Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 74 of 311
Found at i:23063843 original size:25 final size:24
Alignment explanation
Indices: 23063802--23063852 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
23063792 TTCTTTTGCT
* *
23063802 TATTTTATTTAGTTTATGTTTATTA
1 TATTTTAGTTAGTTTAT-TATATTA
23063827 TATTTTAGTTA-TATTATTATATTA
1 TATTTTAGTTAGT-TTATTATATTA
23063851 TA
1 TA
23063853 ATATTCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTTAGTTAGTTTATTATATTA
Found at i:23066057 original size:21 final size:20
Alignment explanation
Indices: 23066031--23066078 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
23066021 AAAGCTTTAA
23066031 AGCTGAACAGAAACTCA-TAAG
1 AGCTGAACA-AAAC-CACTAAG
23066052 AGCTGAACAAAACCACGTAAG
1 AGCTGAACAAAACCAC-TAAG
23066073 AGCTGA
1 AGCTGA
23066079 GCCACCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.08
20 4 0.16
21 19 0.76
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (20 bp):
AGCTGAACAAAACCACTAAG
Found at i:23072865 original size:40 final size:40
Alignment explanation
Indices: 23072821--23073085 Score: 358
Period size: 40 Copynumber: 6.7 Consensus size: 40
23072811 GCTCCTCGTT
* *
23072821 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
23072861 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
23072901 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
23072941 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
23072981 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23073020 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23073061 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23073086 CATCATTCAA
Statistics
Matches: 204, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 32 0.16
40 157 0.77
41 13 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23073072 original size:119 final size:121
Alignment explanation
Indices: 23072821--23073085 Score: 360
Period size: 119 Copynumber: 2.2 Consensus size: 121
23072811 GCTCCTCGTT
* *
23072821 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
23072885 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
* * *
23072941 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* ** * *
23073004 GAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCA
23073061 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23073086 CATCATTCAA
Statistics
Matches: 128, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
118 3 0.02
119 68 0.53
120 55 0.43
121 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
Found at i:23080954 original size:40 final size:40
Alignment explanation
Indices: 23080846--23081065 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
23080836 GCTCCTCGTT
*
23080846 CAAATGCC-TCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
23080885 C-AATGCCTTCGGGAC-TAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
23080923 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
23080963 C-AATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23081000 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23081041 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23081066 CATCATTCAA
Statistics
Matches: 160, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
37 23 0.14
38 39 0.24
39 33 0.21
40 54 0.34
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23080999 original size:77 final size:79
Alignment explanation
Indices: 23080846--23081065 Score: 272
Period size: 77 Copynumber: 2.8 Consensus size: 79
23080836 GCTCCTCGTT
* *
23080846 CAAATGCC-TCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGAC-TAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGG
*
23080908 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
23080923 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTC-GG-CTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGA
*
23080986 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* * * * * *
23081000 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCG
23081064 GA
64 GA
23081066 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
76 4 0.03
77 56 0.45
78 49 0.40
79 4 0.03
80 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:23084298 original size:23 final size:22
Alignment explanation
Indices: 23084267--23084311 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
23084257 GAGGTCAAAA
23084267 GCCCATGTGAAGAGGAGCCACAC
1 GCCCATGTGAAGA-GAGCCACAC
* *
23084290 GCCCGTGTGAAGAGAGGCACAC
1 GCCCATGTGAAGAGAGCCACAC
23084312 TATCGTGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.29, C:0.29, G:0.33, T:0.09
Consensus pattern (22 bp):
GCCCATGTGAAGAGAGCCACAC
Found at i:23084339 original size:21 final size:22
Alignment explanation
Indices: 23084267--23084341 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
23084257 GAGGTCAAAA
* *
23084267 GCCCATGTGAAGAGGAGCCACAC
1 GCCCGTGTGAAGA-GAGGCACAC
23084290 GCCCGTGTGAAGAGAGGCACAC
1 GCCCGTGTGAAGAGAGGCACAC
*** **
23084312 TATCGTGTGACTA-AGGCACAC
1 GCCCGTGTGAAGAGAGGCACAC
23084333 GCCCGTGTG
1 GCCCGTGTG
23084342 GACCAGGGAC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
21 14 0.33
22 16 0.38
23 12 0.29
ACGTcount: A:0.25, C:0.28, G:0.32, T:0.15
Consensus pattern (22 bp):
GCCCGTGTGAAGAGAGGCACAC
Found at i:23090547 original size:21 final size:21
Alignment explanation
Indices: 23090523--23090570 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
23090513 TAATGATAAA
23090523 TGTATGAATTATGGACTTGTG
1 TGTATGAATTATGGACTTGTG
23090544 TGTATGAATTATGGACTTGTG
1 TGTATGAATTATGGACTTGTG
23090565 TGTATG
1 TGTATG
23090571 TATTGCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.04, G:0.29, T:0.44
Consensus pattern (21 bp):
TGTATGAATTATGGACTTGTG
Found at i:23091077 original size:26 final size:26
Alignment explanation
Indices: 23091006--23091069 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
23090996 ACATGTCAAA
*
23091006 AAATGGAAGCCTTTGTGGCGTATTTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
*
23091032 AAATGGAAGCTTTTGTGGCGTATCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
23091058 AAATGGAAGCCT
1 AAATGGAAGCCT
23091070 CTATGGCGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (26 bp):
AAATGGAAGCCTTTGTGGCGTATCTG
Found at i:23094912 original size:3 final size:3
Alignment explanation
Indices: 23094906--23094943 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
23094896 CCCTAATAAC
*
23094906 AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA AG- AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
23094944 GACTATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:23098285 original size:21 final size:20
Alignment explanation
Indices: 23098246--23098285 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23098236 GCTTATTTAG
*
23098246 GTATAAATTAAAGGTTAAGA
1 GTATAAATTAAAGGATAAGA
23098266 GTATAAATTAAAAGGATAAG
1 GTATAAATT-AAAGGATAAG
23098286 GACTTGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.28
Consensus pattern (20 bp):
GTATAAATTAAAGGATAAGA
Found at i:23100661 original size:31 final size:31
Alignment explanation
Indices: 23100623--23100684 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
23100613 ATACAGCAAC
23100623 TTAGATTGAGTAAAGGGCGCTAATCAATGCA
1 TTAGATTGAGTAAAGGGCGCTAATCAATGCA
23100654 TTAGATTGAGTAAAGGGCGCTAATCAATGCA
1 TTAGATTGAGTAAAGGGCGCTAATCAATGCA
23100685 CCTTTCCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (31 bp):
TTAGATTGAGTAAAGGGCGCTAATCAATGCA
Found at i:23110068 original size:20 final size:20
Alignment explanation
Indices: 23110030--23110068 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23110020 CTCTCCTCAC
* * *
23110030 AACCACCAATTATATCATAG
1 AACCACAAATCATACCATAG
23110050 AACCACAAATCATACCATA
1 AACCACAAATCATACCATA
23110069 CAAATAGATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.21
Consensus pattern (20 bp):
AACCACAAATCATACCATAG
Found at i:23121803 original size:15 final size:15
Alignment explanation
Indices: 23121771--23121826 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
23121761 ATTTAAAATA
23121771 TTTTATATTTATACATTT
1 TTTTATATTT-T--ATTT
23121789 TTTTATATTTTATTT
1 TTTTATATTTTATTT
* * *
23121804 ATTTACAATTTATTT
1 TTTTATATTTTATTT
23121819 TTTTATAT
1 TTTTATAT
23121827 AGTGTTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
15 21 0.66
17 1 0.03
18 10 0.31
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATATTTTATTT
Found at i:23121810 original size:25 final size:27
Alignment explanation
Indices: 23121768--23121819 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
23121758 TATATTTAAA
23121768 ATATTTTATATTTATAC-ATTT-TTTT
1 ATATTTTATATTTATACAATTTATTTT
*
23121793 ATATTTTAT-TTATTTACAATTTATTTT
1 ATATTTTATATT-TATACAATTTATTTT
23121820 TTTATATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.09
25 13 0.57
26 4 0.17
27 4 0.17
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (27 bp):
ATATTTTATATTTATACAATTTATTTT
Found at i:23123710 original size:26 final size:26
Alignment explanation
Indices: 23123642--23123710 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 26
23123632 AAAACAAGAC
23123642 TTGTCATTGTATCAAGCTATGTGAAG
1 TTGTCATTGTATCAAGCTATGTGAAG
*
23123668 --GTC--TAT-TCAAGCTATGTGAAG
1 TTGTCATTGTATCAAGCTATGTGAAG
23123689 TTGTCATTGTATCAAGCTATGT
1 TTGTCATTGTATCAAGCTATGT
23123711 AAAGGTAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 3 0.08
24 3 0.08
25 2 0.06
26 11 0.31
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (26 bp):
TTGTCATTGTATCAAGCTATGTGAAG
Found at i:23124987 original size:13 final size:13
Alignment explanation
Indices: 23124968--23125000 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
23124958 TTATTTTATT
23124968 AATATTTTAATAA
1 AATATTTTAATAA
*
23124981 GATATTTTAATAA
1 AATATTTTAATAA
23124994 AATATTT
1 AATATTT
23125001 ATTATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (13 bp):
AATATTTTAATAA
Found at i:23129598 original size:27 final size:27
Alignment explanation
Indices: 23129568--23129640 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
23129558 CATATTAACA
*
23129568 TACAGGGGTATTACGGTCATTTTACCC
1 TACAGGGGTATTACGATCATTTTACCC
* *
23129595 TACAAGGGTAATACGATCATTTTACCC
1 TACAGGGGTATTACGATCATTTTACCC
*
23129622 TACAGAGGTATTACGATCA
1 TACAGGGGTATTACGATCA
23129641 GATAACGACC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (27 bp):
TACAGGGGTATTACGATCATTTTACCC
Found at i:23136136 original size:27 final size:27
Alignment explanation
Indices: 23136014--23136146 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 27
23136004 AATCGCCATA
* *
23136014 TTACCCTGCAGGGGCATTACGGTCATT
1 TTACCCTACAGGGGTATTACGGTCATT
* *
23136041 TTACCCTACAGGGGCATTACGGTTATT
1 TTACCCTACAGGGGTATTACGGTCATT
* * *
23136068 TTACCCTACAGGGTTATTATGGTTATT
1 TTACCCTACAGGGGTATTACGGTCATT
* *
23136095 TTAGCCTACAGGGGTATTACGATCATT
1 TTACCCTACAGGGGTATTACGGTCATT
* *
23136122 TTACCCTACAGGGGTAGTACAGTCA
1 TTACCCTACAGGGGTATTACGGTCA
23136147 GATAACGACC
Statistics
Matches: 92, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (27 bp):
TTACCCTACAGGGGTATTACGGTCATT
Found at i:23139170 original size:16 final size:15
Alignment explanation
Indices: 23139138--23139171 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
23139128 ATTAATGAAC
23139138 ATTCTTTTTTCCTTT
1 ATTCTTTTTTCCTTT
*
23139153 ATTCTTTTATTTCTTT
1 ATTCTTTT-TTCCTTT
23139169 ATT
1 ATT
23139172 TATCTTTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTCTTTTTTCCTTT
Found at i:23139600 original size:29 final size:30
Alignment explanation
Indices: 23139568--23139628 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
23139558 TAGGAATAGA
*
23139568 AAATTCTATTAGGATATCTTAGGTT-AATT
1 AAATTCCATTAGGATATCTTAGGTTAAATT
* *
23139597 AAATTCCATTAGGTTATTTTAGGTTAAATT
1 AAATTCCATTAGGATATCTTAGGTTAAATT
23139627 AA
1 AA
23139629 TTAATTAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (30 bp):
AAATTCCATTAGGATATCTTAGGTTAAATT
Found at i:23144208 original size:27 final size:27
Alignment explanation
Indices: 23144172--23144228 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
23144162 ACATATTTAA
23144172 TAATAATGATTAAAGAATGTTGAAATT
1 TAATAATGATTAAAGAATGTTGAAATT
23144199 TAATAATGATTAAAGAATGTTGAAATT
1 TAATAATGATTAAAGAATGTTGAAATT
23144226 TAA
1 TAA
23144229 CTTTCTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (27 bp):
TAATAATGATTAAAGAATGTTGAAATT
Found at i:23149076 original size:3 final size:3
Alignment explanation
Indices: 23149068--23149118 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
23149058 ATGAGTGGAC
*
23149068 AAT AAT AAT GAT AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23149114 AAT AA
1 AAT AA
23149119 ATGTATATGC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23149314 original size:4 final size:4
Alignment explanation
Indices: 23149305--23149412 Score: 60
Period size: 4 Copynumber: 27.0 Consensus size: 4
23149295 AAATAAAAGG
* * * * * *
23149305 TAAA TAAA TAAA TGAA T-GA TATA TGAA TAAA TAAG TAAA CAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* * * * * *
23149352 TGAG TAAAA TAAA AAGAA T-AA TGAA TAAA T-AA TCAAG TAAA TAAG TAAA
1 TAAA T-AAA TAAA TA-AA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA TAAA
23149401 TAAA TAAA TAAA
1 TAAA TAAA TAAA
23149413 AGGATTAAAG
Statistics
Matches: 77, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
3 8 0.10
4 63 0.82
5 6 0.08
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:23152187 original size:18 final size:18
Alignment explanation
Indices: 23152141--23152194 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 18
23152131 CCTTTTAAAC
23152141 TATAATA-TTATTA-TAA
1 TATAATATTTATTATTAA
*
23152157 TA-AAT-TTTA-TATTTA
1 TATAATATTTATTATTAA
23152172 TATAATATTTATTATTAA
1 TATAATATTTATTATTAA
23152190 T-TAAT
1 TATAAT
23152195 TCATATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 2 0.06
15 10 0.32
16 5 0.16
17 8 0.26
18 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATAATATTTATTATTAA
Found at i:23152201 original size:32 final size:33
Alignment explanation
Indices: 23152141--23152218 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 33
23152131 CCTTTTAAAC
* *
23152141 TATAATA-TTATTA-TAATAAATTTTATATTTA
1 TATAATATTTATTATTAATAAATTTCATATTAA
*
23152172 TATAATATTTATTATTAATTAA-TTCATATTAA
1 TATAATATTTATTATTAATAAATTTCATATTAA
*
23152204 T-TCATTATTTATTAT
1 TAT-AATATTTATTAT
23152219 ATATATAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 8 0.20
32 26 0.65
33 6 0.15
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (33 bp):
TATAATATTTATTATTAATAAATTTCATATTAA
Found at i:23167244 original size:18 final size:18
Alignment explanation
Indices: 23167221--23167266 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
23167211 ATTTTTCTGT
*
23167221 TTAAAAAAATACAGAAAG
1 TTAAAAAAATACAGAAAA
* *
23167239 TTAAAAAAAGAGAGAAAA
1 TTAAAAAAATACAGAAAA
*
23167257 TAAAAAAAAT
1 TTAAAAAAAT
23167267 TGTAAAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (18 bp):
TTAAAAAAATACAGAAAA
Found at i:23171376 original size:18 final size:18
Alignment explanation
Indices: 23171350--23171384 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23171340 ATTCGAGTTG
*
23171350 ACTCGAATAACTCGATTA
1 ACTCAAATAACTCGATTA
23171368 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
23171385 TGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:23171405 original size:21 final size:23
Alignment explanation
Indices: 23171365--23171406 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23171355 AATAACTCGA
23171365 TTAACTCAAATAACTCGATTTGT
1 TTAACTCAAATAACTCGATTTGT
*
23171388 TTAACTCGAA-AA-TCGATTT
1 TTAACTCAAATAACTCGATTT
23171407 TTTTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (23 bp):
TTAACTCAAATAACTCGATTTGT
Found at i:23174410 original size:30 final size:31
Alignment explanation
Indices: 23174379--23174437 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
23174369 AATTGTATAA
*
23174379 TTCATATTTGAGTTAAACCGAAAAACTTAAT
1 TTCATATTCGAGTTAAACCGAAAAACTTAAT
** * *
23174410 TTTTTATTCGAGTTGATCCGAAAAACTT
1 TTCATATTCGAGTTAAACCGAAAAACTT
23174438 GATTAACTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (31 bp):
TTCATATTCGAGTTAAACCGAAAAACTTAAT
Found at i:23181607 original size:22 final size:25
Alignment explanation
Indices: 23181561--23181616 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 25
23181551 TAGAATTTTA
*
23181561 AATCTATATAATATTTTATTATATT
1 AATCTATATAATATTGTATTATATT
23181586 AATCTA-A-AATATTGTA-TATATT
1 AATCTATATAATATTGTATTATATT
*
23181608 AATATATAT
1 AATCTATAT
23181617 TTAGCAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 11 0.41
23 9 0.33
24 1 0.04
25 6 0.22
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
AATCTATATAATATTGTATTATATT
Found at i:23184536 original size:14 final size:14
Alignment explanation
Indices: 23184516--23184548 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23184506 ATGAGTGAAT
23184516 GGAAGCCAT-TTTG
1 GGAAGCCATGTTTG
23184529 GTGAAGCCATGTTTG
1 G-GAAGCCATGTTTG
23184544 GGAAG
1 GGAAG
23184549 GTCTGCTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 12 0.67
15 5 0.28
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (14 bp):
GGAAGCCATGTTTG
Found at i:23188522 original size:31 final size:30
Alignment explanation
Indices: 23188478--23188593 Score: 98
Period size: 31 Copynumber: 3.9 Consensus size: 30
23188468 ATCAACTTAA
* *
23188478 GAAAAAAGTCAAGTTTAGGTACCATATTAG
1 GAAAAATGTCAAGTTTAGGTACCAAATTAG
23188508 GAAAAAGTGTCAAGTTT-GAGTACCAAATT-G
1 GAAAAA-TGTCAAGTTTAG-GTACCAAATTAG
* * *
23188538 GATAAAA---AAAATTTAGATACCAAATTAG
1 GA-AAAATGTCAAGTTTAGGTACCAAATTAG
* *
23188566 GAAAAAATGTCAAGTTCAGGTACAAAAT
1 G-AAAAATGTCAAGTTTAGGTACCAAAT
23188594 ATTATATTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
27 14 0.21
28 7 0.10
29 1 0.01
30 10 0.15
31 35 0.52
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.25
Consensus pattern (30 bp):
GAAAAATGTCAAGTTTAGGTACCAAATTAG
Found at i:23189579 original size:30 final size:29
Alignment explanation
Indices: 23189543--23189599 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
23189533 AGGAGAAGAA
* *
23189543 GTTGTGTTTGGGTTTTGAGAAAAAATTAGG
1 GTTGTGTTTAGGATTTGA-AAAAAATTAGG
23189573 GTTGTGTTTAGGATTTGAAAAAAATTA
1 GTTGTGTTTAGGATTTGAAAAAAATTA
23189600 ATTAAGAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (29 bp):
GTTGTGTTTAGGATTTGAAAAAAATTAGG
Found at i:23189934 original size:49 final size:49
Alignment explanation
Indices: 23189879--23190047 Score: 293
Period size: 49 Copynumber: 3.4 Consensus size: 49
23189869 GAAAGAATGT
*
23189879 TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTACTAGA
1 TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
*
23189928 TTTATTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGA
1 TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
*
23189977 TTTAATTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
1 TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
23190026 TTTATTTTTTTTATGTAATTTA
1 TTTA--TTTTTTATGTAATTTA
23190048 CTTGGCATGT
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
49 98 0.87
51 15 0.13
ACGTcount: A:0.22, C:0.02, G:0.14, T:0.62
Consensus pattern (49 bp):
TTTATTTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGA
Found at i:23190145 original size:27 final size:27
Alignment explanation
Indices: 23190104--23190176 Score: 137
Period size: 27 Copynumber: 2.7 Consensus size: 27
23190094 TAAAAGATGA
*
23190104 GACCATTGAGATGGAATTTGTGAATGG
1 GACCATTGAGTTGGAATTTGTGAATGG
23190131 GACCATTGAGTTGGAATTTGTGAATGG
1 GACCATTGAGTTGGAATTTGTGAATGG
23190158 GACCATTGAGTTGGAATTT
1 GACCATTGAGTTGGAATTT
23190177 ACGAGATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.08, G:0.32, T:0.33
Consensus pattern (27 bp):
GACCATTGAGTTGGAATTTGTGAATGG
Found at i:23191723 original size:14 final size:14
Alignment explanation
Indices: 23191704--23191738 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
23191694 TATATATATT
*
23191704 TTCTAATGATACTA
1 TTCTAACGATACTA
23191718 TTCTAACGATACTA
1 TTCTAACGATACTA
23191732 TTCTAAC
1 TTCTAAC
23191739 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:23192412 original size:33 final size:34
Alignment explanation
Indices: 23192346--23192440 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 34
23192336 CAGTCTAGTA
* ** *
23192346 CCACCGCAGTACAACACTCCTCCAGGC-CTGTAT
1 CCACCACAGTACTCCACTCCTCCCGGCTCTGTAT
** *
23192379 CCACTGCATTACTCCACTCCTCCCGGCTC-GTAT
1 CCACCACAGTACTCCACTCCTCCCGGCTCTGTAT
23192412 CCACCACAGTACTCCACTCCTCCCGGCTC
1 CCACCACAGTACTCCACTCCTCCCGGCTC
23192441 AAGTTCATCG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 52 0.98
34 1 0.02
ACGTcount: A:0.19, C:0.47, G:0.13, T:0.21
Consensus pattern (34 bp):
CCACCACAGTACTCCACTCCTCCCGGCTCTGTAT
Found at i:23192816 original size:48 final size:48
Alignment explanation
Indices: 23192699--23192856 Score: 212
Period size: 48 Copynumber: 3.3 Consensus size: 48
23192689 GTATTTATTT
* * **
23192699 AATTAGATTA-ATTGCAATATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGA-TACATTACAACATTAAAACTTGGAACAAACTTTGTAAT-ATA
23192748 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATATA
* *
23192796 AATTAGATACATTACAACATTAAAACGAT-GAACAAACTTTGTAATTTA
1 AATTAGATACATTACAACATTAAAAC-TTGGAACAAACTTTGTAATATA
*
23192844 AATTAGGTACATT
1 AATTAGATACATT
23192857 GGATTACATA
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
48 61 0.61
49 39 0.39
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (48 bp):
AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATATA
Found at i:23194770 original size:30 final size:30
Alignment explanation
Indices: 23194719--23194775 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
23194709 ATTTTCGAGC
* *
23194719 ATAGGGGTAAAATGATCATTTTGCCAAGGT
1 ATAGGGGCAAAATGATCATTTTACCAAGGT
* *
23194749 ATAGGGGCAAAATGGTTATTTTACCAA
1 ATAGGGGCAAAATGATCATTTTACCAA
23194776 AGTTACGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (30 bp):
ATAGGGGCAAAATGATCATTTTACCAAGGT
Found at i:23195189 original size:47 final size:47
Alignment explanation
Indices: 23195120--23195384 Score: 159
Period size: 47 Copynumber: 5.6 Consensus size: 47
23195110 TTTGTGCGCT
* * * **
23195120 AGTGTAAGACATGTTTGAGACATGCTTCGGCCACA-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGAGCC
* *
23195166 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAGAGATGAGAGCC
* *
23195214 AGAGTAAGGCATGTCTGGGACATGCATCGGCATCGACAGAGAT---AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC--C-ACAGAGATGAGAGCC
** * ** * ** * * *
23195261 AGTGTAAGATGTGTCTAGGACACACATCAGTTA-AGAG-T-TGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGAGCC
* ** * * * *
23195305 AGTGTAAGACATGTCTAGGACATGCATTAGCACGCATATATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CACAGAGATGAGAGCC
23195353 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
23195385 AAATTTATCC
Statistics
Matches: 166, Mismatches: 38, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 28 0.17
46 18 0.11
47 55 0.33
48 33 0.20
49 14 0.08
50 13 0.08
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGAGCC
Found at i:23198828 original size:54 final size:54
Alignment explanation
Indices: 23198746--23198908 Score: 317
Period size: 54 Copynumber: 3.0 Consensus size: 54
23198736 ACCGAGTTAC
23198746 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
1 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
23198800 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
1 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
*
23198854 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACAGGTCAATGAGG
1 TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
23198908 T
1 T
23198909 TATGTATCGA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.25
Consensus pattern (54 bp):
TCACCATGGGGTGCTCCAGTGCTTTTTGTGAAAAAGAAGGACGGGTCAATGAGG
Found at i:23201657 original size:27 final size:27
Alignment explanation
Indices: 23201619--23201718 Score: 173
Period size: 27 Copynumber: 3.7 Consensus size: 27
23201609 TTTAATAGTA
23201619 GTGCCGCCTATTAGATAGGGGTCACTG
1 GTGCCGCCTATTAGATAGGGGTCACTG
*
23201646 GTGCCGCCTATTAGATAGGGGTCATTG
1 GTGCCGCCTATTAGATAGGGGTCACTG
23201673 GTGCCGCCTATTAGATAGGGGTCACTG
1 GTGCCGCCTATTAGATAGGGGTCACTG
* *
23201700 GTGCCGCATATCAGATAGG
1 GTGCCGCCTATTAGATAGG
23201719 CACCACACCC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.20, C:0.21, G:0.33, T:0.26
Consensus pattern (27 bp):
GTGCCGCCTATTAGATAGGGGTCACTG
Found at i:23206608 original size:28 final size:28
Alignment explanation
Indices: 23206576--23206645 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
23206566 TATGGTACTC
*
23206576 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
23206604 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
23206632 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
23206646 CAAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:23213433 original size:28 final size:28
Alignment explanation
Indices: 23213396--23213474 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
23213386 GCAATCAAAT
* *
23213396 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
23213424 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
23213452 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
23213475 CAAATGATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:23213794 original size:40 final size:40
Alignment explanation
Indices: 23213650--23213793 Score: 128
Period size: 41 Copynumber: 3.5 Consensus size: 40
23213640 GCTTCGGGCC
* *
23213650 AGCAGGCTATAATTCCGGTGAAATGATATTGGGCTTCAAACCT
1 AGCAGGCTA-AATGCCGGTG-AATGA-ATTGGGCTTAAAACCT
* * * * **
23213693 AGCAGGCAAAATGCCGGTGAATGAGTTTAGACTTAAAGTCT
1 AGCAGGCTAAATGCCGGTGAATGA-ATTGGGCTTAAAACCT
*** *
23213734 AGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAAACCT
1 AGCAGGCTAAATGCCGGTGAATGAATT-GGGCTTAAAACCT
23213774 AGCAGGCTAAATGCCGGTGA
1 AGCAGGCTAAATGCCGGTGA
23213794 TTTGATAAAA
Statistics
Matches: 77, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
39 2 0.03
40 28 0.36
41 30 0.39
42 9 0.12
43 8 0.10
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (40 bp):
AGCAGGCTAAATGCCGGTGAATGAATTGGGCTTAAAACCT
Found at i:23217434 original size:31 final size:31
Alignment explanation
Indices: 23217399--23217472 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
23217389 GAGTGAGCTA
*
23217399 CACGGGTGTGTGTGACCACACGGCCTACCAG
1 CACGGGCGTGTGTGACCACACGGCCTACCAG
*
23217430 CACGGGCGTGTGTGACCACACGGCCTACCCG
1 CACGGGCGTGTGTGACCACACGGCCTACCAG
23217461 CACGGGCGTGTG
1 CACGGGCGTGTG
23217473 ACTCTATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.16, C:0.34, G:0.35, T:0.15
Consensus pattern (31 bp):
CACGGGCGTGTGTGACCACACGGCCTACCAG
Found at i:23224965 original size:12 final size:12
Alignment explanation
Indices: 23224948--23224974 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23224938 GGTGGAATGG
23224948 TATGAAAAGTGA
1 TATGAAAAGTGA
23224960 TATGAAAAGTGA
1 TATGAAAAGTGA
23224972 TAT
1 TAT
23224975 CTCAGAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (12 bp):
TATGAAAAGTGA
Found at i:23228134 original size:19 final size:19
Alignment explanation
Indices: 23228099--23228136 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23228089 GTGTGAGGCC
23228099 CACGAGCCCATTAGGCCTA
1 CACGAGCCCATTAGGCCTA
*
23228118 CACG-GCCCAATTCGGCCTA
1 CACGAGCCC-ATTAGGCCTA
23228137 AAATGACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.39, G:0.21, T:0.16
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCTA
Found at i:23234776 original size:27 final size:27
Alignment explanation
Indices: 23234746--23235033 Score: 414
Period size: 27 Copynumber: 10.7 Consensus size: 27
23234736 TTTACTTTAC
23234746 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
23234773 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
23234800 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
23234827 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
23234854 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
23234881 AAAATTACCAAAATACTCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
23234908 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
23234935 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
23234962 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
23234989 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
23235016 GAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
23235034 TCGACCTGTA
Statistics
Matches: 230, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 230 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:23235044 original size:54 final size:53
Alignment explanation
Indices: 23234741--23235088 Score: 372
Period size: 54 Copynumber: 6.5 Consensus size: 53
23234731 GAATATTTAC
* * *
23234741 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCC-GATTTGTAAAATTACCAAAATACCCTTGG
* * *
23234795 TTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCC-GATTTGTAAAATTACCAAAATACCCTTGG
* * *
23234849 TTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCTTGG
1 TTTATAAAATTACCAAAATACCCC-GATTTGTAAAATTACCAAAATACCCTTGG
* ** *
23234903 TTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCGA-TTTGTAAAATTACCAAAATACCCTTGG
* * * *
23234957 TTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACCAAAATACCCCGA-TTTGTAAAATTACCAAAATACCCTTGG
* * * ** *** * *
23235011 TTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGA
1 TTTATAAAATTACCAAAATACCC-CGATTTGTAAAATTACCAAAATACCCTTGG
* * *
23235065 CTTGTAAAATTACCAAAGTACCCC
1 TTTATAAAATTACCAAAATACCCC
23235089 TAATTTACAG
Statistics
Matches: 263, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
53 1 0.00
54 260 0.99
55 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (53 bp):
TTTATAAAATTACCAAAATACCCCGATTTGTAAAATTACCAAAATACCCTTGG
Found at i:23235044 original size:81 final size:81
Alignment explanation
Indices: 23234746--23235094 Score: 398
Period size: 81 Copynumber: 4.3 Consensus size: 81
23234736 TTTACTTTAC
* * * * *
23234746 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
23234811 AATACCCCTGGTTTGT
66 AATACCCCTGGTTTGT
* * * * *
23234827 AAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
* * **
23234892 AATACTCTTGGTTTAC
66 AATACCCCTGGTTTGT
*
23234908 AAAATTACCAAAATA-CCCTTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCA
*
23234972 AAATACCCCTAGTTTGT
65 AAATACCCCTGGTTTGT
* * *** ***
23234989 AAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATA-CCCTCGACCTGTAAAATTATTG
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCA
**
23235053 AAATA-CCCTCGACTTGT
65 AAATACCCCT-GGTTTGT
* *
23235070 AAAATTACCAAAGTACCCCTAATTT
1 AAAATTACCAAAATACCCCTGATTT
23235095 ACAGAATTAC
Statistics
Matches: 227, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
80 11 0.05
81 211 0.93
82 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
AATACCCCTGGTTTGT
Found at i:23235047 original size:27 final size:26
Alignment explanation
Indices: 23234746--23235088 Score: 299
Period size: 27 Copynumber: 12.7 Consensus size: 26
23234736 TTTACTTTAC
*
23234746 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
* * * *
23234773 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCC-CGATTTGT
* *
23234800 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
* * * *
23234827 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCC-CGATTTGT
* *
23234854 AAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
** * **
23234881 AAAATTACCAAAATACTCTTGGTTTAC
1 AAAATTACCAAAATAC-CCCGATTTGT
**
23234908 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCCGA-TTTGT
*
23234935 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
*
23234962 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCGA-TTTGT
23234989 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
* * **
23235016 GAAATTACTAAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCC-CGATTTGT
*** *
23235043 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCC-CGATTTGT
*
23235070 AAAATTACCAAAGTACCCC
1 AAAATTACCAAAATACCCC
23235089 TAATTTACAG
Statistics
Matches: 263, Mismatches: 43, Indels: 21
0.80 0.13 0.06
Matches are distributed among these distances:
26 3 0.01
27 257 0.98
28 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCGATTTGT
Found at i:23235103 original size:81 final size:81
Alignment explanation
Indices: 23234985--23235142 Score: 192
Period size: 81 Copynumber: 2.0 Consensus size: 81
23234975 TACCCCTAGT
* ** **
23234985 TTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCCTAATTTCAGAAATTACTAAAATACCCTCGACCTACAAAATTA
*
23235050 TTGAAATACCCTCGAC
66 TCGAAATACCCTCGAC
* *** **
23235066 TTGTAAAATTACCAAAGTACCCCTAATTTACAG-AATTACTATTTTACCCTCGATTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCTAATTT-CAGAAATTACTAAAATACCCTCGACCTACAAAATT
23235130 ATCGAAATACCCT
65 ATCGAAATACCCT
23235143 TGTAGGGTAG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 63 0.98
82 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTAATTTCAGAAATTACTAAAATACCCTCGACCTACAAAATTA
TCGAAATACCCTCGAC
Found at i:23235162 original size:27 final size:27
Alignment explanation
Indices: 23235132--23235371 Score: 286
Period size: 27 Copynumber: 8.9 Consensus size: 27
23235122 ACAAAATTAT
*
23235132 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
** * *
23235159 CGAAATACCTTTATAAGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
*
23235186 TGAAATACCCCTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
*
23235213 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
** * *
23235240 TAAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
* *
23235267 CGAAATACCCTTGTAGGGTAGAAATAA
1 CGAAATACCCCTGTAGGGTAGAAATAC
* *
23235294 CGAAATATCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
*
23235321 TGAAATACCCCTGTAGGGTA-AAATTAC
1 CGAAATACCCCTGTAGGGTAGAAA-TAC
* * *
23235348 CGAGATACCCTTGTGGGGTA-AAAT
1 CGAAATACCCCTGTAGGGTAGAAAT
23235372 TACCATTTTA
Statistics
Matches: 182, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 3 0.02
27 179 0.98
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAAATAC
Found at i:23235897 original size:6 final size:6
Alignment explanation
Indices: 23235888--23236062 Score: 92
Period size: 6 Copynumber: 28.3 Consensus size: 6
23235878 TTGCATTCAC
* *
23235888 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * *
23235938 ATTTTG ATTCTG GTTTTG ATTCTG ATTCTG -TTACCCG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * * *
23235987 ATTCTG -TTACCTA ATTCTG ATTTTA ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
23236037 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
23236063 AATGTTTCTT
Statistics
Matches: 130, Mismatches: 22, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
5 10 0.08
6 100 0.77
7 13 0.10
8 7 0.05
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:23235945 original size:25 final size:25
Alignment explanation
Indices: 23235891--23235949 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
23235881 CATTCACATT
*
23235891 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
23235916 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
23235941 TTGATTCTG
1 CTGATTCTG
23235950 GTTTTGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:23235989 original size:62 final size:62
Alignment explanation
Indices: 23235892--23236053 Score: 252
Period size: 62 Copynumber: 2.6 Consensus size: 62
23235882 ATTCACATTC
* **
23235892 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTCTGGTTT
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAATTT
* *
23235954 TGATTCTGATTCTGTTACCCGATACTGATTCTGATTCTGTTACCTAATTCTGATTTTAATTT
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAATTT
* * *
23236016 TGATTTTGATTCTGTCACCTGATTCTGATTCTGATTCT
1 TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCT
23236054 AGTTCTGATA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 91 1.00
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (62 bp):
TGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAATTT
Found at i:23236006 original size:25 final size:25
Alignment explanation
Indices: 23235954--23236008 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
23235944 ATTCTGGTTT
*
23235954 TGATTCTGATTCTGTTACCCGATAC
1 TGATTCTGATTCTGTTACCCAATAC
* *
23235979 TGATTCTGATTCTGTTACCTAATTC
1 TGATTCTGATTCTGTTACCCAATAC
23236004 TGATT
1 TGATT
23236009 TTAATTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (25 bp):
TGATTCTGATTCTGTTACCCAATAC
Found at i:23236044 original size:19 final size:19
Alignment explanation
Indices: 23235978--23236048 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
23235968 TTACCCGATA
*
23235978 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTAAC
* *
23235997 CTAATTCTGATT-T-TAATT
1 CTGATTCTGATTCTGTAA-C
* * *
23236015 TTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTAAC
23236034 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
23236049 ATTCTAGTTC
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
17 2 0.05
18 10 0.26
19 25 0.64
20 2 0.05
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.51
Consensus pattern (19 bp):
CTGATTCTGATTCTGTAAC
Found at i:23237116 original size:12 final size:12
Alignment explanation
Indices: 23237099--23237135 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
23237089 CCGAGTACCT
*
23237099 CTACGGCCTCTG
1 CTACGGCCTCTA
23237111 CTACGGCCTCTA
1 CTACGGCCTCTA
23237123 CTACGGCCTCTA
1 CTACGGCCTCTA
23237135 C
1 C
23237136 CACGAGTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.14, C:0.43, G:0.19, T:0.24
Consensus pattern (12 bp):
CTACGGCCTCTA
Found at i:23241440 original size:39 final size:40
Alignment explanation
Indices: 23241363--23241509 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
23241353 TAGCTCCTCG
* * *
23241363 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
23241403 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
23241442 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
23241482 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
23241510 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:23241520 original size:80 final size:80
Alignment explanation
Indices: 23241409--23241589 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
23241399 CTCATTCAAT
* * *
23241409 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
23241472 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
23241488 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
23241552 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
23241569 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
23241590 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:23241549 original size:40 final size:40
Alignment explanation
Indices: 23241406--23241589 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
23241396 TAACTCATTC
* *
23241406 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
23241446 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
23241486 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
23241526 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
23241567 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23241590 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:23243358 original size:2 final size:2
Alignment explanation
Indices: 23243351--23243403 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
23243341 GAACATGTAT
*
23243351 AC AC AC AC AC AC AC AC AC AG AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
23243393 AC AC AC AC AC A
1 AC AC AC AC AC A
23243404 TATATATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.47, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:23245894 original size:11 final size:13
Alignment explanation
Indices: 23245874--23245905 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
23245864 ATAATACCCT
23245874 TTTAATAAAC-CA
1 TTTAATAAACACA
23245886 TTTAA-AAACACA
1 TTTAATAAACACA
23245898 TTTAATAA
1 TTTAATAA
23245906 GGTCATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (13 bp):
TTTAATAAACACA
Found at i:23247014 original size:20 final size:18
Alignment explanation
Indices: 23246986--23247028 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
23246976 GGGCTGAAGG
*
23246986 CACGAGCGTGTCCTGAGCCA
1 CACGGGCGTGT-CTGA-CCA
*
23247006 CACGGGCGTGTGTGACCA
1 CACGGGCGTGTCTGACCA
23247024 CACGG
1 CACGG
23247029 CCTACCCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.19, C:0.33, G:0.35, T:0.14
Consensus pattern (18 bp):
CACGGGCGTGTCTGACCA
Found at i:23250674 original size:28 final size:28
Alignment explanation
Indices: 23250611--23250733 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
23250601 ATATTAAGTC
*
23250611 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
23250638 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
23250666 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23250694 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
23250723 CGCACACTTAG
1 CGCACACTTAG
23250734 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23256555 original size:22 final size:22
Alignment explanation
Indices: 23256499--23256625 Score: 105
Period size: 23 Copynumber: 5.5 Consensus size: 22
23256489 TGAGTTGATA
23256499 AATAGTAAGCTCTATTGAGCTG
1 AATAGTAAGCTCTATTGAGCTG
* *
23256521 AAAACGGTAAGCTCTATTGAGTTG
1 AATA--GTAAGCTCTATTGAGCTG
23256545 AATAGTAAGCTCT-TTCGAGCTG
1 AATAGTAAGCTCTATT-GAGCTG
* * * *
23256567 AATCAGTAAGCTCCAATGAGATAA
1 AAT-AGTAAGCTCTATTGAGCT-G
* *
23256591 AAAAGTAAGCTCT-TACGAGCTG
1 AATAGTAAGCTCTAT-TGAGCTG
23256613 AATCAGTAAGCTC
1 AAT-AGTAAGCTC
23256626 ATACAAGCTA
Statistics
Matches: 82, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.02
22 22 0.27
23 35 0.43
24 23 0.28
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (22 bp):
AATAGTAAGCTCTATTGAGCTG
Found at i:23258994 original size:42 final size:42
Alignment explanation
Indices: 23258947--23259098 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 42
23258937 TCCTAGATGT
* *
23258947 GGTCTTACATGTAATCAAATATCGATGCCACTTTCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTTTCCAGACAG
* * * * * *
23258989 GGTCTTTCACAAAATCAAATA-CAATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCACT-TTCCAGACAG
* * *
23259031 GGTCTTACACGTAAATCTCAA-ATCGATGCCAACGTTCCAAAC-G
1 GGTCTTACACG-AAATC-AAATATCGATGCC-ACTTTCCAGACAG
*
23259074 TGGTCTTACACGAAATCACATATCG
1 -GGTCTTACACGAAATCAAATATCG
23259099 GAATCCTAAG
Statistics
Matches: 84, Mismatches: 19, Indels: 13
0.72 0.16 0.11
Matches are distributed among these distances:
41 8 0.10
42 35 0.42
43 15 0.18
44 25 0.30
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATCGATGCCACTTTCCAGACAG
Found at i:23259078 original size:44 final size:44
Alignment explanation
Indices: 23259003--23259090 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
23258993 TTTCACAAAA
* *
23259003 TCAAATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAATC
1 TCAAATACAATGCCAACGTCCCAAACATGGTCTTACACG-AAATC
* * *
23259048 TCAAAT-CGATGCCAACGTTCCAAACGTGGTCTTACACGAAATC
1 TCAAATACAATGCCAACGTCCCAAACATGGTCTTACACGAAATC
23259091 ACATATCGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 5 0.13
44 27 0.71
45 6 0.16
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (44 bp):
TCAAATACAATGCCAACGTCCCAAACATGGTCTTACACGAAATC
Found at i:23262890 original size:49 final size:49
Alignment explanation
Indices: 23262818--23263005 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
23262808 TGAGGTCACG
**
23262818 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
23262867 TGTGTAGTGCTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
23262918 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
23262967 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
23263006 GCTTCGGCTA
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
49 74 0.64
50 2 0.02
51 39 0.34
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:23262990 original size:100 final size:100
Alignment explanation
Indices: 23262813--23263000 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
23262803 TATTGTGAGG
* ** *
23262813 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTGCT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
* *
23262878 AAGTGCAGGCTACTATGTGTACCCGAAAACTGTGA
66 AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
*
23262913 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
23262978 AAGTGCAAGCTACTATGCGTACC
66 AAGTGCAAGCTACTATGCGTACC
23263001 AGATAGCTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
Found at i:23263647 original size:14 final size:14
Alignment explanation
Indices: 23263628--23263669 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
23263618 GAAACAGGGG
23263628 AAACTTTAATGAAT
1 AAACTTTAATGAAT
23263642 AAACTTTAATGAAT
1 AAACTTTAATGAAT
23263656 AAACTTTAATGAAT
1 AAACTTTAATGAAT
23263670 CTAGTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
AAACTTTAATGAAT
Found at i:23272210 original size:27 final size:27
Alignment explanation
Indices: 23272136--23272214 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
23272126 ATCCATTTAA
23272136 TACCTTTAACTAATAGAATACAAGTTT
1 TACCTTTAACTAATAGAATACAAGTTT
** * **
23272163 TACACTTTATGTGATTTAATACAAGTTT
1 TAC-CTTTAACTAATAGAATACAAGTTT
23272191 TACCTTTAACTAATAGAATACAAG
1 TACCTTTAACTAATAGAATACAAG
23272215 CTTTGACTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCTTTAACTAATAGAATACAAGTTT
Found at i:23273894 original size:10 final size:10
Alignment explanation
Indices: 23273879--23273903 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23273869 TTAACACATG
23273879 TATGTATATA
1 TATGTATATA
23273889 TATGTATATA
1 TATGTATATA
23273899 TATGT
1 TATGT
23273904 TAAAAGAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (10 bp):
TATGTATATA
Found at i:23283976 original size:42 final size:43
Alignment explanation
Indices: 23283927--23284029 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
23283917 GACTTATATT
*
23283927 TTACGTGTAAGACCACGTCTAGGAT-GTTGACATCG-TATTTGA
1 TTACGTGTAAGACCACGTCTAGGATAG-AGACATCGATATTTGA
* * *
23283969 TTTCGTGTAAGACC-CTGTCTGGGATAGAGTCATCGATATTTGA
1 TTACGTGTAAGACCAC-GTCTAGGATAGAGACATCGATATTTGA
*
23284012 TTACATGTAAGACCACGT
1 TTACGTGTAAGACCACGT
23284030 GTGGGACGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 27 0.53
43 22 0.43
44 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCACGTCTAGGATAGAGACATCGATATTTGA
Found at i:23301636 original size:11 final size:11
Alignment explanation
Indices: 23301620--23301644 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23301610 CCGTACCTAG
23301620 AAGAAAAAAAA
1 AAGAAAAAAAA
23301631 AAGAAAAAAAA
1 AAGAAAAAAAA
23301642 AAG
1 AAG
23301645 GGGCTTCATC
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:23304051 original size:48 final size:48
Alignment explanation
Indices: 23303996--23304190 Score: 338
Period size: 48 Copynumber: 4.1 Consensus size: 48
23303986 TGTGAATGTG
23303996 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
23304044 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
* * *
23304092 TATGTATGAGATATGCATATGTGGTAAAGCTGAATGG-TCAATGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAA
*
23304140 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
23304188 TAT
1 TAT
23304191 GTAGGCGATG
Statistics
Matches: 138, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
47 1 0.01
48 136 0.99
49 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
Found at i:23304443 original size:37 final size:37
Alignment explanation
Indices: 23304340--23304447 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
23304330 GGAAATATAT
* *
23304340 TCCGGGTAAGA-CCGATGACTACGTGTGGAAATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
23304376 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
23304413 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
23304448 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 11 0.16
37 56 0.84
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:23314921 original size:23 final size:26
Alignment explanation
Indices: 23314908--23314961 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
23314898 TGAAATTTTG
23314908 AAAT-AATAATATATGAAGAGATTTA
1 AAATAAATAATATATGAAGAGATTTA
23314933 AAATAAATAATATATGAAGAGATTTA
1 AAATAAATAATATATGAAGAGATTTA
23314959 AAA
1 AAA
23314962 CAAGTACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (26 bp):
AAATAAATAATATATGAAGAGATTTA
Found at i:23316357 original size:16 final size:17
Alignment explanation
Indices: 23316338--23316370 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23316328 TTAAGTTTAG
23316338 GTTTTAGG-TTTGGGTT
1 GTTTTAGGATTTGGGTT
*
23316354 GTTTTGGGATTTGGGTT
1 GTTTTAGGATTTGGGTT
23316371 TTAAATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.06, C:0.00, G:0.39, T:0.55
Consensus pattern (17 bp):
GTTTTAGGATTTGGGTT
Found at i:23318897 original size:44 final size:44
Alignment explanation
Indices: 23318834--23318923 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
23318824 CGTGGAAGCT
23318834 GAAGATATTATGAGACAGCAATATCCGAATCTGTTCAACAGTAA
1 GAAGATATTATGAGACAGCAATATCCGAATCTGTTCAACAGTAA
*
23318878 GAAGATATTATGAGACAGCAATATCCGAATCTGTTCAACGGTAA
1 GAAGATATTATGAGACAGCAATATCCGAATCTGTTCAACAGTAA
23318922 GA
1 GA
23318924 TTTTAGAGGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (44 bp):
GAAGATATTATGAGACAGCAATATCCGAATCTGTTCAACAGTAA
Found at i:23320278 original size:43 final size:42
Alignment explanation
Indices: 23320200--23320281 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
23320190 TTTGGAATGT
* * * *
23320200 TGGCATCGTATTTGATTTCGTTTAAGACCTTGTCTGGGACAG
1 TGGCATCGTATTTGATTACATATAAGACCTCGTCTGGGACAG
23320242 TGGCATCGATATTTGATTACATATAAGA-CTACGTCTGGGA
1 TGGCATCG-TATTTGATTACATATAAGACCT-CGTCTGGGA
23320282 TGTTGGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 10 0.29
43 24 0.71
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (42 bp):
TGGCATCGTATTTGATTACATATAAGACCTCGTCTGGGACAG
Found at i:23322565 original size:24 final size:26
Alignment explanation
Indices: 23322536--23322606 Score: 98
Period size: 24 Copynumber: 2.9 Consensus size: 26
23322526 CTGAGCTAAT
23322536 GAACAGTAAGCT-TTATCGAGCTGGA
1 GAACAGTAAGCTCTTATCGAGCTGGA
23322561 -AACAGTAAGCTCTTAT-GAGCT-GA
1 GAACAGTAAGCTCTTATCGAGCTGGA
*
23322584 GAATAGTAAGCTCTTA-CGAGCTG
1 GAACAGTAAGCTCTTATCGAGCTG
23322607 ATATATCGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
23 2 0.05
24 35 0.85
25 4 0.10
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (26 bp):
GAACAGTAAGCTCTTATCGAGCTGGA
Found at i:23330193 original size:30 final size:30
Alignment explanation
Indices: 23330159--23330219 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23330149 TCCTTAACTC
23330159 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
23330189 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
23330219 A
1 A
23330220 GGCTGGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:23336803 original size:47 final size:47
Alignment explanation
Indices: 23336744--23336873 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
23336734 TGCGAGTAAA
* *** *
23336744 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTTTG-AGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-CTCCAGAAGAAGT
* *
23336791 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGAATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAAGAAGT
*
23336838 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
23336874 TATCGATTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 2 0.03
47 71 0.97
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAAGAAGT
Found at i:23339406 original size:40 final size:40
Alignment explanation
Indices: 23339316--23339535 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
23339306 ACCCAAGTAT
* ** * *
23339316 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
23339354 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
23339394 CTTTGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
23339434 CTTCGGGTCTTAGCTCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
23339474 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
23339514 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
23339536 CATTCGAATA
Statistics
Matches: 149, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 116 0.78
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:23343701 original size:41 final size:42
Alignment explanation
Indices: 23343656--23343811 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 42
23343646 TATGTGTTAT
*
23343656 TGTGTAAGACCATGTCGGGGACATTGGCATC-TA-CTGATTCA
1 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATT-A
*
23343697 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT-
1 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
* * *
23343738 TCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATCTGATTA
1 T-GTGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTA
* * *
23343782 TATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGTAAGACCATGTCTGGGACATTGGCAT
23343812 TGTACTAGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 31 0.32
42 30 0.31
43 36 0.37
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
Found at i:23348985 original size:40 final size:40
Alignment explanation
Indices: 23348913--23349063 Score: 149
Period size: 40 Copynumber: 3.8 Consensus size: 40
23348903 GCGCTTGGAC
* * * * * * *
23348913 AAAAAACGCCACTGTAGCTTGAGCATTTGCGGCGCTTCTT
1 AAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTTT
*
23348953 AAAAAACGCCGCTATAGGTCAACCATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTTT
** * *
23348993 AAAAAAATCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTTT
** ** *
23349033 GGAAAACGCTACTATAGGTCGACTATTAGCG
1 AAAAAACGCCGCTATAGGTCGACCATTAGCG
23349064 ATGGTTTATA
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (40 bp):
AAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTTT
Found at i:23349222 original size:40 final size:39
Alignment explanation
Indices: 23349123--23349224 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 39
23349113 AGTTGCACTT
* * * *
23349123 GCGGCGCTTTTTTGAAAACACCGCTATAGATCGAGCATTA
1 GCGGCGC-TTTTTGAAAACGCCACTATAGACCGAACATTA
*
23349163 GCGGCGCTTTTTGAAAAACGCCACTATAGACCGAACTTTA
1 GCGGCGCTTTTTG-AAAACGCCACTATAGACCGAACATTA
*
23349203 GCGGCGCTTTGTCGAAAACGCC
1 GCGGCGCTTT-TTGAAAACGCC
23349225 GTAAAAAACA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
39 6 0.11
40 46 0.85
41 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (39 bp):
GCGGCGCTTTTTGAAAACGCCACTATAGACCGAACATTA
Found at i:23349533 original size:14 final size:14
Alignment explanation
Indices: 23349511--23349642 Score: 70
Period size: 14 Copynumber: 9.2 Consensus size: 14
23349501 TTAATTATCA
* *
23349511 TTATAGTTTAGTGT
1 TTATGGTTTAGGGT
23349525 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
23349539 ATATGGTTTAGAAGT
1 TTATGGTTTAG-GGT
*
23349554 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
23349568 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
23349583 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
* *
23349597 TTAAGGGTTAGGGT
1 TTATGGTTTAGGGT
* * *
23349611 TTAAGATTTAAGGT
1 TTATGGTTTAGGGT
*
23349625 TTATGGGTTAAGGGT
1 TTAT-GGTTTAGGGT
23349640 TTA
1 TTA
23349643 GGGGCTAAGG
Statistics
Matches: 90, Mismatches: 21, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
12 3 0.03
14 56 0.62
15 28 0.31
17 3 0.03
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:23349614 original size:50 final size:50
Alignment explanation
Indices: 23349560--23349666 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
23349550 AAGTTACTAT
* * * **
23349560 TTTAAGGTTTATGGATTATGGGTTTAGGGATTATGGTTTAAGGGTTAGGG
1 TTTAAGGTTTAAGGATTATGGGTTAAGGGATTAGGGGCTAAGGGTTAGGG
* * *
23349610 TTTAAGATTTAAGGTTTATGGGTTAAGGGTTTAGGGGCTAAGGGTTAGGG
1 TTTAAGGTTTAAGGATTATGGGTTAAGGGATTAGGGGCTAAGGGTTAGGG
*
23349660 GTTAAGG
1 TTTAAGG
23349667 GTTAGAGGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.23, C:0.01, G:0.37, T:0.38
Consensus pattern (50 bp):
TTTAAGGTTTAAGGATTATGGGTTAAGGGATTAGGGGCTAAGGGTTAGGG
Found at i:23349639 original size:7 final size:7
Alignment explanation
Indices: 23349597--23349670 Score: 60
Period size: 7 Copynumber: 10.4 Consensus size: 7
23349587 GGATTATGGT
23349597 TTAAGGG
1 TTAAGGG
23349604 TT-AGGG
1 TTAAGGG
**
23349610 TTTAAGAT
1 -TTAAGGG
*
23349618 TTAAGGT
1 TTAAGGG
*
23349625 TTATGGG
1 TTAAGGG
23349632 TTAAGGG
1 TTAAGGG
*
23349639 TTTAGGGG
1 -TTAAGGG
*
23349647 CTAAGGG
1 TTAAGGG
*
23349654 TTAGGGG
1 TTAAGGG
23349661 TTAAGGG
1 TTAAGGG
23349668 TTA
1 TTA
23349671 GAGGTTTAGG
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
6 4 0.08
7 40 0.77
8 8 0.15
ACGTcount: A:0.24, C:0.01, G:0.39, T:0.35
Consensus pattern (7 bp):
TTAAGGG
Found at i:23349659 original size:14 final size:14
Alignment explanation
Indices: 23349618--23349676 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
23349608 GGTTTAAGAT
* *
23349618 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
23349632 TTAAGGGTTTAGGGG
1 TTAAGGG-TTAGGGG
*
23349647 CTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
23349661 TTAAGGGTTAGAGG
1 TTAAGGGTTAGGGG
23349675 TT
1 TT
23349677 TAGGCCTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 27 0.69
15 12 0.31
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:23355469 original size:43 final size:42
Alignment explanation
Indices: 23355382--23355486 Score: 156
Period size: 43 Copynumber: 2.5 Consensus size: 42
23355372 TTACTAAAAA
* * *
23355382 CATGACCTTTAGCAGCATTTTTGGGGAAGCGCCGCTAAAGGT
1 CATGACCTTTAGCGGCGTTTGTGGGGAAGCGCCGCTAAAGGT
*
23355424 CATGATCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGT
1 CATGACCTTTAGCGGCGTTTGTGGGG-AAGCGCCGCTAAAGGT
*
23355467 CATGACCTTCAGCGGCGTTT
1 CATGACCTTTAGCGGCGTTT
23355487 TTTTACATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 22 0.39
43 34 0.61
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (42 bp):
CATGACCTTTAGCGGCGTTTGTGGGGAAGCGCCGCTAAAGGT
Found at i:23356556 original size:21 final size:21
Alignment explanation
Indices: 23356526--23356569 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
23356516 AATTATTAAA
*
23356526 TTTATTATTA-AATTATTCATT
1 TTTATGATTAGAATT-TTCATT
23356547 TTTATGATTATGAATTTTCATT
1 TTTATGATTA-GAATTTTCATT
23356569 T
1 T
23356570 GCCTATGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 7 0.35
23 4 0.20
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTATGATTAGAATTTTCATT
Found at i:23369982 original size:48 final size:48
Alignment explanation
Indices: 23369656--23369986 Score: 252
Period size: 48 Copynumber: 7.0 Consensus size: 48
23369646 ACATAGCGTA
*
23369656 TAATGCCAATGCCATGTCCCAGACATGG-CTTACACTGGCTCATCCATC-
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATCT
* * * * * **
23369704 -AA-GTCTATGCCATGTCCCAAACATGGTCTTACACTGACTATCGAAAT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCT
* * * * * *
23369751 CAAGGTCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCA-CAT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-T
* * * * *
23369799 ATCCATGCCGATGCCATGTCCTAGACATGGTATTACACTGACACCTCTATC-
1 -T-AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTC-ATCT
* * * * * * * *
23369850 T-GTGCCGATGCCATGTCCTAGACATGGTCTTACATTGACACACCTCG
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT
* *
23369897 T-A-GCCGATG-CATGTTCCAGACAT-GTCTTATACTGGCTCTCATCT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT
23369941 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
23369987 AATGTGGCCG
Statistics
Matches: 225, Mismatches: 42, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
44 15 0.07
45 14 0.06
46 39 0.17
47 29 0.13
48 57 0.25
49 33 0.15
50 33 0.15
51 3 0.01
52 1 0.00
53 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT
Found at i:23369997 original size:48 final size:47
Alignment explanation
Indices: 23369658--23370023 Score: 239
Period size: 48 Copynumber: 7.7 Consensus size: 47
23369648 ATAGCGTATA
* *
23369658 ATGCCAATGCCATGTCCCAGACATGG-CTTACACTGGCTCATCCATCA-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATAAT
* * * * *
23369705 A-GTCTATGCCATGTCCCAAACATGGTCTTACACTGACTATCGA-AAT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT
* * * * * *
23369751 CAAGGTCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATAT
1 --ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT
* * * * *
23369801 CCATGCCGATGCCATGTCCTAGACATGGTATTACACTGACACCTC-TATCT
1 --ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-AT
* * * * * * * **
23369851 GTGCCGATGCCATGTCCTAGACATGGTCTTACATTGACACACCTCGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
* * **
23369898 A-GCCGATG-CATGTTCCAGACAT-GTCTTATACTGGCTCTCATCTT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
23369942 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
* * * *
23369990 GTGGCCGATG-TATGTCCCAAACAT-GCCTTACACT
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
23370024 AGCACACAAA
Statistics
Matches: 256, Mismatches: 48, Indels: 31
0.76 0.14 0.09
Matches are distributed among these distances:
44 15 0.06
45 15 0.06
46 46 0.18
47 41 0.16
48 64 0.25
49 34 0.13
50 38 0.15
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
Found at i:23369997 original size:140 final size:146
Alignment explanation
Indices: 23369654--23370023 Score: 353
Period size: 140 Copynumber: 2.6 Consensus size: 146
23369644 AAACATAGCG
* *
23369654 TATAATGCCAATGCCATGTCCCAGACATGG-CTTACACTGGCTCATCCATCAA-GT---CTATGC
1 TATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGGCCGATGC
*
23369714 CATGTCCCAAACATGGTCTTACACTGACTATCGAAATCAAGGTCGACGCCATGTCCTAGACATGG
63 CATGTCCCAAACATGGTCTTACACTGACTATCGAAATCAAGGCCGACGCCATGTCCTAGACATGG
23369779 TCTTACACTAGCTCTCACA
128 TCTTACACTAGCTCTCACA
* * * * * *
23369798 TATCCATGCCGATGCCATGTCCTAGACATGGTATTACACTGACACCTC-T-ATCTGTGCCGATGC
1 TAT-AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAATGTG-GCCGATGC
* * * ** * *
23369861 CATGTCCTAGACATGGTCTTACATTGAC-A-C-ACCTCGTA-GCCGATG-CATGTTCC-AGACAT
63 CATGTCCCAAACATGGTCTTACACTGACTATCGAAATC-AAGGCCGACGCCATG-TCCTAGACAT
* *
23369920 -GTCTTATACTGGCTCTCATC-
126 GGTCTTACACTAGCTCTCA-CA
*
23369940 T-TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG-TAT
1 TATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCAT
*
23370003 GTCCCAAACAT-GCCTTACACT
66 GTCCCAAACATGGTCTTACACT
23370024 AGCACACAAA
Statistics
Matches: 184, Mismatches: 29, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
138 8 0.04
139 14 0.08
140 43 0.23
141 5 0.03
142 18 0.10
143 12 0.07
144 15 0.08
145 27 0.15
146 11 0.06
147 31 0.17
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (146 bp):
TATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCAT
GTCCCAAACATGGTCTTACACTGACTATCGAAATCAAGGCCGACGCCATGTCCTAGACATGGTCT
TACACTAGCTCTCACA
Found at i:23378605 original size:21 final size:21
Alignment explanation
Indices: 23378581--23378622 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23378571 CATCGTGATC
*
23378581 TTTTAAAAACAGGTAGTTTTT
1 TTTTAAAAACAAGTAGTTTTT
23378602 TTTTAAAAACAAGTAGTTTTT
1 TTTTAAAAACAAGTAGTTTTT
23378623 ATAAAACGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (21 bp):
TTTTAAAAACAAGTAGTTTTT
Found at i:23386328 original size:46 final size:46
Alignment explanation
Indices: 23386261--23386427 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
23386251 TGTAACCCGC
23386261 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
23386307 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** * *
23386357 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
23386400 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
23386428 AAGTTCAGAT
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 56 0.55
47 26 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:23386439 original size:93 final size:93
Alignment explanation
Indices: 23386269--23386439 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
23386259 GCCCATAAGT
** *
23386269 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
23386334 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CAAGCTCAGATGCCTAGTTACATCTCAC
* *
23386362 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCGTCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23386427 CAAGTTCAGATGC
66 CAAGCTCAGATGC
23386440 TGAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCAGATGCCTAGTTACATCTCAC
Found at i:23389929 original size:44 final size:44
Alignment explanation
Indices: 23389827--23389991 Score: 163
Period size: 46 Copynumber: 3.6 Consensus size: 44
23389817 GTCGATGTTG
* * * * *
23389827 TGTCCCAGACAGGTCTTACACTGACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCT---CGTAGCCGATGCA
*
23389873 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCTCGTAGCCGATGCA
* *
23389917 TGTCCCAGACATGTCTGACATTGGCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGC-A-CATCTCGTA-GCCGATGCA
* *
23389963 TGTCCCATACATGGTTTTACACTGGCACA
1 TGTCCCAGACAT-GTCTTACACTGGCACA
23389992 CAAATCTCAT
Statistics
Matches: 101, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
43 3 0.03
44 29 0.29
45 4 0.04
46 55 0.54
47 10 0.10
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGGCACATCTCGTAGCCGATGCA
Found at i:23392555 original size:46 final size:46
Alignment explanation
Indices: 23392488--23392654 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
23392478 TGTAACCCGC
23392488 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
23392534 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * ** * *
23392584 -C-TCA-CGAACTCGGACTCAACTTAACGAGTTCGAACATTCGCGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
23392627 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
23392655 AAGTTCAGAT
Statistics
Matches: 99, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 55 0.56
47 25 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:23392666 original size:93 final size:93
Alignment explanation
Indices: 23392496--23392666 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
23392486 GCCCATAAGT
** *
23392496 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
23392561 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CAAGCTCAGATGCCTAGTTACATCTCAC
* * *
23392589 GAACTCGGACTCAACTTAACGAGTTCGAACATTCGCGTCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23392654 CAAGTTCAGATGC
66 CAAGCTCAGATGC
23392667 TCAACCATCC
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:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCAGATGCCTAGTTACATCTCAC
Found at i:23399192 original size:27 final size:26
Alignment explanation
Indices: 23399140--23399199 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
23399130 TCATATATAT
*
23399140 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
23399166 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
23399193 ATATCTG
1 ATATCTG
23399200 GCAGCTTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:23400508 original size:44 final size:44
Alignment explanation
Indices: 23400460--23400598 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 44
23400450 TACTGCAACT
23400460 TTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
1 TTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
* * * * *
23400504 TTAGGG-GATTA-ACGTT-CAGTGTCTTCAGTCTGCT-CCACT-GTAAC
1 TTAGGGAGATAAGAC-TTGCAAT-T-TTCAGCCTGTTACC-CTACT-AC
* *
23400548 TTCAGGGAGATAAGACTTGCAATTTTCAACCTGTTACCGTACTAC
1 TT-AGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
23400593 TTAGGG
1 TTAGGG
23400599 GATTAACGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
42 5 0.07
43 10 0.14
44 25 0.35
45 17 0.24
46 10 0.14
47 5 0.07
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (44 bp):
TTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
Found at i:23400616 original size:89 final size:89
Alignment explanation
Indices: 23400451--23400740 Score: 411
Period size: 89 Copynumber: 3.3 Consensus size: 89
23400441 GATCTACTCT
*
23400451 ACTGCAACTTTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTACTTAGGGGATTAA
1 ACTGCAACTTCAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTACTTAGGGGATTAA
* * *
23400516 CGTTCAGTGTCTTCAGTCTGCTCC
66 CGCTCAATGTCTTCAGTTTGCTCC
* * *
23400540 ACTGTAACTTCAGGGAGATAAGACTTGCAATTTTCAACCTGTTACCGTACTACTTAGGGGATTAA
1 ACTGCAACTTCAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTACTTAGGGGATTAA
23400605 CGCTCAATGTCTTC-GATTTGCTCC
66 CGCTCAATGTCTTCAG-TTTGCTCC
* * * * *
23400629 ACTGCAACTTCAGGGAGATAAGATTTGCAATCTTCGGCTTGTTACCCTACTACTTAGGGGGTTAA
1 ACTGCAACTTCAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTACTTAGGGGATTAA
* * *
23400694 GGCTCATTGTCTTCAATTTGCTCC
66 CGCTCAATGTCTTCAGTTTGCTCC
* *
23400718 ACTACAACTTCAGGGAGAAAAGA
1 ACTGCAACTTCAGGGAGATAAGA
23400741 TCTACAATCT
Statistics
Matches: 179, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
88 1 0.01
89 178 0.99
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (89 bp):
ACTGCAACTTCAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTACTTAGGGGATTAA
CGCTCAATGTCTTCAGTTTGCTCC
Found at i:23400855 original size:87 final size:87
Alignment explanation
Indices: 23400708--23400915 Score: 278
Period size: 86 Copynumber: 2.4 Consensus size: 87
23400698 CATTGTCTTC
* * * *
23400708 AATTTGCTCCACTACAACTTCAGGGAGAAAAGATCTACAATCTTCGTCCTACTCCACTACAACTT
1 AATTTGCTTCACTGCAACTTCAGGGAGACAAGATCTACAATCTTAGTCCTACTCCACTACAAC-T
* *
23400773 TAGGGAGATA-GAGTGGTGGCTTA
65 TAAGGAGATAGGA-TGGTAGCTTA
*
23400796 AATTTGCTTCACTGCAACTTCAGGGAGACGA-ATCTACAATCTTTAG-CCTACTCCACTACAACT
1 AATTTGCTTCACTGCAACTTCAGGGAGACAAGATCTACAATC-TTAGTCCTACTCCACTACAACT
23400859 TAAGGAGATAGGATGGTAGCTTA
65 TAAGGAGATAGGATGGTAGCTTA
* * *
23400882 AATCTGCTTCATTGCAACTTCAGGAAGACAAGAT
1 AATTTGCTTCACTGCAACTTCAGGGAGACAAGAT
23400916 TCACCGTCTT
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
86 46 0.43
87 30 0.28
88 30 0.28
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (87 bp):
AATTTGCTTCACTGCAACTTCAGGGAGACAAGATCTACAATCTTAGTCCTACTCCACTACAACTT
AAGGAGATAGGATGGTAGCTTA
Found at i:23412945 original size:9 final size:9
Alignment explanation
Indices: 23412933--23412957 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23412923 CTGTTTCACT
23412933 TTCTGACAG
1 TTCTGACAG
23412942 TTCTGACAG
1 TTCTGACAG
23412951 TTCTGAC
1 TTCTGAC
23412958 CTCTCTTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (9 bp):
TTCTGACAG
Found at i:23416073 original size:130 final size:130
Alignment explanation
Indices: 23415827--23416164 Score: 400
Period size: 130 Copynumber: 2.6 Consensus size: 130
23415817 TCCAACAAAA
* * * * * * *
23415827 AAATCGAAACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATCGGACATTGCCTT-A
1 AAATCGCAACCCAGCACGA-TAGGGCACGATTCC-CGAATTGCCAAACATCGAACATTACCTTCG
* * * * * *
23415890 ATTT--AGAA--TTCATAGATCATGAGTGAAATTCTAAGGGAATATTTGATTATTTTGAACAAAC
64 TTTTAAAGAATTTTTAAAGA-CATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAAC
23415951 AGG
128 AGG
* *
23415954 AAATCGCAACCTAGCACGATAGGGCACGATTCCTGAATTGCCAAACATCGAACATTACCTTCGTT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATTACCTTCGTT
* * * **
23416019 TTGAAGAATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGTTTGTTTTGAACAAATGGG
66 TTAAAGAATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGG
** *
23416084 AAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCGAGTATTGCCTTCGTT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATTACCTTCGTT
23416149 TTAAAGAATTTTTAAA
66 TTAAAGAATTTTTAAA
23416165 TGAATAGTTA
Statistics
Matches: 180, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
126 22 0.12
127 32 0.18
128 1 0.01
129 4 0.02
130 115 0.64
131 6 0.03
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (130 bp):
AAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATTACCTTCGTT
TTAAAGAATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGG
Found at i:23419860 original size:27 final size:27
Alignment explanation
Indices: 23419776--23419928 Score: 164
Period size: 27 Copynumber: 5.7 Consensus size: 27
23419766 TACTAAAATG
* * *
23419776 CCCTCGATTTGTAGAATTACCATTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * * *
23419803 CCCGCTATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
*
23419830 CCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
** *
23419857 CCCTTAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
23419884 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
23419911 CCCTCGA-TTATGAAATTA
1 CCCTCGATTTATAAAATTA
23419929 TTGAAATACC
Statistics
Matches: 110, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
26 9 0.08
27 101 0.92
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:23419981 original size:27 final size:27
Alignment explanation
Indices: 23419951--23420049 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
23419941 TATAAGATTG
23419951 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*** * * *
23419978 AATTAATGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
23420005 AATTACCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
23420032 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
23420050 GATTTACAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
26 3 0.05
27 50 0.88
28 4 0.07
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:23420064 original size:27 final size:28
Alignment explanation
Indices: 23420004--23420074 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
23419994 CTGGTTTGTG
**
23420004 AAATTACCAAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCTCAATTTACA
*
23420031 AAATTACCAAAATACCCCT-GATTTACA
1 AAATTACCAAAATACCCCTCAATTTACA
*
23420058 AAGTTA-CAGAAATACCC
1 AAATTACCA-AAATACCC
23420075 TTGACTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.05
27 32 0.84
28 4 0.11
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (28 bp):
AAATTACCAAAATACCCCTCAATTTACA
Found at i:23420137 original size:27 final size:27
Alignment explanation
Indices: 23420030--23420137 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
23420020 CTCAATTTGT
** * *
23420030 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* * *
23420057 AAAGTTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
* *
23420084 TAAAAATTA-TAGAAATACCATTAGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
23420113 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
23420138 GTAGATTTAC
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
27 39 0.62
28 7 0.11
29 17 0.27
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:23420255 original size:27 final size:27
Alignment explanation
Indices: 23420191--23420255 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
23420181 ACCCCTAATA
* *
23420191 GGTAAAAAGACCGTAAAGCCTCTGTAG
1 GGTAAAATGACCGTAAACCCTCTGTAG
* *
23420218 GGTAAAGTGACCGTAATACCCT-TGTAT
1 GGTAAAATGACCGTAA-ACCCTCTGTAG
23420245 GGTAAAATGAC
1 GGTAAAATGAC
23420256 GAATATGTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAAACCCTCTGTAG
Found at i:23421140 original size:24 final size:25
Alignment explanation
Indices: 23421065--23421133 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
23421055 AGGAAGTGCT
* * *
23421065 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
23421090 AAAA-GGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
23421114 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
23421134 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 20 0.53
25 18 0.47
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:23421146 original size:24 final size:23
Alignment explanation
Indices: 23421065--23421160 Score: 75
Period size: 24 Copynumber: 4.0 Consensus size: 23
23421055 AGGAAGTGCT
* * *
23421065 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAAGGCTTTGCCCCAG-TTATC
* *
23421089 GAAAAGGCTTTGCCCTAGTTTATC
1 AAAAAGGCTTTGCCCCAG-TTATC
*
23421113 AAAAAGGGCTTTGCCCCAGTTATT
1 AAAAA-GGCTTTGCCCCAGTTATC
**
23421137 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAA-AGGCTTTGCC-CCAGTTAT
23421161 ATGATAAAGC
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
24 38 0.64
25 21 0.36
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAAGGCTTTGCCCCAGTTATC
Done.