Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 167 of 332
Found at i:55175237 original size:46 final size:45
Alignment explanation
Indices: 55175162--55175248 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 45
55175152 ATAATATAAT
* *
55175162 TTTTTTATTAATTTATATAAATATGAATTTTA-ATTATTTATATTG
1 TTTTTTATTAATTAATATAAATATAAATTTTATATT-TTTATATTG
* *
55175207 TTTTTTCTTAATTAAATATTAATATAAATTTTATATTTTTAT
1 TTTTTTATTAATT-AATATAAATATAAATTTTATATTTTTAT
55175249 CATCTTAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 12 0.33
46 21 0.58
47 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (45 bp):
TTTTTTATTAATTAATATAAATATAAATTTTATATTTTTATATTG
Found at i:55180538 original size:55 final size:52
Alignment explanation
Indices: 55180334--55180587 Score: 214
Period size: 55 Copynumber: 4.8 Consensus size: 52
55180324 ACACGGGTAC
* * * * * *
55180334 CTTACCATTGCTATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCCTTGCCTTAGTAA
* *
55180383 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCCTTGCCTTAGTAA
* * * *
55180435 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCC-TTGCC-T-TAGTAA
* * * * *
55180490 CTTATCAATGCGATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-TATCCTTGCCTTAGTAA
*
55180543 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACAT-GTATCCTT
55180588 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
51 2 0.01
52 41 0.25
53 6 0.04
54 11 0.07
55 65 0.39
56 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (52 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGTATCCTTGCCTTAGTAA
Found at i:55185295 original size:31 final size:31
Alignment explanation
Indices: 55185257--55185320 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
55185247 TTGGAGTTAG
* *
55185257 AAGTTAGAGAATTTTTGCAATCCAAGTTGTT
1 AAGTTAGAGAATTTGTGCAACCCAAGTTGTT
55185288 AAGTTAGAGAATTTGTGCAACCCAAGTTGTT
1 AAGTTAGAGAATTTGTGCAACCCAAGTTGTT
55185319 AA
1 AA
55185321 TTGAAGAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (31 bp):
AAGTTAGAGAATTTGTGCAACCCAAGTTGTT
Found at i:55188902 original size:17 final size:17
Alignment explanation
Indices: 55188876--55188909 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55188866 CTATTGCATG
55188876 CTATCGTTGCCATCGCA
1 CTATCGTTGCCATCGCA
*
55188893 CTATCTTTGCCATCGCA
1 CTATCGTTGCCATCGCA
55188910 AGATTTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.35, G:0.15, T:0.32
Consensus pattern (17 bp):
CTATCGTTGCCATCGCA
Found at i:55191395 original size:40 final size:41
Alignment explanation
Indices: 55191340--55191531 Score: 257
Period size: 40 Copynumber: 4.8 Consensus size: 41
55191330 ATTTGAATGA
* *
55191340 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* *
55191380 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
*
55191420 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* * *
55191461 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* * *
55191501 G-CCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCT
55191532 TGTGGTAATA
Statistics
Matches: 140, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 135 0.96
41 5 0.04
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (41 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
Found at i:55195070 original size:43 final size:43
Alignment explanation
Indices: 55195022--55195174 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 43
55195012 TGCCAACATA
* * *
55195022 CCAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTC
1 CCAGACGTCGTCTTACATGAAATCAAATATCGATGCCACTGTC
*
55195065 CCAGACAG-CGTCTTACATGAAATCAAATA-CGATGCTGA-TGTC
1 CCAGAC-GTCGTCTTACATGAAATCAAATATCGATGC-CACTGTC
* * * *
55195107 CTAGACATGGTCTTACACGTAAATCATAA-ATCGATGCCAAC-GTC
1 CCAGACGTCGTCTTACATG-AAATCA-AATATCGATGCC-ACTGTC
55195151 CCAGACGTCGTCTTA-ATGAAATCA
1 CCAGACGTCGTCTTACATGAAATCA
55195175 CACATCAAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
42 29 0.33
43 35 0.39
44 25 0.28
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CCAGACGTCGTCTTACATGAAATCAAATATCGATGCCACTGTC
Found at i:55195200 original size:86 final size:85
Alignment explanation
Indices: 55195024--55195200 Score: 186
Period size: 86 Copynumber: 2.1 Consensus size: 85
55195014 CCAACATACC
* *
55195024 AGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGCGTCTTACATGAAATC
1 AGACATGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAGCGTCTTACATGAAATC
** * *
55195089 AAATACGATGCTGATGTCCT
66 AAATAAAATCCTGATGTCAT
*
55195109 AGACATGGTCTTACACGTAAATCATAA-ATCGATGCCAAC-GTCCCAGAC-GTCGTCTTA-ATGA
1 AGACATGGTCTTACACGT-AATCA-AATATCAATGCC-ACTGTCCCAGACAG-CGTCTTACATGA
55195170 AATCACACATCAAAATCCT-ATGTCAT
62 AATCA-A-AT-AAAATCCTGATGTCAT
55195196 -GACAT
1 AGACAT
55195201 ATGTATCCTA
Statistics
Matches: 78, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
85 26 0.33
86 35 0.45
87 12 0.15
88 5 0.06
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (85 bp):
AGACATGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAGCGTCTTACATGAAATC
AAATAAAATCCTGATGTCAT
Found at i:55200736 original size:24 final size:23
Alignment explanation
Indices: 55200703--55200760 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
55200693 AGTTGAAAAG
55200703 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
55200727 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
55200749 TATATATAATAA
1 TATA-ATAATAA
55200761 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:55201113 original size:49 final size:48
Alignment explanation
Indices: 55201031--55201188 Score: 273
Period size: 49 Copynumber: 3.2 Consensus size: 48
55201021 CTTACTTTGA
*
55201031 GAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
55201078 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
55201127 GAATGTGAAAGTGTGTATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
55201176 GAATGTGATAAGT
1 GAATGTGA-AAGT
55201189 CCCGAAGGGC
Statistics
Matches: 106, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
47 13 0.12
49 89 0.84
50 4 0.04
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (48 bp):
GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:55201361 original size:37 final size:37
Alignment explanation
Indices: 55201305--55201383 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55201295 CCGAGCTCTA
* * *
55201305 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
55201342 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55201379 AAGAC
1 AAGAC
55201384 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55206058 original size:40 final size:40
Alignment explanation
Indices: 55205870--55206094 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
55205860 TTGAATGATG
* * * *
55205870 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
55205910 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
55205949 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
55205989 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55206029 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55206070 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55206095 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 39 0.23
40 118 0.71
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55217958 original size:42 final size:43
Alignment explanation
Indices: 55217877--55217958 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
55217867 CCAGACGTGG
*
55217877 TCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGCA
1 TCTTACATGAAATCAAATATCAATGCCACTGTCCCAGACAGCA
*
55217920 TCTTACATGAAATCAAATA-CGATGCCGA-TGTCCCAGACA
1 TCTTACATGAAATCAAATATCAATGCC-ACTGTCCCAGACA
55217959 TTGTTTTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 17 0.47
43 19 0.53
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.24
Consensus pattern (43 bp):
TCTTACATGAAATCAAATATCAATGCCACTGTCCCAGACAGCA
Found at i:55217968 original size:42 final size:43
Alignment explanation
Indices: 55217865--55217968 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 43
55217855 AATGCCAACA
* * *
55217865 TCCCAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTG
1 TCCCAGACATCGTCTTACATGAAATCAAATATCAATGCCACTG
* * *
55217908 TCCCAGACAGCATCTTACATGAAATCAAATA-CGATGCCGA-TG
1 TCCCAGACATCGTCTTACATGAAATCAAATATCAATGCC-ACTG
* *
55217950 TCCCAGACATTGTTTTACA
1 TCCCAGACATCGTCTTACA
55217969 CATAAATCTC
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 23 0.46
43 27 0.54
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
TCCCAGACATCGTCTTACATGAAATCAAATATCAATGCCACTG
Found at i:55219422 original size:21 final size:21
Alignment explanation
Indices: 55219397--55219448 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
55219387 ATTCAGTTCA
55219397 AAATACTTTTAAGAATATCTC
1 AAATACTTTTAAGAATATCTC
55219418 AAATACTTTTAAGAATATCTC
1 AAATACTTTTAAGAATATCTC
*
55219439 TAATACTTTT
1 AAATACTTTT
55219449 GTTCCTGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (21 bp):
AAATACTTTTAAGAATATCTC
Found at i:55223542 original size:46 final size:46
Alignment explanation
Indices: 55223433--55223544 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
55223423 GTATCTATAC
* *
55223433 CATGGCCTATAGCCAAATCAAGGTAACTTATCCGAAGAACAATTAT
1 CATGGCCTAAAGCCAAATCAAGGTAACTTATCCAAAGAACAATTAT
** *
55223479 CATGGCCCGAAGCCAAATGAAGGTAACTTATCCAAAGAACAATTAT
1 CATGGCCTAAAGCCAAATCAAGGTAACTTATCCAAAGAACAATTAT
*
55223525 CATGGCCTAAAGACAAATCA
1 CATGGCCTAAAGCCAAATCA
55223545 TCCAATATGC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (46 bp):
CATGGCCTAAAGCCAAATCAAGGTAACTTATCCAAAGAACAATTAT
Found at i:55228369 original size:32 final size:32
Alignment explanation
Indices: 55228328--55228451 Score: 149
Period size: 32 Copynumber: 3.8 Consensus size: 32
55228318 CTAGGATAAA
55228328 AATTGAGTCGACTTGAATATAAAATATGATAG
1 AATTGAGTCGACTTGAATATAAAATATGATAG
* *
55228360 AATTGAGTCGACTTGAATATAAAAAATGAGTCG
1 AATTGAGTCGACTTGAATATAAAATATGA-TAG
* * ** *
55228393 ACTTGAATATAAAAATTGAATATAAAATATGATAG
1 AATTG-A-GT-CGACTTGAATATAAAATATGATAG
55228428 AATTGAGTCGACTTGAATATAAAA
1 AATTGAGTCGACTTGAATATAAAA
55228452 ATTGAGTCGA
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
32 41 0.55
33 7 0.09
34 2 0.03
35 7 0.09
36 17 0.23
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (32 bp):
AATTGAGTCGACTTGAATATAAAATATGATAG
Found at i:55228390 original size:23 final size:23
Alignment explanation
Indices: 55228360--55228474 Score: 146
Period size: 23 Copynumber: 5.0 Consensus size: 23
55228350 AATATGATAG
55228360 AATTGAGTCGACTTGAATATAAA
1 AATTGAGTCGACTTGAATATAAA
*
55228383 AAATGAGTCGACTTGAATATAAA
1 AATTGAGTCGACTTGAATATAAA
* ** *
55228406 AATTGAAT--A-TAAAATATGATAG
1 AATTGAGTCGACTTGAATAT-A-AA
55228428 AATTGAGTCGACTTGAATATAAA
1 AATTGAGTCGACTTGAATATAAA
55228451 AATTGAGTCGACTTGAATATAAA
1 AATTGAGTCGACTTGAATATAAA
55228474 A
1 A
55228475 TATTATAAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
20 6 0.08
21 2 0.03
22 8 0.10
23 53 0.69
24 2 0.03
25 6 0.08
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.30
Consensus pattern (23 bp):
AATTGAGTCGACTTGAATATAAA
Found at i:55228413 original size:13 final size:13
Alignment explanation
Indices: 55228395--55228419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55228385 ATGAGTCGAC
55228395 TTGAATATAAAAA
1 TTGAATATAAAAA
55228408 TTGAATATAAAA
1 TTGAATATAAAA
55228420 TATGATAGAA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
TTGAATATAAAAA
Found at i:55228449 original size:68 final size:68
Alignment explanation
Indices: 55228340--55228474 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
55228330 TTGAGTCGAC
55228340 TTGAATATAAAATATGATAGAATTGAGTCGACTTGAATATAAAAAATGAGTCGACTTGAATATAA
1 TTGAATATAAAATATGATAGAATTGAGTCGACTTGAATATAAAAAATGAGTCGACTTGAATATAA
55228405 AAA
66 AAA
*
55228408 TTGAATATAAAATATGATAGAATTGAGTCGACTTGAATATAAAAATTGAGTCGACTTGAATATAA
1 TTGAATATAAAATATGATAGAATTGAGTCGACTTGAATATAAAAAATGAGTCGACTTGAATATAA
55228473 AA
66 AA
55228475 TATTATAAAC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.30
Consensus pattern (68 bp):
TTGAATATAAAATATGATAGAATTGAGTCGACTTGAATATAAAAAATGAGTCGACTTGAATATAA
AAA
Found at i:55230627 original size:45 final size:45
Alignment explanation
Indices: 55230563--55230648 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
55230553 CCAAAACATG
*
55230563 TGTCACATATATCACGAACTCAGACCACAACTTAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
* * *
55230608 TGTCACATCTATCATGAACTCAGACCATAACTCAATGAGTT
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTT
55230649 TAGATTACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
Found at i:55239134 original size:45 final size:45
Alignment explanation
Indices: 55239084--55239170 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
55239074 CCAAAACATG
55239084 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
* *
55239129 TGTCACATATATCATGAACTCAGACCATAACTCAATGAGTTC
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTC
55239171 AGATTACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
Found at i:55242622 original size:22 final size:22
Alignment explanation
Indices: 55242597--55242641 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
55242587 CTCTTATGCC
55242597 AACACTAATGAAATCTTAACTA
1 AACACTAATGAAATCTTAACTA
*
55242619 AACACTAATGAAATCTTTACTA
1 AACACTAATGAAATCTTAACTA
55242641 A
1 A
55242642 CTTATATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (22 bp):
AACACTAATGAAATCTTAACTA
Found at i:55250999 original size:40 final size:38
Alignment explanation
Indices: 55250882--55250999 Score: 130
Period size: 39 Copynumber: 3.0 Consensus size: 38
55250872 AAAATTTATG
* *
55250882 TGGTATTATATCCGGGTTAAATCCCGCAGGCTTAATGC
1 TGGTATGATATCCGGGTTAAATCCCGCAGGCTTAGTGC
* * * *
55250920 TGGTATTATATCCGGACTTATAGT-CCGCAGGCCTAGTGC
1 TGGTATGATATCCGG-GTTA-AATCCCGCAGGCTTAGTGC
*
55250959 TGGTAATAGATATCCGGGTTAAATCCCGCAGGCTTTGTGC
1 TGGT-AT-GATATCCGGGTTAAATCCCGCAGGCTTAGTGC
55250999 T
1 T
55251000 AGAAATTGGA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
38 15 0.23
39 22 0.33
40 21 0.32
41 8 0.12
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
TGGTATGATATCCGGGTTAAATCCCGCAGGCTTAGTGC
Found at i:55260511 original size:30 final size:31
Alignment explanation
Indices: 55260470--55260527 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
55260460 AAAATACTTC
* *
55260470 AAAA-TTTTTAAAATTTTAATTAAACCCTAT
1 AAAAGTTTTAAAAACTTTAATTAAACCCTAT
*
55260500 AAAAGTTTTAAAAACTTTGATTAAACCC
1 AAAAGTTTTAAAAACTTTAATTAAACCC
55260528 CAAAAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAAGTTTTAAAAACTTTAATTAAACCCTAT
Found at i:55260539 original size:30 final size:31
Alignment explanation
Indices: 55260469--55260539 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
55260459 TAAAATACTT
*
55260469 CAAAA-TTTTT-AAAATTTTAATTAAACCCTA
1 CAAAAGTTTTTAAAAACTTTAATTAAACCC-A
* *
55260499 TAAAAG-TTTTAAAAACTTTGATTAAACCC-
1 CAAAAGTTTTTAAAAACTTTAATTAAACCCA
55260528 CAAAAGTTTTTA
1 CAAAAGTTTTTA
55260540 GAAATTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 5 0.15
30 13 0.38
31 16 0.47
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (31 bp):
CAAAAGTTTTTAAAAACTTTAATTAAACCCA
Found at i:55269362 original size:62 final size:60
Alignment explanation
Indices: 55269246--55269362 Score: 137
Period size: 62 Copynumber: 1.9 Consensus size: 60
55269236 TTGTACAAAC
* ****
55269246 TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTAAATATTTTAATAGTATAT
1 TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTAAATAAGGCAATAGTATAT
* *
55269306 TATTTTTATATT-TTGTCCTATTTAATAAAATAGAAGTTCTTTTGAATAAGGCAATAG
1 TATTTTTATATTGTT-T-C-ATTTAATAAAATAAAAGTTCTTTTAAATAAGGCAATAG
55269363 AAATAATGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.04
60 13 0.28
61 1 0.02
62 31 0.66
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (60 bp):
TATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTAAATAAGGCAATAGTATAT
Found at i:55272430 original size:126 final size:123
Alignment explanation
Indices: 55272251--55272634 Score: 442
Period size: 121 Copynumber: 3.1 Consensus size: 123
55272241 AAATAGGCAT
55272251 TACTGTAG-AAAAGAGCGTCCACGTGGAAGC-TTTTTCAGTAATTTTGCTGATAGTGCATCTTGC
1 TACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCTTGC
* *
55272314 TTGAAGTGTTTTTGACACTATTTTGTTAGAATCGTCTTCTAAAAATTATTTTTTTAGGAAC
66 TTGAAG-GTTTTTGACATTATTTT-TTAGAACCGTCTTCT-AAAATTATTTTTTTAGGAAC
* * *
55272375 TACTATAGAAAAAGAACGTCCATGTAGG-AGCTTTTTTCAGTAATTTTGCTGATAGTGCAT-TCT
1 TACTGTAGAAAAAGAGCGTCCACGT-GGAAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCT-T
* ** *
55272438 GCTTAAAGCATTTTGACATTATTTTTTTAGAACCGTCTTCT-CAA-T-TTTTTTTAGGAAC
64 GCTTGAAGGTTTTTGACATTA-TTTTTTAGAACCGTCTTCTAAAATTATTTTTTTAGGAAC
* * * * * ** *
55272496 TACTGTAGAAGAACAGCGTCCACGTGGAAGCTTTTTTTAGTAATTTTGTTGACAGCCCATCCTGC
1 TACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCTTGC
* *
55272561 TTGAAGCGTTTTTGACATTATCTTTTTAGAACCGTCTTCTCAAAATTAAATTTTTT-GAAAC
66 TTGAAG-GTTTTTGACATTAT-TTTTTAGAACCGTCTTCT-AAAATT-ATTTTTTTAGGAAC
*
55272622 TATTGTAGAAAAA
1 TACTGTAGAAAAA
55272635 AATAAAATCA
Statistics
Matches: 218, Mismatches: 28, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
120 2 0.01
121 69 0.32
122 30 0.14
123 2 0.01
124 9 0.04
125 43 0.20
126 57 0.26
127 6 0.03
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (123 bp):
TACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCTTGC
TTGAAGGTTTTTGACATTATTTTTTAGAACCGTCTTCTAAAATTATTTTTTTAGGAAC
Found at i:55272738 original size:34 final size:34
Alignment explanation
Indices: 55272700--55272827 Score: 91
Period size: 34 Copynumber: 3.8 Consensus size: 34
55272690 TACAAAAACC
*
55272700 CTAAAAGCTAAATATAAA-AATTATTTTAAAAAAA
1 CTAAAACCT-AATATAAATAATTATTTTAAAAAAA
* * * **
55272734 CTAAACCCTAATTTAAATAATTTTTTTAAAAATT
1 CTAAAACCTAATATAAATAATTATTTTAAAAAAA
* * * ***
55272768 CTAAACCCTAATTTAATTAATT-TATTTAAAATCC
1 CTAAAACCTAATATAAATAATTAT-TTTAAAAAAA
* *
55272802 CTAAAACCTAAT-TTAATTATTATTTT
1 CTAAAACCTAATATAAATAATTATTTT
55272828 TTTAAAACTA
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
33 17 0.22
34 60 0.78
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.41
Consensus pattern (34 bp):
CTAAAACCTAATATAAATAATTATTTTAAAAAAA
Found at i:55272796 original size:68 final size:68
Alignment explanation
Indices: 55272724--55272851 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
55272714 TAAAAATTAT
* * * *
55272724 TTTAAAAAAACTAAACCCTAATTTAA-ATAATTTTTTTAAAAATTCTAAACCCTAATTTAATTAA
1 TTTAAAAAAACTAAAACCTAATTTAATATAATTTTTTT-AAAACTATAAACCATAATTTAATTAA
55272788 TTTA
65 TTTA
*** *
55272792 TTTAAAATCCCTAAAACCTAATTTAATTATTATTTTTTTAAAACTATAAACCATAATTTA
1 TTTAAAAAAACTAAAACCTAATTTAA-TATAATTTTTTTAAAACTATAAACCATAATTTA
55272852 TTTCTTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
68 22 0.44
69 18 0.36
70 10 0.20
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (68 bp):
TTTAAAAAAACTAAAACCTAATTTAATATAATTTTTTTAAAACTATAAACCATAATTTAATTAAT
TTA
Found at i:55272843 original size:34 final size:32
Alignment explanation
Indices: 55272730--55272851 Score: 113
Period size: 34 Copynumber: 3.6 Consensus size: 32
55272720 TTATTTTAAA
* *
55272730 AAAACTAAACCCTAATTTAAATA-ATTTTTTT
1 AAAACTAAAACCTAATTTAATTATATTTTTTT
* *
55272761 AAAAATTCTAAACCCTAATTTAATTA-ATTTATTT
1 -AAAA--CTAAAACCTAATTTAATTATATTTTTTT
55272795 AAAATCCCTAAAACCTAATTTAATTATTATTTTTTT
1 AAAA---CTAAAACCTAATTTAATTA-TATTTTTTT
55272831 AAAACTATAAACCATAATTTA
1 AAAACTA-AAACC-TAATTTA
55272852 TTTCTTAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.05
33 7 0.09
34 48 0.62
35 7 0.09
36 11 0.14
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (32 bp):
AAAACTAAAACCTAATTTAATTATATTTTTTT
Found at i:55277984 original size:16 final size:16
Alignment explanation
Indices: 55277965--55278009 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
55277955 TTTTTTATGT
55277965 TATAAATTATATAATA
1 TATAAATTATATAATA
*
55277981 TATAAATTTAACATAATA
1 TATAAA-TT-ATATAATA
*
55277999 TAAAAATTATA
1 TATAAATTATA
55278010 AACTTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 8 0.33
17 4 0.17
18 12 0.50
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAAATTATATAATA
Found at i:55285338 original size:15 final size:15
Alignment explanation
Indices: 55285299--55285377 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
55285289 GTATCTTGGG
*
55285299 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
55285314 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
55285329 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
55285343 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
55285358 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
55285372 TTTCTT
1 TTTCTT
55285378 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55285362 original size:29 final size:29
Alignment explanation
Indices: 55285290--55285376 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
55285280 CATAGTATCG
* * * *
55285290 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
55285320 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
55285349 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
55285377 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:55287798 original size:46 final size:46
Alignment explanation
Indices: 55287748--55287923 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55287738 ATGGTTGGCA
55287748 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55287794 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55287839 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55287887 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55287924 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55287903 original size:93 final size:93
Alignment explanation
Indices: 55287744--55287916 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
55287734 TAGGATGGTT
* *
55287744 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55287809 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55287837 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55287902 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
55287917 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55289318 original size:16 final size:16
Alignment explanation
Indices: 55289294--55289344 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
55289284 GGCTGGGGAG
55289294 AATGGAATAGAGTTGT
1 AATGGAATAGAGTTGT
*
55289310 AATGTAATAGAGTTGT
1 AATGGAATAGAGTTGT
*
55289326 AATGGAATAAAGTTGT
1 AATGGAATAGAGTTGT
55289342 AAT
1 AAT
55289345 TAGTAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.33
Consensus pattern (16 bp):
AATGGAATAGAGTTGT
Found at i:55289645 original size:17 final size:16
Alignment explanation
Indices: 55289625--55289672 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
55289615 TAACATTCTT
* *
55289625 AATATAATTATTATTAA
1 AATATAATTAATA-AAA
55289642 AATATGAATTAATAAAA
1 AATAT-AATTAATAAAA
*
55289659 AATATAATTTATAA
1 AATATAATTAATAA
55289673 TATTATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.30
17 12 0.44
18 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AATATAATTAATAAAA
Found at i:55289674 original size:58 final size:56
Alignment explanation
Indices: 55289534--55289669 Score: 147
Period size: 58 Copynumber: 2.4 Consensus size: 56
55289524 ATTATTTAAT
* * *
55289534 ATTTAATAATAATAA-ATA-ATTTAGTTACATTTTAACATAATTTTTATTAAATAAA
1 ATTTAATAA-AATAATATATATTTAATAACATTTTAACATAATTATTATTAAATAAA
* *
55289589 ATTTAATAAAATAATATATGATTTAATAACATTCTTAATATAATTATTATTAAAATATGA
1 ATTTAATAAAATAATATAT-ATTTAATAACATT-TTAACATAATTATTATT-AAATA-AA
55289649 A-TTAATAAAA-AATATA-ATTTA
1 ATTTAATAAAATAATATATATTTA
55289670 TAATATTATA
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
54 5 0.07
55 12 0.17
56 5 0.07
57 11 0.16
58 21 0.30
59 14 0.20
60 2 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (56 bp):
ATTTAATAAAATAATATATATTTAATAACATTTTAACATAATTATTATTAAATAAA
Found at i:55293466 original size:33 final size:33
Alignment explanation
Indices: 55293424--55293488 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
55293414 TTGTTCCAAG
**
55293424 TTTGTTCCAATATGTCTCAATTAAATTGCAAAT
1 TTTGTTCCAATACATCTCAATTAAATTGCAAAT
*
55293457 TTTGTTCCAATACATCTCATTTAAATTGCAAA
1 TTTGTTCCAATACATCTCAATTAAATTGCAAA
55293489 GTTATATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (33 bp):
TTTGTTCCAATACATCTCAATTAAATTGCAAAT
Found at i:55295343 original size:27 final size:25
Alignment explanation
Indices: 55295288--55295349 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 25
55295278 ATGTTAAACT
* *
55295288 AAAC-AAATAATTTATAATAATTAC
1 AAACAAAATAATTTAAAATAATTAA
*
55295312 TAACAAAATAACTTTAAAATAAATTAA
1 AAACAAAATAA-TTTAAAAT-AATTAA
*
55295339 AAACAACATAA
1 AAACAAAATAA
55295350 AAATTTACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 3 0.10
25 6 0.20
26 7 0.23
27 14 0.47
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (25 bp):
AAACAAAATAATTTAAAATAATTAA
Found at i:55295367 original size:51 final size:51
Alignment explanation
Indices: 55295312--55295470 Score: 168
Period size: 51 Copynumber: 3.1 Consensus size: 51
55295302 TAATAATTAC
55295312 TAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCA
1 TAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCA
* ** * ** *
55295363 TAAC-AAATCACAATAAACATTAAACT--AAACAA-ATAATTTATAATA-ATT-A
1 TAACAAAATAACTTTAAA-A-TAAATTAAAAACAACATAA-AAAT-TTACATTCA
55295412 CTAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCA
1 -TAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCA
55295464 TAACAAA
1 TAACAAA
55295471 TCACAATAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
49 10 0.12
50 28 0.34
51 35 0.42
52 10 0.12
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (51 bp):
TAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCA
Found at i:55295402 original size:46 final size:46
Alignment explanation
Indices: 55295351--55295503 Score: 139
Period size: 47 Copynumber: 3.1 Consensus size: 46
55295341 ACAACATAAA
55295351 AATTTACATTCATAACAAATCACAATAAACATTAAACTAAACAAAT
1 AATTTACATTCATAACAAATCACAATAAACATTAAACTAAACAAAT
* * * * * *
55295397 AATTTATAATAATTACTAACAAAATAACTTTAA-AATAAATTAAA-AACAACATAAA
1 AATTTA-CAT--TCA-TAAC-AAATCAC---AATAA-ACATTAAACTA-AACA-AAT
55295452 AATTTACATTCATAACAAATCACAATAAACATTAAACTAAACAAAT
1 AATTTACATTCATAACAAATCACAATAAACATTAAACTAAACAAAT
55295498 AATTTA
1 AATTTA
55295504 TAATAGTTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
46 14 0.17
47 15 0.18
48 3 0.04
49 2 0.02
50 10 0.12
51 10 0.12
52 2 0.02
53 3 0.04
54 15 0.18
55 8 0.10
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (46 bp):
AATTTACATTCATAACAAATCACAATAAACATTAAACTAAACAAAT
Found at i:55295444 original size:27 final size:25
Alignment explanation
Indices: 55295389--55295450 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 25
55295379 ACATTAAACT
* *
55295389 AAAC-AAATAATTTATAATAATTAC
1 AAACAAAATAATTTAAAATAATTAA
*
55295413 TAACAAAATAACTTTAAAATAAATTAA
1 AAACAAAATAA-TTTAAAAT-AATTAA
*
55295440 AAACAACATAA
1 AAACAAAATAA
55295451 AAATTTACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 3 0.10
25 6 0.20
26 7 0.23
27 14 0.47
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (25 bp):
AAACAAAATAATTTAAAATAATTAA
Found at i:55295532 original size:101 final size:101
Alignment explanation
Indices: 55295210--55295508 Score: 502
Period size: 101 Copynumber: 3.0 Consensus size: 101
55295200 CAAATGAAGT
* * *
55295210 TAATTACTAACAAAATCACTTTAAAATAAATT---TA-AA-A-AAAAAGTTACATTCATAACAAA
1 TAATTACTAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCATAACAAA
* **
55295269 TCACAGTAAATGTTAAACTAAACAAATAATTTATAA
66 TCACAATAAACATTAAACTAAACAAATAATTTATAA
55295305 TAATTACTAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCATAACAAA
1 TAATTACTAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCATAACAAA
55295370 TCACAATAAACATTAAACTAAACAAATAATTTATAA
66 TCACAATAAACATTAAACTAAACAAATAATTTATAA
55295406 TAATTACTAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCATAACAAA
1 TAATTACTAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCATAACAAA
55295471 TCACAATAAACATTAAACTAAACAAATAATTTATAA
66 TCACAATAAACATTAAACTAAACAAATAATTTATAA
55295507 TA
1 TA
55295509 GTTATTAATC
Statistics
Matches: 192, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
95 31 0.16
98 1 0.01
99 2 0.01
100 1 0.01
101 157 0.82
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.28
Consensus pattern (101 bp):
TAATTACTAACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAATTTACATTCATAACAAA
TCACAATAAACATTAAACTAAACAAATAATTTATAA
Found at i:55296069 original size:15 final size:15
Alignment explanation
Indices: 55296053--55296084 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
55296043 ATATATTATT
55296053 TTTTA-TTT-TAATA
1 TTTTATTTTATAATA
55296066 TTTTATTTTATAATA
1 TTTTATTTTATAATA
55296081 TTTT
1 TTTT
55296085 GGTAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 3 0.18
15 9 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTTATAATA
Found at i:55299666 original size:21 final size:21
Alignment explanation
Indices: 55299636--55299686 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
55299626 CCTTCTTGCT
*
55299636 TACGAACTTTGAAAGGGCCCC
1 TACGATCTTTGAAAGGGCCCC
55299657 TACGATCTTTGAAAGGGCCCC
1 TACGATCTTTGAAAGGGCCCC
55299678 TACGATCTT
1 TACGATCTT
55299687 GCCAAGCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (21 bp):
TACGATCTTTGAAAGGGCCCC
Found at i:55302486 original size:39 final size:39
Alignment explanation
Indices: 55302443--55302521 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
55302433 ATATATTAAG
* *
55302443 AGGCATTATCGAACTTATAACTCAGTTCAAAACAATCAT
1 AGGCATTACCAAACTTATAACTCAGTTCAAAACAATCAT
*
55302482 AGGCATTACCAAACTTATAACTTAGTTCAAAACAATCAT
1 AGGCATTACCAAACTTATAACTCAGTTCAAAACAATCAT
55302521 A
1 A
55302522 TATCAAATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (39 bp):
AGGCATTACCAAACTTATAACTCAGTTCAAAACAATCAT
Found at i:55306727 original size:30 final size:30
Alignment explanation
Indices: 55306650--55306741 Score: 87
Period size: 36 Copynumber: 2.9 Consensus size: 30
55306640 GAATATTGGA
*
55306650 TCTTCCCAAGCTCCTGAATGAC-ATATCAAG
1 TCTTTCCAAGCTCCTGAATG-CGATATCAAG
55306680 TCTTTTCAATCCCAAGCTCCTGAATGCGATATCAAG
1 TC--TT---T-CCAAGCTCCTGAATGCGATATCAAG
* *
55306716 TCTTTCCAAGCTCCTAAATGAGATAT
1 TCTTTCCAAGCTCCTGAATGCGATAT
55306742 TGGGTCTTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
30 21 0.40
31 1 0.02
32 2 0.04
34 2 0.04
35 1 0.02
36 25 0.48
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (30 bp):
TCTTTCCAAGCTCCTGAATGCGATATCAAG
Found at i:55309828 original size:48 final size:47
Alignment explanation
Indices: 55309757--55309981 Score: 265
Period size: 48 Copynumber: 4.7 Consensus size: 47
55309747 GTAAATTGCA
* *
55309757 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGT-TGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAT--GGCC
* *
55309805 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATCTCAAT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT--ATGGCC
* * * * * *
55309853 GATGCCATGTCCCAGACATAGACTTACTCTGGCTCTCATAACATTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATATGGCC
* *
55309901 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAATATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATATGGCC
*
55309949 GATGTCATGTCCCAGACATGGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
55309982 ACACATATCA
Statistics
Matches: 151, Mismatches: 21, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
47 2 0.01
48 148 0.98
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATGGCC
Found at i:55311624 original size:12 final size:12
Alignment explanation
Indices: 55311609--55311651 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
55311599 AGTTTATTTA
*
55311609 TTTTATTATTAT
1 TTTTAATATTAT
55311621 TTTTAATATTAT
1 TTTTAATATTAT
* *
55311633 TTTTAATTTTAA
1 TTTTAATATTAT
55311645 TTTTAAT
1 TTTTAAT
55311652 TTTCTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTAATATTAT
Found at i:55311644 original size:6 final size:6
Alignment explanation
Indices: 55311608--55311654 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
55311598 GAGTTTATTT
* * *
55311608 ATTTT- ATTATTA TTTTTA ATATTA TTTTTA ATTTTA ATTTTA ATTTT
1 ATTTTA ATT-TTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTT
55311655 CTTTTATTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
5 3 0.09
6 29 0.85
7 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:55323373 original size:39 final size:39
Alignment explanation
Indices: 55323319--55323551 Score: 394
Period size: 39 Copynumber: 6.0 Consensus size: 39
55323309 AAGACACTGA
*
55323319 AAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
55323358 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
55323397 AAATATATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
**
55323436 AAATGTATCCGAACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
55323475 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
55323514 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
55323552 ATAATATAAT
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 181 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:55326046 original size:48 final size:48
Alignment explanation
Indices: 55325849--55326073 Score: 202
Period size: 48 Copynumber: 4.7 Consensus size: 48
55325839 GTAAATTGCT
* * * ** *
55325849 GATGCCATGTCCCAGACATGGTGTTACATTGGCTCACATGTTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* * * * *
55325897 AATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGT-CTCACT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT--GTGGCC
* * ** **
55325945 GATGCCATGTCCCAGACATGGTCTTACTCTAGCTCTCATAACATTTCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* * * *
55325993 AATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* * *
55326041 GATGCCATGTCCTAGATATGGTCTTGCACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
55326074 ACACATATCA
Statistics
Matches: 141, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
47 2 0.01
48 139 0.99
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:55336503 original size:20 final size:20
Alignment explanation
Indices: 55336475--55336521 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
55336465 TCATTGACTA
*
55336475 ATCACTTTGAATTGGTGTCC
1 ATCATTTTGAATTGGTGTCC
55336495 ATCATTTTGAATTGGTGTCC
1 ATCATTTTGAATTGGTGTCC
55336515 ATCATTT
1 ATCATTT
55336522 AAATCTCTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (20 bp):
ATCATTTTGAATTGGTGTCC
Found at i:55349490 original size:11 final size:11
Alignment explanation
Indices: 55349465--55349506 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 11
55349455 ATGTATATAA
55349465 TAATAATAA--
1 TAATAATAACT
55349474 TAATAATAACT
1 TAATAATAACT
55349485 TAATAATATACT
1 TAATAATA-ACT
55349497 TATATAATAA
1 TA-ATAATAA
55349507 GTAAATATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.31
11 8 0.28
12 6 0.21
13 6 0.21
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAATAACT
Found at i:55350516 original size:10 final size:10
Alignment explanation
Indices: 55350480--55350519 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
55350470 CACAAAAGTC
55350480 CTCTCATAATT
1 CTCTCA-AATT
55350491 CTCTCAAAATT
1 CTCTC-AAATT
55350502 CTCTCAAATT
1 CTCTCAAATT
*
55350512 TTCTCAAA
1 CTCTCAAA
55350520 GCTCTCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 12 0.44
11 14 0.52
12 1 0.04
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:55350525 original size:21 final size:22
Alignment explanation
Indices: 55350480--55350526 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
55350470 CACAAAAGTC
*
55350480 CTCTCATAATTCTCTCAAAATT
1 CTCTCATAATTCTCTCAAAACT
* *
55350502 CTCTCA-AATTTTCTCAAAGCT
1 CTCTCATAATTCTCTCAAAACT
55350523 CTCT
1 CTCT
55350527 TTAATTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (22 bp):
CTCTCATAATTCTCTCAAAACT
Found at i:55351693 original size:7 final size:7
Alignment explanation
Indices: 55351681--55351705 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55351671 AGTCGTTTCA
55351681 TATTTAG
1 TATTTAG
55351688 TATTTAG
1 TATTTAG
55351695 TATTTAG
1 TATTTAG
55351702 TATT
1 TATT
55351706 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:55352243 original size:30 final size:30
Alignment explanation
Indices: 55352202--55352269 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
55352192 GATGAGGATG
*
55352202 CGGGCCTATCAACAGCGCCCACACAATCAC
1 CGGGCCCATCAACAGCGCCCACACAATCAC
* *
55352232 CGGGCCCATCAACAGCGCTCACACAGTCAC
1 CGGGCCCATCAACAGCGCCCACACAATCAC
*
55352262 TGGGCCCA
1 CGGGCCCA
55352270 ACACTTCAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.26, C:0.43, G:0.21, T:0.10
Consensus pattern (30 bp):
CGGGCCCATCAACAGCGCCCACACAATCAC
Found at i:55352632 original size:22 final size:21
Alignment explanation
Indices: 55352609--55352653 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
55352599 CAACCAGATC
55352609 CCCTACCGGAGGAACCACAAT
1 CCCTACCGGAGGAACCACAAT
*
55352630 CCCTACCGGAGTAACCACAA-
1 CCCTACCGGAGGAACCACAAT
55352650 CCCT
1 CCCT
55352654 CGCTGGAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.31, C:0.42, G:0.16, T:0.11
Consensus pattern (21 bp):
CCCTACCGGAGGAACCACAAT
Found at i:55355785 original size:126 final size:126
Alignment explanation
Indices: 55355552--55355872 Score: 417
Period size: 126 Copynumber: 2.5 Consensus size: 126
55355542 CCAAATAGGA
* * * * *
55355552 ACTACTGTAGCAAAAGAGTATCCATGTGGAAACTTTTTTCAATAATTTTGCTGACGGTGCATCCT
1 ACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCAATAATTTTGTTGACAGTGCATCCT
* * * * *
55355617 AATTGACGTGTTTTGGATACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
66 AATTGAAGCGTTTTGGATACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTCCAAAT
* * * * *
55355678 ACTATTGTAGCAAAATAGCATCCACGTGGAAGTTTTTTTCAGTAATTTTGTTGACAGTGCATCTT
1 ACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCAATAATTTTGTTGACAGTGCATCCT
** * * *
55355743 GCTTGAAGCGTTTTTGATACTATTTGTTCAAAAACGTTTTCTCAAAATTATTTTTCCAGAT
66 AATTGAAGCGTTTTGGATACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTCCAAAT
* * ** *
55355804 ACTACTGTAGCAAAAGAGCGTCTACACGGAAGCTTTTTTCAATAATTTTGTTGACAGTGTATCCT
1 ACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCAATAATTTTGTTGACAGTGCATCCT
55355869 AATT
66 AATT
55355873 TAATTAATTA
Statistics
Matches: 163, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
126 163 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCATCCACGTGGAAGCTTTTTTCAATAATTTTGTTGACAGTGCATCCT
AATTGAAGCGTTTTGGATACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTCCAAAT
Found at i:55360915 original size:40 final size:40
Alignment explanation
Indices: 55360743--55360907 Score: 260
Period size: 40 Copynumber: 4.2 Consensus size: 40
55360733 AACCCAAGTA
* *
55360743 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55360782 CCTTCGGGACTTAGCCCGGATATAGTAACTCCCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55360822 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55360862 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55360902 CCTTCG
1 CCTTCG
55360908 AATCTTAGTC
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.11
40 102 0.89
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55362362 original size:14 final size:14
Alignment explanation
Indices: 55362340--55362382 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
55362330 TTTCATTTTG
55362340 TAACATAAAATTAT
1 TAACATAAAATTAT
*
55362354 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
55362367 TAACACAAAATAAT
1 TAACATAAAATTAT
55362381 TA
1 TA
55362383 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:55362376 original size:13 final size:13
Alignment explanation
Indices: 55362340--55362378 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
55362330 TTTCATTTTG
55362340 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
55362354 TAGCATAAAATAT
1 TAACATAAAATAT
*
55362367 TAACACAAAATA
1 TAACATAAAATA
55362379 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:55367919 original size:20 final size:20
Alignment explanation
Indices: 55367894--55367934 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
55367884 ATGACTTCTA
*
55367894 ATTATCTCTGTTTAATTTAT
1 ATTATCTCTGGTTAATTTAT
55367914 ATTATCTCTGGTTAATTTAT
1 ATTATCTCTGGTTAATTTAT
55367934 A
1 A
55367935 GTGAATTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (20 bp):
ATTATCTCTGGTTAATTTAT
Found at i:55369027 original size:40 final size:40
Alignment explanation
Indices: 55368855--55369020 Score: 289
Period size: 40 Copynumber: 4.2 Consensus size: 40
55368845 AACCCAAGTA
* *
55368855 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55368894 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55368934 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55368974 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55369014 CCTTCGG
1 CCTTCGG
55369021 ATCTTAGTCC
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 13 0.11
40 109 0.89
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55370476 original size:14 final size:14
Alignment explanation
Indices: 55370454--55370496 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
55370444 TTTCATTTTG
55370454 TAACATAAAATTAT
1 TAACATAAAATTAT
*
55370468 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
55370481 TAACACAAAATAAT
1 TAACATAAAATTAT
55370495 TA
1 TA
55370497 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:55370490 original size:13 final size:13
Alignment explanation
Indices: 55370454--55370492 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
55370444 TTTCATTTTG
55370454 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
55370468 TAGCATAAAATAT
1 TAACATAAAATAT
*
55370481 TAACACAAAATA
1 TAACATAAAATA
55370493 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:55374469 original size:17 final size:17
Alignment explanation
Indices: 55374447--55374481 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55374437 AAAGTATATT
55374447 CATGCAAGCATTGCAAA
1 CATGCAAGCATTGCAAA
55374464 CATGCAAGCATTGCAAA
1 CATGCAAGCATTGCAAA
55374481 C
1 C
55374482 GACACATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.17
Consensus pattern (17 bp):
CATGCAAGCATTGCAAA
Found at i:55377948 original size:13 final size:12
Alignment explanation
Indices: 55377930--55377972 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
55377920 GCTATGAGTT
55377930 AAAAAAATACTTA
1 AAAAAAATA-TTA
*
55377943 AAAAAAATATTG
1 AAAAAAATATTA
*
55377955 AATAAAA-ATTA
1 AAAAAAATATTA
55377966 AAAAAAA
1 AAAAAAA
55377973 AAGGTGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 9 0.35
12 8 0.31
13 9 0.35
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (12 bp):
AAAAAAATATTA
Found at i:55383108 original size:56 final size:55
Alignment explanation
Indices: 55383032--55383155 Score: 169
Period size: 56 Copynumber: 2.2 Consensus size: 55
55383022 AAGTATTAAC
* *
55383032 TATTTATAAAATTTAAATATAAATAAGATATT-ATTTGTATTATTTAAATTTTTTT
1 TATTTTTAAAATTTAAATATAAATAAGATATTAATTTGGATTATTTAAA-TTTTTT
55383087 TATTTTTAAACATTTAAATATAAATAAGATATTAACACATTTGGATTATTTAAATTTTTT
1 TATTTTTAAA-ATTTAAATATAAATAAGATATT---A-ATTTGGATTATTTAAATTTTTT
55383147 TATTTTTAA
1 TATTTTTAA
55383156 TTAATGATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
55 9 0.15
56 22 0.36
60 15 0.25
61 15 0.25
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (55 bp):
TATTTTTAAAATTTAAATATAAATAAGATATTAATTTGGATTATTTAAATTTTTT
Found at i:55388739 original size:12 final size:13
Alignment explanation
Indices: 55388718--55388749 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
55388708 CGTGTGGACC
55388718 TTTT-TTTTTTAA
1 TTTTCTTTTTTAA
55388730 -TTTCTTTTTTAA
1 TTTTCTTTTTTAA
55388742 TTTTCTTT
1 TTTTCTTT
55388750 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 8 0.44
13 7 0.39
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTAA
Found at i:55388757 original size:12 final size:11
Alignment explanation
Indices: 55388719--55388758 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
55388709 GTGTGGACCT
55388719 TTTTTTTTTAA
1 TTTTTTTTTAA
55388730 TTTCTTTTTTAA
1 TTT-TTTTTTAA
*
55388742 -TTTTCTTTAA
1 TTTTTTTTTAA
55388752 TTTTTTT
1 TTTTTTT
55388759 AAAAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 7 0.28
11 10 0.40
12 8 0.32
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:55388791 original size:34 final size:34
Alignment explanation
Indices: 55388753--55388818 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
55388743 TTTCTTTAAT
55388753 TTTTTTAAAAAAATTC-TTTTCTTTTTCTTTTCAA
1 TTTTTTAAAAAAATTCATTTTCTTTTT-TTTTCAA
***
55388787 TTTTTTTTCAAAATTCATTTTTCTTTTTTTTT
1 TTTTTTAAAAAAATTCA-TTTTCTTTTTTTTT
55388819 ATTTATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 13 0.48
35 4 0.15
36 10 0.37
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTTTTAAAAAAATTCATTTTCTTTTTTTTTCAA
Found at i:55391669 original size:14 final size:13
Alignment explanation
Indices: 55391645--55391684 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
55391635 AGAATTAAAC
55391645 AAATGAAAAATTA
1 AAATGAAAAATTA
55391658 AAATGTAAAAATTA
1 AAATG-AAAAATTA
* *
55391672 AATTAAAAAATTA
1 AAATGAAAAATTA
55391685 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (13 bp):
AAATGAAAAATTA
Found at i:55393472 original size:21 final size:21
Alignment explanation
Indices: 55393443--55393483 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55393433 TAAATTATAG
55393443 AAAAAGTATCAATAACTTTTC
1 AAAAAGTATCAATAACTTTTC
* *
55393464 AAAATGTATCAATATCTTTT
1 AAAAAGTATCAATAACTTTT
55393484 ACCAAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAAAGTATCAATAACTTTTC
Found at i:55395710 original size:79 final size:79
Alignment explanation
Indices: 55395566--55395778 Score: 229
Period size: 79 Copynumber: 2.7 Consensus size: 79
55395556 GAATCACGTA
* ** *
55395566 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
55395631 AACTCGCACAAATG
66 AACTCGCACAAATG
* * * * *
55395645 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTA
1 CCTTCGGAACTTAA-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TA
55395708 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
* * * *
55395724 CCTTCGGATCTTAGTCC-GATATAGTC-ACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CCTTCGGAACTTA-ACCGGATATAG-CAAC-TCGCACAAATGCCTTCGGGACATAGCC
55395779 GGACATCATT
Statistics
Matches: 112, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
78 18 0.16
79 66 0.59
80 28 0.25
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:55395713 original size:39 final size:40
Alignment explanation
Indices: 55395580--55395778 Score: 228
Period size: 40 Copynumber: 5.0 Consensus size: 40
55395570 CGGAATTTAA
* * ** *
55395580 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55395620 CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55395660 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55395699 CCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55395739 CC-GATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55395778 C
1 C
55395779 GGACATCATT
Statistics
Matches: 137, Mismatches: 16, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 54 0.39
40 79 0.58
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55398313 original size:30 final size:30
Alignment explanation
Indices: 55398279--55398339 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
55398269 ATAGATAATT
55398279 TTACAGAATTAGTGATTAAGGTAAAAGGAC
1 TTACAGAATTAGTGATTAAGGTAAAAGGAC
55398309 TTACAGAATTAGTGATTAAGGTAAAAGGAC
1 TTACAGAATTAGTGATTAAGGTAAAAGGAC
55398339 T
1 T
55398340 AAATCATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.28
Consensus pattern (30 bp):
TTACAGAATTAGTGATTAAGGTAAAAGGAC
Found at i:55405822 original size:21 final size:22
Alignment explanation
Indices: 55405774--55405822 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
55405764 TCAGACTATT
*
55405774 CATTTTGGACCTAAATTTTACT
1 CATTTTGGACCTAAATTTTACA
*
55405796 CATTTTGGCCCTAACA-TTT-CA
1 CATTTTGGACCTAA-ATTTTACA
55405817 CATTTT
1 CATTTT
55405823 TACAAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 16 0.67
23 1 0.04
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.45
Consensus pattern (22 bp):
CATTTTGGACCTAAATTTTACA
Found at i:55408112 original size:34 final size:35
Alignment explanation
Indices: 55408067--55408135 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
55408057 TCTCTTGGGC
**
55408067 TAGTTTCAATATTACTC-ACAAGTTACCTTGTGGT
1 TAGTTTCAATATTACTCGACAAGCAACCTTGTGGT
*
55408101 TAGTTTTAATATTACTCGACAAGCAACCTTGTGGT
1 TAGTTTCAATATTACTCGACAAGCAACCTTGTGGT
55408136 CTTTCTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (35 bp):
TAGTTTCAATATTACTCGACAAGCAACCTTGTGGT
Found at i:55415608 original size:53 final size:53
Alignment explanation
Indices: 55415540--55415746 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
55415530 TTCCTTTTTA
* *
55415540 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * * *
55415593 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTATTG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * * *
55415647 TAGTTTATCAATGCCATGTCTTGATATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* *
55415702 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
55415747 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 45 0.37
54 39 0.32
55 37 0.31
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:55426647 original size:39 final size:39
Alignment explanation
Indices: 55426593--55426771 Score: 220
Period size: 39 Copynumber: 4.5 Consensus size: 39
55426583 TAATGGAGAA
*
55426593 TTATATCCGGGCTAAGTCCCGAAGGCATTCGCACTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGCGCTGGTG
*
55426632 TTATATCCGGGCTAAGTCCCGAAGGTATTC-CTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGC-GCTGGTG
* *
55426671 TTATATCCGAGCTAAG-CCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCC-GAAGGCATTCGCGCTGGTG
* * * *
55426710 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGCGCTGGTG
55426749 TTATATCCGGGCATAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
55426772 CATGCGTTGT
Statistics
Matches: 125, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
38 4 0.03
39 100 0.80
40 18 0.14
41 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGCGCTGGTG
Found at i:55428588 original size:50 final size:51
Alignment explanation
Indices: 55428511--55428639 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
55428501 GACCATGACA
55428511 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
55428562 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
55428612 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
55428640 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:55428653 original size:31 final size:31
Alignment explanation
Indices: 55428615--55428763 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
55428605 ACAAATGACA
*
55428615 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
*
55428646 AGTGAAAAGTGGTAG-TTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTT-CAGCTACCTAATC
* *
55428677 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
* * *
55428708 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
*
55428739 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
55428764 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 104 0.97
32 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
Found at i:55428858 original size:47 final size:48
Alignment explanation
Indices: 55428789--55428952 Score: 166
Period size: 47 Copynumber: 3.6 Consensus size: 48
55428779 AGTGATTTCC
* *
55428789 GTATAAGACCATATCTGGGATATGGCATCGGTGCGATATATGCTAC-T
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACAT
* * *
55428836 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCAT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACAT
* * *
55428884 G--TAAGACCATAGCTGGGCTATGGCATC-----GATATATGA-ATAT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACAT
* * *
55428924 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATATCTGGGATATGGCATC
55428953 ATTATGTGAA
Statistics
Matches: 104, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
40 3 0.03
41 8 0.08
42 26 0.25
46 24 0.23
47 41 0.39
48 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (48 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACAT
Found at i:55428990 original size:42 final size:42
Alignment explanation
Indices: 55428883--55428979 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
55428873 ATGTGATTCA
*
55428883 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGATG
*
55428925 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGATG
55428967 TGTAAGACCATAG
1 TGTAAGACCATAG
55428980 TTGAACTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGATG
Found at i:55430160 original size:53 final size:55
Alignment explanation
Indices: 55430091--55430233 Score: 166
Period size: 53 Copynumber: 2.6 Consensus size: 55
55430081 TTCCTTTTTA
* * *
55430091 AACTTACCATTACCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATCGT
* * * *
55430144 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATCGT
* * *
55430199 AGA-TTATCAATGCCATGTCTTGACATGGTCGTACA
1 A-ACTTACCATTGCCATGTCTTGACATGGTCTTACA
55430234 CGATTTCTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
53 45 0.61
54 1 0.01
55 27 0.36
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATCGT
Found at i:55431810 original size:24 final size:24
Alignment explanation
Indices: 55431765--55431811 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
55431755 TATATATACC
55431765 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
55431789 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
55431812 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:55432480 original size:19 final size:19
Alignment explanation
Indices: 55432452--55432513 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
55432442 GGTCTTTCTC
*
55432452 CTTTTCTTTCCTTTTTCTTT
1 CTTTT-TTTCCTTTTTATTT
* *
55432472 CTTTTTTTCCCTTTTGTTT
1 CTTTTTTTCCTTTTTATTT
* * *
55432491 CATTTGTT-CTTTCTATTT
1 CTTTTTTTCCTTTTTATTT
55432509 CTTTT
1 CTTTT
55432514 ATTTTATTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 11 0.32
19 18 0.53
20 5 0.15
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.73
Consensus pattern (19 bp):
CTTTTTTTCCTTTTTATTT
Found at i:55432502 original size:31 final size:31
Alignment explanation
Indices: 55432446--55432504 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
55432436 AGCTTTGGTC
*
55432446 TTTCTCCTTTTCTTTCCTTTTTCTTTCTTTT
1 TTTCTCCTTTTCTTTCATTTTTCTTTCTTTT
*
55432477 TTTC-CCTTTTGTTTCATTTGTTCTTTCT
1 TTTCTCCTTTTCTTTCATTT-TTCTTTCT
55432505 ATTTCTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.02, C:0.24, G:0.03, T:0.71
Consensus pattern (31 bp):
TTTCTCCTTTTCTTTCATTTTTCTTTCTTTT
Found at i:55433509 original size:42 final size:42
Alignment explanation
Indices: 55433440--55433522 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
55433430 CTAGGAGAAG
*
55433440 AAGTTTTGTTGAGCTGTACAAAACTTGGCTCAATAACATCAC
1 AAGTCTTGTTGAGCTGTACAAAACTTGGCTCAATAACATCAC
* *
55433482 AAGTCTTGTTGAGCTGTGCAAACCTTGGCTCAATAACATCA
1 AAGTCTTGTTGAGCTGTACAAAACTTGGCTCAATAACATCA
55433523 GGAATTGTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (42 bp):
AAGTCTTGTTGAGCTGTACAAAACTTGGCTCAATAACATCAC
Found at i:55436388 original size:50 final size:49
Alignment explanation
Indices: 55436306--55436483 Score: 193
Period size: 50 Copynumber: 3.7 Consensus size: 49
55436296 TAGAGGTTTC
*
55436306 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATATGAGAGCTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATA-GAGAG-TT
* ** * * *
55436357 A-TGTAAGACCATGTCTGAGACATGGTGTCGGCTTCGATCTAGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATAGAGAGTT
* * * *
55436405 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTG--ATGGATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATAGA-GAGTT
*
55436452 AGTGTAGGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
55436484 TATTACACCC
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 3 0.03
47 33 0.31
48 5 0.05
49 31 0.29
50 34 0.32
51 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATAGAGAGTT
Found at i:55436428 original size:49 final size:47
Alignment explanation
Indices: 55436306--55436483 Score: 198
Period size: 49 Copynumber: 3.7 Consensus size: 47
55436296 TAGAGGTTTC
* *
55436306 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATATGAGAGCTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAT-TA-GATAG-TT
* **
55436357 A-TGTAAGACCATGTCTGAGACATGGTGTCGGCTTCGATCTAGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTT-GAT-TAGATAGTT
* * *
55436405 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-TGGATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATTAGAT-AGTT
*
55436452 AGTGTAGGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
55436484 TATTACACCC
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
46 4 0.04
47 33 0.30
48 5 0.05
49 34 0.31
50 33 0.30
51 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATTAGATAGTT
Found at i:55436471 original size:47 final size:47
Alignment explanation
Indices: 55436306--55436483 Score: 198
Period size: 47 Copynumber: 3.7 Consensus size: 47
55436296 TAGAGGTTTC
* *
55436306 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATATGAGAGCTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGATAGAT--GAGC-T
* ** *
55436357 A-TGTAAGACCATGTCTGAGACATGGTGTCGGCTTCGATCTAGAT-AGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTT-GA--TAGATGAGCT
* *
55436405 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATAGATGAGCT
*
55436452 AGTGTAGGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
55436484 TATTACACCC
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
46 4 0.04
47 33 0.31
48 4 0.04
49 32 0.30
50 30 0.28
51 1 0.01
52 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATAGATGAGCT
Found at i:55444237 original size:46 final size:46
Alignment explanation
Indices: 55444080--55444246 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 46
55444070 TTCTGTGCTT
* * *
55444080 GTGTAAGACATGTCTTGGACATGCATCGGCCAC-ATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-TATGAGAGCCA
* * * * * *
55444126 GTGTAAGACCATGTCTGGGACATGACATCAACATTGAGACGAGAGCTA
1 GTGTAAGA-CATGTCTGGGACATG-CATCAGCCTCGATATGAGAGCCA
* **
55444174 GTATAAGACATGTCTGGGACATGTTTCAGCCTCGATATGTA-AGCCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCCTCGATATG-AGAGCCA
55444220 GTGTAAGACATGTCTGGGACATGCATC
1 GTGTAAGACATGTCTGGGACATGCATC
55444247 GACTACGAGA
Statistics
Matches: 96, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
46 45 0.47
47 30 0.31
48 20 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCCTCGATATGAGAGCCA
Found at i:55444874 original size:9 final size:9
Alignment explanation
Indices: 55444847--55444883 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
55444837 TGAGCTTTCA
55444847 AATTCGAAT
1 AATTCGAAT
* *
55444856 AACTCAAAT
1 AATTCGAAT
55444865 AATTCGAAT
1 AATTCGAAT
55444874 AATTCGAAT
1 AATTCGAAT
55444883 A
1 A
55444884 TTAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:55445394 original size:19 final size:17
Alignment explanation
Indices: 55445371--55445451 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 17
55445361 TTATATCTAC
55445371 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
* *
55445388 TAAATTTAACATT-TTATAT
1 T--ATTT-ATATTATTAAAT
*
55445407 TATTTATATTATTTAAT
1 TATTTATATTATTAAAT
* *
55445424 TTTTTAGTCA-TATTGAA-
1 TATTTA-T-ATTATTAAAT
55445441 TATTTATATTA
1 TATTTATATTA
55445452 AAATTGAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
15 1 0.02
16 7 0.14
17 19 0.39
18 7 0.14
19 11 0.22
20 4 0.08
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTAAAT
Found at i:55445918 original size:5 final size:5
Alignment explanation
Indices: 55445908--55445944 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
55445898 AAATTTTTTC
55445908 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG AT
55445945 CGAACGCTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:55446880 original size:21 final size:20
Alignment explanation
Indices: 55446856--55446895 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
55446846 ATGTTCAAGT
55446856 TCCACACGGGCGTGTTGCCCA
1 TCCACACGGGCGTG-TGCCCA
55446877 TCCACACGGGCGTGTGCCC
1 TCCACACGGGCGTGTGCCC
55446896 TGTTTCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.12, C:0.40, G:0.30, T:0.17
Consensus pattern (20 bp):
TCCACACGGGCGTGTGCCCA
Found at i:55455074 original size:47 final size:47
Alignment explanation
Indices: 55454947--55455446 Score: 838
Period size: 47 Copynumber: 10.5 Consensus size: 47
55454937 GTGTGTATAC
55454947 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
55454994 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
55455043 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
55455090 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
55455139 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
55455188 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
55455235 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
55455282 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
55455329 ATGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
55455376 GTGAAAGTGTATATATGTGACATGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
55455423 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
55455447 TCCCGAAGGG
Statistics
Matches: 431, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 288 0.67
49 143 0.33
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:55455608 original size:37 final size:37
Alignment explanation
Indices: 55455565--55455643 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
55455555 CCGAGCTCTA
* * *
55455565 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
55455602 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
55455639 AAGAC
1 AAGAC
55455644 TTCATAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:55463808 original size:3 final size:3
Alignment explanation
Indices: 55463800--55463831 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
55463790 GTTTATTTGT
55463800 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
55463832 TATTTTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:55463844 original size:7 final size:6
Alignment explanation
Indices: 55463799--55463872 Score: 67
Period size: 6 Copynumber: 12.0 Consensus size: 6
55463789 AGTTTATTTG
* * * * * *
55463799 TTTATT ATTATT ATTATT ATTATT ATTATT ATTTATT TTTACT TTTACT
1 TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT TTTATT TTTATT
*
55463848 TTTATT TTTAATT TTTAAT TTTATT
1 TTTATT TTT-ATT TTTATT TTTATT
55463873 CTTCTTCCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
6 49 0.82
7 11 0.18
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTATT
Found at i:55468410 original size:21 final size:20
Alignment explanation
Indices: 55468372--55468426 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 20
55468362 AGTTACACGG
55468372 CCTACTCACACGGCTGTGTC
1 CCTACTCACACGGCTGTGTC
55468392 CCTACTGCACACTGG-TGTGTGC
1 CCTACT-CACAC-GGCTGTGT-C
55468414 CTCTA-TCACACGG
1 C-CTACTCACACGG
55468427 TCATGTGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 8 0.26
21 15 0.48
22 5 0.16
23 3 0.10
ACGTcount: A:0.16, C:0.36, G:0.22, T:0.25
Consensus pattern (20 bp):
CCTACTCACACGGCTGTGTC
Found at i:55469132 original size:89 final size:89
Alignment explanation
Indices: 55469035--55469346 Score: 448
Period size: 89 Copynumber: 3.5 Consensus size: 89
55469025 TACGTACCAC
* * * * *
55469035 TATCTGATCTGGCAGTTTATACTGCACATCTATACCGCGGT-TTACCGCATTGCACAGTATAACT
1 TATCTGATCTGGCAGTTCATACTGCACGTCTGTACCGCGGTCTT-CCACATTGCACAGTACAACT
55469099 TATACGCTAGCCTTGCTGCATAATA
65 TATACGCTAGCCTTGCTGCATAATA
**
55469124 TATCTGATCTGAAAGTTCATACTGC-CTGTCTGTACCGCGGTCTTCCACATTGCACAGTACAACT
1 TATCTGATCTGGCAGTTCATACTGCAC-GTCTGTACCGCGGTCTTCCACATTGCACAGTACAACT
*
55469188 TATACGCTAGCCTTACTGCATAATA
65 TATACGCTAGCCTTGCTGCATAATA
* * *
55469213 TATCTGATCTAGCAGTTCATACTGCATGTCTGTACCGTGGTCTTCCACATTGCACAGTACAACTT
1 TATCTGATCTGGCAGTTCATACTGCACGTCTGTACCGCGGTCTTCCACATTGCACAGTACAACTT
* * *
55469278 ATACACTAGCCTTGCTGCGTAAAA
66 ATACGCTAGCCTTGCTGCATAATA
* *
55469302 TATCTGATCTGGCAGTTCATACTACATGTCTGTACCGCGGTCTTC
1 TATCTGATCTGGCAGTTCATACTGCACGTCTGTACCGCGGTCTTC
55469347 TGCATGGCAC
Statistics
Matches: 200, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
88 1 0.00
89 197 0.99
90 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (89 bp):
TATCTGATCTGGCAGTTCATACTGCACGTCTGTACCGCGGTCTTCCACATTGCACAGTACAACTT
ATACGCTAGCCTTGCTGCATAATA
Found at i:55471440 original size:6 final size:6
Alignment explanation
Indices: 55471398--55471467 Score: 77
Period size: 6 Copynumber: 11.0 Consensus size: 6
55471388 ACTTATTTAG
* * *
55471398 TTTATT TGTTATT TATTATT ATTATT ATTATT ATTTATT TTTACT TTTATT
1 TTTATT T-TTATT T-TTATT TTTATT TTTATT -TTTATT TTTATT TTTATT
55471449 TTTAATT TTTATT TTTATT
1 TTT-ATT TTTATT TTTATT
55471468 CTTCTTCCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
6 34 0.61
7 22 0.39
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:55471446 original size:12 final size:12
Alignment explanation
Indices: 55471431--55471465 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
55471421 ATTATTATTA
55471431 TTTATTTTTACT
1 TTTATTTTTACT
*
55471443 TTTATTTTTAATT
1 TTTATTTTT-ACT
55471456 TTTATTTTTA
1 TTTATTTTTA
55471466 TTCTTCTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTTTTACT
Found at i:55471464 original size:19 final size:18
Alignment explanation
Indices: 55471398--55471467 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 18
55471388 ACTTATTTAG
55471398 TTTATTTGTTATTTATTATT
1 TTTATTT-TTATTT-TTATT
* *
55471418 ATTATTATTATTATTTATT
1 TTTATTTTTATT-TTTATT
*
55471437 TTTACTTTTATTTTTAATT
1 TTTATTTTTATTTTT-ATT
55471456 TTTATTTTTATT
1 TTTATTTTTATT
55471468 CTTCTTCCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
18 3 0.07
19 33 0.79
20 6 0.14
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (18 bp):
TTTATTTTTATTTTTATT
Found at i:55473169 original size:89 final size:89
Alignment explanation
Indices: 55472842--55473152 Score: 417
Period size: 89 Copynumber: 3.5 Consensus size: 89
55472832 TACGTACCAT
* * * * * * * *
55472842 TATCTGATCTGGCAATTTATACTGCACGTCTGTACCCCGGT-TTACCGTATTGTACAGTACAGCT
1 TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGCGATCTT-TCGCATTGTACAGTACAGCT
55472906 TATACGCTAGCCTTGCTGCGTAATA
65 TATACGCTAGCCTTGCTGCGTAATA
* * * * *
55472931 TATCTGATCTGGTAGTTCATACTGCATTTCTATACCGCAATCTTTCGGATTGTACAGTATAGCTT
1 TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGCGATCTTTCGCATTGTACAGTACAGCTT
55472996 ATACGCTAGCCTTGCTGCGTAATA
66 ATACGCTAGCCTTGCTGCGTAATA
* * * *
55473020 TATCTGATCTGGCAGTTCATACTACATGTCTATACCGCGGTCTTTGGCATTGTACAGTACAACTT
1 TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGCGATCTTTCGCATTGTACAGTACAGCTT
55473085 ATACGCTAGCCTTGCTGCGTAATA
66 ATACGCTAGCCTTGCTGCGTAATA
* * * *
55473109 TATCTGATCTAGCAGTTTATACTGGATGTCTGTACCGCGATCTT
1 TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGCGATCTT
55473153 CCACATGCCA
Statistics
Matches: 194, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
89 192 0.99
90 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (89 bp):
TATCTGATCTGGCAGTTCATACTGCATGTCTATACCGCGATCTTTCGCATTGTACAGTACAGCTT
ATACGCTAGCCTTGCTGCGTAATA
Found at i:55476284 original size:44 final size:45
Alignment explanation
Indices: 55476222--55476314 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 45
55476212 CGGCATTCAA
55476222 CCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATTATAG
** * * *
55476267 CCTGCTAGGCT-TGAGGCCCGAATAGTGTCTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATTATAG
55476311 CCTG
1 CCTG
55476315 TAACAGCCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 32 0.74
45 11 0.26
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (45 bp):
CCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATTATAG
Found at i:55478138 original size:27 final size:27
Alignment explanation
Indices: 55478101--55478305 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
55478091 TAAATTGTAC
*
55478101 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55478128 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
55478155 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55478181 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
55478209 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55478236 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
55478264 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55478291 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55478306 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55478162 original size:54 final size:54
Alignment explanation
Indices: 55478102--55478305 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
55478092 AAATTGTACA
* * *
55478102 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
55478156 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
55478210 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
55478265 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
55478306 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:55486299 original size:27 final size:27
Alignment explanation
Indices: 55486262--55486466 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
55486252 TAAATTGTAC
*
55486262 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55486289 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
55486316 TGCACTAAGTGTGCGAAATGAAAAT-T
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55486342 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
55486370 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55486397 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
55486425 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55486452 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55486467 GACTTAATAT
Statistics
Matches: 151, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 126 0.83
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55486323 original size:54 final size:54
Alignment explanation
Indices: 55486263--55486466 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
55486253 AAATTGTACA
* * *
55486263 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
55486317 GCACTAAGTGTGCGAAATGAAAAT-TATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
55486371 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
55486426 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
55486467 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 2 0.02
54 78 0.61
55 48 0.38
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:55487880 original size:45 final size:45
Alignment explanation
Indices: 55487816--55487937 Score: 217
Period size: 45 Copynumber: 2.7 Consensus size: 45
55487806 GGGGTGTTAC
*
55487816 ATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATT
1 ATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACCGGCATT
* *
55487861 ATAGCCTGCTAGGCTCAAAGGCCAGAATAATATATCACCGGCATT
1 ATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACCGGCATT
55487906 ATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 ATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
55487938 CTGTACAATA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.21
Consensus pattern (45 bp):
ATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACCGGCATT
Found at i:55498974 original size:17 final size:17
Alignment explanation
Indices: 55498954--55498987 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
55498944 GATATAAATG
55498954 TGAAATTGAA-TATGTTT
1 TGAAA-TGAATTATGTTT
55498971 TGAAATGAATTATGTTT
1 TGAAATGAATTATGTTT
55498988 CACATATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (17 bp):
TGAAATGAATTATGTTT
Found at i:55512691 original size:21 final size:21
Alignment explanation
Indices: 55512665--55512717 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
55512655 CTTGTAAGTT
*
55512665 TCTGAAACTCTAATTAGAATA
1 TCTGAAACTATAATTAGAATA
* *
55512686 TCTGAAAGTATTATTAGAATA
1 TCTGAAACTATAATTAGAATA
*
55512707 TATTGAAACTA
1 T-CTGAAACTA
55512718 CTTTAGGTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (21 bp):
TCTGAAACTATAATTAGAATA
Found at i:55516054 original size:18 final size:20
Alignment explanation
Indices: 55516010--55516054 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
55516000 CCAAATTTAT
*
55516010 TTATATATATATATGTACTA
1 TTATATTTATATATGTACTA
*
55516030 TGA-ATTTAT-TATGTAC-A
1 TTATATTTATATATGTACTA
55516047 TTATATTT
1 TTATATTT
55516055 TATCATGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
17 3 0.14
18 11 0.52
19 5 0.24
20 2 0.10
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (20 bp):
TTATATTTATATATGTACTA
Found at i:55524411 original size:37 final size:37
Alignment explanation
Indices: 55524370--55524444 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
55524360 ATCCAGGCAT
55524370 TTTTTGGTTTGGATATAAAAGGCAAGGATAAGGAGAC
1 TTTTTGGTTTGGATATAAAAGGCAAGGATAAGGAGAC
55524407 TTTTTGGTTTGGATATAAAAGGCAAGGATAAGGAGAC
1 TTTTTGGTTTGGATATAAAAGGCAAGGATAAGGAGAC
55524444 T
1 T
55524445 CTTGAGCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (37 bp):
TTTTTGGTTTGGATATAAAAGGCAAGGATAAGGAGAC
Done.