
Indices: 42053046--42053070 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42053036 CTGTTACATA
42053046 GCCTATCACACG
1 GCCTATCACACG
42053058 GCCTATCACACG
1 GCCTATCACACG
42053070 G
1 G
42053071 GCTTATGGCT
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:0.24, C:0.40, G:0.20, T:0.16
Consensus pattern (12 bp):
GCCTATCACACG
Found at i:42055747 original size:17 final size:18
Alignment explanation
Indices: 42055714--42055758 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
42055704 CCAGCTCGTT
*
42055714 TCCAGCTCCACGAGCTCCG
1 TCCAGCT-CACGAGCTCCA
42055733 TCCAGCTCA-GAGCTCCA
1 TCCAGCTCACGAGCTCCA
42055750 TCCAGCTCA
1 TCCAGCTCA
42055759 AATCCAGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.64
18 2 0.08
19 7 0.28
ACGTcount: A:0.20, C:0.44, G:0.18, T:0.18
Consensus pattern (18 bp):
TCCAGCTCACGAGCTCCA
Found at i:42058566 original size:27 final size:27
Alignment explanation
Indices: 42058536--42058750 Score: 123
Period size: 27 Copynumber: 7.9 Consensus size: 27
42058526 TGGTAAATCT
*
42058536 ACAAACCAAAGGTATTTCGATAATTTC
1 ACAAACCAAGGGTATTTCGATAATTTC
* * *
42058563 ACAAACTAATGGTATTTCTG-TAATTTTT
1 ACAAACCAAGGGTATTTC-GATAA-TTTC
* *
42058591 A-AAAGTCAAGGGTATTTCTATAATTTTC
1 ACAAA-CCAAGGGTATTTCGATAA-TTTC
* *
42058619 -CAAATCAAGGGTATTTCGATAATTTT
1 ACAAACCAAGGGTATTTCGATAATTTC
* * * *
42058645 ACAAACCAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGATAATTTC
* * * * * * *
42058672 GCTAATCGAGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGATAATTTC
** * *
42058699 GTAAACCAAGGGTATTT-TAGTAATTTT
1 ACAAACCAAGGGTATTTCGA-TAATTTC
** *
42058726 GTAAACCAAGGGTATTTCAATAATT
1 ACAAACCAAGGGTATTTCGATAATT
42058751 ATACCCTATA
Statistics
Matches: 154, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.02
27 125 0.81
28 26 0.17
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (27 bp):
ACAAACCAAGGGTATTTCGATAATTTC
Found at i:42058669 original size:54 final size:54
Alignment explanation
Indices: 42058597--42058750 Score: 184
Period size: 54 Copynumber: 2.9 Consensus size: 54
42058587 TTTTAAAAGT
*
42058597 CAAGGGTATTTCTA-TAATTTTCCAAATCAAGGGTATTTCGATAATTTTACAAAC
1 CAAGGGTATTT-TAGTAATTTTGCAAATCAAGGGTATTTCGATAATTTTACAAAC
* * * * * * **
42058651 CAGGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTTCGATAATTTTACAAAC
* * *
42058705 CAAGGGTATTTTAGTAATTTTGTAAACCAAGGGTATTTCAATAATT
1 CAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTTCGATAATT
42058751 ATACCCTATA
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 1 0.01
54 80 0.99
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTTCGATAATTTTACAAAC
Found at i:42066381 original size:30 final size:30
Alignment explanation
Indices: 42066347--42066407 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42066337 TCCTTAACTC
42066347 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42066377 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42066407 A
1 A
42066408 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42076729 original size:46 final size:46
Alignment explanation
Indices: 42076679--42076854 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
42076669 TGGTTGAGCA
42076679 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42076725 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
42076770 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42076818 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42076855 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42076835 original size:93 final size:93
Alignment explanation
Indices: 42076676--42076847 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42076666 GGATGGTTGA
* *
42076676 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42076741 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
42076769 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42076834 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
42076848 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42086824 original size:42 final size:42
Alignment explanation
Indices: 42086775--42086888 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
42086765 ACTAAGATTA
*
42086775 CGTGTAAGACCATATCTATGATTTGGCATCGATAAGA-AACC
1 CGTGTAAGACCATATCTAGGATTTGGCATCGATAAGAGAACC
* * * * * *
42086816 TCGTGTAAGACCATAGCTGGGCTATTGCCATCGATATGAGATCC
1 -CGTGTAAGACCATATCTAGGAT-TTGGCATCGATAAGAGAACC
* *
42086860 CATGTAAGACCATATCTAGGATATGGCAT
1 CGTGTAAGACCATATCTAGGATTTGGCAT
42086889 TGGTATGGTA
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 23 0.40
43 31 0.54
44 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CGTGTAAGACCATATCTAGGATTTGGCATCGATAAGAGAACC
Found at i:42087415 original size:30 final size:30
Alignment explanation
Indices: 42087381--42087443 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
42087371 TTGCCAAATG
42087381 TGTTAGCTTATGATGGTTGATAATTTATTT
1 TGTTAGCTTATGATGGTTGATAATTTATTT
*
42087411 TGTTAGCTTCTGATGGTTGATAATTTATTT
1 TGTTAGCTTATGATGGTTGATAATTTATTT
42087441 TGT
1 TGT
42087444 AAATGGCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.54
Consensus pattern (30 bp):
TGTTAGCTTATGATGGTTGATAATTTATTT
Found at i:42090972 original size:6 final size:6
Alignment explanation
Indices: 42090961--42090990 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
42090951 TGTGAAGAGA
*
42090961 TTTATT TTTATT TTTATT TTTAGT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
42090991 ATTTTAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:42092275 original size:20 final size:20
Alignment explanation
Indices: 42092250--42092389 Score: 113
Period size: 20 Copynumber: 7.0 Consensus size: 20
42092240 AAAATGTGTT
*
42092250 CAGGGGTACTGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* ** * *
42092270 CAGGGGCATGGATGTGCAAA
1 CAGGGGTACCGAAGTACAAA
*
42092290 TAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* *
42092310 CAGGGGCA-CGAATGTGCAAA
1 CAGGGGTACCGAA-GTACAAA
*
42092330 CAAGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * *
42092350 CAGGGGCA-CAAATGTGCAAA
1 CAGGGGTACCGAA-GTACAAA
* *
42092370 TAAGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
42092390 TAAGGGCACA
Statistics
Matches: 90, Mismatches: 26, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
19 7 0.08
20 76 0.84
21 7 0.08
ACGTcount: A:0.39, C:0.17, G:0.31, T:0.13
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:42092296 original size:40 final size:40
Alignment explanation
Indices: 42092253--42092404 Score: 223
Period size: 40 Copynumber: 3.8 Consensus size: 40
42092243 ATGTGTTCAG
* * * *
42092253 GGGTACTGAAGTACAAACAGGGGCATGGATGTGCAAATAG
1 GGGTACCGAAGTACAAACAGGGGCACGAATGTGCAAATAA
*
42092293 GGGTACCGAAGTACAAACAGGGGCACGAATGTGCAAACAA
1 GGGTACCGAAGTACAAACAGGGGCACGAATGTGCAAATAA
*
42092333 GGGTACCGAAGTACAAACAGGGGCACAAATGTGCAAATAA
1 GGGTACCGAAGTACAAACAGGGGCACGAATGTGCAAATAA
* * *
42092373 GGGTACCGAAGTACAAATAAGGGCACAAATGT
1 GGGTACCGAAGTACAAACAGGGGCACGAATGT
42092405 ATAAACATTC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.39, C:0.16, G:0.30, T:0.14
Consensus pattern (40 bp):
GGGTACCGAAGTACAAACAGGGGCACGAATGTGCAAATAA
Found at i:42096886 original size:10 final size:10
Alignment explanation
Indices: 42096871--42096903 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
42096861 ATTAAGCCTT
42096871 TTGACACATC
1 TTGACACATC
42096881 TTGACACATC
1 TTGACACATC
*
42096891 TTGGCACATC
1 TTGACACATC
42096901 TTG
1 TTG
42096904 GCTGGCCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (10 bp):
TTGACACATC
Found at i:42107366 original size:17 final size:17
Alignment explanation
Indices: 42107338--42107371 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
42107328 ATTTGTGAAT
42107338 ATATTGTTACTTCGCTTA
1 ATATTGTTACTT-GCTTA
42107356 ATATT-TTACTTGCTTA
1 ATATTGTTACTTGCTTA
42107372 TTAAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (17 bp):
ATATTGTTACTTGCTTA
Found at i:42108830 original size:27 final size:27
Alignment explanation
Indices: 42108662--42109047 Score: 190
Period size: 27 Copynumber: 14.3 Consensus size: 27
42108652 CCAATTATTG
* **
42108662 AAATACCCTCGACTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
* * * * *
42108689 AAGTTCCCCCGATTTACAAAATTATCG
1 AAATACCCTCGATTTACAAAATTACCA
*** *
42108716 TTTTACCCTCGATTTACAAAATTACCG
1 AAATACCCTCGATTTACAAAATTACCA
*** * * *
42108743 TTTTACCCTCGATTTATAGAATTACTA
1 AAATACCCTCGATTTACAAAATTACCA
*** * * **
42108770 TTTTACCCTTGATTTACAGAATTACTG
1 AAATACCCTCGATTTACAAAATTACCA
*** *
42108797 TTTTACCCTCGATTTACAAAATTACTA
1 AAATACCCTCGATTTACAAAATTACCA
* *
42108824 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
* *
42108851 AAATACCCTCGA-TCAGTAAAATTACCA
1 AAATACCCTCGATTTA-CAAAATTACCA
* * ** * *
42108878 AAATACCCT-GGTCTGTAAAATTGCTA
1 AAATACCCTCGATTTACAAAATTACCA
* * **
42108904 AAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
* **
42108931 AAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCGA-TTTACAAAATTACCA
* *** *
42108958 AAATACCACT-GGTTTGTGAAATTACCG
1 AAATACC-CTCGATTTACAAAATTACCA
* **
42108985 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*
42109012 AAATACCC-CTGATTTACAAAGTTA-CA
1 AAATACCCTC-GATTTACAAAATTACCA
42109038 GAAATACCCT
1 -AAATACCCT
42109048 TGACTTTCTA
Statistics
Matches: 291, Mismatches: 58, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
26 26 0.09
27 264 0.91
28 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTACAAAATTACCA
Found at i:42108858 original size:54 final size:54
Alignment explanation
Indices: 42108679--42109109 Score: 187
Period size: 54 Copynumber: 8.0 Consensus size: 54
42108669 CTCGACTTGT
* * * ** * *
42108679 AAAATTACCAAAGTTCCCCCGATTTACAAAATTATCGT--TTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAAAATTA-C-TAAAATACCCTTGGTTTAC
**** * * *** *
42108733 AAAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
* *****
42108787 AGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
* * * * **
42108841 AAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAATACCC-TGGTCTGT
1 AAAATTACCAAAATACCCTCGATTTA-CAAAATTACTAAAATACCCTTGGTTTAC
* * * * ** * * * **
42108894 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
* *** ** *** **
42108948 AAAATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
* *
42109002 AAAATTACCAAAATACCC-CTGATTTACAAAGTTAC-AGAAATACCCTTGACTTT-C
1 AAAATTACCAAAATACCCTC-GATTTACAAAATTACTA-AAATACCCTTG-GTTTAC
* * * * *
42109056 TAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTT
1 --AAAATTACCA-AAATACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT
42109110 GTAGATTTAC
Statistics
Matches: 301, Mismatches: 61, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
52 1 0.00
53 46 0.15
54 207 0.69
55 9 0.03
56 38 0.13
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAC
Found at i:42108918 original size:80 final size:81
Alignment explanation
Indices: 42108814--42109020 Score: 274
Period size: 80 Copynumber: 2.6 Consensus size: 81
42108804 CTCGATTTAC
**
42108814 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
42108878 AAATACC-CTGGTCTGT
65 AAATACCACTGGTCTGT
* * **
42108894 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
42108959 AATACCACTGGTTTGT
66 AATACCACTGGTCTGT
* ** ***
42108975 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCC
42109021 TGATTTACAA
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 2 0.02
80 62 0.56
81 47 0.42
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:42109097 original size:27 final size:27
Alignment explanation
Indices: 42108800--42109132 Score: 235
Period size: 27 Copynumber: 12.3 Consensus size: 27
42108790 ATTACTGTTT
* * * *
42108800 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
42108827 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
42108854 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-TAAAATTACCAAAA
* * * *
42108881 TACCC-TGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
42108907 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
42108934 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
42108961 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTATAAAATTACCAAAA
*** *
42108988 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
42109015 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGGTTTATAAAATTACCA-AAA
* * *
42109042 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAT-AAAATTACCA-AAA
* * **
42109071 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
42109098 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
42109125 CACCCTTG
1 TACCCTTG
42109133 TAGGATGAAA
Statistics
Matches: 246, Mismatches: 52, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
26 24 0.10
27 196 0.80
28 8 0.03
29 18 0.07
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:42109184 original size:27 final size:27
Alignment explanation
Indices: 42109163--42109281 Score: 195
Period size: 27 Copynumber: 4.4 Consensus size: 27
42109153 ACCCCTATTA
42109163 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
42109190 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
42109217 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
* *
42109244 GGTAAAGTGACCGTACTA-CCCCTGTAT
1 GGTAAAGTGACCGTA-AAGCCCCTGTAG
*
42109271 GGTAAAATGAC
1 GGTAAAGTGAC
42109282 GAATATGCCC
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 87 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (27 bp):
GGTAAAGTGACCGTAAAGCCCCTGTAG
Found at i:42110468 original size:25 final size:25
Alignment explanation
Indices: 42110439--42110486 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
42110429 TTATAACATG
* *
42110439 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
42110464 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
42110487 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:42110537 original size:9 final size:9
Alignment explanation
Indices: 42110525--42110581 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
42110515 TTTGATAAAC
42110525 ATGATATGT
1 ATGATATGT
*
42110534 ATGATATGCAC
1 ATGATATG--T
*
42110545 ATGACATGT
1 ATGATATGT
*
42110554 ATGATATGCAC
1 ATGATATG--T
42110565 ATGATATGT
1 ATGATATGT
42110574 ATGATATG
1 ATGATATG
42110582 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:42110548 original size:20 final size:20
Alignment explanation
Indices: 42110523--42110593 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
42110513 ATTTTGATAA
42110523 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42110543 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
42110563 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42110583 ACATGAGATGT
1 ACATGATATGT
42110594 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42110570 original size:11 final size:11
Alignment explanation
Indices: 42110534--42110588 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
42110524 CATGATATGT
42110534 ATGATATGCAC
1 ATGATATGCAC
* *
42110545 ATGACATG--T
1 ATGATATGCAC
42110554 ATGATATGCAC
1 ATGATATGCAC
*
42110565 ATGATATG--T
1 ATGATATGCAC
42110574 ATGATATGCAC
1 ATGATATGCAC
42110585 ATGA
1 ATGA
42110589 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42118559 original size:46 final size:46
Alignment explanation
Indices: 42118463--42118580 Score: 164
Period size: 46 Copynumber: 2.5 Consensus size: 46
42118453 TGAGCTAGTC
* * *
42118463 TAAGACCATGTCTGGGACATGGCATCAACATTGAGACTTGAGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCAACATCGAGACTTAAGCCAGTG
* * *
42118511 TAAGACATGTCTGGGACATGCATCAGCCTCGAGATTTAAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAACATCGAGACTTAAGCCAGTG
42118557 TAAGACATGTCTGGGACATGCATC
1 TAAGACATGTCTGGGACATGCATC
42118581 GGCATCTTAC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 45 0.70
47 14 0.22
48 5 0.08
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCAACATCGAGACTTAAGCCAGTG
Found at i:42121600 original size:29 final size:28
Alignment explanation
Indices: 42121564--42121641 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
42121554 TCATGAGATT
42121564 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
42121594 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
42121621 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
42121642 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:42121859 original size:174 final size:174
Alignment explanation
Indices: 42121594--42121921 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
42121584 AAATTGTACA
42121594 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
42121659 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCAAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
42121724 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
42121768 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
42121833 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
42121898 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
42121922 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:42129050 original size:40 final size:40
Alignment explanation
Indices: 42128995--42129131 Score: 224
Period size: 40 Copynumber: 3.5 Consensus size: 40
42128985 CGGATGATAA
42128995 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
42129035 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
42129075 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
42129115 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
42129132 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 13 0.14
40 77 0.85
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:42152580 original size:40 final size:40
Alignment explanation
Indices: 42152510--42152806 Score: 485
Period size: 40 Copynumber: 7.5 Consensus size: 40
42152500 AAACCAAGTA
* * *
42152510 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
42152549 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42152589 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42152629 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42152669 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42152708 CCTTCGGGACTTAGTCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42152748 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42152788 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42152807 TTACCATCCG
Statistics
Matches: 246, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
39 51 0.21
40 195 0.79
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42152746 original size:119 final size:119
Alignment explanation
Indices: 42152510--42152806 Score: 483
Period size: 119 Copynumber: 2.5 Consensus size: 119
42152500 AAACCAAGTA
* * *
42152510 CCTTTGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
42152574 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42152629 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
42152694 TAACTCGCA-AAATGCCTTCGGGACTTAGTCCGGATATAGTAACTTGCACAAATG
65 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42152748 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
42152807 TTACCATCCG
Statistics
Matches: 168, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
118 1 0.01
119 111 0.66
120 56 0.33
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42165314 original size:40 final size:40
Alignment explanation
Indices: 42165244--42165501 Score: 432
Period size: 40 Copynumber: 6.5 Consensus size: 40
42165234 AAACCAAGTA
* *
42165244 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
42165283 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42165323 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42165363 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42165403 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42165443 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42165483 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42165502 TTACCATCCG
Statistics
Matches: 211, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
39 15 0.07
40 196 0.93
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42172699 original size:37 final size:37
Alignment explanation
Indices: 42172636--42172781 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
42172626 AGCTCAGATG
* * *
42172636 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
42172673 AAATCTCCACACGTAGTCCTCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
42172710 TAATCTCCACACGTAGTCCTCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
42172747 TAATCTCCACACGTAGTCATCGGGACTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
42172782 ATATATTTCC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:42172994 original size:48 final size:48
Alignment explanation
Indices: 42172931--42173156 Score: 335
Period size: 48 Copynumber: 4.7 Consensus size: 48
42172921 CATCGCCTAC
* * * *
42172931 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
* * * * *
42172979 AGACTTCACATTAGCCATTCGGCTTTACCACATAAACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATA--TCACACAT
42173029 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
42173077 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
* *
42173125 ATATTTCACATTAGCCATTCGGCCTTATCACA
1 ATATTTCACATTAGCCATTCGGCTTTACCACA
42173157 CATANNNNNN
Statistics
Matches: 162, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
48 120 0.74
50 42 0.26
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.33
Consensus pattern (48 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
Found at i:42173160 original size:98 final size:97
Alignment explanation
Indices: 42172931--42173156 Score: 337
Period size: 98 Copynumber: 2.3 Consensus size: 97
42172921 CATCGCCTAC
* * *
42172931 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACAGACTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACAGACTTCACATTAGCCA
* *
42172996 TTCGGCTTTACCACATAAACATATCTCATATAT
66 TTCGGCTTTACCACATAAACATA-CTCACACAT
* * *
42173029 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACAGACTTCACATTAGCCA
*
42173094 TTCGGCTTTACCACATATACATA-TCACACAT
66 TTCGGCTTTACCACATAAACATACTCACACAT
* *
42173125 ATATTTCACATTAGCCATTCGGCCTTATCACA
1 ATATTTCACATTAGCCATTCGGCTTTACCACA
42173157 CATANNNNNN
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 36 0.31
98 81 0.69
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.33
Consensus pattern (97 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACAGACTTCACATTAGCCA
TTCGGCTTTACCACATAAACATACTCACACAT
Found at i:42175319 original size:178 final size:178
Alignment explanation
Indices: 42175014--42175348 Score: 591
Period size: 178 Copynumber: 1.9 Consensus size: 178
42175004 AAGTCTTTTG
42175014 CTTTTTTTTTCTTCTAGGTACGGCAAAAGGGGGGGAGCAAGGATGAAACAACTTTGGTTTCTCCT
1 CTTTTTTTTTCTTCTAGGTACGGCAAAAGGGGGGGAGCAAGGATGAAACAACTTTGGTTTCTCCT
*
42175079 CCCACTTCCCTCATATTTTATTGTTCTTACCACACATATTAGCATAAAATGTCTTATAATATGTT
66 CCCACTTCCCTCATATTTTATTGTTCTTACCACACATATTAGCACAAAATGTCTTATAATATGTT
42175144 TTACCCATCACATTTTGTCTATCCTCATTGCCATGAAGAGGATGAAGC
131 TTACCCATCACATTTTGTCTATCCTCATTGCCATGAAGAGGATGAAGC
42175192 CTTTTTTTTTCTTCTAGGTACGGCAAAAGGGGGGGAGCAAGGATGAAACAACTTTGGTTTCTCCT
1 CTTTTTTTTTCTTCTAGGTACGGCAAAAGGGGGGGAGCAAGGATGAAACAACTTTGGTTTCTCCT
* * * * *
42175257 CCCACTTCCCTCATATTTTATTGTTCTTCCCACAACATGTTATCACAAATTGT-TTCTAATATGT
66 CCCACTTCCCTCATATTTTATTGTTCTTACCAC-ACATATTAGCACAAAATGTCTTATAATATGT
*
42175321 TTTACCCATCCCATTTTGTCTATCCTCA
130 TTTACCCATCACATTTTGTCTATCCTCA
42175349 ATGTCATGGC
Statistics
Matches: 149, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
178 134 0.90
179 15 0.10
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (178 bp):
CTTTTTTTTTCTTCTAGGTACGGCAAAAGGGGGGGAGCAAGGATGAAACAACTTTGGTTTCTCCT
CCCACTTCCCTCATATTTTATTGTTCTTACCACACATATTAGCACAAAATGTCTTATAATATGTT
TTACCCATCACATTTTGTCTATCCTCATTGCCATGAAGAGGATGAAGC
Found at i:42178523 original size:128 final size:128
Alignment explanation
Indices: 42178289--42178824 Score: 865
Period size: 128 Copynumber: 4.2 Consensus size: 128
42178279 TAAGAAATCT
* * *
42178289 GAGCTCATTGAGTGGTTCGACTTCGTGATATATGTGAGAATCCGAACTTGTTGAGTGGTCCAAGT
1 GAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCCAAGT
* * *
42178354 TTGTGATATATGTAGCATCCAAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCT
66 TCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCC
* *
42178417 AAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCGAACTTGTTGAGTGGTCCAAGT
1 GAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCCAAGT
* * * *
42178482 TCGTGATATATGTAGCATCTGAGCTCATTGAATGGTTCGAGTTCATTATGGATGCAAGCATCC
66 TCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCC
** *
42178545 GAGCTCATTGAGTGGTATGAGTTCATGATATATGTGAGAATCCAAACTTGTTGAGTGGTCCAAGT
1 GAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCCAAGT
* *
42178610 TCGTGATATATGTAGCACCCGAGCTCATTGAGTGGTCTGAGTTCATTATGGATGCGAGCATCC
66 TCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCC
*
42178673 GAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCTAAACTTGTTGAGTGGTCCAAGT
1 GAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCCAAGT
* * *
42178738 TCATGATATATGTAGCATCTGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCC
66 TCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCC
**
42178801 GAGCTTGTTGAGTGGTCCGAGTTC
1 GAGCTCATTGAGTGGTCCGAGTTC
42178825 ATAATGGATG
Statistics
Matches: 376, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 376 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (128 bp):
GAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAAACTTGTTGAGTGGTCCAAGT
TCGTGATATATGTAGCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCC
Found at i:42178837 original size:43 final size:43
Alignment explanation
Indices: 42178289--42178826 Score: 445
Period size: 43 Copynumber: 12.6 Consensus size: 43
42178279 TAAGAAATCT
* * * * *
42178289 GAGCTCATTGAGTGGTTCGACTTCGTGATATATGTGAGAATCC
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* ** * ** *
42178332 GAACTTGTTGAGTGGTCCAAGTTTGTGATATATG-TAGCATCC
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* * ** *
42178374 AAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCT
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* * * *
42178417 AAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCC
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* ** * * * *
42178460 GAACTTGTTGAGTGGTCCAAGTTCGTGATATATG-TAGCATCT
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* * * ** *
42178502 GAGCTCATTGAATGGTTCGAGTTCATTATGGATGCAAGCATCC
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
** * *
42178545 GAGCTCATTGAGTGGTATGAGTTCATGATATATGTGAGAATCC
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* * ** * * * *
42178588 AAACTTGTTGAGTGGTCCAAGTTCGTGATATATG-TAGCACCC
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* * **
42178630 GAGCTCATTGAGTGGTCTGAGTTCATTATGGATGCGAGCATCC
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* * * *
42178673 GAGCTCATTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCT
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* * ** * * *
42178716 AAACTTGTTGAGTGGTCCAAGTTCATGATATATG-TAGCATCT
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
* * **
42178758 GAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCC
1 GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
**
42178801 GAGCTTGTTGAGTGGTCCGAGTTCAT
1 GAGCTCATTGAGTGGTCCGAGTTCAT
42178827 AATGGATGCG
Statistics
Matches: 385, Mismatches: 106, Indels: 8
0.77 0.21 0.02
Matches are distributed among these distances:
42 121 0.31
43 264 0.69
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
GAGCTCATTGAGTGGTCCGAGTTCATGATATATGCGAGCATCC
Found at i:42178875 original size:51 final size:51
Alignment explanation
Indices: 42178799--42178895 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
42178789 ATGCGAGCAT
* *
42178799 CCGAGCTTGTTGAGTGGTCCGAGTTCATAATGGATGCGATACATGTAACAC
1 CCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAACAC
* * *
42178850 CCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGTGTTACATGT
1 CCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGT
42178896 TATATGGTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (51 bp):
CCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAACAC
Found at i:42181106 original size:15 final size:15
Alignment explanation
Indices: 42181086--42181116 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42181076 GGGGATGCCA
42181086 CCAGTCTATCTTGGT
1 CCAGTCTATCTTGGT
42181101 CCAGTCTATCTTGGT
1 CCAGTCTATCTTGGT
42181116 C
1 C
42181117 TTCTAAGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (15 bp):
CCAGTCTATCTTGGT
Found at i:42194208 original size:40 final size:40
Alignment explanation
Indices: 42194119--42194382 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
42194109 TTGAATGATG
* *
42194119 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
42194158 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
42194198 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42194237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42194277 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42194317 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42194358 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42194383 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42194400 original size:120 final size:118
Alignment explanation
Indices: 42194119--42194415 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
42194109 TTGAATGATG
* *
42194119 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
42194179 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
42194237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
42194302 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
42194358 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
42194416 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:42198380 original size:66 final size:66
Alignment explanation
Indices: 42198292--42198459 Score: 302
Period size: 66 Copynumber: 2.6 Consensus size: 66
42198282 AATACACGGA
* * *
42198292 AGAA-ATGCACCGAACTGCCTCATATTACAGAATCACTTGGCTGAATGTAGCCTTGGCTACCTGA
1 AGAATATGCACCAAAGTGCCTCATATTACAGAATCACTTGGCTGAATGTAGCCTTGGCTACCTAA
42198356 C
66 C
42198357 AGAATATGCACCAAAGTGCCTCATATTACAGAATCACTTGGCTGAATGTAGCCTTGGCTACCTAA
1 AGAATATGCACCAAAGTGCCTCATATTACAGAATCACTTGGCTGAATGTAGCCTTGGCTACCTAA
42198422 C
66 C
42198423 AGAATATGCACCAAAGTGCCTCATATTACAGAATCAC
1 AGAATATGCACCAAAGTGCCTCATATTACAGAATCAC
42198460 ATACCGCTCT
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 4 0.04
66 95 0.96
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (66 bp):
AGAATATGCACCAAAGTGCCTCATATTACAGAATCACTTGGCTGAATGTAGCCTTGGCTACCTAA
C
Found at i:42204843 original size:12 final size:12
Alignment explanation
Indices: 42204826--42204850 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42204816 ACCGAGAACC
42204826 CAAGAAAAATTT
1 CAAGAAAAATTT
42204838 CAAGAAAAATTT
1 CAAGAAAAATTT
42204850 C
1 C
42204851 CTATTTCAGT
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:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (12 bp):
CAAGAAAAATTT
Found at i:42209830 original size:47 final size:47
Alignment explanation
Indices: 42209767--42210348 Score: 948
Period size: 47 Copynumber: 12.4 Consensus size: 47
42209757 CCCTTCGGGA
* * *
42209767 CTTATCACATTTATACACTTTCACATCCATCATATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
42209814 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
42209861 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
42209908 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
42209955 CTTATCACATATATACACTTTCACATTCATCATATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
42210002 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
42210049 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
42210096 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
42210143 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
42210190 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
42210237 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
42210284 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
42210331 CTTATCACATATACACAC
1 CTTATCACATATATACAC
42210349 CTTGTACATC
Statistics
Matches: 495, Mismatches: 40, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 495 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:42216868 original size:22 final size:22
Alignment explanation
Indices: 42216840--42216885 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
42216830 AGCAGGCTTA
42216840 TTGCCGGTGTATAAAATCAGAC
1 TTGCCGGTGTATAAAATCAGAC
42216862 TTGCCGGTGTATAAAATCAGAC
1 TTGCCGGTGTATAAAATCAGAC
42216884 TT
1 TT
42216886 TGAGTCTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (22 bp):
TTGCCGGTGTATAAAATCAGAC
Found at i:42224796 original size:41 final size:41
Alignment explanation
Indices: 42224686--42224799 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 41
42224676 GATATTCGGG
* * * *
42224686 CTTTGAGCCTAGCAAGCCTTGTGTTGGTGAATTAAATCAGG
1 CTTTGAGCCTAGCAAGCCTTGTGTCGGTGTATAAAATCAGA
* *
42224727 CTTT-ATGCCTAGCAAG-CTTATTGCCGGTGTATAAAATCAGA
1 CTTTGA-GCCTAGCAAGCCTT-GTGTCGGTGTATAAAATCAGA
* *
42224768 CTTTGAGTCTAGCAGGCCTTGTGTCGGTGTAT
1 CTTTGAGCCTAGCAAGCCTTGTGTCGGTGTAT
42224800 GATACAGGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
40 4 0.07
41 51 0.86
42 4 0.07
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
CTTTGAGCCTAGCAAGCCTTGTGTCGGTGTATAAAATCAGA
Found at i:42230570 original size:43 final size:43
Alignment explanation
Indices: 42230519--42230616 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
42230509 TAACCTAACT
* *
42230519 ATGGTCTTACACGAAATTA-ATTAACGATGCCAATGTCCGAGAC
1 ATGGTCTTACACGAAATCACA-TAACGATGCCAATGTCCCAGAC
* * * * *
42230562 ATTGTCTTACATGTAATCACATAATGATGCCAATTTCCCAGAC
1 ATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGAC
42230605 ATGGTCTTACAC
1 ATGGTCTTACAC
42230617 ATAACCACAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGAC
Found at i:42230626 original size:43 final size:43
Alignment explanation
Indices: 42230544--42230626 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
42230534 ATTAATTAAC
* * ** *
42230544 GATGCCAATGTCCGAGACATTGTCTTACATGTAATCACATAAT
1 GATGCCAATGTCCCAGACATGGTCTTACACATAACCACATAAT
*
42230587 GATGCCAATTTCCCAGACATGGTCTTACACATAACCACAT
1 GATGCCAATGTCCCAGACATGGTCTTACACATAACCACAT
42230627 CTCATTAATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACATAACCACATAAT
Found at i:42239036 original size:26 final size:27
Alignment explanation
Indices: 42239000--42239056 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
42238990 ACAACTAGGT
42239000 TATGAAGTATTACTAAGGTTTAAAAA-
1 TATGAAGTATTACTAAGGTTTAAAAAG
42239026 TATGAAGTATTACTAAGGTTTAAAAAG
1 TATGAAGTATTACTAAGGTTTAAAAAG
42239053 TATG
1 TATG
42239057 GTCAAACTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.35
Consensus pattern (27 bp):
TATGAAGTATTACTAAGGTTTAAAAAG
Found at i:42241491 original size:23 final size:23
Alignment explanation
Indices: 42241430--42241479 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
42241420 TTTTTATGAG
*
42241430 AATTTTGAAAATA--TTTTTTAT
1 AATTTTAAAAATATTTTTTTTAT
42241451 AATTTTAAAAATATTTTTTTTAT
1 AATTTTAAAAATATTTTTTTTAT
42241474 AATTTT
1 AATTTT
42241480 CTAATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 12 0.46
23 14 0.54
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AATTTTAAAAATATTTTTTTTAT
Found at i:42241514 original size:17 final size:18
Alignment explanation
Indices: 42241494--42241535 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
42241484 TTTTTTTTGG
42241494 ATTTTTTA-TGATTTTTT-
1 ATTTTTTACT-ATTTTTTA
*
42241511 ATTTTTAACTATTTTTTA
1 ATTTTTTACTATTTTTTA
42241529 ATTTTTT
1 ATTTTTT
42241536 TAGTTTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTTTTACTATTTTTTA
Found at i:42241562 original size:26 final size:25
Alignment explanation
Indices: 42241507--42241562 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
42241497 TTTTATGATT
* *
42241507 TTTTATTTTTAACTATTTTTTAATTT
1 TTTTAGTTTTAACTATTTTTT-ATTC
42241533 TTTTAGTTTTAACTAATTTTTT-TTAC
1 TTTTAGTTTTAACT-ATTTTTTATT-C
42241559 TTTT
1 TTTT
42241563 TATTCTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 2 0.08
26 17 0.65
27 7 0.27
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTAGTTTTAACTATTTTTTATTC
Found at i:42241564 original size:27 final size:25
Alignment explanation
Indices: 42241494--42241554 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 25
42241484 TTTTTTTTGG
*
42241494 ATTTTTTATGATTTTTTATTTTTAACT
1 ATTTTTTAT--TTTTTTAGTTTTAACT
42241521 ATTTTTTAATTTTTTTAGTTTTAACT
1 ATTTTTT-ATTTTTTTAGTTTTAACT
42241547 AATTTTTT
1 -ATTTTTT
42241555 TTACTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 15 0.48
27 14 0.45
28 2 0.06
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (25 bp):
ATTTTTTATTTTTTTAGTTTTAACT
Found at i:42243896 original size:40 final size:40
Alignment explanation
Indices: 42243833--42243962 Score: 131
Period size: 37 Copynumber: 3.3 Consensus size: 40
42243823 TTTGGCACAT
* *
42243833 AGTGCCTCATCGGATAATTCGAAGTAATAAATTGACACCC
1 AGTGCCTCATCGGTTAATCCGAAGTAATAAATTGACACCC
* * **
42243873 AGTGTCTCATCGGTTAAACCGAAG---TAAATTGGTACCC
1 AGTGCCTCATCGGTTAATCCGAAGTAATAAATTGACACCC
* * * *
42243910 AGTACCTCATCGAATTAATCCGAAGTAATAGATTGACACCT
1 AGTGCCTCATCG-GTTAATCCGAAGTAATAAATTGACACCC
*
42243951 AGTGTCTCATCG
1 AGTGCCTCATCG
42243963 ACTCGAGGTC
Statistics
Matches: 70, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
37 21 0.30
38 10 0.14
40 20 0.29
41 19 0.27
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (40 bp):
AGTGCCTCATCGGTTAATCCGAAGTAATAAATTGACACCC
Found at i:42247362 original size:53 final size:53
Alignment explanation
Indices: 42247279--42247384 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
42247269 TCAAGGAATA
*
42247279 TGAATCCTCGTTCCCAAGCTTCAGCGGGGCAATCATATGGGAATTATAGGAAG
1 TGAATCCTCGTTCCCAAGCTTCAGCGGGGCAATCATATGGGAATTATAAGAAG
* *
42247332 TGAATCCTCGTTCCCAAGCTTTAGCTGGGCAATCATATGGGAATTATAAGAAG
1 TGAATCCTCGTTCCCAAGCTTCAGCGGGGCAATCATATGGGAATTATAAGAAG
42247385 CAAAATGTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (53 bp):
TGAATCCTCGTTCCCAAGCTTCAGCGGGGCAATCATATGGGAATTATAAGAAG
Found at i:42251996 original size:46 final size:46
Alignment explanation
Indices: 42251946--42252121 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
42251936 TGGTTGAGCA
42251946 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42251992 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
42252037 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
42252085 CCCGAGCTCGTTGAGTTGATTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42252122 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42252102 original size:93 final size:93
Alignment explanation
Indices: 42251943--42252114 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
42251933 GGATGGTTGA
* * *
42251943 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
42252008 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
42252036 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
*
42252101 TGATTCCGAGTTCG
66 TGAGTCCGAGTTCG
42252115 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42254037 original size:20 final size:20
Alignment explanation
Indices: 42254001--42254038 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42253991 TTTCATTTCA
*
42254001 TTTATTTATTTGTTTATTCT
1 TTTATTTATTTGATTATTCT
42254021 TTTATTTACTTT-ATTATT
1 TTTATTTA-TTTGATTATT
42254039 ATTATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTATTTATTTGATTATTCT
Found at i:42254110 original size:20 final size:19
Alignment explanation
Indices: 42254085--42254131 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
42254075 ATACTTATTT
*
42254085 ATTATTTTATACATATGTAC
1 ATTA-TTTATACACATGTAC
42254105 ATTATTTATACACATGTA-
1 ATTATTTATACACATGTAC
*
42254123 ATCATTTAT
1 ATTATTTAT
42254132 TGCCAGACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 13 0.52
20 4 0.16
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (19 bp):
ATTATTTATACACATGTAC
Found at i:42255862 original size:25 final size:25
Alignment explanation
Indices: 42255818--42255874 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
42255808 TACGCGGGAA
42255818 AAATGCTCACACAAGCTGTGA-TTGT
1 AAATGCTCACACAAGCTGTGACTT-T
** *
42255843 AAATGCTCACAGGAGTTGTGACTTT
1 AAATGCTCACACAAGCTGTGACTTT
42255868 AAATGCT
1 AAATGCT
42255875 TAGAAAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (25 bp):
AAATGCTCACACAAGCTGTGACTTT
Found at i:42260778 original size:37 final size:37
Alignment explanation
Indices: 42260728--42260806 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
42260718 TTATTACGAA
* ** *
42260728 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
42260765 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
42260802 GTCTT
1 GTCTT
42260807 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:42261051 original size:47 final size:47
Alignment explanation
Indices: 42260925--42261487 Score: 804
Period size: 47 Copynumber: 12.1 Consensus size: 47
42260915 CCCTTCGGGA
* * * * * *
42260925 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCAGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
42260973 CTGTCA-CATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CT-T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42261021 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42261068 CTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42261117 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42261164 CTTATCACATAAATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42261211 CTTATCACATAAATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
42261258 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42261305 CTTAT--C------AC-CTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42261343 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42261390 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42261437 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42261484 CTTA
1 CTTA
42261488 CTATCATTTC
Statistics
Matches: 480, Mismatches: 21, Indels: 29
0.91 0.04 0.05
Matches are distributed among these distances:
38 33 0.07
39 2 0.00
40 1 0.00
45 1 0.00
46 3 0.01
47 354 0.74
48 8 0.02
49 77 0.16
50 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42261393 original size:179 final size:182
Alignment explanation
Indices: 42260984--42261487 Score: 771
Period size: 179 Copynumber: 2.7 Consensus size: 182
42260974 TGTCACATAT
*
42260984 ATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
*
42261049 ATCACATCGGCCATTAGGCCTTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTA
66 ATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
* *
42261114 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACAT
129 GGCCTTAT-AC----A-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
* * *
42261174 AAATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATAAATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
* * * *
42261239 ATCACATCGGCCATTCGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGG
66 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
*
42261304 CCTTAT-C-AC-CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
131 CCTTATACAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
* *
42261353 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
* *
42261418 ATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG
66 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
42261483 CCTTA
131 CCTTA
42261488 CTATCATTTC
Statistics
Matches: 291, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
179 161 0.55
180 2 0.01
186 1 0.00
188 41 0.14
190 86 0.30
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (182 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
CCTTATACAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAC
Found at i:42264115 original size:27 final size:26
Alignment explanation
Indices: 42264078--42264243 Score: 206
Period size: 27 Copynumber: 6.2 Consensus size: 26
42264068 AGCATGGCTG
** *
42264078 CCAGAACAGATAATGTTACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
42264104 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
42264132 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
42264159 CCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
42264186 CCAGAGCAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
42264213 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
42264240 CCAG
1 CCAG
42264244 GACGCTTCCT
Statistics
Matches: 127, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.06
27 102 0.80
28 18 0.14
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:42264137 original size:54 final size:54
Alignment explanation
Indices: 42264078--42264243 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
42264068 AGCATGGCTG
** *
42264078 CCAGAACAGATA-ATGTTACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
42264132 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * * *
42264186 CCAGAGCAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
42264240 CCAG
1 CCAG
42264244 GACGCTTCCT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 87 0.84
55 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:42264213 original size:81 final size:81
Alignment explanation
Indices: 42264078--42264243 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
42264068 AGCATGGCTG
* *
42264078 CCAGAACAGATAATGTTACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
42264143 ATATGTGGCAGAGCCA
66 ATATGTGGCAGAGCCA
* * * *
42264159 CCAGATCAGATAATCGTGGCAGAGCCACCAGA-GCAGATATAT-GTGGCAGAGCCACCAGATCAG
1 CCAGAACAGATAAT-GTGACAGAGCCACCAGATACAGATA-ATCGTGGCAGAGCCACCAGAACAG
* *
42264222 ATATTTGTGGCATAGCCA
64 ATATATGTGGCAGAGCCA
42264240 CCAG
1 CCAG
42264244 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 59 0.79
82 16 0.21
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (81 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
ATATGTGGCAGAGCCA
Found at i:42272147 original size:27 final size:27
Alignment explanation
Indices: 42272110--42272275 Score: 142
Period size: 27 Copynumber: 6.1 Consensus size: 27
42272100 AGCATGGCTG
* *
42272110 CCAGAATAGATAAT-GTGACAGAGTCA
1 CCAGAACAGATAATCGTGACAGAGCCA
*
42272136 CCAGATATAGATAATCGT-AGCAGAGCCA
1 CCAGA-ACAGATAATCGTGA-CAGAGCCA
*
42272164 CCAGAACAGATATAT-GTGGCAGAGCCA
1 CCAGAACAGATA-ATCGTGACAGAGCCA
* *
42272191 CCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATCGTGACAGAGCCA
* * *
42272218 CCAGAGCAGATATAT-GTGGCAAAGCCA
1 CCAGAACAGATA-ATCGTGACAGAGCCA
* * * * *
42272245 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATAATCGTGACAGAGCCA
42272272 CCAG
1 CCAG
42272276 GACACTTCCT
Statistics
Matches: 123, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.07
27 97 0.79
28 18 0.15
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATCGTGACAGAGCCA
Found at i:42272175 original size:54 final size:54
Alignment explanation
Indices: 42272110--42272275 Score: 217
Period size: 54 Copynumber: 3.1 Consensus size: 54
42272100 AGCATGGCTG
* * * *
42272110 CCAGAATAGATA-ATGTGACAGAGTCACCAGATATAGATAATCGTAGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTAGCAGAGCCA
*
42272164 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTAGCAGAGCCA
* * * * * *
42272218 CCAGAGCAGATATATGTGGCAAAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTAGCAGAGCCA
42272272 CCAG
1 CCAG
42272276 GACACTTCCT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 83 0.82
55 18 0.18
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTAGCAGAGCCA
Found at i:42272229 original size:81 final size:81
Alignment explanation
Indices: 42272117--42272275 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 81
42272107 CTGCCAGAAT
* * *
42272117 AGATAATGTGACAGAGTCACCAGATATAGATA-ATCGTAGCAGAGCCACCAGAACAGATATATGT
1 AGATAATGTGACAGAGCCACCAGATACAGATATAT-GTAGCAAAGCCACCAGAACAGATATATGT
42272181 GGCAGAGCCACCAGATC
65 GGCAGAGCCACCAGATC
* * * * *
42272198 AGATAATCGTGGCAGAGCCACCAGA-GCAGATATATGTGGCAAAGCCACCAGATCAGATATTTGT
1 AGATAAT-GTGACAGAGCCACCAGATACAGATATATGTAGCAAAGCCACCAGAACAGATATATGT
*
42272262 GGCATAGCCACCAG
65 GGCAGAGCCACCAG
42272276 GACACTTCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 50 0.75
82 17 0.25
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (81 bp):
AGATAATGTGACAGAGCCACCAGATACAGATATATGTAGCAAAGCCACCAGAACAGATATATGTG
GCAGAGCCACCAGATC
Found at i:42278707 original size:17 final size:17
Alignment explanation
Indices: 42278685--42278718 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42278675 AGTGTAACGA
42278685 ATCTCAAAATCAATCTT
1 ATCTCAAAATCAATCTT
*
42278702 ATCTCAAAATTAATCTT
1 ATCTCAAAATCAATCTT
42278719 TTTCTTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (17 bp):
ATCTCAAAATCAATCTT
Found at i:42287575 original size:47 final size:47
Alignment explanation
Indices: 42287463--42287844 Score: 611
Period size: 47 Copynumber: 8.1 Consensus size: 47
42287453 GAAATGATAG
* *
42287463 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
*
42287512 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
42287559 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
42287606 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
42287653 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
42287700 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
42287747 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * * * * * * * **
42287794 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
42287841 TAAG
1 TAAG
42287845 TCCCGAAGGG
Statistics
Matches: 318, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 282 0.89
49 36 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:42288019 original size:37 final size:37
Alignment explanation
Indices: 42287963--42288041 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
42287953 CCGAGCTCTA
* *
42287963 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
42288000 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
42288037 AAGAC
1 AAGAC
42288042 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:42311390 original size:23 final size:23
Alignment explanation
Indices: 42311360--42311487 Score: 175
Period size: 23 Copynumber: 5.6 Consensus size: 23
42311350 ACAGAATATG
* *
42311360 TATGCCACAAAGGCATTACAAAA
1 TATGCCACAAAGGCATTGCAGAA
*
42311383 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAGAA
42311406 TATGCCACAAAGGCATTGCAGAA
1 TATGCCACAAAGGCATTGCAGAA
* *
42311429 TATACCACAAAAGCATTGCAGAA
1 TATGCCACAAAGGCATTGCAGAA
* *
42311452 TATGCCACAAAGGCGTTACAGAA
1 TATGCCACAAAGGCATTGCAGAA
**
42311475 TATTACACAAAGG
1 TATGCCACAAAGG
42311488 TTTCACATAT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 95 1.00
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (23 bp):
TATGCCACAAAGGCATTGCAGAA
Found at i:42312823 original size:18 final size:19
Alignment explanation
Indices: 42312789--42312825 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
42312779 GGACTAAACC
42312789 AAAAACTTAGGAAATTTTTG
1 AAAAACTTA-GAAATTTTTG
42312809 AAAAACTTA-AAATTTTT
1 AAAAACTTAGAAATTTTT
42312826 TTGCCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (19 bp):
AAAAACTTAGAAATTTTTG
Found at i:42313652 original size:22 final size:22
Alignment explanation
Indices: 42313622--42313664 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
42313612 TTTCATGGCT
42313622 ATATATACAAACCAAACCAAAG
1 ATATATACAAACCAAACCAAAG
* * *
42313644 ATATTTACAAGCCAAATCAAA
1 ATATATACAAACCAAACCAAA
42313665 TGGCTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (22 bp):
ATATATACAAACCAAACCAAAG
Found at i:42314934 original size:21 final size:20
Alignment explanation
Indices: 42314906--42314944 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
42314896 CAAAACTTGT
42314906 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
42314926 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
42314945 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:42319235 original size:16 final size:16
Alignment explanation
Indices: 42319216--42319246 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42319206 CTTCTTCCCT
42319216 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
42319232 TACTTACTTACTTAA
1 TACTCACTTACTTAA
42319247 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:42319252 original size:20 final size:20
Alignment explanation
Indices: 42319214--42319252 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42319204 AACTTCTTCC
* *
42319214 CTTACTCACTTACTTAAATA
1 CTTACTCACTTAATCAAATA
*
42319234 CTTACTTACTTAATCAAAT
1 CTTACTCACTTAATCAAAT
42319253 TTATTAATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (20 bp):
CTTACTCACTTAATCAAATA
Found at i:42319630 original size:108 final size:109
Alignment explanation
Indices: 42319485--42319684 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 109
42319475 ATCCTTTTGA
* *
42319485 AACTTACCATTGCCATTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA-
1 AACTTACCAATGCCATTCTCGACATGGTCTTACATGGTATCCTTGACTTA-GAAACCTCACCAAT
42319547 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
* * *
42319592 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGACTTAGAAACCTTACCAAT
1 AACTTACCAATGCCAT-TCTCGACATGGTCTTACATGGTATCCTTGACTTAGAAACCTCACCAAT
42319657 TGCCATGCCTTGGCATGGTCTTACATGG
65 TGCCATGCCTTGGCATGGTCTTACATGG
42319685 TATCTTTAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
107 15 0.18
108 34 0.40
109 7 0.08
110 28 0.33
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCATTCTCGACATGGTCTTACATGGTATCCTTGACTTAGAAACCTCACCAATT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:42319685 original size:55 final size:53
Alignment explanation
Indices: 42319459--42319688 Score: 240
Period size: 55 Copynumber: 4.4 Consensus size: 53
42319449 CATGAATTTT
* * * *
42319459 CATGGTCTTACGTGGTATCCTT---TT-GAAACTTACCATTGCCAT-TCTCGA
1 CATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGCCATGCCTTGA
* *
42319507 CATGGTCTTACATGGTATCCTTGCCTTATG-AACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTA-GAAACTTACCAATGCCATGCCTTGA
* * * * *
42319560 CATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTGCC-T-TAGAAACTTACCAATGCCATGCCTTGA
* *
42319615 CATGGTCTTACATGGTATCCTTGACTTAGAAACCTTACCAATTGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTAGAAA-CTTACCAA-TGCCATGCCTTGA
42319670 CATGGTCTTACATGGTATC
1 CATGGTCTTACATGGTATC
42319689 TTTAAACCCT
Statistics
Matches: 150, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
48 21 0.14
51 2 0.01
52 16 0.11
53 29 0.19
54 10 0.07
55 70 0.47
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGCCATGCCTTGA
Found at i:42326986 original size:23 final size:23
Alignment explanation
Indices: 42326100--42326964 Score: 1685
Period size: 23 Copynumber: 37.6 Consensus size: 23
42326090 ACAGAATATG
*
42326100 TATGCCACAAAGGCATTACAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326123 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326146 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326169 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326192 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326215 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326238 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326261 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326284 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326307 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326330 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326353 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326376 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326399 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326422 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326445 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326468 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326491 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326514 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326537 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326560 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326583 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326606 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326629 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326652 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326675 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326698 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326721 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326744 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326767 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326790 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326813 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326836 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326859 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
42326882 TATGCCACAAAGGCATTGCAAAA
1 TATGCCACAAAGGCATTGCAAAA
*
42326905 TATGCCACAAAGGCATTGCAGAA
1 TATGCCACAAAGGCATTGCAAAA
* * *
42326928 TATACCACAAAAGCATTGCAGAA
1 TATGCCACAAAGGCATTGCAAAA
42326951 TATGCCACAAAGGC
1 TATGCCACAAAGGC
42326965 GTTACAGAAT
Statistics
Matches: 836, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
23 836 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (23 bp):
TATGCCACAAAGGCATTGCAAAA
Found at i:42328322 original size:18 final size:19
Alignment explanation
Indices: 42328288--42328324 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
42328278 GGACTAAACC
42328288 AAAAACTTAGGAAATTTTTG
1 AAAAACTTA-GAAATTTTTG
42328308 AAAAACTTA-AAATTTTT
1 AAAAACTTAGAAATTTTT
42328325 TTGCCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (19 bp):
AAAAACTTAGAAATTTTTG
Found at i:42329151 original size:22 final size:22
Alignment explanation
Indices: 42329121--42329163 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
42329111 TTTCATGGCT
42329121 ATATATACAAACCAAACCAAAG
1 ATATATACAAACCAAACCAAAG
* * *
42329143 ATATTTACAAGCCAAATCAAA
1 ATATATACAAACCAAACCAAA
42329164 TGGCTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (22 bp):
ATATATACAAACCAAACCAAAG
Found at i:42330433 original size:21 final size:20
Alignment explanation
Indices: 42330405--42330443 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
42330395 CAAAACTTGT
42330405 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
42330425 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
42330444 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:42334734 original size:16 final size:16
Alignment explanation
Indices: 42334715--42334745 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42334705 CTTCTTCCCT
42334715 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
42334731 TACTTACTTACTTAA
1 TACTCACTTACTTAA
42334746 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:42334751 original size:20 final size:20
Alignment explanation
Indices: 42334713--42334751 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42334703 AACTTCTTCC
* *
42334713 CTTACTCACTTACTTAAATA
1 CTTACTCACTTAATCAAATA
*
42334733 CTTACTTACTTAATCAAAT
1 CTTACTCACTTAATCAAAT
42334752 TTATTAATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (20 bp):
CTTACTCACTTAATCAAATA
Found at i:42335129 original size:108 final size:108
Alignment explanation
Indices: 42334984--42336153 Score: 2306
Period size: 108 Copynumber: 10.8 Consensus size: 108
42334974 ATCCTTTTGA
* * *
42334984 AACTTACCATTGCCAT-TCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42335048 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42335091 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42335156 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42335199 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42335264 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42335307 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42335372 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42335415 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42335480 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42335523 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42335588 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42335631 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42335696 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42335739 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42335804 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42335847 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42335912 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42335955 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42336020 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
42336063 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
42336128 CCATGCCTTGGCATGGTCTTACATGG
66 CCATGCCTTGGCATGGTCTTACATGG
42336154 TATCTTTAAA
Statistics
Matches: 1059, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
107 14 0.01
108 1045 0.99
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (108 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:42342513 original size:50 final size:52
Alignment explanation
Indices: 42342453--42342561 Score: 125
Period size: 50 Copynumber: 2.1 Consensus size: 52
42342443 AACAAAGTAA
* **
42342453 TGCAGTATGTAACTTTAATGGTAG-TTAAGTATGCATCA-TAAA-TAATGACT
1 TGCATTATGTAACTCCAATGGTAGTTTAAGTATGCATCATTAAATTAA-GACT
* * * *
42342503 TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATTATTAAATTAAGTCT
1 TGCATTATGTAACTCCAATGGTAGTTTAAGTATGCATCATTAAATTAAGACT
42342555 TGCATTA
1 TGCATTA
42342562 AATAACTCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
50 19 0.39
51 13 0.27
52 14 0.29
53 3 0.06
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (52 bp):
TGCATTATGTAACTCCAATGGTAGTTTAAGTATGCATCATTAAATTAAGACT
Found at i:42343170 original size:30 final size:31
Alignment explanation
Indices: 42343136--42343195 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
42343126 ACTTCAACTG
42343136 ATAAAT-ACATCTATCTTCAAA-TCAATAAAA
1 ATAAATAACATCTAT-TTCAAATTCAATAAAA
* *
42343166 ATAAATAACATGTCTTTCAAATTCAATAAA
1 ATAAATAACATCTATTTCAAATTCAATAAA
42343196 TAAATCACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.32
Consensus pattern (31 bp):
ATAAATAACATCTATTTCAAATTCAATAAAA
Found at i:42343351 original size:20 final size:21
Alignment explanation
Indices: 42343298--42343351 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
42343288 ATACACCAAT
*
42343298 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTAAAC
42343317 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTAAAC
*
42343338 AGAAG-TCTTAAGAG
1 AGAAGCTCGTAAGAG
42343352 TTGATTCACC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 9 0.29
20 10 0.32
21 12 0.39
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.15
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTAAAC
Found at i:42346001 original size:35 final size:34
Alignment explanation
Indices: 42345909--42346007 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 34
42345899 GGAATGTTGG
*
42345909 GGGTCTATACCTAACATTGAGATTTCTACTTGTAT
1 GGGTCTGTA-CTAACATTGAGATTTCTACTTGTAT
* *
42345944 GGGT-TGGA--AGC--TGAGATTTCTACTTGTAT
1 GGGTCTGTACTAACATTGAGATTTCTACTTGTAT
42345973 GGGTCTGTACTTAACATTGAGATTTCTACTTGTAT
1 GGGTCTGTAC-TAACATTGAGATTTCTACTTGTAT
42346008 AGGTACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
29 22 0.42
30 3 0.06
31 2 0.04
33 2 0.04
34 2 0.04
35 22 0.42
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.40
Consensus pattern (34 bp):
GGGTCTGTACTAACATTGAGATTTCTACTTGTAT
Found at i:42347845 original size:5 final size:5
Alignment explanation
Indices: 42347835--42347894 Score: 75
Period size: 5 Copynumber: 12.0 Consensus size: 5
42347825 AGATAAACAA
* * * * *
42347835 CTAAT CTAAT CTATT CTAAT CTAAT ATAAT ATAGT CTAAT CTCAT CTAAT
1 CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT CTAAT
42347885 CTAAT CTAAT
1 CTAAT CTAAT
42347895 GATTGTAGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (5 bp):
CTAAT
Found at i:42349927 original size:7 final size:7
Alignment explanation
Indices: 42349915--42349941 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
42349905 AATCTGAGTA
42349915 TAACATT
1 TAACATT
42349922 TAACATT
1 TAACATT
42349929 TAACATT
1 TAACATT
42349936 TAACAT
1 TAACAT
42349942 GTTTTGTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:42350707 original size:32 final size:32
Alignment explanation
Indices: 42350671--42350798 Score: 202
Period size: 32 Copynumber: 4.0 Consensus size: 32
42350661 TATAACTATA
42350671 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
42350703 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* * * * *
42350735 CAACTTTTTTATATATAAACCTACTGTATAAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
42350767 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
42350799 ATTTTTTATG
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 84 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:42361386 original size:349 final size:349
Alignment explanation
Indices: 42360747--42361445 Score: 1310
Period size: 349 Copynumber: 2.0 Consensus size: 349
42360737 ATTAATTCAT
42360747 ATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCACCAACACCAAACATATACATGG
1 ATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCACCAACACCAAACATATACATGG
42360812 TACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTCT
66 TACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTCT
*
42360877 CCAACTAACTAGAATATAACATAAAATCCTATAGGTACATGCCAACGAGATTAACAAAAGTTTCA
131 CCAACTAACTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAACAAAAGTTTCA
* *
42360942 CCAATTAGATGGATACAGGATTTTCTGTTGGATGCTAATAATAATGAGTTCACACGATTGAACCT
196 CCAATTAGATGAATACAGGATTTTCTGTTGGATGCTAATAATAATGAGTTCACACAATTGAACCT
42361007 AACCTGCACACGGAAGACAAACCGAACGCTGAGTAATCAACTCAATAGCATTTCTATAACTAATG
261 AACCTGCACACGGAAGACAAACCGAACGCTGAGTAATCAACTCAATAGCATTTCTATAACTAATG
42361072 TTATAATATAAAAGAAATTATGTA
326 TTATAATATAAAAGAAATTATGTA
*
42361096 ATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCATCAACACCAAACATATACATGG
1 ATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCACCAACACCAAACATATACATGG
*
42361161 TATGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTCT
66 TACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTCT
*
42361226 CCAACTAAGTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAACAAAAGTTTCA
131 CCAACTAACTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAACAAAAGTTTCA
42361291 CCAATTAGATGAATAC-GAGATTTTCTGTTGGATGCTAATAATAATGAGTTCACACAATTGAACC
196 CCAATTAGATGAATACAG-GATTTTCTGTTGGATGCTAATAATAATGAGTTCACACAATTGAACC
*
42361355 TAACCTGTACACGGAAGACAAACCGAACGCTGAGTAATCAACTCAATAGCATTTCTATAACTAAT
260 TAACCTGCACACGGAAGACAAACCGAACGCTGAGTAATCAACTCAATAGCATTTCTATAACTAAT
*
42361420 GTTATAATATAAAATAAATTATGTA
325 GTTATAATATAAAAGAAATTATGTA
42361445 A
1 A
42361446 GGATTTAAAT
Statistics
Matches: 341, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
348 1 0.00
349 340 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (349 bp):
ATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCACCAACACCAAACATATACATGG
TACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTCT
CCAACTAACTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAACAAAAGTTTCA
CCAATTAGATGAATACAGGATTTTCTGTTGGATGCTAATAATAATGAGTTCACACAATTGAACCT
AACCTGCACACGGAAGACAAACCGAACGCTGAGTAATCAACTCAATAGCATTTCTATAACTAATG
TTATAATATAAAAGAAATTATGTA
Found at i:42362652 original size:808 final size:808
Alignment explanation
Indices: 42361095--42363274 Score: 4144
Period size: 808 Copynumber: 2.7 Consensus size: 808
42361085 GAAATTATGT
42361095 AATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCATCAACACCAAACATATACATG
1 AATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCATCAACACCAAACATATACATG
*
42361160 GTATGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTC
66 GTACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTC
*
42361225 TCCAACTAAGTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAACAAAAGTTTC
131 TCCAACTAAGTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAAAAAAAGTTTC
* *
42361290 ACCAATTAGATGAATACGAGATTTTCTGTTGGATGCTAATAATAATGAGTTCACACAATTGAACC
196 A-CAATTAGATGAATACGAGATTTTCTATTGGATGCTACTAATAATGAGTTCACACAATTGAACC
* * * * * *
42361355 TAACCTGTACACGGAAGACAAACCGAACGCTGAGTAATCAACTCAATAGCATTTCTATAACTAAT
260 TAACTTGCACACGGAAGACAAACCGAACGTTAAGCAATCAACTCAGTAGCATTTCTATAACTAAT
42361420 GTTATAATATAAAATAAATTATGTAAGGATTTAAATAAATTAAAAATCAAGGTTCATAAGTCGTT
325 GTTATAATATAAAATAAATTATGTAAGGATTTAAATAAATTAAAAATCAAGGTTCATAAGTCGTT
42361485 AATATGTTAAATTATTTTATAAGAACATAATCCTTCCATATCGTATTTATAGTCATACCGACTAG
390 AATATGTTAAATTATTTTATAAGAACATAATCCTTCCATATCGTATTTATAGTCATACCGACTAG
42361550 TTGTCACATATTCATCTTCAAATTTCTTAACCTTTAAACTCCAAAATGCAATTTAAAAAATGAGT
455 TTGTCACATATTCATCTTCAAATTTCTTAACCTTTAAACTCCAAAATGCAATTTAAAAAATGAGT
42361615 AATCGCTTACATTCATATAAATCATGCTTACGAAAGCTTCGATTGAGGCAACCCAAATTGAATTG
520 AATCGCTTACATTCATATAAATCATGCTTACGAAAGCTTCGATTGAGGCAACCCAAATTGAATTG
42361680 AAACTAGTGATGTTTAAAATGCTCCAAACGATGGGTCAATTTAGTGGTATGCCCACGGAAGATCC
585 AAACTAGTGATGTTTAAAATGCTCCAAACGATGGGTCAATTTAGTGGTATGCCCACGGAAGATCC
42361745 ACATCTCCACCTTCGATTGTTTATGGAGGTGAGTGACTGTAACACTCCAATTACCAACCGAATCA
650 ACATCTCCACCTTCGATTGTTTATGGAGGTGAGTGACTGTAACACTCCAATTACCAACCGAATCA
42361810 CCAGGTCTGGACAATAGGATATCACATGCGTTGCCGGAGCAATTGAAAACATTCATTACAATATA
715 CCAGGTCTGGACAATAGGATATCACATGCGTTGCCGGAGCAATTGAAAACATTCATTACAATATA
42361875 AATAAAAAAACAACTCACATATTAATTCA
780 AATAAAAAAACAACTCACATATTAATTCA
*
42361904 AATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCATCAACACCAAACTTATACATG
1 AATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCATCAACACCAAACATATACATG
42361969 GTACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTC
66 GTACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTC
*
42362034 TCCAACTAACTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAAAAAAAGTTTC
131 TCCAACTAAGTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAAAAAAAGTTTC
42362099 ACAATTAGATGAATACGAGATTTTCTATTGGATGCTACTAATAATGAGTTCACACAATTGAACCT
196 ACAATTAGATGAATACGAGATTTTCTATTGGATGCTACTAATAATGAGTTCACACAATTGAACCT
42362164 AACTTGCACACGGAAGACAAACCGAACGTTAAGCAATCAACTCAGTAGCATTTCTATAACTAATG
261 AACTTGCACACGGAAGACAAACCGAACGTTAAGCAATCAACTCAGTAGCATTTCTATAACTAATG
42362229 TTATAATATAAAATAAATTATGTAAGGATTTAAATAAATTAAAAATCAAGGTTCATAAGTCGTTA
326 TTATAATATAAAATAAATTATGTAAGGATTTAAATAAATTAAAAATCAAGGTTCATAAGTCGTTA
42362294 ATATGTTAAATTATTTTATAAGAACATAATCCTTCCATATCGTATTTATAGTCATACCGACTAGT
391 ATATGTTAAATTATTTTATAAGAACATAATCCTTCCATATCGTATTTATAGTCATACCGACTAGT
42362359 TGTCACATATTCATCTTCAAATTTCTTAACCTTTAAACTCCAAAATGCAATTTAAAAAATGAGTA
456 TGTCACATATTCATCTTCAAATTTCTTAACCTTTAAACTCCAAAATGCAATTTAAAAAATGAGTA
42362424 ATCGCTTACATTCATATAAATCATGCTTACGAAAGCTTCGATTGAGGCAACCCAAATTGAATTGA
521 ATCGCTTACATTCATATAAATCATGCTTACGAAAGCTTCGATTGAGGCAACCCAAATTGAATTGA
42362489 AACTAGTGATGTTTAAAATGCTCCAAACGATGGGTCAATTTAGTGGTATGCCCACGGAAGATCCA
586 AACTAGTGATGTTTAAAATGCTCCAAACGATGGGTCAATTTAGTGGTATGCCCACGGAAGATCCA
42362554 CATCTCCACCTTCGATTGTTTATGGAGGTGAGTGACTGTAACACTCCAATTACCAACCGAATCAC
651 CATCTCCACCTTCGATTGTTTATGGAGGTGAGTGACTGTAACACTCCAATTACCAACCGAATCAC
42362619 CAGGTCTGGACAATAGGATATCACATGCGTTGCCGGAGCAATTGAAAACATTCATTACAATATAA
716 CAGGTCTGGACAATAGGATATCACATGCGTTGCCGGAGCAATTGAAAACATTCATTACAATATAA
42362684 ATAAAAAAACAACTCACATATTAATTCA
781 ATAAAAAAACAACTCACATATTAATTCA
*
42362712 AATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCACCAACACCAAACATATACATG
1 AATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCATCAACACCAAACATATACATG
42362777 GTACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTC
66 GTACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTC
42362842 TCCAACTAAGTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAAAAAAAGTTTC
131 TCCAACTAAGTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAAAAAAAGTTTC
42362907 ACAATTAGATGAATACGAGATTTTCTATTGGATGCTACTAATAATGAGTTCACACAATTGAACCT
196 ACAATTAGATGAATACGAGATTTTCTATTGGATGCTACTAATAATGAGTTCACACAATTGAACCT
42362972 AACTTGCACACGGAAGACAAACCGAACGTTAAGCAATCAACTCAGTAGCATTTCTATAACTAATG
261 AACTTGCACACGGAAGACAAACCGAACGTTAAGCAATCAACTCAGTAGCATTTCTATAACTAATG
* *
42363037 TTATAATATAAAATAAATTATGTAAGGACTTAAATAAATTAAAAATCAAGGGTTCATAAGTAGTT
326 TTATAATATAAAATAAATTATGTAAGGATTTAAATAAATTAAAAATCAA-GGTTCATAAGTCGTT
42363102 AATATGTTAAATTATTTTATAAGAACATAATCCTTCCATATCGTATTTATAGTCATACCGACTAG
390 AATATGTTAAATTATTTTATAAGAACATAATCCTTCCATATCGTATTTATAGTCATACCGACTAG
* * * *
42363167 TTGTCACATATTCATCTTCAAATTTCTTGACCTGTAAACTCCAAAATGTAATTAAAAAAAATGAG
455 TTGTCACATATTCATCTTCAAATTTCTTAACCTTTAAACTCCAAAATGCAATT-TAAAAAATGAG
* *
42363232 TAATCGCTTACTTTCATATAAATCATGCTTATGAAAGCTTCGA
519 TAATCGCTTACATTCATATAAATCATGCTTACGAAAGCTTCGA
42363275 GAACAAACAA
Statistics
Matches: 1346, Mismatches: 23, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
808 974 0.72
809 321 0.24
810 51 0.04
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (808 bp):
AATCCAAAGCATTATATTTACATTTAAAAACTCGCATAGCATCATCAACACCAAACATATACATG
GTACGAACCATTAACAACTATCATATGTGCCTATTTATAAAACATCTCGAAGTATGAATTAATTC
TCCAACTAAGTAGAATATAACATAAAATCCTATAGGTACATGCCAACCAGATTAAAAAAAGTTTC
ACAATTAGATGAATACGAGATTTTCTATTGGATGCTACTAATAATGAGTTCACACAATTGAACCT
AACTTGCACACGGAAGACAAACCGAACGTTAAGCAATCAACTCAGTAGCATTTCTATAACTAATG
TTATAATATAAAATAAATTATGTAAGGATTTAAATAAATTAAAAATCAAGGTTCATAAGTCGTTA
ATATGTTAAATTATTTTATAAGAACATAATCCTTCCATATCGTATTTATAGTCATACCGACTAGT
TGTCACATATTCATCTTCAAATTTCTTAACCTTTAAACTCCAAAATGCAATTTAAAAAATGAGTA
ATCGCTTACATTCATATAAATCATGCTTACGAAAGCTTCGATTGAGGCAACCCAAATTGAATTGA
AACTAGTGATGTTTAAAATGCTCCAAACGATGGGTCAATTTAGTGGTATGCCCACGGAAGATCCA
CATCTCCACCTTCGATTGTTTATGGAGGTGAGTGACTGTAACACTCCAATTACCAACCGAATCAC
CAGGTCTGGACAATAGGATATCACATGCGTTGCCGGAGCAATTGAAAACATTCATTACAATATAA
ATAAAAAAACAACTCACATATTAATTCA
Found at i:42363917 original size:70 final size:70
Alignment explanation
Indices: 42363843--42364190 Score: 538
Period size: 70 Copynumber: 5.0 Consensus size: 70
42363833 TGATTCATAT
* *
42363843 TATAACAACAACATTTTAATTAGCTAAACACCATGAATTTGTCCTAATTTGGACAACCAATAATT
1 TATAACAACAACATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAACCAATAATT
42363908 TACAG
66 TACAG
* * * *
42363913 TATAACAGCAACATATTAATTAGCTAAGCACCATAAATTTGTCCTAATTTGTACAGCCAATAATT
1 TATAACAACAACATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAACCAATAATT
42363978 TACAG
66 TACAG
*
42363983 TATAACAGA-AGCATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAACCAATAAT
1 TATAACA-ACAACATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAACCAATAAT
*
42364047 TTAAAG
65 TTACAG
* * * *
42364053 TATAACAACCACATATTAACTAGTTAAGCACCATGAATTTATCCTAATTTGGACAACCAATAATT
1 TATAACAACAACATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAACCAATAATT
*
42364118 TATAG
66 TACAG
* *
42364123 TATAATAGCAACATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAACCAAT-ATT
1 TATAACAACAACATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAACCAATAATT
42364187 TACA
66 TACA
42364191 ATAGCGTATT
Statistics
Matches: 251, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
69 7 0.03
70 244 0.97
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (70 bp):
TATAACAACAACATATTAATTAGCTAAGCACCATGAATTTGTCCTAATTTGGACAACCAATAATT
TACAG
Found at i:42365499 original size:69 final size:70
Alignment explanation
Indices: 42365425--42365564 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
42365415 AATTAAACAC
42365425 TCTTCAAAATTACATAACC-AAAAATTTAATTCACTTCTAATATAACTATGTAAATAATTAATAA
1 TCTTCAAAATTACATAACCAAAAAATTTAATTCACTTCTAATATAACTATGTAAATAATTAATAA
42365489 AATAT
66 AATAT
42365494 TCTTCAAAATTACATAACCAAAAAATTTAATTCACTTCTAATATAACTATGTAAATAATTAATAA
1 TCTTCAAAATTACATAACCAAAAAATTTAATTCACTTCTAATATAACTATGTAAATAATTAATAA
42365559 AATAT
66 AATAT
42365564 T
1 T
42365565 TACAAGTTCA
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 19 0.27
70 51 0.73
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.36
Consensus pattern (70 bp):
TCTTCAAAATTACATAACCAAAAAATTTAATTCACTTCTAATATAACTATGTAAATAATTAATAA
AATAT
Found at i:42376501 original size:39 final size:39
Alignment explanation
Indices: 42376458--42376555 Score: 169
Period size: 39 Copynumber: 2.5 Consensus size: 39
42376448 CCGGACATAT
* *
42376458 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
42376497 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
*
42376536 TTCCAGCATATAGCCTGCGG
1 TTCCAGCACATAGCCTGCGG
42376556 GTCTTTAAGC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
Found at i:42380046 original size:40 final size:40
Alignment explanation
Indices: 42379991--42380070 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
42379981 ACAATCCACT
42379991 TTTCTTTCACCGATCTTCCCACCCCCTTAAGCATATCCCA
1 TTTCTTTCACCGATCTTCCCACCCCCTTAAGCATATCCCA
* * *
42380031 TTTCTTTCACCGATCTTCCCACTCTCTTAAGCATTTCCCA
1 TTTCTTTCACCGATCTTCCCACCCCCTTAAGCATATCCCA
42380071 CGAGCTGTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.19, C:0.40, G:0.05, T:0.36
Consensus pattern (40 bp):
TTTCTTTCACCGATCTTCCCACCCCCTTAAGCATATCCCA
Found at i:42384748 original size:16 final size:16
Alignment explanation
Indices: 42384727--42384780 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
42384717 GTAGACCGGT
*
42384727 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
42384743 AAAAGCCAAAATACCG
1 AAAAGCCGAAATGCCG
42384759 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
42384775 AAAAGC
1 AAAAGC
42384781 AAAAAGTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.50, C:0.22, G:0.20, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:42384769 original size:8 final size:8
Alignment explanation
Indices: 42384727--42384780 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
42384717 GTAGACCGGT
*
42384727 AAAAGCTG
1 AAAAGCCG
*
42384735 AAATGCCG
1 AAAAGCCG
42384743 AAAAGCC-
1 AAAAGCCG
*
42384750 AAAATACCG
1 AAAA-GCCG
42384759 AAAAGCCG
1 AAAAGCCG
*
42384767 AAATGCCG
1 AAAAGCCG
42384775 AAAAGC
1 AAAAGC
42384781 AAAAAGTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 4 0.11
8 29 0.78
9 4 0.11
ACGTcount: A:0.50, C:0.22, G:0.20, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:42385029 original size:29 final size:29
Alignment explanation
Indices: 42384996--42385120 Score: 198
Period size: 29 Copynumber: 4.3 Consensus size: 29
42384986 GAAAGCATGA
42384996 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
42385025 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
42385054 ATACGAATATGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
42385083 ATATTAATGAGA-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
42385111 ATATGCATGT
1 ATATGAATGT
42385121 ATGTAGACTT
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 23 0.26
29 64 0.74
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:42392772 original size:47 final size:49
Alignment explanation
Indices: 42392698--42393057 Score: 179
Period size: 46 Copynumber: 7.6 Consensus size: 49
42392688 TATAATGCTG
* * **
42392698 ATGCCATGTCCCAGACATGGT-TATACACTAGCTCATC-CATC-AAGTTA
1 ATGCCATGTCCTAGACATGGTCT-TACACTAGCTCATCAAATCGAAGCCA
* * * *
42392745 ATGCCATCTCCTAGACATGGTCTTACACTGGCT-ATCAAAATCGAGGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATC-AAATCGAAGCCA
* * *
42392794 ACGCCATGTCCTAGACATGGTCTTACACTAGCTC-TCACATATCTG-TGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATCA-A-ATC-GAAGCCA
* * * * *
42392844 ATGCCATATCCCAGACATGGTCTTACACT-GACACATC---TCGTAGCTA
1 ATGCCATGTCCTAGACATGGTCTTACACTAG-CTCATCAAATCGAAGCCA
* * * * ** *
42392890 ATG-CATGTCCCAAACAT-GTCTTACACTGGCTTA-CATTTTG-AGTCCA
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATCAAATCGAAG-CCA
*** *
42392936 ATG-CATGTCCTAGACAT-GTCTTACACTAGCTC-TCGTCTC-AATGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATCAAATCGAA-GCCA
* * * ** *
42392982 ATGCCATCTCCCAGACATGGTCTTACACTGGCTC-TCATAAT-GTGGCCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATCA-AATCGAAGCCA
*
42393030 ATG-CATGTCCCAGACAT-GTCTTACACTA
1 ATGCCATGTCCTAGACATGGTCTTACACTA
42393058 ACACACAAAT
Statistics
Matches: 247, Mismatches: 43, Indels: 47
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 16 0.06
46 61 0.25
47 54 0.22
48 28 0.11
49 37 0.15
50 35 0.14
51 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATCAAATCGAAGCCA
Found at i:42392811 original size:49 final size:50
Alignment explanation
Indices: 42392747--42392873 Score: 159
Period size: 50 Copynumber: 2.6 Consensus size: 50
42392737 TCAAGTTAAT
*
42392747 GCCATCTCCTAGACATGGTCTTACACTGGCTATCA-AAATC-GAGGCCGAC
1 GCCATATCCTAGACATGGTCTTACACTGGCTATCACAAATCTG-GGCCGAC
* * * * * *
42392796 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCGAT
1 GCCATATCCTAGACATGGTCTTACACTGGCTATCACAAATCTGGGCCGAC
*
42392846 GCCATATCCCAGACATGGTCTTACACTG
1 GCCATATCCTAGACATGGTCTTACACTG
42392874 ACACATCTCG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
49 32 0.48
50 34 0.51
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (50 bp):
GCCATATCCTAGACATGGTCTTACACTGGCTATCACAAATCTGGGCCGAC
Found at i:42393047 original size:140 final size:140
Alignment explanation
Indices: 42392798--42393056 Score: 353
Period size: 140 Copynumber: 1.8 Consensus size: 140
42392788 AGGCCGACGC
**
42392798 CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCATATCCCAGACATG
1 CATGTCCTAGACATGGTCTTACACTAGCTCT-ACATATCAATGCCGATGCCATATCCCAGACATG
*
42392863 GTCTTACACTGACACATCTCGTAGCTAATGCATGTCCCAAACATGTCTTACACTGGCTTACATTT
65 GTCTTACACTGACACATCTCGTAGCCAATGCATGTCCCAAACATGTCTTACACTGGCTTACATTT
42392928 TGAGTCCAATG
130 TGAGTCCAATG
* * *
42392939 CATGTCCTAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGCCGATGCCATCTCCCAGACATGG
1 CATGTCCTAGACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCATATCCCAGACATGG
* * * * * *
42393002 TCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
66 TCTTACACTGACACATC-T--CGTAGCCAATGCATGTCCCAAACATGTCTTACACT
42393057 AACACACAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
137 2 0.02
138 41 0.40
140 46 0.45
141 14 0.14
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (140 bp):
CATGTCCTAGACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCATATCCCAGACATGG
TCTTACACTGACACATCTCGTAGCCAATGCATGTCCCAAACATGTCTTACACTGGCTTACATTTT
GAGTCCAATG
Found at i:42399624 original size:46 final size:46
Alignment explanation
Indices: 42399571--42399706 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
42399561 ATATATACAA
* * *
42399571 ATCTCATACAGATCTCACATTAGCCATTTGGCTTTACCACATATCC
1 ATCTCATACAGATTTCGCATTAGCCATTCGGCTTTACCACATATCC
*
42399617 ATCTCATACACG-TTTCGCATTAGCCATTCGGCTTTACCTCATATCC
1 ATCTCATACA-GATTTCGCATTAGCCATTCGGCTTTACCACATATCC
*
42399663 ATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 ATCTCATACAGATTTCGCATTAGCCATTCGGCTTTACCACATAT
42399707 ATACACTTCC
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 81 0.99
47 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
ATCTCATACAGATTTCGCATTAGCCATTCGGCTTTACCACATATCC
Found at i:42399751 original size:47 final size:47
Alignment explanation
Indices: 42399680--42400246 Score: 992
Period size: 47 Copynumber: 12.1 Consensus size: 47
42399670 ACACATTTCG
* * * * * *
42399680 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* *
42399727 CATTGGCCATTCTGCCTTGTCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
42399774 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
42399821 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
42399868 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
42399915 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
42399962 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
42400009 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
42400056 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
42400103 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
42400150 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
42400197 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
42400244 CAT
1 CAT
42400247 AAAATCCTAA
Statistics
Matches: 504, Mismatches: 15, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
46 1 0.00
47 503 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:42408148 original size:302 final size:302
Alignment explanation
Indices: 42407602--42408203 Score: 1123
Period size: 302 Copynumber: 2.0 Consensus size: 302
42407592 GAAGGCACTT
*
42407602 GATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAAAGTTGGAGATGTCCCGTTTC
1 GATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTC
*
42407667 ATACCATGCCACCAAAATTGACGTTTCAAATCGTTGTACATTTTCGTACTCCCCGGGTGAATTGA
66 ATACCATGCCACCAAAACTGACGTTTCAAATCGTTGTACATTTTCGTACTCCCCGGGTGAATTGA
42407732 CATTCAGCTACAATGGGCTTCGTTCATAATCATCGAAATGAGTTCCGAATTCCTTGGAACACACA
131 CATTCAGCTACAATGGGCTTCGTTCATAATCATCGAAATGAGTTCCGAATTCCTTGGAACACACA
*
42407797 AACGACTTCTGAACCTCAAACAATCATCATCATCAATTTGAAACTCCGATTCCTTGTTCGGAGCA
196 AACGACTTCTGAACCTCAAACAATCATCATCATCAATTTGAAACTCCGATTCCTTGTTCGGAACA
*
42407862 CACTCAGCCCGTTTTGCAACCAATTCATCATCAACTTTCTGG
261 CACTCAGCCAGTTTTGCAACCAATTCATCATCAACTTTCTGG
*
42407904 GATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCTCGTTTC
1 GATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTC
42407969 ATACCATGCCACCAAAACTGACGTTTCAAATCGTTGTACATTTTCGTACTCCCCGGGTGAATTGA
66 ATACCATGCCACCAAAACTGACGTTTCAAATCGTTGTACATTTTCGTACTCCCCGGGTGAATTGA
*
42408034 CATTCAGCTACAATGGGCTTCGTTCATAATCATCGAAATGAGTTCCGAATTCCTTGGAACATACA
131 CATTCAGCTACAATGGGCTTCGTTCATAATCATCGAAATGAGTTCCGAATTCCTTGGAACACACA
*
42408099 AACGACTTCTGAACCTCAAACGATCATCATCATCAATTTGAAACTCCGATTCCTTGTTCGGAACA
196 AACGACTTCTGAACCTCAAACAATCATCATCATCAATTTGAAACTCCGATTCCTTGTTCGGAACA
* *
42408164 CACTCAGCCAGTTTTGCAACTAATTCATCATCGACTTTCT
261 CACTCAGCCAGTTTTGCAACCAATTCATCATCAACTTTCT
42408204 CAGCTTCACG
Statistics
Matches: 291, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
302 291 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (302 bp):
GATGTTCCGCTTTCACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTC
ATACCATGCCACCAAAACTGACGTTTCAAATCGTTGTACATTTTCGTACTCCCCGGGTGAATTGA
CATTCAGCTACAATGGGCTTCGTTCATAATCATCGAAATGAGTTCCGAATTCCTTGGAACACACA
AACGACTTCTGAACCTCAAACAATCATCATCATCAATTTGAAACTCCGATTCCTTGTTCGGAACA
CACTCAGCCAGTTTTGCAACCAATTCATCATCAACTTTCTGG
Found at i:42408441 original size:166 final size:166
Alignment explanation
Indices: 42408166--42408496 Score: 599
Period size: 166 Copynumber: 2.0 Consensus size: 166
42408156 TCGGAACACA
42408166 CTCAGCCAGTTTTGCAACTAATTCATCATCGACTTTCTCAGCTTCACGAATTTGATGAATCAATA
1 CTCAGCCAGTTTTGCAACTAATTCATCATCGACTTTCTCAGCTTCACGAATTTGATGAATCAATA
* *
42408231 ATGGTTTGGCTTTTAATTCAGCTACTAACACATTGTCGGGTAGAACAGACAAGTGCACATTCATC
66 ATGGTTTGGCTTTTAATTCAGCTACTAACACATTATCAGGTAGAACAGACAAGTGCACATTCATC
*
42408296 GCTCGTAAAGCAAACAATAATTTCCGGCTTAAGGCG
131 GCTCGCAAAGCAAACAATAATTTCCGGCTTAAGGCG
*
42408332 CTCAGCCAGTTTTGCAACTAATTCATCATCGACTTTCTCAGCTTCACGAATTTGATGAGTCAATA
1 CTCAGCCAGTTTTGCAACTAATTCATCATCGACTTTCTCAGCTTCACGAATTTGATGAATCAATA
*
42408397 ATGGTTTGGCTTTTAATTCAGCTACTAACACATTATCAGGTAGAACAGACAAGTGTACATTCATC
66 ATGGTTTGGCTTTTAATTCAGCTACTAACACATTATCAGGTAGAACAGACAAGTGCACATTCATC
* *
42408462 GCTCGCAAAGCAAACAGTGATTTCCGGCTTAAGGC
131 GCTCGCAAAGCAAACAATAATTTCCGGCTTAAGGC
42408497 ATCCGCAACC
Statistics
Matches: 158, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 158 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (166 bp):
CTCAGCCAGTTTTGCAACTAATTCATCATCGACTTTCTCAGCTTCACGAATTTGATGAATCAATA
ATGGTTTGGCTTTTAATTCAGCTACTAACACATTATCAGGTAGAACAGACAAGTGCACATTCATC
GCTCGCAAAGCAAACAATAATTTCCGGCTTAAGGCG
Found at i:42413161 original size:39 final size:40
Alignment explanation
Indices: 42413116--42413300 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
42413106 GCTCCTCGTT
* * *
42413116 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
42413156 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
42413195 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
42413235 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
42413276 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
42413301 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:42413216 original size:40 final size:39
Alignment explanation
Indices: 42413083--42413300 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
42413073 AAATCACGTA
* * **
42413083 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
42413122 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
42413161 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
42413201 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
42413241 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
42413281 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
42413301 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:42422060 original size:29 final size:28
Alignment explanation
Indices: 42422021--42422092 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 28
42422011 GAATGTGACA
*
42422021 GGGCCTAATGGGCCATATAAATGTGATTT
1 GGGCCTAATGGGCCATATAAATATGA-TT
*
42422050 GGGCCTAATGGGCCATATGAATATGATT
1 GGGCCTAATGGGCCATATAAATATGATT
*
42422078 GGGCTTAATGGGCCA
1 GGGCCTAATGGGCCA
42422093 AATACAGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 16 0.40
29 24 0.60
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGGCCTAATGGGCCATATAAATATGATT
Done.