Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 47 of 218
Found at i:14517103 original size:14 final size:15
Alignment explanation
Indices: 14517080--14517112 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14517070 ATCTATGCTT
14517080 TTCCAAATAAGGT-C
1 TTCCAAATAAGGTCC
*
14517094 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
14517109 TTCC
1 TTCC
14517113 CAATTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:14522265 original size:3 final size:3
Alignment explanation
Indices: 14522240--14522287 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
14522230 GCGCAAGAAT
* * *
14522240 ATA AAA ATA AAA ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14522288 CAAGATTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:14522744 original size:22 final size:21
Alignment explanation
Indices: 14522709--14522823 Score: 89
Period size: 19 Copynumber: 5.7 Consensus size: 21
14522699 AAAAGGTATC
* * *
14522709 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
14522730 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
14522753 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
14522772 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
14522791 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
14522810 TACATATCATATCT
1 TACAAATCATATCT
14522824 AAGATTGCAT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
19 54 0.66
21 4 0.05
22 15 0.18
23 9 0.11
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:14522769 original size:19 final size:19
Alignment explanation
Indices: 14522745--14522836 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
14522735 AATCATATCT
14522745 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
14522764 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
14522783 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
14522802 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
14522821 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
14522837 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14522793 original size:38 final size:38
Alignment explanation
Indices: 14522738--14522836 Score: 184
Period size: 38 Copynumber: 2.7 Consensus size: 38
14522728 ATTACAAAAT
14522738 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTA
14522774 CATATCATATCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTA
14522812 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
14522837 CTTGAAGATT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 54 0.89
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTA
Found at i:14524730 original size:23 final size:22
Alignment explanation
Indices: 14524703--14524745 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
14524693 CTTTATTTTT
*
14524703 TTTAATATTTATATTGTTTTTAA
1 TTTAAAATTTA-ATTGTTTTTAA
*
14524726 TTTAAAATTTAATTTTTTTT
1 TTTAAAATTTAATTGTTTTT
14524746 TCATATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTAAAATTTAATTGTTTTTAA
Found at i:14528613 original size:12 final size:12
Alignment explanation
Indices: 14528598--14528628 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14528588 GGGATTTTAT
*
14528598 TTTTTCTTTTCG
1 TTTTTCTTTTCA
14528610 TTTTTCTTTTCA
1 TTTTTCTTTTCA
14528622 TTTTTCT
1 TTTTTCT
14528629 GTAAAGGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTTCA
Found at i:14542223 original size:87 final size:87
Alignment explanation
Indices: 14542076--14542400 Score: 445
Period size: 87 Copynumber: 3.7 Consensus size: 87
14542066 CTGCGTTAAC
* * * * *
14542076 AGTGGAGCAGATCGAAGACAGCAAATCTTATCTTCCCTAGGAGTAGGGAAACATATTTAAGCCAT
1 AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
14542141 TAATCCTATCTCCCTAAGCAAT
66 TAATCCTATCTCCCTAAGCAAT
* * * *
14542163 TGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAT
1 AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
14542228 TAATCCTATCTCCCTAAGCAAT
66 TAATCCTATCTCCCTAAGCAAT
* * * *
14542250 AGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAAGATTAGGGAAACAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
** *
14542315 TGGTTCTATCTCCCTAAGCAAT
66 TAATCCTATCTCCCTAAGCAAT
* * * * *
14542337 AGTGAAGCAGATCCAAGACGGCAAACCAT-ATCTTCCCCAATAATAGGGAAACAGATTTAAGCCA
1 AGTGGAGCAGATCGAAGACGGCAAATC-TCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCA
14542401 CAAATACTAC
Statistics
Matches: 216, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 215 1.00
88 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (87 bp):
AGTGGAGCAGATCGAAGACGGCAAATCTCATCTTCCCCAAGAGTAGGGAAACAGATTTAAGCCAT
TAATCCTATCTCCCTAAGCAAT
Found at i:14542985 original size:12 final size:12
Alignment explanation
Indices: 14542963--14542998 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
14542953 CGGGGAGGGA
14542963 TTTT-ATTTTTC
1 TTTTCATTTTTC
*
14542974 TTTTCGTTTTTC
1 TTTTCATTTTTC
14542986 TTTTCATTTTTC
1 TTTTCATTTTTC
14542998 T
1 T
14542999 GTAAAAGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTTCATTTTTC
Found at i:14547019 original size:25 final size:25
Alignment explanation
Indices: 14546963--14547023 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
14546953 AGCTCTTATG
* * * *
14546963 AGCTTACCGATACTCAGCTTGTACA
1 AGCTTACCGTTACTCAGCTCGAAAA
* *
14546988 AGGTTACCGTTATTCAGCTCGAAAA
1 AGCTTACCGTTACTCAGCTCGAAAA
14547013 AGCTTACCGTT
1 AGCTTACCGTT
14547024 TATAACTCGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (25 bp):
AGCTTACCGTTACTCAGCTCGAAAA
Found at i:14555807 original size:22 final size:24
Alignment explanation
Indices: 14555753--14555807 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
14555743 TATATAACTG
14555753 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
14555775 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
14555797 ATAATATATAT
1 ATAATATATAT
14555808 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:14556108 original size:3 final size:3
Alignment explanation
Indices: 14556100--14556145 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
14556090 ACTAATGTAC
*
14556100 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14556146 TGAAAATAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:14557040 original size:35 final size:35
Alignment explanation
Indices: 14556994--14557062 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
14556984 GGGTGTGTGA
14556994 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
14557029 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
14557063 AGAGGCAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.51, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:14558128 original size:12 final size:12
Alignment explanation
Indices: 14558111--14558143 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14558101 ATTTTTTATT
14558111 TATAAATATTAA
1 TATAAATATTAA
*
14558123 TATAAATATAAA
1 TATAAATATTAA
14558135 T-TAAATATT
1 TATAAATATT
14558144 TTATTATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAATATTAA
Found at i:14562005 original size:14 final size:15
Alignment explanation
Indices: 14561969--14562005 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
14561959 TGGCACATAG
14561969 AATTA-ATTTTATTT
1 AATTATATTTTATTT
14561983 AAGTTATATTTT-TTT
1 AA-TTATATTTTATTT
14561998 AATTATAT
1 AATTATAT
14562006 GATTATCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
AATTATATTTTATTT
Found at i:14562070 original size:8 final size:8
Alignment explanation
Indices: 14562059--14562099 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
14562049 CATGAATTTT
14562059 AAAATTGA
1 AAAATTGA
14562067 AAAATTG-
1 AAAATTGA
14562074 AAAATTGA
1 AAAATTGA
14562082 AAAATTGA
1 AAAATTGA
*
14562090 GAAATT-A
1 AAAATTGA
14562097 AAA
1 AAA
14562100 TTTCTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 10 0.33
8 20 0.67
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
AAAATTGA
Found at i:14562079 original size:15 final size:15
Alignment explanation
Indices: 14562059--14562099 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
14562049 CATGAATTTT
14562059 AAAATTGAAAAATTG
1 AAAATTGAAAAATTG
14562074 AAAATTGAAAAATTG
1 AAAATTGAAAAATTG
14562089 AGAAATT-AAAA
1 A-AAATTGAAAA
14562100 TTTCTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (15 bp):
AAAATTGAAAAATTG
Found at i:14564001 original size:24 final size:25
Alignment explanation
Indices: 14563973--14564022 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
14563963 TTTTTATATT
*
14563973 ATATAAGA-AAAAAGATTATAGATA
1 ATATAAGATAAAAAAATTATAGATA
*
14563997 ATATAAGATTAAAAAAATTGTAGATA
1 ATATAAGA-TAAAAAAATTATAGATA
14564023 TTTTGAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (25 bp):
ATATAAGATAAAAAAATTATAGATA
Found at i:14570376 original size:14 final size:14
Alignment explanation
Indices: 14570342--14570370 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14570332 TACTTGCAAG
14570342 TTCAACTAACCAAC
1 TTCAACTAACCAAC
14570356 TTCAACTAACCAAC
1 TTCAACTAACCAAC
14570370 T
1 T
14570371 GTAACTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (14 bp):
TTCAACTAACCAAC
Found at i:14571212 original size:22 final size:24
Alignment explanation
Indices: 14571187--14571231 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
14571177 TTTGTTTAAA
14571187 TATATTTTA-ATTT-TTAATTTAT
1 TATATTTTATATTTATTAATTTAT
14571209 TATATTTTATATTTAGTTAATTT
1 TATATTTTATATTTA-TTAATTT
14571232 TAATTTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
25 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATTTTATATTTATTAATTTAT
Found at i:14571222 original size:16 final size:15
Alignment explanation
Indices: 14571193--14571242 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
14571183 TAAATATATT
14571193 TTAATTTTTAATTTA-
1 TTAA-TTTTAATTTAG
14571208 TTATATTTTATATTTAG
1 TTA-ATTTTA-ATTTAG
14571225 TTAATTTTAATTTTAG
1 TTAATTTTAA-TTTAG
14571241 TT
1 TT
14571243 TATTCCACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 9 0.29
16 19 0.61
17 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (15 bp):
TTAATTTTAATTTAG
Found at i:14572837 original size:87 final size:87
Alignment explanation
Indices: 14572690--14572909 Score: 253
Period size: 87 Copynumber: 2.5 Consensus size: 87
14572680 TGCATTGCGA
* * * **
14572690 TAAACCGCTGTA-CAGACATGTTGTAGTTTAAACTGCCAAATCAGATAATAACACGTAGCAAAAC
1 TAAACCGCTGTACCA-ATAAGTTGTAG-TTAAACTGCCAGATCAGATAATAACACACAGCAAAAC
* *
14572754 TGACGTATATGTAGTACAGTGTGG
64 TGACGTACATGCAGTACAGTGTGG
* * * * * *
14572778 TAAACTGCTGTACTAATAAGTTGTAGTTAAATTACCAGATCAGATAATAGCACACAGCAAAGCTG
1 TAAACCGCTGTACCAATAAGTTGTAGTTAAACTGCCAGATCAGATAATAACACACAGCAAAACTG
*
14572843 ACGTACATGCGGTACAGTGTGG
66 ACGTACATGCAGTACAGTGTGG
* * **
14572865 TAAACCGTTGTACCGATAAGTTACAGTTAAACTGCCAGATCAGAT
1 TAAACCGCTGTACCAATAAGTTGTAGTTAAACTGCCAGATCAGAT
14572910 CAAAATCAGT
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
87 88 0.81
88 20 0.18
89 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (87 bp):
TAAACCGCTGTACCAATAAGTTGTAGTTAAACTGCCAGATCAGATAATAACACACAGCAAAACTG
ACGTACATGCAGTACAGTGTGG
Found at i:14584647 original size:22 final size:21
Alignment explanation
Indices: 14584622--14584664 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
14584612 AAATATGATT
*
14584622 TATTTTATTTTAACCACTTTTA
1 TATTTTAATTTAACCA-TTTTA
14584644 TATTTTAATTTAACCATTTTA
1 TATTTTAATTTAACCATTTTA
14584665 ATTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTAATTTAACCATTTTA
Found at i:14585125 original size:17 final size:18
Alignment explanation
Indices: 14585092--14585132 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14585082 TGTTATTTAT
14585092 GGGTTTTTAGGGTTGTTA
1 GGGTTTTTAGGGTTGTTA
*
14585110 GGGTTTTTAGTG-TGTTA
1 GGGTTTTTAGGGTTGTTA
*
14585127 AGGTTT
1 GGGTTT
14585133 ATGGTTAACG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.51
Consensus pattern (18 bp):
GGGTTTTTAGGGTTGTTA
Found at i:14585212 original size:32 final size:32
Alignment explanation
Indices: 14585171--14585253 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
14585161 GGGTTTCCCA
*
14585171 TTGTTATCATTTCACAAAATTG-AAGTTG-TAAT
1 TTGTTATCATTTCACAAAA-TGAAAGCTGAT-AT
14585203 TTGTTATCATTTCACAAAATGAAAGCTGATAT
1 TTGTTATCATTTCACAAAATGAAAGCTGATAT
*
14585235 TTGTTATCATTTCATAAAA
1 TTGTTATCATTTCACAAAA
14585254 CCACATGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
31 2 0.04
32 44 0.94
33 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (32 bp):
TTGTTATCATTTCACAAAATGAAAGCTGATAT
Found at i:14587578 original size:47 final size:47
Alignment explanation
Indices: 14587525--14587617 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
14587515 TGTAAAAAAT
* *
14587525 AATTAACAAGAAAAATTAATGTTTTTGCTTACTTTTTATACAAATAA
1 AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATAA
14587572 AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATA
1 AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATA
14587618 GTATCGTTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (47 bp):
AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATAA
Found at i:14590462 original size:39 final size:39
Alignment explanation
Indices: 14590404--14590491 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
14590394 TTCACACATT
* *
14590404 GAGCTTGCATATCGAGCTTGCACATTGGGCTCGTGTATC
1 GAGCTAGCATATCGAGCTTGCACATTGGGCTCGTATATC
14590443 GAGCTAGCATATC-ATGCTTGCACATTGGGCTCGTATATC
1 GAGCTAGCATATCGA-GCTTGCACATTGGGCTCGTATATC
*
14590482 GAGCTCGCAT
1 GAGCTAGCAT
14590492 GGCGTTAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.02
39 44 0.98
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (39 bp):
GAGCTAGCATATCGAGCTTGCACATTGGGCTCGTATATC
Found at i:14591845 original size:22 final size:22
Alignment explanation
Indices: 14591817--14591859 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14591807 AATATATTTA
*
14591817 ATATTTATTTTTTTATTTAAAT
1 ATATTTATTTTCTTATTTAAAT
14591839 ATATTTATTTTCTTATTTAAA
1 ATATTTATTTTCTTATTTAAA
14591860 AATTAGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
ATATTTATTTTCTTATTTAAAT
Found at i:14600144 original size:40 final size:39
Alignment explanation
Indices: 14600084--14600224 Score: 128
Period size: 40 Copynumber: 3.6 Consensus size: 39
14600074 AACACACCAG
* * *
14600084 TTTGGCACCCAGTGCCTCATCAGATAATTCGAAGTAATAA
1 TTTGACACCCAATGCCTCATC-GATAATACGAAGTAATAA
* *
14600124 TTTGACACCCAATGTCTCATCGGCTAA-ACTGAAGT-A-AA
1 TTTGACACCCAATGCCTCATC-GATAATAC-GAAGTAATAA
* *
14600162 TTCG-CACCCAATGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAATGCCTCATCG-ATA-ATACGAAGTAATAA
* *
14600202 ATTGACACCCAATGTCTCATCGA
1 TTTGACACCCAATGCCTCATCGA
14600225 CTCGAAGCCA
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
36 1 0.01
37 17 0.21
38 11 0.14
39 4 0.05
40 32 0.40
41 16 0.20
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (39 bp):
TTTGACACCCAATGCCTCATCGATAATACGAAGTAATAA
Found at i:14600211 original size:41 final size:40
Alignment explanation
Indices: 14600089--14600224 Score: 129
Period size: 37 Copynumber: 3.5 Consensus size: 40
14600079 ACCAGTTTGG
* * *
14600089 CACCCAGTGCCTCATC-AGATAATTCGAAGTAATAATTTGA
1 CACCCAATGCCTCATCGA-ATAATCCGAAGTAATAAATTGA
* ** * *
14600129 CACCCAATGTCTCATCGGCTAAACTGAAG---TAAATTCG-
1 CACCCAATGCCTCATCGAATAATCCGAAGTAATAAATT-GA
14600166 CACCCAATGCCTCATCGAATATATCCGAAGTAATAAATTGA
1 CACCCAATGCCTCATCGAATA-ATCCGAAGTAATAAATTGA
*
14600207 CACCCAATGTCTCATCGA
1 CACCCAATGCCTCATCGA
14600225 CTCGAAGCCA
Statistics
Matches: 75, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
37 23 0.31
38 7 0.09
40 22 0.29
41 23 0.31
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (40 bp):
CACCCAATGCCTCATCGAATAATCCGAAGTAATAAATTGA
Found at i:14601234 original size:28 final size:27
Alignment explanation
Indices: 14601181--14601235 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
14601171 TTTACTAATC
* *
14601181 TATTTCATTATATTTACCTTATTATTA
1 TATTACATTATATTTACCTTAATATTA
14601208 TATTACATATATATTTA-CTTAAATATTA
1 TATTACAT-TATATTTACCTT-AATATTA
14601236 AGTAATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTACATTATATTTACCTTAATATTA
Found at i:14607211 original size:40 final size:40
Alignment explanation
Indices: 14607152--14607283 Score: 144
Period size: 40 Copynumber: 3.4 Consensus size: 40
14607142 AACACACAAG
* *
14607152 TTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* * * *
14607192 TTTGACACCTAGTGTCTCATCGGCTAAACTGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* *
14607230 TTCG-CACCCAGTGCCTCATCGAATATATCTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCTGAAGTAATAA
* *
14607270 ATTGACACTCAGTG
1 TTTGACACCCAGTG
14607284 TCTTATCAAC
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 17 0.23
38 13 0.18
39 2 0.03
40 33 0.45
41 8 0.11
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
Found at i:14608212 original size:9 final size:8
Alignment explanation
Indices: 14608197--14608261 Score: 51
Period size: 9 Copynumber: 7.5 Consensus size: 8
14608187 TTCTATTTTC
14608197 TTTATTTA
1 TTTATTTA
14608205 TTTCATTTA
1 TTT-ATTTA
*
14608214 CTTATTTA
1 TTTATTTA
14608222 TTTTATTATA
1 -TTTATT-TA
14608232 TTTACTTTA
1 TTTA-TTTA
14608241 -TTATTATA
1 TTTATT-TA
*
14608249 TTATATATA
1 TT-TATTTA
14608258 TTTA
1 TTTA
14608262 CTTAAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
7 2 0.04
8 15 0.32
9 23 0.49
10 7 0.15
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTATTTA
Found at i:14608234 original size:22 final size:23
Alignment explanation
Indices: 14608197--14608265 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
14608187 TTCTATTTTC
14608197 TTTA-TTTATT-TCATTTACTTA-
1 TTTATTTTATTAT-ATTTACTTAT
14608218 TTTATTTTATTATATTTACTTTAT
1 TTTATTTTATTATATTTAC-TTAT
*
14608242 TATTATATTATATATATTTACTTA
1 T-TTATTTTAT-TATATTTACTTA
14608266 AATATTAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 4 0.10
22 12 0.29
23 4 0.10
24 1 0.02
25 11 0.27
26 9 0.22
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTATTTTATTATATTTACTTAT
Found at i:14608235 original size:14 final size:14
Alignment explanation
Indices: 14608216--14608261 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14608206 TTCATTTACT
14608216 TATTTATTTTATTA
1 TATTTATTTTATTA
*
14608230 TATTTACTTTATTA
1 TATTTATTTTATTA
* *
14608244 T-TATATTATA-TA
1 TATTTATTTTATTA
14608256 TATTTA
1 TATTTA
14608262 CTTAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTATTTTATTA
Found at i:14608244 original size:26 final size:26
Alignment explanation
Indices: 14608197--14608264 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
14608187 TTCTATTTTC
14608197 TTTATT-TATTT-CATTTACTTATTTAT
1 TTTATTATATTTAC-TTTACTTA-TTAT
14608223 TTTATTATATTTACTTTA-TTATTAT
1 TTTATTATATTTACTTTACTTATTAT
*
14608248 ATTATATATATTTACTT
1 TTTAT-TATATTTACTT
14608265 AAATATTAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
25 8 0.21
26 20 0.53
27 9 0.24
28 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTATTATATTTACTTTACTTATTAT
Found at i:14608271 original size:26 final size:25
Alignment explanation
Indices: 14608219--14608272 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
14608209 ATTTACTTAT
* * *
14608219 TTATTTTATTATATTTACTTTATTA
1 TTATATTATTATATTTACTTAAATA
14608244 TTATATTATATATATTTACTTAAATA
1 TTATATTAT-TATATTTACTTAAATA
14608270 TTA
1 TTA
14608273 AGTAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATTATTATATTTACTTAAATA
Found at i:14608284 original size:26 final size:26
Alignment explanation
Indices: 14608229--14608286 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
14608219 TTATTTTATT
* * * *
14608229 ATATTTACTTTATTATTATATTATAT
1 ATATTTACTTAAATATTATATAATAC
14608255 ATATTTACTTAAATATTA-AGTAATAC
1 ATATTTACTTAAATATTATA-TAATAC
14608281 ATATTT
1 ATATTT
14608287 TATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATAATAC
Found at i:14608820 original size:12 final size:10
Alignment explanation
Indices: 14608791--14608816 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14608781 ATTTTAATGG
14608791 AAAAAATTCA
1 AAAAAATTCA
14608801 AAAAAATTCA
1 AAAAAATTCA
14608811 AAAAAA
1 AAAAAA
14608817 AATTATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:14609265 original size:20 final size:20
Alignment explanation
Indices: 14609240--14609279 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14609230 TGAAAAATGA
14609240 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14609260 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14609280 GAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:14610676 original size:16 final size:16
Alignment explanation
Indices: 14610653--14610700 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
14610643 AATATCCAAC
14610653 AAACTTAAAACATAAT
1 AAACTTAAAACATAAT
* * * *
14610669 AAATTTAATATATAAC
1 AAACTTAAAACATAAT
*
14610685 AAGCTTAAAACATAAT
1 AAACTTAAAACATAAT
14610701 CAATATCTAA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.29
Consensus pattern (16 bp):
AAACTTAAAACATAAT
Found at i:14610676 original size:32 final size:32
Alignment explanation
Indices: 14610640--14610700 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
14610630 TGTCAATCAT
*
14610640 TTTAATATCCAACAAACTTAAAACATAATAAA
1 TTTAATATACAACAAACTTAAAACATAATAAA
* *
14610672 TTTAATATATAACAAGCTTAAAACATAAT
1 TTTAATATACAACAAACTTAAAACATAAT
14610701 CAATATCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.31
Consensus pattern (32 bp):
TTTAATATACAACAAACTTAAAACATAATAAA
Found at i:14614329 original size:14 final size:14
Alignment explanation
Indices: 14614312--14614340 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14614302 ACACCTCACC
14614312 ACCATTTCCTCTTA
1 ACCATTTCCTCTTA
14614326 ACCATTTCCTCTTA
1 ACCATTTCCTCTTA
14614340 A
1 A
14614341 GAGAACAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (14 bp):
ACCATTTCCTCTTA
Found at i:14614841 original size:22 final size:23
Alignment explanation
Indices: 14614793--14614850 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
14614783 ATCGGTGTAG
*
14614793 AGAGGAAGGGAGAACGAGAGTAC
1 AGAGGAAGGGAGAACGAAAGTAC
**
14614816 AGAGGAA-GGAGAACGAAAGTGT
1 AGAGGAAGGGAGAACGAAAGTAC
14614838 AGA-GAAGGGAGAA
1 AGAGGAAGGGAGAA
14614851 AGGGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 21 0.68
23 7 0.23
ACGTcount: A:0.47, C:0.05, G:0.43, T:0.05
Consensus pattern (23 bp):
AGAGGAAGGGAGAACGAAAGTAC
Found at i:14615179 original size:10 final size:10
Alignment explanation
Indices: 14615166--14615197 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
14615156 AAAATCTATA
14615166 AAAATTATTT
1 AAAATTATTT
14615176 AAAATT-TTT
1 AAAATTATTT
14615185 AAAATTA-TT
1 AAAATTATTT
14615194 AAAA
1 AAAA
14615198 AAGTATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAAATTATTT
Found at i:14616573 original size:22 final size:20
Alignment explanation
Indices: 14616537--14616582 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 20
14616527 ACAAATATGA
14616537 ATATAAATAAATAAATATTT
1 ATATAAATAAATAAATATTT
14616557 ATATAAAATAAAATAAATATTT
1 ATAT-AAAT-AAATAAATATTT
14616579 ATAT
1 ATAT
14616583 TTAAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 16 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATAAATAAATAAATATTT
Found at i:14619021 original size:23 final size:23
Alignment explanation
Indices: 14618990--14619034 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
14618980 TACAATCAAC
14618990 ATTACACATATC-AACAAGCCATA
1 ATTACACAT-TCAAACAAGCCATA
*
14619013 ATTAGACATTCAAAACAAGCCA
1 ATTACACATTC-AAACAAGCCA
14619035 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
ATTACACATTCAAACAAGCCATA
Found at i:14620110 original size:24 final size:24
Alignment explanation
Indices: 14620078--14620128 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
14620068 TACTTGGGTA
*
14620078 ATTTGCCATCAATTCATCCTTTAC
1 ATTTGCCATCAATTCATCATTTAC
* *
14620102 ATTTTCCATTAATTCATCATTTAC
1 ATTTGCCATCAATTCATCATTTAC
14620126 ATT
1 ATT
14620129 CGTAGTGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTTGCCATCAATTCATCATTTAC
Found at i:14620185 original size:33 final size:32
Alignment explanation
Indices: 14620134--14620294 Score: 106
Period size: 33 Copynumber: 4.8 Consensus size: 32
14620124 ACATTCGTAG
* *
14620134 TGCCATAACCCAGTTATGGTCTTATCATCAAAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAAAA
* * *
14620167 TGCCATAGCCCAACTATGGTTTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAAA-A
* * * * * * * * *
14620201 TTGTCATGGTCCAACCATAGTCTTACGTTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTAC-ATCAAAA
* * * *
14620235 TGCCATAACCTAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAAAA
14620268 TGCCATAGCCCAGCTATGGTCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
14620295 ATAAACACTG
Statistics
Matches: 93, Mismatches: 30, Indels: 11
0.69 0.22 0.08
Matches are distributed among these distances:
32 6 0.06
33 63 0.68
34 2 0.02
35 21 0.23
36 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAAAA
Found at i:14620310 original size:101 final size:101
Alignment explanation
Indices: 14620122--14620367 Score: 386
Period size: 101 Copynumber: 2.4 Consensus size: 101
14620112 AATTCATCAT
* * *
14620122 TTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
* * *
14620187 TTTACATATAAACATTGTCATGGTCCAACCATAGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATAGTC
* *
14620223 TTACGTTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
14620288 CTTACATATAAACACTGCCATGGTCCAACCATAGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATAGTC
*
14620324 TTACGTTCACAGTGCCATAA-CTCAGTTATGGTCTTATCCATCAA
1 TTACGTTCATAGTGCCATAACCT-AGTTATGGTCTTAT-CATCAA
14620368 TTCATCCTTT
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
100 2 0.02
101 126 0.95
102 5 0.04
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATAGTC
Found at i:14622311 original size:30 final size:30
Alignment explanation
Indices: 14622254--14622322 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
14622244 TACTAAATAA
*
14622254 AATAATAATAAAATATCTCATTAAAAT-ATT
1 AATAA-AATAAAATATCTAATTAAAATAATT
14622284 AATAAAATAAAATTTATCTAATT-AAATAATT
1 AATAAAATAAAA--TATCTAATTAAAATAATT
14622315 -ATAAAATA
1 AATAAAATA
14622323 TCATCAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 17 0.49
31 11 0.31
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (30 bp):
AATAAAATAAAATATCTAATTAAAATAATT
Found at i:14623275 original size:16 final size:18
Alignment explanation
Indices: 14623244--14623281 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
14623234 ATACATATTC
14623244 TTTTTTCTTCACTAAGAT
1 TTTTTTCTTCACTAAGAT
*
14623262 TTTTTTC-TCA-TAAGGT
1 TTTTTTCTTCACTAAGAT
14623278 TTTT
1 TTTT
14623282 ATTTTAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 3 0.16
18 7 0.37
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (18 bp):
TTTTTTCTTCACTAAGAT
Found at i:14624226 original size:12 final size:13
Alignment explanation
Indices: 14624205--14624234 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14624195 TTCAATTTTT
14624205 TTAAT-TTTTTAA
1 TTAATGTTTTTAA
14624217 TTAATGTTTTTAA
1 TTAATGTTTTTAA
14624230 TTAAT
1 TTAAT
14624235 AAATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
TTAATGTTTTTAA
Found at i:14624286 original size:13 final size:13
Alignment explanation
Indices: 14624268--14624292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14624258 TTGTTCAAAT
14624268 TTTTTAATTAATG
1 TTTTTAATTAATG
14624281 TTTTTAATTAAT
1 TTTTTAATTAAT
14624293 AAATATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:14624375 original size:19 final size:19
Alignment explanation
Indices: 14624351--14624391 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
14624341 TATAAATAAA
*
14624351 ATAAT-AAATATGTAATTAT
1 ATAATAAAATATAT-ATTAT
14624370 ATAATAAAATATATATTAT
1 ATAATAAAATATATATTAT
14624389 ATA
1 ATA
14624392 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATAAAATATATATTAT
Found at i:14624581 original size:48 final size:48
Alignment explanation
Indices: 14624529--14624675 Score: 124
Period size: 48 Copynumber: 3.1 Consensus size: 48
14624519 TATCATTATA
*
14624529 TAATTACATATTTATTAATTTATTTATATAAATAAAGGAGTTATTAAT
1 TAATTACATATTTATTAATTTATTTATATAAATAAAAGAGTTATTAAT
* * * * * * *
14624577 TAATT---TTTTTA-AAATAATGATATATATAAAATATATGATTTTATT-AT
1 TAATTACATATTTATTAAT--TTATTTATAT-AAATAAAAGA-GTTATTAAT
* *
14624624 ATAATTACATATCTATTATTTTATTTATATAAATAAAAGAGTTATTAAT
1 -TAATTACATATTTATTAATTTATTTATATAAATAAAAGAGTTATTAAT
14624673 TAA
1 TAA
14624676 AAAGATGAAT
Statistics
Matches: 73, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
44 3 0.04
45 5 0.07
46 8 0.11
47 10 0.14
48 23 0.32
49 10 0.14
50 8 0.11
51 4 0.05
52 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (48 bp):
TAATTACATATTTATTAATTTATTTATATAAATAAAAGAGTTATTAAT
Found at i:14630199 original size:31 final size:30
Alignment explanation
Indices: 14630158--14630232 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 30
14630148 TGTTAGAAAA
*
14630158 TTTGGACACCCAAATTTTAGGACGT-TTTTAT
1 TTTGGTCACCCAAATTTTAGG--GTATTTTAT
*
14630189 TTTGGTCACCCAACTTTTAGGGTACTTTTAT
1 TTTGGTCACCCAAATTTTAGGGTA-TTTTAT
*
14630220 TTTAGTCACCCAA
1 TTTGGTCACCCAA
14630233 GAGTCAAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 2 0.05
31 37 0.95
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (30 bp):
TTTGGTCACCCAAATTTTAGGGTATTTTAT
Found at i:14631567 original size:20 final size:19
Alignment explanation
Indices: 14631533--14631590 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
14631523 CCCTAACCTC
*
14631533 GTTAATTAAGCTTAAAATTA-
1 GTTAATTATGCTT--AATTAG
*
14631553 GTTAATTATGTTTAATTAG
1 GTTAATTATGCTTAATTAG
**
14631572 GTTAATTATAATTAATTAG
1 GTTAATTATGCTTAATTAG
14631591 TTATTAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 5 0.15
19 17 0.52
20 11 0.33
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (19 bp):
GTTAATTATGCTTAATTAG
Found at i:14631577 original size:19 final size:19
Alignment explanation
Indices: 14631548--14631590 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14631538 TTAAGCTTAA
**
14631548 AATTA-GTTAATTATGTTT
1 AATTAGGTTAATTATAATT
14631566 AATTAGGTTAATTATAATT
1 AATTAGGTTAATTATAATT
14631585 AATTAG
1 AATTAG
14631591 TTATTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (19 bp):
AATTAGGTTAATTATAATT
Found at i:14635569 original size:26 final size:26
Alignment explanation
Indices: 14635537--14635593 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
14635527 ATTTATTGAA
14635537 AATTTTTATATGACCATGTTAACATT
1 AATTTTTATATGACCATGTTAACATT
14635563 AATTTTTATATGACCATGTTAACATT
1 AATTTTTATATGACCATGTTAACATT
14635589 -ATTTT
1 AATTTT
14635594 AATGTTTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (26 bp):
AATTTTTATATGACCATGTTAACATT
Found at i:14639011 original size:32 final size:32
Alignment explanation
Indices: 14638951--14639015 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
14638941 TTGAAATCAT
*
14638951 AAAATTAATATTGAGTGGTAAAATTTAATTAAA
1 AAAATTAATATTGAGTGGCAAAATTTAA-TAAA
*
14638984 AAAATCTAA-ATTG-GTGGCAAATTTTAATAAA
1 AAAAT-TAATATTGAGTGGCAAAATTTAATAAA
14639015 A
1 A
14639016 TTCAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 5 0.17
32 12 0.41
33 9 0.31
34 3 0.10
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (32 bp):
AAAATTAATATTGAGTGGCAAAATTTAATAAA
Found at i:14640953 original size:21 final size:21
Alignment explanation
Indices: 14640929--14640970 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
14640919 AAGCTTCACG
14640929 TGTGAAGTCAAAATTATTGTA
1 TGTGAAGTCAAAATTATTGTA
14640950 TGTGAAGTCAAAATTATTGTA
1 TGTGAAGTCAAAATTATTGTA
14640971 GGTCAAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
TGTGAAGTCAAAATTATTGTA
Found at i:14645047 original size:21 final size:21
Alignment explanation
Indices: 14645022--14645064 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
14645012 TTCCTTACCT
14645022 TTTCCCTCACTTTTTTTTCTC
1 TTTCCCTCACTTTTTTTTCTC
14645043 TTTCCCTCACTTTTTTTTCTC
1 TTTCCCTCACTTTTTTTTCTC
14645064 T
1 T
14645065 CCATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.05, C:0.33, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCCCTCACTTTTTTTTCTC
Found at i:14645251 original size:22 final size:24
Alignment explanation
Indices: 14645226--14645271 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
14645216 TTTACTACTG
14645226 TTTTC-CAACC-TTTTGCTGCTAT
1 TTTTCTCAACCATTTTGCTGCTAT
*
14645248 TTTTCTTCAGCCATTTTGCTGCTA
1 TTTTC-TCAACCATTTTGCTGCTA
14645272 CGATTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.50
Consensus pattern (24 bp):
TTTTCTCAACCATTTTGCTGCTAT
Found at i:14646418 original size:19 final size:20
Alignment explanation
Indices: 14646394--14646432 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
14646384 TCCTTCTGAC
*
14646394 ATGGTGTGTA-TGGTTGGAT
1 ATGGTGTGTAGTGGATGGAT
14646413 ATGGTGTGTAGTGGATGGAT
1 ATGGTGTGTAGTGGATGGAT
14646433 GTTTAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (20 bp):
ATGGTGTGTAGTGGATGGAT
Found at i:14648330 original size:56 final size:57
Alignment explanation
Indices: 14648221--14648353 Score: 146
Period size: 56 Copynumber: 2.3 Consensus size: 57
14648211 TATATTATTA
* *
14648221 TATATTATGATTTTAGTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAC
1 TATA-TATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAC
* * * *
14648279 TATATATT-TTTTATTAAATTATATTTAATAATAATTAT-TTTA-AATTATTATTAAAT
1 TATATATTATTTTATTAAATTA-ATATAAGAATAATTATATTAAGAATT-TTATTAAAC
*
14648335 TATTTATTATTTATATTAA
1 TATATATTATTT-TATTAA
14648354 TAATCTTATT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
55 4 0.06
56 30 0.47
57 20 0.31
58 10 0.16
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAC
Found at i:14648334 original size:11 final size:11
Alignment explanation
Indices: 14648311--14648343 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
14648301 ATTTAATAAT
14648311 AATTATT-TTA
1 AATTATTATTA
14648321 AATTATTATTA
1 AATTATTATTA
14648332 AATTATTTATTA
1 AATTA-TTATTA
14648344 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:14648503 original size:39 final size:40
Alignment explanation
Indices: 14648449--14648553 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 40
14648439 TTTCCTTATG
14648449 CTATTACGCCTCTATTCCATTCAACCAAACACA-AGAA-TA
1 CTATTACGCCTCTATTCCATTCAACCAAACA-ATAGAATTA
* *
14648488 CTATTACGCCTCTATTCTATTACATTCAACCAAACAATTGAATTG
1 CTATTACGCCTCTATTC-----CATTCAACCAAACAATAGAATTA
14648533 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
14648554 ACGCCTCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 17 0.30
40 4 0.07
43 1 0.02
44 17 0.30
45 18 0.32
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (40 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAATAGAATTA
Found at i:14648522 original size:44 final size:45
Alignment explanation
Indices: 14648459--14648555 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
14648449 CTATTACGCC
*
14648459 TCTATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* *
14648503 TCTATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
*
14648548 TCCATTAC
1 TCTATTAC
14648556 GCCTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:14648556 original size:16 final size:16
Alignment explanation
Indices: 14648535--14648603 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
14648525 TTGAATTGCT
14648535 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
14648551 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
*
14648567 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
14648583 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
14648599 ATTAC
1 ATTAC
14648604 AGCGAACCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.20, C:0.33, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:14648753 original size:42 final size:42
Alignment explanation
Indices: 14648662--14648741 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
14648652 ATATGAACAA
14648662 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATAGG
1 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATAGG
14648704 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAA
1 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAA
14648742 CGTGCACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (42 bp):
CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATAGG
Found at i:14649620 original size:23 final size:23
Alignment explanation
Indices: 14649590--14649900 Score: 190
Period size: 23 Copynumber: 12.7 Consensus size: 23
14649580 TTCGATTCAA
14649590 GTCCAATTTGGTGTAAAAATGCT
1 GTCCAATTTGGTGTAAAAATGCT
14649613 GTCCAATTTTTGGTGTAAAAATGCT
1 GTCCAA--TTTGGTGTAAAAATGCT
* ** *
14649638 GCCCAATTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTAAAAATGCT
14649661 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAA-TTTGGTGTAAAAATGCT
* ** * *
14649685 GCCCAATTTGGTGTCTATATTCT
1 GTCCAATTTGGTGTAAAAATGCT
14649708 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAA-TTTGGTGTAAAAATGCT
*
14649732 GTCCAATTTGAGATATATATATATATGCT
1 GTCCAATTTG-G-TGTA-A-A-A-ATGCT
* * **
14649761 GCCCAATTTGGTGTATATTTGCT
1 GTCCAATTTGGTGTAAAAATGCT
** *
14649784 GTTAAATTTTGGTGTAAAAAAATGTT
1 GTCCAA-TTTGGTGT--AAAAATGCT
* * *
14649810 GTTCAATTTGATATATATATATACATGCT
1 GTCCAATTTG--GTGTA-A-A-A-ATGCT
* * * *
14649839 GCCCAAATTAGTGTACAAATGCT
1 GTCCAATTTGGTGTAAAAATGCT
* *
14649862 GTTCAATTTTGGTGTATAAATGCT
1 GTCCAA-TTTGGTGTAAAAATGCT
* *
14649886 ATCCAATTTGATGTA
1 GTCCAATTTGGTGTA
14649901 TAAGAGCTGT
Statistics
Matches: 218, Mismatches: 50, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
23 71 0.33
24 66 0.30
25 32 0.15
26 12 0.06
27 10 0.05
28 3 0.01
29 24 0.11
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (23 bp):
GTCCAATTTGGTGTAAAAATGCT
Found at i:14649683 original size:24 final size:24
Alignment explanation
Indices: 14649590--14649740 Score: 191
Period size: 23 Copynumber: 6.4 Consensus size: 24
14649580 TTCGATTCAA
14649590 GTCCAA-TTTGGTGTAAAAATGCT
1 GTCCAATTTTGGTGTAAAAATGCT
14649613 GTCCAATTTTTGGTGTAAAAATGCT
1 GTCCAA-TTTTGGTGTAAAAATGCT
* ** *
14649638 GCCCAA-TTTGGTGTCTATATGCT
1 GTCCAATTTTGGTGTAAAAATGCT
14649661 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAATTTTGGTGTAAAAATGCT
* ** * *
14649685 GCCCAA-TTTGGTGTCTATATTCT
1 GTCCAATTTTGGTGTAAAAATGCT
14649708 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAATTTTGGTGTAAAAATGCT
14649732 GTCCAATTT
1 GTCCAATTT
14649741 GAGATATATA
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
23 43 0.41
24 41 0.39
25 22 0.21
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (24 bp):
GTCCAATTTTGGTGTAAAAATGCT
Found at i:14649751 original size:47 final size:47
Alignment explanation
Indices: 14649592--14649741 Score: 246
Period size: 47 Copynumber: 3.2 Consensus size: 47
14649582 CGATTCAAGT
** *
14649592 CCAATTTGGTGTAAAAATGCTGTCCAATTTTTGGTGTAAAAATGCTGC
1 CCAATTTGGTGTCTATATGCTGTCCAA-TTTTGGTGTAAAAATGCTGC
14649640 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
* *
14649687 CCAATTTGGTGTCTATATTCTGTCCAATTTTGGTGTAAAAATGCTGT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
14649734 CCAATTTG
1 CCAATTTG
14649742 AGATATATAT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
47 73 0.75
48 24 0.25
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (47 bp):
CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
Found at i:14649897 original size:76 final size:76
Alignment explanation
Indices: 14649680--14649902 Score: 277
Period size: 78 Copynumber: 2.9 Consensus size: 76
14649670 TGGTGTAAAA
* * *
14649680 ATGCTGCCCAATTTGGTGT-CTATATTCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGAG
1 ATGCTGCCCAATTTGGTGTAC-ATATGCTGTTCAATTTTGGTGTAAAAATGCTGTCCAATTTGAT
*
14649744 ATATATATATAT
65 ATATATATATAC
* * * * *
14649756 ATGCTGCCCAATTTGGTGTATATTTGCTGTTAAATTTTGGTGTAAAAAAATGTTGTTCAATTTGA
1 ATGCTGCCCAATTTGGTGTACATATGCTGTTCAATTTTGGTGT--AAAAATGCTGTCCAATTTGA
14649821 TATATATATATAC
64 TATATATATATAC
* * * * * *
14649834 ATGCTGCCCAAATTAGTGTACAAATGCTGTTCAATTTTGGTGTATAAATGCTATCCAATTTGATG
1 ATGCTGCCCAATTTGGTGTACATATGCTGTTCAATTTTGGTGTAAAAATGCTGTCCAATTTGATA
14649899 TATA
66 TATA
14649903 AGAGCTGTAC
Statistics
Matches: 124, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
76 58 0.47
78 66 0.53
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (76 bp):
ATGCTGCCCAATTTGGTGTACATATGCTGTTCAATTTTGGTGTAAAAATGCTGTCCAATTTGATA
TATATATATAC
Found at i:14649901 original size:23 final size:24
Alignment explanation
Indices: 14649850--14649903 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
14649840 CCCAAATTAG
* * * *
14649850 TGTACAAATGCTGTTCAATTTTGG
1 TGTATAAATGCTATCCAATTTTGA
14649874 TGTATAAATGCTATCCAA-TTTGA
1 TGTATAAATGCTATCCAATTTTGA
14649897 TGTATAA
1 TGTATAA
14649904 GAGCTGTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (24 bp):
TGTATAAATGCTATCCAATTTTGA
Found at i:14653320 original size:42 final size:42
Alignment explanation
Indices: 14653256--14653387 Score: 129
Period size: 46 Copynumber: 3.0 Consensus size: 42
14653246 GGTTAAATTA
* * *
14653256 AAGCAATCATACTAGTATATAAGTGCGCCATTAGATAAACCG
1 AAGCAATCATATTAGCACATAAGTGCGCCATTAGATAAACCG
* * * *
14653298 AAGCAATCATATTGGCACATAAGTGCATGCATCACTGGATTAACCG
1 AAGCAATCATATTAGCACATAAGTGC--GC--CATTAGATAAACCG
** * *
14653344 AAGCAATCATATTAGCACATAAGTGCATCATCAGATAAATCG
1 AAGCAATCATATTAGCACATAAGTGCGCCATTAGATAAACCG
14653386 AA
1 AA
14653388 TTATAAACCC
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
42 33 0.46
44 2 0.03
46 36 0.51
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (42 bp):
AAGCAATCATATTAGCACATAAGTGCGCCATTAGATAAACCG
Found at i:14654449 original size:15 final size:15
Alignment explanation
Indices: 14654399--14654449 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
14654389 CATGGTTATT
*
14654399 CTTTAATTAATCTTA
1 CTTTAATTATTCTTA
14654414 -TTTAATTATT-TTA
1 CTTTAATTATTCTTA
* *
14654427 GTTATAATTATTCTAA
1 CTT-TAATTATTCTTA
14654443 CTTTAAT
1 CTTTAAT
14654450 GGGCAACATC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.10
14 11 0.37
15 12 0.40
16 4 0.13
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (15 bp):
CTTTAATTATTCTTA
Found at i:14661096 original size:3 final size:3
Alignment explanation
Indices: 14661088--14661113 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14661078 AATCTTGTTG
14661088 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14661114 AACAGGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14664990 original size:37 final size:38
Alignment explanation
Indices: 14664860--14664990 Score: 115
Period size: 37 Copynumber: 3.5 Consensus size: 38
14664850 AGTTTCACTT
* * * * * *
14664860 AGTATAACAGT-AGAATTTGATCGATTTAAACATCAGTC
1 AGTATAACAGTAAG-ATTTGCTTGAGTTAAGCTTCATTC
* * * * *
14664898 AGTAAAATAGTAAGATTTACCT-AGTTAAGCTCCATTC
1 AGTATAACAGTAAGATTTGCTTGAGTTAAGCTTCATTC
* *
14664935 AGTATAACGGTATGATTTGCTTGA-TTAAGCTTCATTC
1 AGTATAACAGTAAGATTTGCTTGAGTTAAGCTTCATTC
14664972 AGTATAACAGTAAGATTTG
1 AGTATAACAGTAAGATTTG
14664991 GCTCGATAGA
Statistics
Matches: 71, Mismatches: 20, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
37 55 0.77
38 14 0.20
39 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (38 bp):
AGTATAACAGTAAGATTTGCTTGAGTTAAGCTTCATTC
Found at i:14666040 original size:26 final size:26
Alignment explanation
Indices: 14666008--14666107 Score: 148
Period size: 26 Copynumber: 3.8 Consensus size: 26
14665998 CCAATATCGT
*
14666008 AGCAAAGCTGCCAGTAATAGTAACGC
1 AGCAAAGCTGCCAGTAACAGTAACGC
* *
14666034 AGGAAAGCTGCCAGTAACAGTAATGC
1 AGCAAAGCTGCCAGTAACAGTAACGC
*
14666060 AGCAGAA-CTGCCAGTATCAGTAACGC
1 AGCA-AAGCTGCCAGTAACAGTAACGC
14666086 AGCAAAGCTGCCAGTAACAGTA
1 AGCAAAGCTGCCAGTAACAGTA
14666108 TTTGTGGCAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
25 2 0.03
26 61 0.94
27 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTAACGC
Found at i:14666522 original size:134 final size:134
Alignment explanation
Indices: 14666317--14666568 Score: 357
Period size: 134 Copynumber: 1.9 Consensus size: 134
14666307 TACCCTATGG
** * *
14666317 GGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTCAATCATTTTACCCTTCAGGGGTATTTCGA
1 GGGTATTTCAATCAATTTACCCTTGAGGGGTATTTCAATCATTTTACCCTTCAGGGGTATTTCGA
* * *
14666382 TCATTTTACTCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGTTATTTCGATCATTCTACCC
66 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTCTACCC
14666447 TCAA
131 TCAA
** *
14666451 GGGTATTTCAATCAATTTACCCTTCGA-GGGTATTTTGATCATTTTACCCTT-TGAGGGTATTTC
1 GGGTATTTCAATCAATTTACCCTT-GAGGGGTATTTCAATCATTTTACCCTTCAG-GGGTATTTC
*
14666514 -AGTTATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
64 GA-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
14666569 GCCATTTTAC
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
133 2 0.02
134 101 0.97
135 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (134 bp):
GGGTATTTCAATCAATTTACCCTTGAGGGGTATTTCAATCATTTTACCCTTCAGGGGTATTTCGA
TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTCTACCC
TCAA
Found at i:14666590 original size:27 final size:27
Alignment explanation
Indices: 14666300--14666581 Score: 349
Period size: 27 Copynumber: 10.5 Consensus size: 27
14666290 GGGTATAAAA
*
14666300 ATCATTTTACCCTAT-GGGGGTATTTCG
1 ATCATTTTACCCT-TCGAGGGTATTTCG
* * *
14666327 GTCATTTTACCCTT-TAGGGGTATTTCA
1 ATCATTTTACCCTTCGA-GGGTATTTCG
14666354 ATCATTTTACCCTTC-AGGGGTATTTCG
1 ATCATTTTACCCTTCGA-GGGTATTTCG
* *
14666381 ATCATTTTACTCTTCGGGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
14666408 ATCATTTTACCCTTCGAGGTTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* * *
14666435 ATCATTCTACCC-TCAAGGGTATTTCA
1 ATCATTTTACCCTTCGAGGGTATTTCG
* *
14666461 ATCAATTTACCCTTCGAGGGTATTTTG
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
14666488 ATCATTTTACCCTTTGAGGGTATTTC-
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
14666514 AGTTATTTTACCCTTCGAGGGTATTTCG
1 A-TCATTTTACCCTTCGAGGGTATTTCG
14666542 ATCATTTTACCCTTCGAGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
**
14666569 GCCATTTTACCCT
1 ATCATTTTACCCT
14666582 ATGGGGGTAA
Statistics
Matches: 221, Mismatches: 28, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
26 23 0.10
27 197 0.89
28 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (27 bp):
ATCATTTTACCCTTCGAGGGTATTTCG
Found at i:14674169 original size:41 final size:41
Alignment explanation
Indices: 14674113--14674225 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 41
14674103 TGATTCAGTA
* * * *
14674113 CACCGGCTTTTAGCCTGCTAGACCTATAGTCCGAAATGTAC
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAC
* * * **
14674154 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAC
* *
14674195 CACCGGCATCAAGCCTGCTAGACGTAAAGTC
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTC
14674226 TGTATTACAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAC
Found at i:14674226 original size:41 final size:41
Alignment explanation
Indices: 14674154--14674232 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
14674144 CGAAATGTAC
*
14674154 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATTT
*
14674195 CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGTATTA
1 CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTA
14674233 CATTCGATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAATTATTT
Found at i:14678713 original size:30 final size:32
Alignment explanation
Indices: 14678673--14678733 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
14678663 GGGGGTAGGA
*
14678673 TGGGAAGGGAGTAAAAGTTTTAG-GGGAAAAG
1 TGGGAAGGGAGTAAAAATTTTAGAGGGAAAAG
*
14678704 TGGG-AGGGAGTAAAAATTTTGGAGGGAAAA
1 TGGGAAGGGAGTAAAAATTTTAGAGGGAAAA
14678734 ATTTTTTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (32 bp):
TGGGAAGGGAGTAAAAATTTTAGAGGGAAAAG
Found at i:14680265 original size:42 final size:42
Alignment explanation
Indices: 14680218--14680339 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
14680208 ATTGAGAAAG
* * *
14680218 CCGAAGCAAAAATACTAGCACCTAAGTGCATCATCGGTCGAA
1 CCGAAGCAATAATACTAGCACCTAAGTGCATCATCGGACAAA
* * *
14680260 TCGAAGCAATTATACTAGCACAC-ATAGTGCATCATTGGACAAA
1 CCGAAGCAATAATACTAGCAC-CTA-AGTGCATCATCGGACAAA
* * *
14680303 CCAAAGCAATCATACTAGCACATAAGTGCATCATCGG
1 CCGAAGCAATAATACTAGCACCTAAGTGCATCATCGG
14680340 CTAAACTGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (42 bp):
CCGAAGCAATAATACTAGCACCTAAGTGCATCATCGGACAAA
Found at i:14680310 original size:43 final size:43
Alignment explanation
Indices: 14680202--14680336 Score: 134
Period size: 42 Copynumber: 3.2 Consensus size: 43
14680192 GGCACCACAA
* *
14680202 TGCATCATTGAGA-AAGCCGAAGCAAAAATACTAGCAC-C-TAAG
1 TGCATCATTG-GACAAACCGAAGCAATAATACTAGCACACAT-AG
* * * * *
14680244 TGCATCATCGGTCGAATCGAAGCAATTATACTAGCACACATAG
1 TGCATCATTGGACAAACCGAAGCAATAATACTAGCACACATAG
* * *
14680287 TGCATCATTGGACAAACCAAAGCAATCATACTAGCACATA-AG
1 TGCATCATTGGACAAACCGAAGCAATAATACTAGCACACATAG
14680329 TGCATCAT
1 TGCATCAT
14680337 CGGCTAAACT
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 38 0.50
43 36 0.47
44 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (43 bp):
TGCATCATTGGACAAACCGAAGCAATAATACTAGCACACATAG
Found at i:14681404 original size:15 final size:15
Alignment explanation
Indices: 14681384--14681417 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
14681374 TAATCTTATT
14681384 TAATTATTTTAATTA
1 TAATTATTTTAATTA
*
14681399 TAATTATTTTAATTT
1 TAATTATTTTAATTA
14681414 TAAT
1 TAAT
14681418 GGCCAACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTATTTTAATTA
Found at i:14691892 original size:41 final size:41
Alignment explanation
Indices: 14691847--14691948 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
14691837 GCTTAGAGCT
*
14691847 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * *
14691888 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
14691929 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
14691949 TACTGAATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:14692281 original size:27 final size:27
Alignment explanation
Indices: 14692243--14692296 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
14692233 TTTGTTTATA
*
14692243 AGTATTTGATAAAAAAATGAATTCATT
1 AGTATTTGATAAAAAAATGAATGCATT
14692270 AGTATTTGATAAAAAAATGAATGCATT
1 AGTATTTGATAAAAAAATGAATGCATT
14692297 CATTCATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.13, T:0.35
Consensus pattern (27 bp):
AGTATTTGATAAAAAAATGAATGCATT
Found at i:14696304 original size:49 final size:49
Alignment explanation
Indices: 14696223--14696318 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
14696213 AATGTTTCTG
*
14696223 AGTCTATCCAATCTGACACTTCTTTAACTTAGTTTCCATAAGGAAAAAAA
1 AGTCTATCCAATATGACACTTCTTTAACTTAGTTTCCATAA-GAAAAAAA
* * ** *
14696273 AGTCTATCCAATAT-AGAGTTCTTTTGCTTAGTTTCCATCAGAAAAA
1 AGTCTATCCAATATGACACTTCTTTAACTTAGTTTCCATAAGAAAAA
14696319 CAGTAGATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 6 0.15
49 21 0.52
50 13 0.32
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (49 bp):
AGTCTATCCAATATGACACTTCTTTAACTTAGTTTCCATAAGAAAAAAA
Found at i:14699346 original size:13 final size:15
Alignment explanation
Indices: 14699323--14699355 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
14699313 TTTGTTTTGT
14699323 TTTTCTTTCTTTTC-
1 TTTTCTTTCTTTTCA
14699337 TTTT-TTTCTTTTCA
1 TTTTCTTTCTTTTCA
14699351 TTTTC
1 TTTTC
14699356 CTCAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTTCTTTTCA
Found at i:14707156 original size:25 final size:25
Alignment explanation
Indices: 14707128--14707176 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14707118 TTTTCTAAAA
14707128 AAATTTATATT-AATATTTTATAATT
1 AAATTTATATTGAAT-TTTTATAATT
*
14707153 AAATTTATATTGAATTTTTTTAAT
1 AAATTTATATTGAATTTTTATAAT
14707177 ATATAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
AAATTTATATTGAATTTTTATAATT
Found at i:14710045 original size:25 final size:25
Alignment explanation
Indices: 14710017--14710074 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
14710007 TGGGTCACAT
*
14710017 GGCCGTGTCACACGCCCGTGTGCCA
1 GGCCGTGTCACACGCCCATGTGCCA
* *
14710042 GGCCATGTCACACGCCCATGTGCTA
1 GGCCGTGTCACACGCCCATGTGCCA
14710067 GGCCGTGT
1 GGCCGTGT
14710075 AATTCTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.14, C:0.36, G:0.31, T:0.19
Consensus pattern (25 bp):
GGCCGTGTCACACGCCCATGTGCCA
Found at i:14712045 original size:25 final size:24
Alignment explanation
Indices: 14711980--14712046 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 24
14711970 CCCGTTATTT
*
14711980 GGCTCTCCGGAGCTTTCCAATAATA
1 GGCTCTCCAGAGC-TTCCAATAATA
14712005 GGCTCT-CATGAGCTTCCAAATTAA-A
1 GGCTCTCCA-GAGCTTCC-AA-TAATA
14712030 GGCTCTCCAGAGCTTCC
1 GGCTCTCCAGAGCTTCC
14712047 CGATATTAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
24 5 0.14
25 27 0.73
26 5 0.14
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (24 bp):
GGCTCTCCAGAGCTTCCAATAATA
Found at i:14712066 original size:24 final size:24
Alignment explanation
Indices: 14712039--14712142 Score: 81
Period size: 24 Copynumber: 4.3 Consensus size: 24
14712029 AGGCTCTCCA
14712039 GAGCTTCCCGATATTAGCTCGTAT
1 GAGCTTCCCGATATTAGCTCGTAT
* *
14712063 GAGCTTCCCGA-ATTTGGCTC-TCTT
1 GAGCTTCCCGATA-TTAGCTCGT-AT
*
14712087 AAGCTTCCC-AT-TTATGGCTCGTAT
1 GAGCTTCCCGATATTA--GCTCGTAT
* * * *
14712111 GAGCTTCTCGATAATGGCTCGCAT
1 GAGCTTCCCGATATTAGCTCGTAT
14712135 GAGCTTCC
1 GAGCTTCC
14712143 TGTTACATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
22 2 0.03
23 3 0.05
24 52 0.85
25 3 0.05
26 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGATATTAGCTCGTAT
Found at i:14712140 original size:48 final size:48
Alignment explanation
Indices: 14712039--14712142 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 48
14712029 AGGCTCTCCA
* * *
14712039 GAGCTTCCCGATATTAGCTCGTATGAGCTTCCCGAATTTGGCTCTCTT
1 GAGCTTCCCGATATTAGCTCGTATGAGCTTCCCGAATATGGCTCGCAT
* *
14712087 AAGCTTCCC-AT-TTATGGCTCGTATGAGCTTCTCG-ATAATGGCTCGCAT
1 GAGCTTCCCGATATTA--GCTCGTATGAGCTTCCCGAAT-ATGGCTCGCAT
14712135 GAGCTTCC
1 GAGCTTCC
14712143 TGTTACATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
46 3 0.06
47 4 0.09
48 40 0.85
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (48 bp):
GAGCTTCCCGATATTAGCTCGTATGAGCTTCCCGAATATGGCTCGCAT
Found at i:14712213 original size:25 final size:25
Alignment explanation
Indices: 14712100--14712213 Score: 108
Period size: 25 Copynumber: 4.6 Consensus size: 25
14712090 CTTCCCATTT
* * *
14712100 ATGGCTCGTATGAGCTTCTCGATA-
1 ATGGCTCGCATGAGCTTCCCGTTAC
*
14712124 ATGGCTCGCATGAGCTTCCTGTTAC
1 ATGGCTCGCATGAGCTTCCCGTTAC
* *
14712149 ATGACTCAG-ATGAGCTTCCCGTTAT
1 ATGGCTC-GCATGAGCTTCCCGTTAC
** *
14712174 ATGGCTCAAAAGAGCTTCCCGATTAC
1 ATGGCTCGCATGAGCTTCCCG-TTAC
14712200 AT-GCTCGCATGAGC
1 ATGGCTCGCATGAGC
14712214 ATACCTGTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
24 20 0.28
25 46 0.64
26 6 0.08
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (25 bp):
ATGGCTCGCATGAGCTTCCCGTTAC
Found at i:14714172 original size:18 final size:19
Alignment explanation
Indices: 14714130--14714178 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
14714120 GTTTCACATC
14714130 TCATTTCATCATTTCATATT
1 TCATTTC-TCATTTCATATT
* *
14714150 TCATTTTTCATTTCGTA-T
1 TCATTTCTCATTTCATATT
14714168 TCATTTCTCAT
1 TCATTTCTCAT
14714179 CTTTTTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 11 0.42
19 9 0.35
20 6 0.23
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.57
Consensus pattern (19 bp):
TCATTTCTCATTTCATATT
Found at i:14714232 original size:43 final size:42
Alignment explanation
Indices: 14714152--14714239 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 42
14714142 TTCATATTTC
* * * *
14714152 ATTTTTCATTTCGTATTCATTTCTCATCTTTTTCATTTCAAT
1 ATTTTTCATCTCATATTCATTTCCCATCTTTTCCATTTCAAT
14714194 ATTTTCTCATCTCATATTCATTTCCCAT-TTTTGCCATTTCAAT
1 ATTTT-TCATCTCATATTCATTTCCCATCTTTT-CCATTTCAAT
14714237 ATT
1 ATT
14714240 AATCACATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 9 0.22
43 31 0.77
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.56
Consensus pattern (42 bp):
ATTTTTCATCTCATATTCATTTCCCATCTTTTCCATTTCAAT
Found at i:14721878 original size:20 final size:19
Alignment explanation
Indices: 14721853--14721901 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
14721843 GCAACCACTT
14721853 TTTTTATATTAAA-AAATATA
1 TTTTTAT-TTAAATAAA-ATA
14721873 TTTTTACTTTAAATAAAATA
1 TTTTTA-TTTAAATAAAATA
*
14721893 TTATTATTT
1 TTTTTATTT
14721902 TATTTTAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 19 0.73
21 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTATTTAAATAAAATA
Found at i:14722090 original size:7 final size:6
Alignment explanation
Indices: 14722078--14722119 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
14722068 ATATACTACA
14722078 TTTAATT TTTAAT TTTAAGT TTTAAT TTTAAT TTTAAGT TTT
1 TTTAA-T TTTAAT TTTAA-T TTTAAT TTTAAT TTTAA-T TTT
14722120 GTTTTGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 18 0.55
7 15 0.45
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:14722100 original size:13 final size:12
Alignment explanation
Indices: 14722078--14722119 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 12
14722068 ATATACTACA
14722078 TTTAATTTTTAAT
1 TTTAA-TTTTAAT
14722091 TTTAAGTTTTAAT
1 TTTAA-TTTTAAT
14722104 TTTAATTTTAAGT
1 TTTAATTTTAA-T
14722117 TTT
1 TTT
14722120 GTTTTGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:14722108 original size:19 final size:20
Alignment explanation
Indices: 14722078--14722119 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
14722068 ATATACTACA
14722078 TTTAATTTTTAATTTTAAGT
1 TTTAATTTTTAATTTTAAGT
14722098 TTTAA-TTTTAATTTTAAGT
1 TTTAATTTTTAATTTTAAGT
14722117 TTT
1 TTT
14722120 GTTTTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTAATTTTTAATTTTAAGT
Found at i:14722264 original size:14 final size:14
Alignment explanation
Indices: 14722245--14722326 Score: 65
Period size: 14 Copynumber: 5.6 Consensus size: 14
14722235 CCACCTCCGT
14722245 CCTCCACCAATCGA
1 CCTCCACCAATCGA
* *
14722259 CCTCCACCGATCCA
1 CCTCCACCAATCGA
* * *
14722273 CCATCAAGCCACCTCCGT
1 CC-TCCA-CCA-AT-CGA
* *
14722291 CTTCCACCAATCGT
1 CCTCCACCAATCGA
14722305 CCTCCACCAATCGA
1 CCTCCACCAATCGA
14722319 CCTCCACC
1 CCTCCACC
14722327 GATCCACAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
14 37 0.71
15 4 0.08
16 5 0.10
17 4 0.08
18 2 0.04
ACGTcount: A:0.23, C:0.52, G:0.07, T:0.17
Consensus pattern (14 bp):
CCTCCACCAATCGA
Found at i:14729034 original size:13 final size:13
Alignment explanation
Indices: 14729016--14729045 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
14729006 CAATTCTAAC
14729016 ATAATTTTTATAG
1 ATAATTTTTATAG
14729029 ATAATTTTTATAG
1 ATAATTTTTATAG
14729042 ATAA
1 ATAA
14729046 AATAATTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
ATAATTTTTATAG
Found at i:14729564 original size:3 final size:3
Alignment explanation
Indices: 14729556--14729607 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
14729546 GAGAGAAAGG
14729556 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
14729604 AGA A
1 AGA A
14729608 AGAAAAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:14729859 original size:60 final size:60
Alignment explanation
Indices: 14729773--14729901 Score: 231
Period size: 60 Copynumber: 2.1 Consensus size: 60
14729763 GTAAATTTTT
*
14729773 TTGTTTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
1 TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
* *
14729833 TTGTGTTTGTAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTG
1 TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
14729893 TTGTGTTTA
1 TTGTGTTTA
14729902 GTTTAGTATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (60 bp):
TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
Found at i:14729902 original size:27 final size:27
Alignment explanation
Indices: 14729811--14729902 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 27
14729801 TTATTAGTAA
14729811 TTTAGGATTATGTTATAAATTGTTGTG
1 TTTAGGATTATGTTATAAATTGTTGTG
* * * *
14729838 TTT-GTAATTATTTTAAAATTAATTTGTTAGTAA
1 TTTAG-GATTATGTT---A-TAAATTGTT-GT-G
14729871 TTTAGGATTATGTTATAAATTGTTGTG
1 TTTAGGATTATGTTATAAATTGTTGTG
14729898 TTTAG
1 TTTAG
14729903 TTTAGTATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
26 1 0.02
27 15 0.31
28 2 0.04
29 8 0.16
30 2 0.04
31 8 0.16
32 2 0.04
33 10 0.20
34 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.53
Consensus pattern (27 bp):
TTTAGGATTATGTTATAAATTGTTGTG
Found at i:14730212 original size:105 final size:101
Alignment explanation
Indices: 14730096--14730383 Score: 358
Period size: 98 Copynumber: 2.9 Consensus size: 101
14730086 TTATAGTTAT
* * * * *
14730096 TTATTTTGTTAGTAATTTATGATATTAGGT-TACAAATTGTTAGTGTTGAGGATAGGGTTTTGTA
1 TTATTTTGTTAGTAATTTATG--ATTAGGTATATAAATTGTTAGTGTTTAGGTTAGTGTTTTGTG
14730160 ATTTTTTAGTAATGTAATTTTTAAAAATAACAATTTTATAG
64 ATTTTTTAGTAATGTAATTTTTAAAAA-AA-AA-TTTATAG
* *
14730201 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA-GTTATGTGTTCTGGG
1 TTATTTTGTTAGTAATTTATGATTAGG-TATATAAATTGTTAGTGTTTAGGTTA-GTGTTTTGTG
*
14730265 ATTTTTTAGTAATGT-A--TTT-AAAAAATATTTATAG
64 ATTTTTTAGTAATGTAATTTTTAAAAAAAAATTTATAG
* *
14730299 TTATTTTGTTAGTAATTTATGATTAGATTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAG-GTATATAAATTGTTAGTGTTTAGGTTAGTGTTTTGTGA
14730364 TTTTTT--TAATGTAATTTTTA
65 TTTTTTAGTAATGTAATTTTTA
14730384 TATAATGTAA
Statistics
Matches: 162, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
96 6 0.04
97 1 0.01
98 69 0.43
99 7 0.04
100 2 0.01
101 4 0.02
102 3 0.02
103 6 0.04
104 5 0.03
105 59 0.36
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.53
Consensus pattern (101 bp):
TTATTTTGTTAGTAATTTATGATTAGGTATATAAATTGTTAGTGTTTAGGTTAGTGTTTTGTGAT
TTTTTAGTAATGTAATTTTTAAAAAAAAATTTATAG
Found at i:14732315 original size:50 final size:50
Alignment explanation
Indices: 14732190--14732384 Score: 205
Period size: 50 Copynumber: 3.9 Consensus size: 50
14732180 GATAATAACA
* * * ** * * *
14732190 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGAGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
14732239 TGCCAATTCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
14732289 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
14732339 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
14732385 ATGTCAATGA
Statistics
Matches: 119, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
48 1 0.01
49 36 0.30
50 82 0.69
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:14737214 original size:84 final size:84
Alignment explanation
Indices: 14737102--14737397 Score: 520
Period size: 84 Copynumber: 3.5 Consensus size: 84
14737092 CAAAGGATCC
* * *
14737102 CGGTGGAATCAGCATTTAGCAACCACCTTGTAATCAATGATACGGGGAATTAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
14737167 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* * *
14737186 TGGTGGAATCATCACTTAGTAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
14737251 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* *
14737270 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
14737335 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
14737354 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACG
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACG
14737398 AGTTCACATA
Statistics
Matches: 201, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 201 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:14737221 original size:42 final size:42
Alignment explanation
Indices: 14737057--14737397 Score: 361
Period size: 42 Copynumber: 8.1 Consensus size: 42
14737047 CAACCCTTAC
* **
14737057 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AAGGAT
* * * *
14737100 CCCGGTGGAATCAGCATTTAGCAACCACCTTGTAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* * * *
14737143 ACGG-GGAATTAACACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
* * * *
14737185 ATGGTGGAATCATCACTTAGTAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* * *
14737227 ACGG-GGAATCAACACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
* *
14737269 ACGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* *
14737311 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
*
14737353 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
14737395 ACG
1 ACG
14737398 AGTTCACATA
Statistics
Matches: 247, Mismatches: 38, Indels: 26
0.79 0.12 0.08
Matches are distributed among these distances:
40 6 0.02
41 57 0.23
42 83 0.34
43 65 0.26
44 36 0.15
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
Found at i:14737483 original size:51 final size:51
Alignment explanation
Indices: 14737406--14737592 Score: 200
Period size: 51 Copynumber: 3.7 Consensus size: 51
14737396 CGAGTTCACA
14737406 TAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCAT-AGCTATCCGATACACG
* * * * *
14737457 TAGTAGCCTGCACATAGTACTGCACATGTGATCGA-AGCTATCCGATACGCA
1 TAGTAGCCTACACATAGTACTACACATGTGA-CCATAGCTATCCGATACACG
* * * * * * *
14737508 TAGTAGCCTGCACATAGTAATACACATGCGACC-TATCTTTCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCATAGCTATCCGATACACG
* * *
14737558 TAGTAGCCTACACATAGTATTACACACGTAACCAT
1 TAGTAGCCTACACATAGTACTACACATGTGACCAT
14737593 CACTTTCACT
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
50 40 0.36
51 70 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACATGTGACCATAGCTATCCGATACACG
Found at i:14742232 original size:27 final size:27
Alignment explanation
Indices: 14742192--14742243 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
14742182 AAAAATTATG
* **
14742192 CACCAGTCGTGCCTGTCAGATAGGCTC
1 CACCAGTCGCGCCTACCAGATAGGCTC
14742219 CACCAGTCGCGCCTACCAGATAGGC
1 CACCAGTCGCGCCTACCAGATAGGC
14742244 GCTACCTACC
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:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (27 bp):
CACCAGTCGCGCCTACCAGATAGGCTC
Found at i:14748121 original size:41 final size:40
Alignment explanation
Indices: 14748076--14748524 Score: 454
Period size: 41 Copynumber: 10.8 Consensus size: 40
14748066 TTTTTTTACT
* *
14748076 AGCGCCGCTAATGATCGTGGTTTTAGCGGTGTTTT-TGAGAA
1 AGCGCCGCTAATGCTC-TGGTTTTAGCGGCGTTTTCTGA-AA
* * *
14748117 AGCGCCGCT-ATGGCTCTGGGTTTTAGTGGCGTTTT-TGGGAG
1 AGCGCCGCTAAT-GCTCT-GGTTTTAGCGGCGTTTTCT-GAAA
* * * *
14748158 TGTGCCACTAATGCTCTGGGTTTTAGCAGCGTTTTCTGAAA
1 AGCGCCGCTAATGCTCT-GGTTTTAGCGGCGTTTTCTGAAA
* *
14748199 AGCGCCGCTAATGCTTTGCGTTTTAGCGGCGTTTTCTAAAA
1 AGCGCCGCTAATGCTCTG-GTTTTAGCGGCGTTTTCTGAAA
* * *
14748240 AGCGCTGCTAATGCTTTGCGTTTTAGCGGCATTTTCTGAAA
1 AGCGCCGCTAATGCTCTG-GTTTTAGCGGCGTTTTCTGAAA
* *
14748281 AGCGCCGTTAATGGTCTGGGTTTTAGCGGCGTTTTCTGAAA
1 AGCGCCGCTAATGCTCT-GGTTTTAGCGGCGTTTTCTGAAA
* * *
14748322 GGCGCCGCTAATGTTCTAAGGGGTTTTAGCGGCGTTTTCTAAAA
1 AGCGCCGCTAATGCTCT----GGTTTTAGCGGCGTTTTCTGAAA
* *
14748366 AGCGCCGCTAATGCTCTAGGGGTTTAGTGGCGTTTTCTGAAA
1 AGCGCCGCTAATGCTCT--GGTTTTAGCGGCGTTTTCTGAAA
*
14748408 AGCACCGCTAATGCTCTGAGTTTTAGCGGCGTTTTCTGAAA
1 AGCGCCGCTAATGCTCTG-GTTTTAGCGGCGTTTTCTGAAA
* * *
14748449 AGCGCCGCTAATGCTTTGGGTTTTAGAGGCGTTTTCTGAAT
1 AGCGCCGCTAATGCTCT-GGTTTTAGCGGCGTTTTCTGAAA
* ** *
14748490 TGCGCCGCTAATGCTAGGGGTTTTAGTGGCGTTTT
1 AGCGCCGCTAATGCT-CTGGTTTTAGCGGCGTTTT
14748525 TATTAAAGCG
Statistics
Matches: 348, Mismatches: 47, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
40 5 0.01
41 262 0.75
42 43 0.12
44 38 0.11
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.34
Consensus pattern (40 bp):
AGCGCCGCTAATGCTCTGGTTTTAGCGGCGTTTTCTGAAA
Found at i:14749481 original size:309 final size:311
Alignment explanation
Indices: 14748815--14749737 Score: 1060
Period size: 311 Copynumber: 2.9 Consensus size: 311
14748805 ATTATCACTA
** *
14748815 TAGTTTAGGGTATATGATTTTATTTAAGATTTAAGGTCGGTTTAAGAGTTCATATTTTAAGGTTT
1 TAGTTTAGGGTATATGA-TAAATTTAAGATTTAAGGTCGGTTTAGGAGTTCATATTTTAAGG---
* * * * *
14748880 TAATTAAGGAGTATATATGGATTTAGGGATTATGGATTACGAATTATGG-TTTAATGAAGGGTTG
62 T--TTAGGGAGTATATATGGATTTAGGGA-TAGGGATTAGGGATTATGGTTTTAATTAAGGGTTG
*
14748944 GGATTTAAGGTTT--A----A-GGG-TTAGGGGTTAGATGTTAGAGGTTAAGAGTTAGGGATTTG
124 GGATTTAAGGTTTAGAGGTTAGGGGTTTAGGGGTTAGATGTTAGAGGTTAAGAGTTAGGGATTTA
** * * *
14749001 GGGTTTTTGAATTTAAGGGTCGGGTACTTAGGGTTTCGGGTTT-GA-ATTATTTTTTATTAATAT
189 GGGTTTAGGATTTTAAGGGTCGGG---TTAGGGTTTTGGGTTTAGATATTA-TTTTTATTTATAT
*
14749064 TTTAAATATGTTCTTATGTAATTGTAAAAGAGATAATAATAAAATTGTTTAGGATTTTGAAT
250 TTTAAATATGTTATTATGTAATTGTAAAAGAGATAATAATAAAATTGTTTAGGATTTTGAAT
* *
14749126 TAGTTTAGGGTATATGATAAACTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTA
1 TAGTTTAGGGTATATGATAAATTTAAGATTTAAGGTCGGTTTAGGAGTTCATATTTTAAGGTTTA
14749191 GGGAGTATATATGGATTTA-GG-TAGGGATTAGGGATTATGGTTTTAATTAAGGGTTGGGATTTA
66 GGGAGTATATATGGATTTAGGGATAGGGATTAGGGATTATGGTTTTAATTAAGGGTTGGGATTTA
** * *
14749254 AGGTTTAGAGGTTAGGGGTTTAGGGGTTAGACATTAGGGGTTAAGAGTTAGGGATTTAAGGTTTA
131 AGGTTTAGAGGTTAGGGGTTTAGGGGTTAGATGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTTA
* * * *
14749319 GGGTTTTAGGGGTCGGGGTAGGGTTTTAGGTTTAGATTATTATTATTTATTTATATTTTAAATAT
196 GGATTTTAAGGGTCGGGTTAGGGTTTTGGGTTTAGA-TATTATT-TTTATTTATATTTTAAATAT
* *
14749384 GTTATTATGTAATTGT-AAA-AGATAATAATAAAATTGTTTAGGGTTTTTAAT
259 GTTATTATGTAATTGTAAAAGAGATAATAATAAAATTGTTTAGGATTTTGAAT
* *
14749435 TAG-TTAGGGGTATATGATAAATTTTAGATTTAAAGTCGGTTTAGGAGTTCATATTTTAAGGTTT
1 TAGTTTA-GGGTATATGATAAATTTAAGATTTAAGGTCGGTTTAGGAGTTCATATTTTAAGGTTT
* *
14749499 ATGGAGTACTATATATGGATTTATGGATTAGGGATTAGGGATTAT-GTTTTAATTAAGGGTTAGT
65 A-GG-G-AGTATATATGGATTTAGGGA-TAGGGATTAGGGATTATGGTTTTAATTAAGGGTT-G-
* *
14749563 CAGGATTTAAGGGTTAG-GGATTAGGGGATTAGGGATTAGGGGTTAGATGTTAGTGGTTAAGAGT
124 --GGATTTAAGGTTTAGAGG-TTAGGGG--T-----TTAGGGGTTAGATGTTAGAGGTTAAGAGT
* * * *
14749627 TAAGGATTTAGGGTTTAGGATTTCAAAGGTCGGGTTAGGGTTTTGGGTTTAGAT-TT-TTTTAAT
179 TAGGGATTTAGGGTTTAGGATTTTAAGGGTCGGGTTAGGGTTTTGGGTTTAGATATTATTTTTAT
* * **
14749690 TTAGATTTTAAATATGTTTTTATG-CCTTGTAAAAGAGATAATAATAAA
244 TTATATTTTAAATATGTTATTATGTAATTGTAAAAGAGATAATAATAAA
14749738 TTTAATATAT
Statistics
Matches: 529, Mismatches: 49, Indels: 57
0.83 0.08 0.09
Matches are distributed among these distances:
302 16 0.03
303 27 0.05
304 2 0.00
305 22 0.04
307 1 0.00
308 16 0.03
309 90 0.17
310 49 0.09
311 109 0.21
312 15 0.03
313 2 0.00
314 16 0.03
315 18 0.03
317 2 0.00
318 21 0.04
320 5 0.01
321 29 0.05
322 15 0.03
323 2 0.00
324 1 0.00
325 71 0.13
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.41
Consensus pattern (311 bp):
TAGTTTAGGGTATATGATAAATTTAAGATTTAAGGTCGGTTTAGGAGTTCATATTTTAAGGTTTA
GGGAGTATATATGGATTTAGGGATAGGGATTAGGGATTATGGTTTTAATTAAGGGTTGGGATTTA
AGGTTTAGAGGTTAGGGGTTTAGGGGTTAGATGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTTA
GGATTTTAAGGGTCGGGTTAGGGTTTTGGGTTTAGATATTATTTTTATTTATATTTTAAATATGT
TATTATGTAATTGTAAAAGAGATAATAATAAAATTGTTTAGGATTTTGAAT
Found at i:14749594 original size:15 final size:14
Alignment explanation
Indices: 14749573--14749608 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
14749563 CAGGATTTAA
14749573 GGGTTAGGGATTAG
1 GGGTTAGGGATTAG
14749587 GGGATTAGGGATTAG
1 GGG-TTAGGGATTAG
14749602 GGGTTAG
1 GGGTTAG
14749609 ATGTTAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.22, C:0.00, G:0.50, T:0.28
Consensus pattern (14 bp):
GGGTTAGGGATTAG
Found at i:14750949 original size:24 final size:25
Alignment explanation
Indices: 14750922--14750975 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
14750912 TCATTTTTCT
14750922 CCTCAAAAT-TTTCCCCAAAATTCC
1 CCTCAAAATATTTCCCCAAAATTCC
*
14750946 CCTC-CAATATTTCCCCAAAATTCC
1 CCTCAAAATATTTCCCCAAAATTCC
14750970 CC-CAAA
1 CCTCAAA
14750976 TCTAGAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.33, C:0.41, G:0.00, T:0.26
Consensus pattern (25 bp):
CCTCAAAATATTTCCCCAAAATTCC
Done.