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 77 of 332
Found at i:23876822 original size:381 final size:379
Alignment explanation
Indices: 23876088--23877124 Score: 1706
Period size: 381 Copynumber: 2.7 Consensus size: 379
23876078 TAGTATGGCG
*
23876088 TAATGG-CGATGTCAT-AATGTGAAAGTGTATA-A-ATGTGATAAGGCCTAAT-GCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
23876148 GAAATGTGAAAGTGTATATATATTGTG-TAAGGCCTAATGGCCATGTGATGAATATGAAAGTGTA
66 G-AATGTGAAAGTGTATATATA-TGTGATAAGGCCTAATGGCGATGTGATGAATATGAAAGTGTA
*
23876212 TATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATATGTGATAAGGCC
129 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
23876277 TAATGG-CGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
192 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
23876341 ATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
257 ATGTGAAAGTGTATATATGTGATAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAT
*
23876406 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCC
321 GTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGATATATATGTGATAAGGCC
23876464 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
23876529 GAATATGAAAGTGTATATATATGTGATAAGGCCTAATGGCGGATGTGATGAATATGAAAGTGTAT
66 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC-GATGTGATGAATATGAAAGTGTAT
23876594 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA-GCCTAA
130 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
23876658 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATTGTGATGAAT
195 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-TGTGATGAAT
23876723 GTGAAAGTGTATATATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATG
259 GTGAAAGTGTATATATGTGATAAGCCTAATGGCCGATGTGATGAATGTG-AAA-GTATATATATG
*
23876788 TGATAGGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
322 TGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTG-ATATATATGTGATAAGGCC
* *
23876847 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTAATAAGGCCTAATGGCTGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
23876910 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CGATGTGATGAATATGAAAGTGTAT
23876975 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
130 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * * * * *
23877040 TGGCCGATGTGATGAATGTG-AA-TGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGGATG
195 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
23877102 TGAAAGTGTATAAATGTGATAAG
260 TGAAAGTGTATATATGTGATAAG
23877125 TCCCGAAGGG
Statistics
Matches: 626, Mismatches: 20, Indels: 28
0.93 0.03 0.04
Matches are distributed among these distances:
376 6 0.01
377 8 0.01
378 56 0.09
379 106 0.17
380 98 0.16
381 278 0.44
382 27 0.04
383 47 0.08
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (379 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCGATGTGATGAATATGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGAT
AAGGCCTAATGGCCGATATGATGAATGTGAAAGTGATATATATGTGATAAGGCC
Found at i:23877315 original size:36 final size:36
Alignment explanation
Indices: 23877242--23877318 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
23877232 CCGTGCTCTA
* * *
23877242 AAGACCCGATGACTACGGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGGTGGAGATTATGTCCGGGT
*
23877278 AAGACCCGATAACTTCGTGTGGAGATTATGTCC-GGT
1 AAGACCCGATAACTACG-GTGGAGATTATGTCCGGGT
23877314 AAGAC
1 AAGAC
23877319 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 23 0.64
37 13 0.36
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (36 bp):
AAGACCCGATAACTACGGTGGAGATTATGTCCGGGT
Found at i:23878726 original size:40 final size:40
Alignment explanation
Indices: 23878523--23878712 Score: 256
Period size: 40 Copynumber: 4.8 Consensus size: 40
23878513 GAGAATTGAG
*
23878523 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
23878563 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
23878603 AGTGATGTATCTGAGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
23878643 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
23878683 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
23878713 TAATCATGCT
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:23878917 original size:25 final size:25
Alignment explanation
Indices: 23878889--23878939 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
23878879 TGTGATTAAC
23878889 GAATGAATAAGA-GCACTATGTATGT
1 GAAT-AATAAGAGGCACTATGTATGT
* * *
23878914 GAATAATTAGAGGCACTGTGTGTGT
1 GAATAATAAGAGGCACTATGTATGT
23878939 G
1 G
23878940 CGAATTCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (25 bp):
GAATAATAAGAGGCACTATGTATGT
Found at i:23886081 original size:93 final size:93
Alignment explanation
Indices: 23885973--23886144 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
23885963 GCCCATAAGT
* *
23885973 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23886038 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
23886066 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23886131 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
23886145 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:23886140 original size:46 final size:46
Alignment explanation
Indices: 23885965--23886140 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
23885955 TGTAACCCGC
* * *
23885965 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
23886011 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
23886061 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
23886104 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
23886141 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:23888548 original size:30 final size:30
Alignment explanation
Indices: 23888504--23888592 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
23888494 CAAAGATAAC
*
23888504 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
23888533 GAGAAACCCGGAATAAAGAAATCCACA-ATA
1 AAGAAACCCGGAATAAAGAAATCCA-AGATA
* * *
23888563 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
23888593 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 8 0.16
30 36 0.72
31 6 0.12
ACGTcount: A:0.56, C:0.17, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:23888552 original size:15 final size:14
Alignment explanation
Indices: 23888504--23888586 Score: 51
Period size: 15 Copynumber: 5.6 Consensus size: 14
23888494 CAAAGATAAC
*
23888504 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
23888518 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
23888533 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
23888548 AAGAAATCCAC-AATA
1 AAGAAA-CC-CGAATA
* * *
23888563 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
23888578 AAGAAACCC
1 AAGAAACCC
23888587 AAGATACGAT
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
14 12 0.23
15 35 0.67
16 4 0.08
17 1 0.02
ACGTcount: A:0.55, C:0.18, G:0.17, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:23888592 original size:15 final size:15
Alignment explanation
Indices: 23888515--23888592 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
23888505 AGAAAACCGA
23888515 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
23888530 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
23888544 AATAAAGAAATCCACA-
1 -ATAAAGAAATCCA-AG
* *
23888560 ATAAAGAGATCCAGG
1 ATAAAGAAATCCAAG
*
23888575 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
23888590 ATA
1 ATA
23888593 CGATACTATG
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 3 0.06
15 43 0.90
16 2 0.04
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:23891584 original size:46 final size:46
Alignment explanation
Indices: 23891517--23891683 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
23891507 TGTAACCCGC
23891517 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGGTGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGGTGTTCGCAT
* * *
23891563 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGG--G--T-GTTCGCAT
* * ** *
23891613 -C-TCA-CGAACTCAGACTCAACTCAACGAG-TTCGGACGCTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTT-GGGTGTTCGCAT
*
23891656 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCAGACTCAACTCAAC
23891684 TCAACGAGTT
Statistics
Matches: 97, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 54 0.56
47 24 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGGTGTTCGCAT
Found at i:23893828 original size:33 final size:33
Alignment explanation
Indices: 23893755--23893829 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
23893745 TAATATTCAA
*
23893755 ATCATCAATTAATAAACACTTAATAAGTCTCAT
1 ATCATCACTTAATAAACACTTAATAAGTCTCAT
23893788 ATCATCACTTAATAAACACTTAATAAGTCTCAT
1 ATCATCACTTAATAAACACTTAATAAGTCTCAT
23893821 ATCATCACT
1 ATCATCACT
23893830 CATTTCTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (33 bp):
ATCATCACTTAATAAACACTTAATAAGTCTCAT
Found at i:23896133 original size:18 final size:18
Alignment explanation
Indices: 23896107--23896141 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23896097 TACAAGTTTA
*
23896107 AATCTTTCAATAACTCGT
1 AATCCTTCAATAACTCGT
*
23896125 AATCCTTCAGTAACTCG
1 AATCCTTCAATAACTCG
23896142 AGCCATCTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (18 bp):
AATCCTTCAATAACTCGT
Found at i:23897253 original size:27 final size:27
Alignment explanation
Indices: 23897223--23897314 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
23897213 ATTACCAAAG
* * * *
23897223 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
23897250 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
23897277 TACCCT-TAGTTTACAAAATTACTATTT
1 TACCCTCGA-TTTACAAAATTACCATTT
23897304 TACCCTCGATT
1 TACCCTCGATT
23897315 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:23897376 original size:27 final size:26
Alignment explanation
Indices: 23897346--23897470 Score: 92
Period size: 27 Copynumber: 4.7 Consensus size: 26
23897336 TGTAAGATAG
23897346 AATTACCAAAATACACCTAGTTTGTAA
1 AATTACCAAAATAC-CCTAGTTTGTAA
* * * *
23897373 AATTATCGAAATACCACT-GCGTTGTGA
1 AATTACCAAAATACC-CTAG-TTTGTAA
* *
23897400 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
* * **
23897427 AATTATCAAAATATCCCTAATTTACAA
1 AATTACCAAAATA-CCCTAGTTTGTAA
23897454 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
23897471 TGACTTTTTA
Statistics
Matches: 80, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
26 10 0.12
27 66 0.82
28 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:23897485 original size:29 final size:28
Alignment explanation
Indices: 23897447--23897528 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
23897437 ATATCCCTAA
23897447 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACAGAAATACCCTTGAC
* * *
23897475 TTTTTA-AAAATTATAGAAATACCATTGGC
1 --TTTACAAAATTACAGAAATACCCTTGAC
*
23897504 -TTACAAAATTACTGAAATACCCTTG
1 TTTACAAAATTACAGAAATACCCTTG
23897529 GTTTGTAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.07
27 18 0.40
29 20 0.44
30 4 0.09
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (28 bp):
TTTACAAAATTACAGAAATACCCTTGAC
Found at i:23897520 original size:27 final size:28
Alignment explanation
Indices: 23897447--23897529 Score: 91
Period size: 27 Copynumber: 3.0 Consensus size: 28
23897437 ATATCCCTAA
* *
23897447 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTGGC
*
23897475 TTTTTA-AAAATTA-TAGAAATACCATTGGC
1 --TTTACAAAATTACT-GAAATACCCTTGGC
23897504 -TTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
23897530 TTTGTAGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 3 0.07
27 19 0.41
28 1 0.02
29 19 0.41
30 4 0.09
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
TTTACAAAATTACTGAAATACCCTTGGC
Found at i:23898495 original size:25 final size:24
Alignment explanation
Indices: 23898457--23898526 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
23898447 AGGAAGTGCT
*
23898457 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
23898481 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
23898506 AGAAAGGGATTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
23898527 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:23898733 original size:42 final size:42
Alignment explanation
Indices: 23898674--23898764 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
23898664 TAGTCTCCCC
23898674 AAATGGGCTTGCATACAT-TCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCT-ATTGACATTACATGTGATATTG
23898716 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
23898758 AAATGGG
1 AAATGGG
23898765 TCTAAGGGCC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
Found at i:23898824 original size:31 final size:31
Alignment explanation
Indices: 23898789--23898934 Score: 249
Period size: 31 Copynumber: 4.7 Consensus size: 31
23898779 CGTTTACAGT
23898789 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
23898820 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
23898851 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
23898882 AAAGGCTTCGGCCCAATGATATGATTCATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
23898913 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
23898935 TCAAGACTAA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.05
31 105 0.95
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:23901782 original size:19 final size:19
Alignment explanation
Indices: 23901758--23901796 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
23901748 ATCGATGCCA
*
23901758 ATAGCCCAGTTATGGTCTT
1 ATAGCCCAGCTATGGTCTT
23901777 ATAGCCCAGCTATGGTCTT
1 ATAGCCCAGCTATGGTCTT
23901796 A
1 A
23901797 CACGAAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (19 bp):
ATAGCCCAGCTATGGTCTT
Found at i:23903309 original size:42 final size:42
Alignment explanation
Indices: 23903257--23903375 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
23903247 TACATAGTAC
* **
23903257 CATACCAATGCCATA-CCTCAGATATGGTCTTACATGGGATCT
1 CATATCAATGCCATAGCC-CAGATATGGTCTTACATGAAATCT
* *
23903299 CATATCAATGCCAATAGCCCAGCTAGGGTCTTACATGAAATCT
1 CATATCAATGCC-ATAGCCCAGATATGGTCTTACATGAAATCT
* *
23903342 CATATCGATGCCATATCCCAGATATGGTCTTACA
1 CATATCAATGCCATAGCCCAGATATGGTCTTACA
23903376 CGTAAACTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 30 0.45
43 34 0.52
44 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
CATATCAATGCCATAGCCCAGATATGGTCTTACATGAAATCT
Found at i:23906141 original size:46 final size:46
Alignment explanation
Indices: 23906033--23906434 Score: 360
Period size: 46 Copynumber: 8.8 Consensus size: 46
23906023 TATTCTTGCT
* *
23906033 GATGCATGTCACAGACATGTCTTACACTA--ACACATCTCGTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCATACATCTCG-AGGCC
* *
23906077 GATGCATGTCCCAGACATGTCTTACACTGGCATACATATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCATACATCTCGAGGCC
* * * * *
23906123 GATGCATGTCCCAAACATGTCTTACACTAGC-TCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCAT-ACATCTCGAGGCC
* * * * *
23906169 AATGCATGTCCCAGAC-TTTCTTACACTAGCATTTCATAAT-GTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA-TACAT-CTCGAGGCC
* *
23906215 GATGCACGTCCCAGACATGTCTTACACTAGC--ACATCTCGTA-GCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCATACATCTCG-AGGCC
* * * *
23906259 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCATACATCTCGAGGCC
* * * * *
23906305 GATGCATGTCCCAAACATGTCTTACACTAGC-TCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCAT-ACATCTCGAGGCC
* * *
23906351 GATGCATGTCCCAGACATGTCTTACAC-ATGCATTTCATAAT-GTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTA-GCA-TACAT-CTCGAGGCC
* * *
23906398 GATGCATGTCCTAGACATGTCTTACACTGGCACACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCATACAT
23906435 AACAGTAGTG
Statistics
Matches: 294, Mismatches: 45, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.00
44 62 0.21
45 18 0.06
46 161 0.55
47 50 0.17
48 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCATACATCTCGAGGCC
Found at i:23906299 original size:136 final size:135
Alignment explanation
Indices: 23906034--23906428 Score: 398
Period size: 136 Copynumber: 2.9 Consensus size: 135
23906024 ATTCTTGCTG
* * * *
23906034 ATGCATGTCACAGACATGTCTTACACTAACACATCTCGT--A-GCCGATGCATGTCCCAGACATG
1 ATGCATGTCCCAAACATGTCTTACACTAGCTC-TCTC-TCAATGCCGATGCATGTCCCAGACATG
* * * *
23906096 TCTTACACTGGCATACATATCG-AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGT
64 TCTTACACTAGC--ACATATCGTA-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
*
23906160 CTCAATGCCA
126 CTCAAGGCCA
* * *
23906170 ATGCATGTCCCAGAC-TTTCTTACACTAGCAT-T-TCAT-AATGTGGCCGATGCACGTCCCAGAC
1 ATGCATGTCCCAAACATGTCTTACACTAGC-TCTCTC-TCAA--T-GCCGATGCATGTCCCAGAC
* *
23906231 ATGTCTTACACTAGCACATCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT-TACA
61 ATGTCTTACACTAGCACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CA
**
23906295 TCTCAAGGCTG
125 TCTCAAGGCCA
23906306 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACATGT
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCTC-TCTCAATGCCGATGCATGTCCCAGACATGT
* *
23906371 CTTACAC-ATGCATTTCATAAT-GTGGCCGATGCATGTCCTAGACATGTCTTACACTGGC
65 CTTACACTA-GCA---CAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGC
23906429 ACACATAACA
Statistics
Matches: 219, Mismatches: 22, Indels: 33
0.80 0.08 0.12
Matches are distributed among these distances:
133 3 0.01
134 2 0.01
135 14 0.06
136 109 0.50
137 16 0.07
138 33 0.15
139 41 0.19
140 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (135 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCTCTCTCTCAATGCCGATGCATGTCCCAGACATGTC
TTACACTAGCACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAA
GGCCA
Found at i:23906358 original size:182 final size:183
Alignment explanation
Indices: 23906033--23906431 Score: 667
Period size: 182 Copynumber: 2.2 Consensus size: 183
23906023 TATTCTTGCT
* *
23906033 GATGCATGTCACAGACATGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATGTCCCAGACATGTC
*
23906098 TTACACTGGCATACATATCGAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTC
66 TTACACTGGCATACATATCAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTC
*
23906163 AATGCCAATGCATGTCCCAGAC-TTTCTTACAC-TAGCATTTCATAATGTGGCC
131 AATGCCAATGCATGTCCCAGACATGTCTTACACAT-GCATTTCATAATGTGGCC
* *
23906215 GATGCACGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCTGATGCATGTCCCAGACATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATGTCCCAGACATGTC
* * *
23906280 TTACACTGGCTTACATCTCAAGGCTGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTC
66 TTACACTGGCATACATATCAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTC
*
23906345 AATGCCGATGCATGTCCCAGACATGTCTTACACATGCATTTCATAATGTGGCC
131 AATGCCAATGCATGTCCCAGACATGTCTTACACATGCATTTCATAATGTGGCC
* *
23906398 GATGCATGTCCTAGACATGTCTTACACTGGCACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACA
23906432 CATAACAGTA
Statistics
Matches: 202, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
182 143 0.71
183 58 0.29
184 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (183 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATGTCCCAGACATGTC
TTACACTGGCATACATATCAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTC
AATGCCAATGCATGTCCCAGACATGTCTTACACATGCATTTCATAATGTGGCC
Found at i:23908625 original size:24 final size:24
Alignment explanation
Indices: 23908593--23908642 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
23908583 CATGTATTGA
23908593 CATTCAAATCAGCACACATAGTGC
1 CATTCAAATCAGCACACATAGTGC
* *
23908617 CATTCAAATCCGCACACTTAGTGC
1 CATTCAAATCAGCACACATAGTGC
23908641 CA
1 CA
23908643 ATGTTGACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.32, G:0.12, T:0.22
Consensus pattern (24 bp):
CATTCAAATCAGCACACATAGTGC
Found at i:23909104 original size:17 final size:17
Alignment explanation
Indices: 23909082--23909114 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23909072 TATTTCAATT
23909082 ACACATACATATATATA
1 ACACATACATATATATA
*
23909099 ACACATATATATATAT
1 ACACATACATATATAT
23909115 TTGTATATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (17 bp):
ACACATACATATATATA
Found at i:23918878 original size:17 final size:17
Alignment explanation
Indices: 23918856--23918889 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23918846 TTACATGTAT
23918856 GAAGGTAACTTGGGCAC
1 GAAGGTAACTTGGGCAC
23918873 GAAGGTAACTTGGGCAC
1 GAAGGTAACTTGGGCAC
23918890 AACTCACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.35, T:0.18
Consensus pattern (17 bp):
GAAGGTAACTTGGGCAC
Found at i:23921119 original size:25 final size:25
Alignment explanation
Indices: 23921091--23921142 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
23921081 TTTGGCTTGA
* *
23921091 CATTTACTAAGCAGTATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
23921116 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
23921141 CA
1 CA
23921143 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:23929088 original size:47 final size:46
Alignment explanation
Indices: 23928982--23929245 Score: 188
Period size: 47 Copynumber: 5.6 Consensus size: 46
23928972 TGTGTAAGGT
* *
23928982 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACT-ATCATCTCGTA
* * * *
23929029 GTCAATTCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCGTA
1 GCCGA-TGCATGTCCCAGACAT-GTCTTACACTGACTATCATCTCGTA
* * *
23929077 GCCGATGCATGTCCTAGACATGTCTTACATTGGCT-TACATCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGTA
* * *
23929122 GGCCGATGCATGTCCCAAACATGTCTTACACT-AGC-AGTCGTCTCAATA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTC-GTA
* * *
23929170 -CTGATGCCATGTCCCAGACATGGTCTTACACT-AGCT-TCCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGA-CTAT-CAT-CTCGTA
23929217 GCCGATGCATGTCCCAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
23929246 TTAGCTCATA
Statistics
Matches: 175, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
45 2 0.01
46 68 0.39
47 78 0.45
48 26 0.15
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGTA
Found at i:23929238 original size:94 final size:92
Alignment explanation
Indices: 23928985--23929250 Score: 238
Period size: 94 Copynumber: 2.8 Consensus size: 92
23928975 GTAAGGTGCC
* * * * * *
23928985 GATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATATCTCAAGTCAATTCCATGTCCCAAA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATATC-GAGGCCGA-TGCATGTCCCAAA
* * *
23929048 CATGGTCTTACACT-GACTA-TCATCTC-GTAGCC
62 CAT-GTCTTACACTAG-C-AGTCGTCTCAATA-CT
* * * *
23929080 GATGCATGTCCTAGACATGTCTTACATTGGCTTACATCTCGAGGCCGATGCATGTCCCAAACATG
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAAACATG
23929145 TCTTACACTAGCAGTCGTCTCAATACT
66 TCTTACACTAGCAGTCGTCTCAATACT
* * *
23929172 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAAT-GTGGCCGATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACAT-ATCGAGGCCGATGCATGTCCCAAAC
*
23929236 ATGTCTTACATTAGC
63 ATGTCTTACACTAGC
23929251 TCATACAAGT
Statistics
Matches: 144, Mismatches: 19, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
91 1 0.01
92 22 0.15
93 43 0.30
94 68 0.47
95 10 0.07
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAAACATG
TCTTACACTAGCAGTCGTCTCAATACT
Found at i:23936202 original size:90 final size:89
Alignment explanation
Indices: 23936007--23936331 Score: 328
Period size: 90 Copynumber: 3.6 Consensus size: 89
23935997 TGCAAACTTG
* * ** * * * * ***
23936007 TTGTGTATGCACAACTACTGACAGCATATTAACTTGCAACACTGGTGGTTTATCCA-CAAACTTA
1 TTGTGTATTCACAACTACTGATAGTGTATTAACCTGCAATACTGGTGGTTCATCCATGATTTTTA
* **
23936071 GTACTAGTTTTTATCTACAAACCTA
66 CTGGTAGTTTTTATCTACAAACC-A
* * * *
23936096 TTGTGTATTCACAACTACTAATAGTGTACTCACCTGCAACACTGGTGGTTCATCCATGATTTTTA
1 TTGTGTATTCACAACTACTGATAGTGTATTAACCTGCAATACTGGTGGTTCATCCATGATTTTTA
*
23936161 CTGGTAGTTTTTATCTGCAAACTCA
66 CTGGTAGTTTTTATCTACAAAC-CA
* ** *
23936186 TTCTGTATTCACAACTACTGCCAGTGTATTAACCTACAATACTGGTGGTTCATCCATGATTTTTA
1 TTGTGTATTCACAACTACTGATAGTGTATTAACCTGCAATACTGGTGGTTCATCCATGATTTTTA
* * *
23936251 CTTGCAGCTTTTATCTACAAACCCA
66 CTGGTAGTTTTTATCTACAAA-CCA
* * * * * *
23936276 TTGTGTACTCAGAACTACTGGTAGCGTATTAACCTGCAATATTAGTGGTTCATCCA
1 TTGTGTATTCACAACTACTGATAGTGTATTAACCTGCAATACTGGTGGTTCATCCA
23936332 CAAACTAGAG
Statistics
Matches: 195, Mismatches: 38, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
89 47 0.24
90 146 0.75
91 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (89 bp):
TTGTGTATTCACAACTACTGATAGTGTATTAACCTGCAATACTGGTGGTTCATCCATGATTTTTA
CTGGTAGTTTTTATCTACAAACCA
Found at i:23938400 original size:40 final size:40
Alignment explanation
Indices: 23938295--23938407 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 40
23938285 CCTCAATAAA
* * *
23938295 CTGATGCTATCTCGATATCGCACACTTAGTGCCTCATATAG
1 CTGAAGCTATTTCGA-ATCACACACTTAGTGCCTCATATAG
* * * *
23938336 -TCGAAGCTA-TTCCAATTCATACACTCAGTGCCAT-TTATAG
1 CT-GAAGCTATTTCGAA-TCACACACTTAGTGCC-TCATATAG
23938376 CTGAAGCTATTTCGAATCACACACTTAGTGCC
1 CTGAAGCTATTTCGAATCACACACTTAGTGCC
23938408 GAACATAGTC
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
39 1 0.02
40 43 0.75
41 13 0.23
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (40 bp):
CTGAAGCTATTTCGAATCACACACTTAGTGCCTCATATAG
Found at i:23945949 original size:40 final size:40
Alignment explanation
Indices: 23945879--23946083 Score: 290
Period size: 40 Copynumber: 5.2 Consensus size: 40
23945869 CGGATGATAA
* *
23945879 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
* *
23945919 CGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCT
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
23945959 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
23945999 CGAAGGCATTTGTGCGAGCTACTATATCCGAGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
23946039 CGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
23946078 CGAAGG
1 CGAAGG
23946084 TACTTGGTTT
Statistics
Matches: 152, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.10
40 136 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:23952301 original size:40 final size:41
Alignment explanation
Indices: 23952257--23952398 Score: 144
Period size: 41 Copynumber: 3.5 Consensus size: 41
23952247 CGACGACAAA
* * * * *
23952257 TCGGCTATATTTGGCATTTAAT-T-TGTGATTTGACATAGCT
1 TCGGCTATATATGGCACTTAATGTATGAGA-TCGACATAACT
*
23952297 TCGGCTATATATGGCACTTAATGTATGAGATCGAGATAACT
1 TCGGCTATATATGGCACTTAATGTATGAGATCGACATAACT
* ** * * *
23952338 TCGGCTATATATGGCACTTAGTGTGCGAGATCAAGATAATT
1 TCGGCTATATATGGCACTTAATGTATGAGATCGACATAACT
*
23952379 TTGGCTATATATGGCACTTA
1 TCGGCTATATATGGCACTTA
23952399 GTGTGTGATT
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
40 20 0.23
41 64 0.73
42 4 0.05
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (41 bp):
TCGGCTATATATGGCACTTAATGTATGAGATCGACATAACT
Found at i:23952414 original size:81 final size:82
Alignment explanation
Indices: 23952299--23952449 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 82
23952289 ACATAGCTTC
* *
23952299 GGCTATATATGGCACTTAATGTATGAGATCGAGATAACTTCGGCTATATATGGCACTTAGTGTGC
1 GGCTATATATGGCACTTAATGTATGAGATCGAGATAACTTCGGCTATATACGACACTTAGTGTGC
23952364 GAGATCAAGATAATTTT
66 GAGATCAAGATAATTTT
* * * * * * * *
23952381 GGCTATATATGGCACTTAGTGTGTGA-TTTGAGATAGCTTTGGCTATGTACGACACTTAGTGTGT
1 GGCTATATATGGCACTTAATGTATGAGATCGAGATAACTTCGGCTATATACGACACTTAGTGTGC
23952445 GAGAT
66 GAGAT
23952450 ATCGAGTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
81 35 0.59
82 24 0.41
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (82 bp):
GGCTATATATGGCACTTAATGTATGAGATCGAGATAACTTCGGCTATATACGACACTTAGTGTGC
GAGATCAAGATAATTTT
Found at i:23952426 original size:40 final size:41
Alignment explanation
Indices: 23952295--23952449 Score: 186
Period size: 41 Copynumber: 3.8 Consensus size: 41
23952285 TTTGACATAG
* *
23952295 CTTCGGCTATATATGGCACTTAATGTATGAGATCGAGATAA
1 CTTCGGCTATATATGGCACTTAGTGTGTGAGATCGAGATAA
* *
23952336 CTTCGGCTATATATGGCACTTAGTGTGCGAGATCAAGATAA
1 CTTCGGCTATATATGGCACTTAGTGTGTGAGATCGAGATAA
* * * * *
23952377 TTTTGGCTATATATGGCACTTAGTGTGTGA-TTTGAGATAG
1 CTTCGGCTATATATGGCACTTAGTGTGTGAGATCGAGATAA
* * * *
23952417 CTTTGGCTATGTACGACACTTAGTGTGTGAGAT
1 CTTCGGCTATATATGGCACTTAGTGTGTGAGAT
23952450 ATCGAGTATT
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 32 0.33
41 65 0.67
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (41 bp):
CTTCGGCTATATATGGCACTTAGTGTGTGAGATCGAGATAA
Found at i:23962836 original size:39 final size:39
Alignment explanation
Indices: 23962792--23963133 Score: 441
Period size: 39 Copynumber: 8.8 Consensus size: 39
23962782 AATAAAAATA
* *
23962792 CGGTGATTATTCGGGTTAAGTGCCTAGCAAGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* *
23962831 TGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* *
23962870 CGGTGATTATTCGAGCTAAGTGCCTAGTAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * * * *
23962909 CGATGATTTTTTGGGCAAAGTGCCTAGCAAGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* *
23962948 CGGTGATTATTCGGGCTAAGTGCCTAACAGGCTTTGTAC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * *
23962987 AGGTGATTATTCGAGCTAAGTGCCGAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
** * * *
23963026 CCATGCTTATTCAGGCTAAGTGCCTAACAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
* * * *
23963065 CAGTGATTATTCGGGCTATGTGCCTAGTAGGCTTTGTGT
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
**
23963104 CGGTGATTATTCGGGCTTTGTGCCTAGCAG
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAG
23963134 TATATGTGCC
Statistics
Matches: 257, Mismatches: 46, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 257 1.00
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (39 bp):
CGGTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGC
Found at i:23964770 original size:67 final size:67
Alignment explanation
Indices: 23964686--23964813 Score: 238
Period size: 67 Copynumber: 1.9 Consensus size: 67
23964676 TAGATGTAAA
23964686 CTGAAAAATATACAAGATTTTTCCTATGCAATTTATCACCTTTTTACTTAAATTCGTTGTTTGCT
1 CTGAAAAATATACAAGATTTTTCCTATGCAATTTATCACCTTTTTACTTAAATTCGTTGTTTGCT
23964751 AG
66 AG
* *
23964753 CTGAAAAATATATAAGATTTTTCCTATGTAATTTATCACCTTTTTACTTAAATTCGTTGTT
1 CTGAAAAATATACAAGATTTTTCCTATGCAATTTATCACCTTTTTACTTAAATTCGTTGTT
23964814 AAAACTAAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.45
Consensus pattern (67 bp):
CTGAAAAATATACAAGATTTTTCCTATGCAATTTATCACCTTTTTACTTAAATTCGTTGTTTGCT
AG
Found at i:23973841 original size:96 final size:96
Alignment explanation
Indices: 23973724--23974131 Score: 468
Period size: 96 Copynumber: 4.3 Consensus size: 96
23973714 AGTGTCGATC
* * * *
23973724 CCATGTCCTAGACATGGTCTTACATTGACACATATAACAATGCTGATGCCATGTTCCAAGCATGG
1 CCATGTCCCAGACATGGTCTTACACTGACACACATAACAATGCTGATGCCATGTTCCAAACATGG
23973789 TCTTACACTGGTTCGCATATTGAGGTCAATG
66 TCTTACACTGGTTCGCATATTGAGGTCAATG
* * **
23973820 CCATGTCCTAGACATGGTCTTACACT-AGCTCACATAACAATGCCAATGCCATGTTCCAAACATG
1 CCATGTCCCAGACATGGTCTTACACTGA-CACACATAACAATGCTGATGCCATGTTCCAAACATG
* *
23973884 GTCTTACATTGGTTCGCTTATTGAGGCTC-ATG
65 GTCTTACACTGGTTCGCATATTGAGG-TCAATG
* * *
23973916 CCATGCCCCAGACATGGTCTTACACTGGCTCACATAACAATGCTGATGCCATGTTCCAAACATGG
1 CCATGTCCCAGACATGGTCTTACACTGACACACATAACAATGCTGATGCCATGTTCCAAACATGG
* * * * * *
23973981 TCTTACATTGGCTCTCATAAATCAGGGCTAATG
66 TCTTACACTGGTTCGCAT-ATTGAGGTC-AATG
** * * * * *
23974014 CTGTGTCCCAGACATGGTCTTACACTG--ACACATATCGAGGCTGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTGACACACATAACAATGCTGATGCCATGTTCCAAACATGG
* * * *
23974077 TCTTACACT-G-ACACATATCGAGGCCAATG
66 TCTTACACTGGTTCGCATATTGAGGTCAATG
23974106 CCATGTCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
23974132 AGCTTTCATA
Statistics
Matches: 269, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
92 28 0.10
93 5 0.02
94 4 0.01
95 2 0.01
96 196 0.73
97 7 0.03
98 27 0.10
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (96 bp):
CCATGTCCCAGACATGGTCTTACACTGACACACATAACAATGCTGATGCCATGTTCCAAACATGG
TCTTACACTGGTTCGCATATTGAGGTCAATG
Found at i:23973937 original size:144 final size:141
Alignment explanation
Indices: 23973675--23974135 Score: 383
Period size: 144 Copynumber: 3.2 Consensus size: 141
23973665 CATGGTTTTA
* * * * * * * * * *
23973675 CATGTCCCGGACATGGTTTTACACTGGCTCTCATACATC-AGTGTCGATCCCATGTCCTAGACAT
1 CATGT-CCAGACATGGTCTTACACTAGCTCACATAAATCAAG-GCCAATGCCATGTCCCAAACAT
* * * * **
23973739 GGTCTTACATTGACACATATAACAATGCTGATGCCATGTTCCA-AGCATGGTCTTACACTGGTTC
64 GGTCTTACACTGACACATAT--CGAGGCTCATGCCATGCCCCAGA-CATGGTCTTACACTGG-TC
* *
23973803 GCATATTGAGGTCAATGC
125 ACATATCGAGG-CAATGC
* *
23973821 CATGTCCTAGACATGGTCTTACACTAGCTCACAT-AA-CAATGCCAATGCCATGTTCCAAACATG
1 CATGTCC-AGACATGGTCTTACACTAGCTCACATAAATCAAGGCCAATGCCATGTCCCAAACATG
* * * * *
23973884 GTCTTACATTGGTTCGCTTATTGAGGCTCATGCCATGCCCCAGACATGGTCTTACACTGGCTCAC
65 GTCTTACACT-G-ACACATATCGAGGCTCATGCCATGCCCCAGACATGGTCTTACACTGG-TCAC
* * * *
23973949 ATAACAATGCTGATGC
127 ATATCGAGGC-AATGC
* * * * * * ** *
23973965 CATGTTCCAAACATGGTCTTACATTGGCTCTCATAAATCAGGGCTAATGCTGTGTCCCAGACATG
1 CATG-TCCAGACATGGTCTTACACTAGCTCACATAAATCAAGGCCAATGCCATGTCCCAAACATG
* * *
23974030 GTCTTACACTGACACATATCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACT-GACACATA
65 GTCTTACACTGACACATATCGAGGCTCATGCCATGCCCCAGACATGGTCTTACACTGGTCACATA
23974094 TCGAGGCCAATGC
130 TCGAGG-CAATGC
23974107 CATGTCCCAGACATGGTCTTACACTAGCT
1 CATGT-CCAGACATGGTCTTACACTAGCT
23974136 TTCATAATGC
Statistics
Matches: 250, Mismatches: 54, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
141 1 0.00
142 37 0.15
143 3 0.01
144 136 0.54
145 12 0.05
146 61 0.24
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (141 bp):
CATGTCCAGACATGGTCTTACACTAGCTCACATAAATCAAGGCCAATGCCATGTCCCAAACATGG
TCTTACACTGACACATATCGAGGCTCATGCCATGCCCCAGACATGGTCTTACACTGGTCACATAT
CGAGGCAATGC
Found at i:23974035 original size:50 final size:48
Alignment explanation
Indices: 23973675--23974131 Score: 336
Period size: 48 Copynumber: 9.5 Consensus size: 48
23973665 CATGGTTTTA
* * * * *
23973675 CATGTCCCGGACATGGTTTTACACTGGCTCTCAT-ACATCAGTG-TCGATCC
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATAACA--AG-GCT-AATGC
* * * * * * *
23973725 CATGTCCTAGACATGGTCTTACATTGACACATATAACAATGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTAATGC
* * * ***
23973773 CATGTTCCA-AGCATGGTCTTACACTGGTTCGCATATTGAGG-TCAATGC
1 CATGTCCCAGA-CATGGTCTTACACTGGCTCACATAACAAGGCT-AATGC
* * * *
23973821 CATGTCCTAGACATGGTCTTACACTAGCTCACATAACAATGCCAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTAATGC
* * * * * * *** *
23973869 CATGTTCCAAACATGGTCTTACATTGGTTCGCTTATTGAGGCTCATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTAATGC
* * *
23973917 CATGCCCCAGACATGGTCTTACACTGGCTCACATAACAATGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTAATGC
* * * * *
23973965 CATGTTCCAAACATGGTCTTACATTGGCTCTCATAAATCAGGGCTAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCACAT-AA-CAAGGCTAATGC
** * * * *
23974015 TGTGTCCCAGACATGGTCTTACACT-G-ACACATATCGAGGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTAATGC
* * * *
23974061 CATGTCCCAGACATGGTCTTACACT-G-ACACATATCGAGGCCAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTAATGC
23974107 CATGTCCCAGACATGGTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
23974132 AGCTTTCATA
Statistics
Matches: 317, Mismatches: 82, Indels: 20
0.76 0.20 0.05
Matches are distributed among these distances:
46 76 0.24
47 3 0.01
48 174 0.55
49 6 0.02
50 55 0.17
51 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCACATAACAAGGCTAATGC
Found at i:23977539 original size:46 final size:45
Alignment explanation
Indices: 23977472--23977646 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
23977462 TGTAACCCGC
23977472 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGGC-TTCGTAT
* * *
23977518 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGTAT
* * * * *
23977564 ACATTTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGTAT
*
23977611 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
23977647 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 5 0.05
46 64 0.60
47 33 0.31
48 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGTAT
Found at i:23977592 original size:93 final size:93
Alignment explanation
Indices: 23977479--23977650 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
23977469 CGCCCATAAG
* * *
23977479 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
23977543 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
*
23977572 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23977637 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
23977651 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:23983013 original size:13 final size:13
Alignment explanation
Indices: 23982970--23983004 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
23982960 ACTAAGTAAG
23982970 CTTCACAACCTTT
1 CTTCACAACCTTT
*
23982983 CTTCACAACCTCT
1 CTTCACAACCTTT
23982996 CTTCACAAC
1 CTTCACAAC
23983005 TTTTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.43, G:0.00, T:0.31
Consensus pattern (13 bp):
CTTCACAACCTTT
Found at i:23987991 original size:40 final size:40
Alignment explanation
Indices: 23987893--23988095 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
23987883 GGATGATAAT
* * *
23987893 CGGGCTAAGTCCCGAAGGCATTTTTCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGT-GCGAGTTACTA-TATC
*
23987934 CGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
23987974 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
23988014 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
** * *
23988054 TAGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
23988093 CGG
1 CGG
23988096 TTAAATTTCG
Statistics
Matches: 147, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 16 0.11
40 106 0.72
41 23 0.16
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:23992801 original size:48 final size:48
Alignment explanation
Indices: 23992734--23993159 Score: 407
Period size: 48 Copynumber: 8.9 Consensus size: 48
23992724 TAATAATGCT
* * * * * *
23992734 GATGCTATGTTCCAAACATGGTCTTACACTGGTTCGCATATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * *
23992782 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * * *
23992830 GATGCCATGTTCCAAATATGGTCTTACACTGG-TTAGCATATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATATCGAGGCC
* * * *
23992878 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * * * * *
23992926 GATGACATGTTCCAAACATGGTCTTACATTGGCTCTCATAAACCG-GTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT--ATCGAG-GCC
* * * *
23992976 GATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATATTGAGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
23993022 AATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAAATCG-GTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT--ATCGAG-GCC
* *
23993072 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
23993118 CATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
23993160 ACCATGGTCC
Statistics
Matches: 302, Mismatches: 62, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
46 65 0.22
47 6 0.02
48 163 0.54
49 5 0.02
50 63 0.21
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:23997933 original size:64 final size:64
Alignment explanation
Indices: 23997852--23998035 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
23997842 AGACATTATG
* * *
23997852 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
23997916 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGATAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
23997981 AA
63 AA
* * * *
23997983 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCATCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
23998036 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 25 0.26
66 21 0.22
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:24001803 original size:7 final size:7
Alignment explanation
Indices: 24001791--24001838 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
24001781 ATCATTCGTA
24001791 ATCATCC
1 ATCATCC
24001798 ATCATCC
1 ATCATCC
24001805 ATCATCC
1 ATCATCC
24001812 ATCATCC
1 ATCATCC
* *
24001819 TTCGTCC
1 ATCATCC
*
24001826 CTCATCC
1 ATCATCC
*
24001833 CTCATC
1 ATCATC
24001839 ATTCTCTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.21, C:0.46, G:0.02, T:0.31
Consensus pattern (7 bp):
ATCATCC
Found at i:24008630 original size:39 final size:39
Alignment explanation
Indices: 24008587--24008850 Score: 307
Period size: 39 Copynumber: 6.8 Consensus size: 39
24008577 AGAAATAAGA
* * * * *
24008587 TGATTATTCAGGCTAAGTGGCTAGCAGGCTATGTGCTGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTAG
* *
24008626 TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTTCTAG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTAG
* * * *
24008665 TGATTATTTGGACTAAGTGCCTAGCAGGCTTTGTGCCAG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTAG
* * * **
24008704 TGATTATTTGGGCTAAGTGCTTAGCAGGCTTTGTGCCGG
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTAG
24008743 TGATTATTCGGGCTATGTGCCTAGCAGGAC-TTGTGCTAG
1 TGATTATTCGGGCTATGTGCCTAGCAGG-CTTTGTGCTAG
* * *
24008782 TGATTATTCGGGCTTTGTGCCTATCAGGCTTTGTGCTGAA
1 TGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCT-AG
* *
24008822 T-ATTATTCGGGCTTTGTGCCTAGTAGGCT
1 TGATTATTCGGGCTATGTGCCTAGCAGGCT
24008851 ATGTACCGGT
Statistics
Matches: 197, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.01
39 193 0.98
40 3 0.02
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.36
Consensus pattern (39 bp):
TGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTAG
Found at i:24008739 original size:117 final size:117
Alignment explanation
Indices: 24008587--24008861 Score: 340
Period size: 117 Copynumber: 2.4 Consensus size: 117
24008577 AGAAATAAGA
*
24008587 TGATTATTCAGGCTAAGTGGCTAGCAGGCTATGTGCTGGTGATTATTCGGGCTATGTGCCTAGCA
1 TGATTATTCAGGCTAAGTGGCTAGCAGGCTATGTGCCGGTGATTATTCGGGCTATGTGCCTAGCA
* *
24008652 GG-CTGTGTTCTAGTGATTATTTGGACTAAGTGCCTAGCAGGCTTTGTGCCAG
66 GGACT-TGTGCTAGTGATTATTCGGACTAAGTGCCTAGCAGGCTTTGTGCCAG
** *
24008704 TGATTATTTGGGCTAAGT-GCTTAGCAGGCTTTGTGCCGGTGATTATTCGGGCTATGTGCCTAGC
1 TGATTATTCAGGCTAAGTGGC-TAGCAGGCTATGTGCCGGTGATTATTCGGGCTATGTGCCTAGC
* ** * * *
24008768 AGGACTTGTGCTAGTGATTATTCGGGCTTTGTGCCTATCAGGCTTTGTGCTGAA
65 AGGACTTGTGCTAGTGATTATTCGGACTAAGTGCCTAGCAGGCTTTGTGC-CAG
* ** * * *
24008822 T-ATTATTCGGGCTTTGTGCCTAGTAGGCTATGTACCGGTG
1 TGATTATTCAGGCTAAGTGGCTAGCAGGCTATGTGCCGGTG
24008862 TATTGGAAGT
Statistics
Matches: 135, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
116 2 0.01
117 128 0.95
118 5 0.04
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (117 bp):
TGATTATTCAGGCTAAGTGGCTAGCAGGCTATGTGCCGGTGATTATTCGGGCTATGTGCCTAGCA
GGACTTGTGCTAGTGATTATTCGGACTAAGTGCCTAGCAGGCTTTGTGCCAG
Found at i:24012596 original size:26 final size:26
Alignment explanation
Indices: 24012560--24012618 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
24012550 TCATTTTATG
24012560 GTAATGGATTTTAGAAGGGGCTTCTA
1 GTAATGGATTTTAGAAGGGGCTTCTA
24012586 GTAATGGATTTTAGAAGGGGCTTCTA
1 GTAATGGATTTTAGAAGGGGCTTCTA
24012612 GTAATGG
1 GTAATGG
24012619 GTTTATTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.27, C:0.07, G:0.32, T:0.34
Consensus pattern (26 bp):
GTAATGGATTTTAGAAGGGGCTTCTA
Found at i:24020038 original size:19 final size:18
Alignment explanation
Indices: 24020016--24020051 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24020006 CTTACGGACT
*
24020016 TTTGGGACATTTTAAATTG
1 TTTGGGAC-TTTAAAATTG
24020035 TTTGGGACTTTAAAATT
1 TTTGGGACTTTAAAATT
24020052 TATTTTCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (18 bp):
TTTGGGACTTTAAAATTG
Found at i:24022817 original size:63 final size:62
Alignment explanation
Indices: 24022723--24022901 Score: 221
Period size: 58 Copynumber: 3.0 Consensus size: 62
24022713 TTTTTCTAAT
*
24022723 ATTATATATTTTTATTTTTATT-AATTCATATTTTAATAATAAATTATATTAAGAATATTATTAA
1 ATTATATATTTTTATTTTTATTAAATT-ATA-TTTAATAATAAATTATATTAA-AATATAATTAA
*
24022787 ATTATATATTTTTA-TTTTATTAAATTATATTTAACAAT-AATTATATTAAAATATAATTAA
1 ATTATATATTTTTATTTTTATTAAATTATATTTAATAATAAATTATATTAAAATATAATTAA
* * *
24022847 A--ATAT-TTATTATTTTTATTATATTATATTTAATAAT-AATCT-TATTAAAATTTAAT
1 ATTATATATTTTTATTTTTATTAAATTATATTTAATAATAAAT-TATATTAAAATATAAT
24022902 AACAATAATA
Statistics
Matches: 106, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
57 5 0.05
58 42 0.40
59 1 0.01
60 11 0.10
61 11 0.10
62 8 0.08
63 10 0.09
64 18 0.17
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.54
Consensus pattern (62 bp):
ATTATATATTTTTATTTTTATTAAATTATATTTAATAATAAATTATATTAAAATATAATTAA
Found at i:24022859 original size:26 final size:27
Alignment explanation
Indices: 24022803--24022859 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
24022793 TATTTTTATT
* *
24022803 TTATTAAATTATATTTAACAATAATTA
1 TTATTAAAATATAATTAACAATAATTA
*
24022830 -TATTAAAATATAATTAA-AATATTTA
1 TTATTAAAATATAATTAACAATAATTA
24022855 TTATT
1 TTATT
24022860 TTTATTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TTATTAAAATATAATTAACAATAATTA
Found at i:24031336 original size:48 final size:48
Alignment explanation
Indices: 24031262--24031653 Score: 640
Period size: 48 Copynumber: 8.0 Consensus size: 48
24031252 CAAGATAAAT
*
24031262 ATATGTATATGTGGTAAAGCCTAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
24031310 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24031358 ATATGTATATGTGGTAAGTAAAGCCGAATGGCTAATGTGAAATATGTATGGG
1 ATATGTATATGT-G---GTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24031410 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGGG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
24031458 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24031506 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
* *
24031556 ATATGTATATGTGGTAAAGCCGCATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
24031604 ATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
24031652 AT
1 AT
24031654 GTGTGTATAT
Statistics
Matches: 327, Mismatches: 11, Indels: 12
0.93 0.03 0.03
Matches are distributed among these distances:
48 232 0.71
49 5 0.02
50 43 0.13
51 1 0.00
52 46 0.14
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:24031463 original size:148 final size:146
Alignment explanation
Indices: 24031262--24031653 Score: 644
Period size: 148 Copynumber: 2.7 Consensus size: 146
24031252 CAAGATAAAT
*
24031262 ATATGTATATGTGGTAAAGCCTAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
24031327 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAGTAAAGCCGAATGGCTA
66 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGT-G---GTAAAGCCGAATGGCTA
* *
24031392 ATGTG-AA-ATATGTATGGG
127 ATGTGAAATATATATATGAG
*
24031410 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGGGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
24031475 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
24031540 GAAATATATATATGAG
131 GAAATATATATATGAG
* * *
24031556 ATATGTATATGTGGTAAAGCCGCATGGCTAGTGTGAAATATGTATGAGATACGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* * *
24031621 AGCCGAAGGGCTAGTGTGAAATATGTAGGAGAT
66 AGCCGAATGGCTAATGTGAAATATGTATGAGAT
24031654 GTGTGTATAT
Statistics
Matches: 231, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
144 22 0.10
145 2 0.01
146 100 0.43
147 1 0.00
148 106 0.46
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (146 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
GAAATATATATATGAG
Found at i:24031907 original size:74 final size:74
Alignment explanation
Indices: 24031783--24031934 Score: 250
Period size: 74 Copynumber: 2.1 Consensus size: 74
24031773 ACATGAAACT
* *
24031783 TGGAAATATATTTCGGGTAAGACCCGATGACTACGTATGGAGATTATGTCCGGGTAAGACCCGAT
1 TGGAAATATATTCCGAGTAAGACCCGATGACTACGTATGGAGATTATGTCCGGGTAAGACCCGAT
*
24031848 GACTACGTG
66 AACTACGTG
* *
24031857 TGGAAATATATTCCGAGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGAT
1 TGGAAATATATTCCGAGTAAGACCCGATGACTACGTATGGAGATTATGTCCGGGTAAGACCCGAT
*
24031922 AACTTCGTG
66 AACTACGTG
24031931 TGGA
1 TGGA
24031935 GATTTCATCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (74 bp):
TGGAAATATATTCCGAGTAAGACCCGATGACTACGTATGGAGATTATGTCCGGGTAAGACCCGAT
AACTACGTG
Found at i:24031939 original size:37 final size:37
Alignment explanation
Indices: 24031796--24031938 Score: 216
Period size: 37 Copynumber: 3.9 Consensus size: 37
24031786 AAATATATTT
*
24031796 CGGGTAAGACCCGATGACTACGTATGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
*
24031833 CGGGTAAGACCCGATGACTACGTGTGGAAATATAT-TC
1 CGGGTAAGACCCGATGACTACGTGTGGAGAT-TATGTC
* *
24031870 CGAGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* *
24031907 CGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATT
24031939 TCATCTGAGC
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
36 2 0.02
37 91 0.95
38 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
Found at i:24033264 original size:40 final size:40
Alignment explanation
Indices: 24033209--24033496 Score: 468
Period size: 40 Copynumber: 7.2 Consensus size: 40
24033199 AGTTAGATGC
*
24033209 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
24033249 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* * * * *
24033289 CCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* *
24033329 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* *
24033369 CCAGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* *
24033409 CCGAGCTAGGTCCTGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
24033449 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
24033489 CCGGGCTA
1 CCGGGCTA
24033497 TCGGTACTGA
Statistics
Matches: 231, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 231 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
Found at i:24057120 original size:132 final size:131
Alignment explanation
Indices: 24056876--24057186 Score: 374
Period size: 132 Copynumber: 2.4 Consensus size: 131
24056866 TAATCAATCA
* * *
24056876 TTTAAAAATCCTTTAAAACGAAGACGAGATTCGATCTTTGACAATTCACGGAATAGTGCCCTAAC
1 TTTAAAAATCCTTTAAAACGAAGGCGAGATGCGATATTTGACAATTCACGGAATAGTGCCCTAAC
* * * *
24056941 GTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATAGAATATCCCTTCGAAATTTCACTCATGC
66 GTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATAGAATAACCCTTCAAAATTTCACGCATAC
24057006 C
131 C
* * * *
24057007 TATTAAAAATTCTTTAAAACGAAGGCGATG-TGCGATATTTGGCAATTCGCGGAATCGTGCCCTA
1 T-TTAAAAATCCTTTAAAACGAAGGCGA-GATGCGATATTTGACAATTCACGGAATAGTGCCCTA
* * *
24057071 ACGTGTTGGGTTGCAATTTCTCGTTTTCTTAAAATAATCA-AATAACCCTTCAAAATTTCACGCA
64 ACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT-AGAATAACCCTTCAAAATTTCACGCA
24057135 TACC
128 TACC
** * ** * * *
24057139 TTCTAAAAATGATTTAAAACAAAGGAAATATTCGACATTTGACAATTC
1 TT-TAAAAATCCTTTAAAACGAAGGCGAGATGCGATATTTGACAATTC
24057187 GAGAATCATG
Statistics
Matches: 152, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
131 2 0.01
132 148 0.97
133 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (131 bp):
TTTAAAAATCCTTTAAAACGAAGGCGAGATGCGATATTTGACAATTCACGGAATAGTGCCCTAAC
GTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATAGAATAACCCTTCAAAATTTCACGCATAC
C
Found at i:24059082 original size:19 final size:19
Alignment explanation
Indices: 24059060--24059126 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
24059050 TCATCCCGTG
24059060 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
*
24059079 CATTTACATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
* *
24059098 TATTTGCATTACATTGCAT
1 CATTTGCATTGCATTGCAT
24059117 CATTTGCATT
1 CATTTGCATT
24059127 AGATTTCCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (19 bp):
CATTTGCATTGCATTGCAT
Found at i:24061672 original size:25 final size:24
Alignment explanation
Indices: 24061644--24061714 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 24
24061634 TGAGATCTTC
*
24061644 AAAAAAAATAAGAGAAAAGAAGAAG
1 AAAAAAAAGAA-AGAAAAGAAGAAG
24061669 AAAAGAAAAGAAAGAAATA-AAGAAG
1 AAAA-AAAAGAAAGAAA-AGAAGAAG
*
24061694 AAAAAGAAGAAAAGAAAAGAA
1 AAAAAAAAG-AAAGAAAAGAA
24061715 AAGGAGAGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 5 0.12
25 28 0.70
26 7 0.17
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (24 bp):
AAAAAAAAGAAAGAAAAGAAGAAG
Found at i:24061674 original size:5 final size:5
Alignment explanation
Indices: 24061656--24061717 Score: 67
Period size: 5 Copynumber: 12.4 Consensus size: 5
24061646 AAAAAATAAG
*
24061656 AGAAA AGAAGA AGAAA AGAAA AG-AA AGAAA TA-AAGA AGAAA A-AGA
1 AGAAA AGAA-A AGAAA AGAAA AGAAA AGAAA -AGAA-A AGAAA AGAAA
24061701 AGAAA AGAAA AGAAA AG
1 AGAAA AGAAA AGAAA AG
24061718 GAGAGGCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 7 0.14
5 33 0.67
6 9 0.18
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.02
Consensus pattern (5 bp):
AGAAA
Found at i:24061690 original size:17 final size:17
Alignment explanation
Indices: 24061656--24061715 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
24061646 AAAAAATAAG
24061656 AGAAAAG-AAGAAGAAA
1 AGAAAAGAAAGAAGAAA
24061672 AGAAAAGAAAGAA-ATAA
1 AGAAAAGAAAGAAGA-AA
24061689 AGAAGAA-AAAGAAGAAA
1 AGAA-AAGAAAGAAGAAA
24061706 AGAAAAGAAA
1 AGAAAAGAAA
24061716 AGGAGAGGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
16 10 0.26
17 26 0.67
18 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.02
Consensus pattern (17 bp):
AGAAAAGAAAGAAGAAA
Found at i:24061701 original size:34 final size:34
Alignment explanation
Indices: 24061649--24061715 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
24061639 TCTTCAAAAA
*
24061649 AAATAAGAGAAAAGAAGAAGAAAAGAAAAGAAAG
1 AAATAAGAGAAAAAAAGAAGAAAAGAAAAGAAAG
24061683 AAATAA-AGAAGAAAAAGAAGAAAAGAAAAGAAA
1 AAATAAGAGAA-AAAAAGAAGAAAAGAAAAGAAA
24061716 AGGAGAGGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 4 0.13
34 27 0.87
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (34 bp):
AAATAAGAGAAAAAAAGAAGAAAAGAAAAGAAAG
Found at i:24063037 original size:44 final size:44
Alignment explanation
Indices: 24062961--24063360 Score: 485
Period size: 44 Copynumber: 9.1 Consensus size: 44
24062951 TCCTTGAAGC
* * *
24062961 AGATAACAGATTTGGCGCCTCTATAGCAGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
24063005 AGATAACAGATTTGGCGTATCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * ** * * *
24063049 AGATAACAAATTTGGCATCTCTGTATTGTCAGAGGGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
24063093 AGATAACATATTTGGCATCTCTATAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * * *
24063137 AGATAACAGATTTGGCGTCTCTATAGCAGCGAAAAGTAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* **
24063181 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAAAAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
24063225 ATATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * **
24063269 ACATAACAGATTTGGCATCTCTGTAGTGGTAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * * *
24063313 AGATAGCAGTTTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCGA
24063358 AGA
1 AGA
24063361 CATAGCTGAT
Statistics
Matches: 306, Mismatches: 49, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
44 289 0.94
45 17 0.06
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:24063424 original size:88 final size:88
Alignment explanation
Indices: 24063323--24063576 Score: 402
Period size: 88 Copynumber: 2.9 Consensus size: 88
24063313 AGATAGCAGT
*
24063323 TTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
1 TTTGACATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
*
24063388 ACGTTGAAGTAGATCCAAGATGA
66 ACGTTGAAGCAGATCCAAGATGA
* *
24063411 TTTTACATCTCTGTATCAGGCGGGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
1 TTTGACATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
*
24063476 ACGTTGAAGCAGATCCATGATGA
66 ACGTTGAAGCAGATCCAAGATGA
* * * * *
24063499 TTTGGCATCTTTGTATCAGGCAGGGAGCAGATCAAAGACATAGTTGATTTGGCTTTCACGTGTTT
1 TTTGACATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
*
24063564 ACATTG-AGCAGAT
66 ACGTTGAAGCAGAT
24063577 TTGACATCTC
Statistics
Matches: 153, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
87 7 0.05
88 146 0.95
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (88 bp):
TTTGACATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTT
ACGTTGAAGCAGATCCAAGATGA
Found at i:24063424 original size:176 final size:176
Alignment explanation
Indices: 24063242--24063570 Score: 409
Period size: 176 Copynumber: 1.9 Consensus size: 176
24063232 AGATTTGGCG
* * *
24063242 TCTCTGTAGC-GGCGGAGAGCAGATCG-A-ACATAACAGATTTGGC-ATCTC-TGTAGT-GGTAG
1 TCTCTGTAGCAGGCGGAGAGCAAATCGAAGACATAACAGATTTGGCTATCACGTGT-GTACGTAG
* * *
24063301 AGAGCAGATCGAAGATAGCAGTTTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
65 A-AGCAGATCCAAGAT-G-A--TTTGGCATCTCTGTATCAGGCAGGGAGCAGATCAAAGACATAG
*
24063366 CTGATTTGGCTTTCACGTGTTTACGTTGAAGTAGATCCAAGATGATTTTACA
125 CTGATTTGGCTTTCACGTGTTTACATTGAAGTAGATCCAAGATGATTTTACA
* * * * * * *
24063418 TCTCTGTATCAGGCGGGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 TCTCTGTAGCAGGCGGAGAGCAAATCGAAGACATAACAGATTTGGCTATCACGTGTGTACGTAGA
* * *
24063483 AGCAGATCCATGATGATTTGGCATCTTTGTATCAGGCAGGGAGCAGATCAAAGACATAGTTGATT
66 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCAAAGACATAGCTGATT
24063548 TGGCTTTCACGTGTTTACATTGA
131 TGGCTTTCACGTGTTTACATTGA
24063571 GCAGATTTGA
Statistics
Matches: 130, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
176 76 0.58
177 14 0.11
178 2 0.02
179 15 0.12
180 16 0.12
181 7 0.05
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (176 bp):
TCTCTGTAGCAGGCGGAGAGCAAATCGAAGACATAACAGATTTGGCTATCACGTGTGTACGTAGA
AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCAAAGACATAGCTGATT
TGGCTTTCACGTGTTTACATTGAAGTAGATCCAAGATGATTTTACA
Found at i:24063618 original size:44 final size:44
Alignment explanation
Indices: 24063570--24063654 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
24063560 GTTTACATTG
** *
24063570 AGCAGATTTGACATCTCTGTATTGTTAGAGGGCAGATCGAAGAT
1 AGCAGATTTGACATCTCTGTATTGACAGAGAGCAGATCGAAGAT
* * *
24063614 AGCAGATTTGGCATCTTTGTGTTGACAGAGAGCAGATCGAA
1 AGCAGATTTGACATCTCTGTATTGACAGAGAGCAGATCGAA
24063655 TTTGGCGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (44 bp):
AGCAGATTTGACATCTCTGTATTGACAGAGAGCAGATCGAAGAT
Found at i:24067065 original size:132 final size:131
Alignment explanation
Indices: 24066817--24067101 Score: 362
Period size: 132 Copynumber: 2.2 Consensus size: 131
24066807 ATCAATCATA
* * * * * *
24066817 TAAAAATCCTTAAAACGAAGACGAGATTCGATCTTTGACAATTCGCGGAATAGTGCCCTAACGTG
1 TAAAAATCTTTAAAACAAAGGCGAGATGCGATATTTGACAATTCGCGGAATAGTGCCCTAACGTA
* *
24066882 TTGGGTTGCAATTTTGCGTTTACTCAAAATAATAGAATATCCCTTCGAAATTTCACT-CATGCCT
66 TTGGGTTGCAATTTTGCGTTTACTCAAAATAATAGAATATCCCTTCAAAATTTCA-TGCATACCT
24066946 AT-
130 -TC
* * *
24066948 TAAAAATTCTTTAAAACAAAGGCGATATGCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
1 TAAAAA-TCTTTAAAACAAAGGCGAGATGCGATATTTGACAATTCGCGGAATAGTGCCCTAACGT
* * *
24067013 ATTGTGTTGCAATTTCT-CGTTTGCTTAAAATAATCA-AATATCCCTTCAAAATTTCATGCATAC
65 ATTGGGTTGCAATTT-TGCGTTTACTCAAAATAAT-AGAATATCCCTTCAAAATTTCATGCATAC
24067076 CTTC
128 CTTC
24067080 TAAAAATCATTTAAAACAAAGG
1 TAAAAATC-TTTAAAACAAAGG
24067102 AAATATTCGG
Statistics
Matches: 134, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
131 10 0.07
132 122 0.91
133 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (131 bp):
TAAAAATCTTTAAAACAAAGGCGAGATGCGATATTTGACAATTCGCGGAATAGTGCCCTAACGTA
TTGGGTTGCAATTTTGCGTTTACTCAAAATAATAGAATATCCCTTCAAAATTTCATGCATACCTT
C
Found at i:24067123 original size:132 final size:131
Alignment explanation
Indices: 24066850--24067181 Score: 370
Period size: 132 Copynumber: 2.5 Consensus size: 131
24066840 AGATTCGATC
* *
24066850 TTTGACAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGCAATTT-TGCGTTTACTCAAAATAA
1 TTTGACAATTCGCGGAATCGTGCCCTAACGTGTT-GGTTGCAATTTCT-CGTTTGCTCAAAATAA
* * **
24066914 T-AGAATATCCCTTCGAAATTTCACTCATGCCTATTAAAAATTCTTTAAAACAAAGGCGATATGC
64 TCA-AATATCCCTTCAAAATTTCACTCATACCTATTAAAAATTCTTTAAAACAAAGGAAATATGC
*
24066978 GATA
128 GACA
* * *
24066982 TTTGGCAATTCGCGGAATCGTGCCCTAACGTATTGTGTTGCAATTTCTCGTTTGCTTAAAATAAT
1 TTTGACAATTCGCGGAATCGTGCCCTAACGTGTTG-GTTGCAATTTCTCGTTTGCTCAAAATAAT
*
24067047 CAAATATCCCTTCAAAATTTCA-TGCATACCT-TCTAAAAA-TCATTTAAAACAAAGGAAATATT
65 CAAATATCCCTTCAAAATTTCACT-CATACCTAT-TAAAAATTC-TTTAAAACAAAGGAAATATG
* *
24067109 CGGCG
127 CGACA
* * * * ** *
24067114 TTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGATTGTGATTTCTCGTTTGCTCAAAACAAT
1 TTTGACAATTCGCGGAATCGTGCCCTAACGTGTTGG-TTGCAATTTCTCGTTTGCTCAAAATAAT
24067178 CAAA
65 CAAA
24067182 CATTCCTTTA
Statistics
Matches: 170, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
130 1 0.01
131 50 0.29
132 117 0.69
133 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (131 bp):
TTTGACAATTCGCGGAATCGTGCCCTAACGTGTTGGTTGCAATTTCTCGTTTGCTCAAAATAATC
AAATATCCCTTCAAAATTTCACTCATACCTATTAAAAATTCTTTAAAACAAAGGAAATATGCGAC
A
Found at i:24067306 original size:131 final size:129
Alignment explanation
Indices: 24067125--24067425 Score: 302
Period size: 130 Copynumber: 2.3 Consensus size: 129
24067115 TTGACAATTC
* * * * * * * *
24067125 GAGAATCATGCCCTATCGTGCTGGATTGTGATTTCTCGTTTGCTCAAAACAATCAAACATTCCTT
1 GAGAATCGTGCCCTATCGTGCTGGGTTGTGCTTTTTCATTAGATCAAAACAATCAAACATCCCTT
* * *
24067190 -TATATTCTCACTCA-AGTTTATAAAAAATAC-TTAAAAACGAAGACGATGTTCAATGTTTGGTG
66 CGA-ATT-TCACTCACA-TTT-TAAAAAAT-CTTTAAAAACAAAGACGATATTCAATGTTTGGTG
24067252 ATTT
126 ATTT
* * ** *
24067256 GAGAATCGTGCCCTTTCGTGCTGGGTTGTGCTTTTTCATTAGATCGAAACAATTGAAGATCCCTT
1 GAGAATCGTGCCCTATCGTGCTGGGTTGTGCTTTTTCATTAGATCAAAACAATCAAACATCCCTT
** * * * *
24067321 CGGAATTTCACTCACATTTTCTAAAATCTTTTAAAATAAAGGCGATATTCGATGTTTGGTGATTT
66 C-GAATTTCACTCACATTTTAAAAAATCTTTAAAAACAAAGACGATATTCAATGTTTGGTGATTT
* * *
24067386 GGGAATCGAGCCCTATCGTGCTGGGTTGCGCTTTTTCATT
1 GAGAATCGTGCCCTATCGTGCTGGGTTGTGCTTTTTCATT
24067426 TGTCCAAAAT
Statistics
Matches: 140, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
129 1 0.01
130 72 0.51
131 62 0.44
132 4 0.03
133 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (129 bp):
GAGAATCGTGCCCTATCGTGCTGGGTTGTGCTTTTTCATTAGATCAAAACAATCAAACATCCCTT
CGAATTTCACTCACATTTTAAAAAATCTTTAAAAACAAAGACGATATTCAATGTTTGGTGATTT
Found at i:24068896 original size:17 final size:17
Alignment explanation
Indices: 24068854--24068896 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
24068844 TGCACTTAAG
*
24068854 CCATTCATGCATTTTAT
1 CCATTCATGCATTTGAT
*
24068871 -CATCCCATGCATTTGAT
1 CCAT-TCATGCATTTGAT
24068888 CCATTCATG
1 CCATTCATG
24068897 GACTAGCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 3 0.14
17 15 0.71
18 3 0.14
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (17 bp):
CCATTCATGCATTTGAT
Found at i:24070782 original size:5 final size:5
Alignment explanation
Indices: 24070768--24070797 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
24070758 AATTTAAAAA
*
24070768 TTTAT TTTAT CTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
24070798 GGTTGGCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:24070858 original size:15 final size:14
Alignment explanation
Indices: 24070826--24070861 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
24070816 AAGGTCACAT
24070826 AAAAATTTCGATGC
1 AAAAATTTCGATGC
24070840 AAAAATTTCGATGC
1 AAAAATTTCGATGC
*
24070854 GAAAATTT
1 AAAAATTT
24070862 TATCGATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (14 bp):
AAAAATTTCGATGC
Found at i:24074425 original size:43 final size:42
Alignment explanation
Indices: 24074345--24074458 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
24074335 GTTGAAACTA
* * **
24074345 CGTGTAAAACCATATTTGGGATATGGCATTGATATGAGACTT-
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGA-TTC
* *
24074387 CGTGTAAGACCATAGCTGGGCTATTGGCATCAATATGAGATTC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCAATATGAGATTC
*
24074430 CATGTAAGACCATATCTGGGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
24074459 TGGTATGATA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGATTC
Found at i:24074581 original size:20 final size:20
Alignment explanation
Indices: 24074541--24074587 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
24074531 CAGCAATGTT
24074541 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* * * *
24074561 TATGTTGTGTAAGATTGTGG
1 TAAGTTGTGAAAGACTATGG
24074581 TAAGTTG
1 TAAGTTG
24074588 CAAGTTGGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.02, G:0.32, T:0.38
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:24076022 original size:43 final size:43
Alignment explanation
Indices: 24075974--24076189 Score: 335
Period size: 43 Copynumber: 5.0 Consensus size: 43
24075964 CCGGCATTAC
24075974 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
24076017 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
24076060 TCTTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
24076103 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
24076146 GCCTGCTCA-GCACGAAGGCTCGAATACAGATCACCGGCACGAA
1 GCCTGCT-AGGCACGAAGGCCCGAATACACATCACCGGCACGAA
24076189 G
1 G
24076190 GCCCGAATAT
Statistics
Matches: 160, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
43 159 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:24076248 original size:38 final size:38
Alignment explanation
Indices: 24076191--24076314 Score: 149
Period size: 38 Copynumber: 3.2 Consensus size: 38
24076181 GGCACGAAGG
* * * * *
24076191 CCCGAATATAATACTAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
24076229 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
24076267 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
24076306 GCCCGGATA
1 -CCCGGATA
24076315 CACATCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 61 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:24078944 original size:70 final size:70
Alignment explanation
Indices: 24078831--24078969 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
24078821 TGTGATCCCA
*
24078831 AAACCACTTTCCGACTAGGGCCAAATTAGGGTTGTCATATGCATAGGAACTTACTAAGCTTTAAA
1 AAACCACTTTCCGACTAGGGCCAAATTAGGGTTGTCACATGCATAGGAACTTACTAAGCTTTAAA
24078896 GCTTG
66 GCTTG
24078901 AAACCACTTTCCGACTAGGGCCAAATTAGGGTTGTCACATGCATAGGAACTTACTAAGCTTTAAA
1 AAACCACTTTCCGACTAGGGCCAAATTAGGGTTGTCACATGCATAGGAACTTACTAAGCTTTAAA
24078966 GCTT
66 GCTT
24078970 ACTCCCCTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (70 bp):
AAACCACTTTCCGACTAGGGCCAAATTAGGGTTGTCACATGCATAGGAACTTACTAAGCTTTAAA
GCTTG
Found at i:24082361 original size:36 final size:36
Alignment explanation
Indices: 24082320--24082405 Score: 113
Period size: 35 Copynumber: 2.4 Consensus size: 36
24082310 TTAATCCCTA
*
24082320 TGAAACACACCAAATGCTCACAAGAGCTAGTCCAA-
1 TGAAACACACCAAATGCTCACAAGAACTAGTCCAAC
* *
24082355 TCGAAACACACC-AATGCTCATAAGAATTAGTCCAAC
1 T-GAAACACACCAAATGCTCACAAGAACTAGTCCAAC
*
24082391 TGAAACACGCCAAAT
1 TGAAACACACCAAAT
24082406 AGAGAGTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
35 30 0.68
36 14 0.32
ACGTcount: A:0.43, C:0.28, G:0.13, T:0.16
Consensus pattern (36 bp):
TGAAACACACCAAATGCTCACAAGAACTAGTCCAAC
Found at i:24082842 original size:118 final size:118
Alignment explanation
Indices: 24082634--24082866 Score: 457
Period size: 118 Copynumber: 2.0 Consensus size: 118
24082624 ATGTTATACT
24082634 ATTCAACAATTCATATAGATGTCAAAATTTTAAACCGTACAAACTTATCTAGATTGAATTGTAGT
1 ATTCAACAATTCATATAGATGTCAAAATTTTAAACCGTACAAACTTATCTAGATTGAATTGTAGT
24082699 GGTTGTAGAAATTCAGGGACTATTCTGTAATTTTTCTTTTTCCACGAGTAGAA
66 GGTTGTAGAAATTCAGGGACTATTCTGTAATTTTTCTTTTTCCACGAGTAGAA
*
24082752 ATTCAACAATTCATATAGATGTCAAAATTTTAAATCGTACAAACTTATCTAGATTGAATTGTAGT
1 ATTCAACAATTCATATAGATGTCAAAATTTTAAACCGTACAAACTTATCTAGATTGAATTGTAGT
24082817 GGTTGTAGAAATTCAGGGACTATTCTGTAATTTTTCTTTTTCCACGAGTA
66 GGTTGTAGAAATTCAGGGACTATTCTGTAATTTTTCTTTTTCCACGAGTA
24082867 TCTACAGGAT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 114 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (118 bp):
ATTCAACAATTCATATAGATGTCAAAATTTTAAACCGTACAAACTTATCTAGATTGAATTGTAGT
GGTTGTAGAAATTCAGGGACTATTCTGTAATTTTTCTTTTTCCACGAGTAGAA
Found at i:24084158 original size:18 final size:19
Alignment explanation
Indices: 24084121--24084168 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
24084111 ATTGAACATA
*
24084121 AAATAAAAATAAAAATTGG
1 AAATAAAAATTAAAATTGG
24084140 AAATAAAAATTAAAA-TGG
1 AAATAAAAATTAAAATTGG
*
24084158 AAATGAAAATT
1 AAATAAAAATT
24084169 TTCTTTTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (19 bp):
AAATAAAAATTAAAATTGG
Found at i:24092156 original size:21 final size:22
Alignment explanation
Indices: 24092132--24092185 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
24092122 CGGCCTGCAG
*
24092132 CACGGGCGTGTCCTGGAG-TCA
1 CACGGGCGTGTCCTGGAGACCA
* **
24092153 CACGGGCATGTCCTTTAGACCA
1 CACGGGCGTGTCCTGGAGACCA
24092175 CACGGGCGTGT
1 CACGGGCGTGT
24092186 GAGCCCTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (22 bp):
CACGGGCGTGTCCTGGAGACCA
Found at i:24093307 original size:18 final size:18
Alignment explanation
Indices: 24093284--24093342 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
24093274 TGGAATTCTC
24093284 GTGTTAAGGGAATTTGCA
1 GTGTTAAGGGAATTTGCA
**
24093302 GTGTTATTGGAATTCT-CA
1 GTGTTAAGGGAATT-TGCA
** *
24093320 -AATTAAGGGAATTTGCG
1 GTGTTAAGGGAATTTGCA
24093337 GTGTTA
1 GTGTTA
24093343 GCCGGTCGAG
Statistics
Matches: 29, Mismatches: 9, Indels: 6
0.66 0.20 0.14
Matches are distributed among these distances:
16 1 0.03
17 10 0.34
18 17 0.59
19 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (18 bp):
GTGTTAAGGGAATTTGCA
Found at i:24093316 original size:35 final size:35
Alignment explanation
Indices: 24093272--24093342 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
24093262 CAAATTATTG
***
24093272 ATTGGAATTCTCGTGTTAAGGGAATTTGCAGTGTT
1 ATTGGAATTCTCAAATTAAGGGAATTTGCAGTGTT
*
24093307 ATTGGAATTCTCAAATTAAGGGAATTTGCGGTGTT
1 ATTGGAATTCTCAAATTAAGGGAATTTGCAGTGTT
24093342 A
1 A
24093343 GCCGGTCGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.38
Consensus pattern (35 bp):
ATTGGAATTCTCAAATTAAGGGAATTTGCAGTGTT
Found at i:24095664 original size:46 final size:46
Alignment explanation
Indices: 24095589--24096050 Score: 613
Period size: 46 Copynumber: 10.0 Consensus size: 46
24095579 TTATCTTTGA
* * * * *
24095589 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
*
24095635 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * ***
24095681 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * *
24095727 CATGTTTCCATGGTATCTTTAAACCATGGTTTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * ***
24095773 CACGTTGCAATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
24095819 CATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
24095865 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
24095911 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
24095957 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
24096003 TA-GATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
24096049 CA
1 CA
24096051 GAGAGCACAC
Statistics
Matches: 376, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 5 0.01
46 371 0.99
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:24098168 original size:30 final size:30
Alignment explanation
Indices: 24098101--24098168 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
24098091 CACCCTTAAA
* * *
24098101 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
24098131 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
24098160 AGTATTTAC
1 A-TATTTAC
24098169 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:24100639 original size:16 final size:17
Alignment explanation
Indices: 24100608--24100640 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24100598 TTCATAAGTA
24100608 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
24100625 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
24100641 GCTGCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:24100986 original size:46 final size:46
Alignment explanation
Indices: 24100921--24101290 Score: 503
Period size: 46 Copynumber: 8.0 Consensus size: 46
24100911 TTATCTTTGA
* * * * * *
24100921 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
**
24100967 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ***
24101013 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* **
24101059 CATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
24101105 CACGTTTCCATGGTATCTTTCAACCATGGTCCTT-CACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGT-CTTACACATTTCATAT
*
24101151 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
24101197 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
24101243 CA-GATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
24101289 CA
1 CA
24101291 GAGAACACAC
Statistics
Matches: 300, Mismatches: 20, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
45 8 0.03
46 289 0.96
47 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:24103444 original size:30 final size:30
Alignment explanation
Indices: 24103377--24103444 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
24103367 CACCCTTAAA
* *
24103377 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAGTCCTTCAAATTTTC
*
24103407 ATATTTACACT-TTAGTCCTTCAAATTTTG
1 ATATTTACACTATTAGTCCTTCAAATTTTC
24103436 AGTATTTAC
1 A-TATTTAC
24103445 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAGTCCTTCAAATTTTC
Found at i:24105730 original size:34 final size:34
Alignment explanation
Indices: 24105684--24105757 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
24105674 ATAGGTAAGC
24105684 TTATATTCAACTTGAT-TATTCGATTACATGTGAA
1 TTATATTCAACTT-ATATATTCGATTACATGTGAA
* * **
24105718 TTATATTGAACTTATATATTCGGTTTTATGTGAA
1 TTATATTCAACTTATATATTCGATTACATGTGAA
24105752 TT-TATT
1 TTATATT
24105758 TTGAATGTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 6 0.17
34 29 0.83
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (34 bp):
TTATATTCAACTTATATATTCGATTACATGTGAA
Found at i:24113212 original size:45 final size:45
Alignment explanation
Indices: 24113140--24113389 Score: 353
Period size: 45 Copynumber: 5.6 Consensus size: 45
24113130 TTGATTTGAC
24113140 TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATAT
* *
24113185 TATTTGGGCCTTTGAGCCTAGCTGGCTATGATGCCGGTGAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATAT
* *
24113230 TATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTTAGATAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATAT
* * *
24113275 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATAT
* *
24113320 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATGATGCCGGTGAGAT-AT
* * *
24113365 TAATCAGGCC-TCGAGCCTAGCAGGC
1 TATTCGGGCCTTTGAGCCTAGCAGGC
24113390 GAAATGCCGA
Statistics
Matches: 186, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
44 17 0.09
45 167 0.90
46 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATAT
Found at i:24142082 original size:46 final size:45
Alignment explanation
Indices: 24141962--24142090 Score: 152
Period size: 45 Copynumber: 2.8 Consensus size: 45
24141952 TCACATTATA
* *
24141962 AGAGCCAGTGTAAGACATGTCTGGGACATGGCATTGGCATTAAGACG
1 AGAGCCAGTGTAAGACATGTCT-GGACAT-GCATCGGCATCAAGACG
* * * * *
24142009 AGAGCTAATGTAAGACATGTCTGGACATGCATCGGCCTCGAGATG
1 AGAGCCAGTGTAAGACATGTCTGGACATGCATCGGCATCAAGACG
24142054 TA-AGCCAGTGTAAGACATGTCTAGGACATGCATCGGC
1 -AGAGCCAGTGTAAGACATGTCT-GGACATGCATCGGC
24142091 TAAGAGATGT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
45 30 0.42
46 21 0.30
47 20 0.28
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (45 bp):
AGAGCCAGTGTAAGACATGTCTGGACATGCATCGGCATCAAGACG
Found at i:24142098 original size:46 final size:44
Alignment explanation
Indices: 24141964--24142100 Score: 145
Period size: 46 Copynumber: 3.0 Consensus size: 44
24141954 ACATTATAAG
*
24141964 AGCCAGTGTAAGACATGTCTGGGACATGGCATTGGCATTAAGACGA-G-
1 AGCCAGTGTAAGACATGTCT-GGACAT-GCATCGGC--TAAGA-GATGT
* * *
24142011 AGCTAATGTAAGACATGTCTGGACATGCATCGGCCT-CGAGATGT
1 AGCCAGTGTAAGACATGTCTGGACATGCATCGG-CTAAGAGATGT
24142055 AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTAAGAGATGT
1 -AGCCAGTGTAAGACATGTCT-GGACATGCATCGGCTAAGAGATGT
24142101 GTCAGCCTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.03
43 3 0.04
44 1 0.01
45 26 0.34
46 27 0.35
47 18 0.23
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (44 bp):
AGCCAGTGTAAGACATGTCTGGACATGCATCGGCTAAGAGATGT
Found at i:24142118 original size:45 final size:44
Alignment explanation
Indices: 24142019--24142134 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 44
24142009 AGAGCTAATG
* **
24142019 TAAGACATGTCTGGACATGCATCGGCCTCGAGATGTAAGCCAGTG
1 TAAGACATGTCTGGACATGCATCGGCCTAGAGATGT-AGCCAGCC
*
24142064 TAAGACATGTCTAGGACATGCATCGG-CTAAGAGATGT-GTCAGCC
1 TAAGACATGTCT-GGACATGCATCGGCCT-AGAGATGTAGCCAGCC
*
24142108 TAAGACCATGTTTGGGACATGGCATCG
1 TAAGA-CATGTCT-GGACAT-GCATCG
24142135 ACACGTATAG
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
44 9 0.15
45 26 0.43
46 26 0.43
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (44 bp):
TAAGACATGTCTGGACATGCATCGGCCTAGAGATGTAGCCAGCC
Found at i:24149808 original size:47 final size:46
Alignment explanation
Indices: 24149742--24150007 Score: 153
Period size: 47 Copynumber: 5.6 Consensus size: 46
24149732 CATTCGTGCA
* * *
24149742 CCAGTGTAA-AACATGTCTGGGACATGCTTCGTCCAC-ATTATAAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGCATCG-CCACGA-TAGAAGAG
* * *
24149788 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATAGAGGTG
1 CCAGTGTAAGACCATGTCTGGGACAT-GCATCGCCACGATAGAAGAG
* *
24149835 TCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CACAGATATGTGAGAG
1 CCAGTGTAAGACCATGTCTGGGACAT-GCATC-GCCAC-GATA-G-AAGAG
* * * ** * * *
24149885 CTAGTGTAAGACTATGTCCGGGACATGGTGTCGGCCTCGATTTCG-ATAG
1 CCAGTGTAAGACCATGTCTGGGACAT-GCATC-GCCACGA--TAGAAGAG
** * * *** * *
24149934 TTAGTGTAAGACCATGTCTAGGACATGGCATCGACTTAATGGATGAG
1 CCAGTGTAAGACCATGTCTGGGACAT-GCATCGCCACGATAGAAGAG
*
24149981 CCAGTGTAAGACCATGTCTGAGACATG
1 CCAGTGTAAGACCATGTCTGGGACATG
24150008 GCATTGGCAT
Statistics
Matches: 173, Mismatches: 36, Indels: 22
0.75 0.16 0.10
Matches are distributed among these distances:
46 12 0.07
47 81 0.47
48 15 0.09
49 30 0.17
50 31 0.18
51 3 0.02
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
CCAGTGTAAGACCATGTCTGGGACATGCATCGCCACGATAGAAGAG
Found at i:24150008 original size:47 final size:49
Alignment explanation
Indices: 24149785--24150011 Score: 189
Period size: 47 Copynumber: 4.7 Consensus size: 49
24149775 CACATTATAA
* *
24149785 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGATA--GAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACA-GATATGGAT
* *
24149832 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATATGTGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-ACAGATATG-GAT
* * * ** * * * * *
24149882 GAGCTAGTGTAAGACTATGTCCGGGACATGGTGTCGGCCTCGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGAC-AGATATGGAT
** * **
24149932 -AGTTAGTGTAAGACCATGTCTAGGACATGGCATC-GACTTA-ATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACAGATATGGAT
*
24149978 GAGCCAGTGTAAGACCATGTCTGAGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
24150012 TGGCATTATA
Statistics
Matches: 142, Mismatches: 30, Indels: 16
0.76 0.16 0.09
Matches are distributed among these distances:
46 4 0.03
47 63 0.44
48 7 0.05
49 33 0.23
50 33 0.23
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACAGATATGGAT
Found at i:24154306 original size:43 final size:43
Alignment explanation
Indices: 24154244--24154436 Score: 226
Period size: 43 Copynumber: 4.5 Consensus size: 43
24154234 TTATTTGAAA
* * * * *
24154244 AAACGCCGCTAAAAATCATGACTTTTAGTGACGCTTTCCCTAC
1 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTCCCCAC
*
24154287 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCACTTTCCCCAC
1 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTCCCCAC
*
24154330 AAACGCCGC-CAAAGATCATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAAG-TCATGACCTTTAGCGGCGCTTTCCCCAC
* * * * * * * *
24154373 AAATGCCGCCAAAGGTCATGACCTTTAGCAGTGCTTTTCTCAA
1 AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTCCCCAC
*
24154416 AAACGCCGCTAAATGTCATGA
1 AAACGCCGCTAAAAGTCATGA
24154437 AATTCAAAAA
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 4 0.03
43 122 0.95
44 3 0.02
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTCCCCAC
Found at i:24159282 original size:7 final size:7
Alignment explanation
Indices: 24159270--24159381 Score: 57
Period size: 7 Copynumber: 15.7 Consensus size: 7
24159260 AGTAATTAAT
24159270 CTAAACC
1 CTAAACC
24159277 CTAAACC
1 CTAAACC
*
24159284 TCTTAACC
1 -CTAAACC
* *
24159292 CTTATCC
1 CTAAACC
*
24159299 CATAAACA
1 C-TAAACC
*
24159307 CTAAACA
1 CTAAACC
24159314 CTAAACC
1 CTAAACC
*
24159321 CTTAACC
1 CTAAACC
*
24159328 CTTAACAC
1 CTAAAC-C
24159336 C-AAATCC
1 CTAAA-CC
* *
24159343 TTACACC
1 CTAAACC
* *
24159350 TTAAACT
1 CTAAACC
*
24159357 CT-AGCC
1 CTAAACC
*
24159363 CTAACCC
1 CTAAACC
24159370 CTAAACC
1 CTAAACC
24159377 CTAAA
1 CTAAA
24159382 TCATAATTCC
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
6 4 0.05
7 63 0.77
8 15 0.18
ACGTcount: A:0.38, C:0.38, G:0.01, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:24159687 original size:41 final size:39
Alignment explanation
Indices: 24159641--24159737 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 39
24159631 GTTATATGAC
24159641 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTATT
1 TTTTAGTGGCGTTTTA-CAAAAGCGCCGCTAATGCTCTA-T
* * *
24159682 TTTTAGTGGCATTTTTTACTAAAGCGCCGCTATTGCTCTAT
1 TTTTAGTGGC--GTTTTACAAAAGCGCCGCTAATGCTCTAT
*
24159723 TTTTAGCGGCGTTTT
1 TTTTAGTGGCGTTTT
24159738 TGGTAAAACG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.08
41 20 0.41
42 20 0.41
43 5 0.10
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.42
Consensus pattern (39 bp):
TTTTAGTGGCGTTTTACAAAAGCGCCGCTAATGCTCTAT
Found at i:24159738 original size:41 final size:41
Alignment explanation
Indices: 24159660--24159760 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 41
24159650 CGTTTTACCA
* *
24159660 AAAGCGCCGCTAATGCTCTATTTTTTAGTGGCATTTTTTACT
1 AAAGCGCCGCTATTGCTCTATTTTTTAGCGGCA-TTTTTACT
* **
24159702 AAAGCGCCGCTATTGCTCTA-TTTTTAGCGGCGTTTTTGGT
1 AAAGCGCCGCTATTGCTCTATTTTTTAGCGGCATTTTTACT
* *
24159742 AAAACGTCGCTATTGCTCT
1 AAAGCGCCGCTATTGCTCT
24159761 GTGTTTTACA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
40 23 0.44
41 10 0.19
42 19 0.37
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (41 bp):
AAAGCGCCGCTATTGCTCTATTTTTTAGCGGCATTTTTACT
Found at i:24165130 original size:27 final size:26
Alignment explanation
Indices: 24165099--24165193 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
24165089 TTAGTTTACC
* *
24165099 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACCGAAATACC-TCGATTTGTA
* *
24165126 AAATTACCAAAATACCCTCGATTTATA
1 AAATTACCGAAATA-CCTCGATTTGTA
*
24165153 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATA-CCTCGATTTGTA
*
24165180 AAATTACTGAAATA
1 AAATTACCGAAATA
24165194 AGATAGAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 56 0.97
28 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (26 bp):
AAATTACCGAAATACCTCGATTTGTA
Found at i:24165228 original size:27 final size:27
Alignment explanation
Indices: 24165198--24165447 Score: 347
Period size: 27 Copynumber: 9.3 Consensus size: 27
24165188 GAAATAAGAT
*
24165198 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
24165225 AGAATTACCGTTTTATCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
*
24165252 AGAATTACTGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
24165279 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
** *
24165306 AGAATTACTATTTTACCATCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
24165333 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
24165360 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
*
24165387 AGAATTACTGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
24165414 AGAATTACTGTTTTATCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
24165441 AAAATTA
1 AGAATTA
24165448 TTGAAATACC
Statistics
Matches: 197, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 197 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.42
Consensus pattern (27 bp):
AGAATTACCGTTTTACCCTCGATTTAC
Found at i:24165468 original size:54 final size:54
Alignment explanation
Indices: 24165196--24165448 Score: 391
Period size: 54 Copynumber: 4.7 Consensus size: 54
24165186 CTGAAATAAG
* * *
24165196 ATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTATCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTT
*
24165250 ATAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTT
*
24165304 ATAGAATTACTATTTTACCATCGATTTACAGAATTATCGTTTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTT
* *
24165358 ATAGAATTACCATTTTACCCTCGATTTATAGAATTA-CTGTTTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTATC-GTTTTACCCTCGATTT
* * * *
24165412 ACAGAATTACTGTTTTATCCTCGATTTACAAAATTAT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTAT
24165449 TGAAATACCC
Statistics
Matches: 182, Mismatches: 15, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
53 1 0.01
54 181 0.99
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (54 bp):
ATAGAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTT
Found at i:24165481 original size:27 final size:27
Alignment explanation
Indices: 24165436--24165595 Score: 142
Period size: 27 Copynumber: 5.9 Consensus size: 27
24165426 TTATCCTCGA
* * * * *
24165436 TTTACAAAATTATTGAAATACCCTTAG
1 TTTATAAAATTACTAAAATACCCCTGG
* * *
24165463 TTTACAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACTAAAATACCCCTGG
* * *
24165489 ATCAGTAAAATTACCAAAATACCCCTGG
1 TTTA-TAAAATTACTAAAATACCCCTGG
*
24165517 TTTGTAAAATTACTAAAATACCCCTGG
1 TTTATAAAATTACTAAAATACCCCTGG
* *
24165544 TTTGTAAAATTACTAAAATACCCCTGA
1 TTTATAAAATTACTAAAATACCCCTGG
* * **
24165571 CTTGTAAAATTACCGAAATACCCCT
1 TTTATAAAATTACTAAAATACCCCT
24165596 ATAGGGTAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.05
27 102 0.89
28 6 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACTAAAATACCCCTGG
Found at i:24165526 original size:81 final size:81
Alignment explanation
Indices: 24165441--24165595 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
24165431 CTCGATTTAC
* * *
24165441 AAAATTATTGAAATACCCTTAGTTTACAAAATTACCAAAATA-CCCTCGA-TCAGTAAAATTACC
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCT-GACT-AGTAAAATTACC
24165504 AAAATACCCCTGGTTTGT
64 AAAATACCCCTGGTTTGT
* ** * * *
24165522 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGACTTGTAAAATTACCGA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGACTAGTAAAATTACCAA
24165587 AATACCCCT
66 AATACCCCT
24165596 ATAGGGTAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 58 0.92
82 5 0.08
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGACTAGTAAAATTACCAA
AATACCCCTGGTTTGT
Found at i:24165551 original size:54 final size:54
Alignment explanation
Indices: 24165468--24165595 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
24165458 CTTAGTTTAC
* ** **
24165468 AAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCCTGACTTGT
* *
24165522 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGACTTGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGACTTGT
*
24165576 AAAATTACCGAAATACCCCT
1 AAAATTACCAAAATACCCCT
24165596 ATAGGGTAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 60 0.94
55 4 0.06
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGACTTGT
Found at i:24165970 original size:27 final size:27
Alignment explanation
Indices: 24165578--24165969 Score: 556
Period size: 27 Copynumber: 14.6 Consensus size: 27
24165568 TGACTTGTAA
*
24165578 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
24165605 AATTATCGCAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
24165631 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
24165658 AATTACC-AGAATACCCTTGTAAGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
24165685 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
24165712 AATTATC-ACAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
24165739 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
24165766 AATTACCGTAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
24165793 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
24165820 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
24165847 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
24165874 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
24165901 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
24165928 AATTACTGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
24165955 AATTACCGAGATACC
1 AATTACCGAAATACC
24165970 TTGTGAGGTA
Statistics
Matches: 328, Mismatches: 32, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
26 25 0.08
27 302 0.92
28 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:24166426 original size:6 final size:6
Alignment explanation
Indices: 24166395--24166482 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
24166385 TCACATTCAC
* *
24166395 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
24166444 -TCACCTA ATTCTG ATTCTG ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
24166483 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:24166430 original size:31 final size:31
Alignment explanation
Indices: 24166395--24166473 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
24166385 TCACATTCAC
* *
24166395 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
* *
24166426 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
24166457 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
24166474 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTAATACTG
Found at i:24174477 original size:20 final size:18
Alignment explanation
Indices: 24174429--24174479 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 18
24174419 TTATCAAAAC
24174429 AATCTTCATTTTTCTCTT
1 AATCTTCATTTTTCTCTT
*
24174447 ACTATTTTCATTTTTCTCATT
1 A--ATCTTCATTTTTCTC-TT
24174468 AATCTATCATTT
1 AATCT-TCATTT
24174480 AATTTGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 20 0.74
21 3 0.11
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (18 bp):
AATCTTCATTTTTCTCTT
Found at i:24174578 original size:23 final size:23
Alignment explanation
Indices: 24174552--24174598 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
24174542 TATTCTATTG
*
24174552 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
24174575 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
24174598 T
1 T
24174599 AATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:24175970 original size:6 final size:6
Alignment explanation
Indices: 24175951--24176010 Score: 86
Period size: 6 Copynumber: 10.0 Consensus size: 6
24175941 TGATGTTTAA
*
24175951 TTTAAT TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
24175998 TTATGTT TTTATT
1 TT-TATT TTTATT
24176011 AATTTCACCT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.10
6 40 0.80
7 5 0.10
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:24186911 original size:14 final size:13
Alignment explanation
Indices: 24186886--24186919 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
24186876 TTTTTTTTAC
24186886 TTTAA-TTTTTTG
1 TTTAATTTTTTTG
24186898 TTTAATTTTCTTTG
1 TTTAATTTT-TTTG
24186912 TTTAATTT
1 TTTAATTT
24186920 AATCATGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.25
13 3 0.15
14 12 0.60
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTAATTTTTTTG
Found at i:24192375 original size:3 final size:3
Alignment explanation
Indices: 24192367--24192394 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24192357 AAATGTTAAC
24192367 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24192395 TATGTTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24192430 original size:23 final size:22
Alignment explanation
Indices: 24192386--24192466 Score: 69
Period size: 23 Copynumber: 3.7 Consensus size: 22
24192376 AATAATAATA
*
24192386 ATAATAAT-ATATGTTAGTAAGG
1 ATAATAATAATATG-TAGAAAGG
24192408 ATAATAATAATATGTAGAAAAGG
1 ATAATAATAATATGTAG-AAAGG
** *
24192431 GGAATAATAATA-GTAG-TAGG
1 ATAATAATAATATGTAGAAAGG
*
24192451 AGTAATAATACTATGT
1 A-TAATAATAATATGT
24192467 TAATAAGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.06
21 9 0.19
22 17 0.35
23 19 0.40
ACGTcount: A:0.48, C:0.01, G:0.20, T:0.31
Consensus pattern (22 bp):
ATAATAATAATATGTAGAAAGG
Found at i:24192559 original size:3 final size:3
Alignment explanation
Indices: 24192467--24192875 Score: 150
Period size: 3 Copynumber: 139.3 Consensus size: 3
24192457 AATACTATGT
* * * * * *
24192467 TAA TAA GAA TAA TAG TAA TAG TAA TAC TAA AAA GGTAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA
* * * * * * * *
24192514 AAA TAA AAA TAA AAA TAA AAA TAA AAA TAA AAA TAA TAG TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
24192562 TAA TAA TAA TAA TAA TAG TAA TAA -AA CAGA GAA -AA AAA CAA -CA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
*** *
24192605 TAA CGG TAA -AA GTAA TAA TAA TAA TAA TTA TAA T-A TAA -AA TTAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * ** *
24192649 TGA T-A TAA TAA T-G TAA TAA TAA TAA GCA -AA TAA GT-A TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
* * * * ** * *
24192691 GAA -AA T-A TAA TCA TAG TAA TAA TAG TTG TAG TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * * *
24192737 GGA TAA TAA TGA TAA T-A TAA AAA TGA TAG TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
24192783 TAA TAA TAA TAA TAA TAA TGAA -AG TAG TGGA -AA TAA TGA TAG TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * * *
24192828 T-A TAA TAG TAG GAA TAA TGA TAA TAA TAA TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24192875 T
1 T
24192876 GGCAAAACAG
Statistics
Matches: 293, Mismatches: 88, Indels: 50
0.68 0.20 0.12
Matches are distributed among these distances:
2 28 0.10
3 254 0.87
4 9 0.03
5 2 0.01
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:24201840 original size:25 final size:25
Alignment explanation
Indices: 24201810--24201859 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24201800 ATGATGGTAC
*
24201810 ATGATATAT-TGATATATTGAAATGG
1 ATGATATATGT-ATATAATGAAATGG
24201835 ATGATATATGTATATAATGAAATGG
1 ATGATATATGTATATAATGAAATGG
24201860 TAAGATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (25 bp):
ATGATATATGTATATAATGAAATGG
Found at i:24203246 original size:22 final size:23
Alignment explanation
Indices: 24203221--24203271 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
24203211 GGTGCCTTTT
*
24203221 AAGGGCTTAT-GTACATG-TGCAA
1 AAGGGATTATAGTACATGTTG-AA
24203243 AAGGGATTATAGGTACATGTTGAA
1 AAGGGATTATA-GTACATGTTGAA
24203267 AAGGG
1 AAGGG
24203272 TGAGAGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
24 14 0.56
25 2 0.08
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.25
Consensus pattern (23 bp):
AAGGGATTATAGTACATGTTGAA
Done.