Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 134 of 425
Found at i:40350982 original size:54 final size:54
Alignment explanation
Indices: 40350813--40350988 Score: 169
Period size: 54 Copynumber: 3.3 Consensus size: 54
40350803 AATACTTTAG
* * * * * *
40350813 TTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGG
1 TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGA
* ** * * *
40350866 TTTATAAAATTACCCAAATATCCTTGATTTGTAAAATTATCGAAA-TACCCTC-A
1 TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATC-AAAGTACCCTCGA
* *
40350919 GTTTGCAAAATTACTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGA
1 -TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGA
*
40350974 ATTACAAAAATTACT
1 TTTAC-AAAATTACT
40350989 ATTTTACCCT
Statistics
Matches: 96, Mismatches: 21, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
53 21 0.22
54 62 0.65
55 13 0.14
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTCGA
Found at i:40351013 original size:82 final size:81
Alignment explanation
Indices: 40350927--40351094 Score: 201
Period size: 82 Copynumber: 2.1 Consensus size: 81
40350917 CAGTTTGCAA
* * *
40350927 AATTACTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGAATTACAAAAATTACTATT
1 AATTACTGAAATACCCTCGACATATAAAACTATCAAAGTACCCTCGAATTAC-AAAATTACCATT
40350992 TTACCCTCGATTTATAG
65 TTACCCTCGATTTATAG
*** ** *** * *
40351009 AATTACTGTTTTACCCTCGATTTATAAAACTATCATTTTACCCTCGATTTACAAAATTACCGTTT
1 AATTACTGAAATACCCTCGACATATAAAACTATCAAAGTACCCTCGAATTACAAAATTACCATTT
*
40351074 TACCCTCGATTTATGG
66 TACCCTCGATTTATAG
40351090 AATTA
1 AATTA
40351095 TTGTTTTACC
Statistics
Matches: 72, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 31 0.43
82 41 0.57
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (81 bp):
AATTACTGAAATACCCTCGACATATAAAACTATCAAAGTACCCTCGAATTACAAAATTACCATTT
TACCCTCGATTTATAG
Found at i:40351020 original size:27 final size:27
Alignment explanation
Indices: 40350965--40351348 Score: 518
Period size: 27 Copynumber: 14.2 Consensus size: 27
40350955 ATTATCAAAG
* *
40350965 TACCCTCGAATTACAAAAATTACTATTT
1 TACCCTCGATTTAC-AAAATTACTGTTT
* *
40350993 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
40351020 TACCCTCGATTTATAAAACTA-TCATTT
1 TACCCTCGATTTACAAAATTACT-GTTT
*
40351047 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*** *
40351074 TACCCTCGATTTATGGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
40351101 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
40351128 TACCCTCGATTTACAAAATTACTGCTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
40351155 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
40351182 TACCCTTGATTGACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
40351209 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
40351236 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
40351263 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
40351290 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
40351317 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
40351344 TACCC
1 TACCC
40351349 CTAGGGTGTT
Statistics
Matches: 317, Mismatches: 37, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 304 0.96
28 12 0.04
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:40351629 original size:27 final size:27
Alignment explanation
Indices: 40351584--40351635 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
40351574 CCTCGCGGCA
*
40351584 ATCTGGTGGCCTCGCCACAATATCTAT
1 ATCTGGTGACCTCGCCACAATATCTAT
* *
40351611 ATCTGGTGACTTCGTCACAATATCT
1 ATCTGGTGACCTCGCCACAATATCT
40351636 GGCAGCCTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (27 bp):
ATCTGGTGACCTCGCCACAATATCTAT
Found at i:40351797 original size:6 final size:6
Alignment explanation
Indices: 40351755--40351836 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
40351745 TTGCATTCAC
* * *
40351755 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
40351804 -TCATCTG ATTCTA ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
40351837 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 46 0.77
7 8 0.13
8 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:40351834 original size:31 final size:31
Alignment explanation
Indices: 40351755--40351827 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
40351745 TTGCATTCAC
* *
40351755 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* *
40351786 ATTCTGATTCTGATTCTGTCATCTGATTCTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
40351817 ATTCTGATTCT
1 ATTCTGATTCT
40351828 AGTTCTGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:40353853 original size:28 final size:29
Alignment explanation
Indices: 40353822--40353878 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
40353812 TAAAGTGATT
*
40353822 TTTGACAAAAATGTCAATT-AGGGATTAA
1 TTTGACAAAAATGTAAATTAAGGGATTAA
* * *
40353850 TTTGAGAAAAGTGTAAATTAAGGGGTTAA
1 TTTGACAAAAATGTAAATTAAGGGATTAA
40353879 ATTGTGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (29 bp):
TTTGACAAAAATGTAAATTAAGGGATTAA
Found at i:40353887 original size:29 final size:28
Alignment explanation
Indices: 40353823--40353887 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
40353813 AAAGTGATTT
* * *
40353823 TTGACAAAAATGTCAATTAGGGATTAAT
1 TTGAGAAAAATGTAAATTAGGGATTAAA
* *
40353851 TTGAGAAAAGTGTAAATTAAGGGGTTAAA
1 TTGAGAAAAATGTAAATT-AGGGATTAAA
*
40353880 TTGTGAAA
1 TTGAGAAA
40353888 TAAATGAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (28 bp):
TTGAGAAAAATGTAAATTAGGGATTAAA
Found at i:40355195 original size:20 final size:20
Alignment explanation
Indices: 40355156--40355195 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
40355146 GAACTTCTTC
* *
40355156 ACTTACTCACTTAGTTAAAT
1 ACTTACTCACTTAATCAAAT
*
40355176 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
40355196 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:40355561 original size:55 final size:54
Alignment explanation
Indices: 40355423--40355625 Score: 232
Period size: 55 Copynumber: 3.7 Consensus size: 54
40355413 TTTGAAATTC
* * * *
40355423 ACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTT
* * *
40355476 ACCAATGCCATACCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTT
* * * *
40355531 ATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGA-AACCTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA-CTT
* *
40355585 ACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 ACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
40355626 AAACCCTAAT
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 40 0.32
54 8 0.06
55 73 0.58
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (54 bp):
ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTT
Found at i:40359884 original size:70 final size:70
Alignment explanation
Indices: 40359793--40359926 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
40359783 ACATTCACGG
*
40359793 TTAAGACATATCAACTCAATGTCTTTATCTAACATATTCAATACATTTATTAAGCCCTAAATCAT
1 TTAAAACATATCAACTCAATGTCTTTATCTAACATATTCAATACATTTATTAAGCCCTAAATCAT
40359858 CACTA
66 CACTA
*
40359863 TTAAAACATATCAACTCAATGTCTTTATCTAACATATTCACTACATTTATTAAGCCCTAAATCA
1 TTAAAACATATCAACTCAATGTCTTTATCTAACATATTCAATACATTTATTAAGCCCTAAATCA
40359927 AACATACAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.36
Consensus pattern (70 bp):
TTAAAACATATCAACTCAATGTCTTTATCTAACATATTCAATACATTTATTAAGCCCTAAATCAT
CACTA
Found at i:40362318 original size:41 final size:40
Alignment explanation
Indices: 40362228--40362386 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 40
40362218 AATGCTAACA
40362228 TCCCAGACATGGTCTTACATAC-AATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTAC--ACGAATCACATAT-GATGCCA-TG
* *
40362271 TCCCAGACAGGGTCTTACACGAATCAAATATGATGCCGATG
1 TCCCAGACATGGTCTTACACGAATCACATATGATGCC-ATG
* *
40362312 TCCCAGACATGGTCGTACACGTAATCACATATTGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AATCACATA-TGATGCC-ATG
** * *
40362355 TCCCAGATGTGGTCTTACTCGAGAACACATAT
1 TCCCAGACATGGTCTTACACGA-ATCACATAT
40362387 CAAAAATCCT
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
41 29 0.29
42 20 0.20
43 50 0.51
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (40 bp):
TCCCAGACATGGTCTTACACGAATCACATATGATGCCATG
Found at i:40363515 original size:14 final size:15
Alignment explanation
Indices: 40363496--40363524 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
40363486 ACATGAAAAT
40363496 TTCACACAT-ATAAA
1 TTCACACATAATAAA
40363510 TTCACACATAATAAA
1 TTCACACATAATAAA
40363525 CACAGAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:40365622 original size:64 final size:66
Alignment explanation
Indices: 40365541--40365692 Score: 168
Period size: 67 Copynumber: 2.3 Consensus size: 66
40365531 AGACATTATG
* * * *
40365541 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACAATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACAATGTAGACAAGAGAGCTACGAGATA
*
40365604 T
66 A
* * * *
40365605 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGATACCA-GTGAAGGACACAATGTAGACAAGAGAGCTACGAGAT
40365670 AA
65 AA
*
40365672 ACTG--GCTAGGTCACATGGGTG
1 A-TGTAGCTAGGTCGCATGGGTG
40365693 GTAATAAGTG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
64 24 0.33
66 17 0.23
67 30 0.41
68 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACAATGTAGACAAGAGAGCTACGAGATA
A
Found at i:40367806 original size:42 final size:42
Alignment explanation
Indices: 40367759--40367880 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
40367749 TACCGTACCA
* * *
40367759 ATGCCATATCCTAGATATGGTCTTACATGTATTCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATTG
* *
40367801 ATGCCAATAGCCCAGCTATGGTCTTACATG-AAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATTG
* *
40367844 ATGCCATATCCCAAATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
40367881 ATAACCCTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.46
43 37 0.54
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATTG
Found at i:40378852 original size:24 final size:24
Alignment explanation
Indices: 40378820--40378882 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
40378810 AATCTCAATT
40378820 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
40378844 GCACTATGTGTGCGATTTATTATG
1 GCACTATGTGTGCGATTTACTATG
40378868 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
40378883 ACATAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:40380848 original size:43 final size:43
Alignment explanation
Indices: 40380801--40380885 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
40380791 ATATTATTGG
*
40380801 GCTTCGGCCCTAGCAGGCTATAATGCCGGTGAGATAATATCAA
1 GCTTCGGCCCTAGCAGGCTATAATGCCGGTGAAATAATATCAA
* *
40380844 GCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGATATCA
1 GCTTCGGCCCTAGCAGGCTATAATGCCGGTGAAATAATATCA
40380886 GGTTTCAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (43 bp):
GCTTCGGCCCTAGCAGGCTATAATGCCGGTGAAATAATATCAA
Found at i:40380898 original size:43 final size:43
Alignment explanation
Indices: 40380809--40380918 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
40380799 GGGCTTCGGC
* **
40380809 CCTAGCAGGCTATAATGCCGGTGAGATAATATCAAGCTTCGGG
1 CCTAGCAGGCTATAATGCCGGTGAAATAATATCAAGCTTCAAG
* * *
40380852 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGTTTCAAG
1 CCTAGCAGGCTATAATGCCGGTGAAATAATATCAAGCTTCAAG
* *
40380895 CCTAGAAGGCGAT-ATGCCGGTGAA
1 CCTAGCAGGCTATAATGCCGGTGAA
40380919 TGAGTTCAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 11 0.19
43 48 0.81
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (43 bp):
CCTAGCAGGCTATAATGCCGGTGAAATAATATCAAGCTTCAAG
Found at i:40384709 original size:71 final size:71
Alignment explanation
Indices: 40384626--40384789 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
40384616 GAGATGTATC
40384626 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40384691 AGGACA
66 AGGACA
*
40384697 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
40384762 CGGACA
66 AGGACA
40384768 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
40384790 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:40402332 original size:28 final size:27
Alignment explanation
Indices: 40402266--40402335 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
40402256 ATAGTGAGTC
*
40402266 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
40402293 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
40402321 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40402336 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:40402408 original size:42 final size:42
Alignment explanation
Indices: 40402344--40402450 Score: 178
Period size: 42 Copynumber: 2.5 Consensus size: 42
40402334 CTGTACAAAT
* *
40402344 TTTAAACCCGCACACTTAGTGCCAATCTTGTCACTGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
40402386 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
* *
40402428 TTTATACCTGCAAACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
40402451 GAGACCAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:40410527 original size:29 final size:29
Alignment explanation
Indices: 40410494--40410682 Score: 308
Period size: 29 Copynumber: 6.6 Consensus size: 29
40410484 GTGACGAGAT
40410494 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
40410523 TGGCACTAAGTGTGCGTGCTGGAAATAT-
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
40410551 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
40410580 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
40410609 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
40410638 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
40410667 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
40410683 AGTTCGGAGG
Statistics
Matches: 150, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
28 28 0.19
29 122 0.81
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:40410563 original size:57 final size:57
Alignment explanation
Indices: 40410492--40410662 Score: 306
Period size: 57 Copynumber: 3.0 Consensus size: 57
40410482 TGGTGACGAG
40410492 ATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAAT
1 ATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAAT
40410549 ATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAAT
1 ATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAAT
* **
40410606 ATATGGCACTAAGTGTGCGTGCTGGAAATATTTGGCACTAAGTGTGCAAGCTGGAAA
1 AT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAA
40410663 AATACGGCAC
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 59 0.54
58 51 0.46
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.27
Consensus pattern (57 bp):
ATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAAT
Found at i:40410601 original size:86 final size:87
Alignment explanation
Indices: 40410494--40410682 Score: 317
Period size: 86 Copynumber: 2.2 Consensus size: 87
40410484 GTGACGAGAT
40410494 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATA-TTGGCACT
1 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATTTGGCACT
** *
40410558 AAGTGTGCGTGCTGGAAATATA
66 AAGTGTGCAAGCTGGAAAAATA
40410580 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATTTGGCACT
1 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATTTGGCACT
40410645 AAGTGTGCAAGCTGGAAAAATA
66 AAGTGTGCAAGCTGGAAAAATA
* **
40410667 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
40410683 AGTTCGGAGG
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 56 0.58
87 40 0.42
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATTTGGCACT
AAGTGTGCAAGCTGGAAAAATA
Found at i:40412807 original size:28 final size:27
Alignment explanation
Indices: 40412741--40412810 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
40412731 ATAGTGAGTC
*
40412741 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
40412768 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
40412796 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40412811 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:40412883 original size:42 final size:42
Alignment explanation
Indices: 40412819--40412967 Score: 271
Period size: 42 Copynumber: 3.5 Consensus size: 42
40412809 CTGTACAAAT
*
40412819 TTTAAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
*
40412861 TTTATACCCGTACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
*
40412903 TTTATACCCGTACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
40412945 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
40412968 GAGACCAATA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 104 1.00
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:40419384 original size:26 final size:26
Alignment explanation
Indices: 40419355--40419406 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
40419345 CTTCTAACCT
*
40419355 TTTACACATTATAGCTTTGGTAGAAA
1 TTTACACATTATAGCTTCGGTAGAAA
*
40419381 TTTACATATTATAGCTTCGGTAGAAA
1 TTTACACATTATAGCTTCGGTAGAAA
40419407 CACACTCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (26 bp):
TTTACACATTATAGCTTCGGTAGAAA
Found at i:40425704 original size:50 final size:49
Alignment explanation
Indices: 40425626--40425765 Score: 190
Period size: 49 Copynumber: 2.8 Consensus size: 49
40425616 TGTAAGGTTG
* * **
40425626 CATGTGTAGTACTAAGTGCAGGCCACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA
* *
40425676 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
* * *
40425725 CATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
40425766 GCTTTGGCTA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 41 0.51
50 39 0.49
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
Found at i:40425750 original size:49 final size:50
Alignment explanation
Indices: 40425620--40425765 Score: 195
Period size: 50 Copynumber: 2.9 Consensus size: 50
40425610 ATCTATTGTA
* * * **
40425620 AGGTTGCATGTGTAGTACTAAGTGCAGGCCACTACGTGTATCAGATGGTT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
40425670 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
40425720 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
40425766 GCTTTGGCTA
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 41 0.49
50 43 0.51
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:40428306 original size:27 final size:28
Alignment explanation
Indices: 40428249--40428317 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
40428239 AAATTTGTAC
**
40428249 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
40428277 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
40428304 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
40428318 AGACTCACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:40428329 original size:27 final size:27
Alignment explanation
Indices: 40428249--40428330 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
40428239 AAATTTGTAC
** * *
40428249 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCG-AGCTCACTATAT
* *
40428277 AGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
40428304 AGCACTAAGTGTGC-AGACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
40428331 GCTTTTGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.04
27 32 0.65
28 15 0.31
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:40435589 original size:2 final size:2
Alignment explanation
Indices: 40435582--40435647 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
40435572 GACATTGTAC
40435582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40435624 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
40435648 TCGGCCAGTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40436207 original size:27 final size:28
Alignment explanation
Indices: 40436150--40436219 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
40436140 AAATTTGTAC
**
40436150 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
40436178 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
40436205 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
40436220 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:40454270 original size:40 final size:40
Alignment explanation
Indices: 40454225--40454392 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
40454215 CGGAATACAA
40454225 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * * *
40454265 CCGGATATAACGACTCGCACAAATGCCTTCGGATATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
40454305 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
** *
40454345 CCGGATATAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
40454385 CCGGATAT
1 CCGGATAT
40454393 CATTCAATTG
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:40454365 original size:80 final size:80
Alignment explanation
Indices: 40454225--40454392 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 80
40454215 CGGAATACAA
* *
40454225 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
40454290 CCTTCGGATATTAGC
66 CCTTCGGATATTAAC
** * *
40454305 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAATT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
* *
40454369 GCCTTCGGGTCTTAAC
65 GCCTTCGGATATTAAC
40454385 CCGGATAT
1 CCGGATAT
40454393 CATTCAATTG
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 77 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGATATTAAC
Found at i:40454498 original size:124 final size:125
Alignment explanation
Indices: 40454349--40454574 Score: 301
Period size: 124 Copynumber: 1.8 Consensus size: 125
40454339 CTTAGCCCGG
* * * * * *
40454349 ATATAGTCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATCATTCAATTGCTCATGCACAC
1 ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCGGATACCATTCAAATACTCATACACAC
* *
40454414 ATACATCAATAATCATTAAACATTCAT-GTTTCATTTTCGTTACTAAGGCTCAAACACAA
66 ATACATCAATAATCATTAAACATCCATAATTTCATTTTCGTTACTAAGGCTCAAACACAA
* * *
40454473 ATATAATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACAC
1 ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCGGATACCATTCAAATACTCATACACAC
* ** * *
40454538 GTATTTCAGTAATCATTACACATCCATAATTTCATTT
66 ATACATCAATAATCATTAAACATCCATAATTTCATTT
40454575 CACATAATTC
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
124 77 0.91
125 8 0.09
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (125 bp):
ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCGGATACCATTCAAATACTCATACACAC
ATACATCAATAATCATTAAACATCCATAATTTCATTTTCGTTACTAAGGCTCAAACACAA
Found at i:40456269 original size:47 final size:48
Alignment explanation
Indices: 40456215--40456323 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
40456205 AAGGCTGTCA
*
40456215 CATATCCACTTAGCACCACGTT-AATGAATCAATATATGTAACCGTGG
1 CATATCCACTTAGCACCACGTTGAATGAATCAATATATGTAACCATGG
* * * *
40456262 CATATCCACTTAGCACCACGTTGCATGTATCAATATGTGTAATCATGG
1 CATATCCACTTAGCACCACGTTGAATGAATCAATATATGTAACCATGG
*
40456310 TATATCCACTTAGC
1 CATATCCACTTAGC
40456324 GCCATGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
47 22 0.40
48 33 0.60
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (48 bp):
CATATCCACTTAGCACCACGTTGAATGAATCAATATATGTAACCATGG
Found at i:40458581 original size:15 final size:15
Alignment explanation
Indices: 40458563--40458604 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
40458553 GAAGTCCAGA
40458563 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
40458578 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
40458593 ATAAGGAAATCC
1 ATAAGGAAATCC
40458605 CATTTACAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:40459583 original size:53 final size:54
Alignment explanation
Indices: 40459526--40459635 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
40459516 TTCATATTGA
40459526 TTTTACACTCACTTTCCAGTTATCTCA-TTAAACAAGTGTACTTATACATGTAT
1 TTTTACACTCACTTTCCAGTTATCTCATTTAAACAAGTGTACTTATACATGTAT
40459579 TTTTACACTCACTTTCCAGTTATCTCATTTAAACAAGTGTACTTATACATGTAT
1 TTTTACACTCACTTTCCAGTTATCTCATTTAAACAAGTGTACTTATACATGTAT
40459633 TTT
1 TTT
40459636 CATGTTTCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 27 0.48
54 29 0.52
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (54 bp):
TTTTACACTCACTTTCCAGTTATCTCATTTAAACAAGTGTACTTATACATGTAT
Found at i:40463081 original size:93 final size:93
Alignment explanation
Indices: 40462969--40463141 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
40462959 CGCCCATAAG
*
40462969 CGAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
40463034 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
40463062 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
40463127 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
40463142 CAAATATCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:40463137 original size:46 final size:46
Alignment explanation
Indices: 40462962--40463137 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
40462952 TGTAACCCGC
*
40462962 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
40463008 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
40463058 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
40463101 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
40463138 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:40463156 original size:46 final size:45
Alignment explanation
Indices: 40462970--40463156 Score: 137
Period size: 46 Copynumber: 4.0 Consensus size: 45
40462960 GCCCATAAGC
* ** * * *
40462970 GAACTCGGACTCAACTCAACGAGCTCGGGCGCTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--CAGT
* * * * *
40463016 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCCAGT
* * * *
40463063 GAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--CAGT
*
40463109 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCCAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCCAGT
40463155 GA
1 GA
40463157 CATGTCACTT
Statistics
Matches: 109, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
43 4 0.04
45 1 0.01
46 66 0.61
47 29 0.27
48 5 0.05
50 4 0.04
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCCAGT
Found at i:40464708 original size:38 final size:38
Alignment explanation
Indices: 40464665--40465046 Score: 262
Period size: 38 Copynumber: 9.2 Consensus size: 38
40464655 TTTCAAATTA
*
40464665 ACATGTAGAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
40464703 ACATGTTTAACCGTGGTATATCCACGTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* * *
40464744 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCGCATT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
40464788 ACATGTTTAATCGTGGTATGTCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
40464829 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
40464873 ACATGTTTAACCATGGTATATCCATTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
40464914 GAATCAATATATGTAACCGTGGCATATCTACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
40464958 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
40464996 A-ATGAATCAATATAATCGTGGCATATCCACTGAGCACCACGTT
1 ACATG------TATAACCGTGGCATATCCACTTAGCACCACGTT
40465039 ACATGTAT
1 ACATGTAT
40465047 CAATATGTGT
Statistics
Matches: 269, Mismatches: 41, Indels: 68
0.71 0.11 0.18
Matches are distributed among these distances:
37 3 0.01
38 115 0.43
39 3 0.01
40 9 0.03
41 6 0.02
42 3 0.01
43 33 0.12
44 9 0.03
45 9 0.03
46 3 0.01
47 76 0.28
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:40464818 original size:85 final size:85
Alignment explanation
Indices: 40464673--40465044 Score: 626
Period size: 85 Copynumber: 4.4 Consensus size: 85
40464663 TAACATGTAG
*
40464673 AACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACGTAGCACCAC
1 AACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCAC
40464738 GTTAATGAATCAATATATGT
66 GTTAATGAATCAATATATGT
* * * *
40464758 AACCGTGGCATATCCACTTAGCACCGCATTACATGTTTAATCGTGGTATGTCCACTTAGCACCAC
1 AACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCAC
40464823 GTTAATGAATCAATATATGT
66 GTTAATGAATCAATATATGT
* *
40464843 AACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCATTTAGCACCAC
1 AACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCAC
40464908 GTTAATGAATCAATATATGT
66 GTTAATGAATCAATATATGT
*
40464928 AACCGTGGCATATCTACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCAC
1 AACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCAC
40464993 GTTAATGAATC-A-ATA--T
66 GTTAATGAATCAATATATGT
* *
40465009 AATCGTGGCATATCCACTGAGCACCACGTTACATGT
1 AACCGTGGCATATCCACTTAGCACCACGTTACATGT
40465045 ATCAATATGT
Statistics
Matches: 270, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
81 34 0.13
83 3 0.01
84 1 0.00
85 232 0.86
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (85 bp):
AACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCAC
GTTAATGAATCAATATATGT
Found at i:40467641 original size:6 final size:6
Alignment explanation
Indices: 40467630--40467670 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
40467620 ATGAAAAATG
40467630 AAATAA AAATAA AAATATA AAAGTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATA-A AAA-TAA AAATAA AAATAA AAA
40467671 AATGGAAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 23 0.70
7 8 0.24
8 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:40467671 original size:20 final size:20
Alignment explanation
Indices: 40467633--40467671 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
40467623 AAAAATGAAA
*
40467633 TAAAAATAAAAATATAAAAG
1 TAAAAATAAAAATAAAAAAG
40467653 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
40467672 ATGGAAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAG
Found at i:40473214 original size:29 final size:28
Alignment explanation
Indices: 40473159--40473273 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 28
40473149 GTGAGCATGA
* * *
40473159 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
40473187 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
*
40473216 ATATACA-GTTGATTTGGGCCTAATGGGCC
1 ATATAAATG-TGA-TTGGGCCTAATGGGCC
* * *
40473245 ATATAAATATGATTGGGCTTAATAGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
40473273 A
1 A
40473274 GATACAGGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 27 0.36
29 49 0.64
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:40473244 original size:58 final size:57
Alignment explanation
Indices: 40473172--40473280 Score: 164
Period size: 58 Copynumber: 1.9 Consensus size: 57
40473162 TGAATGTGAC
* * *
40473172 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGTTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATAGGCCAGATACAGTTGATT
* *
40473230 TGGGCCTAATGGGCCATATAAATATGATTGGGCTTAATAGGCCAGATACAG
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATAGGCCAGATACAG
40473281 GTATGTGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATAGGCCAGATACAGTTGATT
Found at i:40473272 original size:28 final size:28
Alignment explanation
Indices: 40473172--40473273 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 28
40473162 TGAATGTGAC
*
40473172 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAT-TGATT
*
40473201 TGGGCCTAATGGGCCATATACAGTTGATT
1 TGGGCCTAATGGGCCATATA-AATTGATT
40473230 TGGGCCTAATGGGCCATATAAATATGA-T
1 TGGGCCTAATGGGCCATATAAAT-TGATT
* *
40473258 TGGGCTTAATAGGCCA
1 TGGGCCTAATGGGCCA
40473274 GATACAGGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
28 17 0.26
29 47 0.71
30 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAAATTGATT
Found at i:40479427 original size:16 final size:16
Alignment explanation
Indices: 40479406--40479437 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
40479396 GTAACGCCCT
40479406 AAAAATCCCAAAATCC
1 AAAAATCCCAAAATCC
*
40479422 AAAAATCCCGAAATCC
1 AAAAATCCCAAAATCC
40479438 CATATTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.31, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAATCCCAAAATCC
Found at i:40480829 original size:29 final size:28
Alignment explanation
Indices: 40480774--40480887 Score: 158
Period size: 28 Copynumber: 4.0 Consensus size: 28
40480764 GTGAGCATGA
* *
40480774 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
40480802 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
*
40480831 ATAT-AAGGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
*
40480859 ATATGAATATGATTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
40480887 A
1 A
40480888 GATATAGGTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
28 55 0.71
29 23 0.29
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:40481942 original size:21 final size:22
Alignment explanation
Indices: 40481904--40481951 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
40481894 GTAACTGAAA
**
40481904 GGTTTCTTTTTAAGTTAATTAG
1 GGTTTCTTTTTAAGTTAAGAAG
**
40481926 GGTTTC-TTTTATTTTAAGAAG
1 GGTTTCTTTTTAAGTTAAGAAG
40481947 GGTTT
1 GGTTT
40481952 TCAATGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.54
Consensus pattern (22 bp):
GGTTTCTTTTTAAGTTAAGAAG
Found at i:40489068 original size:30 final size:30
Alignment explanation
Indices: 40489023--40489082 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
40489013 ATTTAATACG
*
40489023 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
40489053 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
40489083 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:40494300 original size:21 final size:21
Alignment explanation
Indices: 40494276--40494316 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
40494266 TCATCAGATC
*
40494276 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
40494297 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
40494317 AGGTGGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:40496567 original size:30 final size:30
Alignment explanation
Indices: 40496522--40496581 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
40496512 ATTTAATACG
*
40496522 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
40496552 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
40496582 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:40503254 original size:29 final size:29
Alignment explanation
Indices: 40503090--40503253 Score: 247
Period size: 29 Copynumber: 5.7 Consensus size: 29
40503080 GCTTGGAAGG
40503090 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* *
40503119 TATGGCATTAAGCGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
40503148 TATGGCACTAAGTGTGTGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
40503177 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
40503206 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
40503235 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
40503254 GATCGTTTAT
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 121 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:40505960 original size:20 final size:20
Alignment explanation
Indices: 40505935--40505995 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
40505925 TTTAAACCTC
*
40505935 ACACGCTCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
*
40505955 ACACGCCCGTGTGCATTGGA
1 ACACGCCCGTGTGCATTGGG
* *
40505975 ACACGCCCGGGTACATTGGG
1 ACACGCCCGTGTGCATTGGG
40505995 A
1 A
40505996 TAGGCTCGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.20
Consensus pattern (20 bp):
ACACGCCCGTGTGCATTGGG
Found at i:40508894 original size:48 final size:48
Alignment explanation
Indices: 40508823--40509122 Score: 438
Period size: 48 Copynumber: 6.2 Consensus size: 48
40508813 CAAGATAAAT
* * * *
40508823 ATATATATGTGTGGTAAAGCCGAATGGATAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
40508871 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
40508919 ATATATATATGTGAAAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
40508967 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
40509015 ATATATATATATGTAGTAAATCCGAATGACTAATGTGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
40509065 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
40509113 ATGTGTATAT
1 ATATGTATAT
40509123 ATTGTGGCCG
Statistics
Matches: 224, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
48 182 0.81
50 42 0.19
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:40509088 original size:98 final size:98
Alignment explanation
Indices: 40508821--40509124 Score: 470
Period size: 98 Copynumber: 3.1 Consensus size: 98
40508811 TACAAGATAA
* * *
40508821 ATATATATATGTGTGGTAAAGCCGAATGGA-TAGTGTGAAATATGTATGAGATATGTATATGTGG
1 ATATATATATATGTAGTAAAGCCGAAT-GACTAATGTGAAATATGTATGAGATATGTATATGTGG
40508885 TAAAGCCGAATGGCTAATATGAAATATGTATGAG
65 TAAAGCCGAATGGCTAATATGAAATATGTATGAG
* * *
40508919 ATATATATATGTG-A-AAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 ATATATATATATGTAGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
40508982 AAAGCCGAATGGCTAACATGAAATATGTATGAG
66 AAAGCCGAATGGCTAATATGAAATATGTATGAG
*
40509015 ATATATATATATGTAGTAAATCCGAATGACTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 ATATATATATATGTAGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
40509080 AAAGCCGAATGGTTAATGTGAAATATGTATGAG
66 AAAGCCGAATGGCTAATATGAAATATGTATGAG
* *
40509113 ATGTGTATATAT
1 ATATATATATAT
40509125 TGTGGCCGAA
Statistics
Matches: 189, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
95 1 0.01
96 88 0.47
97 1 0.01
98 99 0.52
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (98 bp):
ATATATATATATGTAGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATATGAAATATGTATGAG
Found at i:40509305 original size:37 final size:37
Alignment explanation
Indices: 40509255--40509401 Score: 222
Period size: 37 Copynumber: 4.0 Consensus size: 37
40509245 GGAAATATAT
*
40509255 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
40509292 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
40509329 TCCGGGTAAGACCCAATGACTACTTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
40509366 TCTGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
40509402 TCGAGCTAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:40518902 original size:40 final size:40
Alignment explanation
Indices: 40518775--40518904 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
40518765 ATGCTGGAAA
* *
40518775 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
40518815 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
40518855 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
40518895 TTATATCCGG
1 TTATATCCGG
40518905 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:40526948 original size:40 final size:40
Alignment explanation
Indices: 40526821--40526950 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
40526811 ATGCTGGAAA
* *
40526821 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
40526861 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
40526901 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
40526941 TTATATCCGG
1 TTATATCCGG
40526951 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:40536274 original size:40 final size:40
Alignment explanation
Indices: 40536221--40536368 Score: 174
Period size: 40 Copynumber: 3.7 Consensus size: 40
40536211 TTAACCACAA
* * *** *
40536221 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
40536261 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
40536301 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
40536341 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAATTGCCTTCGGGTCTTAGCCCGG
40536369 GTATCATTCA
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.02
40 91 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:40544313 original size:40 final size:40
Alignment explanation
Indices: 40544253--40544416 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
40544243 CGGGATTTAA
* ** *
40544253 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
40544293 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
40544333 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
40544373 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
40544413 CCGG
1 CCGG
40544417 GTATCATTCA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 100 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:40544400 original size:80 final size:80
Alignment explanation
Indices: 40544239--40544416 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
40544229 GAATCACGTA
* * * * **
40544239 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* *
40544303 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
40544318 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
40544382 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
40544398 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
40544417 GTATCATTCA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.13
80 69 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:40552510 original size:40 final size:40
Alignment explanation
Indices: 40552346--40552547 Score: 205
Period size: 40 Copynumber: 5.1 Consensus size: 40
40552336 CGGGATTTAA
* * *
40552346 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*** * *
40552386 CC-GAT-TTGTAACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** *
40552424 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*
40552464 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
40552504 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAGC
40552544 CCGG
1 CCGG
40552548 GTATCATTCA
Statistics
Matches: 141, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
38 29 0.21
39 8 0.06
40 101 0.72
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:40555427 original size:59 final size:59
Alignment explanation
Indices: 40555352--40555471 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
40555342 AGTGCCACAG
40555352 ATCACAGAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
1 ATCACAGAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
* * *
40555411 ATCACATATTCACATGCCTCTCAACGGGGCTACTCAAAAGCACCTGGACCCTAGCATGT
1 ATCACAGAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
40555470 AT
1 AT
40555472 TATGTATCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (59 bp):
ATCACAGAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACCCGGACCCTAGCATGT
Found at i:40559365 original size:47 final size:47
Alignment explanation
Indices: 40559302--40559736 Score: 719
Period size: 47 Copynumber: 9.3 Consensus size: 47
40559292 CCCTTCGGGA
* *
40559302 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
40559349 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
40559396 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
40559443 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
40559490 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
40559537 CCTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
40559584 C-TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
40559630 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
40559677 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
40559724 CTTATCACATATA
1 CTTATCACATATA
40559737 CATATCTTGT
Statistics
Matches: 371, Mismatches: 16, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 46 0.12
47 325 0.88
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:40559730 original size:22 final size:22
Alignment explanation
Indices: 40559658--40559733 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
40559648 TTTCACATTC
*
40559658 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCAGCCTT
** * *
40559680 ATCACATATATACACTTTCA-CATT
1 ATCACAT-T-GGC-CATTCAGCCTT
40559704 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
40559727 ATCACAT
1 ATCACAT
40559734 ATACATATCT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 5 0.12
24 5 0.12
25 11 0.28
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:40563154 original size:40 final size:40
Alignment explanation
Indices: 40563110--40563457 Score: 545
Period size: 40 Copynumber: 8.7 Consensus size: 40
40563100 CCAGCATGAT
* * * * *
40563110 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** ** *
40563150 TGCTCTTCGGGGTTTAGCATGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
40563190 TGCTCTTTGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
40563230 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
40563270 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
40563310 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
40563350 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
40563390 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
40563430 TGCTCTTTGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
40563458 GTCGAGACCT
Statistics
Matches: 287, Mismatches: 21, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
39 4 0.01
40 283 0.99
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:40563555 original size:38 final size:38
Alignment explanation
Indices: 40563513--40563585 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
40563503 ATTTTAATCT
*
40563513 GGACATAATCTCTGT-ACATAGCCATCGGGTCTTTACCC
1 GGACATAATCTCT-TCACATAGCCAGCGGGTCTTTACCC
* *
40563551 GGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 GGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
40563586 AACTCAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.03
38 30 0.97
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (38 bp):
GGACATAATCTCTTCACATAGCCAGCGGGTCTTTACCC
Found at i:40566804 original size:37 final size:37
Alignment explanation
Indices: 40566741--40566890 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
40566731 CTTTAGCTCA
* * *
40566741 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
40566778 GACATACTCTCCACATGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
40566815 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
40566852 GACATAATCTCCACACGTAGTCATCGGGTCTCACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
40566889 GA
1 GA
40566891 ATATATTTCC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:40567006 original size:48 final size:48
Alignment explanation
Indices: 40566935--40567453 Score: 829
Period size: 48 Copynumber: 11.0 Consensus size: 48
40566925 TGTTACAACA
* * *
40566935 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
40566983 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
40567031 TTCACATTAGCCATTCGACTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
40567079 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
40567127 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
40567175 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
40567223 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
40567271 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
40567319 TTCACATTAGCCATTCGGATTTACCACATATACATATCT-A-A-ATA-
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
40567363 -T---ATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
40567407 TTCACATTCGCCATTCGGCTTTATCACTTATACATATCTCACATATA
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATA
40567454 AATATTTATC
Statistics
Matches: 439, Mismatches: 24, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
40 32 0.07
41 1 0.00
42 1 0.00
43 4 0.01
45 4 0.01
46 1 0.00
47 1 0.00
48 395 0.90
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
Found at i:40570096 original size:29 final size:28
Alignment explanation
Indices: 40570058--40570160 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
40570048 GTGACGAGAT
* *
40570058 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
40570087 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
40570116 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
40570145 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40570161 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:40578133 original size:29 final size:28
Alignment explanation
Indices: 40578095--40578197 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
40578085 GTGACGAGAT
* *
40578095 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
40578124 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
40578153 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
40578182 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40578198 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:40582041 original size:2 final size:2
Alignment explanation
Indices: 40582034--40582071 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
40582024 TATTCGAAGG
40582034 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40582072 AGACAGCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:40587080 original size:56 final size:56
Alignment explanation
Indices: 40586814--40587077 Score: 395
Period size: 56 Copynumber: 4.7 Consensus size: 56
40586804 GAAATATATG
* *
40586814 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATATGT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
*
40586870 TGGCATCGATATGTGACTCTGATATAAGTGTGCGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* * *
40586926 TGGCATCGATATGTGA-TACCGATATATGTGTACGAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGACT-CTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* * * *
40586982 TGGCATCAATATGTGACTCTGATATATGTATGCGAGTAAGACCACGTTTAATACTT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* * *
40587038 TGGCATCGATATGTGATTCCGATATATGTGTACGAGTAAG
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAG
40587078 ACCCTGTATG
Statistics
Matches: 187, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
55 1 0.01
56 185 0.99
57 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
Found at i:40587109 original size:112 final size:112
Alignment explanation
Indices: 40586814--40587077 Score: 438
Period size: 112 Copynumber: 2.4 Consensus size: 112
40586804 GAAATATATG
* * * *
40586814 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATATGTTGGCATCGA
1 TGGCATCGATATGTGATTCCGATATATGTGTACGAGTAAGTCCACGTTTCATACGTTGGCATCGA
* *
40586879 TATGTGACTCTGATATAAGTGTGCGAGTAAGTCCACGTTTAATACGT
66 TATGTGACTCTGATATAAGTATGCGAGTAAGACCACGTTTAATACGT
* *
40586926 TGGCATCGATATGTGATACCGATATATGTGTACGAGTAAGTCCACGTTTCATACGTTGGCATCAA
1 TGGCATCGATATGTGATTCCGATATATGTGTACGAGTAAGTCCACGTTTCATACGTTGGCATCGA
* *
40586991 TATGTGACTCTGATATATGTATGCGAGTAAGACCACGTTTAATACTT
66 TATGTGACTCTGATATAAGTATGCGAGTAAGACCACGTTTAATACGT
40587038 TGGCATCGATATGTGATTCCGATATATGTGTACGAGTAAG
1 TGGCATCGATATGTGATTCCGATATATGTGTACGAGTAAG
40587078 ACCCTGTATG
Statistics
Matches: 141, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 141 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (112 bp):
TGGCATCGATATGTGATTCCGATATATGTGTACGAGTAAGTCCACGTTTCATACGTTGGCATCGA
TATGTGACTCTGATATAAGTATGCGAGTAAGACCACGTTTAATACGT
Found at i:40588016 original size:16 final size:16
Alignment explanation
Indices: 40587995--40588027 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
40587985 TTGGATGGGG
*
40587995 TATGAATGTGTCTAAC
1 TATGAATGTGGCTAAC
40588011 TATGAATGTGGCTAAC
1 TATGAATGTGGCTAAC
40588027 T
1 T
40588028 TAGATGTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (16 bp):
TATGAATGTGGCTAAC
Found at i:40593099 original size:56 final size:56
Alignment explanation
Indices: 40593033--40593300 Score: 378
Period size: 56 Copynumber: 4.8 Consensus size: 56
40593023 ACCTGGAAGT
*
40593033 ATATG-TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTC
1 ATATGTTGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTA
* *
40593088 ATATGTTGGCATCAATATGTGACTCTGATATAAGTGTG-GAGTAAGTCCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTA
* * * * * *
40593143 ATACGTTGGCATTGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACGCTTC
1 ATATGTTGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTA
* * * *
40593199 ATACGTTGGGATCGATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTA
* * *
40593255 ATATGTTGGCATCTATATGTGATTCTGATATATGTGTACGAGTAAG
1 ATATGTTGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAG
40593301 ACCCTATATG
Statistics
Matches: 186, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
55 53 0.28
56 133 0.72
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (56 bp):
ATATGTTGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTA
Found at i:40593236 original size:111 final size:112
Alignment explanation
Indices: 40593038--40593300 Score: 413
Period size: 111 Copynumber: 2.4 Consensus size: 112
40593028 GAAGTATATG
* * * * *
40593038 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATATGTTGGCATCAA
1 TGGCATTGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACGCTTCATACGTTGGCATCAA
*
40593103 TATGTGACTCTGATATAAGTGTG-GAGTAAGTCCACGTTTAATACGT
66 TATGTGACTCTGATATAAGTGTGTGAGTAAGACCACGTTTAATACGT
* *
40593149 TGGCATTGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACGCTTCATACGTTGGGATCGA
1 TGGCATTGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACGCTTCATACGTTGGCATCAA
* *
40593214 TATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTAATATGT
66 TATGTGACTCTGATATAAGTGTGTGAGTAAGACCACGTTTAATACGT
40593261 TGGCATCT-ATATGTGATTCTGATATATGTGTACGAGTAAG
1 TGGCAT-TGATATGTGATTCTGATATATGTGTACGAGTAAG
40593301 ACCCTATATG
Statistics
Matches: 140, Mismatches: 10, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
111 80 0.57
112 59 0.42
113 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (112 bp):
TGGCATTGATATGTGATTCTGATATATGTGTACGAGTAAGTCCACGCTTCATACGTTGGCATCAA
TATGTGACTCTGATATAAGTGTGTGAGTAAGACCACGTTTAATACGT
Found at i:40602221 original size:23 final size:23
Alignment explanation
Indices: 40602189--40602234 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
40602179 CAATCATTGA
40602189 TCTTTAGCCATCCCTCACCACCC
1 TCTTTAGCCATCCCTCACCACCC
*
40602212 TCTTTGGCCATCCCTCACCACCC
1 TCTTTAGCCATCCCTCACCACCC
40602235 CAAACTAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.52, G:0.07, T:0.26
Consensus pattern (23 bp):
TCTTTAGCCATCCCTCACCACCC
Found at i:40604182 original size:23 final size:23
Alignment explanation
Indices: 40604138--40604182 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
40604128 TTATATTAAA
**
40604138 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
40604161 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
40604183 ATTTAGTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:40604724 original size:5 final size:5
Alignment explanation
Indices: 40604714--40604741 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
40604704 ATCAAATAAT
40604714 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
40604742 GGATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:40609400 original size:71 final size:71
Alignment explanation
Indices: 40609316--40609457 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
40609306 ACTATTTCAT
40609316 TTGATTGTTCATATTTCTTAATTAAAATGCAAACGATTTCTAGACATAGAAGACTGTTCGTATAC
1 TTGATTGTTCATATTTCTTAATTAAAATGCAAACGATTTCTAGACATAGAAGACTGTTCGTATAC
40609381 TTATAA
66 TTATAA
40609387 TTGATTGTTCATATTTCTTAATTAAAATGCAAACGATTTCTAGACATAGAAGACTGTTCGTATAC
1 TTGATTGTTCATATTTCTTAATTAAAATGCAAACGATTTCTAGACATAGAAGACTGTTCGTATAC
40609452 TTATAA
66 TTATAA
40609458 ACTGATTCTA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (71 bp):
TTGATTGTTCATATTTCTTAATTAAAATGCAAACGATTTCTAGACATAGAAGACTGTTCGTATAC
TTATAA
Found at i:40610342 original size:46 final size:46
Alignment explanation
Indices: 40610282--40610676 Score: 493
Period size: 46 Copynumber: 9.0 Consensus size: 46
40610272 TTTGACGTGA
* * * * * *
40610282 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * * *
40610328 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
40610374 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
40610420 TGCCATGGTATC-TTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
40610465 TGCCATGGTATCTTCCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
40610511 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
40610549 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
40610595 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
40610633 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
40610677 AGAGCACACT
Statistics
Matches: 316, Mismatches: 15, Indels: 36
0.86 0.04 0.10
Matches are distributed among these distances:
38 65 0.21
39 3 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 46 0.15
46 186 0.59
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:40610513 original size:137 final size:130
Alignment explanation
Indices: 40610282--40610666 Score: 484
Period size: 137 Copynumber: 3.0 Consensus size: 130
40610272 TTTGACGTGA
* * * * * *
40610282 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
* * * * *
40610346 CCATGGTCTTACTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTC
65 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA--C---AC
40610411 ATGTCACGT
125 A--T-ACGT
* *
40610420 TGCCATGGTATC-TTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTCCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
40610484 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATAGGT
66 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATACGT
*
40610549 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
40610614 CATGGTCTT--ACA---C--A-CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
66 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
40610667 TTCATATCAG
Statistics
Matches: 228, Mismatches: 17, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
122 39 0.17
123 1 0.00
125 1 0.00
128 3 0.01
129 15 0.07
130 59 0.26
132 2 0.01
135 1 0.00
136 3 0.01
137 94 0.41
138 10 0.04
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (130 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATACGT
Found at i:40610558 original size:38 final size:38
Alignment explanation
Indices: 40610507--40610666 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
40610497 ATTTCATATC
40610507 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
40610545 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTT----A---CACAT
*
40610590 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
1 -AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
40610629 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
40610667 TTCATATCAG
Statistics
Matches: 112, Mismatches: 2, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
38 69 0.62
39 4 0.04
42 2 0.02
45 5 0.04
46 32 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:40610602 original size:84 final size:84
Alignment explanation
Indices: 40610460--40610676 Score: 407
Period size: 84 Copynumber: 2.6 Consensus size: 84
40610450 CATCTCATAT
*
40610460 CAGGTTGCCATGGTATCTTCCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
40610525 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
* *
40610544 TAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
40610609 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
40610628 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
40610677 AGAGCACACT
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 128 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTACACA
Found at i:40622886 original size:40 final size:40
Alignment explanation
Indices: 40622807--40623050 Score: 307
Period size: 40 Copynumber: 6.1 Consensus size: 40
40622797 CAGGATTTAA
* * *
40622807 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGAGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
40622846 CCGGATATAGTAACTCGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
40622886 CCGGATGTAATAACTCGTACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
40622926 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
40622966 CCGGATGTAATAACTCGCGCAAATGCCTTCTGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40623006 CC-GAAACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
40623047 CCGG
1 CCGG
40623051 TTATCATCCA
Statistics
Matches: 178, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 19 0.11
40 133 0.75
41 21 0.12
42 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40628558 original size:50 final size:50
Alignment explanation
Indices: 40628483--40628924 Score: 436
Period size: 50 Copynumber: 8.7 Consensus size: 50
40628473 TGAGAACACG
* * *
40628483 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGCTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGCTAGGTCACA
* * ** * * * *
40628533 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCTATAGCTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGC-TAGGTCACA
* * * * * *
40628584 TGTGTAGTACTAAGTGCAGGCTACTAGGTGTATCAAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGCTAGGTCACA
* * * * *
40628634 TGTATAGTACTAAGTGCAGGATACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGCTAGGTCACA
* * * * *
40628684 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGC-TAGGTCACA
* * *
40628735 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGCTAGGTCACA
* * * ** * **
40628785 TGTGTAGTACTAAGTGCATGCTACTATGCGTACCCGACAGCTTCA-ATCAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGC-T-AGGTCA-CA
* * *
40628837 TGTAGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATTGTTAGGCCACA
1 TGT-GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGCTAGGTCACA
* *
40628888 TGTGTAATACTAAGTGTAGGCTACTATGTGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
40628925 GAGCTTCGGT
Statistics
Matches: 313, Mismatches: 72, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
50 188 0.60
51 87 0.28
52 7 0.02
53 31 0.10
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGCTAGGTCACA
Found at i:40628659 original size:101 final size:100
Alignment explanation
Indices: 40628479--40628922 Score: 332
Period size: 101 Copynumber: 4.4 Consensus size: 100
40628469 ATTGTGAGAA
* * * * *
40628479 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGCTAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGCTAGGTCACATGTATAGTACT
* * * ** *
40628544 AAGTGTAGGCTACTATGCGTACCCTATAGCTTTGAT
66 AAGTGCAGGATACTACGCGTACCAGATAG-TTAGAT
* * * *
40628580 CACGTGTGTAGTACTAAGTGCAGGCTACTAGGTGTATCAAATGGTTAGGTCACGTGTATAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGCTAGGTCACATGTATAGTACT
* * *
40628645 AAGTGCAGGATACTACGTGTACCAGATTGTTAGGT
66 AAGTGCAGGATACTACGCGTACCAGATAGTTAGAT
* * * * ** * * * *
40628680 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGC-TAGGTCACATGTATAGTAC
* * * *
40628745 TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
65 TAAGTGCAGGATACTACGCGTACCAGATAGTTAGAT
* * * * * ** ** * **
40628781 CGCATGTGTAGTACTAAGTGCATGCTACTATGCGTACCCGACAGCTTCA-ATCAGTGTGTAGTAG
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGC-T-AGGTCA-CATGTA-TAG
* * * * * **
40628845 TACTAAGTGCAGGCTACTATGTGTACCAAATTGTTAGGC
62 TACTAAGTGCAGGATACTACGCGTACCAGATAGTTAGAT
* * * *
40628884 CACATGTGTAATACTAAGTGTAGGCTACTATGTGTACCA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
40628923 GAGAGCTTCG
Statistics
Matches: 292, Mismatches: 47, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
100 40 0.14
101 177 0.61
102 3 0.01
103 72 0.25
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGCTAGGTCACATGTATAGTACT
AAGTGCAGGATACTACGCGTACCAGATAGTTAGAT
Found at i:40628753 original size:151 final size:151
Alignment explanation
Indices: 40628479--40628922 Score: 541
Period size: 151 Copynumber: 2.9 Consensus size: 151
40628469 ATTGTGAGAA
*
40628479 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGCTAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACT
* * * *
40628544 AAGTGTAGGCTACTATGCGTACCCTATAGCTTTGATCACGTGTGTAGTACTAAGTGCAGGCTACT
66 AAGTGCAGGCTACTATGCGTACCCAATAGCTTAGATCACATGTGTAGTACTAAGTGCAGGCTACT
* *
40628609 AGGTGTATCAAATGGTTAGGT
131 ACGTGTACCAAATGGTTAGGT
* * *
40628630 CACGTGTATAGTACTAAGTGCAGGATACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACT
* *
40628695 AAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACATGTGTAGTACTAAGTGCAGGCTACT
66 AAGTGCAGGCTACTATGCGTACCCAATAGCTTAGATCACATGTGTAGTACTAAGTGCAGGCTACT
* *
40628760 ACGTGTACCAGATTGTTAGGT
131 ACGTGTACCAAATGGTTAGGT
* * * * * * ** * **
40628781 CGCATGTGTAGTACTAAGTGCATGCTACTATGCGTACCCGACAGCTTCA-ATCAGTGTGTAGTAG
1 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTG-TT-AGGTC-GCATGT-GTAG
* * * ** * *
40628845 TACTAAGTGCAGGCTACTATGTGTACCAAATTG-TTAGGCCACATGTGTAATACTAAGTGTAGGC
62 TACTAAGTGCAGGCTACTATGCGTACCCAATAGCTTAGATCACATGTGTAGTACTAAGTGCAGGC
*
40628909 TACTATGTGTACCA
127 TACTACGTGTACCA
40628923 GAGAGCTTCG
Statistics
Matches: 254, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
151 173 0.68
152 4 0.02
153 44 0.17
154 33 0.13
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (151 bp):
CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCAATAGCTTAGATCACATGTGTAGTACTAAGTGCAGGCTACT
ACGTGTACCAAATGGTTAGGT
Found at i:40628903 original size:103 final size:102
Alignment explanation
Indices: 40628629--40628931 Score: 448
Period size: 101 Copynumber: 3.0 Consensus size: 102
40628619 AATGGTTAGG
*
40628629 TCACGTGTA-TAGTACTAAGTGCAGGATACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 TCACGTGTAGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* *
40628693 CTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
66 CTAAGTGCAGGCTACTATGCGTACCCGACAGCTTCAA
*
40628730 TCACATGT-GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 TCACGTGTAGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
*
40628794 CTAAGTGCATGCTACTATGCGTACCCGACAGCTTCAA
66 CTAAGTGCAGGCTACTATGCGTACCCGACAGCTTCAA
* * * * * *
40628831 TCAGTGTGTAGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATTGTTAGGCCACATGTGTAAT
1 TCA-CGTGTAGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGT
* * * *
40628896 ACTAAGTGTAGGCTACTATGTGTACCAGAGAGCTTC
65 ACTAAGTGCAGGCTACTATGCGTACCCGACAGCTTC
40628932 GGTTACAAGG
Statistics
Matches: 182, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
101 98 0.54
102 3 0.02
103 81 0.45
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (102 bp):
TCACGTGTAGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACCCGACAGCTTCAA
Found at i:40628917 original size:26 final size:26
Alignment explanation
Indices: 40628845--40628919 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 26
40628835 TGTGTAGTAG
*
40628845 TACTAAGTGCAGGCTACTATGTGT-A
1 TACTAAGTGTAGGCTACTATGTGTAA
* * * *
40628870 -CCAAATTGTTAGGCCAC-ATGTGTAA
1 TACTAAGTG-TAGGCTACTATGTGTAA
40628895 TACTAAGTGTAGGCTACTATGTGTA
1 TACTAAGTGTAGGCTACTATGTGTA
40628920 CCAGAGAGCT
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
24 11 0.30
25 14 0.38
26 12 0.32
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (26 bp):
TACTAAGTGTAGGCTACTATGTGTAA
Found at i:40635346 original size:48 final size:48
Alignment explanation
Indices: 40635297--40635621 Score: 384
Period size: 48 Copynumber: 6.8 Consensus size: 48
40635287 TGTTAGTGCT
* * * * *
40635297 GATGCCATGTCCCAAACATGGTATTATACTAGCACACATATCATCGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* * * * * * *
40635345 GATGCCATGCCCCAGACATGGTCTTACGCTAGCATATATATCATTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* * * *
40635393 AATGCCATGTCCCAAACATGGTCTTACATTGGCACACATATCATTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* * *
40635441 GATGCCATCTCCCAGACATGATCTTACACTGGCACACATATCATCACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* *
40635489 GATGCCATGTCCCAGACATGGTCTTACACTGGTACACATATCATCTCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* * * *
40635537 AATGCCATGTCCCAAACATGGTCATACACTGGCACACATGTCATC-CC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* * *
40635584 GATGCCATGCCCCAGACATGATCTTGCACTGGCA-ACAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACAT
40635622 TGCAGCTTGT
Statistics
Matches: 236, Mismatches: 41, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
46 4 0.02
47 30 0.13
48 202 0.86
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
Found at i:40640150 original size:39 final size:39
Alignment explanation
Indices: 40640096--40640239 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
40640086 GAATGTTCGA
40640096 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
40640135 GTGATATCCGGGCTAAGCCCGAAGGCTATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
40640174 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
40640213 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
40640240 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:40640186 original size:78 final size:79
Alignment explanation
Indices: 40640097--40640279 Score: 280
Period size: 78 Copynumber: 2.3 Consensus size: 79
40640087 AATGTTCGAG
40640097 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGG-
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
40640160 CTATTGTGCGAGTTA
66 CT-TTGTGCGAGTTA
*
40640175 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
40640240 CTTTGTGCGGGTTA
66 CTTTGTGCGAGTTA
** * *
40640254 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
40640280 GTTTGAACGA
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
78 54 0.56
79 31 0.32
80 11 0.11
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
CTTTGTGCGAGTTA
Found at i:40642321 original size:22 final size:23
Alignment explanation
Indices: 40642296--40642341 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
40642286 CAACCAAAAC
40642296 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
40642318 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
40642341 A
1 A
40642342 TGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:40643072 original size:59 final size:54
Alignment explanation
Indices: 40642940--40643072 Score: 144
Period size: 54 Copynumber: 2.4 Consensus size: 54
40642930 TTGCAGTGGG
* * *
40642940 ATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCAGG
1 ATTACCAGTCCAGGCTAAATCCCCTGCAATACAAACTCATAGAGTATGGTCAGA
* *
40642994 ATTACCAGTCTAGGCTAAATCCCCTGCAATGACAATTACTC-TAATGAGCT-TGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAAT-ACAA--ACTCAT-A-GAG-TATGG-TCAGA
40643053 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
40643073 TCAGACCCTA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
54 29 0.44
55 3 0.05
56 1 0.02
57 5 0.08
58 5 0.08
59 23 0.35
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (54 bp):
ATTACCAGTCCAGGCTAAATCCCCTGCAATACAAACTCATAGAGTATGGTCAGA
Found at i:40644589 original size:10 final size:10
Alignment explanation
Indices: 40644574--40644604 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
40644564 CTACTGGAAT
40644574 TGAAGAGAAA
1 TGAAGAGAAA
40644584 TGAAGAGAAA
1 TGAAGAGAAA
40644594 TGAAGAGAAA
1 TGAAGAGAAA
40644604 T
1 T
40644605 CTAGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (10 bp):
TGAAGAGAAA
Found at i:40647058 original size:46 final size:46
Alignment explanation
Indices: 40647005--40647268 Score: 238
Period size: 46 Copynumber: 5.7 Consensus size: 46
40646995 TGGTCATCCT
*
40647005 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
* * *
40647051 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCCA
*
40647098 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
* * * * * *
40647144 AACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC--GTC--CA
* * *
40647190 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
* * *
40647236 AGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
40647269 GTGGGTTACG
Statistics
Matches: 175, Mismatches: 26, Indels: 34
0.74 0.11 0.14
Matches are distributed among these distances:
42 6 0.03
43 7 0.04
44 2 0.01
45 5 0.03
46 107 0.61
47 31 0.18
48 5 0.03
49 3 0.02
50 6 0.03
51 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
Found at i:40647158 original size:93 final size:93
Alignment explanation
Indices: 40646999--40647261 Score: 438
Period size: 93 Copynumber: 2.8 Consensus size: 93
40646989 GATATTTGGT
* * *
40646999 CATCCTAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCAAACTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
*
40647064 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAAATGTAACTAGG
*
40647092 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
40647157 GAGTCCGAGTTCGTGAAATGTAACTAGG
66 GAGTCCGAGTTCGTGAAATGTAACTAGG
* * *
40647185 CAT-CAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTCGTTGAGTT
1 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
*
40647249 GAGTTCGAGTTCG
66 GAGTCCGAGTTCG
40647262 CTTATGGGTG
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
92 69 0.43
93 91 0.57
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAAATGTAACTAGG
Found at i:40654156 original size:29 final size:29
Alignment explanation
Indices: 40654004--40654145 Score: 189
Period size: 29 Copynumber: 5.0 Consensus size: 29
40653994 AACCCTACAT
* *
40654004 ACATGCATATGGCCCATTTGGCCC--ATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* ** *
40654031 TCATTCATATGGCTTATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
40654060 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
40654089 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
40654118 ATATTCATATGACCCATTAGGCCCAAAT
1 ACATTCATATGGCCCATTAGGCCCAAAT
40654146 AACCTTTATA
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 19 0.19
29 82 0.81
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:40654247 original size:18 final size:19
Alignment explanation
Indices: 40654215--40654260 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
40654205 TTGCCTATTA
*
40654215 TGGGCCCA-ATAGCCCA-T
1 TGGGCCCATTTAGCCCATT
40654232 TGGGCCCATTTAGCCCATT
1 TGGGCCCATTTAGCCCATT
*
40654251 TCGGCCCATT
1 TGGGCCCATT
40654261 AGGCCAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 10 0.40
ACGTcount: A:0.17, C:0.35, G:0.22, T:0.26
Consensus pattern (19 bp):
TGGGCCCATTTAGCCCATT
Found at i:40654262 original size:18 final size:17
Alignment explanation
Indices: 40654217--40654262 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
40654207 GCCTATTATG
* *
40654217 GGCCCAATAGCCCATTG
1 GGCCCATTAGCCCATTC
40654234 GGCCCATTTAGCCCATTTC
1 GGCCCA-TTAGCCCA-TTC
40654253 GGCCCATTAG
1 GGCCCATTAG
40654263 GCCAATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 11 0.44
19 8 0.32
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.24
Consensus pattern (17 bp):
GGCCCATTAGCCCATTC
Found at i:40655654 original size:16 final size:16
Alignment explanation
Indices: 40655633--40655664 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
40655623 AAATTTAAGT
40655633 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
40655649 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
40655665 GCGTTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.38, T:0.50
Consensus pattern (16 bp):
TTTCGGGATTTTTGGG
Found at i:40658169 original size:14 final size:14
Alignment explanation
Indices: 40658150--40658176 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40658140 GTTTGTTTTG
40658150 GATTAAATTGAATA
1 GATTAAATTGAATA
40658164 GATTAAATTGAAT
1 GATTAAATTGAAT
40658177 GAACTTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (14 bp):
GATTAAATTGAATA
Found at i:40663554 original size:71 final size:71
Alignment explanation
Indices: 40663466--40663629 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
40663456 GAGATGTATC
40663466 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40663531 AGGACA
66 AGGACA
*
40663537 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTTGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40663602 AGGACA
66 AGGACA
*
40663608 CCATATAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
40663630 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:40671467 original size:40 final size:40
Alignment explanation
Indices: 40671412--40671548 Score: 206
Period size: 40 Copynumber: 3.5 Consensus size: 40
40671402 GGATGATAAC
40671412 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
*
40671452 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
* *
40671492 CGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATA-T
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATT
* *
40671531 CCGGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
40671549 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 18 0.20
40 72 0.80
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
Found at i:40679291 original size:40 final size:40
Alignment explanation
Indices: 40679231--40679372 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
40679221 TATTCGGATG
* *
40679231 ATAACCGGGCTAAGTGCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
40679271 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
40679311 ATATCCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
** *
40679351 ATATTC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
40679373 TACTTGGTTT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 17 0.18
40 77 0.82
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:40686077 original size:28 final size:28
Alignment explanation
Indices: 40686045--40686128 Score: 150
Period size: 28 Copynumber: 3.0 Consensus size: 28
40686035 GCGTAGATCA
40686045 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
40686073 CGAAATTACCCCGAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
40686101 CGAAATTACCCCTAAAGAGCAATATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40686129 TGATATACCC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.18
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:40694213 original size:28 final size:28
Alignment explanation
Indices: 40694181--40694239 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
40694171 GCGTAGATCA
40694181 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40694209 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40694237 CGA
1 CGA
40694240 TATACCCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:40703123 original size:40 final size:40
Alignment explanation
Indices: 40703039--40703372 Score: 434
Period size: 40 Copynumber: 8.5 Consensus size: 40
40703029 TGGATGATAA
*
40703039 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * *
40703080 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40703120 CCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
40703160 CTGGGCTAAGT-CCGAAGGCATTTGTACGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
40703199 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40703238 CC-GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40703277 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40703317 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
40703356 -C-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
40703373 TACTTGGCTT
Statistics
Matches: 262, Mismatches: 25, Indels: 16
0.86 0.08 0.05
Matches are distributed among these distances:
37 13 0.05
38 27 0.10
39 72 0.27
40 123 0.47
41 24 0.09
42 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40703196 original size:79 final size:80
Alignment explanation
Indices: 40703039--40703339 Score: 459
Period size: 79 Copynumber: 3.8 Consensus size: 80
40703029 TGGATGATAA
*
40703039 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCAT
**
40703102 TTGCGCGAGTTATTACAT
63 TTGTACGAGTTATTACAT
* *
40703120 CCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATATCTGGGCTAAGT-CCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
40703184 TACGAGTTATTACAT
66 TACGAGTTATTACAT
40703199 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTACTATATCC-GGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
40703262 TACGAGTTACTATAT
66 TACGAGTTATTACAT
* *
40703277 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
40703340 GAGCGAGTAG
Statistics
Matches: 204, Mismatches: 11, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
77 8 0.04
78 65 0.32
79 67 0.33
80 37 0.18
81 24 0.12
82 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TACGAGTTATTACAT
Found at i:40703347 original size:157 final size:160
Alignment explanation
Indices: 40703039--40703339 Score: 466
Period size: 157 Copynumber: 1.9 Consensus size: 160
40703029 TGGATGATAA
40703039 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
* * * *
40703104 GCGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATATCTGGGCTAA
66 GCACGAGTTACTACATCCGGGCTAAGTCCCGAAGGCAATTGTGAGAGTTACTATATCCGGGCTAA
40703169 GTCCGAAGGCATTTGTACGAGTTATTACAT
131 GTCCGAAGGCATTTGTACGAGTTATTACAT
* *
40703199 CCGGGCTAAGTCCCGAAGGCA-TTTGTGC-AGTTACTA-TATCC-GGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
* * *
40703260 TGTACGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCGGGCTA
65 TGCACGAGTTACTACATCCGGGCTAAGTCCCGAAGGCAATTGTGAGAGTTACTATATCCGGGCTA
*
40703325 TGTCCCGAAGGCATT
130 AGT-CCGAAGGCATT
40703340 GAGCGAGTAG
Statistics
Matches: 129, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
157 81 0.63
158 21 0.16
159 6 0.05
160 21 0.16
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (160 bp):
CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
GCACGAGTTACTACATCCGGGCTAAGTCCCGAAGGCAATTGTGAGAGTTACTATATCCGGGCTAA
GTCCGAAGGCATTTGTACGAGTTATTACAT
Found at i:40706185 original size:47 final size:46
Alignment explanation
Indices: 40705987--40706343 Score: 202
Period size: 47 Copynumber: 7.6 Consensus size: 46
40705977 GGATATATTG
*
40705987 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-TATG-GTA
* * * * * *
40706037 CTGATGCATGTCCTAGACATGCCTTACACTAGCAAAACTC-CTA--G--
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC---TCTCATTATGGTA
* * * * *
40706081 CTGATGCGTGTCCCAGACA-GTCTTACAGTGGCTATC-TCTATCGAG-G
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-TAT-G-GTA
* * *
40706127 CCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCT-GTA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-TATGGTA
40706173 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGT-
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT--TATGGTA
* * * * * * *
40706222 -TGATGCATGCCCCAGACATGTCTTGCACTAGC-C-CTTGTCTGGATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-TATGG-TA
* *
40706267 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATTATGGTA
* *
40706314 TCTGAAGCATGTCCCAGACATGTCTTACAC
1 -CCGATGCATGTCCCAGACATGTCTTACAC
40706344 CGGCACACAA
Statistics
Matches: 238, Mismatches: 45, Indels: 52
0.71 0.13 0.16
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
43 14 0.06
44 20 0.08
45 3 0.01
46 48 0.20
47 66 0.28
48 52 0.22
49 19 0.08
50 9 0.04
51 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATTATGGTA
Found at i:40706236 original size:94 final size:93
Alignment explanation
Indices: 40705987--40706343 Score: 363
Period size: 94 Copynumber: 3.8 Consensus size: 93
40705977 GGATATATTG
*
40705987 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGATGCATGTCCTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATG-GT-CTGATGCATGTCCCA
* * * *
40706052 GACATGCCTTACACTAGCA-AAACTC-CTA
64 GACATGTCTTACACTAGCACCATCTCTGTA
* * * * * * *
40706080 GCTGATG-CGTGTCCCAGACA--GTCTTACAGTGGCTATC-TCTATCGAGGCCGATGCATGTCCC
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAT-G-GTCTGATGCATGTCCC
* *
40706141 AGACATGTCTTACTCTGGCACTCATCTCTGTA
63 AGACATGTCTTACACTAGCAC-CATCTCTGTA
*
40706173 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGT-TGATGCATGCCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATGGTCTGATGCATGTCCCAG
* * * *
40706237 ACATGTCTTGCACTAGC-CCTTGTCTGGATG
65 ACATGTCTTACACTAGCACCATCTCT-G-TA
* * *
40706267 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-ATGTATCTGAAGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATG-GTCTGATGCATGTCCCAG
40706331 ACATGTCTTACAC
65 ACATGTCTTACAC
40706344 CGGCACACAA
Statistics
Matches: 216, Mismatches: 34, Indels: 26
0.78 0.12 0.09
Matches are distributed among these distances:
90 33 0.15
91 17 0.08
92 17 0.08
93 30 0.14
94 98 0.45
95 16 0.07
96 2 0.01
97 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGGTCTGATGCATGTCCCAGA
CATGTCTTACACTAGCACCATCTCTGTA
Found at i:40709191 original size:49 final size:50
Alignment explanation
Indices: 40709092--40709192 Score: 168
Period size: 49 Copynumber: 2.0 Consensus size: 50
40709082 AAATGGCCGA
*
40709092 AATTATTTAAGCAACTAAAGAAAATTAAAAACAACTTAATTAATTAAACT
1 AATTATTTAAACAACTAAAGAAAATTAAAAACAACTTAATTAATTAAACT
* *
40709142 AATTATTTAAATAACTAAAGACAATT-AAAACAACTTAATTAATTAAACT
1 AATTATTTAAACAACTAAAGAAAATTAAAAACAACTTAATTAATTAAACT
40709191 AA
1 AA
40709193 AATAACTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 25 0.52
50 23 0.48
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (50 bp):
AATTATTTAAACAACTAAAGAAAATTAAAAACAACTTAATTAATTAAACT
Found at i:40713643 original size:40 final size:40
Alignment explanation
Indices: 40713606--40713791 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
40713596 GCTACTCGTT
40713606 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * * *
40713646 CAAATGCCTTCAGGACTTAACCCGGATTTAGTGACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40713686 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
40713726 CCAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40713767 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40713792 CATCATTCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 111 0.89
41 11 0.09
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Done.