Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 58 of 255
Found at i:16716881 original size:454 final size:453
Alignment explanation
Indices: 16715901--16717216 Score: 2174
Period size: 454 Copynumber: 2.9 Consensus size: 453
16715891 TATGTCATTA
*
16715901 TTATTGTTTTGATATGCAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
1 TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
* * **
16715966 ATGTGAACTGAGGAAGATGTTTTAGTGCAAATATATGATATGTGTTAATGGAATGTTGTGACTTT
66 ATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTAA
* * *
16716031 GATGCCTAAGTTTGGCATATTGATTGAATGTTACATGGTGTGATTTAACATACTTTGAATGATAG
131 GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
* *
16716096 TTCTTTTTGTTGCAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAG
196 TTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAA
* *
16716161 GATTGTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTAAATAGGTCTTTTGGCTGGTA
261 GATTCTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGTA
*
16716226 AATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTTTTGTTTAAGGTTCATTTTGGG
326 AATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTGGG
* * *
16716291 TTCACATAGCCTGAGACACTACCGTGTAAGACACACGGCCTGGCGACACGGCTGTATGTCACC
391 TTCACATAGCCTGAGACACAACCGTGTAAGACACACAGCCCGGCGACACGGCTGTATGTCACC
* *
16716354 TTATTTTTTTGATATGTAAAATATTAAAGTATGATTTTAAGTGCAAGTAGTTAACCT-AGTATGA
1 TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCA-TATGA
* *
16716418 TATGTGAACTAAGGAAGATATTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTCTGACTA
65 TATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTA
16716483 AGGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATA
130 AGGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATA
*
16716548 GTTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACACTGGTTAGGCACTTA
195 GTTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTA
*
16716613 AGATTTTTGATTTAGCATGATTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGG
260 AGATTCTTGATTTAGCATG-TTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGG
* * *
16716678 TAAATGGATTACTTAGAGTCCAAGTAACCTTGAAATGGTAAACTAGTTGTTTAAGGTTCATTTTG
324 TAAATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTG
* * * * *
16716743 GGTTCACAGAGCCTAAGACACAACCGTGTGAGACATACAGCCCGGTGACACGG-TCGTATGTCAC
389 GGTTCACATAGCCTGAGACACAACCGTGTAAGACACACAGCCCGGCGACACGGCT-GTATGTCAC
16716807 C
453 C
*
16716808 TTATTGTTTTGATATGTAAAATGTTAATGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
1 TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
* * *
16716873 ACGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTATTAATGGAATGTTGTGACTGA
66 ATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTAA
16716938 GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
131 GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
* * * *
16717003 TTCTTTTGGTTGTAAAGTTGTATATACTTGTGGTATCAGTGAGGATACATTGGTTAGGCAC-CAA
196 TTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAA
* *
16717067 TGATTCTTGATTTAGCTTGTTTTTAGC-TTGTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGT
261 -GATTCTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGT
* *
16717131 AAATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGGTTAAGGTTTATTTTGG
325 AAATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTGG
16717196 GTAT-ACATAGCCTGAGACACA
390 GT-TCACATAGCCTGAGACACA
16717217 GCTTGGCAAC
Statistics
Matches: 805, Mismatches: 52, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
452 114 0.14
453 272 0.34
454 418 0.52
455 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (453 bp):
TTATTGTTTTGATATGTAAAATGTTAAAGTATGATTTTAAGTGCAAGTAGTTAACCTCATATGAT
ATGTGAACTAAGGAAGATGTTTTAGTGCAAATATATGGTATGTGTTAATGGAATGTTGTGACTAA
GGTGCCTAAGTTTGGCATATTGGTTGAATGTTAAATGGTGTGATTTAACATACTTTGAATGATAG
TTCTTTTTGTTGTAAAATTGTATATACTTGTGGTATCAATGAGGATACATTGGTTAGGCACTTAA
GATTCTTGATTTAGCATGTTTTTAGCTTTTTTTAATGTCACTTTGAATAGGTCTTTTGGCTGGTA
AATGGATTACTTAGAGTCCAGGTAAGCTTGAAATGGTAAACTTGTTGTTTAAGGTTCATTTTGGG
TTCACATAGCCTGAGACACAACCGTGTAAGACACACAGCCCGGCGACACGGCTGTATGTCACC
Found at i:16718156 original size:17 final size:18
Alignment explanation
Indices: 16718134--16718169 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
16718124 AAACATATAG
*
16718134 TTCTATCAATTAA-CAAT
1 TTCTATCAAATAACCAAT
16718151 TTCTATCAAATAACCAAT
1 TTCTATCAAATAACCAAT
16718169 T
1 T
16718170 CGAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (18 bp):
TTCTATCAAATAACCAAT
Found at i:16720781 original size:43 final size:43
Alignment explanation
Indices: 16720725--16720808 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
16720715 GATATATGTG
* *
16720725 GCATCCGAGCTCGTTGAGTGGTCCAAGTTTATTATGGATGCAA
1 GCATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGCAA
*
16720768 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGC
1 GCATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGC
16720809 GATACATGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGCAA
Found at i:16722772 original size:19 final size:21
Alignment explanation
Indices: 16722740--16722781 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
16722730 ATAGATGTTC
*
16722740 AGTAGAGTTTGTAAGTAG-TT
1 AGTAGAGTTAGTAAGTAGATT
16722760 AGTA-AGTTAGTAAGTAGATT
1 AGTAGAGTTAGTAAGTAGATT
16722780 AG
1 AG
16722782 ATTTATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (21 bp):
AGTAGAGTTAGTAAGTAGATT
Found at i:16723058 original size:4 final size:4
Alignment explanation
Indices: 16723042--16723082 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
16723032 CTTGTATGAC
* * *
16723042 TTAA TTGA TTAA TTAA TTGA TTAA TTAA TTGA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
16723083 CGATTATTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:16723059 original size:12 final size:12
Alignment explanation
Indices: 16723042--16723088 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
16723032 CTTGTATGAC
16723042 TTAATTGATTAA
1 TTAATTGATTAA
16723054 TTAATTGATTAA
1 TTAATTGATTAA
16723066 TTAATTGATTAA
1 TTAATTGATTAA
*
16723078 TTAATCGATTA
1 TTAATTGATTA
16723089 TTTGATTGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (12 bp):
TTAATTGATTAA
Found at i:16726982 original size:20 final size:19
Alignment explanation
Indices: 16726937--16726983 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
16726927 AATTTTTTGT
* *
16726937 ATTATAAATTATATAATAT
1 ATTATAAATAATATAATAC
*
16726956 ATGATAACATAATATAATAC
1 ATTATAA-ATAATATAATAC
16726976 ATTATAAA
1 ATTATAAA
16726984 CATTAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTATAAATAATATAATAC
Found at i:16731476 original size:31 final size:31
Alignment explanation
Indices: 16731438--16731547 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
16731428 TTTAACGGTT
16731438 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
16731469 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
16731500 ACTGGGCTGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
16731531 ACTGAGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
16731548 ACTGTAAACG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:16731622 original size:42 final size:42
Alignment explanation
Indices: 16731572--16731662 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
16731562 GGCCCATAGA
* ** *
16731572 CCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
* *
16731614 CCGATTTCAATATCATATGAAATACCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
16731656 CCCATTT
1 CCCATTT
16731663 GGGGAGACTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (42 bp):
CCCATTTCAATATCACATGAAATACCAATGAATGTATGCAAG
Found at i:16731879 original size:26 final size:26
Alignment explanation
Indices: 16731795--16731930 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
16731785 CTGGAGGCCT
*
16731795 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
16731819 AGCCCTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
16731844 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
16731870 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
16731896 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
16731922 AGCCCTTTT
1 AGCCCTTTT
16731931 GTACTTCCTC
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 33 0.33
26 57 0.56
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:16731919 original size:52 final size:51
Alignment explanation
Indices: 16731795--16731930 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
16731785 CTGGAGGCCT
16731795 AGCCTCTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGATAAACTGGGGCAA
* *
16731844 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGATAAACTGGGGCA-A
16731896 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
16731931 GTACTTCCTC
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 9 0.11
51 24 0.30
52 35 0.44
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGATAAACTGGGGCAA
Found at i:16732005 original size:20 final size:19
Alignment explanation
Indices: 16731980--16732042 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
16731970 TTATGAATAC
16731980 ATCATGTGCATTTCATACAT
1 ATCATGTGCA-TTCATACAT
16732000 ATCATGTGCA-T--TACAT
1 ATCATGTGCATTCATACAT
16732016 ATCATGTGCATATCATATCA-
1 ATCATGTGCAT-TCATA-CAT
16732036 ATCATGT
1 ATCATGT
16732043 ATATCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.39
18 2 0.05
20 19 0.50
21 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATGTGCATTCATACAT
Found at i:16732016 original size:16 final size:15
Alignment explanation
Indices: 16731993--16732035 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
16731983 ATGTGCATTT
16731993 CATACATATCATGTG
1 CATACATATCATGTG
16732008 CATTACATATCATGTG
1 CA-TACATATCATGTG
16732024 CATATCATATCA
1 CATA-CATATCA
16732036 ATCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (15 bp):
CATACATATCATGTG
Found at i:16732896 original size:27 final size:26
Alignment explanation
Indices: 16732866--16732921 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
16732856 GTAAATCTAC
*
16732866 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTCCAATAATTTT-T
* *
16732893 AAACCAATGGTATTCCTATAATTTTT
1 AAACCAAGGGTATTCCAATAATTTTT
16732919 AAA
1 AAA
16732922 GAAGTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
AAACCAAGGGTATTCCAATAATTTTT
Found at i:16732989 original size:27 final size:26
Alignment explanation
Indices: 16732931--16733026 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 26
16732921 AGAAGTAAAA
* *
16732931 GGTATTTCT-GTAATTTTATAAATCAAG
1 GGTATTT-TGGTAATTTTACAAAT-TAG
16732958 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTACAAATT-AG
*** *
16732985 GGTATTTCATTAATTTCT-CAAACTAG
1 GGTATTTTGGTAATTT-TACAAATTAG
16733011 TGGTATTTTGGTAATT
1 -GGTATTTTGGTAATT
16733027 CTATCCTACA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 3 0.05
27 52 0.93
28 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAATTAG
Found at i:16733095 original size:27 final size:27
Alignment explanation
Indices: 16733058--16733357 Score: 377
Period size: 27 Copynumber: 11.1 Consensus size: 27
16733048 GTAATTTCAC
*
16733058 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
16733085 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
* * * *
16733112 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
16733139 AATCAAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
16733166 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
16733193 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
16733220 AATCGAGGGTAAGAGGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
16733247 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
16733274 AATCGAGGGTAAGAGGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* ** *
16733301 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
16733328 AATCGAGGCTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
16733355 AAT
1 AAT
16733358 TGTGGGTATT
Statistics
Matches: 238, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 236 0.99
28 1 0.00
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:16733384 original size:27 final size:27
Alignment explanation
Indices: 16733343--16733457 Score: 92
Period size: 27 Copynumber: 4.3 Consensus size: 27
16733333 AGGCTAAAAC
** * *
16733343 AGTAATTTTGTAAATTGTGGGTATTTT
1 AGTAATTTTACAAACTGGGGGTATTTT
* *
16733370 AGTAATTTTACAAA-T-CGAGTATATTT
1 AGTAATTTTACAAACTGGGGGTAT-TTT
* * *
16733396 GGGTAATTTTATAAACTGGGGGTACTTT
1 -AGTAATTTTACAAACTGGGGGTATTTT
* *
16733424 GGTAATTTTAC-AACTGGGGGTATTTC
1 AGTAATTTTACAAACTGGGGGTATTTT
16733450 AGTAATTT
1 AGTAATTT
16733458 GGTAAACTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
25 5 0.07
26 24 0.34
27 34 0.48
28 4 0.06
29 4 0.06
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (27 bp):
AGTAATTTTACAAACTGGGGGTATTTT
Found at i:16733388 original size:54 final size:54
Alignment explanation
Indices: 16733058--16733357 Score: 422
Period size: 54 Copynumber: 5.6 Consensus size: 54
16733048 GTAATTTCAC
* * *
16733058 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAATAGTAATTTTGTA
* * *
16733112 AATCAAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* *
16733166 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* *
16733220 AATCGAGGGTAAGAGGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * * *
16733274 AATCGAGGGTAAGAGGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * *
16733328 AATCGAGGCTAAAACAGTAATTTTGTAAAT
1 AATCGAGGGTAAAACGGTAATTCTGTAAAT
16733358 TGTGGGTATT
Statistics
Matches: 223, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 222 1.00
55 1 0.00
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
Found at i:16733465 original size:27 final size:25
Alignment explanation
Indices: 16733398--16733457 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
16733388 GTATATTTGG
*
16733398 GTAATTTTATAAACTGGGGGTACTTTG
1 GTAA-TTT-TAAACTGGGGGTACTTTA
16733425 GTAATTTTACAACTGGGGGTA-TTTCA
1 GTAATTTTA-AACTGGGGGTACTTT-A
16733451 GTAATTT
1 GTAATTT
16733458 GGTAAACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 21 0.70
27 4 0.13
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (25 bp):
GTAATTTTAAACTGGGGGTACTTTA
Found at i:16735825 original size:42 final size:42
Alignment explanation
Indices: 16735778--16735869 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
16735768 TGGCCCATAG
* ** *
16735778 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
16735820 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
16735862 GCCCATTT
1 GCCCATTT
16735870 TGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:16736078 original size:26 final size:26
Alignment explanation
Indices: 16736008--16736136 Score: 142
Period size: 26 Copynumber: 5.1 Consensus size: 26
16735998 GCCTAGCCTC
16736008 TTTTAAT-AACT-GGGCA-AAGCCCT
1 TTTTAATAAACTGGGGCATAAGCCCT
** *
16736031 TTTTGGTAAACAGGGGCA-AAGCCCT
1 TTTTAATAAACTGGGGCATAAGCCCT
**
16736056 TTTTAATAAACCCGGGCATAAG-CCT
1 TTTTAATAAACTGGGGCATAAGCCCT
**
16736081 TTTTCGGTAAACTGGGGCATAAGCCCT
1 TTTT-AATAAACTGGGGCATAAGCCCT
*
16736108 TTTCAATAAACTGGGGCATAAGCCCT
1 TTTTAATAAACTGGGGCATAAGCCCT
16736134 TTT
1 TTT
16736137 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
23 5 0.06
24 3 0.03
25 33 0.38
26 40 0.46
27 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (26 bp):
TTTTAATAAACTGGGGCATAAGCCCT
Found at i:16736125 original size:52 final size:48
Alignment explanation
Indices: 16736002--16736137 Score: 159
Period size: 52 Copynumber: 2.7 Consensus size: 48
16735992 CTGGAGGCCT
16736002 AGCCTCTTTTAAT-AACTGGGCA-AAGCCCTTTTTGGTAAACAGGGGCAA
1 AGCC-CTTTTAATAAACTGGGCATAAG-CCTTTTTGGTAAACAGGGGCAA
* *
16736050 AGCCCTTTTTAATAAACCCGGGCATAAGCCTTTTTCGGTAAACTGGGGCATA
1 AGCCC-TTTTAATAAA-CTGGGCATAAGCCTTTTT-GGTAAACAGGGGCA-A
*
16736102 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTG
1 AGCCCTTTT-AATAAACT-GGGCATAAGCCTTTTTG
16736138 CACTTCCTCC
Statistics
Matches: 76, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
47 1 0.01
48 11 0.14
49 2 0.03
50 13 0.17
51 22 0.29
52 27 0.36
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAAACTGGGCATAAGCCTTTTTGGTAAACAGGGGCAA
Found at i:16736211 original size:20 final size:19
Alignment explanation
Indices: 16736186--16736248 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
16736176 TGATGAATAC
16736186 ATCATGTGCATTTCATACAT
1 ATCATGTGCA-TTCATACAT
16736206 ATCATGTGCA-T--TACAT
1 ATCATGTGCATTCATACAT
16736222 ATCATGTGCATATCATATCA-
1 ATCATGTGCAT-TCATA-CAT
16736242 ATCATGT
1 ATCATGT
16736249 ATATCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.39
18 2 0.05
20 19 0.50
21 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATGTGCATTCATACAT
Found at i:16736222 original size:16 final size:15
Alignment explanation
Indices: 16736199--16736241 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
16736189 ATGTGCATTT
16736199 CATACATATCATGTG
1 CATACATATCATGTG
16736214 CATTACATATCATGTG
1 CA-TACATATCATGTG
16736230 CATATCATATCA
1 CATA-CATATCA
16736242 ATCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (15 bp):
CATACATATCATGTG
Found at i:16738099 original size:27 final size:27
Alignment explanation
Indices: 16738069--16738175 Score: 92
Period size: 27 Copynumber: 3.9 Consensus size: 27
16738059 GTAAATCTAC
16738069 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
16738096 AAACCAATGGTATTCCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
16738122 AAAAAGTCAAAGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* **
16738152 AAATCAAGGGTATTTTGGTAATTT
1 AAACCAAGGGTATTTCAGTAATTT
16738176 AACAAATTGA
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 39 0.60
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:16738182 original size:27 final size:27
Alignment explanation
Indices: 16738152--16738270 Score: 82
Period size: 27 Copynumber: 4.4 Consensus size: 27
16738142 GTAATTTTGT
*
16738152 AAATCAAGGGTATTTTGGTAATTTAAC
1 AAATCAAGGGTATTTTAGTAATTTAAC
** * * **
16738179 AAATTGAGGGTATTTCATTAATTTCTC
1 AAATCAAGGGTATTTTAGTAATTTAAC
* * *
16738206 AAA-CTAGTGGTATTTTGGTAATTCTATC
1 AAATCAAG-GGTATTTTAGTAATT-TAAC
* *
16738234 ATA-CAAGGGTATTTTAGTAATTTCAC
1 AAATCAAGGGTATTTTAGTAATTTAAC
*
16738260 -AATCGAGGGTA
1 AAATCAAGGGTA
16738271 AAGCGGTAAT
Statistics
Matches: 69, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
25 1 0.01
26 11 0.16
27 49 0.71
28 8 0.12
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
AAATCAAGGGTATTTTAGTAATTTAAC
Found at i:16738297 original size:27 final size:27
Alignment explanation
Indices: 16738260--16738564 Score: 358
Period size: 27 Copynumber: 11.3 Consensus size: 27
16738250 GTAATTTCAC
*
16738260 AATCGAGGGTAAAGCGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
16738287 AATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
16738314 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
**
16738341 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
16738368 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
**
16738395 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * * *
16738422 AATTGAGGGTAAGAGGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
16738449 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
16738476 AATCGAGGGTAAGAGGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
16738503 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
16738530 AATCGAGGCTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
16738557 AATTGAGG
1 AATCGAGG
16738565 TATTTCAGTA
Statistics
Matches: 233, Mismatches: 45, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 233 1.00
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:16738335 original size:54 final size:54
Alignment explanation
Indices: 16738260--16738564 Score: 394
Period size: 54 Copynumber: 5.6 Consensus size: 54
16738250 GTAATTTCAC
* * * * *
16738260 AATCGAGGGTAAAGCGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * *
16738314 AATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* *
16738368 AATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * * *
16738422 AATTGAGGGTAAGAGGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * * *
16738476 AATCGAGGGTAAGAGGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * *
16738530 AATCGAGGCTAAAACAGTAATTTTGTAAATTGAGG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGG
16738565 TATTTCAGTA
Statistics
Matches: 222, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 222 1.00
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
Found at i:16741008 original size:42 final size:42
Alignment explanation
Indices: 16740961--16741052 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
16740951 TGGCCCATAG
* ** *
16740961 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
16741003 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
16741045 GCCCATTT
1 GCCCATTT
16741053 TGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:16741260 original size:26 final size:26
Alignment explanation
Indices: 16741184--16741317 Score: 136
Period size: 25 Copynumber: 5.3 Consensus size: 26
16741174 CTGGAGGCCT
16741184 AGCCTCTTTT-AAT-AACT-GGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*** *
16741207 AGCCCTTTTTGGTAAACAGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* **
16741232 AGCCCTTTTTAATAAACCCGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
16741258 AG-CCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
16741283 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
16741309 AGCCCTTTT
1 AGCCCTTTT
16741318 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
22 5 0.05
23 5 0.05
24 3 0.03
25 46 0.50
26 33 0.36
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:16741291 original size:51 final size:51
Alignment explanation
Indices: 16741201--16741317 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
16741191 TTTAATAACT
* *
16741201 GGGCA-AAGCCCTTTTTGGTAAACAGGGGCAAAGCCCTTTTTAATAAACCC
1 GGGCATAAGCCCTTTTCGGTAAACAGGGGCAAAGCCCTTTTCAATAAACCC
* **
16741251 GGGCATAAG-CCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTG
1 GGGCATAAGCCCTTTTCGGTAAACAGGGGCA-AAGCCCTTTTCAATAAACCC
16741302 GGGCATAAGCCCTTTT
1 GGGCATAAGCCCTTTT
16741318 GCACTTCCTC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 24 0.41
51 29 0.49
52 6 0.10
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (51 bp):
GGGCATAAGCCCTTTTCGGTAAACAGGGGCAAAGCCCTTTTCAATAAACCC
Found at i:16741392 original size:20 final size:19
Alignment explanation
Indices: 16741367--16741429 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
16741357 TGATGAATAC
16741367 ATCATGTGCATTTCATACAT
1 ATCATGTGCA-TTCATACAT
16741387 ATCATGTGCA-T--TACAT
1 ATCATGTGCATTCATACAT
16741403 ATCATGTGCATATCATATCA-
1 ATCATGTGCAT-TCATA-CAT
16741423 ATCATGT
1 ATCATGT
16741430 ATATCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.39
18 2 0.05
20 19 0.50
21 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATGTGCATTCATACAT
Found at i:16741403 original size:16 final size:15
Alignment explanation
Indices: 16741380--16741422 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
16741370 ATGTGCATTT
16741380 CATACATATCATGTG
1 CATACATATCATGTG
16741395 CATTACATATCATGTG
1 CA-TACATATCATGTG
16741411 CATATCATATCA
1 CATA-CATATCA
16741423 ATCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (15 bp):
CATACATATCATGTG
Found at i:16741928 original size:12 final size:13
Alignment explanation
Indices: 16741906--16741934 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16741896 AAGTTTTATT
16741906 TTTATTTTATTTA
1 TTTATTTTATTTA
16741919 TTTA-TTTATTTA
1 TTTATTTTATTTA
16741931 TTTA
1 TTTA
16741935 CTTAGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:16743261 original size:27 final size:27
Alignment explanation
Indices: 16743231--16743337 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
16743221 GTAAATCTAC
16743231 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* * **
16743258 AAACCAATGGTATTCCTA-TAATTTTAAA
1 AAACCAAGGGTATTTC-AGTAATTTT-GT
* * *
16743286 AAAGTCAAAGGTATTTCTGTAATTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTGT
* **
16743314 AAATCAAGGGTATTTTGGTAATTT
1 AAACCAAGGGTATTTCAGTAATTT
16743338 AACAAATTGA
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
27 39 0.62
28 7 0.11
29 17 0.27
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:16743344 original size:27 final size:27
Alignment explanation
Indices: 16743229--16743432 Score: 85
Period size: 27 Copynumber: 7.5 Consensus size: 27
16743219 TGGTAAATCT
* * *
16743229 ACAAACCAAGGGTATTTCAGTAATTTT
1 ACAAATCAAGGGTATTTTAGTAATTTA
** * * *
16743256 GTAAACCAATGGTATTCCTA-TAATTTTA
1 ACAAATCAAGGGTATT-TTAGTAA-TTTA
* * *
16743284 AAAAAGTCAAAGGTATTTCT-GTAATTTT
1 ACAAA-TCAAGGGTATTT-TAGTAATTTA
** *
16743312 GTAAATCAAGGGTATTTTGGTAATTTA
1 ACAAATCAAGGGTATTTTAGTAATTTA
** * * *
16743339 ACAAATTGAGGGTATTTCATTAATTTC
1 ACAAATCAAGGGTATTTTAGTAATTTA
* * *
16743366 TCAAA-CTAGTGGTATTTTGGTAATTCTA
1 ACAAATCAAG-GGTATTTTAGTAATT-TA
* * *
16743394 TCATA-CAAGGGTATTTTAGTAATTTC
1 ACAAATCAAGGGTATTTTAGTAATTTA
*
16743420 AC-AATCGAGGGTA
1 ACAAATCAAGGGTA
16743433 AAGCGGTAAT
Statistics
Matches: 130, Mismatches: 38, Indels: 19
0.70 0.20 0.10
Matches are distributed among these distances:
25 1 0.01
26 12 0.09
27 83 0.64
28 21 0.16
29 13 0.10
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (27 bp):
ACAAATCAAGGGTATTTTAGTAATTTA
Found at i:16743459 original size:27 final size:27
Alignment explanation
Indices: 16743422--16743720 Score: 348
Period size: 27 Copynumber: 11.1 Consensus size: 27
16743412 GTAATTTCAC
*
16743422 AATCGAGGGTAAAGCGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
16743449 AATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
16743476 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
**
16743503 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
16743530 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
**
16743557 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * * *
16743584 AATTGAGGGTAAGAGGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
16743611 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
16743638 AATCGAGGGTAAGAGGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
16743665 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
16743692 AATCGAGGCTAAAACAGTAA-TTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
16743718 AAT
1 AAT
16743721 TGAAGGTATT
Statistics
Matches: 228, Mismatches: 44, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
26 8 0.04
27 220 0.96
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:16743497 original size:54 final size:54
Alignment explanation
Indices: 16743422--16743720 Score: 393
Period size: 54 Copynumber: 5.6 Consensus size: 54
16743412 GTAATTTCAC
* * * * *
16743422 AATCGAGGGTAAAGCGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * *
16743476 AATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* *
16743530 AATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * * *
16743584 AATTGAGGGTAAGAGGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* * * * *
16743638 AATCGAGGGTAAGAGGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
* *
16743692 AATCGAGGCTAAAACAGTAATT-TGTAAAT
1 AATCGAGGGTAAAACGGTAATTCTGTAAAT
16743721 TGAAGGTATT
Statistics
Matches: 217, Mismatches: 28, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
53 7 0.03
54 210 0.97
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTA
Found at i:16746176 original size:42 final size:42
Alignment explanation
Indices: 16746129--16746220 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
16746119 TGGCCCATAG
* ** *
16746129 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
16746171 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
16746213 GCCCATTT
1 GCCCATTT
16746221 TGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:16746429 original size:26 final size:26
Alignment explanation
Indices: 16746353--16746487 Score: 145
Period size: 26 Copynumber: 5.3 Consensus size: 26
16746343 CTGGAGGCCT
16746353 AGCCTCTTTT-AAT-AACT-GGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
16746376 AGCCCTTTTCGGTAAACAGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* **
16746401 AGCCCTTTTTAATAAACCCGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
16746427 AGCCCTTTTCGGTAAACTGGGGCACA
1 AGCCCTTTTCAATAAACTGGGGCATA
16746453 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
16746479 AGCCCTTTT
1 AGCCCTTTT
16746488 GCACTTCCTC
Statistics
Matches: 91, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
22 5 0.05
23 5 0.05
24 3 0.03
25 25 0.27
26 53 0.58
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:16746478 original size:52 final size:49
Alignment explanation
Indices: 16746353--16746487 Score: 184
Period size: 51 Copynumber: 2.7 Consensus size: 49
16746343 CTGGAGGCCT
16746353 AGCCTCTTTTAAT-AACTGGGCA-AAGCCCTTTTCGGTAAACAGGGGCAA
1 AGCC-CTTTTAATAAACTGGGCATAAGCCCTTTTCGGTAAACAGGGGCAA
* *
16746401 AGCCCTTTTTAATAAACCCGGGCATAAGCCCTTTTCGGTAAACTGGGGCACA
1 AGCCC-TTTTAATAAA-CTGGGCATAAGCCCTTTTCGGTAAACAGGGGCA-A
16746453 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTT-AATAAACT-GGGCATAAGCCCTTTT
16746488 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
47 1 0.01
48 11 0.14
49 2 0.03
50 6 0.08
51 29 0.38
52 28 0.36
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (49 bp):
AGCCCTTTTAATAAACTGGGCATAAGCCCTTTTCGGTAAACAGGGGCAA
Found at i:16746562 original size:20 final size:19
Alignment explanation
Indices: 16746537--16746599 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
16746527 TTATGAATAC
16746537 ATCATGTGCATTTCATACAT
1 ATCATGTGCA-TTCATACAT
16746557 ATCATGTGCA-T--TACAT
1 ATCATGTGCATTCATACAT
16746573 ATCATGTGCATATCATATCA-
1 ATCATGTGCAT-TCATA-CAT
16746593 ATCATGT
1 ATCATGT
16746600 ATATCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
16 15 0.39
18 2 0.05
20 19 0.50
21 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATGTGCATTCATACAT
Found at i:16746573 original size:16 final size:15
Alignment explanation
Indices: 16746550--16746592 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
16746540 ATGTGCATTT
16746550 CATACATATCATGTG
1 CATACATATCATGTG
16746565 CATTACATATCATGTG
1 CA-TACATATCATGTG
16746581 CATATCATATCA
1 CATA-CATATCA
16746593 ATCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (15 bp):
CATACATATCATGTG
Found at i:16746886 original size:27 final size:27
Alignment explanation
Indices: 16746834--16747111 Score: 290
Period size: 27 Copynumber: 10.3 Consensus size: 27
16746824 ATGGGCTCTA
** * *
16746834 CGAGGGTAAAACAGTAATTTTATAAAT
1 CGAGGGTAAAATGGTAATTCTGTAAAT
*
16746861 CGAAGGTGAAAA-GGTAATTCTGTAAAT
1 CGAGGGT-AAAATGGTAATTCTGTAAAT
* *
16746888 CGAGGGTAAAATGGTAATTTTATAAAT
1 CGAGGGTAAAATGGTAATTCTGTAAAT
*
16746915 CGAGGGTAAAATGGTAATTCTATAAAT
1 CGAGGGTAAAATGGTAATTCTGTAAAT
** *
16746942 CGAGGGTAAAATAATAATTTTGTAAAT
1 CGAGGGTAAAATGGTAATTCTGTAAAT
* *
16746969 CGAGGGTAAAACGATAATTCTGTAAAT
1 CGAGGGTAAAATGGTAATTCTGTAAAT
* ** *
16746996 TGAGGGTAAAACAGTAATTTTGTAAAT
1 CGAGGGTAAAATGGTAATTCTGTAAAT
* * *
16747023 CCAGGGTAAGAGGGTAATTCTGTAAAT
1 CGAGGGTAAAATGGTAATTCTGTAAAT
* * *
16747050 CGATGGTAAAATAGTAATTCTTTAAAT
1 CGAGGGTAAAATGGTAATTCTGTAAAT
***
16747077 CGAGGGTAAAACAATAATTCTGTAAA-
1 CGAGGGTAAAATGGTAATTCTGTAAAT
16747103 CTGAGGGTA
1 C-GAGGGTA
16747112 TTTCGATAAT
Statistics
Matches: 213, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 5 0.02
27 204 0.96
28 4 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
CGAGGGTAAAATGGTAATTCTGTAAAT
Found at i:16746916 original size:54 final size:54
Alignment explanation
Indices: 16746834--16747111 Score: 355
Period size: 54 Copynumber: 5.1 Consensus size: 54
16746824 ATGGGCTCTA
* *
16746834 CGAGGGTAAAACAGTAATTTTATAAATCGAAGGTGAAAA-GGTAATTCTGTAAAT
1 CGAGGGTAAAATAGTAATTTTATAAATCGAGGGT-AAAACGGTAATTCTGTAAAT
* * *
16746888 CGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAAT
1 CGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAAT
* * *
16746942 CGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAAT
1 CGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAAT
* * * * * *
16746996 TGAGGGTAAAACAGTAATTTTGTAAATCCAGGGTAAGAGGGTAATTCTGTAAAT
1 CGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAAT
* **
16747050 CGATGGTAAAATAGTAATTCTT-TAAATCGAGGGTAAAACAATAATTCTGTAAA-
1 CGAGGGTAAAATAGTAATT-TTATAAATCGAGGGTAAAACGGTAATTCTGTAAAT
16747103 CTGAGGGTA
1 C-GAGGGTA
16747112 TTTCGATAAT
Statistics
Matches: 195, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
53 5 0.03
54 188 0.96
55 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (54 bp):
CGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAAT
Found at i:16747135 original size:27 final size:27
Alignment explanation
Indices: 16747105--16747202 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
16747095 TCTGTAAACT
*
16747105 GAGGGTATTTCGATAATTTTACAAATC
1 GAGGGTATTTCGGTAATTTTACAAATC
* * *
16747132 GAGGATATTTGGGTAATTTTATAAATC
1 GAGGGTATTTCGGTAATTTTACAAATC
* * *
16747159 GGGGGTACTT-GGTAATTTTACAACT-
1 GAGGGTATTTCGGTAATTTTACAAATC
*
16747184 GGGGGTATTTCAGG-AATTT
1 GAGGGTATTTC-GGTAATTT
16747203 GGTAAACTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
25 9 0.15
26 18 0.31
27 32 0.54
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.38
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTACAAATC
Found at i:16751894 original size:26 final size:26
Alignment explanation
Indices: 16751857--16751940 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
16751847 TGATACAAAT
* *
16751857 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
16751883 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
16751909 CGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
16751935 TGATAA
1 TGATAA
16751941 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:16753973 original size:137 final size:137
Alignment explanation
Indices: 16753726--16754012 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
16753716 GAGTAGTCTC
16753726 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
16753791 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
16753856 ACTGTTA
131 ACTGTTA
*
16753863 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAT
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
16753928 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
16753993 ACTGTTA
131 ACTGTTA
**
16754000 CCTGAATGGGCTT
1 CCCAAATGGGCTT
16754013 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:16757818 original size:26 final size:26
Alignment explanation
Indices: 16757781--16757864 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
16757771 TGATACAAAT
* *
16757781 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
16757807 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
16757833 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
16757859 TGATAA
1 TGATAA
16757865 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:16759878 original size:137 final size:137
Alignment explanation
Indices: 16759632--16759915 Score: 505
Period size: 137 Copynumber: 2.1 Consensus size: 137
16759622 TAGTCTCCAT
*
16759632 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTACTTTGAAATGGGCCTATGGGCCATACTGT
16759697 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
16759762 GTTACCC
131 GTTACCC
**
16759769 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTACTTTGAAATGGGCCTATGGGCTGTACTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTACTTTGAAATGGGCCTATGGGCCATACTGT
* *
16759834 TATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
*
16759899 GTTACCT
131 GTTACCC
*
16759906 GAATGGGCTT
1 AAATGGGCTT
16759916 AGGCCCAATG
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 140 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
AAATGGGCTTGCATATGTTTACTGATGTTGCATGTACTTTGAAATGGGCCTATGGGCCATACTGT
TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACT
GTTACCC
Found at i:16764953 original size:18 final size:18
Alignment explanation
Indices: 16764932--16764969 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16764922 AAAGGATTAC
16764932 TACTGAACGAA-TAATTGT
1 TACTGAA-GAACTAATTGT
*
16764950 TACTGAATAACTAATTGT
1 TACTGAAGAACTAATTGT
16764968 TA
1 TA
16764970 TCAAATGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
TACTGAAGAACTAATTGT
Found at i:16771877 original size:6 final size:6
Alignment explanation
Indices: 16771866--16771902 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
16771856 GTGTACCCTT
* *
16771866 CTGTTA CTGTTA CTGTTA CTATTA CTGTTA CCGTTA C
1 CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA C
16771903 GGTGTATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (6 bp):
CTGTTA
Found at i:16771881 original size:53 final size:51
Alignment explanation
Indices: 16771775--16771882 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
16771765 CTACTATGAT
*
16771775 TGTTCCGGATTCGTTCCGAAGAGGTACTCTGTACCTGACTGTTATTGTTAC
1 TGTTCCGGATTCGTTCCGAAGAGGTACTCTGTACCTGACTGTTACTGTTAC
* * * * *
16771826 TGTTCTGGATTTGTTCTGATGAGGTACTCTGTGTACCCT-TCTGTTACTGTTAC
1 TGTTCCGGATTCGTTCCGAAGAGGTACTC--TGTA-CCTGACTGTTACTGTTAC
16771879 TGTT
1 TGTT
16771883 ACTATTACTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
51 25 0.52
53 20 0.42
54 3 0.06
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (51 bp):
TGTTCCGGATTCGTTCCGAAGAGGTACTCTGTACCTGACTGTTACTGTTAC
Found at i:16772175 original size:18 final size:18
Alignment explanation
Indices: 16772154--16772204 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
16772144 AAAGGATTAC
16772154 TACTGAACGAA-TAATTGT
1 TACTGAA-GAACTAATTGT
*
16772172 TACTGAATAACTAATTGT
1 TACTGAAGAACTAATTGT
*
16772190 TA-TCGAATAACTAAT
1 TACT-GAAGAACTAAT
16772205 AGTTTGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.10
18 27 0.90
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TACTGAAGAACTAATTGT
Found at i:16772792 original size:19 final size:19
Alignment explanation
Indices: 16772746--16772793 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
16772736 GTATATATTT
16772746 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
16772764 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
16772783 TAAGTTTTATT
1 TAAATTTTATT
16772794 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:16772869 original size:42 final size:42
Alignment explanation
Indices: 16772810--16772898 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
16772800 CTAGGAATAT
* *
16772810 TTTTATTTTATCTTTTAGTAGTTTATTAGAAGAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
*
16772852 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
16772894 TTTTC
1 TTTTC
16772899 CTAATTAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
Found at i:16781094 original size:21 final size:21
Alignment explanation
Indices: 16781070--16781111 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16781060 TCATCAGATC
*
16781070 TACACCTTGAGGCATCAGGGG
1 TACACCTTGAGGAATCAGGGG
**
16781091 TACAGGTTGAGGAATCAGGGG
1 TACACCTTGAGGAATCAGGGG
16781112 AGGTAGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.38, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCAGGGG
Found at i:16785457 original size:42 final size:42
Alignment explanation
Indices: 16785398--16785485 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
16785388 CTAGGAATAT
*
16785398 TTTTATTTTATCTTTTAGTAGTTTATTAGAAGAAGGGAACTA
1 TTTTATTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
* *
16785440 TTTTGTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTATTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
16785482 TTTT
1 TTTT
16785486 CCCAATTAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (42 bp):
TTTTATTTTATATTTTAGTAGTTTATTAGAAGAAGGGAACTA
Found at i:16787342 original size:24 final size:23
Alignment explanation
Indices: 16787298--16787342 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
16787288 CTTGTAAATG
* *
16787298 TTTAGAACTAAATTTATTGAATT
1 TTTAGAACTAAATTAAATGAATT
*
16787321 TTTAGAATTAAAATTAAATGAA
1 TTTAGAACT-AAATTAAATGAA
16787343 AAAAATTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (23 bp):
TTTAGAACTAAATTAAATGAATT
Found at i:16789387 original size:6 final size:6
Alignment explanation
Indices: 16789376--16789406 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
16789366 GTATTTATGT
16789376 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA A
16789407 TGGTTTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:16800770 original size:20 final size:21
Alignment explanation
Indices: 16800729--16800772 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
16800719 TATTCGTAGC
16800729 TTTCATTAATTGTTAATTTAT
1 TTTCATTAATTGTTAATTTAT
*
16800750 TTTCATTAATT-TTAGTTTAT
1 TTTCATTAATTGTTAATTTAT
16800770 TTT
1 TTT
16800773 ATGATCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTCATTAATTGTTAATTTAT
Found at i:16817966 original size:40 final size:41
Alignment explanation
Indices: 16817916--16818178 Score: 238
Period size: 40 Copynumber: 6.6 Consensus size: 41
16817906 TTGAATGCTG
* * * *
16817916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-AAGATGATTAAA
** * * * *
16817956 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGAT-ACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCAAGATGATTAAA
*
16817996 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTG-TTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGATGATTAAA
* *
16818036 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGATGATTAAA
* *
16818076 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG-TTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGATGATTAAA
* ** * *
16818116 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAG-TTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGATGATTAAA
* * *
16818155 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16818179 TGAACGAGGA
Statistics
Matches: 195, Mismatches: 20, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 34 0.17
40 150 0.77
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGATGATTAAA
Found at i:16818053 original size:80 final size:80
Alignment explanation
Indices: 16817916--16818178 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
16817906 TTGAATGCTG
* * * **
16817916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGACTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
16817978 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
16817996 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
16818061 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
16818076 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
16818140 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
16818155 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
16818179 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
79 36 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:16818130 original size:120 final size:120
Alignment explanation
Indices: 16817916--16818178 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 120
16817906 TTGAATGCTG
* * *
16817916 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* **
16817980 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCAAGTTACTAAA
* * * * **
16818036 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * **
16818099 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCAAGTTACTAAA
* *
16818155 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
16818179 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
119 33 0.28
120 81 0.68
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCAAGTTACTAAA
Found at i:16818198 original size:79 final size:80
Alignment explanation
Indices: 16817969--16818213 Score: 251
Period size: 80 Copynumber: 3.1 Consensus size: 80
16817959 GGACTAAGAT
* * * * * ** * ** *
16817969 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
16818034 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * * ** ** *
16818049 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
16818114 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
16818129 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
16818193 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
16818207 CCGAAGG
1 CCGAAGG
16818214 TATGTGATTT
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
78 14 0.10
79 46 0.32
80 85 0.59
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:16825928 original size:40 final size:40
Alignment explanation
Indices: 16825884--16825988 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
16825874 AAGTGAATAT
* *
16825884 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGATTAAG-TCCCGAAGGCATTCGTGCGAGATACTAA
* * *
16825924 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
** *
16825964 ATCCGGGCTATGTCCCGAAGGCATT
1 ATCCGGATTAAGTCCCGAAGGCATT
16825989 TGAACGAGGA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 56 0.98
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
Found at i:16832784 original size:25 final size:25
Alignment explanation
Indices: 16832749--16832800 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
16832739 TTTATAGGCT
*
16832749 TTGGAATGCCTAAGAACCCTCAAAA
1 TTGGAACGCCTAAGAACCCTCAAAA
*
16832774 TTGGAACGCCTAAGAACCCTTAAAA
1 TTGGAACGCCTAAGAACCCTCAAAA
16832799 TT
1 TT
16832801 AGCCTTTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (25 bp):
TTGGAACGCCTAAGAACCCTCAAAA
Found at i:16835065 original size:16 final size:16
Alignment explanation
Indices: 16835044--16835076 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16835034 TCACGTTTTC
16835044 AAATCAATTTAATATA
1 AAATCAATTTAATATA
16835060 AAATCAATTTAATATA
1 AAATCAATTTAATATA
16835076 A
1 A
16835077 CATTGATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATCAATTTAATATA
Found at i:16835936 original size:13 final size:13
Alignment explanation
Indices: 16835918--16835942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16835908 AATAAGGTTA
16835918 AACATGTAATAAT
1 AACATGTAATAAT
16835931 AACATGTAATAA
1 AACATGTAATAA
16835943 AAAAACATAT
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:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AACATGTAATAAT
Found at i:16852507 original size:94 final size:94
Alignment explanation
Indices: 16852340--16852797 Score: 501
Period size: 94 Copynumber: 4.9 Consensus size: 94
16852330 TGATTTGTGC
* *
16852340 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAT-TATGATAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-AGCTCATCTATGATAGCCAGTGTAAGACCATGT
* * *
16852404 CTGGAACATGGCATCGGCATCA-AGACGAGG
65 CTGGGACATGGCATCGGCAT-AGAGATGAGT
*
16852434 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-TCATTCTATGATAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCA-TCTATGATAGCCAGTGTAAGACCATGT
* *
16852498 CTGGGACATGGCATCGGCACAGAGTTGAGT
65 CTGGGACATGGCATCGGCATAGAGATGAGT
* * * *
16852528 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAC-AGAGATAGCCAGTGTAAGACTATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTCATCTA-TGATAGCCAGTGTAAGACCATG
*
16852592 TCTGGGACAT-GCAATTGGCATAGAGATGAGT
64 TCTGGGACATGGC-ATCGGCATAGAGATGAGT
* * * *
16852623 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGA-C-AGGGATAGCCAGTGTAAGA-CGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTC-ATCTA-TGATAGCCAGTGTAAGACCAT
* *
16852685 GTCTGGGACA-CGCATTGGC-TA-AGA-GATGT
63 GTCTGGGACATGGCATCGGCATAGAGATGA-GT
* * * * *
16852714 GCTAGTGTAAGACAT-TCTGGGACATGCATCAGCACGCTTATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG--CTCATCTATGATAGCCAGTGTAAGACCATG
16852778 TCTGGGACATGGCATCGGCA
64 TCTGGGACATGGCATCGGCA
16852798 ATATATCCCA
Statistics
Matches: 316, Mismatches: 32, Indels: 32
0.83 0.08 0.08
Matches are distributed among these distances:
90 17 0.05
91 36 0.11
92 17 0.05
93 16 0.05
94 125 0.40
95 101 0.32
96 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCATCTATGATAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATAGAGATGAGT
Found at i:16852803 original size:47 final size:45
Alignment explanation
Indices: 16852340--16852803 Score: 332
Period size: 47 Copynumber: 9.9 Consensus size: 45
16852330 TGATTTGTGC
* *
16852340 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAT-TATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-GCA-ATATATGAGA
* * * *
16852386 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGC-ATCAAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAAT--ATATGAGA
* * * * *
16852434 GCTAGTGTAAGACATGTCTGGGACATGCATCAGTCATTCTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCAATATATGAGA
* *
16852480 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGT-TGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-ATA-TATGAGA
* * *
16852528 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG---CAATATATGAGA
* * * *
16852575 GCCAGTGTAAGACTATGTCTGGGACATGCAATTGGCATAGAGATGAGT
1 GCCAGTGTAAGAC-ATGTCTGGGACATGC-ATCGGCA-ATATATGAGA
* * * * *
16852623 GCCAGTGTAAGACATGTTTGGGACATGCATCGGC-CTCGACAGGGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAAT--ATA-TGAGA
* * * * * *
16852670 GCCAGTGTAAGACGTGTCTGGGACACGCATTGGCTA-AGA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAATATATGA-GA
* * *
16852714 GCTAGTGTAAGACAT-TCTGGGACATGCATCAGCACGCTTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA---ATATATGAGA
16852761 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATATAT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAATATAT
16852804 CCCATGTTGA
Statistics
Matches: 328, Mismatches: 58, Indels: 63
0.73 0.13 0.14
Matches are distributed among these distances:
43 17 0.05
44 13 0.04
45 4 0.01
46 47 0.14
47 144 0.44
48 78 0.24
49 17 0.05
50 8 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAATATATGAGA
Found at i:16854156 original size:874 final size:874
Alignment explanation
Indices: 16852976--16854718 Score: 3441
Period size: 874 Copynumber: 2.0 Consensus size: 874
16852966 GTAGATGATA
*
16852976 ATGAGTAAGTTAAATTATGTTTACCTTTGAGCTATAAGTATGATGAGTAATGATGAGATTGTTGT
1 ATGAGTAAGTTAAATTATGTTTACCTTTGAGATATAAGTATGATGAGTAATGATGAGATTGTTGT
16853041 TGTATATTTATTTATATGCAACTTACTAAGCTTTACGCTTACCCTCTTTCATTTCTCTCTTCTTT
66 TGTATATTTATTTATATGCAACTTACTAAGCTTTACGCTTACCCTCTTTCATTTCTCTCTTCTTT
*
16853106 CAGTGTTATCAAGCTAACTTAAGGATCCCTTAAATTCAAAGATATCGATCACGCTATTGGCCGCA
131 CAGTGTTATCAAGCTAACTTAAGGATCCCTTAAATTCAAAGATATCGATCACGCTATTGACCGCA
16853171 ATACCTGGTATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTGT
196 ATACCTGGTATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTGT
16853236 ATTAAGAGAATGATTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTAATCAAGCTTGG
261 ATTAAGAGAATGATTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTAATCAAGCTTGG
16853301 AATAATGGCTATTATTCATTTTGATGAATGCATATAATGTCCTTTCTATGGATGAATTAGTGCCC
326 AATAATGGCTATTATTCATTTTGATGAATGCATATAATGTCCTTTCTATGGATGAATTAGTGCCC
16853366 TTTGTGATGAGATTTATATATTGAAATGATCTTGTGTAGGTTATGCAAAATGGGTAACAAAAAAG
391 TTTGTGATGAGATTTATATATTGAAATGATCTTGTGTAGGTTATGCAAAATGGGTAACAAAAAAG
16853431 GGCTTGGGAAATAGCCTAGTTTGTCCACATAGGTAAGACACACGGGCGTGTGTCTAGGCTGTGTG
456 GGCTTGGGAAATAGCCTAGTTTGTCCACATAGGTAAGACACACGGGCGTGTGTCTAGGCTGTGTG
16853496 TGACACACGGTTCTCACCCATGGGCGTGTGTTATGGTCGTGCGTCCCCTGCAGTTAAATTTTTAA
521 TGACACACGGTTCTCACCCATGGGCGTGTGTTATGGTCGTGCGTCCCCTGCAGTTAAATTTTTAA
16853561 AGTCATTTTACCACACGGGTAGGCCACACGGGCGTGTGCCCAGGCCATGTCATAAAGTCAGTATG
586 AGTCATTTTACCACACGGGTAGGCCACACGGGCGTGTGCCCAGGCCATGTCATAAAGTCAGTATG
16853626 CATGCTTGTAGCACATGGACAATAGACACGGCCTTGTGTAGCGGCCATGTGAAGGACACGGTTAT
651 CATGCTTGTAGCACATGGACAATAGACACGGCCTTGTGTAGCGGCCATGTGAAGGACACGGTTAT
16853691 AGGGCACGGGTGTGTTTGTGGGCCGTGTGGTTTTGGCAGAATGCTTATGATTTCAGACACAGGTC
716 AGGGCACGGGTGTGTTTGTGGGCCGTGTGGTTTTGGCAGAATGCTTATGATTTCAGACACAGGTC
*
16853756 CGGGACACGGGCGTGTCCCTGGCACACGGTCGTGTGTTCTATACCCACACGGGCTTGTGGAATCT
781 CGGGACACGGGCGTGTCCCTGGCACACGGTCGTGTGTTCTATACCCACACGGGCGTGTGGAATCT
16853821 TGATGCACAAAAATTTTCTAAGTTAAATT
846 TGATGCACAAAAATTTTCTAAGTTAAATT
16853850 ATGAGTAAGTTAAATTATGTTTACCTTTGAGATATAAGTATGATGAGTAATGATGAGATTGTTGT
1 ATGAGTAAGTTAAATTATGTTTACCTTTGAGATATAAGTATGATGAGTAATGATGAGATTGTTGT
16853915 TGTATATTTATTTATATGCAACTTACTAAGCTTTACGCTTACCCTCTTTCATTTCTCTCTTCTTT
66 TGTATATTTATTTATATGCAACTTACTAAGCTTTACGCTTACCCTCTTTCATTTCTCTCTTCTTT
16853980 CAGTGTTATCAAGCTAACTTAAGGATCCCTTAAATTCAAAGATATCGATCACGCTATTGACCGCA
131 CAGTGTTATCAAGCTAACTTAAGGATCCCTTAAATTCAAAGATATCGATCACGCTATTGACCGCA
*
16854045 ATACCTGGTATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTTT
196 ATACCTGGTATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTGT
16854110 ATTAAGAGAATGATTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTAATCAAGCTTGG
261 ATTAAGAGAATGATTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTAATCAAGCTTGG
16854175 AATAATGGCTATTATTCATTTTGATGAATGCATATAATGTCCTTTCTATGGATGAATTAGTGCCC
326 AATAATGGCTATTATTCATTTTGATGAATGCATATAATGTCCTTTCTATGGATGAATTAGTGCCC
16854240 TTTGTGATGAGATTTATATATTGAAATGATCTTGTGTAGGTTATGCAAAATGGGTAACAAAAAAG
391 TTTGTGATGAGATTTATATATTGAAATGATCTTGTGTAGGTTATGCAAAATGGGTAACAAAAAAG
16854305 GGCTTGGGAAATAGCCTAGTTTGTCCACATAGGTAAGACACACGGGCGTGTGTCTAGGCTGTGTG
456 GGCTTGGGAAATAGCCTAGTTTGTCCACATAGGTAAGACACACGGGCGTGTGTCTAGGCTGTGTG
16854370 TGACACACGGTTCTCACCCATGGGCGTGTGTTATGGTCGTGCGTCCCCTGCAGTTAAATTTTTAA
521 TGACACACGGTTCTCACCCATGGGCGTGTGTTATGGTCGTGCGTCCCCTGCAGTTAAATTTTTAA
16854435 AGTCATTTTACCACACGGGTAGGCCACACGGGCGTGTGCCCAGGCCATGTCATAAAGTCAGTATG
586 AGTCATTTTACCACACGGGTAGGCCACACGGGCGTGTGCCCAGGCCATGTCATAAAGTCAGTATG
16854500 CATGCTTGTAGCACATGGACAATAGACACGGCCTTGTGTAGCGGCCATGTGAAGGACACGGTTAT
651 CATGCTTGTAGCACATGGACAATAGACACGGCCTTGTGTAGCGGCCATGTGAAGGACACGGTTAT
16854565 AGGGCACGGGTGTGTTTGTGGGCCGTGTGGTTTTGGCAGAATGCTTATGATTTCAGACACAGGTC
716 AGGGCACGGGTGTGTTTGTGGGCCGTGTGGTTTTGGCAGAATGCTTATGATTTCAGACACAGGTC
*
16854630 CGGGACACGGGCGTGTCCCTGGCACACGGTCGTGTGTTCTATACCTACACGGGCGTGTGGAATCT
781 CGGGACACGGGCGTGTCCCTGGCACACGGTCGTGTGTTCTATACCCACACGGGCGTGTGGAATCT
16854695 TGATGCACAAAAATTTTCTAAGTT
846 TGATGCACAAAAATTTTCTAAGTT
16854719 TTCTTAAGGT
Statistics
Matches: 864, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
874 864 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (874 bp):
ATGAGTAAGTTAAATTATGTTTACCTTTGAGATATAAGTATGATGAGTAATGATGAGATTGTTGT
TGTATATTTATTTATATGCAACTTACTAAGCTTTACGCTTACCCTCTTTCATTTCTCTCTTCTTT
CAGTGTTATCAAGCTAACTTAAGGATCCCTTAAATTCAAAGATATCGATCACGCTATTGACCGCA
ATACCTGGTATAGTTGGATTTATATTTTTGATGGTGGCATGTATAGGGCTAGACTAGGATGTTGT
ATTAAGAGAATGATTCATGTATTTTGGCTTAAGTCAAAGGCCCTTCATTTTGTAATCAAGCTTGG
AATAATGGCTATTATTCATTTTGATGAATGCATATAATGTCCTTTCTATGGATGAATTAGTGCCC
TTTGTGATGAGATTTATATATTGAAATGATCTTGTGTAGGTTATGCAAAATGGGTAACAAAAAAG
GGCTTGGGAAATAGCCTAGTTTGTCCACATAGGTAAGACACACGGGCGTGTGTCTAGGCTGTGTG
TGACACACGGTTCTCACCCATGGGCGTGTGTTATGGTCGTGCGTCCCCTGCAGTTAAATTTTTAA
AGTCATTTTACCACACGGGTAGGCCACACGGGCGTGTGCCCAGGCCATGTCATAAAGTCAGTATG
CATGCTTGTAGCACATGGACAATAGACACGGCCTTGTGTAGCGGCCATGTGAAGGACACGGTTAT
AGGGCACGGGTGTGTTTGTGGGCCGTGTGGTTTTGGCAGAATGCTTATGATTTCAGACACAGGTC
CGGGACACGGGCGTGTCCCTGGCACACGGTCGTGTGTTCTATACCCACACGGGCGTGTGGAATCT
TGATGCACAAAAATTTTCTAAGTTAAATT
Found at i:16864647 original size:40 final size:40
Alignment explanation
Indices: 16864600--16864845 Score: 402
Period size: 40 Copynumber: 6.2 Consensus size: 40
16864590 AACTAAGATT
* *
16864600 CGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
16864640 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
*
16864680 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
* * * * *
16864720 CAAAGGCATTTGTGCTAGTTACTATATCTGGACTAAGTCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
*
16864760 CGAAGGCATTTGTGCTAGTTGGTATATCCGGGCTAAATCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
*
16864800 CGAAGGCATTTGTGCTAGTTGCTGTATCCGGGCTAAATCC
1 CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
16864840 CGAAGG
1 CGAAGG
16864846 TACTTGGGTT
Statistics
Matches: 191, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 191 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (40 bp):
CGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAATCC
Found at i:16868330 original size:40 final size:40
Alignment explanation
Indices: 16868300--16868471 Score: 199
Period size: 40 Copynumber: 4.3 Consensus size: 40
16868290 GCTACTCGTT
* *
16868300 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
*
16868340 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
* *
16868380 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCC-GGTTATAGTAACTCGCA
* * * * *
16868420 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTA-TAGTAACTCGCA
16868459 CAAATGCCTTCGG
1 CAAATGCCTTCGG
16868472 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
38 1 0.01
39 30 0.25
40 84 0.71
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
Found at i:16868412 original size:80 final size:79
Alignment explanation
Indices: 16868300--16868524 Score: 267
Period size: 80 Copynumber: 2.8 Consensus size: 79
16868290 GCTACTCGTT
* * * *
16868300 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
16868365 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
16868380 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
16868444 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * *
16868459 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
16868522 GGA
63 GGA
16868525 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.02
79 54 0.43
80 65 0.52
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:16868484 original size:119 final size:120
Alignment explanation
Indices: 16868302--16868517 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 120
16868292 TACTCGTTCA
* *
16868302 AATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
16868367 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
* * **
16868422 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
16868484 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
16868518 GCCCGGACAT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 60 0.72
120 19 0.23
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
Found at i:16868508 original size:79 final size:79
Alignment explanation
Indices: 16868300--16868524 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 79
16868290 GCTACTCGTT
* * * * * * *
16868300 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
16868365 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
16868380 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
16868444 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * * *
16868459 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
16868523 GA
64 GA
16868525 CATCATTCGA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.02
79 59 0.48
80 58 0.47
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:16873466 original size:47 final size:45
Alignment explanation
Indices: 16873352--16873712 Score: 194
Period size: 47 Copynumber: 7.7 Consensus size: 45
16873342 CGATTTGTGC
* *
16873352 GCCAGTGTAAGA-CATGTCTGGGACATCCATCTGCCACAT-TATGATA-
1 GCCAGTGTAAGACCATGTCTGGGACATGCATC-G--ACATCCA-GATAG
* *
16873398 GCCAGTCTAAGACCATATCTGGGACATGGCATCGACATCCAGACTAGG
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACATCCAGA-TA-G
* * *
16873446 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCATACTATGATA-
1 GCCAGTGTAAGACCATGTCTGGGACATGCATC-GACAT-CCA-GATAG
* *
16873492 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CAGAGATGAG
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGACATC-CAGAT-AG
* *
16873539 TGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGACAGAGATA-
1 -GCCAGTGTAAGACCATGTCTGGGACATGCATCGACATC--C--AGATAG
* ** * *
16873587 GCCAGTGTAAGA-CGTGTCTTTGACATGCATC-AGC-T-AAGAGATG
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGA-CATCCAGATA-G
* *
16873630 TGCTAGTGTAAGA-CATGTCTGGGACATGCATC-AGCA-CGCATATATGAG
1 -GCCAGTGTAAGACCATGTCTGGGACATGCATCGA-CATC-C--AGAT-AG
*
16873678 AGCCAGTTTAAGACCATGTCTGGGACATGGCATCG
1 -GCCAGTGTAAGACCATGTCTGGGACAT-GCATCG
16873713 GTAATATATC
Statistics
Matches: 253, Mismatches: 30, Indels: 59
0.74 0.09 0.17
Matches are distributed among these distances:
41 4 0.02
44 30 0.12
45 10 0.04
46 41 0.16
47 92 0.36
48 49 0.19
49 18 0.07
50 9 0.04
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGACATCCAGATAG
Found at i:16873516 original size:94 final size:92
Alignment explanation
Indices: 16873355--16873712 Score: 381
Period size: 94 Copynumber: 3.8 Consensus size: 92
16873345 TTTGTGCGCC
* * * * * *
16873355 AGTGTAAGACATGTCTGGGACATCCATCTGCCACATTATGATAGCCAGTCTAAGACCATATCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
*
16873420 GACATGGCATCGACATCCAGACTAGGGCT
66 GACATGGCATCGACAT-CAGA-TAGTGCT
16873449 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* *
16873514 GACATGGCATCGGCACA-GAGATGAGTGCC
66 GACATGGCATC-G-ACATCAGAT-AGTGCT
* * *
16873543 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAC-AGAGATAGCCAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTA-TGATAGCCAGTGTAAGACCATGTC
** * *
16873605 TTTGACAT-GCATC-AGC-TAAGAGATGTGCT
63 TGGGACATGGCATCGA-CATCAGATA-GTGCT
* *
16873634 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATA-TATGAGAGCCAGTTTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGATAGCCAGTGTAAGACCATGTC
16873698 TGGGACATGGCATCG
63 TGGGACATGGCATCG
16873713 GTAATATATC
Statistics
Matches: 223, Mismatches: 24, Indels: 33
0.80 0.09 0.12
Matches are distributed among these distances:
90 2 0.01
91 37 0.17
92 14 0.06
93 21 0.09
94 126 0.57
95 20 0.09
96 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCAGATAGTGCT
Found at i:16873605 original size:141 final size:136
Alignment explanation
Indices: 16873352--16873713 Score: 374
Period size: 141 Copynumber: 2.6 Consensus size: 136
16873342 CGATTTGTGC
* * * *
16873352 GCCAGTGTAAGACATGTCTGGGACATCCATCTGCCACATTATGA-TAGCCAGTCTAAGACCATAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCACAATATGAGT-GCCAGTCTAAGACCATGT
* * *
16873416 CTGGGACATGGCATCGACATCCAGACTAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCC
64 CTGGGACATGGCATCGGCATCCAGAATA-GGCCAGTGTAAGACATGTCTGGGACATGCATCAG-C
**
16873481 ATACTATGAT-A
127 -TAAGA-GATGA
* *
16873492 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCAGTGTAAGA-CATG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACA-ATATGAGTGCCAGTCTAAGACCATG
* * **
16873556 TCTGGGACAT-GCATCGGCCTCGACAGAGATA-GCCAGTGTAAGACGTGTCTTTGACATGCATCA
63 TCTGGGACATGGCATCGGCATC--CAGA-ATAGGCCAGTGTAAGACATGTCTGGGACATGCATCA
*
16873619 GCTAAGAGATGT
125 GCTAAGAGATGA
* * * *
16873631 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCCAGTTTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CA-ATATGAGTGCCAGTCTAAGACCATG
16873696 TCTGGGACATGGCATCGG
63 TCTGGGACATGGCATCGG
16873714 TAATATATCC
Statistics
Matches: 188, Mismatches: 22, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
137 8 0.04
138 17 0.09
139 33 0.18
140 36 0.19
141 68 0.36
142 23 0.12
143 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (136 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAATATGAGTGCCAGTCTAAGACCATGTCT
GGGACATGGCATCGGCATCCAGAATAGGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTAAG
AGATGA
Found at i:16876695 original size:24 final size:24
Alignment explanation
Indices: 16876664--16876807 Score: 91
Period size: 24 Copynumber: 6.0 Consensus size: 24
16876654 TACCAATATA
* *
16876664 TCAGCTCGTAAGAGTTTACTGTTT
1 TCAGCTCGTAAGAGCTTACTGTTC
* * *
16876688 TCATCTCGTTAGAGCTTATTGTTC
1 TCAGCTCGTAAGAGCTTACTGTTC
*
16876712 TCAGCTCGTATGAGCTTACTGGTT-
1 TCAGCTCGTAAGAGCTTACT-GTTC
** * *
16876736 T-AGCTTATCAGAGCTTACCGTT-
1 TCAGCTCGTAAGAGCTTACTGTTC
* *
16876758 TCAGCTC-AATAGAGCTTACTGTCC
1 TCAGCTCGTA-AGAGCTTACTGTTC
*
16876782 ATAAGCTCAG-AAGGAGCTTACTGTTC
1 -TCAGCTC-GTAA-GAGCTTACTGTTC
16876808 ATAGCTCAAA
Statistics
Matches: 91, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
22 4 0.04
23 28 0.31
24 36 0.40
25 10 0.11
26 13 0.14
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (24 bp):
TCAGCTCGTAAGAGCTTACTGTTC
Found at i:16876749 original size:23 final size:24
Alignment explanation
Indices: 16876674--16876778 Score: 67
Period size: 23 Copynumber: 4.5 Consensus size: 24
16876664 TCAGCTCGTA
* * * **
16876674 AGAGTTTACTGTTTTCATCTCGTT
1 AGAGCTTACTGGTTTCAGCTCAAT
* *
16876698 AGAGCTTA-TTGTTCTCAGCTC-GT
1 AGAGCTTACTGGTT-TCAGCTCAAT
*
16876721 ATGAGCTTACTGGTTT-AGCT-TAT
1 A-GAGCTTACTGGTTTCAGCTCAAT
*
16876744 CAGAGCTTAC-CGTTTCAGCTCAAT
1 -AGAGCTTACTGGTTTCAGCTCAAT
16876768 AGAGCTTACTG
1 AGAGCTTACTG
16876779 TCCATAAGCT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
22 4 0.06
23 31 0.49
24 24 0.38
25 4 0.06
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
AGAGCTTACTGGTTTCAGCTCAAT
Found at i:16876885 original size:27 final size:27
Alignment explanation
Indices: 16876847--16876899 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
16876837 AATTGACAGA
16876847 GTACTGATGTATATCACCCGAGTATCT
1 GTACTGATGTATATCACCCGAGTATCT
16876874 GTACTGATGTATATCACCCGAGTATC
1 GTACTGATGTATATCACCCGAGTATC
16876900 CTTTGAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (27 bp):
GTACTGATGTATATCACCCGAGTATCT
Found at i:16886397 original size:43 final size:42
Alignment explanation
Indices: 16886251--16886398 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 42
16886241 TGAGACAACG
* *
16886251 TGTAAGACCGTGTCTGGGACACAGGCTTCG-ATTGAGATTTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-A-TTACA
** * *
16886294 -GATAAGACCATGTCTGGGACATC-GGCATCGTATTTTATTTCG
1 TG-TAAGACCATGTCTGGGACA-CAGGCATCGTATTGAATTACA
* * *
16886336 TGTAAGAACTTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAATTACA
*
16886379 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
16886399 GTCAACATTG
Statistics
Matches: 83, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
42 28 0.34
43 51 0.61
44 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGTATTGAATTACA
Found at i:16892766 original size:25 final size:25
Alignment explanation
Indices: 16892693--16892767 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
16892683 ATACATGTAT
* *
16892693 GCTCATATGAGCT-ATGAATAGGTAT
1 GCTCATACGAGCTGA-GAATAGGTAA
*
16892718 GCTC-TCACGAGCTGTA-AATCGGTAA
1 GCTCAT-ACGAGCTG-AGAATAGGTAA
*
16892743 GCTCATACGAGCTGAGAATTGGTAA
1 GCTCATACGAGCTGAGAATAGGTAA
16892768 CCCTAATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 2 0.05
25 37 0.90
26 1 0.02
27 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATAGGTAA
Found at i:16893847 original size:27 final size:26
Alignment explanation
Indices: 16893801--16893906 Score: 122
Period size: 27 Copynumber: 4.0 Consensus size: 26
16893791 CATGGCTGCT
* * *
16893801 AGAACAGATATTCTGACAGAGTCACC
1 AGAACAGATATTGTGGCAGAGCCACC
16893827 AGATACAGATATTGTGGCAGAGCCACC
1 AGA-ACAGATATTGTGGCAGAGCCACC
*
16893854 AGAACAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-TTGTGGCAGAGCCACC
* * *
16893881 AGAAATAGATAATGTGGCAAAGCCAC
1 AG-AACAGATATTGTGGCAGAGCCAC
16893907 TTAACAGAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 10 0.14
27 53 0.76
28 7 0.10
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACC
Found at i:16894262 original size:27 final size:26
Alignment explanation
Indices: 16894210--16894288 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
16894200 TCGATCGGTC
* * *
16894210 AACAGATATTGTGACAAAGTCGCCAG
1 AACAGATATTGTGGCAAAGCCACCAG
* *
16894236 ATATAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
16894263 AACAGATATTTGTGGCATAGCCACCA
1 AACAGATA-TTGTGGCAAAGCCACCA
16894289 AAACGCTTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 7 0.16
27 37 0.84
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:16894610 original size:27 final size:27
Alignment explanation
Indices: 16894516--16894630 Score: 158
Period size: 27 Copynumber: 4.3 Consensus size: 27
16894506 GAGGTAAAAT
* * *
16894516 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
16894543 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16894570 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16894597 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16894624 AGTAATT
1 GGTAATT
16894631 TGGTAAACGA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:16906096 original size:37 final size:37
Alignment explanation
Indices: 16906046--16906124 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
16906036 TTATTACGAA
* *
16906046 GTCTTACCCGGACATAATCCCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
16906083 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
16906120 GTCTT
1 GTCTT
16906125 TAGAGCTCGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:16906321 original size:47 final size:47
Alignment explanation
Indices: 16906243--16906778 Score: 883
Period size: 47 Copynumber: 11.2 Consensus size: 47
16906233 CCCTTCGGGA
* * * * * *
16906243 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16906290 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16906337 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16906386 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16906435 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16906482 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16906529 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16906578 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16906625 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16906672 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16906721 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16906768 CTTATCACATA
1 CTTATCACATA
16906779 GAATCCTAAA
Statistics
Matches: 464, Mismatches: 19, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 276 0.59
49 188 0.41
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16906447 original size:96 final size:94
Alignment explanation
Indices: 16906243--16906778 Score: 883
Period size: 96 Copynumber: 5.6 Consensus size: 94
16906233 CCCTTCGGGA
* * * * * * * *
16906243 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
16906308 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
16906337 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
16906402 ACACTTTCACATTCATCACATCGGCTATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
16906435 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
16906500 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
16906529 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
16906594 ACTTTCACATTTATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
16906625 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
16906690 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
16906721 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
16906779 GAATCCTAAA
Statistics
Matches: 418, Mismatches: 16, Indels: 16
0.93 0.04 0.04
Matches are distributed among these distances:
94 104 0.25
96 268 0.64
98 46 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:16906534 original size:143 final size:143
Alignment explanation
Indices: 16906243--16906778 Score: 950
Period size: 143 Copynumber: 3.7 Consensus size: 143
16906233 CCCTTCGGGA
* * * * * * *
16906243 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
16906306 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTTATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
16906371 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
*
16906386 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
16906451 ACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
16906516 TCGGCCATTAGGC
131 TCGGCCATTAGGC
16906529 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
16906594 ACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
16906659 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
16906672 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
16906737 ACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATA
66 ACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATA
16906779 GAATCCTAAA
Statistics
Matches: 380, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
143 297 0.78
144 1 0.00
145 82 0.22
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:16909712 original size:40 final size:40
Alignment explanation
Indices: 16909668--16910049 Score: 339
Period size: 40 Copynumber: 9.6 Consensus size: 40
16909658 CCAGCATGAT
* * * * *
16909668 TGCTCTTCGGGACCTAGCCCGAATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
16909708 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
16909748 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
16909788 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
16909828 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * * *
16909868 TGCTCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * ** * * *
16909909 TGC-CTTCGTGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * * *
16909949 TGC-CTTCGGG-CTTAGCCCGGAATTA-GTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGG-A-TACATCACTAGCACGAA
* **
16909988 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
*
16910028 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
16910050 CATCATTCGA
Statistics
Matches: 292, Mismatches: 41, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
38 4 0.01
39 29 0.10
40 238 0.82
41 21 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:16909916 original size:120 final size:117
Alignment explanation
Indices: 16909672--16910049 Score: 377
Period size: 120 Copynumber: 3.2 Consensus size: 117
16909662 CATGATTGCT
* * * * * *
16909672 CTTCGGGACCTAGCCCGAATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATATC
1 CTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTC-GGGCTTAGCCCGGATA-ATC
* **
16909737 ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
64 ACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
16909791 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAT
1 -CTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGG-GCTTAGCCCGGATA-AT
* * * *
16909856 CACTAGCATGAATGCTCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
63 CACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * * * *
16909912 CTTCGTGACTTAACCCGGATTTAGTAACTCGCACCAATGC-CTTCGGGCTTAGCCCGGAATTAGT
1 CTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGGCTTAGCCCGG-A-TAAT
* * * * *
16909976 AACTCGCACAAATGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GC
63 CACTAGCACGAATGCTCTTCGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
16910031 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
16910050 CATCATTCGA
Statistics
Matches: 214, Mismatches: 36, Indels: 17
0.80 0.13 0.06
Matches are distributed among these distances:
118 3 0.01
119 51 0.24
120 131 0.61
121 29 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (117 bp):
CTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGCTTAGCCCGGATAATCAC
TAGCACGAATGCTCTTCGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:16911955 original size:37 final size:37
Alignment explanation
Indices: 16911905--16911983 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
16911895 TTATTACGAA
* * *
16911905 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
16911942 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
16911979 GTCTT
1 GTCTT
16911984 TAGAGCTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:16912180 original size:47 final size:47
Alignment explanation
Indices: 16912102--16912445 Score: 535
Period size: 47 Copynumber: 7.2 Consensus size: 47
16912092 CCCTTCGGGA
* * * * * *
16912102 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16912149 CGTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16912196 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16912243 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16912292 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16912339 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16912388 CTTATCACATATATACACTTTCACATTTATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16912435 CTTATCACATA
1 CTTATCACATA
16912446 GAATCCTAAA
Statistics
Matches: 277, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 186 0.67
49 91 0.33
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16912299 original size:96 final size:96
Alignment explanation
Indices: 16912102--16912445 Score: 566
Period size: 96 Copynumber: 3.6 Consensus size: 96
16912092 CCCTTCGGGA
* * * * * * * *
16912102 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCGTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
16912165 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
16912196 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
16912261 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
*
16912292 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
16912357 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCTATTAGGC
* *
16912388 CTTATCACATATATACACTTTCACATTTATCACATCGGCTATTAGGCCTTATCACATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
16912446 GAATCCTAAA
Statistics
Matches: 237, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
94 47 0.20
96 190 0.80
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:16912400 original size:143 final size:141
Alignment explanation
Indices: 16912102--16912445 Score: 544
Period size: 143 Copynumber: 2.4 Consensus size: 141
16912092 CCCTTCGGGA
* * * * * * * * *
16912102 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCGTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
16912167 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
16912232 GGCCATTAGGC
131 GGCCATTAGGC
16912243 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
*
16912308 ACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
16912373 CATCGGCTATTAGGC
127 CATCGGCCATTAGGC
*
16912388 CTTATCACATATATACACTTTCACATTTATCACATCGGCTATTAGGCCTTATCACATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
16912446 GAATCCTAAA
Statistics
Matches: 187, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
141 8 0.04
143 133 0.71
145 46 0.25
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:16915793 original size:5 final size:5
Alignment explanation
Indices: 16915783--16915807 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16915773 TATTGGGGTT
16915783 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
16915808 AAATGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:16917734 original size:28 final size:28
Alignment explanation
Indices: 16917694--16917760 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
16917684 GCAATCAAAT
* * *
16917694 ATGGTACTCAGTGTATGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* **
16917722 ATGGCACTTAGTGTGCGAGGTATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
16917750 ATGACACTTAG
1 ATGGCACTTAG
16917761 AGCACGTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:16917799 original size:16 final size:16
Alignment explanation
Indices: 16917778--16917846 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
16917768 TTGGTTTGCT
16917778 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
* *
16917794 GTAATGGAATAAAGGT
1 GTAATGGAATAGAGGC
*
16917810 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
16917826 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
16917842 GTAAT
1 GTAAT
16917847 AGCAATTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.39, C:0.03, G:0.35, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:16917889 original size:45 final size:44
Alignment explanation
Indices: 16917825--16917922 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
16917815 GGAATAGAGG
16917825 TGTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAA
* *
16917870 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
*
16917914 TGGAATGGA
1 TGTAATGGA
16917923 GGTGTAATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
43 1 0.02
44 24 0.49
45 24 0.49
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
Found at i:16918120 original size:17 final size:18
Alignment explanation
Indices: 16918079--16918113 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16918069 TTATTATTAA
*
16918079 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
16918097 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
16918114 TATTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:16918185 original size:25 final size:26
Alignment explanation
Indices: 16918157--16918206 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
16918147 ATAATAATAT
16918157 ATGA-TACTATAAAATATAATTTAAC
1 ATGATTACTATAAAATATAATTTAAC
* * *
16918182 ATGATTATTATTAAATATATTTTAA
1 ATGATTACTATAAAATATAATTTAA
16918207 TTAAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (26 bp):
ATGATTACTATAAAATATAATTTAAC
Found at i:16918201 original size:117 final size:119
Alignment explanation
Indices: 16918059--16918351 Score: 475
Period size: 120 Copynumber: 2.5 Consensus size: 119
16918049 TTAATCATAT
*
16918059 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAAC
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAAC
*
16918124 CAATATTATTATATGAATTT-C-ATATAATAATATATGATACTATAAAATATAA
66 CAATATTATTATATGAATTTACAAAATAATAATATATGATACTATAAAATATAA
* * *
16918176 TTTAACATGATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAAC
* * *
16918241 CAATTTTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTATTATATGAATTTAC-AAAATAATAATATATGATACTATAAAATATAA
16918296 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
16918352 TAAAATAATT
Statistics
Matches: 163, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
117 79 0.48
118 1 0.01
120 81 0.50
121 2 0.01
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (119 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAAC
CAATATTATTATATGAATTTACAAAATAATAATATATGATACTATAAAATATAA
Found at i:16918217 original size:18 final size:17
Alignment explanation
Indices: 16918194--16918230 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
16918184 GATTATTATT
16918194 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
16918210 AAATATATGATTTAATA
1 AAATATATGATTTAATA
16918227 AAAT
1 AAAT
16918231 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:16918337 original size:18 final size:17
Alignment explanation
Indices: 16918314--16918350 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
16918304 AATTATTATT
16918314 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
16918330 AAATATATGATTTAATA
1 AAATATATGATTTAATA
16918347 AAAT
1 AAAT
16918351 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:16918401 original size:47 final size:46
Alignment explanation
Indices: 16918333--16918500 Score: 161
Period size: 47 Copynumber: 3.7 Consensus size: 46
16918323 TTAATTAAAA
*
16918333 TATATG-ATTTAATAAAATTTAAAATAATTATTACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATTA-TAATAAATTTTCT
* * *
16918380 TATTTGAATTTGTATAATTTAAAATAATTATTAT--TAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * *
16918425 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
16918471 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
16918501 ATATTAAATA
Statistics
Matches: 96, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
43 3 0.03
44 21 0.22
45 10 0.10
46 9 0.09
47 46 0.48
48 7 0.07
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
Found at i:16918442 original size:44 final size:43
Alignment explanation
Indices: 16918392--16918534 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 43
16918382 TTTGAATTTG
16918392 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
16918436 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
16918483 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
16918527 TATAATTT
1 TATAATTT
16918535 TATAAATTTC
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.39
45 10 0.13
46 10 0.13
47 22 0.28
48 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:16918470 original size:91 final size:91
Alignment explanation
Indices: 16918358--16918573 Score: 342
Period size: 91 Copynumber: 2.4 Consensus size: 91
16918348 AATTTAAAAT
* * * * *
16918358 AATTATTACTAATAAATTTTCTTATTTGAATTTGTATAATTTAAAATAATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
16918423 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
16918449 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
* *
16918514 TTTAATAATGATATATAATTTTATAA
66 TTTAATAATAATATATAATTTCATAA
* *
16918540 ATTTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
16918574 CTAAAATCAT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 114 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:16918556 original size:47 final size:45
Alignment explanation
Indices: 16918414--16918558 Score: 136
Period size: 47 Copynumber: 3.2 Consensus size: 45
16918404 TAATTATTAT
* *
16918414 TAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTTAT-AAATTCTTAATAA
* * ** *
16918461 TAAAT-T-TTCTTATATGAATTTATATAA-TTTA-AAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTTATAAATTCTTAATAA
16918505 TAAATATAATTTAATAATGATATATAATTTTATAAATTTCTTAATAA
1 TAAATATAATTTAATAAT-ATATATAATTTTATAAA-TTCTTAATAA
16918552 TAAATAT
1 TAAATAT
16918559 TCTTATATGA
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
43 3 0.04
44 23 0.30
45 9 0.12
46 11 0.14
47 28 0.36
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (45 bp):
TAAATATAATTTAATAATATATATAATTTTATAAATTCTTAATAA
Found at i:16924935 original size:40 final size:40
Alignment explanation
Indices: 16924643--16924925 Score: 401
Period size: 40 Copynumber: 7.1 Consensus size: 40
16924633 AACCCAAGTA
* *
16924643 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
16924682 CCTTCGGGACTTAACCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
16924722 CCTTCGGGACTTAGCCCGAATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
16924762 CCTTTGGGACTTAGCCCTGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
16924802 CCTTCGGGACTTAGCCCGGATATAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** * *
16924842 CCTTC-GGATCTTATTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATG
16924882 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
16924922 CCTT
1 CCTT
16924926 TGGATCTTAG
Statistics
Matches: 214, Mismatches: 26, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
39 15 0.07
40 195 0.91
41 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:16925970 original size:24 final size:24
Alignment explanation
Indices: 16925926--16925971 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16925916 ACAATTTTAG
* *
16925926 AACATCTAAACGACACTTGTTCAA
1 AACATCTAAACAACACATGTTCAA
16925950 AACAT-TAAACAACTACATGTTC
1 AACATCTAAACAAC-ACATGTTC
16925972 GACTACTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (24 bp):
AACATCTAAACAACACATGTTCAA
Found at i:16926336 original size:13 final size:13
Alignment explanation
Indices: 16926320--16926347 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16926310 TTTATTATTT
16926320 TTAACACAAAATA
1 TTAACACAAAATA
16926333 TTAACACAAAATA
1 TTAACACAAAATA
16926346 TT
1 TT
16926348 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:16927130 original size:28 final size:28
Alignment explanation
Indices: 16927099--16927310 Score: 130
Period size: 28 Copynumber: 7.5 Consensus size: 28
16927089 GTGAACATAG
*
16927099 GCACTGTGTGTGTGAGTTTCGTAACCGA
1 GCACTGTGTGTGCGAGTTTCGTAACCGA
*
16927127 GCACTGTGTGTGCAAGATCGGTT-GTTAA--G-
1 GCACTGTGTGTGC--GA--GTTTCG-TAACCGA
* * *
16927156 GCACTGTGTGTGCAAGTTCCGTAACCAA
1 GCACTGTGTGTGCGAGTTTCGTAACCGA
* ****
16927184 GCACTGTGTGTGCGAG-ATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTTC-GTAACCGA
* *
16927212 GGCACTGTGTGTGTGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTTCGTAACCGA
* ****
16927241 GCACTGTGTGTGCGAG-ATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTTC-GTAACCGA
* *
16927269 GGCACTGTGTGTGCGAGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTTCGTAACCGA
16927298 GCACTGTGTGTGC
1 GCACTGTGTGTGC
16927311 AAGATCGGTT
Statistics
Matches: 134, Mismatches: 35, Indels: 30
0.67 0.18 0.15
Matches are distributed among these distances:
25 5 0.04
26 1 0.01
27 3 0.02
28 62 0.46
29 51 0.38
30 5 0.04
31 1 0.01
32 6 0.04
ACGTcount: A:0.18, C:0.19, G:0.34, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTTCGTAACCGA
Found at i:16927166 original size:29 final size:28
Alignment explanation
Indices: 16927126--16927323 Score: 144
Period size: 29 Copynumber: 7.0 Consensus size: 28
16927116 TTCGTAACCG
*
16927126 AGCACTGTGTGTGCAAGATCGGTTGTTA
1 AGCACTGTGTGTGCGAGATCGGTTGTTA
* * * ****
16927154 AGGCACTGTGTGTGCAAGTTCCGTAACCA
1 A-GCACTGTGTGTGCGAGATCGGTTGTTA
16927183 AGCACTGTGTGTGCGAGATCGGTTGTTGA
1 AGCACTGTGTGTGCGAGATCGGTTGTT-A
* * * * *****
16927212 GGCACTGTGTGTGTGAGTTCCGTAACCG
1 AGCACTGTGTGTGCGAGATCGGTTGTTA
16927240 AGCACTGTGTGTGCGAGATCGGTTGTTGA
1 AGCACTGTGTGTGCGAGATCGGTTGTT-A
* * * ****
16927269 GGCACTGTGTGTGCGAGTTCCGTAACCA
1 AGCACTGTGTGTGCGAGATCGGTTGTTA
*
16927297 AGCACTGTGTGTGCAAGATCGGTTGTT
1 AGCACTGTGTGTGCGAGATCGGTTGTT
16927324 GGGGAACTAA
Statistics
Matches: 121, Mismatches: 46, Indels: 6
0.70 0.27 0.03
Matches are distributed among these distances:
28 59 0.49
29 62 0.51
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (28 bp):
AGCACTGTGTGTGCGAGATCGGTTGTTA
Found at i:16927338 original size:57 final size:57
Alignment explanation
Indices: 16927097--16927324 Score: 375
Period size: 57 Copynumber: 4.0 Consensus size: 57
16927087 AAGTGAACAT
* * * *
16927097 AGGCACTGTGTGTGTGAGTTTCGTAACCGAGCACTGTGTGTGCAAGATCGGTTGTTA
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
* *
16927154 AGGCACTGTGTGTGCAAGTTCCGTAACCAAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
* * *
16927211 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
16927268 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
16927325 GGGAACTAAG
Statistics
Matches: 159, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 159 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
Found at i:16932309 original size:28 final size:28
Alignment explanation
Indices: 16932278--16932341 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 28
16932268 GCAATCAAAT
*
16932278 ATGGTACTCAGTGCACGAAATATTGAGA
1 ATGGCACTCAGTGCACGAAATATTGAGA
* ** * *
16932306 ATGGCACTTAGTGTGCGAGATATTTAGA
1 ATGGCACTCAGTGCACGAAATATTGAGA
*
16932334 ATGACACT
1 ATGGCACT
16932342 TAATGTGCAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (28 bp):
ATGGCACTCAGTGCACGAAATATTGAGA
Found at i:16932356 original size:28 final size:28
Alignment explanation
Indices: 16932295--16932356 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
16932285 TCAGTGCACG
* * *
16932295 AAATATTGAGAATGGCACTTAGTGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
16932323 AGATATTTAGAATGACACTTAATGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
16932351 AAATAT
1 AAATAT
16932357 CGAATGATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.31
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:16939217 original size:21 final size:21
Alignment explanation
Indices: 16939185--16939235 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
16939175 ATTACATTAA
* *
16939185 AAATTCA-GAAAATTTTTATC
1 AAATTCATAAAAAATTTTATC
16939205 AAATTCATAAAAAATTTTATC
1 AAATTCATAAAAAATTTTATC
16939226 AAATTCATAA
1 AAATTCATAA
16939236 CGACATATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATTCATAAAAAATTTTATC
Done.