Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 44 of 290
Found at i:14416429 original size:18 final size:18
Alignment explanation
Indices: 14416382--14416507 Score: 90
Period size: 18 Copynumber: 6.9 Consensus size: 18
14416372 AGTCACTCTT
* *
14416382 TAACAGTCAGTTATTCAG
1 TAACAATCAATTATTCAG
** * *
14416400 TAATGATAAATTATTTAG
1 TAACAATCAATTATTCAG
14416418 TAACAATCAATTATTCAG
1 TAACAATCAATTATTCAG
** **
14416436 TAACAATCTTTTTACGCAG
1 TAACAATC-AATTATTCAG
* * * *
14416455 TAGCATTCAGTTATCCAG
1 TAACAATCAATTATTCAG
* *
14416473 TAACAGTCAGTTATTCAG
1 TAACAATCAATTATTCAG
*
14416491 TAACAACCAATTATTCA
1 TAACAATCAATTATTCA
14416508 ATACCTTTAT
Statistics
Matches: 81, Mismatches: 26, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
18 69 0.85
19 12 0.15
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
TAACAATCAATTATTCAG
Found at i:14416627 original size:6 final size:6
Alignment explanation
Indices: 14416618--14416647 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
14416608 GGAATACGCT
*
14416618 GTAACG GTAACA GTAACA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA
14416648 ATAGTGGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:14416726 original size:51 final size:54
Alignment explanation
Indices: 14416635--14416750 Score: 157
Period size: 51 Copynumber: 2.2 Consensus size: 54
14416625 TAACAGTAAC
*
14416635 AGTAACAGTAACAATAGTGGTACACAGAGTACCTCATCAGAACAAATCCGGAAT
1 AGTAACAGTAACAATAGAGGTACACAGAGTACCTCATCAGAACAAATCCGGAAT
* * **
14416689 AGTAACAGTAACAGTA-AGGTACA-A-AGTACCTCTTCAGAATGAATCCGGAAT
1 AGTAACAGTAACAATAGAGGTACACAGAGTACCTCATCAGAACAAATCCGGAAT
*
14416740 AGTAAAAGTAA
1 AGTAACAGTAA
14416751 GGCGACACTT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 34 0.61
52 1 0.02
53 6 0.11
54 15 0.27
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (54 bp):
AGTAACAGTAACAATAGAGGTACACAGAGTACCTCATCAGAACAAATCCGGAAT
Found at i:14417768 original size:27 final size:27
Alignment explanation
Indices: 14417738--14417795 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
14417728 TGACTTACCT
14417738 ATTTAAACTTCAAGCTTCAAACCCTCA
1 ATTTAAACTTCAAGCTTCAAACCCTCA
***
14417765 ATTTCCCCTTCAAGCTTCAAACCCTCA
1 ATTTAAACTTCAAGCTTCAAACCCTCA
14417792 ATTT
1 ATTT
14417796 CCCTTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.33, G:0.03, T:0.33
Consensus pattern (27 bp):
ATTTAAACTTCAAGCTTCAAACCCTCA
Found at i:14417796 original size:27 final size:27
Alignment explanation
Indices: 14417745--14417798 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
14417735 CCTATTTAAA
14417745 CTTCAAGCTTCAAACCCTCAATTTCCC
1 CTTCAAGCTTCAAACCCTCAATTTCCC
14417772 CTTCAAGCTTCAAACCCTCAATTTCCC
1 CTTCAAGCTTCAAACCCTCAATTTCCC
14417799 TTTTCTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.41, G:0.04, T:0.30
Consensus pattern (27 bp):
CTTCAAGCTTCAAACCCTCAATTTCCC
Found at i:14417833 original size:19 final size:19
Alignment explanation
Indices: 14417801--14417856 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
14417791 AATTTCCCTT
* *
14417801 TTCTTCTTTCTTTCTTTCC
1 TTCTTCTCTGTTTCTTTCC
14417820 TTCTTCTCTGTTTCGTTT-C
1 TTCTTCTCTGTTTC-TTTCC
14417839 TTCTAT-TCTGTTTCTTTC
1 TTCT-TCTCTGTTTCTTTC
14417857 TTTTATTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 3 0.09
19 25 0.78
20 4 0.12
ACGTcount: A:0.02, C:0.27, G:0.05, T:0.66
Consensus pattern (19 bp):
TTCTTCTCTGTTTCTTTCC
Found at i:14418045 original size:18 final size:19
Alignment explanation
Indices: 14418017--14418070 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
14418007 ATAATATAAT
14418017 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
14418036 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
14418054 TATTTAA-TAACTAAATA
1 TATTTAATTAA-TAAATA
14418071 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:14418287 original size:20 final size:20
Alignment explanation
Indices: 14418247--14418283 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
14418237 TTACAAATAT
14418247 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
14418267 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
14418284 CACACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:14420675 original size:23 final size:23
Alignment explanation
Indices: 14420649--14420700 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
14420639 AATTAAAAAG
14420649 ATGAAAGCAT-TATACCTATCATT
1 ATGAAAGCATAT-TACCTATCATT
* *
14420672 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTACCTATCATT
14420695 ATGAAA
1 ATGAAA
14420701 CCAAGTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTACCTATCATT
Found at i:14424932 original size:23 final size:23
Alignment explanation
Indices: 14424906--14424957 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
14424896 AATTAAAAAG
14424906 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
14424929 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
14424952 ATGAAA
1 ATGAAA
14424958 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:14431123 original size:32 final size:32
Alignment explanation
Indices: 14431087--14431151 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
14431077 GGAAATAAAG
14431087 AAAAAATTATGTCGATTATAGCGAAAAGTCTC
1 AAAAAATTATGTCGATTATAGCGAAAAGTCTC
*
14431119 AAAAAATTATGTCGATTATAGCGGAAAGTCTC
1 AAAAAATTATGTCGATTATAGCGAAAAGTCTC
14431151 A
1 A
14431152 CAGTTTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (32 bp):
AAAAAATTATGTCGATTATAGCGAAAAGTCTC
Found at i:14436140 original size:21 final size:21
Alignment explanation
Indices: 14436088--14436141 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
14436078 TAATAGTTTA
14436088 AATATAACATATATATTACAATT
1 AATATAA-ATATATATTACAA-T
*
14436111 AACAT-AATATATATTACAA-
1 AATATAAATATATATTACAAT
14436130 ACATATAAATAT
1 A-ATATAAATAT
14436142 GATACGACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 18 0.67
22 1 0.04
23 4 0.15
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (21 bp):
AATATAAATATATATTACAAT
Found at i:14438124 original size:40 final size:40
Alignment explanation
Indices: 14438067--14438162 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
14438057 ATGACAAAGA
14438067 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
14438108 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
14438148 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
14438163 GAAAGAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:14438178 original size:17 final size:18
Alignment explanation
Indices: 14438109--14438184 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 18
14438099 CAGAGAAGGG
*
14438109 AGAAAGAAAGAAACAGAG
1 AGAAAGAAAGAAACAGAA
* *
14438127 AGCAA-AACGAAACAGAGA
1 AGAAAGAAAGAAACAGA-A
* * *
14438145 AGGAAGGAAGGAA-AGAA
1 AGAAAGAAAGAAACAGAA
14438162 AGAAAGAAAGAAA-AGAAA
1 AGAAAGAAAGAAACAG-AA
14438180 AGAAA
1 AGAAA
14438185 AAGGAAAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
17 23 0.51
18 18 0.40
19 4 0.09
ACGTcount: A:0.67, C:0.05, G:0.28, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGAAACAGAA
Found at i:14438191 original size:17 final size:17
Alignment explanation
Indices: 14438151--14438192 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14438141 GAGAAGGAAG
14438151 GAAGG-AAAGAAAGAAA
1 GAAGGAAAAGAAAGAAA
*
14438167 GAAAGAAAAGAAAAGAAA
1 GAAGGAAAAG-AAAGAAA
14438185 -AAGGAAAA
1 GAAGGAAAA
14438193 TTTGGGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 11 0.50
18 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAGGAAAAGAAAGAAA
Found at i:14438932 original size:29 final size:30
Alignment explanation
Indices: 14438873--14438930 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
14438863 TCCGAGCCTT
*
14438873 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
14438903 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
14438931 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:14439368 original size:50 final size:50
Alignment explanation
Indices: 14439260--14439496 Score: 287
Period size: 50 Copynumber: 4.6 Consensus size: 50
14439250 GGTAAAGATA
* * *
14439260 TCCCATGTAAGATCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--GAGAGG
*
14439316 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGG
* * *
14439366 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGG
* * * **
14439416 TCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AGG
14439467 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
14439497 TTTGGCATGT
Statistics
Matches: 161, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.57
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 34 0.21
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGG
Found at i:14439443 original size:100 final size:104
Alignment explanation
Indices: 14439259--14439504 Score: 349
Period size: 100 Copynumber: 2.4 Consensus size: 104
14439249 GGGTAAAGAT
* *
14439259 ATCCCATGTAAGATCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTAT
* *
14439324 AAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-AG
63 AAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAAC
* * *
14439365 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
14439427 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
*
14439466 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
14439505 GTTATTATCA
Statistics
Matches: 128, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.40
101 39 0.30
105 2 0.02
106 35 0.27
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.22
Consensus pattern (104 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAAC
Found at i:14452957 original size:11 final size:10
Alignment explanation
Indices: 14452934--14452977 Score: 56
Period size: 9 Copynumber: 4.4 Consensus size: 10
14452924 ACAATTAATT
14452934 AATTTTTTT-
1 AATTTTTTTA
14452943 AATTTTTTCTA
1 AATTTTTT-TA
14452954 AATTTTTTTTA
1 AA-TTTTTTTA
14452965 AA-TTTTTTA
1 AATTTTTTTA
14452974 AATT
1 AATT
14452978 AATTAATTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 17 0.55
10 2 0.06
11 6 0.19
12 6 0.19
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:14452959 original size:20 final size:19
Alignment explanation
Indices: 14452934--14452977 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
14452924 ACAATTAATT
*
14452934 AATTTTTTTAATTTTTTCTA
1 AATTTTTTTAAATTTTT-TA
14452954 AATTTTTTTTAAATTTTTTA
1 AA-TTTTTTTAAATTTTTTA
14452974 AATT
1 AATT
14452978 AATTAATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 6 0.27
21 14 0.64
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTTTTTAAATTTTTTA
Found at i:14452962 original size:12 final size:11
Alignment explanation
Indices: 14452936--14452972 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
14452926 AATTAATTAA
14452936 TTTTTTT-AAT
1 TTTTTTTAAAT
*
14452946 TTTTTCTAAAT
1 TTTTTTTAAAT
14452957 TTTTTTTAAAT
1 TTTTTTTAAAT
14452968 TTTTT
1 TTTTT
14452973 AAATTAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:14458551 original size:31 final size:30
Alignment explanation
Indices: 14458505--14458571 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
14458495 ATATGATATA
*
14458505 AGTTTTTGTATTTTTTGTAAATTTAAAATTT
1 AGTTTTTGTATTTTTTAT-AATTTAAAATTT
*
14458536 AGTTATTT-TATTTTTTATATTTTAAAATTT
1 AGTT-TTTGTATTTTTTATAATTTAAAATTT
14458566 AAGTTT
1 -AGTTT
14458572 AATTTTTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 12 0.38
31 17 0.53
32 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (30 bp):
AGTTTTTGTATTTTTTATAATTTAAAATTT
Found at i:14462137 original size:12 final size:12
Alignment explanation
Indices: 14462107--14462144 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
14462097 TTGATTGAAT
*
14462107 TAAATTTTTT-T
1 TAAATTTTTTAA
14462118 TAAA-TTTTTAA
1 TAAATTTTTTAA
14462129 TAAATTTTTTAA
1 TAAATTTTTTAA
14462141 TAAA
1 TAAA
14462145 ACTGATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 5 0.21
11 8 0.33
12 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAAATTTTTTAA
Found at i:14463847 original size:30 final size:31
Alignment explanation
Indices: 14463771--14463840 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
14463761 ATTATAATAT
*
14463771 AAATTTTAAAATAAATATATTTAAAAATAATGA
1 AAATATTAAAAT--ATATATTTAAAAATAATGA
*
14463804 AAATATTAAAATATATATTT-AAAATAATTA
1 AAATATTAAAATATATATTTAAAAATAATGA
14463834 ATAATAT
1 A-AATAT
14463841 GAAATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 10 0.29
31 13 0.38
33 11 0.32
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (31 bp):
AAATATTAAAATATATATTTAAAAATAATGA
Found at i:14474066 original size:8 final size:9
Alignment explanation
Indices: 14474025--14474064 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
14474015 TAATTTTTTT
14474025 TTAAAAATA
1 TTAAAAATA
14474034 -TAATAAATA
1 TTAA-AAATA
14474043 --AAAAATA
1 TTAAAAATA
14474050 TTAAAAATA
1 TTAAAAATA
14474059 TTAAAA
1 TTAAAA
14474065 TAAATATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 5 0.18
8 5 0.18
9 18 0.64
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
TTAAAAATA
Found at i:14474215 original size:20 final size:20
Alignment explanation
Indices: 14474165--14474215 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
14474155 TCTCTAAAAT
*
14474165 AATAACAAAATTAACAATAA
1 AATAACAAAAATAACAATAA
*
14474185 AATAA-ATAAAATAATGAAT-A
1 AATAACA-AAAATAA-CAATAA
14474205 AATAACAAAAA
1 AATAACAAAAA
14474216 AATAACAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 1 0.04
20 21 0.81
21 4 0.15
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.20
Consensus pattern (20 bp):
AATAACAAAAATAACAATAA
Found at i:14480980 original size:72 final size:70
Alignment explanation
Indices: 14480848--14480981 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 70
14480838 TTAGGGCCTA
* * **
14480848 AACTTTTTTTATCTAAGTTAGACCCTGAACTTGACAATTATTCTTACATTAAGGTTTGAATTGGG
1 AACTTTTTTTATCCAAGTTAGACCCTGAACTTGACAATTATTCTGACATTAAGGCCTGAATTGGG
14480913 GCTTG
66 GCTTG
* * *
14480918 AACTTCTTTTTAGTCCAAGTTAG-CTCTTGAACTTGACAATTATTCTGATATTGAGGCCTGAATT
1 AACTT-TTTTTA-TCCAAGTTAGAC-CCTGAACTTGACAATTATTCTGACATTAAGGCCTGAATT
14480982 TTATGGTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 5 0.09
71 7 0.13
72 42 0.78
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (70 bp):
AACTTTTTTTATCCAAGTTAGACCCTGAACTTGACAATTATTCTGACATTAAGGCCTGAATTGGG
GCTTG
Found at i:14481875 original size:67 final size:68
Alignment explanation
Indices: 14481766--14481897 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 68
14481756 TGGTAGGTCT
* * *
14481766 ATTTTCGTACCTGAACTTTTTTTTTATTTTGGTACTCGAACTTGATAATTAAGTCTATTTTAATC
1 ATTTTCGTACCTGAACTTTTTTTTTATTTTGGTACTCGAACTTGACAACTAAATCTATTTTAATC
14481831 TTC
66 TTC
* *
14481834 ATTTTTGTACCTGTA-TTTTTTTTTATTTTGGTAC-CTGAACTTGACAACTAAATCTATTTTAAT
1 ATTTTCGTACCTGAACTTTTTTTTTATTTTGGTACTC-GAACTTGACAACTAAATCTATTTTAAT
14481897 C
65 C
14481898 CTTGCACTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
66 1 0.02
67 44 0.76
68 13 0.22
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (68 bp):
ATTTTCGTACCTGAACTTTTTTTTTATTTTGGTACTCGAACTTGACAACTAAATCTATTTTAATC
TTC
Found at i:14491374 original size:20 final size:19
Alignment explanation
Indices: 14491330--14491366 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14491320 CTCTAAACAT
* *
14491330 AAATATTAAAATAATTTAA
1 AAATATTAAAAGAAATTAA
14491349 AAATATTAAAAGAAATTA
1 AAATATTAAAAGAAATTA
14491367 CAATATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATATTAAAAGAAATTAA
Found at i:14498403 original size:19 final size:20
Alignment explanation
Indices: 14498353--14498403 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
14498343 ATCTTTTCTT
14498353 TATTTAGTTA-TTATTTTGAA
1 TATTTA-TTATTTATTTTGAA
*
14498373 TATTTATTATTTATTTTTAA
1 TATTTATTATTTATTTTGAA
*
14498393 -ATTTCTTATTT
1 TATTTATTATTT
14498404 TGAATACGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TATTTATTATTTATTTTGAA
Found at i:14503379 original size:12 final size:12
Alignment explanation
Indices: 14503362--14503395 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14503352 TGGCTCGCCC
14503362 ATATTAATTTTT
1 ATATTAATTTTT
*
14503374 ATATTATTTTTT
1 ATATTAATTTTT
14503386 ATA-TAATTTT
1 ATATTAATTTT
14503396 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:14503574 original size:30 final size:31
Alignment explanation
Indices: 14503517--14503578 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
14503507 CAACTTAATA
14503517 AGCAAATGCCTCTAAAATAATTAAAAAAATT
1 AGCAAATGCCTCTAAAATAATTAAAAAAATT
* *
14503548 AGCAAATGTCTTTAAAATAA-TAAAAAAATT
1 AGCAAATGCCTCTAAAATAATTAAAAAAATT
14503578 A
1 A
14503579 ACAATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.27
Consensus pattern (31 bp):
AGCAAATGCCTCTAAAATAATTAAAAAAATT
Found at i:14503659 original size:11 final size:11
Alignment explanation
Indices: 14503619--14503658 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
14503609 ACAATAACAA
14503619 CAAAATAATAG
1 CAAAATAATAG
*
14503630 CAACATAATAG
1 CAAAATAATAG
* *
14503641 TAAAATAGTAG
1 CAAAATAATAG
14503652 CAAAATA
1 CAAAATA
14503659 GGGAGAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:14506726 original size:19 final size:19
Alignment explanation
Indices: 14506702--14506745 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14506692 TTAATTAATT
14506702 TTTTAATAAAGTTTAAATA
1 TTTTAATAAAGTTTAAATA
** *
14506721 TTTTAATAATTTTTAAATT
1 TTTTAATAAAGTTTAAATA
14506740 TTTTAA
1 TTTTAA
14506746 CATTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTAATAAAGTTTAAATA
Found at i:14507686 original size:33 final size:34
Alignment explanation
Indices: 14507658--14507720 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
14507648 TTATTTGACT
14507658 AATTTT-TTTTAAAAAAAATATAAA-TATTTCTA
1 AATTTTCTTTTAAAAAAAATATAAATTATTTCTA
* * *
14507690 AATTTTCTTTTTAAGAAATTATAAATTATTT
1 AATTTTCTTTTAAAAAAAATATAAATTATTT
14507721 TCAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 6 0.23
33 15 0.58
34 5 0.19
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (34 bp):
AATTTTCTTTTAAAAAAAATATAAATTATTTCTA
Found at i:14509508 original size:18 final size:19
Alignment explanation
Indices: 14509482--14509522 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
14509472 AATTAATCCT
*
14509482 AAAATTAAAAAAAAAG-AA
1 AAAACTAAAAAAAAAGTAA
*
14509500 AAAACTAAAAATAAAGTAA
1 AAAACTAAAAAAAAAGTAA
14509519 AAAA
1 AAAA
14509523 GAATTTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAACTAAAAAAAAAGTAA
Found at i:14529397 original size:29 final size:29
Alignment explanation
Indices: 14529350--14529418 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
14529340 TTGCAAATAG
* *
14529350 GAACCAATAAAGAGGCCTGCGATCCCATA
1 GAACTAATAAAGAGGCCTGAGATCCCATA
* * *
14529379 GAATTAATAAAGTGGCCTGAGATCCCTTA
1 GAACTAATAAAGAGGCCTGAGATCCCATA
14529408 GAACTAATAAA
1 GAACTAATAAA
14529419 AACCTTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (29 bp):
GAACTAATAAAGAGGCCTGAGATCCCATA
Found at i:14531144 original size:27 final size:27
Alignment explanation
Indices: 14531113--14531166 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
14531103 TGGATTAAAG
*
14531113 TTAATATTATACCACTTACGTAAGGGA
1 TTAATATTATAACACTTACGTAAGGGA
*
14531140 TTAATATTATAACACTTGCGTAAGGGA
1 TTAATATTATAACACTTACGTAAGGGA
14531167 GGTCAAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (27 bp):
TTAATATTATAACACTTACGTAAGGGA
Found at i:14532187 original size:31 final size:31
Alignment explanation
Indices: 14532152--14532212 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
14532142 AATAGCCTAG
* * *
14532152 TGACTTGAATAAAAACTTTTAAATAGTTTAA
1 TGACTTAAATAAAAACTTTCAAATAATTTAA
* *
14532183 TGACTTAAATGAAACCTTTCAAATAATTTA
1 TGACTTAAATAAAAACTTTCAAATAATTTA
14532213 GTGGCCAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAATTTAA
Found at i:14534848 original size:15 final size:15
Alignment explanation
Indices: 14534824--14534854 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14534814 CTTTTTGGGT
*
14534824 AAAAGGGAAAAAAAA
1 AAAAGAGAAAAAAAA
14534839 AAAAGAGAAAAAAAA
1 AAAAGAGAAAAAAAA
14534854 A
1 A
14534855 TGATGCGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAGAGAAAAAAAA
Found at i:14551788 original size:60 final size:60
Alignment explanation
Indices: 14551695--14551808 Score: 219
Period size: 60 Copynumber: 1.9 Consensus size: 60
14551685 AAAGTTTCAG
14551695 TAAGAGTGTACTTATACACTCTGATACACCTTCATTTATTGCTTCTTTCATTAAGAAACT
1 TAAGAGTGTACTTATACACTCTGATACACCTTCATTTATTGCTTCTTTCATTAAGAAACT
*
14551755 TAAGAGTGTACTTATACACTCTGATACACCTTCATTTATTGCTTTTTTCATTAA
1 TAAGAGTGTACTTATACACTCTGATACACCTTCATTTATTGCTTCTTTCATTAA
14551809 AAAAATTTGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (60 bp):
TAAGAGTGTACTTATACACTCTGATACACCTTCATTTATTGCTTCTTTCATTAAGAAACT
Found at i:14556667 original size:20 final size:20
Alignment explanation
Indices: 14556644--14556684 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14556634 AAAAAACTTG
* *
14556644 TTAAAATATATTTAACAGTT
1 TTAAAACATATTTAAAAGTT
14556664 TTAAAACATATTTAAAAGTT
1 TTAAAACATATTTAAAAGTT
14556684 T
1 T
14556685 ATTGTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TTAAAACATATTTAAAAGTT
Found at i:14558502 original size:98 final size:102
Alignment explanation
Indices: 14558315--14558510 Score: 319
Period size: 98 Copynumber: 2.0 Consensus size: 102
14558305 GAGATAAAAC
*
14558315 TAGTTGAACAATTTGAACCGATTTGATAAATTTTTTTTATCTTTCTTAAAGTTTTTATGAATTTT
1 TAGTTGAACAATTTGAACCGATTTCATAAATTTTTTTTA-CTTTCTTAAAGTTTTTATGAATTTT
14558380 TAATTATTTATTTAATTATTGTTGGTCTAGCAAACTAG
65 TAATTATTTATTTAATTATTGTTGGTCTAGCAAACTAG
* **
14558418 TAGTTGAACCATTTGAATTGATTTCATAAA-TTTTTTTA-TTT-TTAAAGTTTTTATGAA-TTTT
1 TAGTTGAACAATTTGAACCGATTTCATAAATTTTTTTTACTTTCTTAAAGTTTTTATGAATTTTT
14558479 AATTATTTATTTAATTATTGTTGGTCTAGCAA
66 AATTATTTATTTAATTATTGTTGGTCTAGCAA
14558511 TTGAATCGAT
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
98 36 0.40
99 16 0.18
100 3 0.03
102 8 0.09
103 26 0.29
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (102 bp):
TAGTTGAACAATTTGAACCGATTTCATAAATTTTTTTTACTTTCTTAAAGTTTTTATGAATTTTT
AATTATTTATTTAATTATTGTTGGTCTAGCAAACTAG
Found at i:14563051 original size:25 final size:25
Alignment explanation
Indices: 14563022--14563071 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14563012 TTTGCTCCAA
14563022 AAATTCCCATTCCACCCGGTCGTAC
1 AAATTCCCATTCCACCCGGTCGTAC
14563047 AAATTCCCATTCCACCCGGTCGTAC
1 AAATTCCCATTCCACCCGGTCGTAC
14563072 GCCTTGCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (25 bp):
AAATTCCCATTCCACCCGGTCGTAC
Found at i:14569468 original size:14 final size:14
Alignment explanation
Indices: 14569449--14569475 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14569439 TCTCAAACCT
14569449 AATGAGATATGTAG
1 AATGAGATATGTAG
14569463 AATGAGATATGTA
1 AATGAGATATGTA
14569476 TCTATTTCTT
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:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (14 bp):
AATGAGATATGTAG
Found at i:14569707 original size:18 final size:18
Alignment explanation
Indices: 14569684--14569722 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
14569674 CTATTAATAT
14569684 TTATCAATTTCCACAAAG
1 TTATCAATTTCCACAAAG
*
14569702 TTATCAATTTCCACAAGG
1 TTATCAATTTCCACAAAG
14569720 TTA
1 TTA
14569723 ATATTTGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (18 bp):
TTATCAATTTCCACAAAG
Found at i:14573454 original size:36 final size:36
Alignment explanation
Indices: 14573407--14573480 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
14573397 AAGTGCTTTA
14573407 ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
1 ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
14573443 ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
1 ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
14573479 AC
1 AC
14573481 GTCCAACTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (36 bp):
ACTCAAGCAAGGAAGTGCCAATCTCACCTGAAATTG
Found at i:14580073 original size:30 final size:30
Alignment explanation
Indices: 14580012--14580073 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 30
14580002 CTTAACAAGT
14580012 AATGCCTCTAAAATAATAAAAAATTTTAACA
1 AATGCCTCTAAAATAATAAAAAA-TTTAACA
*
14580043 AATGCCTTTAAAATAATAAGAAAA-TTAACA
1 AATGCCTCTAAAATAATAA-AAAATTTAACA
14580073 A
1 A
14580074 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.24
31 18 0.62
32 4 0.14
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
AATGCCTCTAAAATAATAAAAAATTTAACA
Found at i:14580694 original size:13 final size:14
Alignment explanation
Indices: 14580676--14580708 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14580666 GATATTTTTC
14580676 TTTATATGT-AATA
1 TTTATATGTAAATA
14580689 TTTATATGTCAAATA
1 TTTATATGT-AAATA
14580704 TTTAT
1 TTTAT
14580709 CTTCTCTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TTTATATGTAAATA
Found at i:14582766 original size:25 final size:24
Alignment explanation
Indices: 14582738--14582898 Score: 87
Period size: 26 Copynumber: 6.9 Consensus size: 24
14582728 ACTTGGGATA
*
14582738 ATATAAAAAATATATGAATAATGT
1 ATATAAAAAATATATGAATAATAT
14582762 GATATTAAAAATATATATG--TAATAT
1 -ATA-TAAAAA-ATATATGAATAATAT
14582787 ATATAAAAAAT-TAT-AAT-AT-T
1 ATATAAAAAATATATGAATAATAT
**
14582807 A-A-AAAAAATATA--CCTAATAT
1 ATATAAAAAATATATGAATAATAT
*
14582827 ATATAAAAAATATATATACATAATAT
1 ATATAAAAAATATAT-GA-ATAATAT
* *
14582853 AGTATTAAAATATATAT-AATACATAC
1 A-TA-TAAAAAATATATGAATA-ATAT
* *
14582879 ATATTAGAAATA-AT-AATAAT
1 ATATAAAAAATATATGAATAAT
14582899 GTTACAAAAC
Statistics
Matches: 110, Mismatches: 10, Indels: 35
0.71 0.06 0.23
Matches are distributed among these distances:
18 8 0.07
19 5 0.05
20 4 0.04
21 6 0.05
22 15 0.14
23 12 0.11
24 9 0.08
25 13 0.12
26 18 0.16
27 9 0.08
28 11 0.10
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATAAAAAATATATGAATAATAT
Found at i:14582811 original size:17 final size:19
Alignment explanation
Indices: 14582781--14582842 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 19
14582771 AATATATATG
*
14582781 TAATATATATAAAAAATTA
1 TAATATATATAAAAAAATA
*
14582800 TAATAT-TAAAAAAAATATA
1 TAATATATATAAAAAA-ATA
14582819 CCTAATATATATAAAAAATATA
1 --TAATATATATAAAAAA-ATA
14582841 TA
1 TA
14582843 TACATAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 2 0.06
21 6 0.17
22 12 0.33
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATATATATAAAAAAATA
Found at i:14582812 original size:40 final size:40
Alignment explanation
Indices: 14582763--14582842 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
14582753 GAATAATGTG
* **
14582763 ATATTAAAAATATATATGTAATATATATAAAAAAT-TATA
1 ATATTAAAAAAATATACCTAATATATATAAAAAATATATA
14582802 ATATTAAAAAAAATATACCTAATATATATAAAAAATATATA
1 ATATT-AAAAAAATATACCTAATATATATAAAAAATATATA
14582843 TACATAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 5 0.14
40 27 0.75
41 4 0.11
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (40 bp):
ATATTAAAAAAATATACCTAATATATATAAAAAATATATA
Found at i:14582827 original size:26 final size:28
Alignment explanation
Indices: 14582782--14582882 Score: 102
Period size: 26 Copynumber: 3.6 Consensus size: 28
14582772 ATATATATGT
* *
14582782 AATATATATAAAAAATTATAATATTAAAA
1 AATATATATACATAA-TATAATATTAAAA
*
14582811 AA-A-ATATACCTAATAT-ATA-TAAAA
1 AATATATATACATAATATAATATTAAAA
*
14582835 AATATATATACATAATATAGTATTAAAA
1 AATATATATACATAATATAATATTAAAA
*
14582863 TATATATAATACATACATAT
1 AATATAT-ATACATA-ATAT
14582883 TAGAAATAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
24 7 0.12
25 4 0.07
26 15 0.25
27 9 0.15
28 12 0.20
29 9 0.15
30 4 0.07
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (28 bp):
AATATATATACATAATATAATATTAAAA
Found at i:14582838 original size:13 final size:13
Alignment explanation
Indices: 14582782--14582871 Score: 69
Period size: 13 Copynumber: 6.8 Consensus size: 13
14582772 ATATATATGT
14582782 AATATATATAAAA
1 AATATATATAAAA
14582795 AATTATAATATTAAAA
1 AA-TAT-ATA-TAAAA
***
14582811 AA-A-ATATACCT
1 AATATATATAAAA
14582822 AATATATATAAAA
1 AATATATATAAAA
* *
14582835 AATATATATACAT
1 AATATATATAAAA
*
14582848 AATATAGTAT-TAA
1 AATATA-TATAAAA
14582861 AATATATATAA
1 AATATATATAA
14582872 TACATACATA
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
11 4 0.07
12 7 0.12
13 31 0.53
14 7 0.12
15 3 0.05
16 7 0.12
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (13 bp):
AATATATATAAAA
Found at i:14582974 original size:23 final size:23
Alignment explanation
Indices: 14582929--14582974 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14582919 AATACTTCAT
* *
14582929 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
14582952 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
14582975 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:14583110 original size:3 final size:3
Alignment explanation
Indices: 14583038--14583092 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
14583028 CATATAAGTG
* *
14583038 TAA TAA TAG TAT TAA -AA TTAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
14583083 T-A TAA TAA TA
1 TAA TAA TAA TA
14583093 GTAGCTATAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.87
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:14584969 original size:85 final size:84
Alignment explanation
Indices: 14584804--14585104 Score: 363
Period size: 85 Copynumber: 3.5 Consensus size: 84
14584794 GCATGTGACT
* * * *
14584804 CGAGGTTCAACTCACCTCTCGCAATATGAGCTGACTTTTGATAAAAACAGAATTTGAAAAACAGA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT--T-GAAACA-AAATTGAAAAACAGA
* *
14584869 AACTGAAAATGCCTCAGCGTGTCC
61 AATTGAAAATACCTCAGCGTGTCC
* * *
14584893 CAAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTGAAACATAAATTGAAAAAC-GAAAAT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA-AAATTGAAAAACAG-AAAT
14584957 TGAAAATACCTCAGCGTGTCC
64 TGAAAATACCTCAGCGTGTCC
* *
14584978 TGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-TTTTGACAAACAATAATTGAAAAACAGAAA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACAA-AATTGAAAAACAGAAA
**
14585042 TTGAAAATACCTCAGCATGTGAGC
63 TTGAAAATACCTCAGC--GTGTCC
14585066 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
14585105 TTATGAACAG
Statistics
Matches: 185, Mismatches: 19, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
84 6 0.03
85 69 0.37
86 36 0.19
87 1 0.01
88 40 0.22
89 33 0.18
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (84 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTGAAAAACAGAAATTG
AAAATACCTCAGCGTGTCC
Found at i:14585152 original size:162 final size:168
Alignment explanation
Indices: 14584805--14585177 Score: 449
Period size: 162 Copynumber: 2.2 Consensus size: 168
14584795 CATGTGACTC
* * *
14584805 GAGGTTCAACTCACCTCTCGCAATATGAGCTGACTTTTGATAAAAACAGAATTTGAAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAAAACAGAATTTGAAAAACAGAA
* *
14584870 ACTGAAAATGCCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTGAA
65 ACTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTT---
14584935 ACATAAATTGAAAAACGAAAATTGAAAATACCTCAGCGTGTCCT
127 --ATAAATTGAAAAACGAAAATTGAAAATACCTCAGCGTGTCCT
* * *
14584979 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGACAAACA-ATAA-TTGAAAAACAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAAAACAGAATTTGAAAAACAGAAA
* * * * *
14585042 TTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-T
66 CTGAAAATACCTCAGC--GTGACCCAAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTAT
* *
14585106 -TA-TG-AACA-G-AAATT-AAAATTACCTCAGCGTGTCCT
129 AAATTGAAAAACGAAAATTGAAAA-TACCTCAGCGTGTCCT
* *
14585141 GAGGCTCAACTCATCTCTCGCAATATGAGTTAATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
14585178 TTTGAAAGAC
Statistics
Matches: 178, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
161 4 0.02
162 55 0.31
163 1 0.01
164 3 0.02
165 2 0.01
166 1 0.01
167 1 0.01
171 28 0.16
172 3 0.02
173 50 0.28
174 30 0.17
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (168 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAAAACAGAATTTGAAAAACAGAAA
CTGAAAATACCTCAGCGTGACCCAAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTTATAA
ATTGAAAAACGAAAATTGAAAATACCTCAGCGTGTCCT
Found at i:14585160 original size:74 final size:73
Alignment explanation
Indices: 14585032--14585231 Score: 253
Period size: 74 Copynumber: 2.7 Consensus size: 73
14585022 CAATAATTGA
14585032 AAAACAGAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGC--GT--GCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
14585096 TTGATTTTTTT-
62 TTAATTTTTTTG
* *
14585107 ATGAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGT
1 A-AAACAGAAATTGAAAA-TACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
14585171 TAATTTTTTTG
63 TAATTTTTTTG
* *
14585182 AAAGACAGAAATTGAAAATACCTCAACGTGCATTGAGGCTCAACTCACCT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGC-CTGAGGCTCAACTCACCT
14585232 GTAACAGCCC
Statistics
Matches: 110, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
72 1 0.01
73 2 0.02
74 42 0.38
75 42 0.38
76 23 0.21
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTTTG
Found at i:14603347 original size:4 final size:4
Alignment explanation
Indices: 14603338--14603362 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14603328 ATGTACATGT
14603338 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
14603363 CAAATATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:14607453 original size:23 final size:23
Alignment explanation
Indices: 14607337--14607485 Score: 70
Period size: 25 Copynumber: 6.1 Consensus size: 23
14607327 TAGTATTGAG
*
14607337 TATTAAAAGTATAT-ATAATATA
1 TATTAAAAATATATAATAATATA
* **
14607359 GACAAAAAATATATATGCATAATATA
1 TATTAAAAATATATA---ATAATATA
* * *
14607385 GTATTGAAAATATTTACATGGGATA-A
1 -TATTAAAAATATATA-AT--AATATA
* *
14607411 TATAAAAAATATATGAATAATGTGA
1 TATTAAAAATATAT-AATAATAT-A
14607436 TATTAAAAATATAT-ATAATATA
1 TATTAAAAATATATAATAATATA
* * *
14607458 TATATAAAATTATAATATTAAAATA
1 TAT-TAAAAATAT-ATAATAATATA
14607483 TAT
1 TAT
14607486 ATACCTAATA
Statistics
Matches: 94, Mismatches: 20, Indels: 23
0.69 0.15 0.17
Matches are distributed among these distances:
22 14 0.15
23 16 0.17
24 2 0.02
25 39 0.41
26 10 0.11
27 13 0.14
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
TATTAAAAATATATAATAATATA
Found at i:14607494 original size:21 final size:23
Alignment explanation
Indices: 14607482--14607540 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
14607472 ATATTAAAAT
*
14607482 ATATATACCTAATATATATATAA
1 ATATATACATAATATATATATAA
14607505 ATATATACATAATATAGTAT-TAA
1 ATATATACATAATATA-TATATAA
*
14607528 A-ATATATATAATA
1 ATATATACATAATA
14607541 CATACATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 11 0.33
23 19 0.58
24 3 0.09
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATATACATAATATATATATAA
Found at i:14607556 original size:26 final size:25
Alignment explanation
Indices: 14607455--14607568 Score: 78
Period size: 25 Copynumber: 4.6 Consensus size: 25
14607445 TATATATAAT
* *
14607455 ATATATATAA-AATTATAATATTAAA
1 ATATATATAATAA-TACAGTATTAAA
* *
14607480 ATATATATACCTAATATA-TA-TATAA
1 ATATATATA-ATAATACAGTATTA-AA
* *
14607505 ATATATA-CATAATATAGTATTAAA
1 ATATATATAATAATACAGTATTAAA
14607529 ATATATATAATACATACA-TATTAGAA
1 ATATATATAATA-ATACAGTATTA-AA
14607555 ATA-ATAATAATAAT
1 ATATAT-ATAATAAT
14607569 GTTACAAAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
25 34 0.45
26 19 0.25
27 2 0.03
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATATATAATAATACAGTATTAAA
Found at i:14607643 original size:22 final size:22
Alignment explanation
Indices: 14607599--14607643 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
14607589 AATACTTCAT
* *
14607599 AAATATATACATATATATGTTA
1 AAATAAATACATATATATATTA
14607621 AAATAAATACATAT-TAATATTA
1 AAATAAATACATATAT-ATATTA
14607643 A
1 A
14607644 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATAAATACATATATATATTA
Found at i:14607743 original size:30 final size:30
Alignment explanation
Indices: 14607707--14607806 Score: 150
Period size: 30 Copynumber: 3.4 Consensus size: 30
14607697 CATATAAGTG
14607707 TAATAATAGTATTAAAATTAATAATAATAA
1 TAATAATAGTATTAAAATTAATAATAATAA
14607737 TAATAATAGTATTAAAATTAATAATAATAA
1 TAATAATAGTATTAAAATTAATAATAATAA
* * *
14607767 TAATAATAATAATAATAA-TGATAATAAT-A
1 TAATAATAGTATTAA-AATTAATAATAATAA
14607796 TAATAATAGTA
1 TAATAATAGTA
14607807 GCTATAGTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
29 11 0.17
30 52 0.80
31 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (30 bp):
TAATAATAGTATTAAAATTAATAATAATAA
Found at i:14607821 original size:3 final size:3
Alignment explanation
Indices: 14607707--14607803 Score: 110
Period size: 3 Copynumber: 32.7 Consensus size: 3
14607697 CATATAAGTG
* * * *
14607707 TAA TAA TAG TAT TAA -AA TTAA TAA TAA TAA TAA TAA TAG TAT TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
14607752 -AA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA T-A
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14607796 TAA TAA TA
1 TAA TAA TA
14607804 GTAGCTATAG
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
2 6 0.07
3 71 0.88
4 4 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:14616419 original size:22 final size:22
Alignment explanation
Indices: 14616357--14616419 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
14616347 TAATCCTTTA
14616357 AAAATCATAAAAATATAGATTATT
1 AAAATCATAAAAATAT--ATTATT
* * *
14616381 AAAATGATAAAATTATATTTTT
1 AAAATCATAAAAATATATTATT
**
14616403 ACTATCATAAAAATATA
1 AAAATCATAAAAATATA
14616420 CAATTTAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
22 18 0.56
24 14 0.44
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (22 bp):
AAAATCATAAAAATATATTATT
Found at i:14620094 original size:41 final size:40
Alignment explanation
Indices: 14620018--14620103 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
14620008 CAAATACATT
*
14620018 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * **
14620059 TAAAACAATTCTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
14620099 TAAAA
1 TAAAA
14620104 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.21
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:14627041 original size:36 final size:36
Alignment explanation
Indices: 14626964--14627033 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
14626954 CTGCACATAA
*
14626964 ATTTCCAGTCCCAGTGAACCCAATGATGCAACAAAC
1 ATTTCCAGTCCCAGTAAACCCAATGATGCAACAAAC
* *
14627000 ATTTCCAGTTCCAGTAAATCCAATGATGCAACAA
1 ATTTCCAGTCCCAGTAAACCCAATGATGCAACAA
14627034 GCTTTTCCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (36 bp):
ATTTCCAGTCCCAGTAAACCCAATGATGCAACAAAC
Found at i:14628455 original size:25 final size:27
Alignment explanation
Indices: 14628425--14628496 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
14628415 CATTACGGAG
*
14628425 AAATCA-AATACAAAAAA-GAAAGAAA
1 AAATCATAATAAAAAAAAGGAAAGAAA
* *
14628450 AAATCATATTAAAAAAAAGGGAAGAAA
1 AAATCATAATAAAAAAAAGGAAAGAAA
*
14628477 AAATCATATTAAAAAAAAGG
1 AAATCATAATAAAAAAAAGG
14628497 GTGATTTCAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 6 0.14
26 9 0.21
27 27 0.64
ACGTcount: A:0.69, C:0.06, G:0.11, T:0.14
Consensus pattern (27 bp):
AAATCATAATAAAAAAAAGGAAAGAAA
Found at i:14628474 original size:27 final size:27
Alignment explanation
Indices: 14628436--14628497 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
14628426 AATCAAATAC
*
14628436 AAAAAA-GAAAGAAAAAATCATATTAA
1 AAAAAAGGGAAGAAAAAATCATATTAA
14628462 AAAAAAGGGAAGAAAAAATCATATTAA
1 AAAAAAGGGAAGAAAAAATCATATTAA
14628489 AAAAAAGGG
1 AAAAAAGGG
14628498 TGATTTCAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.69, C:0.03, G:0.15, T:0.13
Consensus pattern (27 bp):
AAAAAAGGGAAGAAAAAATCATATTAA
Found at i:14628693 original size:5 final size:5
Alignment explanation
Indices: 14628683--14628710 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14628673 CCTTTTAGAG
14628683 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
14628711 GAAGATTTTT
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:14629355 original size:4 final size:4
Alignment explanation
Indices: 14629346--14629483 Score: 52
Period size: 4 Copynumber: 34.5 Consensus size: 4
14629336 TTTTAATTCT
* * * * * *
14629346 TTTA TTTA TTCA CTTA TTCA TTTG TTTA TTTA CTCA -TTA TTCCT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA
* * * * * * *
14629394 TTCTA TTCA TTTA TTTG TTCA TTTA CTTA TTTA TATA -TTA TTCA TTCA
1 TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
14629442 -TTA TTTA TTTA -TTA TTTTA ATCA TTGTA TTTG TTTA TTTA TT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TT-TA TTTA TTTA TTTA TT
14629484 ATTCCTTCAT
Statistics
Matches: 95, Mismatches: 29, Indels: 20
0.66 0.20 0.14
Matches are distributed among these distances:
3 10 0.11
4 72 0.76
5 12 0.13
6 1 0.01
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:14629448 original size:22 final size:23
Alignment explanation
Indices: 14629411--14629457 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
14629401 CATTTATTTG
*
14629411 TTCATTTACTTATTTATATATTA
1 TTCATTCACTTATTTATATATTA
*
14629434 TTCATTCA-TTATTTATTTATTA
1 TTCATTCACTTATTTATATATTA
14629456 TT
1 TT
14629458 TTAATCATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (23 bp):
TTCATTCACTTATTTATATATTA
Found at i:14629458 original size:11 final size:11
Alignment explanation
Indices: 14629414--14629458 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
14629404 TTATTTGTTC
14629414 ATTTACTTATTT
1 ATTTA-TTATTT
* *
14629426 ATATATTATTC
1 ATTTATTATTT
*
14629437 ATTCATTATTT
1 ATTTATTATTT
14629448 ATTTATTATTT
1 ATTTATTATTT
14629459 TAATCATTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 23 0.85
12 4 0.15
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTATTATTT
Found at i:14629555 original size:17 final size:17
Alignment explanation
Indices: 14629525--14629571 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
14629515 TCTTCTATTA
*
14629525 TTTATT-TTATTTATGAC
1 TTTATTATTA-TTATCAC
14629542 TTTATTATTATTATCAC
1 TTTATTATTATTATCAC
14629559 TATT-TTATTATTA
1 T-TTATTATTATTA
14629572 CCTATTCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTATTATTATTATCAC
Found at i:14634149 original size:12 final size:12
Alignment explanation
Indices: 14634132--14634160 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
14634122 TGATTTAGCG
14634132 AAGAAAGAGATT
1 AAGAAAGAGATT
14634144 AAGAAAGAGATT
1 AAGAAAGAGATT
14634156 AAGAA
1 AAGAA
14634161 TGATTACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (12 bp):
AAGAAAGAGATT
Found at i:14635823 original size:13 final size:13
Alignment explanation
Indices: 14635805--14635831 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14635795 ATCATTATTA
14635805 ACTCTTATTTTTT
1 ACTCTTATTTTTT
14635818 ACTCTTATTTTTT
1 ACTCTTATTTTTT
14635831 A
1 A
14635832 TTAAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (13 bp):
ACTCTTATTTTTT
Found at i:14635894 original size:9 final size:9
Alignment explanation
Indices: 14635868--14635915 Score: 69
Period size: 9 Copynumber: 5.0 Consensus size: 9
14635858 TTATCTTCAA
14635868 TTTTATTATC
1 TTTTATTA-C
14635878 GTTATTATTAC
1 -TT-TTATTAC
14635889 TTTTATTAC
1 TTTTATTAC
14635898 TTTTATTAC
1 TTTTATTAC
14635907 TTTTATTAC
1 TTTTATTAC
14635916 CGTACTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 25 0.69
10 2 0.06
11 3 0.08
12 6 0.17
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATTAC
Found at i:14636011 original size:7 final size:8
Alignment explanation
Indices: 14635995--14636023 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
14635985 TATAAATTCA
14635995 TTTTATTT
1 TTTTATTT
14636003 TTTTATTT
1 TTTTATTT
14636011 TTTTATTT
1 TTTTATTT
14636019 TTTTA
1 TTTTA
14636024 CAAATTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTATTT
Found at i:14644285 original size:3 final size:3
Alignment explanation
Indices: 14644279--14644499 Score: 66
Period size: 3 Copynumber: 74.3 Consensus size: 3
14644269 AAAATACAAC
* * * *
14644279 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
14644322 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
14644366 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
14644411 -CT ATT AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT -AT ATT AGAT
1 AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * *
14644456 AAT AAT AGT AA- AAT AAT AAGT AAC AAT AAT AAAT TAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT AAT AAT A
14644500 GTGATGAGAA
Statistics
Matches: 157, Mismatches: 43, Indels: 36
0.67 0.18 0.15
Matches are distributed among these distances:
2 18 0.11
3 122 0.78
4 17 0.11
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14644285 original size:22 final size:22
Alignment explanation
Indices: 14644234--14644294 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
14644224 ATAAGTAAAT
* *
14644234 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
14644255 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
14644277 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
14644295 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:14644779 original size:3 final size:3
Alignment explanation
Indices: 14644771--14644809 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
14644761 ACACTACCAT
*
14644771 ATA ATA ATA ATA ATA ATA ATA AGA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14644810 TAGAAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14644899 original size:14 final size:14
Alignment explanation
Indices: 14644852--14644903 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
14644842 TTTAAAAAAC
*
14644852 AATACTATATATAAA
1 AATA-TATACATAAA
* *
14644867 AGTATATACATACA
1 AATATATACATAAA
* *
14644881 TATATGTACATAAA
1 AATATATACATAAA
14644895 AATATATAC
1 AATATATAC
14644904 TAATATATAA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
14 25 0.89
15 3 0.11
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (14 bp):
AATATATACATAAA
Found at i:14644918 original size:3 final size:3
Alignment explanation
Indices: 14644890--14644954 Score: 94
Period size: 3 Copynumber: 21.0 Consensus size: 3
14644880 ATATATGTAC
* *
14644890 ATA AAA ATA TATA CTA ATA TATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
14644937 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
14644955 TTAAAATGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14646368 original size:205 final size:204
Alignment explanation
Indices: 14646001--14646786 Score: 1200
Period size: 205 Copynumber: 3.8 Consensus size: 204
14645991 CTATTTCTTT
* * * * * * *
14646001 GATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCACGTGA
1 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
* * * *
14646066 AAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACTATCTTGGAT
66 AAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
* ** * *
14646130 CCGCTTCAGCATAAACATCCGAAGATGAGATCTGCTATGTGCCTGCTCTCCATCAAAGTGAAGAT
131 CCGCTTCAG-ATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCTATCAAAGTGAAGAT
14646195 GCCAAACTTC
195 GCCAAACTTC
*
14646205 GATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCACGTG
1 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGC-TTCATCGTAATCACGTG
*
14646269 AAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
65 AAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* *
14646334 TCTGCTTCAG-TGAAATCGTCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCTATCAAAGTGAAG
130 TCCGCTTCAGAT-AAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCTATCAAAGTGAAG
14646398 ATGCCAAACTTC
193 ATGCCAAACTTC
*
14646410 GATTCGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
1 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
* *
14646475 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
66 AAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
* ** * *
14646540 CTGCTTCAGCGAAATCATTTGAAGGTGAGATCTGCTATGTGTCTGCTCTCTATCAAAGTGAAGAT
131 CCGCTTCAGATAAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCTATCAAAGTGAAGAT
14646605 GCCAAACTTC
195 GCCAAACTTC
* *
14646615 GATTCGTTTTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
1 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
*
14646680 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
66 AAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
* *
14646745 CCGCTACAGCATAAACATCTGAAGGCGAGATCTACTATGTGT
131 CCGCTTCAG-ATAAACATCTGAAGGCGAGATCTGCTATGTGT
14646787 GGCCTATTAC
Statistics
Matches: 537, Mismatches: 38, Indels: 13
0.91 0.06 0.02
Matches are distributed among these distances:
203 1 0.00
204 77 0.14
205 456 0.85
206 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (204 bp):
GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
AAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
CCGCTTCAGATAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCTATCAAAGTGAAGATG
CCAAACTTC
Found at i:14654710 original size:13 final size:15
Alignment explanation
Indices: 14654680--14654710 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14654670 TTCTAGATTT
14654680 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
14654695 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
14654710 T
1 T
14654711 GGAAGGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:14658666 original size:3 final size:3
Alignment explanation
Indices: 14658660--14658877 Score: 60
Period size: 3 Copynumber: 73.3 Consensus size: 3
14658650 AAAATACAAC
* * * *
14658660 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
14658703 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * ** *
14658747 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT -CT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
14658791 ATT AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT -AT ATT AGAT AAT
1 AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * *
14658837 AAT AGT AA- AAT AAT AAGT AAC AAT AAT AAAT TAT AAT AAT A
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT AAT AAT A
14658878 GTGATGAGAA
Statistics
Matches: 154, Mismatches: 43, Indels: 36
0.66 0.18 0.15
Matches are distributed among these distances:
2 18 0.12
3 119 0.77
4 17 0.11
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14658666 original size:22 final size:22
Alignment explanation
Indices: 14658615--14658675 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
14658605 ATAAGTAAAT
* *
14658615 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
14658636 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
14658658 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
14658676 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:14659158 original size:3 final size:3
Alignment explanation
Indices: 14659150--14659194 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
14659140 ACACTACCAT
*
14659150 ATA ATA ATA ATA ATA ATA ATA ATA ATA AGA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14659195 TAGAAATACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14660271 original size:44 final size:43
Alignment explanation
Indices: 14660207--14660292 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 43
14660197 TGAGTTCTTG
* *
14660207 ATCTGCTTCTTCGATCTGTTCCCCATAAACACAGGGATGCCAA
1 ATCTGCTTCTTCAATCTGTTCCCCATAAACACACGGATGCCAA
***
14660250 ATCTGCTGTCTTCAA-CTTGTTCTTTATAAACACACGGATGCCA
1 ATCTGCT-TCTTCAATC-TGTTCCCCATAAACACACGGATGCCA
14660293 TGCTGAAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 8 0.22
44 28 0.78
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (43 bp):
ATCTGCTTCTTCAATCTGTTCCCCATAAACACACGGATGCCAA
Found at i:14660724 original size:205 final size:204
Alignment explanation
Indices: 14660346--14661135 Score: 1228
Period size: 205 Copynumber: 3.9 Consensus size: 204
14660336 AGATCTATTT
* * * * * * *
14660346 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* * *
14660411 GTGAAAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
14660475 GGATCCGCTTCAGCATAAA-CATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
131 GGATCCGCTTCAG--TAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
14660539 AAGATGCCAAA
194 AAGATGCCAAA
*
14660550 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCA
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGC-TTCATCGTAATCA
* *
14660614 CGTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
65 CGTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
* *
14660679 TGGATCTGCTTCAGTGAAATCGTCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
130 TGGATCCGCTTCAGT-AAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
14660744 AAGATGCCAAA
194 AAGATGCCAAA
*
14660755 CTTCGATTC-TATCTCTGACAATACAGAGACGACAAATCATCTTAGATTTACTTCATCGTAATCA
1 CTTCGATTCGT-TCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCA
* *
14660819 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
** * *
14660884 TGGATTTGCTTCAGCGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
130 TGGATCCGCTTCAG-TAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
14660949 AAGATGCCAAA
194 AAGATGCCAAA
* *
14660960 CTTTGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* *
14661025 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
14661090 GGATCCGCTTCAGTATAAACATCTGAAGGCGAGATCTGCTATGTGT
131 GGATCCGCTTCAGTA-AATCATCTGAAGGCGAGATCTGCTATGTGT
14661136 GGCCTATTAC
Statistics
Matches: 542, Mismatches: 35, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
203 1 0.00
204 83 0.15
205 457 0.84
206 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (204 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCCGCTTCAGTAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
GATGCCAAA
Found at i:14665973 original size:91 final size:91
Alignment explanation
Indices: 14665817--14666617 Score: 947
Period size: 91 Copynumber: 8.9 Consensus size: 91
14665807 AATTTCGACT
* * *
14665817 AGCCTTATCTCC-CTAAGTAGTAGTGG-AACAGGCT-AAAATTACAG---ATCTTATCTCCCTAA
1 AGCCTTATC-CCTCTAAGTAGTAG-GGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAA
* *
14665876 GCAGTAATGG-GTTAGGTTGAAGATGTTG
64 GCAGTAATGGAG-TAGGTTGAAGACGGTG
* * * **
14665904 AGCCTTATTCCTCTAAGTAGTAGGGAAACAGACTGAACATGACAGACCACCCTATCTCCCTAAAT
1 AGCCTTATCCCTCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAAGC
*
14665969 AGTAATGGAGTAGGTTGAAGATGGTG
66 AGTAATGGAGTAGGTTGAAGACGGTG
* * *
14665995 A-CCTTATCCCCCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACTCTATCTCTCTAAGC
1 AGCCTTATCCCTCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAAGC
14666059 AGTAATGG-GTTAGGTTGAAGACGGTG
66 AGTAATGGAG-TAGGTTGAAGACGGTG
* * *
14666085 AGCCTTATCACCT-TAAGCAGTAGGGAAACAGGCTGAAAATGATAGACCACCCTATCTTCCTAAG
1 AGCCTTATC-CCTCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAAG
14666149 CAGTAATGGAGTAGGTTGAAGACGGTG
65 CAGTAATGGAGTAGGTTGAAGACGGTG
* * * * *
14666176 AGCCTTATCCCTCTAAGTAGTAGGGAAACAAGCTGAACATAATAGACCACCCTATCTCCCTAAGT
1 AGCCTTATCCCTCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAAGC
*
14666241 AGTAATAGAGTAGGTTGAAGACGGTG
66 AGTAATGGAGTAGGTTGAAGACGGTG
* * *
14666267 AGCCTTATCGCC-CTAAGCAGTAGGGAAACAGGCTGAAAATGACAGACTACCCTATTTCCCTAAG
1 AGCCTTATC-CCTCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAAG
*
14666331 CAGTAGTGGAGTAGGTTGAAGACGGTG
65 CAGTAATGGAGTAGGTTGAAGACGGTG
** * * * * *
14666358 AGTTTTA-ACCTCCTAAGCAGTAGGGAAACAGGCTGAAAATCACAG---ATCTTATCTCCCTAAG
1 AGCCTTATCCCT-CTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAAG
* * * ** *
14666419 CAGTAGTGGAGCAGATCAAAGACAGTG
65 CAGTAATGGAGTAGGTTGAAGACGGTG
* * *
14666446 AGTCTTATCCCTCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCATCCTATCTCCTTAAGC
1 AGCCTTATCCCTCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAAGC
14666511 AGTAGA-GGAGTAGGTTGAAGACGGTG
66 AGTA-ATGGAGTAGGTTGAAGACGGTG
* * * * * *
14666537 AGCCTTATCCCCCTAAATAGTAGGGAAACAGGCTAAAAATTACAG---ATCTTATCTCCCTAAGC
1 AGCCTTATCCCTCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAAGC
*
14666599 AGTAGTGGAGTAGGTTGAA
66 AGTAATGGAGTAGGTTGAA
14666618 AATTACAAAT
Statistics
Matches: 620, Mismatches: 73, Indels: 41
0.84 0.10 0.06
Matches are distributed among these distances:
86 4 0.01
87 26 0.04
88 112 0.18
89 6 0.01
90 82 0.13
91 384 0.62
92 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (91 bp):
AGCCTTATCCCTCTAAGTAGTAGGGAAACAGGCTGAAAATGACAGACCACCCTATCTCCCTAAGC
AGTAATGGAGTAGGTTGAAGACGGTG
Found at i:14666417 original size:44 final size:44
Alignment explanation
Indices: 14666270--14666749 Score: 194
Period size: 44 Copynumber: 10.8 Consensus size: 44
14666260 GACGGTGAGC
* *
14666270 CTTATCGCCCTAAGCAGTAG-GGAAACAGGCTGAAAATGACAGACT
1 CTTATCTCCCTAAGCAGTAGTGG-AACAGGCTGAAAATCACAGA-T
* * ** * * ***
14666315 ACCCTATTTCCCTAAGCAGTAGTGGAGTAGGTTGAAGA-CGGTGAGT
1 --CTTATCTCCCTAAGCAGTAGTGGAACAGGCTGAAAATCACAGA-T
* *
14666361 TTTAAC-CTCCTAAGCAGTAG-GGAAACAGGCTGAAAATCACAGAT
1 CTTATCTC-CCTAAGCAGTAGTGG-AACAGGCTGAAAATCACAGAT
* * * **
14666405 CTTATCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGA-CAGTGAGT
1 CTTATCTCCCTAAGCAGTAGTGGAACAGGCTGAAA-ATCACAGA-T
* *
14666449 CTTATC-CCTCTAAGTAGTAG-GGAAACAGGCTGAAAATGACAGACCAT
1 CTTATCTCC-CTAAGCAGTAGTGG-AACAGGCTGAAAATCACAG---AT
* * * ** * * *** *
14666496 CCTATCTCCTTAAGCAGTAGAGGAGTAGGTTGAAGA-CGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAACAGGCTGAAAATCACAGA-T
* ** * *
14666540 CTTATCCCCCTAAATAGTAG-GGAAACAGGCTAAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGG-AACAGGCTGAAAATCACAGAT
** * * *
14666584 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAACAGGCTGAAAATCACAGAT
* * * * * ** *
14666628 CTTCTCTCCCTAACCAGTAGTGGAGCA-GATCGAAGA-CAGTGAAC
1 CTTATCTCCCTAAGCAGTAGTGGAACAGGCT-GAAAATCACAG-AT
* * * *
14666672 CTTATCTCCCTAAGCAGTAGCGGAATAAGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAACAGGCTGAAAATCACAGAT
* * *
14666716 CTTATC-CTCCTAAGCATTAGTGGAGCAGACTGAA
1 CTTATCTC-CCTAAGCAGTAGTGGAACAGGCTGAA
14666750 GATTACCAGA
Statistics
Matches: 308, Mismatches: 99, Indels: 55
0.67 0.21 0.12
Matches are distributed among these distances:
43 23 0.07
44 203 0.66
45 21 0.07
46 4 0.01
47 50 0.16
48 7 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAACAGGCTGAAAATCACAGAT
Found at i:14666691 original size:132 final size:132
Alignment explanation
Indices: 14666500--14666740 Score: 317
Period size: 132 Copynumber: 1.8 Consensus size: 132
14666490 GACCATCCTA
* * * * * * * *
14666500 TCTCCTTAAGCAGTAGAGGAGTAGGTTGAAGACGGTGAGCCTTATCCCCCTAAATAGTAG-GGAA
1 TCTCCCTAACCAGTAGAGGAGCAGATCGAAGACAGTGAACCTTATCCCCCTAAACAGTAGCGGAA
14666564 -ACAGGCTAAAAATTACAGATCTTAT-CTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAAA
66 TA-A-GCTAAAAATTACAGATCTTATCCT-CCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAAA
14666627 TCTTC
128 TCTTC
* * *
14666632 TCTCCCTAACCAGTAGTGGAGCAGATCGAAGACAGTGAACCTTATCTCCCTAAGCAGTAGCGGAA
1 TCTCCCTAACCAGTAGAGGAGCAGATCGAAGACAGTGAACCTTATCCCCCTAAACAGTAGCGGAA
* *
14666697 TAAGCTGAAAATTACAGATCTTATCCTCCTAAGCATTAGTGGAG
66 TAAGCTAAAAATTACAGATCTTATCCTCCTAAGCAGTAGTGGAG
14666741 CAGACTGAAG
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
132 85 0.91
133 7 0.08
134 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (132 bp):
TCTCCCTAACCAGTAGAGGAGCAGATCGAAGACAGTGAACCTTATCCCCCTAAACAGTAGCGGAA
TAAGCTAAAAATTACAGATCTTATCCTCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAAATCT
TC
Found at i:14666751 original size:88 final size:88
Alignment explanation
Indices: 14666584--14666744 Score: 234
Period size: 88 Copynumber: 1.8 Consensus size: 88
14666574 AATTACAGAT
* * * * *
14666584 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAAATCTTCTCTCCCTAACCAGTAGT
1 CTTATCTCCCTAAGCAGTAGCGGAATAAGCTGAAAATTACAAATCTTATCTCCCTAACCAGTAGT
14666649 GGAGCAGATCGAAGACAGTGAAC
66 GGAGCAGATCGAAGACAGTGAAC
* * *
14666672 CTTATCTCCCTAAGCAGTAGCGGAATAAGCTGAAAATTACAGATCTTATC-CTCCTAAGCATTAG
1 CTTATCTCCCTAAGCAGTAGCGGAATAAGCTGAAAATTACAAATCTTATCTC-CCTAACCAGTAG
14666736 TGGAGCAGA
65 TGGAGCAGA
14666745 CTGAAGATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
87 1 0.02
88 63 0.98
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (88 bp):
CTTATCTCCCTAAGCAGTAGCGGAATAAGCTGAAAATTACAAATCTTATCTCCCTAACCAGTAGT
GGAGCAGATCGAAGACAGTGAAC
Found at i:14669079 original size:49 final size:50
Alignment explanation
Indices: 14669024--14669120 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 50
14669014 TTCGTTTTCT
* *
14669024 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATAATCACATAC
*
14669073 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATAATCACAT
14669121 GTTCACATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 36 0.82
50 8 0.18
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATAATCACATAC
Found at i:14670436 original size:37 final size:37
Alignment explanation
Indices: 14670392--14670483 Score: 175
Period size: 37 Copynumber: 2.5 Consensus size: 37
14670382 CACTTGTCCC
14670392 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
14670429 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
14670466 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
14670484 TAAAGCTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:14670514 original size:46 final size:46
Alignment explanation
Indices: 14670447--14670766 Score: 361
Period size: 46 Copynumber: 6.6 Consensus size: 46
14670437 TAAGTGTAGC
** **
14670447 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
14670493 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
14670539 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
14670591 CACTTATCACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
14670642 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
14670688 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
14670740 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
14670767 AGTACTCAAA
Statistics
Matches: 244, Mismatches: 18, Indels: 24
0.85 0.06 0.08
Matches are distributed among these distances:
46 108 0.44
48 1 0.00
49 2 0.01
50 1 0.00
51 50 0.20
52 82 0.34
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:14670566 original size:52 final size:52
Alignment explanation
Indices: 14670490--14670760 Score: 385
Period size: 52 Copynumber: 5.3 Consensus size: 52
14670480 TAGCTAAAGC
* * *
14670490 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
14670543 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
14670595 TATCAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
14670646 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* ** *
14670692 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
14670744 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
14670761 ATCAGAAGTA
Statistics
Matches: 197, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
46 39 0.20
47 2 0.01
48 1 0.01
50 1 0.01
51 53 0.27
52 83 0.42
53 18 0.09
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:14670641 original size:149 final size:149
Alignment explanation
Indices: 14670464--14670752 Score: 506
Period size: 149 Copynumber: 1.9 Consensus size: 149
14670454 CACTTTGTTT
* *
14670464 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAG
* * *
14670529 CCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCAC
66 CCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTACCAC
14670594 TTATCACTTTCACTTGTCA
131 TTATCACTTTCACTTGTCA
*
14670613 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAG
* *
14670678 CCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCAC
66 CCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTACCAC
14670743 TTATCACTTT
131 TTATCACTTT
14670753 ATCACTTGAT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 132 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (149 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTATCACTTGATCAGATAAGTATAG
CCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTACCAC
TTATCACTTTCACTTGTCA
Found at i:14670747 original size:98 final size:97
Alignment explanation
Indices: 14670446--14670766 Score: 427
Period size: 98 Copynumber: 3.3 Consensus size: 97
14670436 ATAAGTGTAG
* ** **
14670446 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T---TT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTT
* * *
14670506 GTCTCTTGATCAGATAAGTATAGCCGAAGCTA
66 GTCACTTGATCAGATAAGTGTAGCTGAAGCTA
*
14670538 TCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 CCACTTATCAC-TTT-A----TCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
14670603 TCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
60 TCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
* * *
14670641 TCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT-CACT
*
14670706 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
65 TGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
14670739 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
14670767 AGTACTCAAA
Statistics
Matches: 204, Mismatches: 13, Indels: 18
0.87 0.06 0.08
Matches are distributed among these distances:
92 10 0.05
93 3 0.01
97 43 0.21
98 101 0.50
100 1 0.00
101 1 0.00
102 3 0.01
103 42 0.21
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTT
GTCACTTGATCAGATAAGTGTAGCTGAAGCTA
Found at i:14673005 original size:26 final size:27
Alignment explanation
Indices: 14672976--14673031 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
14672966 TTTCCATATG
* *
14672976 ACCAATTCTTGTA-AA-CATTTCATACA
1 ACCAATT-TTGTATAACCAATTCATAAA
14673002 ACC-ATTTTGTATAACCAATTCATAAA
1 ACCAATTTTGTATAACCAATTCATAAA
14673028 ACCA
1 ACCA
14673032 TTCATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 5 0.20
25 5 0.20
26 15 0.60
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (27 bp):
ACCAATTTTGTATAACCAATTCATAAA
Found at i:14673181 original size:46 final size:46
Alignment explanation
Indices: 14673116--14673343 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
14673106 TTATCTTCGA
* * * *
14673116 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* **
14673162 CATGGTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
14673208 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
14673254 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
14673300 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
14673344 TTCAGAAAGC
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 164 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:14675301 original size:11 final size:11
Alignment explanation
Indices: 14675285--14675337 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
14675275 TATACTAAAT
14675285 AAATAATAATA
1 AAATAATAATA
14675296 AAATAATAAT-
1 AAATAATAATA
* *
14675306 AAATATCTCATTA
1 AAATA-AT-AATA
*
14675319 AAATATTAATA
1 AAATAATAATA
14675330 AAATAATA
1 AAATAATA
14675338 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 5 0.15
11 21 0.62
12 3 0.09
13 5 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAATAATA
Found at i:14675344 original size:31 final size:33
Alignment explanation
Indices: 14675285--14675350 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
14675275 TATACTAAAT
*
14675285 AAATAATAATAAAATAATAATAAATATCTCATTA
1 AAATAATAATAAAATAATAAT-AATATCTAATTA
* *
14675319 AAATATTAATAAAATAAT-AT-TTATCTAATTA
1 AAATAATAATAAAATAATAATAATATCTAATTA
14675350 A
1 A
14675351 TTAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
33 2 0.07
34 17 0.59
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (33 bp):
AAATAATAATAAAATAATAATAATATCTAATTA
Found at i:14676309 original size:19 final size:21
Alignment explanation
Indices: 14676265--14676312 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
14676255 CCCCAAAACT
14676265 TCTATTTTCAATTCAATTTTG
1 TCTATTTTCAATTCAATTTTG
* *
14676286 TCTATTTTCGATTC-TTTTTG
1 TCTATTTTCAATTCAATTTTG
14676306 -CTATTTT
1 TCTATTTT
14676313 ATTATTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 13 0.52
ACGTcount: A:0.17, C:0.15, G:0.06, T:0.62
Consensus pattern (21 bp):
TCTATTTTCAATTCAATTTTG
Found at i:14676442 original size:3 final size:3
Alignment explanation
Indices: 14676344--14676427 Score: 52
Period size: 3 Copynumber: 28.7 Consensus size: 3
14676334 AGTTTTGTAT
**
14676344 TTA TTA TTA -TA TTA TT- TT- TTCA TTA GCA TTA TTA TTA TT- TTCA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TT-A
* * * *
14676387 TTA TAA CTG TCA TTA TTA TTA TTA TT- TTA TTTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT
14676428 TTCTACCATT
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
2 10 0.16
3 45 0.73
4 7 0.11
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:14683360 original size:10 final size:10
Alignment explanation
Indices: 14683345--14683369 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14683335 TGTTGGTAAA
14683345 AAAAAAAAAG
1 AAAAAAAAAG
14683355 AAAAAAAAAG
1 AAAAAAAAAG
14683365 AAAAA
1 AAAAA
14683370 CCAGCTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:14685610 original size:118 final size:118
Alignment explanation
Indices: 14685382--14685619 Score: 395
Period size: 118 Copynumber: 2.0 Consensus size: 118
14685372 TTATTGCATC
* * *
14685382 AACTTAAGTTTTTATTTCAATGCCATAATTAATTGCTAAGTGATAGGAATAAAAGTACCGTAAAG
1 AACTTAAGTTTCTATTTCAATGCCATAATTAATTGCTAAGTCATAGGAATAAAAGTACCATAAAG
14685447 ATTTTGTATTAATAGTCAAATTGTATTTTGTCATTTTACTAAAAAACGGGCAG
66 ATTTTGTATTAATAGTCAAATTGTATTTTGTCATTTTACTAAAAAACGGGCAG
* * *
14685500 AACTTAAGTTTCTATTTCAATGCCATAATTAATTGTTAAGTCATAGGGATAAAAGTATCATAAAG
1 AACTTAAGTTTCTATTTCAATGCCATAATTAATTGCTAAGTCATAGGAATAAAAGTACCATAAAG
* *
14685565 ACTTTTGTATTAATAGTCAGATTGTATTTTGTCCTTTTACTAAAAAACGGGCAG
66 A-TTTTGTATTAATAGTCAAATTGTATTTTGTCATTTTACTAAAAAACGGGCAG
14685619 A
1 A
14685620 TTAATCTTTA
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
118 60 0.54
119 51 0.46
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (118 bp):
AACTTAAGTTTCTATTTCAATGCCATAATTAATTGCTAAGTCATAGGAATAAAAGTACCATAAAG
ATTTTGTATTAATAGTCAAATTGTATTTTGTCATTTTACTAAAAAACGGGCAG
Found at i:14686158 original size:22 final size:21
Alignment explanation
Indices: 14686116--14686158 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14686106 ATTCAATTTA
* *
14686116 AAATTTTTTAACTTTGCCTCC
1 AAATTTTATAACTTTACCTCC
*
14686137 AAATTTTATAATCTTTATCTCC
1 AAATTTTATAA-CTTTACCTCC
14686159 CCCTTAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.28, C:0.21, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATTTTATAACTTTACCTCC
Found at i:14687310 original size:10 final size:10
Alignment explanation
Indices: 14687292--14687323 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
14687282 AAAATTTAAT
14687292 TTTAAAAAAA
1 TTTAAAAAAA
*
14687302 TTTATAAAAA
1 TTTAAAAAAA
14687312 TTTAAAAAAA
1 TTTAAAAAAA
14687322 TT
1 TT
14687324 AGTATGAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:14687622 original size:23 final size:22
Alignment explanation
Indices: 14687580--14687622 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
14687570 TAATCTTATT
*
14687580 TAAAAATAATAGAATCATAAAC
1 TAAAAATAATAAAATCATAAAC
*
14687602 TAAAATATAATAAAATTATAA
1 TAAAA-ATAATAAAATCATAA
14687623 TTTAACTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAAATAATAAAATCATAAAC
Found at i:14687654 original size:22 final size:23
Alignment explanation
Indices: 14687613--14687656 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14687603 AAAATATAAT
*
14687613 AAAATTATAATTTAACTTCTAAA
1 AAAATTATAATTCAACTTCTAAA
14687636 AAAATTATAATTCAA-TTCTAA
1 AAAATTATAATTCAACTTCTAA
14687657 TTGCTCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATTATAATTCAACTTCTAAA
Found at i:14691445 original size:11 final size:11
Alignment explanation
Indices: 14691429--14691471 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
14691419 TAGAATATAC
14691429 CCCATACCTTG
1 CCCATACCTTG
*
14691440 CCCATACCTTT
1 CCCATACCTTG
*
14691451 CCCATACC-TA
1 CCCATACCTTG
14691461 CCCATACCTTG
1 CCCATACCTTG
14691472 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:14691466 original size:21 final size:22
Alignment explanation
Indices: 14691429--14691470 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
14691419 TAGAATATAC
*
14691429 CCCATACCTTGCCCATACCTTT
1 CCCATACCTTACCCATACCTTT
14691451 CCCATACC-TACCCATACCTT
1 CCCATACCTTACCCATACCTT
14691471 GGAAAGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (22 bp):
CCCATACCTTACCCATACCTTT
Found at i:14691937 original size:18 final size:18
Alignment explanation
Indices: 14691914--14691988 Score: 80
Period size: 18 Copynumber: 4.2 Consensus size: 18
14691904 ACCGTTTACG
*
14691914 GTACTATTCACGTATATA
1 GTACTATTCACGTATACA
*
14691932 GTACTATTCACGTATA-T
1 GTACTATTCACGTATACA
* * *
14691949 GACACTATTTACGTATACG
1 G-TACTATTCACGTATACA
*
14691968 GTACTGTTCACGTATACA
1 GTACTATTCACGTATACA
14691986 GTA
1 GTA
14691989 GTTGAGATTG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
17 1 0.02
18 45 0.96
19 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (18 bp):
GTACTATTCACGTATACA
Found at i:14696070 original size:10 final size:11
Alignment explanation
Indices: 14696030--14696074 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
14696020 TATTAGAATA
14696030 TACCCTATACCT
1 TACCC-ATACCT
*
14696042 TGCCCATACCT
1 TACCCATACCT
*
14696053 TTCCCATACC-
1 TACCCATACCT
14696063 TACCCATACCT
1 TACCCATACCT
14696074 T
1 T
14696075 GGAAAGGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.31
11 16 0.55
12 4 0.14
ACGTcount: A:0.22, C:0.44, G:0.02, T:0.31
Consensus pattern (11 bp):
TACCCATACCT
Found at i:14702285 original size:25 final size:24
Alignment explanation
Indices: 14702223--14702270 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
14702213 ATTTGATCCT
*
14702223 TATTCTTTTTTTGAGTTAAATTTA
1 TATTCTTTTTTTGAGCTAAATTTA
14702247 TATTCTTTTTTTGAGCTAAATTTA
1 TATTCTTTTTTTGAGCTAAATTTA
14702271 ACCTTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.60
Consensus pattern (24 bp):
TATTCTTTTTTTGAGCTAAATTTA
Found at i:14702658 original size:31 final size:32
Alignment explanation
Indices: 14702599--14702660 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
14702589 AATTATTTCA
** *
14702599 ACTCTTTTTCAAAAGGTTGATTGTCAAATTTG
1 ACTCTTTTTCAAAAGGTTGAAGGCCAAATTTG
*
14702631 ACTCTTTTT-AAAATGTTGAAGGCCAAATTT
1 ACTCTTTTTCAAAAGGTTGAAGGCCAAATTT
14702661 AGCTTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (32 bp):
ACTCTTTTTCAAAAGGTTGAAGGCCAAATTTG
Done.