Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 58 of 332
Found at i:17261114 original size:30 final size:30
Alignment explanation
Indices: 17261058--17261114 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
17261048 AGGCACTTCT
*
17261058 ACACGGGTGATCCACACACCCGTGTGTGAC
1 ACACGGGTGATCCACACACCCCTGTGTGAC
**
17261088 ACACGGGTAGA-CCACATGCCCCTGTGT
1 ACACGGGT-GATCCACACACCCCTGTGT
17261115 CATGGCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 21 0.91
31 2 0.09
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (30 bp):
ACACGGGTGATCCACACACCCCTGTGTGAC
Found at i:17263892 original size:27 final size:26
Alignment explanation
Indices: 17263857--17263915 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
17263847 AGTATGGCTG
* *
17263857 CCAGAACTGATATTTTGACAGAGTCA
1 CCAGAACTGATATTGTGACAGAGCCA
*
17263883 CCAGATACTGATATTGTGGCAGAGCCA
1 CCAGA-ACTGATATTGTGACAGAGCCA
17263910 CCAGAA
1 CCAGAA
17263916 TCAAATAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
CCAGAACTGATATTGTGACAGAGCCA
Found at i:17264199 original size:27 final size:26
Alignment explanation
Indices: 17264154--17264227 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
17264144 CGGTCAATAG
* *
17264154 ATATTGTGACAAAGTCACCAAATACAA
1 ATATTGTGGCAAAGCCACCAAA-ACAA
* * *
17264181 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAAAGCCACCAAAACAA
*
17264207 ATATTTGTGGCATAGCCACCA
1 ATA-TTGTGGCAAAGCCACCA
17264228 GAACGCTTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (26 bp):
ATATTGTGGCAAAGCCACCAAAACAA
Found at i:17264485 original size:27 final size:27
Alignment explanation
Indices: 17264455--17265162 Score: 776
Period size: 27 Copynumber: 26.3 Consensus size: 27
17264445 GGGGTAAAAT
* *
17264455 GGTAATTTTACCCTAC-GAGGGTATCTA
1 GGTAATTCTACCCTACAG-GGGTATTTA
17264482 GGTAATTCTACCCTACAGGGGTATTTCA
1 GGTAATTCTACCCTACAGGGGTATTT-A
* *
17264510 -ATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
*
17264536 GGTAATTCTACCCTATAGGGGTATTTCA
1 GGTAATTCTACCCTACAGGGGTATTT-A
* *
17264564 -GTAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* * *
17264590 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* * *
17264617 TGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
17264644 GGTAATTCTACCCTACAGGGGTATTTCA
1 GGTAATTCTACCCTACAGGGGTATTT-A
*
17264672 -GTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
*
17264698 GATAATTCTACCCTACAGGGGTATTTCA
1 GGTAATTCTACCCTACAGGGGTATTT-A
* *
17264726 -GTAATTTTACCCTATAGGGGTATTTCA
1 GGTAATTCTACCCTACAGGGGTATTT-A
* *
17264753 -GTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* *
17264779 GATAACTCTACCCTACAGGGGTATTTCA
1 GGTAATTCTACCCTACAGGGGTATTT-A
* *
17264807 -GTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* * *
17264833 GGTAATTTTATCCTACAAGGGTATTTTA
1 GGTAATTCTACCCTACAGGGGTA-TTTA
* * *
17264861 -GTAATTCTACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* *
17264887 GGTAATTCTATCCTACAAGGGTATTTCA
1 GGTAATTCTACCCTACAGGGGTATTT-A
*
17264915 -GTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* *
17264941 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* *
17264968 GGTATTTCTACCCTATAGGGGTATTTTA
1 GGTAATTCTACCCTACAGGGGTA-TTTA
* *
17264996 -GTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTA
* *
17265022 GGTAATTCTACCCTACAAGGGTATTCA
1 GGTAATTCTACCCTACAGGGGTATTTA
* * * *
17265049 -GTAATTCTACCGTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* * *
17265075 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
*
17265102 GATAATTCTACCCTACAGGGGTATTTCA
1 GGTAATTCTACCCTACAGGGGTATTT-A
*
17265130 -GTAATTCTACCCTATAGGGGTATTTTA
1 GGTAATTCTACCCTACAGGGGTA-TTTA
17265157 -GTAATT
1 GGTAATT
17265163 TTACAAATCG
Statistics
Matches: 590, Mismatches: 71, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
26 28 0.05
27 551 0.93
28 11 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTA
Found at i:17264521 original size:54 final size:54
Alignment explanation
Indices: 17264456--17265162 Score: 874
Period size: 54 Copynumber: 13.1 Consensus size: 54
17264446 GGGTAAAATG
* *
17264456 GTAATTTTACCCTAC-GAGGGTATCTAGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAG-GGGTATTTAGGTAATTCTACCCTACAGGGGTATTTCA
* * *
17264510 ATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
17264564 GTAATTCTACTCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCT
1 GTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAGGGGTATTTCA
* *
17264618 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAGGGGTATTTCA
* *
17264672 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAGGGGTATTTCA
* * *
17264726 GTAATTTTACCCTATAGGGGTATTTCA-GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTT-AGGTAATTCTACCCTACAGGGGTATTTCA
* * *
17264779 GATAACTCTACCCTACAGGGGTATTTCA-GTAATTCTACCCTATAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTT-AGGTAATTCTACCCTACAGGGGTATTTCA
* * * * * *
17264834 GTAATTTTATCCTACAAGGGTATTTTA-GTAATTCTACCCTACAAGGATATTTCG
1 GTAATTCTACCCTACAGGGGTA-TTTAGGTAATTCTACCCTACAGGGGTATTTCA
* * *
17264888 GTAATTCTATCCTACAAGGGTATTTCA-GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTT-AGGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
17264942 GTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAGGGGTATTTCA
* * *
17264996 GTAATTCTACCCTATAGGGGTATTTTGGTAATTCTACCCTACAAGGGTA-TTCA
1 GTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAGGGGTATTTCA
* * * * * *
17265049 GTAATTCTACCGTATAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAGGGGTATTTCA
* *
17265102 GATAATTCTACCCTACAGGGGTATTTCA-GTAATTCTACCCTATAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTT-AGGTAATTCTACCCTACAGGGGTATTTCA
17265157 GTAATT
1 GTAATT
17265163 TTACAAATCG
Statistics
Matches: 581, Mismatches: 61, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
53 53 0.09
54 522 0.90
55 6 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTAGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:17264579 original size:81 final size:81
Alignment explanation
Indices: 17264455--17265162 Score: 972
Period size: 81 Copynumber: 8.8 Consensus size: 81
17264445 GGGGTAAAAT
* * * *
17264455 GGTAATTTTACCCTAC-GAGGGTATCT-AGGTAATTCTACCCTACAGGGGTATTTCAATAATTCT
1 GGTAATTCTACCCTACAG-GGGTATTTCA-GTAATTCTACCCTATAGGGGTATTTCAGTAATTCT
17264518 ACCCTACAGGGGTATTTC
64 ACCCTACAGGGGTATTTC
* * * *
17264536 GGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACTCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
* *
17264601 CCTATAAGGGTATTTC
66 CCTACAGGGGTATTTC
* * * *
17264617 TGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
17264682 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* *
17264698 GATAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
*
17264763 CCTATAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * *
17264779 GATAACTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTAT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
* *
17264844 CCTACAAGGGTATTTT
66 CCTACAGGGGTATTTC
* * * * * * *
17264860 AGTAATTCTACCCTACAAGGATATTTCGGTAATTCTATCCTACAAGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
17264925 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * *
17264941 GGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTATAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
* *
17265006 CCTATAGGGGTATTTT
66 CCTACAGGGGTATTTC
* * * * *
17265022 GGTAATTCTACCCTACAAGGGTA-TTCAGTAATTCTACCGTATAAGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
*
17265086 CCTACAAGGGTATTTC
66 CCTACAGGGGTATTTC
* *
17265102 GATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTAGTAATT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATT
17265163 TTACAAATCG
Statistics
Matches: 551, Mismatches: 73, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
80 68 0.12
81 481 0.87
82 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:17265178 original size:27 final size:27
Alignment explanation
Indices: 17265147--17265271 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 27
17265137 TACCCTATAG
17265147 GGGTATTTTAGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
* *
17265174 TGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
** ** ** * *
17265200 CAGTGCTTCGGTAATTTTATAAA-CCA
1 GGGTATTTTAGTAATTTTACAAATCGA
* * *
17265226 GGGGTACTTTGGTAATTTTACAAGTCGA
1 -GGGTATTTTAGTAATTTTACAAATCGA
17265254 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
17265272 GTAAACTAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
26 22 0.29
27 53 0.69
28 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCGA
Found at i:17265213 original size:26 final size:27
Alignment explanation
Indices: 17265156--17265218 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
17265146 GGGGTATTTT
** *
17265156 AGTAATTTTACAAATCGATGGTATTTC
1 AGTAATTTTACAAATCGACAGTACTTC
*
17265183 AGTAATTTTAC-AATCGACAGTGCTTC
1 AGTAATTTTACAAATCGACAGTACTTC
*
17265209 GGTAATTTTA
1 AGTAATTTTA
17265219 TAAACCAGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (27 bp):
AGTAATTTTACAAATCGACAGTACTTC
Found at i:17268872 original size:24 final size:24
Alignment explanation
Indices: 17268808--17268872 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
17268798 CCGGCCGACC
17268808 CCCTTCCCTTTCCTTTCTCTTTCT
1 CCCTTCCCTTTCCTTTCTCTTTCT
** **
17268832 TTCTTCCCCATCCTTTCTTCTTT-T
1 CCCTTCCCTTTCCTTTC-TCTTTCT
*
17268856 CCCTTCCCTTTCTTTTC
1 CCCTTCCCTTTCCTTTC
17268873 CCCTTTCATC
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.55
Consensus pattern (24 bp):
CCCTTCCCTTTCCTTTCTCTTTCT
Found at i:17269449 original size:83 final size:83
Alignment explanation
Indices: 17269318--17269484 Score: 298
Period size: 83 Copynumber: 2.0 Consensus size: 83
17269308 TATTCTAGTT
* *
17269318 TTTACTTTCATTAGTGTTAGGGTATACACATTTAATAACTACAGTTTTATTTTTACTTAGATTCT
1 TTTACTTTCATTAGTGTTAGGATATACACATTTAAGAACTACAGTTTTATTTTTACTTAGATTCT
17269383 ATTTTTTCCTTTGTCTTG
66 ATTTTTTCCTTTGTCTTG
* *
17269401 TTTACTTTCATTAGTGTTAGGATATACACATTTTAGAACTATAGTTTTATTTTTACTTAGATTCT
1 TTTACTTTCATTAGTGTTAGGATATACACATTTAAGAACTACAGTTTTATTTTTACTTAGATTCT
17269466 ATTTTTTCCTTTGTCTTG
66 ATTTTTTCCTTTGTCTTG
17269484 T
1 T
17269485 GGTTAAATAC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.54
Consensus pattern (83 bp):
TTTACTTTCATTAGTGTTAGGATATACACATTTAAGAACTACAGTTTTATTTTTACTTAGATTCT
ATTTTTTCCTTTGTCTTG
Found at i:17279370 original size:32 final size:32
Alignment explanation
Indices: 17279334--17279398 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
17279324 CATATAATTA
17279334 TAACATTTATCAATAACAAAATGTCATACTCT
1 TAACATTTATCAATAACAAAATGTCATACTCT
17279366 TAACATTTATCAATAACAAAATGTCATACTCT
1 TAACATTTATCAATAACAAAATGTCATACTCT
17279398 T
1 T
17279399 TGATCCATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.35
Consensus pattern (32 bp):
TAACATTTATCAATAACAAAATGTCATACTCT
Found at i:17280203 original size:17 final size:19
Alignment explanation
Indices: 17280173--17280208 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
17280163 CAACCCATAT
17280173 TGTAACACCCCT-AACCCG
1 TGTAACACCCCTAAACCCG
17280191 TGTAACA-CCCTAAACCCG
1 TGTAACACCCCTAAACCCG
17280209 ACCTGGACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.31, C:0.42, G:0.11, T:0.17
Consensus pattern (19 bp):
TGTAACACCCCTAAACCCG
Found at i:17280903 original size:18 final size:18
Alignment explanation
Indices: 17280850--17280903 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
17280840 CTTGGCCCAT
*
17280850 TGCAGTAACAGTAAACAA
1 TGCAGTAACAGTAAACAG
*
17280868 TGCAGTAATAGT-AACAG
1 TGCAGTAACAGTAAACAG
*
17280885 TGTAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
17280903 T
1 T
17280904 ATGCAAGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:17281256 original size:27 final size:27
Alignment explanation
Indices: 17281225--17281323 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
17281215 ACATAGGGGT
* *
17281225 AAAACAGTCATCTTACTATAAAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
* * *
17281252 AAAACAGCCATTTTACCCTATAAGGGC
1 AAAACAGTCATTTTACCATAAAAGGGC
* * *
17281279 AAAACAGTCATTTTACC-TCAGAAGCGT
1 AAAACAGTCATTTTACCAT-AAAAGGGC
17281306 AAAACAGTCATTTTACCA
1 AAAACAGTCATTTTACCA
17281324 ATTAGGGGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 60 0.98
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATAAAAGGGC
Found at i:17284406 original size:18 final size:18
Alignment explanation
Indices: 17284380--17284434 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
17284370 CTTGGTCCAT
*
17284380 TGCAGTAACAGTAAACAG
1 TGCAATAACAGTAAACAG
17284398 TGCAATAACAGT-AACAG
1 TGCAATAACAGTAAACAG
* *
17284415 TACAATAATAGTAAACAG
1 TGCAATAACAGTAAACAG
17284433 TG
1 TG
17284435 TAGTAACAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (18 bp):
TGCAATAACAGTAAACAG
Found at i:17284825 original size:27 final size:27
Alignment explanation
Indices: 17284789--17284865 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
17284779 TATACTATAA
*
17284789 AAGGGCAAAAGAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
* * *
17284816 AAGTGCAAAACTGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCCCAT
*
17284843 AAGGGCAAAATAGTCATTTTACC
1 AAGGGCAAAACAGTCATTTTACC
17284866 AATTAGGGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCCCAT
Found at i:17288781 original size:13 final size:13
Alignment explanation
Indices: 17288763--17288787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17288753 TTTTCCATGG
17288763 ATGAGTCATTAAC
1 ATGAGTCATTAAC
17288776 ATGAGTCATTAA
1 ATGAGTCATTAA
17288788 AATATCTACT
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGAGTCATTAAC
Found at i:17293281 original size:14 final size:14
Alignment explanation
Indices: 17293262--17293296 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
17293252 GCGAGAGGAA
17293262 GCTTACCAGTGGTG
1 GCTTACCAGTGGTG
17293276 GCTTACCAGTGGTG
1 GCTTACCAGTGGTG
17293290 GCTTACC
1 GCTTACC
17293297 GTGAAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (14 bp):
GCTTACCAGTGGTG
Found at i:17298187 original size:48 final size:48
Alignment explanation
Indices: 17298131--17298362 Score: 229
Period size: 48 Copynumber: 4.8 Consensus size: 48
17298121 GGTGAATTGT
17298131 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGC
* * * * * * * *
17298179 TGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGC
* **
17298227 CGATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCACAACATC-A--C
1 CGATGCCATGTTCC-AAACATGGTCTTACACTGG--CTCAC-ATGTCGAGGC
* * *
17298275 TGATGCCATGTTCCAAACATGGTTTTACACTGGCTCACATGTCGTGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGC
* * * * *
17298323 CGATACCATGTCCCAGACATGGTCTTACACTTGCACACAT
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
17298363 ATCACCCAAA
Statistics
Matches: 147, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
45 3 0.02
46 5 0.03
47 2 0.01
48 127 0.86
49 3 0.02
50 5 0.03
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGC
Found at i:17298295 original size:96 final size:94
Alignment explanation
Indices: 17298131--17298353 Score: 254
Period size: 96 Copynumber: 2.3 Consensus size: 94
17298121 GGTGAATTGT
* **
17298131 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAAA
1 CGATGCCATG-TCCAGACATGGTCTTACACTGGCTCACACATCGA-GCTGATGCCATGTCCCAAA
* *
17298196 CATGGTCTTACACTAGCTCTCGTCTCAAT-GC
64 CATGGTCTTACACTAGCTCACATCTC-ATGGC
*
17298227 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCACAACATC-A-CTGATGCCATGTTCCA
1 CGATGCCATGTCC-AGACATGGTCTTACACTGG--CTCAC-ACATCGAGCTGATGCCATGTCCCA
* * * *
17298290 AACATGGTTTTACACTGGCTCACATGTCGTGGC
62 AACATGGTCTTACACTAGCTCACATCTCATGGC
*
17298323 CGATACCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGT-CCAGACATGGTCTTACACT
17298354 TGCACACATA
Statistics
Matches: 110, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
95 4 0.04
96 95 0.86
97 2 0.02
98 6 0.05
99 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCAGACATGGTCTTACACTGGCTCACACATCGAGCTGATGCCATGTCCCAAACA
TGGTCTTACACTAGCTCACATCTCATGGC
Found at i:17307640 original size:13 final size:11
Alignment explanation
Indices: 17307604--17307642 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
17307594 TCACGGGATG
17307604 ATTTCGTGAAA
1 ATTTCGTGAAA
17307615 ATTTCGTGAAA
1 ATTTCGTGAAA
17307626 ATTTCGTTCGAAA
1 ATTTCG-T-GAAA
17307639 ATTT
1 ATTT
17307643 TGAAGTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 17 0.65
12 1 0.04
13 8 0.31
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:17309280 original size:151 final size:151
Alignment explanation
Indices: 17308997--17309387 Score: 602
Period size: 151 Copynumber: 2.6 Consensus size: 151
17308987 CCGTTGTGAA
* * *
17308997 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACTAAATTGATAGGTCGCATGTGTAATAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGTAC
* *
17309062 TAAGTGAAGGCTACTACACGTACCCGTTAACTTCGATCACGTGTGTAGTACTATGTGCAGGCTAC
66 TAAGTGAAGGCTACTATACGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTAC
*
17309127 TACATGTATCAGAAGGTTAAG
131 TACATGTATCAGAAGGGTAAG
* *
17309148 TCACATGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAAATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGTAC
* * *
17309213 TAAGTGTAGGCTACTATGCGTACCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCTAC
66 TAAGTGAAGGCTACTATACGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTAC
* * *
17309278 TACGTGTGTCAGATGGGTAAG
131 TACATGTATCAGAAGGGTAAG
* * * * *
17309299 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGTATGTATAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGTAC
*
17309364 TAAGTGCAGGCTACTATACGTACC
66 TAAGTGAAGGCTACTATACGTACC
17309388 AGACAGCTTC
Statistics
Matches: 217, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
151 217 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (151 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGTAC
TAAGTGAAGGCTACTATACGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTAC
TACATGTATCAGAAGGGTAAG
Found at i:17309283 original size:28 final size:28
Alignment explanation
Indices: 17309251--17309334 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
17309241 AACTTTGATC
17309251 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
17309279 ACGTGTGTCAG-A-T--GGGTAAG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
17309301 ACGTGTGCAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
17309329 ACGTGT
1 ACGTGT
17309335 ACCAGATTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 1 0.02
25 8 0.20
26 1 0.02
27 2 0.05
28 15 0.37
29 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:17309337 original size:101 final size:100
Alignment explanation
Indices: 17308997--17309379 Score: 288
Period size: 101 Copynumber: 3.8 Consensus size: 100
17308987 CCGTTGTGAA
* * * * * * *
17308997 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACTA-AATTGATAGGTCGCATGTGTAATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAA-CGTTAAGTCACATGTGTAGTA
* * ** ** **
17309061 CTAAGTGAAGGCTACTACA-CGTACC-CGTTAACTTCG
65 CTAAGTGCAGGCTACTA-AGTGTACCAAATGGA-TAAG
* * * *
17309097 ATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCAGAAGGTTAAGTCACATGTGTAGTA
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAACGTTAAGTCACATGTGTAGTA
* *
17309162 CTAAGTGCAGGCTACTAAGTGTACCAAATTGATAGG
65 CTAAGTGCAGGCTACTAAGTGTACCAAATGGATAAG
* * * * * * * * *
17309198 TCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGTTAACTTTGA-TCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG--AACGTTAAGTCACATGTGTAGT
* ** * *
17309262 ACTAAGTGCAGGCTACTACGTGTGTCAGATGGGTAAG
64 ACTAAGTGCAGGCTACTAAGTGTACCAAATGGATAAG
* ** * * *** *
17309299 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGTATGTATAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAACGTTAAGTCACATGTGTAGTAC
17309364 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
17309380 TACGTACCAG
Statistics
Matches: 221, Mismatches: 55, Indels: 13
0.76 0.19 0.04
Matches are distributed among these distances:
99 2 0.01
100 59 0.27
101 150 0.68
102 10 0.05
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAACGTTAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTAAGTGTACCAAATGGATAAG
Found at i:17309387 original size:50 final size:50
Alignment explanation
Indices: 17309006--17309390 Score: 299
Period size: 50 Copynumber: 7.7 Consensus size: 50
17308996 ATCACGTGTA
* * *
17309006 TAGTACTAAGTGCAGGCTACTACGTGTACTAAATTGATAGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTG
* * * * * * * * *
17309056 TAATACTAAGTGAAGGCTACTACACGTACCCG-TTAACTTCGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATTGA--TAGGTCGCATGTG
* * ** * * *
17309107 TAGTACTATGTGCAGGCTACTACATGTATCAGAAGGTTAAGTCACATGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTG
*
17309157 TAGTACTAAGTGCAGGCTACTA-AGTGTACCAAATTGATAGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACA-TGTACCAGATTGATAGGTCGCATGTG
* *** * * * * * *
17309207 TAGTACTAAGTGTAGGCTACTATGCGTACCCG-TTAACTTTGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATTGA--TAGGTCGCATGTG
* ** * * * * *
17309258 TAGTACTAAGTGCAGGCTACTACGTGTGTCAGATGGGTAAGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTG
* * * * *
17309308 CAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGTATGTA
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTG
* *
17309358 TAGTACTAAGTGCAGGCTACTATACGTACCAGA
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGA
17309391 CAGCTTCGGT
Statistics
Matches: 256, Mismatches: 71, Indels: 16
0.75 0.21 0.05
Matches are distributed among these distances:
49 7 0.03
50 178 0.70
51 70 0.27
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTG
Found at i:17312906 original size:15 final size:15
Alignment explanation
Indices: 17312886--17312929 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
17312876 TATGATATTA
17312886 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
17312900 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
*
17312916 TATCTTGGACTTCT
1 TATCTTGGATTTCT
17312930 TAATCCTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:17317344 original size:81 final size:79
Alignment explanation
Indices: 17317236--17317420 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 79
17317226 ATACCCTTTG
** * *
17317236 TTTGTAAAA-TTACCAAAATACCTCTAATTTGTGAAATTACCGAAATACCCCCAATTTTTAAAAT
1 TTTG-AAAATTTACCAAAATACC-CTAATTTGAAAAATTACCAAAATACCCCCAA-TTTGAAAAT
*
17317300 TACCAAAATACCCATAA
63 TACAAAAATACCCATAA
*** *
17317317 TTTGAAAATTTACCAAAATAACCCTAATTTGAAAAATTACCAAAATACCCTTGATTTGGAAATTA
1 TTTGAAAATTTACCAAAAT-ACCCTAATTTGAAAAATTACCAAAATACCCCCAATTTGAAAATTA
*
17317382 CAAAAATACCCCTAA
65 CAAAAATACCCATAA
*
17317397 TTT-ACAAATTTACAAAAATACCCT
1 TTTGA-AAATTTACCAAAATACCCT
17317421 TAACTTTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
79 6 0.07
80 42 0.47
81 39 0.43
82 3 0.03
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (79 bp):
TTTGAAAATTTACCAAAATACCCTAATTTGAAAAATTACCAAAATACCCCCAATTTGAAAATTAC
AAAAATACCCATAA
Found at i:17317482 original size:27 final size:27
Alignment explanation
Indices: 17317165--17317476 Score: 199
Period size: 27 Copynumber: 11.6 Consensus size: 27
17317155 GTAGGCTAGT
* ** * *
17317165 ATTACTAAAATACCAATAGTTTACAAA
1 ATTACCAAAATACCCTTAATTTGCAAA
* ** *
17317192 ATTA-CTAAATACCCTCGATTAGCAAA
1 ATTACCAAAATACCCTTAATTTGCAAA
* ** *
17317218 ATTA-CTAAATACCCTTTGTTTGTAAA
1 ATTACCAAAATACCCTTAATTTGCAAA
**
17317244 ATTACCAAAATA-CCTCTAATTTGTGAA
1 ATTACCAAAATACCCT-TAATTTGCAAA
* ** **
17317271 ATTACCGAAATACCCCCAATTTTTAAA
1 ATTACCAAAATACCCTTAATTTGCAAA
*
17317298 ATTACCAAAATACCCATAATTTG-AAA
1 ATTACCAAAATACCCTTAATTTGCAAA
*
17317324 ATTTACCAAAATAACCC-TAATTTGAAAA
1 A-TTACCAAAAT-ACCCTTAATTTGCAAA
* *
17317352 ATTACCAAAATACCCTTGATTTG-GAA
1 ATTACCAAAATACCCTTAATTTGCAAA
* * *
17317378 ATTACAAAAATACCCCTAATTTACAAA
1 ATTACCAAAATACCCTTAATTTGCAAA
* *
17317405 TTTACAAAAATACCCTTAACTTT-CAAA
1 ATTACCAAAATACCCTTAA-TTTGCAAA
* ** **
17317432 ATTTA-TAGAAATACTATTGGTTTGCAAA
1 A-TTACCA-AAATACCCTTAATTTGCAAA
*
17317460 ATTACCGAAATACCCTT
1 ATTACCAAAATACCCTT
17317477 GGTTTGTAGA
Statistics
Matches: 226, Mismatches: 46, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
26 70 0.31
27 127 0.56
28 29 0.13
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (27 bp):
ATTACCAAAATACCCTTAATTTGCAAA
Found at i:17317802 original size:41 final size:41
Alignment explanation
Indices: 17317740--17317861 Score: 156
Period size: 41 Copynumber: 3.0 Consensus size: 41
17317730 CGGAGGAAGA
*
17317740 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
1 AATTGAGAATCGCATGGTTGCTTGACGACCGTGGATCCACC
* *
17317781 AATTGAGAATCGCATGATTGCTTGACAACCGTGGATCCACC
1 AATTGAGAATCGCATGGTTGCTTGACGACCGTGGATCCACC
* * * * *
17317822 GATT-AAAGATCGCATGGTTGCTTGATGACTGTGGACCCAC
1 AATTGAGA-ATCGCATGGTTGCTTGACGACCGTGGATCCAC
17317862 TAGTGGCTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
40 2 0.03
41 68 0.97
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (41 bp):
AATTGAGAATCGCATGGTTGCTTGACGACCGTGGATCCACC
Found at i:17318080 original size:25 final size:25
Alignment explanation
Indices: 17318004--17318089 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
17317994 AGCTAATTAT
17318004 TCTGTTATCGATGGCTTTGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
* * * * *
17318029 TATGATATTGATGGCTATGTGTCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
17318054 TCTGTTATCGATGGCTTTGTGCCGA
1 TCTGTTATCGATGGCTTTGTGCCGA
*
17318079 TCGTATTATCG
1 TC-TGTTATCG
17318090 TAATAATGGC
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 42 0.86
26 7 0.14
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (25 bp):
TCTGTTATCGATGGCTTTGTGCCGA
Found at i:17332487 original size:23 final size:22
Alignment explanation
Indices: 17332461--17332522 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 22
17332451 TTGATAATAA
17332461 TTTGAGATAATATTTTATAAAGT
1 TTTGA-ATAATATTTTATAAAGT
*
17332484 TTTGCAATAATATTTTATAAGGT
1 TTTG-AATAATATTTTATAAAGT
17332507 TTTGAAATAATATTTT
1 TTTG-AATAATATTTT
17332523 GAAACATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (22 bp):
TTTGAATAATATTTTATAAAGT
Found at i:17333670 original size:11 final size:10
Alignment explanation
Indices: 17333648--17333677 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
17333638 CTTTTCAATT
17333648 TTTATTTGTA
1 TTTATTTGTA
17333658 TTTATTATGTA
1 TTTATT-TGTA
17333669 TTTATTTGT
1 TTTATTTGT
17333678 TGGCTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (10 bp):
TTTATTTGTA
Found at i:17334007 original size:56 final size:56
Alignment explanation
Indices: 17333921--17334034 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
17333911 TTAATTATAG
* *
17333921 AATGACATTTTCGTAATTTCTTTAATTGAATTGGTGACCGGTTGACTCGTGATACC
1 AATGACATTTTCATAATTTCTCTAATTGAATTGGTGACCGGTTGACTCGTGATACC
17333977 AATGACATTTTCATAATTTCTCTAATTGAATTGGTGACCGGTTGACTCGTGATACC
1 AATGACATTTTCATAATTTCTCTAATTGAATTGGTGACCGGTTGACTCGTGATACC
17334033 AA
1 AA
17334035 CTCAGTCTGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (56 bp):
AATGACATTTTCATAATTTCTCTAATTGAATTGGTGACCGGTTGACTCGTGATACC
Found at i:17336412 original size:17 final size:18
Alignment explanation
Indices: 17336382--17336427 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
17336372 ATTTAAATTG
17336382 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
17336400 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
17336416 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
17336428 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:17344831 original size:19 final size:19
Alignment explanation
Indices: 17344804--17344840 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17344794 AATATAAAAT
*
17344804 TCTTTTATTTAATATTTTA
1 TCTTCTATTTAATATTTTA
17344823 TCTTCTATTTAATATTTT
1 TCTTCTATTTAATATTTT
17344841 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTCTATTTAATATTTTA
Found at i:17344879 original size:20 final size:20
Alignment explanation
Indices: 17344837--17344879 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
17344827 CTATTTAATA
*
17344837 TTTTTTTTATTTTACTTTCC
1 TTTTTTTTATTTTACTTTAC
*
17344857 TTTTTTTTAATTTT-TTTTAC
1 TTTTTTTT-ATTTTACTTTAC
17344877 TTT
1 TTT
17344880 CCCTTTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTTATTTTACTTTAC
Found at i:17348477 original size:42 final size:42
Alignment explanation
Indices: 17348416--17348525 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
17348406 CAATGCCAAC
* *
17348416 ATCCTAGAC-GTGGTGTTACATGTAATAAAAAATGATGCC-ACT
1 ATCCTAGACAG-GGTCTTACATGTAATAAAAAACGATGCCGA-T
* * * *
17348458 GTCCTAGACAGGGTCTTACATGAAATCAAATACGATGCCGAT
1 ATCCTAGACAGGGTCTTACATGTAATAAAAAACGATGCCGAT
** *
17348500 ATCCTAGACATAGTCTTACACGTAAT
1 ATCCTAGACAGGGTCTTACATGTAAT
17348526 CATAAGTCGA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
42 53 0.96
43 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (42 bp):
ATCCTAGACAGGGTCTTACATGTAATAAAAAACGATGCCGAT
Found at i:17353359 original size:20 final size:20
Alignment explanation
Indices: 17353334--17353372 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17353324 ACAAATTTAA
17353334 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
17353354 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
17353373 AATAGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:17355527 original size:103 final size:104
Alignment explanation
Indices: 17355347--17355612 Score: 455
Period size: 103 Copynumber: 2.6 Consensus size: 104
17355337 TAACCGTTAT
* **
17355347 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17355412 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
17355451 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17355515 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
17355554 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
17355613 TTTATATACA
Statistics
Matches: 154, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
103 100 0.65
104 54 0.35
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:17355970 original size:29 final size:29
Alignment explanation
Indices: 17355937--17356000 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17355927 TAATCCACCA
17355937 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17355966 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17355996 CCCAA
1 CCCAA
17356001 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17355974 original size:30 final size:30
Alignment explanation
Indices: 17355944--17356000 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17355934 CCACCCAACT
17355944 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17355973 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17356001 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17363006 original size:104 final size:104
Alignment explanation
Indices: 17362826--17363092 Score: 437
Period size: 104 Copynumber: 2.6 Consensus size: 104
17362816 TAACCGTTAT
* **
17362826 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17362891 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
17362930 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17362995 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * **
17363034 TGGTGGATCA-CGCACATACCACCACCAATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
17363093 TTTATATACA
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
104 151 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.18
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:17363455 original size:29 final size:29
Alignment explanation
Indices: 17363422--17363485 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17363412 TAATCCACCA
17363422 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17363451 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17363481 CCCAA
1 CCCAA
17363486 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17363459 original size:30 final size:30
Alignment explanation
Indices: 17363429--17363485 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17363419 CCACCCAACT
17363429 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17363458 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17363486 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17369263 original size:47 final size:47
Alignment explanation
Indices: 17369145--17369484 Score: 374
Period size: 47 Copynumber: 7.6 Consensus size: 47
17369135 TGAAAAAAAA
* * *
17369145 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAAC
*
17369193 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
17369240 GTGGTGTTAAGTGGATATACCACGGTTA-A-ACA-TG------TAAT
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
17369278 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTACC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
17369325 GTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTCATTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
17369372 GTGATGCTAAGTGGATATACCACGGTTA-A-ACA-TG------TAAT
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* * *
17369410 GTGGTGCTAAGTGGATATGCCACAGTTATATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
17369457 GTGGTGCTAAGTGGATATACCACGGTTA
1 GTGGTGCTAAGTGGATATACCACGGTTA
17369485 AACATGTAAC
Statistics
Matches: 245, Mismatches: 29, Indels: 37
0.79 0.09 0.12
Matches are distributed among these distances:
38 57 0.23
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 129 0.53
48 39 0.16
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.33
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
Found at i:17369328 original size:85 final size:85
Alignment explanation
Indices: 17369184--17369352 Score: 284
Period size: 85 Copynumber: 2.0 Consensus size: 85
17369174 ACATATTGAT
* *
17369184 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
*
17369249 AGTGGATATACCACGGTTAA
66 AGTGGATATACCAAGGTTAA
* *
17369269 ACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTACCGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
*
17369334 AGTGGATATGCCAAGGTTA
66 AGTGGATATACCAAGGTTA
17369353 CATATATTGA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCAAGGTTAA
Found at i:17369360 original size:132 final size:132
Alignment explanation
Indices: 17369145--17369484 Score: 565
Period size: 132 Copynumber: 2.6 Consensus size: 132
17369135 TGAAAAAAAA
* * *
17369145 GTGGTGCTAAGTGGATATACCAC-GATTACACATATTGATACATGTAACGTGGTGCTAAGTGGAT
1 GTGGTGCTAAGTGGATATGCCACAG-TTACATATATTGATTCAT-TAACGTGGTGCTAAGTGGAT
* *
17369209 ATGCCACGGTTACATATATTGATTCATTAACGTGGTGTTAAGTGGATATACCACGGTTAAACATG
64 ATGCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATG
17369274 TAAT
129 TAAT
*
17369278 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTACCGTGGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
* *
17369343 GCCAAGGTTACATATATTGATTCATTAATGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
66 GCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
17369408 AT
131 AT
*
17369410 GTGGTGCTAAGTGGATATGCCACAGTTATATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
*
17369475 ACCACGGTTA
66 GCCACGGTTA
17369485 AACATGTAAC
Statistics
Matches: 194, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
132 155 0.80
133 38 0.20
134 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.33
Consensus pattern (132 bp):
GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
GCCACGGTTACATATATTGATTCATTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
AT
Found at i:17369523 original size:85 final size:85
Alignment explanation
Indices: 17369324--17369524 Score: 348
Period size: 85 Copynumber: 2.4 Consensus size: 85
17369314 GATTCATTAC
* * *
17369324 CGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTCATTAATGTGATGCTAAGTGGATA
1 CGTGGTGCTAAGTGGATATGCCACGGTTATATATATTGATTCATTAACGTGATGCTAAGTGGATA
17369389 TACCACGGTTAAACATGTAA
66 TACCACGGTTAAACATGTAA
* * *
17369409 TGTGGTGCTAAGTGGATATGCCACAGTTATATATATTGATTCATTAACGTGGTGCTAAGTGGATA
1 CGTGGTGCTAAGTGGATATGCCACGGTTATATATATTGATTCATTAACGTGATGCTAAGTGGATA
17369474 TACCACGGTTAAACATGTAA
66 TACCACGGTTAAACATGTAA
17369494 CGTGGTGCTAAGTGGATATGCCACGGTTATA
1 CGTGGTGCTAAGTGGATATGCCACGGTTATA
17369525 CATGTTAATT
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 108 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (85 bp):
CGTGGTGCTAAGTGGATATGCCACGGTTATATATATTGATTCATTAACGTGATGCTAAGTGGATA
TACCACGGTTAAACATGTAA
Found at i:17369532 original size:132 final size:127
Alignment explanation
Indices: 17369145--17369529 Score: 474
Period size: 132 Copynumber: 3.0 Consensus size: 127
17369135 TGAAAAAAAA
* * *
17369145 GTGGTGCTAAGTGGATATACCAC-GATTACACATATTGATACATGTAACGTGGTGCTAAGTGGAT
1 GTGGTGCTAAGTGGATATGCCACAG-TTACATATATTGATTCAT-TAACGTGGTGCTAAGTGGAT
* * * * *
17369209 ATGCCACGGTTACATATATTGATTCATTAACGTGGTGTTAAGTGGATATACCACGGTTAAACATG
64 ATACCAAGGTTACATACATTG-----TTAACGTGATGCTAAGTGGATATACCACGGTTAAACATG
17369274 TAAT
124 TAAT
*
17369278 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTACCGTGGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
* * *
17369343 GCCAAGGTTACATATATTGATTCATTAATGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
66 ACCAAGGTTACATACATTG-----TTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTA
17369408 AT
126 AT
*
17369410 GTGGTGCTAAGTGGATATGCCACAGTTATATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
* * * *
17369475 ACCACGGTTA-A-ACA-TG-TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
66 ACCAAGGTTACATACATTGTTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGT
17369530 TAATTTGAAA
Statistics
Matches: 234, Mismatches: 17, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
123 35 0.15
129 2 0.01
130 2 0.01
131 1 0.00
132 155 0.66
133 38 0.16
134 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (127 bp):
GTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTAAGTGGATAT
ACCAAGGTTACATACATTGTTAACGTGATGCTAAGTGGATATACCACGGTTAAACATGTAAT
Found at i:17376117 original size:21 final size:21
Alignment explanation
Indices: 17376093--17376132 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17376083 GGACTAAACC
*
17376093 GAAAACTTTGAAAAGTTTCAG
1 GAAAACTTAGAAAAGTTTCAG
*
17376114 GAAAACTTAGAAAATTTTC
1 GAAAACTTAGAAAAGTTTC
17376133 CCATGACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAG
Found at i:17378158 original size:49 final size:46
Alignment explanation
Indices: 17378102--17378268 Score: 160
Period size: 49 Copynumber: 3.6 Consensus size: 46
17378092 TATCTAAGTT
* *
17378102 GATGCCATGTCCCAGACAGGTCTTACGTTGACTTTCATATATCGAGGTC
1 GATGCCATGTCCCAGACAGGTCTTAC--T-ACTTACATATATCGAGGCC
* * * *
17378151 GATGCCATGTCCCAGACAGGTCTTAC-ACTGACACATGTC-AAGCC
1 GATGCCATGTCCCAGACAGGTCTTACTACTTACATATATCGAGGCC
* * * *
17378195 GATGCCATGTCTCAAACAGGTCTTACACTAGCTTGCATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTT--ACTA-CTTACATATATCGAGGCC
*
17378244 GATG-CATGTCCCAGACATGTCTTAC
1 GATGCCATGTCCCAGACAGGTCTTAC
17378269 ACTGGCTCTC
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
44 25 0.26
45 9 0.09
46 4 0.04
47 1 0.01
48 24 0.25
49 34 0.35
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCCAGACAGGTCTTACTACTTACATATATCGAGGCC
Found at i:17378240 original size:93 final size:92
Alignment explanation
Indices: 17378102--17378272 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 92
17378092 TATCTAAGTT
* * * * *
17378102 GATGCCATGTCCCAGACAGGTCTTACGTTGACTTTCATATATCGAGGTCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAAACAGGTCTTACCTAGACTTGCATATATCGAGGCCGATG-CATGTCCCAGA
17378167 CAGGTCTTACACTGACACATGTCAAGCC
65 CAGGTCTTACACTGACACATGTCAAGCC
* *
17378195 GATGCCATGTCTCAAACAGGTCTTACACTAG-CTTGCATATCTCGAGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAAACAGGTCTTAC-CTAGACTTGCATATATCGAGGCCGATGCATGTCCCAGA
*
17378259 CATGTCTTACACTG
65 CAGGTCTTACACTG
17378273 GCTCTCGTCT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
92 24 0.35
93 43 0.62
94 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (92 bp):
GATGCCATGTCCCAAACAGGTCTTACCTAGACTTGCATATATCGAGGCCGATGCATGTCCCAGAC
AGGTCTTACACTGACACATGTCAAGCC
Found at i:17386064 original size:21 final size:21
Alignment explanation
Indices: 17386040--17386081 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17386030 ATGCATAGCC
17386040 AAACACAATCAAAGATCGAAA
1 AAACACAATCAAAGATCGAAA
17386061 AAACACAATCAAAGATCGAAA
1 AAACACAATCAAAGATCGAAA
17386082 TTCAGACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.10, T:0.10
Consensus pattern (21 bp):
AAACACAATCAAAGATCGAAA
Found at i:17386858 original size:45 final size:44
Alignment explanation
Indices: 17386762--17386923 Score: 197
Period size: 45 Copynumber: 3.7 Consensus size: 44
17386752 CCGACATTTC
* *
17386762 GCCTGCTAGGCTCGAA-GCCCG-ATA-TCATTTCACCGACATT-ATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCG-C-TTCATA
* *
17386805 GTCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCAGCTTCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACC-GCTTCATA
* *
17386850 GCCTGCTAGGCTCAAAGGCCTGAATAGTATCTCACCGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACC-GCTTCATA
17386895 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
17386924 CCGTACAATA
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
43 15 0.14
44 7 0.07
45 82 0.77
46 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGCTTCATA
Found at i:17395905 original size:67 final size:67
Alignment explanation
Indices: 17395708--17395914 Score: 189
Period size: 67 Copynumber: 3.1 Consensus size: 67
17395698 CATAATTTTG
* * * * * *
17395708 GCTCTCTTGTAC-ACATGGTG-AACACTTAGTACCACCCATGTGACCTAGCTA-GT-T-TGTCTC
1 GCTCTCTTGT-CTACATGGTGCTACACATAGAACCACACATGCGACCTAGCTACATATATGTCTC
17395768 GTA
65 GTA
* * * *
17395771 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACACATGCGACCTAGCTACATATA--TCC
1 GCTCTCTTGTCTACATGGTG--CTACACATAGAACCACACATGCGACCTAGCTACATATATGTCT
17395834 CGTA
64 CGTA
* * *
17395838 GCTCTCTTGTCTACGTGGTG-TACACATAGTATCAC-CATGCGACCTAGCTACATCATAATGTCT
1 GCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCGACCTAGCTACAT-AT-ATGTCT
17395901 CGTA
64 CGTA
17395905 GCTCTCTTGT
1 GCTCTCTTGT
17395915 ACACATGATG
Statistics
Matches: 117, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 36 0.31
64 12 0.10
65 1 0.01
66 24 0.21
67 42 0.36
68 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (67 bp):
GCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCGACCTAGCTACATATATGTCTCG
TA
Found at i:17398771 original size:43 final size:43
Alignment explanation
Indices: 17398715--17398824 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 43
17398705 CTTAAATGTT
* *
17398715 ATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACACGAA
1 ATCACATAACGATGCCAATGTCCCAAACAGGGTCTTACACGAA
* * * *
17398758 ATCATATAACGATGCCAATGTCCTAGACATGGTCTTACAC-ATA
1 ATCACATAACGATGCCAATGTCCCAAACAGGGTCTTACACGA-A
* *
17398801 ATCACA-ATACAATGTCAATGTCCC
1 ATCACATA-ACGATGCCAATGTCCC
17398825 TGATATGGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 2 0.04
43 53 0.96
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
ATCACATAACGATGCCAATGTCCCAAACAGGGTCTTACACGAA
Found at i:17401274 original size:19 final size:19
Alignment explanation
Indices: 17401228--17401275 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
17401218 TTGACTTGTT
*
17401228 AACAAATTAAACATTTTGA
1 AACAAATTCAACATTTTGA
17401247 AACAAATTCAACATTTTGA
1 AACAAATTCAACATTTTGA
17401266 AACAAATTCA
1 AACAAATTCA
17401276 GAAATATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.29
Consensus pattern (19 bp):
AACAAATTCAACATTTTGA
Found at i:17407092 original size:51 final size:50
Alignment explanation
Indices: 17406915--17407103 Score: 180
Period size: 50 Copynumber: 3.7 Consensus size: 50
17406905 ATTGTGAGAA
* * *** * * *
17406915 CACATGTGTAGTACTATGTGCAAGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-G-CTTAGAT
* * ** * *
17406967 CACGTGTGTAGTAGTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGCTTAGAT
* * *
17407017 CGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GCTTAGAT
* *
17407068 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
17407104 AGAGATGGTT
Statistics
Matches: 113, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 42 0.37
51 39 0.35
52 32 0.28
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGCTTAGAT
Found at i:17407143 original size:50 final size:50
Alignment explanation
Indices: 17407073--17407196 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
17407063 TCGATCACAT
* *
17407073 GTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATG-GTTTTGA-TCA-AA
1 GTGTGGTACTATGTGCAGGCCACTATGTG-AAGA-ATGAGCTTTGACT-ATAA
* *
17407123 GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAATGTAGCTTTGACTATAA
1 GTGTGGTACTATGTGCAGGCCACTATGTGAAGAATG-AGCTTTGACTATAA
*
17407174 GGGTGGTACTATGTGCAGGCCAC
1 GTGTGGTACTATGTGCAGGCCAC
17407197 CGGGCATCTG
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
48 3 0.05
49 4 0.06
50 33 0.52
51 24 0.38
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (50 bp):
GTGTGGTACTATGTGCAGGCCACTATGTGAAGAATGAGCTTTGACTATAA
Found at i:17407188 original size:51 final size:50
Alignment explanation
Indices: 17407027--17407196 Score: 148
Period size: 51 Copynumber: 3.4 Consensus size: 50
17407017 CGCATGTGTA
* * *** * * * *
17407027 GTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCGATCACATGTGTG
1 GTACTATGTGCAGGCCACTATGTGTAAGAGATGGCTTTGATCA-AAGGGTG
* * *
17407078 GTACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTTTGATCAAAGTGTG
1 GTACTATGTGCAGGCCACTATGTGTAAGAGATGGCTTTGATCAAAGGGTG
* *
17407128 GTACTATGTGAAGGCCACTTTGTG-AAGA-ATGTAGCTTTGA-CTATAAGGGTG
1 GTACTATGTGCAGGCCACTATGTGTAAGAGATG--GCTTTGATC-A-AAGGGTG
17407179 GTACTATGTGCAGGCCAC
1 GTACTATGTGCAGGCCAC
17407197 CGGGCATCTG
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
48 3 0.03
49 5 0.05
50 34 0.34
51 59 0.58
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (50 bp):
GTACTATGTGCAGGCCACTATGTGTAAGAGATGGCTTTGATCAAAGGGTG
Found at i:17411525 original size:42 final size:42
Alignment explanation
Indices: 17411417--17411572 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
17411407 AGCTCGTACA
* * ***
17411417 ATGCCAACGTCATAGACGTGGTCTTATATGTAATCAAATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACACAAAATCAAATA-CG
* *
17411460 ATGCC-ACTGTCCCAAACAG-GGTCTTACACAAAATCAAATACG
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACACAAAATCAAATACG
* *
17411502 ATGCCAACGTCCTAGCCGTGGTCTTACACTAAATCATAAGT-CG
1 ATGCCAACGTCCTAGACGTGGTCTTACACAAAATCA-AA-TACG
* *
17411545 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCTAGACGTGGTCTTACA
17411573 TGAGAACAGA
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 31 0.33
43 59 0.63
44 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCTAGACGTGGTCTTACACAAAATCAAATACG
Found at i:17411568 original size:85 final size:85
Alignment explanation
Indices: 17411417--17411572 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
17411407 AGCTCGTACA
* * *
17411417 ATGCCAACGTCATAGACGTGGTCTTATATGTAATCAAATATCGATGCCACTGTCCCAAACAGGGT
1 ATGCCAACGTCATAGACGTGGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAAACAGGGT
17411482 CTTACACAAAATCAAATACG
66 CTTACACAAAATCAAATACG
* * * *
17411502 ATGCCAACGTCCTAGCCGTGGTCTTACACT-AAATCATAA-GTCGATGCCAATGTCCCAGAC-GT
1 ATGCCAACGTCATAGACGTGGTCTTACA-TGAAATCA-AATATCGATGCCAATGTCCCAAACAG-
17411564 GGTCTTACA
63 GGTCTTACA
17411573 TGAGAACAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
84 1 0.02
85 57 0.93
86 3 0.05
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCATAGACGTGGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAAACAGGGT
CTTACACAAAATCAAATACG
Found at i:17430013 original size:13 final size:13
Alignment explanation
Indices: 17429995--17430021 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17429985 TTAGTTTAGA
17429995 TAAAACAAACCCC
1 TAAAACAAACCCC
17430008 TAAAACAAACCCC
1 TAAAACAAACCCC
17430021 T
1 T
17430022 TTATTTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.37, G:0.00, T:0.11
Consensus pattern (13 bp):
TAAAACAAACCCC
Found at i:17432775 original size:25 final size:27
Alignment explanation
Indices: 17432722--17432775 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
17432712 GTTCAACACC
* *
17432722 TAGGGGTATTTTGGTCATTTTTTCCCT
1 TAGGGGCATTTTGGTCATATTTTCCCT
17432749 TAGGGGCATTTTGGT-A-ATTTTCCCT
1 TAGGGGCATTTTGGTCATATTTTCCCT
17432774 TA
1 TA
17432776 ATTACGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.40
26 1 0.04
27 14 0.56
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (27 bp):
TAGGGGCATTTTGGTCATATTTTCCCT
Found at i:17433112 original size:29 final size:29
Alignment explanation
Indices: 17433079--17433145 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
17433069 AATCGTATTC
* *
17433079 ATATGGCCCACTAGGCCCAAATCACCTGT
1 ATATGGCCCACTAGGCCCAAATCACATCT
* *
17433108 ATATGACCCATTAGGCCCAAATCACATCT
1 ATATGGCCCACTAGGCCCAAATCACATCT
17433137 ATATGGCCC
1 ATATGGCCC
17433146 GTTCGGCCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCAAATCACATCT
Found at i:17433153 original size:29 final size:29
Alignment explanation
Indices: 17433079--17433155 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
17433069 AATCGTATTC
* * * *
17433079 ATATGGCCCACTAGGCCCAAATCACCTGT
1 ATATGACCCATTAGGCCCAAATCACATCT
17433108 ATATGACCCATTAGGCCCAAATCACATCT
1 ATATGACCCATTAGGCCCAAATCACATCT
* * *
17433137 ATATGGCCCGTTCGGCCCA
1 ATATGACCCATTAGGCCCA
17433156 GTCATATTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (29 bp):
ATATGACCCATTAGGCCCAAATCACATCT
Found at i:17433398 original size:8 final size:8
Alignment explanation
Indices: 17433387--17433425 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
17433377 ACTTTCAGCT
17433387 TTTCGGCA
1 TTTCGGCA
*
17433395 TTTCGACA
1 TTTCGGCA
*
17433403 TTTCAGCA
1 TTTCGGCA
*
17433411 TTTCAGCA
1 TTTCGGCA
17433419 TTTCGGC
1 TTTCGGC
17433426 TTTTGCCAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (8 bp):
TTTCGGCA
Found at i:17433406 original size:16 final size:16
Alignment explanation
Indices: 17433379--17433425 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
17433369 GTAGCCAAAC
*
17433379 TTTCAGCTTTTCGGCA
1 TTTCAGCATTTCGGCA
*
17433395 TTTC-GACATTTCAGCA
1 TTTCAG-CATTTCGGCA
17433411 TTTCAGCATTTCGGC
1 TTTCAGCATTTCGGC
17433426 TTTTGCCAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (16 bp):
TTTCAGCATTTCGGCA
Found at i:17435087 original size:56 final size:57
Alignment explanation
Indices: 17434976--17435116 Score: 203
Period size: 56 Copynumber: 2.5 Consensus size: 57
17434966 GAATGAATAT
* * *
17434976 GAATGTGACTTGGGCCTAATGGGTCATACGAATATGATTTGGGCCTAATGAGCCATAC
1 GAATGAGA-TTGGGCCTAGTGGGCCATACGAATATGATTTGGGCCTAATGAGCCATAC
* * * *
17435034 GAATGAGATTGGGCCTAGTAGGCCATACGAATGT-ATTTGGGCCTAATGGGCCATAT
1 GAATGAGATTGGGCCTAGTGGGCCATACGAATATGATTTGGGCCTAATGAGCCATAC
17435090 GAATGAGATTGGGCCTAGTGGGCCATA
1 GAATGAGATTGGGCCTAGTGGGCCATA
17435117 TGCATATATG
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
56 46 0.61
57 22 0.29
58 7 0.09
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (57 bp):
GAATGAGATTGGGCCTAGTGGGCCATACGAATATGATTTGGGCCTAATGAGCCATAC
Found at i:17435118 original size:28 final size:28
Alignment explanation
Indices: 17434976--17435116 Score: 160
Period size: 28 Copynumber: 5.0 Consensus size: 28
17434966 GAATGAATAT
* *
17434976 GAATGTGACTTGGGCCTAATGGGTCATAC
1 GAATGAGA-TTGGGCCTAATGGGCCATAC
*
17435005 GAAT-ATGATTTGGGCCTAATGAGCCATAC
1 GAATGA-GA-TTGGGCCTAATGGGCCATAC
* *
17435034 GAATGAGATTGGGCCTAGTAGGCCATAC
1 GAATGAGATTGGGCCTAATGGGCCATAC
* *
17435062 GAATGTA-TTTGGGCCTAATGGGCCATAT
1 GAATG-AGATTGGGCCTAATGGGCCATAC
*
17435090 GAATGAGATTGGGCCTAGTGGGCCATA
1 GAATGAGATTGGGCCTAATGGGCCATA
17435117 TGCATATATG
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.01
28 62 0.65
29 31 0.33
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (28 bp):
GAATGAGATTGGGCCTAATGGGCCATAC
Found at i:17435808 original size:11 final size:11
Alignment explanation
Indices: 17435792--17435825 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
17435782 GTATTGCATG
17435792 TATGATATTAT
1 TATGATATTAT
17435803 TATGATATTAT
1 TATGATATTAT
*
17435814 TGTGATATTAT
1 TATGATATTAT
17435825 T
1 T
17435826 GCGATGTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (11 bp):
TATGATATTAT
Found at i:17437848 original size:40 final size:40
Alignment explanation
Indices: 17437795--17437914 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
17437785 GTTATTAGTA
*
17437795 GCGTTTTTAGAAAAGCGCCGCTATAGATCGACCATTAGCG
1 GCGTTTTTAGAAAAACGCCGCTATAGATCGACCATTAGCG
* * * * *
17437835 GCGCTTTTT-GAAAAATGCTGCTATAGATCGAGCTTTAGTG
1 GCG-TTTTTAGAAAAACGCCGCTATAGATCGACCATTAGCG
* * * * *
17437875 GCGTTTTTA-AGGAAACGCTGCTATAGGTCAAGCATTAGCG
1 GCGTTTTTAGA-AAAACGCCGCTATAGATCGACCATTAGCG
17437915 ATGATTTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
39 6 0.09
40 54 0.83
41 5 0.08
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (40 bp):
GCGTTTTTAGAAAAACGCCGCTATAGATCGACCATTAGCG
Found at i:17438083 original size:20 final size:20
Alignment explanation
Indices: 17438058--17438096 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17438048 CGCAAAAAAC
17438058 ATTTTAACT-GTGTATTTATT
1 ATTTT-ACTGGTGTATTTATT
*
17438078 ATTTTACTGGTTTATTTAT
1 ATTTTACTGGTGTATTTAT
17438097 ATTAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (20 bp):
ATTTTACTGGTGTATTTATT
Found at i:17438450 original size:15 final size:15
Alignment explanation
Indices: 17438430--17438505 Score: 80
Period size: 15 Copynumber: 5.0 Consensus size: 15
17438420 AATATTTTAA
*
17438430 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
17438445 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
* * *
17438460 GGCTTAGGGTTTAGG
1 GGTTTAGGGATTATG
* *
17438475 GGTTTAGGGGTTTAGG
1 GGTTTA-GGGATTATG
*
17438491 GGTTTAGGGTTTATG
1 GGTTTAGGGATTATG
17438506 AGTTAATATT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
15 39 0.72
16 15 0.28
ACGTcount: A:0.16, C:0.01, G:0.42, T:0.41
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:17438475 original size:7 final size:8
Alignment explanation
Indices: 17438444--17438503 Score: 72
Period size: 8 Copynumber: 7.9 Consensus size: 8
17438434 TATGGATTAT
17438444 GGGTTTA-
1 GGGTTTAG
* *
17438451 GGGATTAT
1 GGGTTTAG
*
17438459 GGGCTTA-
1 GGGTTTAG
17438466 GGGTTTAG
1 GGGTTTAG
17438474 GGGTTTAG
1 GGGTTTAG
17438482 GGGTTTAG
1 GGGTTTAG
17438490 GGGTTTA-
1 GGGTTTAG
17438497 GGGTTTA
1 GGGTTTA
17438504 TGAGTTAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
7 19 0.40
8 29 0.60
ACGTcount: A:0.15, C:0.02, G:0.45, T:0.38
Consensus pattern (8 bp):
GGGTTTAG
Found at i:17438479 original size:8 final size:7
Alignment explanation
Indices: 17438425--17438503 Score: 68
Period size: 8 Copynumber: 10.6 Consensus size: 7
17438415 GAATTAATAT
*
17438425 TTTAAGG
1 TTTAGGG
*
17438432 TTTATGG
1 TTTAGGG
*
17438439 ATTATGGG
1 TTTA-GGG
17438447 TTTAGGG
1 TTTAGGG
*
17438454 ATTATGGG
1 TTTA-GGG
*
17438462 CTTAGGG
1 TTTAGGG
17438469 TTTAGGGG
1 TTTA-GGG
17438477 TTTAGGGG
1 TTTA-GGG
17438485 TTTAGGGG
1 TTTA-GGG
17438493 TTTAGGG
1 TTTAGGG
17438500 TTTA
1 TTTA
17438504 TGAGTTAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
7 28 0.45
8 34 0.55
ACGTcount: A:0.18, C:0.01, G:0.39, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:17438533 original size:7 final size:7
Alignment explanation
Indices: 17438523--17438564 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
17438513 ATTTTAAGGT
17438523 TTATGGA
1 TTATGGA
17438530 TTATGGA
1 TTATGGA
17438537 TTATGGA
1 TTATGGA
17438544 TTATGGA
1 TTATGGA
*
17438551 TCTAGGGA
1 T-TATGGA
17438559 TTATGG
1 TTATGG
17438565 TTTACGGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.26, C:0.02, G:0.31, T:0.40
Consensus pattern (7 bp):
TTATGGA
Found at i:17438666 original size:37 final size:36
Alignment explanation
Indices: 17438625--17438714 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 36
17438615 TTAATGATAA
*
17438625 GGGTTAAGGATTTAGGGGTTTTGGGGACAAGGTTTAT
1 GGGTTAAGG-TTTAGGGGTTTTGGAGACAAGGTTTAT
* * * *
17438662 GGGTTTATGGTTTAAGGGTTTTGGAGATATGGTTTAT
1 GGG-TTAAGGTTTAGGGGTTTTGGAGACAAGGTTTAT
**
17438699 GATTTAAGGTTTAGGG
1 GGGTTAAGGTTTAGGG
17438715 TTTACGATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
36 11 0.26
37 27 0.63
38 5 0.12
ACGTcount: A:0.21, C:0.01, G:0.38, T:0.40
Consensus pattern (36 bp):
GGGTTAAGGTTTAGGGGTTTTGGAGACAAGGTTTAT
Found at i:17438718 original size:21 final size:21
Alignment explanation
Indices: 17438692--17438733 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17438682 TTGGAGATAT
* *
17438692 GGTTTATGATTTAAGGTTTAG
1 GGTTTACGATTTAAGGGTTAG
17438713 GGTTTACGATTTAAGGGTTAG
1 GGTTTACGATTTAAGGGTTAG
17438734 AGGTAAGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.31, T:0.43
Consensus pattern (21 bp):
GGTTTACGATTTAAGGGTTAG
Found at i:17441250 original size:72 final size:68
Alignment explanation
Indices: 17441162--17441297 Score: 168
Period size: 72 Copynumber: 1.9 Consensus size: 68
17441152 AAATTGAATT
*
17441162 ATAATTTTTATGTT-AAAATATAGATTTTAAGATATATTAATTTATAATATTTTCATATTTGTAA
1 ATAATTTTTATGTTAAAAAAATA-ATTTTAAGATATATTAATTTA-AAT-TTTT-ATATTTG-AA
17441226 GAAACTAA
61 GAAACTAA
** *
17441234 ATAATTTTTTAT-TTAAAAAAATAATTTTATTATATATTAATTTAAATTTTTATTTTTGAAGAAA
1 ATAA-TTTTTATGTTAAAAAAATAATTTTAAGATATATTAATTTAAATTTTTATATTTGAAGAAA
17441298 AAGATCTCCA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
68 6 0.10
69 6 0.10
70 4 0.07
71 3 0.05
72 25 0.43
73 14 0.24
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (68 bp):
ATAATTTTTATGTTAAAAAAATAATTTTAAGATATATTAATTTAAATTTTTATATTTGAAGAAAC
TAA
Found at i:17441756 original size:9 final size:9
Alignment explanation
Indices: 17441738--17442028 Score: 138
Period size: 9 Copynumber: 33.7 Consensus size: 9
17441728 TTAAATTAAT
*
17441738 CATAACTTA
1 CATAATTTA
17441747 CATAATTTA
1 CATAATTTA
*
17441756 CATAACTTA
1 CATAATTTA
17441765 CATAATTT-
1 CATAATTTA
*
17441773 -A-AAGTT-
1 CATAATTTA
17441779 CA-AATTT-
1 CATAATTTA
*
17441786 CATAACTTA
1 CATAATTTA
*
17441795 AATAATTTA
1 CATAATTTA
* * *
17441804 AAAAACTTA
1 CATAATTTA
17441813 CATAA--TA
1 CATAATTTA
* *
17441820 CATAACTAA
1 CATAATTTA
17441829 CATAATTT-
1 CATAATTTA
*
17441837 -A-AAGTT-
1 CATAATTTA
17441843 CA-AATTT-
1 CATAATTTA
*
17441850 CATAACTTA
1 CATAATTTA
17441859 CATAATTTA
1 CATAATTTA
* *
17441868 CATAACTAA
1 CATAATTTA
17441877 CATAA--TA
1 CATAATTTA
17441884 CATAA-TTA
1 CATAATTTA
*
17441892 GCATAGTTTAAA
1 -CATAATTT--A
*
17441904 GATCAAATTT-
1 CAT--AATTTA
* *
17441914 CACAACTTA
1 CATAATTTA
17441923 CATAATTTA
1 CATAATTTA
*
17441932 CATAACTTA
1 CATAATTTA
17441941 CATAATTTAAA
1 CATAATTT--A
*
17441952 GATTAAATTT-
1 CA-T-AATTTA
*
17441962 CATAACTTA
1 CATAATTTA
17441971 CATAATTTA
1 CATAATTTA
*
17441980 CATAACTTA
1 CATAATTTA
17441989 CATAA--TA
1 CATAATTTA
*
17441996 CATAACTTA
1 CATAATTTA
17442005 CATAATTTA
1 CATAATTTA
*
17442014 CATAACTTA
1 CATAATTTA
17442023 CATAAT
1 CATAAT
17442029 ACATAAATAT
Statistics
Matches: 219, Mismatches: 40, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
6 8 0.04
7 36 0.16
8 18 0.08
9 138 0.63
10 4 0.02
11 4 0.02
12 2 0.01
13 9 0.04
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (9 bp):
CATAATTTA
Found at i:17441789 original size:48 final size:48
Alignment explanation
Indices: 17441737--17442028 Score: 201
Period size: 48 Copynumber: 6.3 Consensus size: 48
17441727 ATTAAATTAA
17441737 TCATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATT
1 TCATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATT
* * * ** * *
17441785 TCATAACTTAAATAATTTAAAAAACTTACATAATACATAACTAACATAATT
1 TCATAACTTACATAATTTACATAACTTACATAATTTA-AAGT-TCA-AATT
* * * *
17441836 T-A-AAGTT-CA-AATTT-CATAACTTACATAATTTACA--T-AACTA
1 TCATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATT
* * * *
17441876 ACATAA--TACATAA--T---T-A---GCATAGTTTAAAGATCAAATT
1 TCATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATT
*
17441913 TCACAACTTACATAATTTACATAACTTACATAATTTAAAGATT-AAATT
1 TCATAACTTACATAATTTACATAACTTACATAATTTAAAG-TTCAAATT
** *
17441961 TCATAACTTACATAATTTACATAACTTACATAATACATAACTTACATAATT
1 TCATAACTTACATAATTTACATAACTTACATAATTTA-AAGTT-CA-AATT
17442012 TACATAACTTACATAAT
1 T-CATAACTTACATAAT
17442029 ACATAAATAT
Statistics
Matches: 185, Mismatches: 32, Indels: 50
0.69 0.12 0.19
Matches are distributed among these distances:
34 9 0.05
36 1 0.01
37 8 0.04
38 1 0.01
39 7 0.04
40 4 0.02
41 5 0.03
42 4 0.02
44 1 0.01
45 2 0.01
46 14 0.08
47 5 0.03
48 85 0.46
49 10 0.05
50 4 0.02
51 10 0.05
52 15 0.08
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (48 bp):
TCATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATT
Found at i:17441790 original size:30 final size:30
Alignment explanation
Indices: 17441750--17441931 Score: 145
Period size: 30 Copynumber: 5.8 Consensus size: 30
17441740 TAACTTACAT
17441750 AATTTACATAACTTACATAATTTAAAGTTCA
1 AATTT-CATAACTTACATAATTTAAAGTTCA
* *
17441781 AATTTCATAACTTAAATAATTTAAAAAACTTACA
1 AATTTCATAACTTACATAATTT---AAAGTT-CA
* *
17441815 TAA-TACATAACTAACATAATTTAAAGTTCA
1 -AATTTCATAACTTACATAATTTAAAGTTCA
* *
17441845 AATTTCATAACTTACATAATTTACA-TAACTA
1 AATTTCATAACTTACATAATTTAAAGT-TC-A
* * *
17441876 ACATAATACATAA-TTAGCATAGTTTAAAGATCA
1 A-AT--TTCATAACTTA-CATAATTTAAAGTTCA
*
17441909 AATTTCACAACTTACATAATTTA
1 AATTTCATAACTTACATAATTTA
17441932 CATAACTTAC
Statistics
Matches: 119, Mismatches: 18, Indels: 29
0.72 0.11 0.17
Matches are distributed among these distances:
29 3 0.03
30 51 0.43
31 15 0.13
32 4 0.03
33 10 0.08
34 34 0.29
35 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.36
Consensus pattern (30 bp):
AATTTCATAACTTACATAATTTAAAGTTCA
Found at i:17441823 original size:64 final size:64
Alignment explanation
Indices: 17441738--17442028 Score: 326
Period size: 64 Copynumber: 4.5 Consensus size: 64
17441728 TTAAATTAAT
*
17441738 CATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTAAATAATTT
1 CATAACTTACATAA--TACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACATAATTT
17441803 A
64 A
* * *
17441804 AAAAACTTACATAATACATAACTAACATAATTTAAAGTTCAAATTTCATAACTTACATAATTTA
1 CATAACTTACATAATACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACATAATTTA
* * * *
17441868 CATAACTAACATAATACATAA-TTAGCATAGTTTAAAGATCAAATTTCACAACTTACATAATTTA
1 CATAACTTACATAATACATAACTTA-CATAATTTAAAGTTCAAATTTCATAACTTACATAATTTA
** * *
17441932 CATAACTTACATAATTTA-AAGATT--A-AATTTCATAACTTACATAATTTACATAACTTACATA
1 CATAACTTACATAATACATAA-CTTACATAATTT-A-AAGTT-CA-AATTT-CATAACTTACATA
17441993 A--TA
60 ATTTA
17441996 CATAACTTACATAATTTACATAACTTACATAAT
1 CATAACTTACATAA--TACATAACTTACATAAT
17442029 ACATAAATAT
Statistics
Matches: 190, Mismatches: 21, Indels: 25
0.81 0.09 0.11
Matches are distributed among these distances:
61 4 0.02
62 2 0.01
63 7 0.04
64 135 0.71
65 7 0.04
66 29 0.15
67 2 0.01
68 1 0.01
69 3 0.02
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (64 bp):
CATAACTTACATAATACATAACTTACATAATTTAAAGTTCAAATTTCATAACTTACATAATTTA
Found at i:17441880 original size:112 final size:111
Alignment explanation
Indices: 17441727--17441994 Score: 316
Period size: 112 Copynumber: 2.4 Consensus size: 111
17441717 TTTTTATTTT
*
17441727 ATTAAATTAATCATAACTTACATAATTTACATAACTTACATAATTTAAAGTTCAAATT-TCATAA
1 ATTAAATT--TCATAACTTACATAATTTACATAACTTACATAA-TTAAA--T--AATTAGCATAA
17441791 CTT-AA-AT-AATTTAAAAAACTTACATAA-TACATAACTAACATAATTTAAAG
59 CTTAAAGATAAATTT-AAAAACTTACATAATTACATAACTAACATAATTTAAAG
* * **
17441841 -TTCAAATTTCATAACTTACATAATTTACATAACTAACATAA-TACATAATTAGCATAGTTTAAA
1 ATT-AAATTTCATAACTTACATAATTTACATAACTTACATAATTAAATAATTAGCATAACTTAAA
* * *
17441904 GATCAAATTTCACAACTTACATAATTTACATAACTTACATAATTTAAAG
65 GAT-AAATTTAAAAACTTACATAA-TTACATAACTAACATAATTTAAAG
17441953 ATTAAATTTCATAACTTACATAATTTACATAACTTACATAAT
1 ATTAAATTTCATAACTTACATAATTTACATAACTTACATAAT
17441995 ACATAACTTA
Statistics
Matches: 135, Mismatches: 9, Indels: 21
0.82 0.05 0.13
Matches are distributed among these distances:
106 4 0.03
107 6 0.04
108 3 0.02
109 2 0.01
110 15 0.11
111 5 0.04
112 91 0.67
113 4 0.03
114 5 0.04
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (111 bp):
ATTAAATTTCATAACTTACATAATTTACATAACTTACATAATTAAATAATTAGCATAACTTAAAG
ATAAATTTAAAAACTTACATAATTACATAACTAACATAATTTAAAG
Found at i:17441896 original size:16 final size:16
Alignment explanation
Indices: 17441807--17441888 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 16
17441797 TAATTTAAAA
*
17441807 AACTTACATAATACAT
1 AACTAACATAATACAT
**
17441823 AACTAACATAATTTA-
1 AACTAACATAATACAT
* * *
17441838 AAGT-TCA-AATTTCAT
1 AACTAACATAA-TACAT
*
17441853 AACTTACATAATTTACAT
1 AACTAACATAA--TACAT
17441871 AACTAACATAATACAT
1 AACTAACATAATACAT
17441887 AA
1 AA
17441889 TTAGCATAGT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
13 2 0.04
14 5 0.10
15 6 0.12
16 21 0.41
17 2 0.04
18 15 0.29
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (16 bp):
AACTAACATAATACAT
Found at i:17441995 original size:112 final size:110
Alignment explanation
Indices: 17441807--17442013 Score: 337
Period size: 112 Copynumber: 1.9 Consensus size: 110
17441797 TAATTTAAAA
17441807 AACTTACATAATACATAACTAACATAATTTAAAGTTCAAATTTCATAACTTACATAATTTACATA
1 AACTTACATAATACATAACTAACATAATTTAAAGTTCAAATTTCATAACTTACATAATTTACATA
*
17441872 ACTAACATAATACATAA-TTAGCATAGTTTAAAGATCAAATTTCAC
66 ACTAACATAATACATAACTTA-CATAATTTAAAGATCAAATTTCAC
*
17441917 AACTTACATAATTTACATAACTTACATAATTTAAAGATT-AAATTTCATAACTTACATAATTTAC
1 AACTTACATAA--TACATAACTAACATAATTTAAAG-TTCAAATTTCATAACTTACATAATTTAC
*
17441981 ATAACTTACATAATACATAACTTACATAATTTA
63 ATAACTAACATAATACATAACTTACATAATTTA
17442014 CATAACTTAC
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
110 11 0.12
112 74 0.82
113 5 0.06
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (110 bp):
AACTTACATAATACATAACTAACATAATTTAAAGTTCAAATTTCATAACTTACATAATTTACATA
ACTAACATAATACATAACTTACATAATTTAAAGATCAAATTTCAC
Found at i:17443801 original size:12 final size:12
Alignment explanation
Indices: 17443784--17443809 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17443774 CAGATCGAGG
17443784 GATGAATCTGAT
1 GATGAATCTGAT
17443796 GATGAATCTGAT
1 GATGAATCTGAT
17443808 GA
1 GA
17443810 AGAAGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:17447923 original size:31 final size:31
Alignment explanation
Indices: 17447873--17447937 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
17447863 TGTATTTTTT
*
17447873 ATGCTACATTTTCTATTTTTGGTTGGATTTA
1 ATGCTACATTTGCTATTTTTGGTTGGATTTA
* *
17447904 ATGCTATATTTGCTGTTTTTGGTTGGATTTA
1 ATGCTACATTTGCTATTTTTGGTTGGATTTA
17447935 ATG
1 ATG
17447938 TAGGAAGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.18, C:0.08, G:0.20, T:0.54
Consensus pattern (31 bp):
ATGCTACATTTGCTATTTTTGGTTGGATTTA
Found at i:17448102 original size:42 final size:42
Alignment explanation
Indices: 17448010--17448117 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
17448000 GTGAAAAAAG
* * *
17448010 CGCCGTTAAAAGTCATGGC-TTTAGCGGTGCTCCCCAACAAA
1 CGCCGCTAAAAGCCATGGCTTTTAGCGGCGCTCCCCAACAAA
* * *
17448051 CACCACTAAAAGCCATGGCTTTTATCGGCGCTCCCCAACAAA
1 CGCCGCTAAAAGCCATGGCTTTTAGCGGCGCTCCCCAACAAA
17448093 CGCCGCTAAAAGCCATGGCTTTTAG
1 CGCCGCTAAAAGCCATGGCTTTTAG
17448118 AAACACTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
41 15 0.26
42 42 0.74
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (42 bp):
CGCCGCTAAAAGCCATGGCTTTTAGCGGCGCTCCCCAACAAA
Found at i:17450141 original size:29 final size:29
Alignment explanation
Indices: 17450099--17450297 Score: 215
Period size: 29 Copynumber: 7.0 Consensus size: 29
17450089 GCATGAATAT
**
17450099 GAATGTGATTTGGGCCTAATGGGTTATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
17450128 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
17450157 GAATGAGA-TTGGGCCTAGTGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
17450185 GATTGTGATTTGGGCCTAATAGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* ** * *
17450214 GAATGAGA-TTAAGCCTAGTGGGCAATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
17450242 GAATGTGATTTGCGCCTAATGGACCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
** *
17450271 GAATAAGA-TTGGGCCTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
17450298 TGCATGTATG
Statistics
Matches: 139, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
28 62 0.45
29 77 0.55
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:17450185 original size:57 final size:57
Alignment explanation
Indices: 17450095--17450297 Score: 280
Period size: 57 Copynumber: 3.5 Consensus size: 57
17450085 GAAAGCATGA
* * **
17450095 ATATGAATGTGATTTGGGCCTAATGGGTTATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGA-TTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
* *
17450153 ATATGAATGAGATTGGGCCTAGTGGGCCATACGATTGTGATTTGGGCCTAATAGGCC
1 ATATGAATGAGATTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
* ** * * *
17450210 ATACGAATGAGATTAAGCCTAGTGGGCAATACGAATGTGATTTGCGCCTAATGGACC
1 ATATGAATGAGATTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
*
17450267 ATATGAATAAGATTGGGCCTAGTGGGCCATA
1 ATATGAATGAGATTGGGCCTAGTGGGCCATA
17450298 TGCATGTATG
Statistics
Matches: 126, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
57 115 0.91
58 11 0.09
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (57 bp):
ATATGAATGAGATTGGGCCTAGTGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
Found at i:17450259 original size:86 final size:86
Alignment explanation
Indices: 17450102--17450269 Score: 203
Period size: 86 Copynumber: 2.0 Consensus size: 86
17450092 TGAATATGAA
* ** * ** * *
17450102 TGTGATTTGGGCCTAATGGGTTATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGATT
1 TGTGATTTGGGCCTAATAGGCCATACGAATGAGATTTAAGCCTAATGGGCAATACGAATGAGATT
* * *
17450167 GGGCCTAGTGGGCCATACGAT
66 GCGCCTAATGGACCATACGAT
* *
17450188 TGTGATTTGGGCCTAATAGGCCATACGAATGAGA-TTAAGCCTAGTGGGCAATACGAATGTGATT
1 TGTGATTTGGGCCTAATAGGCCATACGAATGAGATTTAAGCCTAATGGGCAATACGAATGAGA-T
17450252 TGCGCCTAATGGACCATA
65 TGCGCCTAATGGACCATA
17450270 TGAATAAGAT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 22 0.32
86 46 0.68
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (86 bp):
TGTGATTTGGGCCTAATAGGCCATACGAATGAGATTTAAGCCTAATGGGCAATACGAATGAGATT
GCGCCTAATGGACCATACGAT
Found at i:17451094 original size:27 final size:27
Alignment explanation
Indices: 17451027--17451094 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
17451017 CTAAGGTAAG
* * *
17451027 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATTCTGTA
* *
17451053 ATGGGCTGTGACCCAAATGATAT-TGTA
1 ATGGGCTTTGGCCCAAATGAT-TCTGTA
17451080 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
17451095 CGTATGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 6 0.18
27 26 0.79
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATTCTGTA
Found at i:17458969 original size:13 final size:13
Alignment explanation
Indices: 17458951--17458977 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17458941 GAAGCAATCG
17458951 CACACGGGCGTGT
1 CACACGGGCGTGT
17458964 CACACGGGCGTGT
1 CACACGGGCGTGT
17458977 C
1 C
17458978 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:17462424 original size:47 final size:47
Alignment explanation
Indices: 17462368--17462592 Score: 229
Period size: 47 Copynumber: 4.7 Consensus size: 47
17462358 GTGCGAATAA
* * *
17462368 TACCTTGATTTGGCTACGGGCAATGATATAGGTA-TTATGAGAGGATT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTT-TGAGAGAATT
* * * *
17462415 TATCTTGATTTGGTTACGGGCCATGGTATAGGTACTTTGGGATAAGTTAATAA
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTT--GA-GAG--AAT-T
* * *
17462468 TACCTTGATTTGGCTACGGGCAATGATATAGGTA-TTATGAGAGGATT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTT-TGAGAGAATT
* * * * *
17462515 TACCTTGATTTGGTTACAGGCCATGGTATAGGTACTTTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGAGAGAATT
17462562 TACCTTGATTTGGCTACGGGCCATGGTATAG
1 TACCTTGATTTGGCTACGGGCCATGGTATAG
17462593 TTGCTTATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
47 96 0.66
48 6 0.04
49 2 0.01
50 4 0.03
51 2 0.01
52 4 0.03
53 31 0.21
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGAGAGAATT
Found at i:17462478 original size:100 final size:100
Alignment explanation
Indices: 17462363--17462563 Score: 384
Period size: 100 Copynumber: 2.0 Consensus size: 100
17462353 TTCATGTGCG
*
17462363 AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTATCTTGATTTGG
1 AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTACCTTGATTTGG
*
17462428 TTACGGGCCATGGTATAGGTACTTTGGGATAAGTT
66 TTACAGGCCATGGTATAGGTACTTTGGGATAAGTT
17462463 AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTACCTTGATTTGG
1 AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTACCTTGATTTGG
17462528 TTACAGGCCATGGTATAGGTACTTTGGGATAAGTT
66 TTACAGGCCATGGTATAGGTACTTTGGGATAAGTT
17462563 A
1 A
17462564 CCTTGATTTG
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.35
Consensus pattern (100 bp):
AATAATACCTTGATTTGGCTACGGGCAATGATATAGGTATTATGAGAGGATTTACCTTGATTTGG
TTACAGGCCATGGTATAGGTACTTTGGGATAAGTT
Found at i:17469757 original size:19 final size:19
Alignment explanation
Indices: 17469735--17469794 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
17469725 AGTCTGAAGG
17469735 AAGTACACGAGTCATTCTC
1 AAGTACACGAGTCATTCTC
* * * *
17469754 AAGTA-AAG-GACCTGT-TG
1 AAGTACACGAGTCAT-TCTC
17469771 AAGTACACGAGTCATTCTC
1 AAGTACACGAGTCATTCTC
17469790 AAGTA
1 AAGTA
17469795 AAGGACCTGT
Statistics
Matches: 29, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
17 9 0.31
18 6 0.21
19 14 0.48
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (19 bp):
AAGTACACGAGTCATTCTC
Found at i:17469780 original size:36 final size:36
Alignment explanation
Indices: 17469734--17469805 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
17469724 AAGTCTGAAG
17469734 GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
1 GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
17469770 GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
1 GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
17469806 CATAAAGATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (36 bp):
GAAGTACACGAGTCATTCTCAAGTAAAGGACCTGTT
Found at i:17470520 original size:55 final size:55
Alignment explanation
Indices: 17470415--17470541 Score: 132
Period size: 55 Copynumber: 2.3 Consensus size: 55
17470405 CGAGTATGCC
* * *
17470415 AAAACAACACGGGCGTGCGACACTCCTGTGTGGAAGAACCATGGGTGAACC-GTTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTGGAACAACCATGGGTGAACCTG-TT
* * * * *
17470470 AAAACAACACGGGTGTGCTATACGCCCGTGTGGAACACCCGT-GGTCGAACCTGTT
1 AAAACAACACGGGCGTGCGACACGCCCGTGTGGAACAACCATGGGT-GAACCTGTT
**
17470525 AAATTAACACGGGCGTG
1 AAAACAACACGGGCGTG
17470542 GAGCTTGCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 3 0.05
55 55 0.93
56 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.19
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCGACACGCCCGTGTGGAACAACCATGGGTGAACCTGTT
Found at i:17479524 original size:11 final size:11
Alignment explanation
Indices: 17479503--17479527 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17479493 TTCATTTTCC
17479503 TTTAATTTTAG
1 TTTAATTTTAG
17479514 TTTAATTTTAG
1 TTTAATTTTAG
17479525 TTT
1 TTT
17479528 TTACAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAG
Found at i:17483254 original size:12 final size:12
Alignment explanation
Indices: 17483237--17483262 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17483227 ATAAACACCA
17483237 AAAATATTTTTT
1 AAAATATTTTTT
17483249 AAAATATTTTTT
1 AAAATATTTTTT
17483261 AA
1 AA
17483263 CTCGGATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAAATATTTTTT
Found at i:17484425 original size:4 final size:4
Alignment explanation
Indices: 17484416--17484445 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
17484406 TAGATACAAT
17484416 TTTA TTTA -TTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
17484446 TACTAACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:17485318 original size:13 final size:13
Alignment explanation
Indices: 17485300--17485326 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17485290 TACATCCACT
17485300 AGACTAGGAGTAC
1 AGACTAGGAGTAC
17485313 AGACTAGGAGTAC
1 AGACTAGGAGTAC
17485326 A
1 A
17485327 TGAACCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.30, T:0.15
Consensus pattern (13 bp):
AGACTAGGAGTAC
Found at i:17487243 original size:46 final size:46
Alignment explanation
Indices: 17487193--17487365 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
17487183 TGGTTGAGCA
*
17487193 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
17487239 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
** * * **
17487286 TCCGAACTCGAAGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
17487332 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17487366 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 7 0.07
45 3 0.03
46 58 0.57
47 26 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:17487349 original size:93 final size:93
Alignment explanation
Indices: 17487190--17487360 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
17487180 GGATGGTTGA
** * * *
17487190 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGAAGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
17487255 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
17487283 GCATCCGAACTCGAAGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGAAGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
17487348 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
17487361 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGAAGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17491762 original size:11 final size:11
Alignment explanation
Indices: 17491746--17491784 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17491736 TGGCTTTTAA
*
17491746 TAAAATTATGT
1 TAAAATTATAT
17491757 TAAAATTATAT
1 TAAAATTATAT
*
17491768 TATAATTATAAT
1 TAAAATTAT-AT
17491780 TAAAA
1 TAAAA
17491785 ATAATAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
TAAAATTATAT
Found at i:17492982 original size:21 final size:20
Alignment explanation
Indices: 17492956--17492995 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17492946 GTTAGATTTA
*
17492956 ATTTGAATGAAGTAAATGTTT
1 ATTTG-ATGAAATAAATGTTT
*
17492977 ATTTGATTAAATAAATGTT
1 ATTTGATGAAATAAATGTT
17492996 ATAAATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTTGATGAAATAAATGTTT
Found at i:17505836 original size:28 final size:29
Alignment explanation
Indices: 17505802--17505916 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
17505792 TACCTGTATC
* *
17505802 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
17505830 TAGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
17505859 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
17505888 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
17505916 T
1 T
17505917 TCATTCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:17505863 original size:57 final size:58
Alignment explanation
Indices: 17505793--17505903 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
17505783 AATTTCACAT
* *
17505793 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATAGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
* * * *
17505850 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCA
17505904 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
Found at i:17507287 original size:16 final size:16
Alignment explanation
Indices: 17507266--17507298 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17507256 GAAAATTCAA
*
17507266 GATTTCGGGATTTTTG
1 GATTTCGAGATTTTTG
17507282 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
17507298 G
1 G
17507299 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:17513543 original size:29 final size:28
Alignment explanation
Indices: 17513511--17513571 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
17513501 AATCACCTAT
*
17513511 ATATGGCCTATTAGGCCCAAACCACATTC
1 ATATGGCCCATTAGGCCC-AACCACATTC
* **
17513540 ATATGGCCCGTTAGGCCCAGTCACATTC
1 ATATGGCCCATTAGGCCCAACCACATTC
17513568 ATAT
1 ATAT
17513572 TCATGCTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAACCACATTC
Found at i:17513802 original size:16 final size:16
Alignment explanation
Indices: 17513781--17513826 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
17513771 GTATCCAAAC
*
17513781 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
*
17513797 TTTCAGCTTTTCGACT
1 TTTCAGCTTTTCGACA
*
17513813 TTTCAGCATTTCGA
1 TTTCAGCTTTTCGA
17513827 TTTTTGTCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:17514838 original size:20 final size:20
Alignment explanation
Indices: 17514813--17514853 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17514803 TCCTTTAATA
17514813 ATTAAATTATAATTTCTTCT
1 ATTAAATTATAATTTCTTCT
17514833 ATTAAATTATAATTTCTTCT
1 ATTAAATTATAATTTCTTCT
17514853 A
1 A
17514854 CCCCTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTAAATTATAATTTCTTCT
Found at i:17514979 original size:16 final size:16
Alignment explanation
Indices: 17514953--17514994 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
17514943 ATAAAGAAAC
*
17514953 TTTGAGATTTCGGGATT
1 TTTG-GATTTCAGGATT
17514970 TTTGGATTTCAGGATT
1 TTTGGATTTCAGGATT
17514986 TTTGGATTT
1 TTTGGATTT
17514995 TGAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.17, C:0.05, G:0.26, T:0.52
Consensus pattern (16 bp):
TTTGGATTTCAGGATT
Found at i:17532724 original size:27 final size:28
Alignment explanation
Indices: 17532679--17532736 Score: 109
Period size: 27 Copynumber: 2.1 Consensus size: 28
17532669 TTCATGCAGC
17532679 ATTCCATTTTTTTTTCTTCCTCACAACT
1 ATTCCATTTTTTTTTCTTCCTCACAACT
17532707 ATTCCA-TTTTTTTTCTTCCTCACAACT
1 ATTCCATTTTTTTTTCTTCCTCACAACT
17532734 ATT
1 ATT
17532737 AACATGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.19, C:0.28, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTCCATTTTTTTTTCTTCCTCACAACT
Found at i:17533236 original size:19 final size:17
Alignment explanation
Indices: 17533189--17533236 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
17533179 ATTCAAATGC
*
17533189 ATATAAATTTATATATT
1 ATATAAATATATATATT
17533206 ATATAGACATATATATATT
1 ATATA-A-ATATATATATT
17533225 CATTATAAATAT
1 -A-TATAAATAT
17533237 CACCTAACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 14 0.54
20 2 0.08
21 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (17 bp):
ATATAAATATATATATT
Found at i:17533727 original size:43 final size:43
Alignment explanation
Indices: 17533661--17533746 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
17533651 AAATCGTACA
*
17533661 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
17533704 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
17533747 GAATCACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:17542389 original size:38 final size:38
Alignment explanation
Indices: 17542347--17542530 Score: 127
Period size: 38 Copynumber: 4.8 Consensus size: 38
17542337 GTTGGATTAG
*
17542347 CACTTATAAGGTTCTATTTGGAGTTTCGGTTAGATCAA
1 CACTTATAAGCTTCTATTTGGAGTTTCGGTTAGATCAA
* * * *
17542385 CACTTATGAGCTTCTATTTGGCGTTTTGGTTGGATCAA
1 CACTTATAAGCTTCTATTTGGAGTTTCGGTTAGATCAA
* * * * * * * *
17542423 CTCTTATGAGATTTTGTTTGGTGATTT-GGTTGGATCAG
1 CACTTATAAGCTTCTATTTGGAG-TTTCGGTTAGATCAA
* * * * * * *
17542461 CTCTTATGAGCTTTTGTTTGGTGTTTCGGTTGGATCAG
1 CACTTATAAGCTTCTATTTGGAGTTTCGGTTAGATCAA
* * * *
17542499 CTCTTATGAGCTTCTATCTGGTGTGTTCGGTT
1 CACTTATAAGCTTCTATTTGGAGT-TTCGGTT
17542531 GATATGACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
37 3 0.02
38 115 0.90
39 10 0.08
ACGTcount: A:0.16, C:0.14, G:0.26, T:0.45
Consensus pattern (38 bp):
CACTTATAAGCTTCTATTTGGAGTTTCGGTTAGATCAA
Found at i:17542429 original size:76 final size:76
Alignment explanation
Indices: 17542331--17542530 Score: 222
Period size: 76 Copynumber: 2.6 Consensus size: 76
17542321 TGCTTGGTGT
* * * * *
17542331 GTTTTGGTTGGATTAGCACTTATAAGGTTCTATTTGGAGTTTCGGTTAGATCAACACTTATGAGC
1 GTTTTGGTTGGATCAGCTCTTATGAGATTCTATTTGGTGTTTCGGTTAGATCAACACTTATGAGC
17542396 TTCTATTTGGC
66 TTCTATTTGGC
* * * * * *
17542407 GTTTTGGTTGGATCAACTCTTATGAGATTTTGTTTGGTGATTT-GGTTGGATCAGCTCTTATGAG
1 GTTTTGGTTGGATCAGCTCTTATGAGATTCTATTTGGTG-TTTCGGTTAGATCAACACTTATGAG
* * *
17542471 CTTTTGTTTGGT
65 CTTCTATTTGGC
* * *
17542483 GTTTCGGTTGGATCAGCTCTTATGAGCTTCTATCTGGTGTGTTCGGTT
1 GTTTTGGTTGGATCAGCTCTTATGAGATTCTATTTGGTGT-TTCGGTT
17542531 GATATGACGA
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
75 1 0.01
76 93 0.92
77 7 0.07
ACGTcount: A:0.16, C:0.12, G:0.27, T:0.45
Consensus pattern (76 bp):
GTTTTGGTTGGATCAGCTCTTATGAGATTCTATTTGGTGTTTCGGTTAGATCAACACTTATGAGC
TTCTATTTGGC
Done.