Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 99 of 345
Found at i:32616926 original size:149 final size:149
Alignment explanation
Indices: 32616656--32616948 Score: 496
Period size: 149 Copynumber: 2.0 Consensus size: 149
32616646 TCTCTGATAT
* *
32616656 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGG
1 GAAATGTGTAAGACCATGGTTGAAAGAAACCATGACAACCTGATATGAAATGTGTAAGACCATGG
**
32616721 TTGAAAGATACCATGCCAACCTGATACGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
66 TTGAAAGATACCATGCCAACCTGATACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
32616786 CCTGATACGAAATGTGTAA
131 CCTGATACGAAATGTGTAA
32616805 GAAATGTGTAAGACCATGGTTGAAAGAAACCATGACAACCTGATATGAAATGTGTAAGACCATGG
1 GAAATGTGTAAGACCATGGTTGAAAGAAACCATGACAACCTGATATGAAATGTGTAAGACCATGG
* * *
32616870 TTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
66 TTGAAAGATACCATGCCAACCTGATACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
** *
32616935 TGTGATATGAAATG
131 CCTGATACGAAATG
32616949 AATAAGACCA
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
149 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (149 bp):
GAAATGTGTAAGACCATGGTTGAAAGAAACCATGACAACCTGATATGAAATGTGTAAGACCATGG
TTGAAAGATACCATGCCAACCTGATACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
CCTGATACGAAATGTGTAA
Found at i:32617331 original size:16 final size:17
Alignment explanation
Indices: 32617310--32617342 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32617300 ATGATGGAGC
32617310 ATGAAA-CATTGATATA
1 ATGAAATCATTGATATA
*
32617326 ATGAAATGATTGATATA
1 ATGAAATCATTGATATA
32617343 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
ATGAAATCATTGATATA
Found at i:32638165 original size:13 final size:13
Alignment explanation
Indices: 32638147--32638172 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32638137 AGCTATCATT
32638147 TCTCTCTTCTCCA
1 TCTCTCTTCTCCA
32638160 TCTCTCTTCTCCA
1 TCTCTCTTCTCCA
32638173 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.46, G:0.00, T:0.46
Consensus pattern (13 bp):
TCTCTCTTCTCCA
Found at i:32638633 original size:30 final size:30
Alignment explanation
Indices: 32638594--32638650 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
32638584 TTCGGGTATT
* *
32638594 GGGGTAAAATGGTCATTTTGCCAAAGTCTA
1 GGGGAAAAATGGTCATTTTACCAAAGTCTA
32638624 GGGGAAAAATGGTCATTTTACCAAAGT
1 GGGGAAAAATGGTCATTTTACCAAAGT
32638651 TGTAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
GGGGAAAAATGGTCATTTTACCAAAGTCTA
Found at i:32639139 original size:47 final size:44
Alignment explanation
Indices: 32638992--32639256 Score: 203
Period size: 47 Copynumber: 5.7 Consensus size: 44
32638982 TTTGTGCGCT
* * * *
32638992 AGTGTAAGACATGTCTGGGACATGCTTCGACC-ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTA-A-GA-GATAGCC
* *
32639038 AGTGTAAGACCATGTTTGGGACATGACATCGGCAT-AGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTAAGAGAT-A--GCC
* *
32639086 AATGTAATACATGTCTGGGACATGCATCGGCCTCAACAGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT--A-AGAGATAGCC
* * * *
32639133 AGTGTAAGACGTGTCTGGGACATGCATCGG-CTAAGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTAAGAGAT-AGCC
* * * *
32639177 AGTGTAAGACATGTCTGGGACATGCATCAGCACGTATATATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-C-TA-AGA-GATAGCC
32639225 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
32639257 TAATGTATCC
Statistics
Matches: 178, Mismatches: 23, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
43 5 0.03
44 31 0.17
45 2 0.01
46 22 0.12
47 61 0.34
48 29 0.16
49 16 0.09
50 12 0.07
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTAAGAGATAGCC
Found at i:32639155 original size:94 final size:91
Alignment explanation
Indices: 32638994--32639256 Score: 282
Period size: 94 Copynumber: 2.8 Consensus size: 91
32638984 TGTGCGCTAG
* ** *
32638994 TGTAAGACATGTCTGGGACATGCTTCGACCACATTATGAGAGCCAGTGTAAGACCATGTTTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGACCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGA
32639059 CATGACATCGGC-ATAGAGATGAGTGCCAA
66 CATG-CATCGGCTA-AGAG-T-AGTGCCAA
* * * *
32639088 TGTAATACATGTCTGGGACATGCATCGGCCTCAACA-GAGATAGCCAGTGTAAGA-CGTGTCTGG
1 TGTAAGACATGTCTGGGACATGCATCGACCACAACATGAG--AGCCAGTGTAAGACCATGTCTGG
* * *
32639151 GACATGCATCGGCTAAGAGTTGTGCTAG
64 GACATGCATCGGCTAAGAGTAGTGCCAA
* * *
32639179 TGTAAGACATGTCTGGGACATGCATC-AGCACGTATATATGAGAGCTAGTGTAAGACCATGTCTG
1 TGTAAGACATGTCTGGGACATGCATCGACCAC--A-ACATGAGAGCCAGTGTAAGACCATGTCTG
32639243 GGACATGGCATCGG
63 GGACAT-GCATCGG
32639257 TAATGTATCC
Statistics
Matches: 142, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
90 2 0.01
91 30 0.21
92 14 0.10
93 29 0.20
94 54 0.38
95 13 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (91 bp):
TGTAAGACATGTCTGGGACATGCATCGACCACAACATGAGAGCCAGTGTAAGACCATGTCTGGGA
CATGCATCGGCTAAGAGTAGTGCCAA
Found at i:32646158 original size:30 final size:30
Alignment explanation
Indices: 32646124--32646182 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
32646114 TTTTCAGGCA
* *
32646124 TAGGGGTAAAATAGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATAGTCATTTTACCAAAGTC
*
32646154 TAGGGGCAAAATGGTCATTTTACCAAAGT
1 TAGGGGCAAAATAGTCATTTTACCAAAGT
32646183 TGTAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTACCAAAGTC
Found at i:32646595 original size:48 final size:46
Alignment explanation
Indices: 32646490--32646707 Score: 192
Period size: 44 Copynumber: 4.7 Consensus size: 46
32646480 GATTTGTGCA
* * * **
32646490 CCAGTGTAAGACATGTCTGGGACATACTTCGGCCACA-TTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAG-CACAGAGATGAGAG
* * * *
32646536 CCAATGTAAGACCATGTCTAGGACATGGTATCAGCACAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGAG
* * *
32646584 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTA-AGAG-T-TGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGC-ACAGAGATGAGAG
* * *
32646628 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCAC-AG-AGATGAGAG
*
32646676 CTAGTGTAAGACCATGTCTGGGACATGGCATC
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATC
32646708 GGCAATATAT
Statistics
Matches: 141, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 34 0.24
45 2 0.01
46 21 0.15
47 32 0.23
48 32 0.23
49 14 0.10
50 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCACAGAGATGAGAG
Found at i:32650292 original size:46 final size:45
Alignment explanation
Indices: 32650242--32650417 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
32650232 TGTTTGGGCA
32650242 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
32650288 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
32650335 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
32650381 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32650418 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:32650397 original size:93 final size:93
Alignment explanation
Indices: 32650238--32650409 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
32650228 AGGATGTTTG
* *
32650238 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
32650303 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
32650331 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
32650396 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
32650410 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:32653354 original size:15 final size:15
Alignment explanation
Indices: 32653334--32653402 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
32653324 ATATCTTGGG
32653334 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
32653349 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
32653364 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
32653379 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
32653394 TTTCTTTAT
1 TTTCTTTAT
32653403 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:32653403 original size:30 final size:30
Alignment explanation
Indices: 32653325--32653412 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
32653315 TCCGGCATCA
* * * *
32653325 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
32653355 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
32653385 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
32653413 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:32665523 original size:25 final size:25
Alignment explanation
Indices: 32665495--32665549 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
32665485 AGTTCATGTG
*
32665495 AGCATTCTAG-TTTACAGCTCGTGTA
1 AGCATT-TAGATTTACAGATCGTGTA
* *
32665520 AGCATTTTGATTTACAGATCGTGTG
1 AGCATTTAGATTTACAGATCGTGTA
32665545 AGCAT
1 AGCAT
32665550 ACATGTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (25 bp):
AGCATTTAGATTTACAGATCGTGTA
Found at i:32666706 original size:15 final size:16
Alignment explanation
Indices: 32666686--32666715 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32666676 TGGTGCCTTG
32666686 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
32666701 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
32666716 AGCATATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:32677035 original size:46 final size:46
Alignment explanation
Indices: 32676858--32677072 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 46
32676848 TTTGTGTGCT
* *
32676858 AGTGTAAGACATGCCTGGGACATGCATC-AGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CCACGA-GATGAGAGCC
* * * *
32676904 AGTGTAAGACCATGTCTGGGATATGGCATCGA-CATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCA-CGAGATGAGAGCC
* * *
32676952 AGTGTAAGACATGTTTGGGACATGCATCGGCCCCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATG-AGAGCC
* * * **
32676998 AATGTAAGACATGTCTGGGACATGCATCGACTACGAGAT--GTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATGAGAGCC
*
32677042 AGTGTAAGACCATGTCTAGGACATGACATCG
1 AGTGTAAGA-CATGTCTGGGACATG-CATCG
32677073 GCATGGATAT
Statistics
Matches: 136, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
44 9 0.07
45 14 0.10
46 62 0.46
47 28 0.21
48 21 0.15
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACGAGATGAGAGCC
Found at i:32679088 original size:25 final size:25
Alignment explanation
Indices: 32679041--32679091 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
32679031 TAGAAAATTT
**
32679041 TAGTATTTTTCATTGGTAGTTTTAG
1 TAGTATTTTTCATTAATAGTTTTAG
* *
32679066 TAGTATTTTTCTTTAATATTTTTAG
1 TAGTATTTTTCATTAATAGTTTTAG
32679091 T
1 T
32679092 TAGTTTCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.14, T:0.61
Consensus pattern (25 bp):
TAGTATTTTTCATTAATAGTTTTAG
Found at i:32679524 original size:13 final size:13
Alignment explanation
Indices: 32679494--32679533 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
32679484 AAAAAACTTG
*
32679494 GAACGTAGGCAT-
1 GAACTTAGGCATC
32679506 GAACTTAGGCATC
1 GAACTTAGGCATC
32679519 GAACTTAGGCATC
1 GAACTTAGGCATC
32679532 GA
1 GA
32679534 GCCATACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (13 bp):
GAACTTAGGCATC
Found at i:32686368 original size:51 final size:51
Alignment explanation
Indices: 32686309--32686410 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
32686299 TTGTAATTAC
32686309 TTAAATTATTCTAATACTAGTGACGAACAGCATAATTCATTTACGTTATGA
1 TTAAATTATTCTAATACTAGTGACGAACAGCATAATTCATTTACGTTATGA
*
32686360 TTAAATTATTCTAATACTAGTGACGAACAGCATAATTTATTTACGTTATGA
1 TTAAATTATTCTAATACTAGTGACGAACAGCATAATTCATTTACGTTATGA
32686411 ACCCCGTTGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (51 bp):
TTAAATTATTCTAATACTAGTGACGAACAGCATAATTCATTTACGTTATGA
Found at i:32689783 original size:22 final size:22
Alignment explanation
Indices: 32689741--32689784 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
32689731 TTGCTATTCC
32689741 GTTGTTTTTTGTTTCTATTTGCT
1 GTTGTTTTTTG-TTCTATTTGCT
*
32689764 GTTGTTTTCTTG-TCTGTTTGC
1 GTTGTTTT-TTGTTCTATTTGC
32689785 AGGTATGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 8 0.42
24 3 0.16
ACGTcount: A:0.02, C:0.11, G:0.20, T:0.66
Consensus pattern (22 bp):
GTTGTTTTTTGTTCTATTTGCT
Found at i:32690032 original size:18 final size:18
Alignment explanation
Indices: 32690009--32690046 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
32689999 GATATATTTT
32690009 ATTATAGTCTATA-ATATA
1 ATTATAGT-TATATATATA
32690027 ATTATAGTTATATATATA
1 ATTATAGTTATATATATA
32690045 AT
1 AT
32690047 ATTATTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (18 bp):
ATTATAGTTATATATATA
Found at i:32693413 original size:7 final size:7
Alignment explanation
Indices: 32693402--32693438 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
32693392 TAAATAACCT
*
32693402 AAGGTGT
1 AAGGTGC
32693409 AAGGTGC
1 AAGGTGC
32693416 AAGGTGC
1 AAGGTGC
32693423 AAGGTGC
1 AAGGTGC
32693430 AAGGTGC
1 AAGGTGC
32693437 AA
1 AA
32693439 AAAAATGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.41, T:0.16
Consensus pattern (7 bp):
AAGGTGC
Found at i:32694463 original size:12 final size:12
Alignment explanation
Indices: 32694446--32694470 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32694436 ATGTAAGTGA
32694446 TCTTGATGATTT
1 TCTTGATGATTT
32694458 TCTTGATGATTT
1 TCTTGATGATTT
32694470 T
1 T
32694471 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:32695483 original size:49 final size:47
Alignment explanation
Indices: 32695238--32695507 Score: 214
Period size: 47 Copynumber: 5.7 Consensus size: 47
32695228 TTATGCGTGT
* * * *
32695238 CAGTGTAAGACCATGTCTGGAACATGGCATCGACGTAGAGATGAGT-GC
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGA-TAGC
* *
32695286 CAGTGTAAG-GCATGTCTGGGACATGCATCGGCCTCGACAATGATAGC
1 CAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGATAGC
* * *
32695333 CAGTGTAAGA-CGTGTCTGGGACATGCATCGG-CTAAGAGCTG-TA-C
1 CAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGATAGC
* * * ** * * * *
32695377 TAGTGTAAGA-CATGTCTAGGACATGTATC-AACACGTATATACAAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCG-AGAT--GATAGC
* *
32695425 TAGTATAAGACCATGTCTGGGACATAGCATCGGCCTCGATGATGATAGC
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGA-GATGATAGC
32695474 CAGTGTAAGACCATGTCTGGGACATGACATCGGC
1 CAGTGTAAGACCATGTCTGGGACATG-CATCGGC
32695508 AACTTATCCT
Statistics
Matches: 175, Mismatches: 32, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 29 0.17
45 2 0.01
46 15 0.09
47 51 0.29
48 20 0.11
49 47 0.27
50 5 0.03
51 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGATAGC
Found at i:32702855 original size:47 final size:47
Alignment explanation
Indices: 32702784--32703103 Score: 219
Period size: 47 Copynumber: 6.8 Consensus size: 47
32702774 GATTTCTTGT
* * *
32702784 GTGCCGGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
* * *
32702830 GTGCCAGTGTCAGACCATGTCTGGGACATGGCATTGGCGTA-G-TGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACGATGATGA
* * * **
32702878 TTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
* * * * *
32702925 -TAGCCAGTGTAAGACGTGTCCGGGACATGCATCGGCAAAGA-G-T-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
* * * * *
32702969 GTGCTAGTGTAAGATATGTTTGGGGCATGCATCAG-CACGTAT-ATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-ATGAT--GA
* * * * *
32703017 GAGCTAGTATAAGACCATGTCTGGGACATGGTATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGATGATGA
*
32703066 -TAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
32703104 AACTTATCCC
Statistics
Matches: 212, Mismatches: 43, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
43 2 0.01
44 27 0.13
45 3 0.01
46 21 0.10
47 63 0.30
48 36 0.17
49 48 0.23
50 7 0.03
51 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
Found at i:32702951 original size:94 final size:91
Alignment explanation
Indices: 32702783--32703001 Score: 244
Period size: 94 Copynumber: 2.4 Consensus size: 91
32702773 GGATTTCTTG
* ** *
32702783 TGTGCCGGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTCAGACCAT
1 TGTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACACAATGAGTGCCAGTGTAAGACCAT
* * ** *
32702848 GTCTGGGACATGGCATTGGCGTAGTGA
66 GTCCGGGACAT-GCATCGGCAAAGAGA
*
32702875 TGATTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAATGA-TAGCCAGTGTAAGA
1 TG--TGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ACAATGAGT-GCCAGTGTAAGA
* *
32702939 -CGTGTCCGGGACATGCATCGGCAAAGAGT
62 CCATGTCCGGGACATGCATCGGCAAAGAGA
* * *
32702968 TGTGCTAGTGTAAGATATGTTTGGGGCATGCATC
1 TGTGCCAGTGTAAGACATGTTTGGGACATGCATC
32703002 AGCACGTATA
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
91 29 0.27
92 2 0.02
93 12 0.11
94 49 0.45
95 16 0.15
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (91 bp):
TGTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACACAATGAGTGCCAGTGTAAGACCAT
GTCCGGGACATGCATCGGCAAAGAGA
Found at i:32710050 original size:13 final size:12
Alignment explanation
Indices: 32710032--32710072 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
32710022 CACTTAGTTA
32710032 ATTTTAGGGTTTT
1 ATTTTA-GGTTTT
*
32710045 ATTTTAGTTTTT
1 ATTTTAGGTTTT
32710057 ATTTTA--TTTT
1 ATTTTAGGTTTT
32710067 ATTTTA
1 ATTTTA
32710073 ATTTAGTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 10 0.37
12 11 0.41
13 6 0.22
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (12 bp):
ATTTTAGGTTTT
Found at i:32710063 original size:17 final size:16
Alignment explanation
Indices: 32710041--32710076 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
32710031 AATTTTAGGG
*
32710041 TTTTATTTTAGTTTTTA
1 TTTTATTTTA-TTTTAA
32710058 TTTTATTTTATTTTAA
1 TTTTATTTTATTTTAA
32710074 TTT
1 TTT
32710077 AGTCCTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTAA
Found at i:32713603 original size:40 final size:40
Alignment explanation
Indices: 32713533--32713717 Score: 291
Period size: 40 Copynumber: 4.6 Consensus size: 40
32713523 CGGATGATAA
* *
32713533 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
32713573 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
32713613 CGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
32713653 CGAAGGAATTTGTGCGAGTTACTATAACCAGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
32713693 CGAAGGCATTTGTGCGAGTTACTAT
1 CGAAGGCATTTGTGCGAGTTACTAT
32713718 GTCCCGAAGG
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 134 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:32713666 original size:80 final size:79
Alignment explanation
Indices: 32713533--32713805 Score: 327
Period size: 80 Copynumber: 3.6 Consensus size: 79
32713523 CGGATGATAA
* * *
32713533 CGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 CGAAGGCATTTGTGCGAGTTACTATTTCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
32713598 ATCCGGGCTAAGTCC
65 AACCGGGCTAAGTCC
*
32713613 CGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTAT
1 CGAAGGCATTTGTGCGAGTTACTATTTCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
32713678 AACCAGGTTAAGTCC
65 AACCGGGCTAAGTCC
32713693 CGAAGGCATTTGTGCGAGTTACTA--------T--GTCCCGAAGGCATTTGTGCGAGTTACTATA
1 CGAAGGCATTTGTGCGAGTTACTATTTCCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
32713748 ACCGGGCT-AGTCC
66 ACCGGGCTAAGTCC
* * * * *
32713761 CGAAGACATTTGAGCGAG-TAGCTATATCCGGTTAAATCCCGAAGG
1 CGAAGGCATTTGTGCGAGTTA-CTATTTCCGGCTAAGTCCCGAAGG
32713806 TACTTGGCTT
Statistics
Matches: 169, Mismatches: 13, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
67 2 0.01
68 24 0.14
69 35 0.21
71 1 0.01
76 1 0.01
78 9 0.05
80 97 0.57
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTATTTCCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
ACCGGGCTAAGTCC
Found at i:32713723 original size:29 final size:29
Alignment explanation
Indices: 32713689--32713746 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
32713679 ACCAGGTTAA
32713689 GTCCCGAAGGCATTTGTGCGAGTTACTAT
1 GTCCCGAAGGCATTTGTGCGAGTTACTAT
32713718 GTCCCGAAGGCATTTGTGCGAGTTACTAT
1 GTCCCGAAGGCATTTGTGCGAGTTACTAT
32713747 AACCGGGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (29 bp):
GTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:32713801 original size:39 final size:39
Alignment explanation
Indices: 32713719--32713804 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
32713709 AGTTACTATG
* * *
32713719 TCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAG
1 TCCCGAAGACATTTGAGCGAGTTACTATAACCGGGCTAA
* *
32713758 TCCCGAAGACATTTGAGCGAG-TAGCTATATCC-GGTTAAA
1 TCCCGAAGACATTTGAGCGAGTTA-CTATAACCGGGCT-AA
32713797 TCCCGAAG
1 TCCCGAAG
32713805 GTACTTGGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 5 0.12
39 35 0.88
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
TCCCGAAGACATTTGAGCGAGTTACTATAACCGGGCTAA
Found at i:32722841 original size:12 final size:12
Alignment explanation
Indices: 32722824--32722850 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32722814 AGCCCAGTGG
32722824 AAACATTGGGAC
1 AAACATTGGGAC
32722836 AAACATTGGGAC
1 AAACATTGGGAC
32722848 AAA
1 AAA
32722851 TTCAAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (12 bp):
AAACATTGGGAC
Found at i:32738890 original size:42 final size:43
Alignment explanation
Indices: 32738829--32738940 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
32738819 TATGTGTTTT
*
32738829 CATGTAAGACCACGTCTGGGACGTTGGAATC-ATATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGAATCGATATTTGATTA
** *
32738871 TGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGAATCGATATTTGATTA
*
32738914 CATGTAAGACCACGTCTGGGATGTTGG
1 CATGTAAGACCACGTCTGGGACGTTGG
32738941 CATTGTATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 25 0.43
43 31 0.53
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGAATCGATATTTGATTA
Found at i:32740843 original size:15 final size:15
Alignment explanation
Indices: 32740804--32740835 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32740794 TTTAATCACA
*
32740804 TTTCTTCCTTTCCTT
1 TTTCTTTCTTTCCTT
32740819 TTTCTTTCTTTCCTT
1 TTTCTTTCTTTCCTT
32740834 TT
1 TT
32740836 ATTTTCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTTCTTTCCTT
Found at i:32740880 original size:24 final size:25
Alignment explanation
Indices: 32740839--32740885 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
32740829 TCCTTTTATT
*
32740839 TTCTTAAATTTCCATCTTTCCTTTC
1 TTCTTAAATTTCCATCTTACCTTTC
* *
32740864 TTCTT-AATTTGCTTCTTACCTT
1 TTCTTAAATTTCCATCTTACCTT
32740886 GCTGCCATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (25 bp):
TTCTTAAATTTCCATCTTACCTTTC
Found at i:32743891 original size:20 final size:22
Alignment explanation
Indices: 32743852--32743893 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
32743842 TCTCTCTATA
*
32743852 AAAACTAGATTTTAATTCTTAG
1 AAAACTAGAATTTAATTCTTAG
32743874 AAAA-TAGAATTT-ATTCTTAG
1 AAAACTAGAATTTAATTCTTAG
32743894 TTAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (22 bp):
AAAACTAGAATTTAATTCTTAG
Found at i:32743899 original size:20 final size:19
Alignment explanation
Indices: 32743866--32743904 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
32743856 CTAGATTTTA
32743866 ATTCTTAGAAAATAGAATTT
1 ATTCTTAGAAAATA-AATTT
**
32743886 ATTCTTAGTTAATAAATTT
1 ATTCTTAGAAAATAAATTT
32743905 CTACTACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (19 bp):
ATTCTTAGAAAATAAATTT
Found at i:32745028 original size:5 final size:5
Alignment explanation
Indices: 32745018--32745050 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
32745008 GATACTGTGA
32745018 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
32745051 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:32757098 original size:2 final size:2
Alignment explanation
Indices: 32757091--32757119 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32757081 TAATGAACTC
32757091 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32757120 ACACGCACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32758233 original size:6 final size:6
Alignment explanation
Indices: 32758222--32758253 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
32758212 ACCCACACAG
32758222 ATTCTA ATTCTA ATTCTA ATTCTA ATTCTA AT
1 ATTCTA ATTCTA ATTCTA ATTCTA ATTCTA AT
32758254 GTGTTAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTCTA
Found at i:32762499 original size:5 final size:5
Alignment explanation
Indices: 32762487--32762599 Score: 219
Period size: 5 Copynumber: 22.8 Consensus size: 5
32762477 TGCTTCTGAA
32762487 ATGA- ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
32762536 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
32762586 ATGAT ATGAT ATGA
1 ATGAT ATGAT ATGA
32762600 ACTAATCTAC
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.04
5 104 0.96
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:32769660 original size:31 final size:30
Alignment explanation
Indices: 32769618--32769703 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 30
32769608 GATTAAATCA
*
32769618 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * * *
32769648 ATAATTAGAGTTTCATGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATATAATTGAACC
* * *
32769679 AAATTAAAATTT-ATGTATACAATTG
1 AAATTAAAGTTTCAAGTATATAATTG
32769704 CTCATTAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 11 0.24
30 10 0.22
31 25 0.54
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:32772149 original size:32 final size:33
Alignment explanation
Indices: 32772103--32772175 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
32772093 TCAGTCTTTT
*
32772103 TTTTTTTAAATTATTTA-ATAAT-ATTTCAGTAA
1 TTTTTTTAAATTATTGACA-AATGATTTCAGTAA
** * *
32772135 TTTTTTTATGTTATTGACACATGATTTTAGTAA
1 TTTTTTTAAATTATTGACAAATGATTTCAGTAA
32772168 TTTTTTTA
1 TTTTTTTA
32772176 CTCTTATTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 16 0.47
33 18 0.53
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (33 bp):
TTTTTTTAAATTATTGACAAATGATTTCAGTAA
Found at i:32774848 original size:25 final size:29
Alignment explanation
Indices: 32774795--32774855 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
32774785 ACTAACAGGG
*
32774795 TATACATATATGTATAATGATATTAGAAA
1 TATACATATATATATAATGATATTAGAAA
32774824 TATAC-TATATATATAAT-AT-TT-GAAA
1 TATACATATATATATAATGATATTAGAAA
32774849 TATACAT
1 TATACAT
32774856 GAAGTGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.30
26 3 0.10
27 2 0.07
28 11 0.37
29 5 0.17
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (29 bp):
TATACATATATATATAATGATATTAGAAA
Found at i:32775191 original size:21 final size:21
Alignment explanation
Indices: 32775161--32775200 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32775151 ATTAATAATA
32775161 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
32775182 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
32775201 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:32775273 original size:3 final size:3
Alignment explanation
Indices: 32775259--32775356 Score: 57
Period size: 3 Copynumber: 33.7 Consensus size: 3
32775249 TACATAACAT
*
32775259 ATA ATA AAA ATA ATA AT- ATA CATA AT- ATA TATA A-A ATA CAT- ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA -ATA ATA
* * * **
32775303 A-A ACA A-A ACA TATA CTA -TA ATA ATA ATA ATA ATA AGG ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32775346 ATA ATA ATA AT
1 ATA ATA ATA AT
32775357 GTAAAAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 22
0.72 0.08 0.21
Matches are distributed among these distances:
2 14 0.18
3 52 0.68
4 10 0.13
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:32775279 original size:28 final size:28
Alignment explanation
Indices: 32775246--32775333 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 28
32775236 AATATTTAAC
32775246 ATATACATAACATATAATAAAAATAATA
1 ATATACATAACATATAATAAAAATAATA
*
32775274 ATATACATAATATAT-AT-AAAATACAT-
1 ATATACATAACATATAATAAAAATA-ATA
* * *
32775300 ATAAAACAAAACATATACTATAATAATAATA
1 AT-ATACATAACATATA--ATAAAAATAATA
32775331 ATA
1 ATA
32775334 ATAAGGATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
26 8 0.17
27 14 0.29
28 14 0.29
30 5 0.10
31 7 0.15
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATACATAACATATAATAAAAATAATA
Found at i:32775344 original size:60 final size:56
Alignment explanation
Indices: 32775250--32775368 Score: 134
Period size: 60 Copynumber: 2.1 Consensus size: 56
32775240 TTTAACATAT
32775250 ACATAACATATAATAAAAATAATAATATACATAATATATATAAAATACATATAAAACAAA
1 ACATAACATATAATAAAAATAATAATATACATAATA-ATA-AAAATA-ATATAAAA-AAA
* * * *
32775310 ACATATAC-TATAATAATAATAATAATA-AGGATAATAATAATAATAATGTAAAAAAA
1 ACATA-ACATATAATAAAAATAATAATATA-CATAATAATAAAAATAATATAAAAAAA
32775366 ACA
1 ACA
32775369 AGAATATTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
56 6 0.11
57 7 0.13
58 5 0.09
59 4 0.08
60 29 0.55
61 2 0.04
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.27
Consensus pattern (56 bp):
ACATAACATATAATAAAAATAATAATATACATAATAATAAAAATAATATAAAAAAA
Found at i:32785419 original size:47 final size:47
Alignment explanation
Indices: 32785365--32785459 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
32785355 TCAGTGGACA
32785365 ACGATGGAAATTGAACCTAAGTTGGTAATGTTCCTACATGTCTTTTG
1 ACGATGGAAATTGAACCTAAGTTGGTAATGTTCCTACATGTCTTTTG
32785412 ACGATGGAAATTGAACCTAAGTTGGTAATGTTCCTACATGTCTTTTG
1 ACGATGGAAATTGAACCTAAGTTGGTAATGTTCCTACATGTCTTTTG
32785459 A
1 A
32785460 GTTGCAAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (47 bp):
ACGATGGAAATTGAACCTAAGTTGGTAATGTTCCTACATGTCTTTTG
Found at i:32786574 original size:16 final size:16
Alignment explanation
Indices: 32786553--32786583 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32786543 CCTACACATA
32786553 GTCTTACACTGACACG
1 GTCTTACACTGACACG
32786569 GTCTTACACTGACAC
1 GTCTTACACTGACAC
32786584 ATCTTGTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (16 bp):
GTCTTACACTGACACG
Found at i:32790342 original size:16 final size:15
Alignment explanation
Indices: 32790321--32790392 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 15
32790311 CGTTTGGTTC
32790321 ACTGTAATGGAATATG
1 ACTGTAATGGAATA-G
* *
32790337 ACTGTAATTGCATAGG
1 ACTGTAATGGAATA-G
* *
32790353 GCTGTAATTGAATAG
1 ACTGTAATGGAATAG
*
32790368 AGCTGTAATGAAATAG
1 A-CTGTAATGGAATAG
32790384 AGCTGTAAT
1 A-CTGTAAT
32790393 AAGTAATTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
15 1 0.02
16 46 0.98
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (15 bp):
ACTGTAATGGAATAG
Found at i:32790389 original size:32 final size:32
Alignment explanation
Indices: 32790322--32790392 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
32790312 GTTTGGTTCA
* *
32790322 CTGTAATGGAATATGACTGTAATTGCATAGGG
1 CTGTAATGGAATATGACTGTAATTGAATAGAG
*
32790354 CTGTAATTGAATA-GAGCTGTAA-TGAAATAGAG
1 CTGTAATGGAATATGA-CTGTAATTG-AATAGAG
32790386 CTGTAAT
1 CTGTAAT
32790393 AAGTAATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (32 bp):
CTGTAATGGAATATGACTGTAATTGAATAGAG
Found at i:32790436 original size:46 final size:44
Alignment explanation
Indices: 32790374--32790468 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
32790364 ATAGAGCTGT
* *
32790374 AATGAAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGAAATAGAACTGTAAT-AGT-ATTCAACTATTTGGTTGAATGG
* ***
32790420 AATGGAATAGAACTGTAATAGTATTCTTGTATTTGGTTGAATGG
1 AATGAAATAGAACTGTAATAGTATTCAACTATTTGGTTGAATGG
32790464 AATGA
1 AATGA
32790469 TGTTGTAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 22 0.52
45 3 0.07
46 17 0.40
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (44 bp):
AATGAAATAGAACTGTAATAGTATTCAACTATTTGGTTGAATGG
Found at i:32790662 original size:17 final size:17
Alignment explanation
Indices: 32790640--32790672 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32790630 AATTATTATT
32790640 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
32790657 AAATATAATTTAATAA
1 AAATATAATTTAATAA
32790673 CATTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:32794984 original size:32 final size:32
Alignment explanation
Indices: 32794943--32795005 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
32794933 TTGCAATTTG
32794943 TTTTATATTTGCCCTTGGCCTTTACATCTATA
1 TTTTATATTTGCCCTTGGCCTTTACATCTATA
*
32794975 TTTTATATTTTCCCTTGGCCTTTACATCTAT
1 TTTTATATTTGCCCTTGGCCTTTACATCTAT
32795006 CTCATCATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.22, G:0.08, T:0.52
Consensus pattern (32 bp):
TTTTATATTTGCCCTTGGCCTTTACATCTATA
Found at i:32795226 original size:12 final size:12
Alignment explanation
Indices: 32795209--32795235 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32795199 TAGATTTATG
32795209 CAAAACAATACC
1 CAAAACAATACC
32795221 CAAAACAATACC
1 CAAAACAATACC
32795233 CAA
1 CAA
32795236 TAATTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.07
Consensus pattern (12 bp):
CAAAACAATACC
Found at i:32798236 original size:26 final size:26
Alignment explanation
Indices: 32798182--32798254 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
32798172 TATTTTCTTG
*
32798182 AAAATTTACAAGGAGTAAAATCGAAA
1 AAAATTTACAAGGGGTAAAATCGAAA
* * **
32798208 AAAAATTACCAGGGGTAAAATCGTCA
1 AAAATTTACAAGGGGTAAAATCGAAA
* **
32798234 AAATTTTATTAGGGGTAAAAT
1 AAAATTTACAAGGGGTAAAAT
32798255 AAGGATGAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (26 bp):
AAAATTTACAAGGGGTAAAATCGAAA
Found at i:32803553 original size:27 final size:26
Alignment explanation
Indices: 32803474--32803564 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 26
32803464 TGCTAGGAAG
* *
32803474 GAAATGACTTTGTGGCAATATATGAAA
1 GAAATGCCTTTGTGGCAA-ATTTGAAA
* * * *
32803501 GAAATGCCTTTGAGCCTAACTTTGAAG
1 GAAATGCCTTTGTGGC-AAATTTGAAA
*
32803528 GGAATGCCTTTGTGGCAAATTCTGAAA
1 GAAATGCCTTTGTGGCAAATT-TGAAA
*
32803555 GGAATGCCTT
1 GAAATGCCTT
32803565 GACAACGTAC
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.08
27 45 0.88
28 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (26 bp):
GAAATGCCTTTGTGGCAAATTTGAAA
Found at i:32806968 original size:34 final size:34
Alignment explanation
Indices: 32806917--32807038 Score: 181
Period size: 34 Copynumber: 3.6 Consensus size: 34
32806907 TCTGTTTGCA
* * *
32806917 TACTGTTACTGTCATGGGCTTAGGCCCAGACTAC
1 TACTATTACTGTAATGGGCTTAGGCCCAGACTGC
32806951 TACTATTACTGTAATGGGCTTAGGCCCAGACTGC
1 TACTATTACTGTAATGGGCTTAGGCCCAGACTGC
* *
32806985 TACTGTTACTGTAATGGGCTCAGGCCCAGACTGC
1 TACTATTACTGTAATGGGCTTAGGCCCAGACTGC
* *
32807019 TACTATTACTGCAACGGGCT
1 TACTATTACTGTAATGGGCT
32807039 CAGACCCATA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (34 bp):
TACTATTACTGTAATGGGCTTAGGCCCAGACTGC
Found at i:32807026 original size:68 final size:68
Alignment explanation
Indices: 32806917--32807060 Score: 200
Period size: 68 Copynumber: 2.1 Consensus size: 68
32806907 TCTGTTTGCA
* * * * * *
32806917 TACTGTTACTGTCATGGGCTTAGGCCCAGACTACTACTATTACTGTAATGGGCTTAGGCCCAGA-
1 TACTGTTACTGTAATGGGCTCAGGCCCAGACTACTACTATTACTGCAACGGGCTCAGACCCAGAT
32806981 CTGC
66 C-GC
* *
32806985 TACTGTTACTGTAATGGGCTCAGGCCCAGACTGCTACTATTACTGCAACGGGCTCAGACCCATAT
1 TACTGTTACTGTAATGGGCTCAGGCCCAGACTACTACTATTACTGCAACGGGCTCAGACCCAGAT
32807050 CGC
66 CGC
32807053 TACTGTTA
1 TACTGTTA
32807061 TTGAAAGGGC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 66 0.99
69 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (68 bp):
TACTGTTACTGTAATGGGCTCAGGCCCAGACTACTACTATTACTGCAACGGGCTCAGACCCAGAT
CGC
Found at i:32809703 original size:19 final size:20
Alignment explanation
Indices: 32809666--32809703 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
32809656 GCTTATATAG
*
32809666 AAAGATAAATGAGATTTAAT
1 AAAGATAAATGAGAATTAAT
*
32809686 AAAGA-AAATGTGAATTAA
1 AAAGATAAATGAGAATTAA
32809704 CATAGATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (20 bp):
AAAGATAAATGAGAATTAAT
Found at i:32812205 original size:27 final size:27
Alignment explanation
Indices: 32812168--32812219 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
32812158 AACTCGAGAG
32812168 AAAGGCGATGCTACCATTGTCATAGAA
1 AAAGGCGATGCTACCATTGTCATAGAA
*
32812195 AAAGGCTATGCTACCATTGTCATAG
1 AAAGGCGATGCTACCATTGTCATAG
32812220 CAAGTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AAAGGCGATGCTACCATTGTCATAGAA
Found at i:32814716 original size:17 final size:17
Alignment explanation
Indices: 32814694--32814727 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
32814684 CCTAGAGAAA
32814694 ATTTCAGAATCATGGGC
1 ATTTCAGAATCATGGGC
32814711 ATTTCAGAATCATGGGC
1 ATTTCAGAATCATGGGC
32814728 CTACAAGCCC
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:0.24, T:0.29
Consensus pattern (17 bp):
ATTTCAGAATCATGGGC
Found at i:32819976 original size:30 final size:31
Alignment explanation
Indices: 32819922--32819982 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
32819912 AGCCTTCCAC
* *
32819922 CTAATGCTCAAGATCGAAAGCAAAA-TTTTT
1 CTAAAGCTCAAGATCGAAACCAAAACTTTTT
* *
32819952 CTAAAGCTCTAGATCGAACCCAAAACTTTTT
1 CTAAAGCTCAAGATCGAAACCAAAACTTTTT
32819983 TCCACACTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (31 bp):
CTAAAGCTCAAGATCGAAACCAAAACTTTTT
Found at i:32823652 original size:70 final size:71
Alignment explanation
Indices: 32823560--32823794 Score: 205
Period size: 70 Copynumber: 3.3 Consensus size: 71
32823550 TTCATATGCT
* * * * *
32823560 AACTTTT-AAAGAGTTAGGATAGACCATTTTATG-CTAACTTTAAAAAAGGTTGGGATA-AGC-C
1 AACTTTTAAAAG-GTTGGGATAGACCATTGTATGTC-AACATTAAAAAAAGTTGAGATAGA-CTC
*
32823621 ATCTAAGGC
63 ATCTAAGGA
* *
32823630 AAC-TTTAAAACGGTTGGGATAGACCATTGTATGTCAACATTAAAAAAATTTGAGATAGACTCTT
1 AACTTTTAAAA-GGTTGGGATAGACCATTGTATGTCAACATTAAAAAAAGTTGAGATAGACTCAT
32823694 CTAAGGA
65 CTAAGGA
* * * * * ** * * *
32823701 AACTTTTAAAAGGTTGGGATAGACTC-CTCTAAG-GAAAATTTTAAAAGGTTGGGATAGACTCCT
1 AACTTTTAAAAGGTTGGGATAGAC-CATTGTATGTCAACATTAAAAAAAGTTGAGATAGACTCAT
32823764 CTAAGGA
65 CTAAGGA
*
32823771 AAATTTTAAAAGGTTGGGATAGAC
1 AACTTTTAAAAGGTTGGGATAGAC
32823795 GTTATCTGCG
Statistics
Matches: 138, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
69 3 0.02
70 96 0.70
71 31 0.22
72 8 0.06
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (71 bp):
AACTTTTAAAAGGTTGGGATAGACCATTGTATGTCAACATTAAAAAAAGTTGAGATAGACTCATC
TAAGGA
Found at i:32823673 original size:35 final size:34
Alignment explanation
Indices: 32823530--32823794 Score: 119
Period size: 35 Copynumber: 7.5 Consensus size: 34
32823520 ACGACCCCAA
* * *
32823530 AAAAAGGTTGGAATAAAGCATTCATATGCTAACTTT
1 AAAAAGGTTGGGATAGACCATTC-TATGC-AACTTT
* * *
32823566 -TAAAGAGTTAGGATAGACCATTTTATGCTAACTTT
1 AAAAAG-GTTGGGATAGACCATTCTATGC-AACTTT
*
32823601 AAAAAAGGTTGGGATA-AGCCA-TCTAAGGCAACTTT
1 -AAAAAGGTTGGGATAGA-CCATTCT-ATGCAACTTT
* * *
32823636 AAAACGGTTGGGATAGACCATTGTATGTCAACATTA
1 AAAAAGGTTGGGATAGACCATTCTATG-CAAC-TTT
** * * *
32823672 AAAAAATTTGAGATAGACTC-TTCTAAGGAAACTTT
1 AAAAAGGTTGGGATAGAC-CATTCT-ATGCAACTTT
* * * * *
32823707 TAAAAGGTTGGGATAGACTC-CTCTAAGGAAAATTT
1 AAAAAGGTTGGGATAGAC-CATTCT-ATGCAACTTT
* * * * *
32823742 TAAAAGGTTGGGATAGACTC-CTCTAAGGAAAATTT
1 AAAAAGGTTGGGATAGAC-CATTCT-ATGCAACTTT
*
32823777 TAAAAGGTTGGGATAGAC
1 AAAAAGGTTGGGATAGAC
32823795 GTTATCTGCG
Statistics
Matches: 190, Mismatches: 28, Indels: 23
0.79 0.12 0.10
Matches are distributed among these distances:
34 19 0.10
35 116 0.61
36 48 0.25
37 7 0.04
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (34 bp):
AAAAAGGTTGGGATAGACCATTCTATGCAACTTT
Found at i:32825768 original size:17 final size:18
Alignment explanation
Indices: 32825746--32825780 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
32825736 CAAATGGGTT
*
32825746 GGTTATAA-ATTTTTTAA
1 GGTTATAATATTTATTAA
32825763 GGTTATAATATTTATTAA
1 GGTTATAATATTTATTAA
32825781 TTTTTAGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
GGTTATAATATTTATTAA
Found at i:32826098 original size:125 final size:126
Alignment explanation
Indices: 32825883--32826118 Score: 289
Period size: 125 Copynumber: 1.9 Consensus size: 126
32825873 AGCATAGTGT
32825883 TGGAAAAAGCCGAATCATATTTAAGTGTTACGTTAGACATGCATATCTCAACCCTTACAAAAAGA
1 TGGAAAAAGCCGAATCATATTTAAGTGTTACGTTAGACATGCATATCTCAACCCTTACAAAAAGA
* *
32825948 GTTGGCCAAAGCGTATGTCGACAAGTCTATCC-AACACTTAGGAAAGTGTCAGTATAATGC
66 GTTGGCCAAAGCGTATATCGACAAGTCTATCCAAACACTAAGGAAAGTGTCAGTATAATGC
* * * * * * * * * *
32826008 TGGAACAATCCGAATCTTATTTAAGTGTTGCTTTAGGCGTGCATAT-TACAACTCTTATACAATA
1 TGGAAAAAGCCGAATCATATTTAAGTGTTACGTTAGACATGCATATCT-CAACCCTTACA-AAAA
* * * *
32826072 -AGTTGGCTAAAGTGTATATCGGCAAGTCTGTCCAAACACTAAGGAAA
64 GAGTTGGCCAAAGCGTATATCGACAAGTCTATCCAAACACTAAGGAAA
32826119 TTTTCGGCCC
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
124 1 0.01
125 76 0.83
126 15 0.16
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (126 bp):
TGGAAAAAGCCGAATCATATTTAAGTGTTACGTTAGACATGCATATCTCAACCCTTACAAAAAGA
GTTGGCCAAAGCGTATATCGACAAGTCTATCCAAACACTAAGGAAAGTGTCAGTATAATGC
Found at i:32826402 original size:135 final size:134
Alignment explanation
Indices: 32826019--32826408 Score: 338
Period size: 135 Copynumber: 2.9 Consensus size: 134
32826009 GGAACAATCC
* * * * * * * * *
32826019 GAATCTTATTTAAGTGTTGCTTTAGGCGTGCATATTACAACTCTTATACAATAAGTTGGCTAAAG
1 GAATCTTATTTAAGTGTTACCTTACGCATG-ATA-TCCAACCCTTATACAAAAACTT-GCCAAAG
* ** * * * * * * *
32826084 TGTATATCGGCAAGTCTGTCCAAACACTAAGGAAATTTTCGGCCCAAAAGTGTCAGTAGTATTGG
63 TGTATGTTTGCAAATCTATCCCAACACTCAGAAAAGTGTC-GCCCAAAAGTGTCAGTAGTATTGG
*
32826149 ATAAAGCT
127 ACAAAGCT
* * *
32826157 GAATCTTATTTAAGTGTTTCCTTACGCATGCATATCCCAACCCTTATACAAAAAGTTGCCGAAGT
1 GAATCTTATTTAAGTGTTACCTTACGCATG-ATAT-CCAACCCTTATACAAAAACTTGCCAAAGT
* * * *
32826222 GTATGTTTGCAAATCTATCCCAGCACTTAGGAAAGTGTCGACCCAAAAGTGTCAGCATAGTGTTG
64 GTATGTTTGCAAATCTATCCCAACACTCAGAAAAGTGTCG-CCCAAAAGTGTCAG--TAGTATTG
32826287 GACAAAG-T
126 GACAAAGCT
* * * * *
32826295 CGACTCTTATTTAAGTGTTACCTTAGGCATG-TAT-C-TCCTTTATACAAAGACTTGGCCAAAGT
1 -GAATCTTATTTAAGTGTTACCTTACGCATGATATCCAACCCTTATACAAAAACTT-GCCAAAGT
* *
32826357 TTATGTTTGTAAATCTATCCCAACACTCAGAAAAGTGTCAGCCCAAAAGTGT
64 GTATGTTTGCAAATCTATCCCAACACTCAGAAAAGTGTC-GCCCAAAAGTGT
32826409 TGTCTTAGGA
Statistics
Matches: 211, Mismatches: 34, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
134 14 0.07
135 53 0.25
136 2 0.01
137 53 0.25
138 49 0.23
139 40 0.19
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (134 bp):
GAATCTTATTTAAGTGTTACCTTACGCATGATATCCAACCCTTATACAAAAACTTGCCAAAGTGT
ATGTTTGCAAATCTATCCCAACACTCAGAAAAGTGTCGCCCAAAAGTGTCAGTAGTATTGGACAA
AGCT
Found at i:32831357 original size:47 final size:47
Alignment explanation
Indices: 32831303--32831719 Score: 591
Period size: 47 Copynumber: 8.6 Consensus size: 47
32831293 TATTTGAATA
*
32831303 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
32831350 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
32831397 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
32831446 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCC---T-----A----ATGGCCGATGTGATG
*
32831505 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
32831552 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
32831599 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
32831646 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
32831693 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
32831720 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 19, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
47 243 0.72
49 45 0.13
50 1 0.00
51 1 0.00
55 1 0.00
56 1 0.00
59 45 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:32836075 original size:35 final size:34
Alignment explanation
Indices: 32836029--32836174 Score: 133
Period size: 35 Copynumber: 4.3 Consensus size: 34
32836019 ACTCCCTGTT
*
32836029 TTGGTGTGTTTCGATTGGATTAGCTCTTCTGAGCA
1 TTGGTGTGTTTCGA-TGGATTAGCTCTTTTGAGCA
*
32836064 TTGGTGTGTTTCGGATGGATTATCTCTTTTGAG--
1 TTGGTGTGTTTC-GATGGATTAGCTCTTTTGAGCA
* *
32836097 -TGTTG-GTGT-GATGGATTAGCTCTTTTGAGCA
1 TTGGTGTGTTTCGATGGATTAGCTCTTTTGAGCA
** *
32836128 TTGGAATGTTTCATATGGATTAGCT-TTTATGAGCA
1 TTGGTGTGTTTC-GATGGATTAGCTCTTT-TGAGCA
*
32836163 TCTGTTGTGTTT
1 T-TGGTGTGTTT
32836175 GGTTGGAATA
Statistics
Matches: 89, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
29 19 0.21
31 3 0.03
32 6 0.07
33 3 0.03
34 3 0.03
35 46 0.52
36 9 0.10
ACGTcount: A:0.16, C:0.10, G:0.28, T:0.46
Consensus pattern (34 bp):
TTGGTGTGTTTCGATGGATTAGCTCTTTTGAGCA
Found at i:32839221 original size:7 final size:7
Alignment explanation
Indices: 32839211--32839270 Score: 63
Period size: 7 Copynumber: 8.6 Consensus size: 7
32839201 AAAGTTAAAA
32839211 TATATAT
1 TATATAT
32839218 TATAATAT
1 TAT-ATAT
32839226 TATATAT
1 TATATAT
32839233 TA-ATCAT
1 TATAT-AT
32839240 TA-AGTA-
1 TATA-TAT
32839246 TATATAT
1 TATATAT
*
32839253 TTTATAT
1 TATATAT
32839260 TATATAT
1 TATATAT
32839267 TATA
1 TATA
32839271 ATAAATAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
6 6 0.13
7 32 0.70
8 8 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:32839285 original size:13 final size:13
Alignment explanation
Indices: 32839267--32839292 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32839257 TATTATATAT
32839267 TATAATAAATAAA
1 TATAATAAATAAA
32839280 TATAATAAATAAA
1 TATAATAAATAAA
32839293 AGAAACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TATAATAAATAAA
Found at i:32839326 original size:15 final size:16
Alignment explanation
Indices: 32839306--32839335 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32839296 AACAAAAAGA
32839306 AATAGAAA-GAAACAT
1 AATAGAAACGAAACAT
32839321 AATAGAAACGAAACA
1 AATAGAAACGAAACA
32839336 GGAGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (16 bp):
AATAGAAACGAAACAT
Found at i:32840354 original size:40 final size:40
Alignment explanation
Indices: 32840235--32840372 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
32840225 CTTCGAGTTA
* *
32840235 ATGAGACACTGGGTGTCAATTTACTACTTCAGATTAATTCG
1 ATGAGACACTGGGTGTCAAATTACTACTTCAGATT-ATCCG
* * * * *
32840276 ATGAGGCACTGGGTG-CCAATT--TACTTCGGTTTAGCCG
1 ATGAGACACTGGGTGTCAAATTACTACTTCAGATTATCCG
* * *
32840313 ATAAGACATTGGGTGTCAAATTACTACTTCAAATTATCCG
1 ATGAGACACTGGGTGTCAAATTACTACTTCAGATTATCCG
* *
32840353 ATGAGGCACTGGGTGCCAAA
1 ATGAGACACTGGGTGTCAAA
32840373 CTGGTTTGTT
Statistics
Matches: 75, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 15 0.20
38 14 0.19
40 32 0.43
41 14 0.19
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAAATTACTACTTCAGATTATCCG
Found at i:32841217 original size:18 final size:18
Alignment explanation
Indices: 32841191--32841233 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
32841181 AAAAGCTGTT
*
32841191 TTTACATATATTAACAAA
1 TTTATATATATTAACAAA
*
32841209 TTTATATATATTAATAAA
1 TTTATATATATTAACAAA
32841227 TTTATAT
1 TTTATAT
32841234 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTATATATATTAACAAA
Found at i:32841238 original size:16 final size:16
Alignment explanation
Indices: 32841196--32841238 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
32841186 CTGTTTTTAC
*
32841196 ATATATTAACAAATTT
1 ATATTTTAACAAATTT
*
32841212 ATATATATTAATAAATTT
1 ATAT-T-TTAACAAATTT
32841230 ATATTTTAA
1 ATATTTTAA
32841239 ATTGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 14 0.61
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTTTAACAAATTT
Found at i:32842791 original size:15 final size:17
Alignment explanation
Indices: 32842766--32842801 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
32842756 CACATGCACT
32842766 TATTATATATACTGAAA
1 TATTATATATACTGAAA
32842783 TATTATATATACTGAAA
1 TATTATATATACTGAAA
32842800 TA
1 TA
32842802 GAACTATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
TATTATATATACTGAAA
Found at i:32845369 original size:49 final size:49
Alignment explanation
Indices: 32845267--32845628 Score: 244
Period size: 49 Copynumber: 7.6 Consensus size: 49
32845257 GATGCCGACA
* ** * * * *
32845267 CCATGTCCCAGACATGGTCTTACACTGGCTAGC--ACATCAAAGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTAGCTTTCATATATCGAGGCCGATG
* * *
32845315 CCATGTCCCAAATAGGTCTTACACTAACTTTCATATATCGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCCGATG
* * * * * *
32845364 CCATGTCCTAGACCGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAG-GCCGATG
* * ** *
32845413 CCATGTCCCAGACATGTCTTACAGTAGCTTGAATATCTCGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCCGATG
* * * ** * * *
32845462 -CATATCCCAGACATGTCTTATACTAGCCCTC--ATCTCAATGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCCGATG
* * * * *
32845508 -CATGTCCCAGACATGTCTTACACTAGCTGGT-ATATCTCAAGGCCAATG
1 CCATGTCCCAGACAGGTCTTACACTAGCT-TTCATATATCGAGGCCGATG
* * * * *
32845556 -CATATCCCAGACATGTCTTACACTGGCTCTCA-ATAT-GTGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCCGATG
* *
32845602 -CATGTCCCAAACATGTCTTACACTAGC
1 CCATGTCCCAGACAGGTCTTACACTAGC
32845629 ACACATATCA
Statistics
Matches: 251, Mismatches: 55, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
46 69 0.27
47 19 0.08
48 77 0.31
49 85 0.34
50 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGCCGATG
Found at i:32845516 original size:46 final size:46
Alignment explanation
Indices: 32845455--32845628 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
32845445 ATATCTCGAG
*
32845455 GCCGATGCATATCCCAGACATGTCTTATACTAGCCCTCATCTCAAT
1 GCCGATGCATATCCCAGACATGTCTTACACTAGCCCTCATCTCAAT
* ** * *
32845501 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCAAG
1 GCCGATGCATATCCCAGACATGTCTTACACTAGC-CCT-CATCTCAAT
* * * * *
32845549 GCCAATGCATATCCCAGACATGTCTTACACTGGCTCTCA-AT-ATGT
1 GCCGATGCATATCCCAGACATGTCTTACACTAGCCCTCATCTCA-AT
* *
32845594 GGCCGATGCATGTCCCAAACATGTCTTACACTAGC
1 -GCCGATGCATATCCCAGACATGTCTTACACTAGC
32845629 ACACATATCA
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 63 0.60
47 2 0.02
48 38 0.36
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCGATGCATATCCCAGACATGTCTTACACTAGCCCTCATCTCAAT
Found at i:32845637 original size:94 final size:96
Alignment explanation
Indices: 32845310--32845637 Score: 328
Period size: 94 Copynumber: 3.4 Consensus size: 96
32845300 ACATCAAAGT
* * * ** * * *
32845310 CGATGCCATGTCCCAAATAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCATGTCCTAG
1 CGATGCCATGTCCCAAACATGTCTTACACTAGCTGACATATCTCGAGGCCGATG-CATATCCCAG
** * *
32845375 ACCGGTCTTACACTGGCTCTCATCTATCG-GTGT
65 ACATGTCTTACACTGGCTCTCA-ATATCGTG-GC
* *
32845408 CGATGCCATGTCCCAGACATGTCTTACAGTAGCTTGA-ATATCTCGAGGCCGATGCATATCCCAG
1 CGATGCCATGTCCCAAACATGTCTTACACTAGC-TGACATATCTCGAGGCCGATGCATATCCCAG
* * * * *
32845472 ACATGTCTTATACTAGCCCTC-ATCTCAAT-GC
65 ACATGTCTTACACTGGCTCTCAATATC-GTGGC
* ** * *
32845503 CGATG-CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCAAGGCCAATGCATATCCCAGA
1 CGATGCCATGTCCCAAACATGTCTTACACTAGCTGACATATCTCGAGGCCGATGCATATCCCAGA
32845567 CATGTCTTACACTGGCTCTCAATAT-GTGGC
66 CATGTCTTACACTGGCTCTCAATATCGTGGC
**
32845597 CGATG-CATGTCCCAAACATGTCTTACACTAGCACACATATC
1 CGATGCCATGTCCCAAACATGTCTTACACTAGCTGACATATC
32845638 ACCTAATGCC
Statistics
Matches: 191, Mismatches: 33, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
93 3 0.02
94 107 0.56
95 12 0.06
97 24 0.13
98 44 0.23
99 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACATGTCTTACACTAGCTGACATATCTCGAGGCCGATGCATATCCCAGA
CATGTCTTACACTGGCTCTCAATATCGTGGC
Found at i:32848246 original size:18 final size:19
Alignment explanation
Indices: 32848214--32848252 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
32848204 AGAAGATGCA
32848214 GAATGGAAGAAGGAA-AAG
1 GAATGGAAGAAGGAAGAAG
32848232 GAAT-GAAGAACGGAAGAAG
1 GAATGGAAGAA-GGAAGAAG
32848251 GA
1 GA
32848253 GAAGCAGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 8 0.42
19 5 0.26
ACGTcount: A:0.54, C:0.03, G:0.38, T:0.05
Consensus pattern (19 bp):
GAATGGAAGAAGGAAGAAG
Found at i:32849283 original size:137 final size:138
Alignment explanation
Indices: 32849053--32849326 Score: 428
Period size: 137 Copynumber: 2.0 Consensus size: 138
32849043 GAAAAAAGAT
* *
32849053 TTATATTCTTTCCAAAAGAATACTAATTTCCATGTTTTTTATATTTTGACCAAAATTAACTAATA
1 TTATATTCTTTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTAACCAAAATTAACTAATA
*
32849118 TAATTGTTTATATTAATAAATTTCGTAAAATATATACTATTAATATTTTG-TATGAATCAAATTC
66 TAATTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTGAT-TGAATCAAATTC
32849182 A-ATATTAA
130 ATATATTAA
* * * * *
32849190 TTATATTCTTTCCAAATGAATATTAATTTCCATGTCTTTTATTTTTTAACCGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTAACCAAAATTAACTAATA
*
32849255 TAATTGTTTATATTAATAAA-TTCGGTAAAATATATACAATTAATATTTTGATTGAATCAAATTT
66 TAATTGTTTATATTAATAAATTTC-GTAAAATATATACAATTAATATTTTGATTGAATCAAATTC
32849319 ATATATTA
130 ATATATTA
32849327 GTTTTATATA
Statistics
Matches: 125, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
136 3 0.02
137 115 0.92
138 7 0.06
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (138 bp):
TTATATTCTTTCCAAAAGAATACTAATTTCCATGTCTTTTATATTTTAACCAAAATTAACTAATA
TAATTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATATTTTGATTGAATCAAATTCA
TATATTAA
Found at i:32860054 original size:14 final size:14
Alignment explanation
Indices: 32860035--32860063 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32860025 ACCGTAGCTA
32860035 AAATATATATATAT
1 AAATATATATATAT
32860049 AAATATATATATAT
1 AAATATATATATAT
32860063 A
1 A
32860064 GAAGAAGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:32861557 original size:43 final size:43
Alignment explanation
Indices: 32861500--32861618 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
32861490 TAAATAATAT
*
32861500 TATCGAGCTACGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
1 TATCGAGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
* * *
32861543 TATCGGGCTTCGGGCCTAGCAGACTATAATGCCTGTGAGATAA
1 TATCGAGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
* *
32861586 TATCGCGCTTCGGGCCTAGCAGGCGA-AATGCCG
1 TATCGAGCTTCGGGCCTAGCAGGCTATAATGCCG
32861619 ATGAATGAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 6 0.09
43 62 0.91
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (43 bp):
TATCGAGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAA
Found at i:32861703 original size:40 final size:40
Alignment explanation
Indices: 32861600--32861704 Score: 93
Period size: 40 Copynumber: 2.6 Consensus size: 40
32861590 GCGCTTCGGG
* * * *
32861600 CCTAGCAGGCGAAATGCCGATGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* *** * * **
32861641 TCTAGCAGGCTTCGTGCTGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
32861681 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
32861705 TTGATAAAAG
Statistics
Matches: 47, Mismatches: 17, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
40 32 0.68
41 15 0.32
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:32865259 original size:21 final size:22
Alignment explanation
Indices: 32865219--32865262 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
32865209 TCAATGCATG
32865219 TATAGATATGTATAAGAAAAAA
1 TATAGATATGTATAAGAAAAAA
*
32865241 TATAGATATGTA-CAGAAAAAA
1 TATAGATATGTATAAGAAAAAA
32865262 T
1 T
32865263 TTCATGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.27
Consensus pattern (22 bp):
TATAGATATGTATAAGAAAAAA
Found at i:32867437 original size:48 final size:48
Alignment explanation
Indices: 32867363--32867454 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
32867353 GGGTTATGTG
32867363 TGATCCCATGTAAGACCATGCATGGGACATGGCATTGGCATCGATATT
1 TGATCCCATGTAAGACCATGCATGGGACATGGCATTGGCATCGATATT
* *
32867411 TGATCCCATGTAAGACCATATC-TGGGATATGGCATTGGCATCGA
1 TGATCCCATGTAAGACCAT-GCATGGGACATGGCATTGGCATCGA
32867455 CATGAGACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
48 40 0.98
49 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGCATGGGACATGGCATTGGCATCGATATT
Found at i:32867471 original size:48 final size:48
Alignment explanation
Indices: 32867364--32867484 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
32867354 GGTTATGTGT
* **
32867364 GATCCCATGTAAGACCAT-GCATGGGACATGGCATTGGCATCGATATTT
1 GATCCCATGTAAGACCATAGC-TGGGACATGGCATTGGCATCGACATGA
* *
32867412 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGACATGA
1 GATCCCATGTAAGACCATAGCTGGGACATGGCATTGGCATCGACATGA
* * *
32867460 GA-CATCGTGTAAGAACATAGCTGGG
1 GATC-CCATGTAAGACCATAGCTGGG
32867485 CTATTAGCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.02
48 60 0.97
49 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (48 bp):
GATCCCATGTAAGACCATAGCTGGGACATGGCATTGGCATCGACATGA
Found at i:32874164 original size:48 final size:47
Alignment explanation
Indices: 32874108--32874245 Score: 152
Period size: 48 Copynumber: 2.9 Consensus size: 47
32874098 ATGTGTGATG
*
32874108 CCATGTAAGACCATGCCTGGGACATGACATTGGCATCGATATTCGATC
1 CCATGTAAGACCATGTCTGGGACATGA-ATTGGCATCGATATTCGATC
* * * *
32874156 CCATGTAAGAACATGTCTAGGACATGGAATCGGTATCGATATTCGATC
1 CCATGTAAGACCATGTCTGGGACAT-GAATTGGCATCGATATTCGATC
* * * *
32874204 CCATAG-AAGACTATATCTGGGATATGGTATTGGCATCGATAT
1 CCAT-GTAAGACCATGTCTGGGACAT-GAATTGGCATCGATAT
32874246 GAGACATCGT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 72 0.96
49 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (47 bp):
CCATGTAAGACCATGTCTGGGACATGAATTGGCATCGATATTCGATC
Found at i:32875699 original size:28 final size:28
Alignment explanation
Indices: 32875659--32875720 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
32875649 TGGGAAGTAG
* * *
32875659 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
32875687 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
32875715 TTGGGC
1 TTGGGC
32875721 TTAGAGGAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.15, G:0.39, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:32876083 original size:16 final size:16
Alignment explanation
Indices: 32876058--32876089 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32876048 AAATACCCCT
*
32876058 AGTTTTTAAAATTACC
1 AGTTTGTAAAATTACC
32876074 AGTTTGTAAAATTACC
1 AGTTTGTAAAATTACC
32876090 GAAGTACCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (16 bp):
AGTTTGTAAAATTACC
Found at i:32876106 original size:27 final size:26
Alignment explanation
Indices: 32876076--32876393 Score: 298
Period size: 27 Copynumber: 11.8 Consensus size: 26
32876066 AAATTACCAG
*
32876076 TTTGTAAAATTACCGAAGTACCTCCGA
1 TTTGTAAAATTACCGAAATACC-CCGA
*
32876103 TTTGTAAAATTACC-AAAGTACCCCCAA
1 TTTGTAAAATTACCGAAA-TA-CCCCGA
*
32876130 TTTGTAAAATTACCGAAATATCCCCAA
1 TTTGTAAAATTACCGAAATA-CCCCGA
* ***
32876157 TTTGTAAAATTACCAAAATACCATTA
1 TTTGTAAAATTACCGAAATACCCCGA
* ** *
32876183 GTTTGCAAAATTATTGAAATACCCTCAA
1 -TTTGTAAAATTACCGAAATACCC-CGA
**
32876211 TTTGTAAAATTACTAAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCC-CGA
* * *
32876238 TTTGTACAATTATCGAAACACCCTCGA
1 TTTGTAAAATTACCGAAATACCC-CGA
* * *
32876265 TTTATAAAATTACCAAAACACCCTCGA
1 TTTGTAAAATTACCGAAATACCC-CGA
*
32876292 TTTGTAAAATTACCGAAAT-CCCTCAA
1 TTTGTAAAATTACCGAAATACCC-CGA
* *
32876318 TTTGTAAAATTACCAAAATACCCTCAA
1 TTTGTAAAATTACCGAAATACCC-CGA
*
32876345 TTTGTAAAATTACCGAAACAACCCCGA
1 TTTGTAAAATTACCGAAA-TACCCCGA
*
32876372 TTTGTAAAATTATCGAAATACC
1 TTTGTAAAATTACCGAAATACC
32876394 TTTGTAGTGT
Statistics
Matches: 247, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
26 32 0.13
27 205 0.83
28 10 0.04
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (26 bp):
TTTGTAAAATTACCGAAATACCCCGA
Found at i:32876160 original size:54 final size:54
Alignment explanation
Indices: 32876076--32876393 Score: 374
Period size: 54 Copynumber: 5.9 Consensus size: 54
32876066 AAATTACCAG
* * * *
32876076 TTTGTAAAATTACCGAAGTA-CCTCCGATTTGTAAAATTACCAAAGTACCCCCAA
1 TTTGTAAAATTACCGAAATACCCT-CAATTTGTAAAATTACCAAAATACCCTCAA
* * *
32876130 TTTGTAAAATTACCGAAATATCCC-CAATTTGTAAAATTACCAAAATACCATTAG
1 TTTGTAAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCTCAA
* ** * *
32876184 TTTGCAAAATTATTGAAATACCCTCAATTTGTAAAATTACTAAAATACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAA
* * * * * * *
32876238 TTTGTACAATTATCGAAACACCCTCGATTTATAAAATTACCAAAACACCCTCGA
1 TTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAA
32876292 TTTGTAAAATTACCGAAAT-CCCTCAATTTGTAAAATTACCAAAATACCCTCAA
1 TTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAA
* * * *
32876345 TTTGTAAAATTACCGAAACAACCC-CGATTTGTAAAATTATCGAAATACC
1 TTTGTAAAATTACCGAAA-TACCCTCAATTTGTAAAATTACCAAAATACC
32876394 TTTGTAGTGT
Statistics
Matches: 225, Mismatches: 34, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
53 51 0.23
54 169 0.75
55 3 0.01
56 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAA
Found at i:32876404 original size:27 final size:27
Alignment explanation
Indices: 32876374--32876462 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
32876364 AACCCCGATT
* *
32876374 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
32876401 TGTAAAATTACCAAAATACCCTTGCAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
32876428 TGTAAAATGACCGATATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
32876455 GGTAAAAT
1 TGTAAAAT
32876463 GTCTATTTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:32881643 original size:34 final size:34
Alignment explanation
Indices: 32881600--32881666 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
32881590 TCACCAGTTT
32881600 TTCTAGAATCTTTTTAATTTATCTATTAGAAATA
1 TTCTAGAATCTTTTTAATTTATCTATTAGAAATA
32881634 TTCTAGAATCTTTTTAATTTATCTATTAGAAAT
1 TTCTAGAATCTTTTTAATTTATCTATTAGAAAT
32881667 CTTAGCTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (34 bp):
TTCTAGAATCTTTTTAATTTATCTATTAGAAATA
Found at i:32885446 original size:21 final size:21
Alignment explanation
Indices: 32885409--32885449 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32885399 ATTTCTACCA
*
32885409 ATACAACTCCAAGTTCTATCG
1 ATACAACTCCAACTTCTATCG
32885430 ATACAAC-CCAGACTTCTATC
1 ATACAACTCCA-ACTTCTATC
32885450 AGTATAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.34, C:0.32, G:0.07, T:0.27
Consensus pattern (21 bp):
ATACAACTCCAACTTCTATCG
Found at i:32886237 original size:5 final size:5
Alignment explanation
Indices: 32886227--32886258 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
32886217 AAAATCTCTG
32886227 TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
32886259 TTTCCCACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:32894500 original size:47 final size:47
Alignment explanation
Indices: 32894288--32894580 Score: 273
Period size: 47 Copynumber: 6.2 Consensus size: 47
32894278 TTTCGATGCT
* * * * ***
32894288 GATGCCATATCCCAAATATGGTCTGACACTGGCTCTCATAATGATTTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-AATGAGGCC
* * * * **
32894336 GATGCCATATCCCAGATATGGTCTTACACTGGCTCACACATCGAGGGT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAT-GAGGCC
* * * * *** * * *
32894384 GACGCAATG-CCCAGATATGGTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAT-GAGGCC
32894431 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAATGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAATGAGGCC
* * *
32894478 GATACCATGTCCCAGACATGGTCTTACACAGGCTCTCAAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAATGAGGCC
* * * * *
32894525 AATGCCATGTCCTAAACATGGTCTTACACAGGCTCTCAAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAATGAGGCC
32894572 GATGCCATG
1 GATGCCATG
32894581 CCACCAACCT
Statistics
Matches: 206, Mismatches: 37, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
47 137 0.67
48 69 0.33
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAATGAGGCC
Found at i:32896112 original size:16 final size:16
Alignment explanation
Indices: 32896070--32896114 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
32896060 CAAAGATAAC
32896070 AAGAAA-ACCAAG-TA
1 AAGAAATACCAAGATA
32896084 AAGAAAT-CCAAGATA
1 AAGAAATACCAAGATA
*
32896099 GAGAAATACCAAGATA
1 AAGAAATACCAAGATA
32896115 CGATACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 11 0.41
15 8 0.30
16 8 0.30
ACGTcount: A:0.60, C:0.13, G:0.16, T:0.11
Consensus pattern (16 bp):
AAGAAATACCAAGATA
Found at i:32899558 original size:48 final size:48
Alignment explanation
Indices: 32899502--32899881 Score: 315
Period size: 48 Copynumber: 8.0 Consensus size: 48
32899492 CATTTTGATT
* * *
32899502 CCGATGCCATTTCCCAGATATGGTCTTACACTAGCTCTCATAATAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAATG
* * * ** * *
32899550 CCGATGCCATATCCCAGATATGGTCTTACACTGGCTCACA-GGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT-AATG
* * * * * * * *
32899598 CCGGTGCCATGTCTCAGACATGGGCTTACACCAGCTCTCGT-CTCACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT-AATG
* * * *
32899646 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCCCA-AAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAAT-G
* * *
32899693 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCA-AAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAAT-G
* * * * * *
32899740 TCGATACCAAGTCCCAAACATGGTCTTACACTAGCACACAT-ATCAAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT-AATG
** ** * *
32899788 ATGATGCCATGTTTCAAACATGGTCTTACACTGGCTCACATAATAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAATG
* *
32899836 CAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAA
32899882 AAGTGCCTCG
Statistics
Matches: 267, Mismatches: 57, Indels: 16
0.79 0.17 0.05
Matches are distributed among these distances:
46 1 0.00
47 80 0.30
48 184 0.69
49 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAATAATG
Found at i:32899847 original size:190 final size:191
Alignment explanation
Indices: 32899502--32899872 Score: 444
Period size: 190 Copynumber: 1.9 Consensus size: 191
32899492 CATTTTGATT
* * * *
32899502 CCGATGCCATTTCCCAGATATGGTCTTACACTAGCTCTCATAATAATGCCGATGCCATATCCCAG
1 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAATAATGCCGATACCATATCCCAA
* * * * * * * * *
32899567 ATATGGTCTTACACTGGCTCACAGGTCGAGGCCGGTGCCATGTCTCAGACATGGGCTTACACCAG
66 ACATGGTCTTACACTAGCACACAGATCAAAGACGATGCCATGTCTCAAACATGGGCTTACACCAG
* * * * *
32899632 CTCTCGTCTCACTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCCCAAATGTGG
131 CTCACATATCAATGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCCCAAATGTGG
* *
32899693 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCA-AAT-GTGGTCGATACCA-AGTCCC
1 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAATAAT-GCCGATACCATA-TCCC
* * * * *
32899755 AAACATGGTCTTACACTAGCACACATATCAAAGATGATGCCATGTTTCAAACATGGTCTTACACT
64 AAACATGGTCTTACACTAGCACACAGATCAAAGACGATGCCATGTCTCAAACATGGGCTTACACC
* *
32899820 GGCTCACATAAT-AATGCAGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
129 AGCTCACAT-ATCAATGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
32899873 ACATAATAAA
Statistics
Matches: 150, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
189 2 0.01
190 109 0.73
191 39 0.26
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (191 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAATAATGCCGATACCATATCCCAA
ACATGGTCTTACACTAGCACACAGATCAAAGACGATGCCATGTCTCAAACATGGGCTTACACCAG
CTCACATATCAATGCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCCCAAATGTGG
Found at i:32905436 original size:13 final size:13
Alignment explanation
Indices: 32905418--32905444 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32905408 TTGTCCTTGA
32905418 CTTCGAAGAGGAC
1 CTTCGAAGAGGAC
32905431 CTTCGAAGAGGAC
1 CTTCGAAGAGGAC
32905444 C
1 C
32905445 AAGGCATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.26, G:0.30, T:0.15
Consensus pattern (13 bp):
CTTCGAAGAGGAC
Found at i:32909534 original size:46 final size:46
Alignment explanation
Indices: 32909484--32909659 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
32909474 TGGTTGAGCA
*
32909484 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
32909530 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
32909577 TCCGAACTCGTTGGGTTGAGTCAGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
32909623 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32909660 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.59
47 27 0.26
48 2 0.02
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:32909640 original size:93 final size:93
Alignment explanation
Indices: 32909481--32909652 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
32909471 GGATGGTTGA
* * * *
32909481 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
32909546 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
32909574 GCATCCGAACTCGTTGGGTTGAGTCAGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
32909639 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
32909653 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:32917874 original size:25 final size:26
Alignment explanation
Indices: 32917815--32917884 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 26
32917805 CTCTTTTAAT
*
32917815 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTAGGGCAAAGCCCTTTTCTGATA
* * *
32917840 AATTATGGCAAAGCCCTTTTC-GGTA
1 AACTAGGGCAAAGCCCTTTTCTGATA
*
32917865 TACTAGGGCAAAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
32917885 TGCACTTCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (26 bp):
AACTAGGGCAAAGCCCTTTTCTGATA
Found at i:32921625 original size:29 final size:29
Alignment explanation
Indices: 32921583--32921638 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
32921573 TCAACATATA
*
32921583 CTGGGTCGAAGCCTTTTGTTAAACGGTTT
1 CTGGGCCGAAGCCTTTTGTTAAACGGTTT
32921612 CTGGGCCGAAGCCTTTTGTTAAACGGT
1 CTGGGCCGAAGCCTTTTGTTAAACGGT
32921639 ATGGCCCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.34
Consensus pattern (29 bp):
CTGGGCCGAAGCCTTTTGTTAAACGGTTT
Found at i:32921875 original size:25 final size:25
Alignment explanation
Indices: 32921847--32921917 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
32921837 CTCTTTTAAT
32921847 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
32921872 AACTGGGGCACAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
32921897 AACT-GGGCAAAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
32921918 CACTTCAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 15 0.37
25 26 0.63
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:32922006 original size:11 final size:11
Alignment explanation
Indices: 32921972--32922024 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
32921962 TACATCATAG
*
32921972 CATATCATGTG
1 CATATCATGTA
* *
32921983 CATGTCAT-AA
1 CATATCATGTA
32921993 CATATCATGTA
1 CATATCATGTA
*
32922004 CATATCAGGT-
1 CATATCATGTA
32922014 CATATCATGTA
1 CATATCATGTA
32922025 TATCAATATC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (11 bp):
CATATCATGTA
Found at i:32926799 original size:63 final size:63
Alignment explanation
Indices: 32926684--32926803 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
32926674 ATGATGGGGC
* *** * *
32926684 ATGTTGTCGTGCTTGTGTAAAATAAACTGGTGTTGAATATGTTGATGAAGGGAATGATTATGT
1 ATGTTGTAGTGCTTGTGTAAAATAAACTGGAACTAAATATGATGATGAAGGGAATGATTATGT
* *
32926747 ATGTTGTAGTGGTTGTGTAAAATAAACTGGAACTAAATGTGATGAT-ACAGGGAATGA
1 ATGTTGTAGTGCTTGTGTAAAATAAACTGGAACTAAATATGATGATGA-AGGGAATGA
32926804 GTGTGTGTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 1 0.02
63 47 0.98
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (63 bp):
ATGTTGTAGTGCTTGTGTAAAATAAACTGGAACTAAATATGATGATGAAGGGAATGATTATGT
Found at i:32942947 original size:6 final size:6
Alignment explanation
Indices: 32942938--32942973 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
32942928 AATAATAAGG
* *
32942938 GGTGGT GGTGGT GGTGAT GGTGAT GGTGAT GGTGAT
1 GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT
32942974 AGTAGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.11, C:0.00, G:0.56, T:0.33
Consensus pattern (6 bp):
GGTGAT
Found at i:32945574 original size:14 final size:15
Alignment explanation
Indices: 32945548--32945588 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
32945538 ATGGGATGAA
*
32945548 AATAAATTTTTAATT
1 AATAAAATTTTAATT
32945563 AA-AAAATTTTAATT
1 AATAAAATTTTAATT
32945577 AATTAAAATTTT
1 AA-TAAAATTTT
32945589 CAAACCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 13 0.57
15 2 0.09
16 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATAAAATTTTAATT
Found at i:32946519 original size:30 final size:30
Alignment explanation
Indices: 32946444--32946527 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
32946434 GGGGTGGTGG
* * * *
32946444 AGTGTGGCTAGTGGAATAGGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTAGAGCA
32946474 AGTGTGGCTAGTGGAGTTGGTGGTAGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTAGAGCA
32946504 AGTGTGGCTAGTGGAGTTGGTGGT
1 AGTGTGGCTAGTGGAGTTGGTGGT
32946528 GGCAAAGGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.20, C:0.06, G:0.46, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTAGAGCA
Found at i:32947442 original size:22 final size:21
Alignment explanation
Indices: 32947397--32947438 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
32947387 AAATTAATCT
32947397 TTAAATTTTAAAACATTTTAA
1 TTAAATTTTAAAACATTTTAA
*
32947418 TTAAATTTTTAAA-ATTTTAA
1 TTAAATTTTAAAACATTTTAA
32947438 T
1 T
32947439 ATTATGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAATTTTAAAACATTTTAA
Found at i:32951482 original size:3 final size:3
Alignment explanation
Indices: 32951468--32951497 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
32951458 ACTTTTGTAC
*
32951468 TCA TCA TAA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
32951498 CCATGGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:32952326 original size:52 final size:52
Alignment explanation
Indices: 32952269--32952368 Score: 200
Period size: 52 Copynumber: 1.9 Consensus size: 52
32952259 TTAATTCTTA
32952269 AATTTAGAATTCATTAAGGTATAAAATTATGTCATGAAAATTATTTAATAAT
1 AATTTAGAATTCATTAAGGTATAAAATTATGTCATGAAAATTATTTAATAAT
32952321 AATTTAGAATTCATTAAGGTATAAAATTATGTCATGAAAATTATTTAA
1 AATTTAGAATTCATTAAGGTATAAAATTATGTCATGAAAATTATTTAA
32952369 AAATGTTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (52 bp):
AATTTAGAATTCATTAAGGTATAAAATTATGTCATGAAAATTATTTAATAAT
Found at i:32952372 original size:25 final size:25
Alignment explanation
Indices: 32952291--32952372 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 25
32952281 ATTAAGGTAT
32952291 AAAATTATGTCATGAAAATTATTTA
1 AAAATTATGTCATGAAAATTATTTA
* * * * **
32952316 ATAATAAT-TTA-GAATTCATTAAGGTA
1 AAAATTATGTCATGAA--AATT-ATTTA
32952342 TAAAATTATGTCATGAAAATTATTTA
1 -AAAATTATGTCATGAAAATTATTTA
32952368 AAAAT
1 AAAAT
32952373 GTTATTATCA
Statistics
Matches: 39, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
23 3 0.08
24 2 0.05
25 14 0.36
26 6 0.15
27 9 0.23
28 2 0.05
29 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.39
Consensus pattern (25 bp):
AAAATTATGTCATGAAAATTATTTA
Found at i:32953140 original size:14 final size:14
Alignment explanation
Indices: 32953121--32953164 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
32953111 CAATATTTTA
32953121 TTTTTATTTAAAAT
1 TTTTTATTTAAAAT
32953135 TTTTTATTT-AAAT
1 TTTTTATTTAAAAT
* *
32953148 TTAATTATATAAAAT
1 TT-TTTATTTAAAAT
32953163 TT
1 TT
32953165 AGATTAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 6 0.23
14 14 0.54
15 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTTATTTAAAAT
Found at i:32953234 original size:18 final size:19
Alignment explanation
Indices: 32953213--32953252 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32953203 TAATATCGAT
32953213 AATTT-AAAATGTAA-TTAA
1 AATTTAAAAAT-TAATTTAA
32953231 AATTTAAAAATTAATTTAA
1 AATTTAAAAATTAATTTAA
32953250 AAT
1 AAT
32953253 AAAAGTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
AATTTAAAAATTAATTTAA
Found at i:32959612 original size:17 final size:18
Alignment explanation
Indices: 32959568--32959612 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
32959558 AAAACCCAAT
*
32959568 AAATG-TAAATGTTCGAC
1 AAATGATAAATGCTCGAC
*
32959585 AAATTAT-AATGCTCGAC
1 AAATGATAAATGCTCGAC
32959602 -AATGATAAATG
1 AAATGATAAATG
32959613 ATAAAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.22
17 17 0.74
18 1 0.04
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (18 bp):
AAATGATAAATGCTCGAC
Done.