Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 80 of 295
Found at i:23352025 original size:27 final size:27
Alignment explanation
Indices: 23351983--23352094 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
23351973 AGGAAGCGTC
*
23351983 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
23352010 CTGGTGGCTCTACCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
23352037 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
23352065 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
23352091 CTGG
1 CTGG
23352095 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:23352089 original size:54 final size:54
Alignment explanation
Indices: 23351983--23352094 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
23351973 AGGAAGCGTC
* *
23351983 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * **
23352037 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
23352091 CTGG
1 CTGG
23352095 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:23355683 original size:46 final size:46
Alignment explanation
Indices: 23355616--23355785 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 46
23355606 TGTAACCTGC
*
23355616 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGTTCGCAT
* * * * *
23355662 CCATAATTGAACTCAGACTCAACTCAACGAGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATG-TTCGCAT
* *** * **
23355708 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCAGATGTTCGCAT
23355755 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
23355786 TTCGGATGCC
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 66 0.66
47 34 0.34
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGTTCGCAT
Found at i:23355739 original size:93 final size:93
Alignment explanation
Indices: 23355624--23355795 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
23355614 GCCCATAAGT
*** *
23355624 GAACTCGGACTCAACTCAACGAGCTCAGGTGTTCGCATCCATAATTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
23355689 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* *
23355717 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
23355782 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
23355796 CAAACATCGT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:23355810 original size:46 final size:45
Alignment explanation
Indices: 23355621--23355810 Score: 127
Period size: 46 Copynumber: 4.1 Consensus size: 45
23355611 CCTGCCCATA
* * * *
23355621 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATG--CCCATACATCT
* * * * *
23355667 ATTGAACTCAGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATCT
* * * * * *
23355714 -CTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-A
1 AGT-GAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCATACATCT
*
23355760 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCGT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATC-T
23355806 AGTGA
1 AGTGA
23355811 CATGTCACTT
Statistics
Matches: 110, Mismatches: 24, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
44 10 0.09
45 2 0.02
46 65 0.59
47 29 0.26
49 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCT
Found at i:23358046 original size:15 final size:15
Alignment explanation
Indices: 23357998--23358073 Score: 84
Period size: 15 Copynumber: 5.1 Consensus size: 15
23357988 CTTTTATAAT
*
23357998 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
23358012 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
23358027 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
23358042 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
23358057 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
23358072 AA
1 AA
23358074 AAAAACCCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.58, C:0.14, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:23358073 original size:30 final size:30
Alignment explanation
Indices: 23357998--23358087 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
23357988 CTTTTATAAT
*
23357998 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
*
23358027 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATA
* * * * *
23358057 AAGAGATCCAGGATAAAAAAAACCCAAGATA
1 AAGAAACCCAGAAT-AAAGAAATCCAAGATA
23358088 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
29 9 0.18
30 27 0.55
31 11 0.22
32 2 0.04
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:23361087 original size:46 final size:46
Alignment explanation
Indices: 23361020--23361189 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
23361010 TGTAACCTGC
* *
23361020 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCAT
*
23361066 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGCATTCGC-A--T
* *** * * * *
23361112 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCAT
23361159 CCATAAGTGAACTCAGACTCAACTCAACGAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAG
23361190 TTCGGATGCC
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 60 0.60
47 29 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCAT
Found at i:23361140 original size:93 final size:93
Alignment explanation
Indices: 23361028--23361199 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
23361018 GCCCATAAGT
* *
23361028 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
23361093 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
23361121 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
23361186 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
23361200 CAAACATCCT
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:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:23361214 original size:46 final size:46
Alignment explanation
Indices: 23361071--23361214 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
23361061 CGCATCCATA
*
23361071 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * * * *
23361120 --CGAACTCGGACTCAACTCAACGAGTTCAGA--CATTTGCATCCAT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
23361163 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
23361210 AGTGA
1 AGTGA
23361215 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 32 0.43
47 27 0.36
48 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:23362940 original size:27 final size:26
Alignment explanation
Indices: 23362892--23362942 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
23362882 ACGAGGCTGC
*
23362892 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
23362918 CAGATATATGTGGCGAGGCCACCAG
1 CAGATAT-TGTGACGAAGCCACCAG
23362943 CCACGAGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23363206 original size:27 final size:27
Alignment explanation
Indices: 23363176--23363488 Score: 412
Period size: 27 Copynumber: 11.6 Consensus size: 27
23363166 AACACCCTAG
** * * *
23363176 GGGTAAAATGGTAATTTTATAAATTGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
23363203 GGGTAAAAC-GATAATTCTGTAAATCGA
1 GGGTAAAACAG-TAATTCTGTAAATCGA
*
23363230 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
23363257 GGGTAAAATAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
23363284 GGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
23363311 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
23363338 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
23363365 GGGTAAAACAATAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
23363392 GGGTACAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * * * *
23363419 GGGTAAAACTGAAATTTTATAAATCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
23363446 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
23363473 TGGTAAAACAGTAATT
1 GGGTAAAACAGTAATT
23363489 TTTTTAATTC
Statistics
Matches: 252, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 250 0.99
28 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTGTAAATCGA
Found at i:23363289 original size:81 final size:81
Alignment explanation
Indices: 23363176--23363505 Score: 466
Period size: 81 Copynumber: 4.1 Consensus size: 81
23363166 AACACCCTAG
* * *
23363176 GGGTAAAATGGTAATTTTATAAATTGAGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAACA
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACA
23363240 GTAATTTTGTAAATCGA
65 GTAATTTTGTAAATCGA
* * *
23363257 GGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAACAGTAATTCTGTCAATCGAGGGTAAAACAG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
23363322 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * * *
23363338 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTACAACGG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
23363403 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * *
23363419 GGGTAAAACT-GAAATTTTATAAATCAAGGGTAAAACAGTAATTCTGTAAATCGATGGTAAAACA
1 GGGTAAAA-TAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACA
* *
23363483 GTAATTTTTTTAATTCGA
65 GTAA-TTTTGTAAATCGA
23363501 GGGTA
1 GGGTA
23363506 CTTTGATAAT
Statistics
Matches: 223, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
81 205 0.92
82 18 0.08
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (81 bp):
GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAG
TAATTTTGTAAATCGA
Found at i:23363527 original size:27 final size:25
Alignment explanation
Indices: 23363490--23363574 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 25
23363480 ACAGTAATTT
*
23363490 TTTTAATTCGAGGGTACTTTGA-TAA
1 TTTTAATTCGAGGGTA-TTTCAGTAA
23363515 TTTTACATGTCGAGGGTATTTCAGTAA
1 TTTTA-AT-TCGAGGGTATTTCAGTAA
* *
23363542 TTTTGCAA-ACTGAGGGTATTTCGGTAA
1 TTTT--AATTC-GAGGGTATTTCAGTAA
23363569 TTTTAA
1 TTTTAA
23363575 AAATTGAGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
25 7 0.14
26 7 0.14
27 35 0.69
28 1 0.02
29 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (25 bp):
TTTTAATTCGAGGGTATTTCAGTAA
Found at i:23363571 original size:54 final size:53
Alignment explanation
Indices: 23363497--23363651 Score: 152
Period size: 54 Copynumber: 2.9 Consensus size: 53
23363487 TTTTTTTAAT
* ** *
23363497 TCGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTCAGTAATTTTGCAAA
1 TCGAGGGTACTTTGGTAATTTTACAAAT-GAGGGTATTTCAGTAATTTTACAAA
* * ** *
23363551 -CTGAGGGTA-TTTCGGTAATTTTAAAAATTGAGGATATTTGGGTAATTTTATAAA
1 TC-GAGGGTACTTT-GGTAATTTTACAAA-TGAGGGTATTTCAGTAATTTTACAAA
* * *
23363605 TCGGGGGTACTTTGGTAATTTTACAACTGGGGGTATTTCAGTAATTT
1 TCGAGGGTACTTTGGTAATTTTACAAATGAGGGTATTTCAGTAATTT
23363652 GGTAAATTAA
Statistics
Matches: 80, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
53 20 0.25
54 55 0.69
55 5 0.06
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (53 bp):
TCGAGGGTACTTTGGTAATTTTACAAATGAGGGTATTTCAGTAATTTTACAAA
Found at i:23363582 original size:27 final size:27
Alignment explanation
Indices: 23363526--23363651 Score: 114
Period size: 27 Copynumber: 4.7 Consensus size: 27
23363516 TTTACATGTC
* **
23363526 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTTCGGTAATTTTAAAAACT
*
23363553 GAGGGTATTTCGGTAATTTTAAAAATT
1 GAGGGTATTTCGGTAATTTTAAAAACT
* * *
23363580 GAGGATATTTGGGTAATTTTATAAA-T
1 GAGGGTATTTCGGTAATTTTAAAAACT
* *
23363606 CGGGGGTACTTT-GGTAATTTT-ACAACT
1 -GAGGGTA-TTTCGGTAATTTTAAAAACT
* *
23363633 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCGGTAATTT
23363652 GGTAAATTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
25 3 0.04
26 17 0.20
27 60 0.72
28 3 0.04
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.40
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTAAAAACT
Found at i:23363648 original size:26 final size:26
Alignment explanation
Indices: 23363499--23363651 Score: 112
Period size: 27 Copynumber: 5.7 Consensus size: 26
23363489 TTTTTAATTC
* **
23363499 GAGGGTACTTT-GATAATTTTACATGT
1 GAGGGTA-TTTCGGTAATTTTACAACT
* *
23363525 CGAGGGTATTTCAGTAATTTTGCAAACT
1 -GAGGGTATTTCGGTAATTTTAC-AACT
* *
23363553 GAGGGTATTTCGGTAATTTTAAAAATT
1 GAGGGTATTTCGGTAATTTT-ACAACT
* * * *
23363580 GAGGATATTTGGGTAATTTTATAAAT
1 GAGGGTATTTCGGTAATTTTACAACT
*
23363606 CGGGGGTACTTT-GGTAATTTTACAACT
1 -GAGGGTA-TTTCGGTAATTTTACAACT
* *
23363633 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCGGTAATTT
23363652 GGTAAATTAA
Statistics
Matches: 102, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
25 3 0.03
26 21 0.21
27 73 0.72
28 5 0.05
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (26 bp):
GAGGGTATTTCGGTAATTTTACAACT
Found at i:23364604 original size:45 final size:45
Alignment explanation
Indices: 23364488--23364594 Score: 169
Period size: 45 Copynumber: 2.4 Consensus size: 45
23364478 AATTCAGGGT
*
23364488 GTTACAGTGTAAGACCACGTATGGGACGTTGGCATCGATATATGTG
1 GTTAC-GTGTAAGACCACGTATGGGACGTTGGCATCAATATATGTG
* * *
23364534 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATATATGTG
1 GTTACGTGTAAGACCACGTATGGGACGTTGGCATCAATATATGTG
23364579 GTTACGTGTAAGACCA
1 GTTACGTGTAAGACCA
23364595 TGCTTGGGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
45 52 0.95
46 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (45 bp):
GTTACGTGTAAGACCACGTATGGGACGTTGGCATCAATATATGTG
Found at i:23376776 original size:46 final size:46
Alignment explanation
Indices: 23376683--23376806 Score: 196
Period size: 46 Copynumber: 2.7 Consensus size: 46
23376673 GAGATCTGAA
*
23376683 CTCGTTGAGTTGCGTTCCGAGTTCACTTATGGATGCAAGCATCCGAG
1 CTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAGCACCCGAG
* *
23376730 CTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGTGAA-CACCCGAG
1 CTCGTTGAGTTGCGTTCCGAGTTCATTATGGATG-CAAGCACCCGAG
23376776 CTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 CTCGTTGAGTTGCGTTCCGAGTTCATTATGG
23376807 GTGAAATTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
46 46 0.64
47 26 0.36
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (46 bp):
CTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAGCACCCGAG
Found at i:23382839 original size:26 final size:26
Alignment explanation
Indices: 23382810--23382862 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
23382800 TTTACAGTTT
23382810 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
23382836 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
23382862 T
1 T
23382863 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:23403453 original size:27 final size:27
Alignment explanation
Indices: 23403422--23403599 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
23403412 TAAATTGTAC
23403422 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23403449 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23403475 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23403503 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
23403531 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23403558 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23403585 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23403600 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23403536 original size:82 final size:81
Alignment explanation
Indices: 23403423--23403578 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
23403413 AAATTGTACA
*
23403423 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
23403487 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23403504 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
23403569 TGCGAGTTGA
65 TGCGAATTGA
23403579 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23403590 original size:82 final size:81
Alignment explanation
Indices: 23403419--23403599 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
23403409 GATTAAATTG
*
23403419 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
23403484 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23403500 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
23403564 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23403582 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23403600 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23411628 original size:27 final size:27
Alignment explanation
Indices: 23411597--23411774 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
23411587 TAAATTGTAC
23411597 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23411624 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23411650 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23411678 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
23411706 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23411733 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23411760 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23411775 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23411711 original size:82 final size:81
Alignment explanation
Indices: 23411598--23411753 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
23411588 AAATTGTACA
*
23411598 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
23411662 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23411679 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
23411744 TGCGAGTTGA
65 TGCGAATTGA
23411754 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23411765 original size:82 final size:81
Alignment explanation
Indices: 23411594--23411774 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
23411584 GATTAAATTG
*
23411594 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
23411659 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23411675 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
23411739 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23411757 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23411775 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23414005 original size:46 final size:49
Alignment explanation
Indices: 23413859--23414222 Score: 269
Period size: 46 Copynumber: 7.7 Consensus size: 49
23413849 TTTGTGTGCA
* * *
23413859 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ACTATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGCC
* * * * * *
23413905 AGTGTAAGTCCATGTCTGGGACATGGCATCGACATTGAGATG-AGAACT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* *
23413953 ACTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* *
23413999 AGTGTAAGA-CATGTCAGGGACAT-GCATCGG-CTACGAGATGT---GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGAGCC
* * * *
23414043 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACG-TATAG-AGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GTA-GAGCC
* * * **
23414091 AGTTTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTAAGAGGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-AGAGCC
* * * ** ** * *
23414141 AGTGTAAGACCATGTCTGGGACAGGGCGTCAGCCTCGATTTCAATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
23414190 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
23414223 ATTATACCCT
Statistics
Matches: 259, Mismatches: 41, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
44 13 0.05
45 18 0.07
46 66 0.25
47 29 0.11
48 56 0.22
49 37 0.14
50 39 0.15
51 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
Found at i:23414100 original size:48 final size:48
Alignment explanation
Indices: 23413859--23414223 Score: 225
Period size: 48 Copynumber: 7.7 Consensus size: 48
23413849 TTTGTGTGCA
* *
23413859 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACACTAT-GA-GAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-GTATAGAGGTGTC
* * * * *
23413904 TAGTGTAAGTCCATGTCTGGGACATGGCATC-G-ACAT-TGAGATGAGAAC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGAGGTG-TC
* * ** * *
23413952 TACTGTAAGA-CATGTCTGGGACAT-GCATCAGC-C-TCGAGATGTAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGT--GTC
* *
23413999 AGTGTAAGA-CATGTCAGGGACAT-GCATCGGCTACG---AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTATAGAGGTGTC
23414043 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
* *
23414091 AGTTTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTAAGAG-GT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-G--AG-GTGTC
* * * * *
23414141 AGTGTAAGACCATGTCTGGGACAGGGCGTCAGCCTCGATTTCA-A--TAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCACG-TAT-AGAGGT-GTC
23414190 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
23414224 TTATACCCTA
Statistics
Matches: 263, Mismatches: 26, Indels: 58
0.76 0.07 0.17
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 20 0.08
46 64 0.24
47 32 0.12
48 66 0.25
49 30 0.11
50 27 0.10
51 8 0.03
52 2 0.01
53 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
Found at i:23415238 original size:28 final size:28
Alignment explanation
Indices: 23415186--23415239 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
23415176 CACGGGCTAA
* *
23415186 GACACGGGCGTGTCGAGGCCGTGTGAGG
1 GACACGGGCGTGTCCAGGCCATGTGAGG
23415214 GACACGGGCGTGTGCCA-GCCATGTGA
1 GACACGGGCGTGT-CCAGGCCATGTGA
23415240 AATCCCCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.17, C:0.24, G:0.44, T:0.15
Consensus pattern (28 bp):
GACACGGGCGTGTCCAGGCCATGTGAGG
Found at i:23418733 original size:43 final size:42
Alignment explanation
Indices: 23418672--23418836 Score: 122
Period size: 43 Copynumber: 3.9 Consensus size: 42
23418662 CAACGCGAAC
23418672 GTCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACATGTAATCACATATCGATGCCA-T
* * * *
23418715 GTCCCAGATAGGGTCTTACACG-AA-CTCATATACGTTGCCGAT
1 GTCCCAGACAGGGTCTTACATGTAATCACATAT-CGATGCC-AT
** * * *
23418757 GTCCCAGACATAGTCTTACATGTAAATCATAAATCGATGCCAAC
1 GTCCCAGACAGGGTCTTACATGT-AATCACATATCGATGCC-AT
* * * *
23418801 GTCTCAGGC-GTGGTCTTACACGCAATCACATATCGA
1 GTCCCAGACAG-GGTCTTACATGTAATCACATATCGA
23418837 AATCCTATGT
Statistics
Matches: 93, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
41 6 0.06
42 27 0.29
43 30 0.32
44 26 0.28
45 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCACATATCGATGCCAT
Found at i:23419936 original size:13 final size:13
Alignment explanation
Indices: 23419918--23419942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23419908 ACAAACAATA
23419918 AAATTTTCACACG
1 AAATTTTCACACG
23419931 AAATTTTCACAC
1 AAATTTTCACAC
23419943 ATCAATTCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:23429980 original size:12 final size:14
Alignment explanation
Indices: 23429955--23429983 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23429945 ACTTCTATCC
23429955 TCTCTCATTCTTTT
1 TCTCTCATTCTTTT
23429969 TCTCTCATT-TTTT
1 TCTCTCATTCTTTT
23429982 TC
1 TC
23429984 ATTTCAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.66
Consensus pattern (14 bp):
TCTCTCATTCTTTT
Found at i:23436869 original size:43 final size:43
Alignment explanation
Indices: 23436817--23436900 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
23436807 TTGTAGAAAG
*
23436817 GAAACAAATCAATTGAAACAAAATCT-CAATCGAGAAACCTAGA
1 GAAACAAATCAAGTGAAACAAAAT-TACAATCGAGAAACCTAGA
* * * *
23436860 GAAAGAAATCTAGTGAAATAAAATTACAATTGAGAAACCTA
1 GAAACAAATCAAGTGAAACAAAATTACAATCGAGAAACCTA
23436901 TTAGAAAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.54, C:0.14, G:0.13, T:0.19
Consensus pattern (43 bp):
GAAACAAATCAAGTGAAACAAAATTACAATCGAGAAACCTAGA
Found at i:23439869 original size:17 final size:15
Alignment explanation
Indices: 23439832--23439862 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23439822 GTGTAGCATG
23439832 GTTTAATGAAATAGA
1 GTTTAATGAAATAGA
23439847 GTTTAATGAAATAGA
1 GTTTAATGAAATAGA
23439862 G
1 G
23439863 CGTTTAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (15 bp):
GTTTAATGAAATAGA
Found at i:23451261 original size:16 final size:16
Alignment explanation
Indices: 23451242--23451273 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23451232 TCTCTTCCAG
23451242 TCCACATCTTTTCCTT
1 TCCACATCTTTTCCTT
23451258 TCCACATCTTTTCCTT
1 TCCACATCTTTTCCTT
23451274 CATCAGCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.38, G:0.00, T:0.50
Consensus pattern (16 bp):
TCCACATCTTTTCCTT
Found at i:23453127 original size:7 final size:7
Alignment explanation
Indices: 23453086--23453125 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
23453076 AAGTTGCGAA
23453086 TGCCTAT
1 TGCCTAT
23453093 TGCCTAT
1 TGCCTAT
23453100 TGCCTAT
1 TGCCTAT
23453107 TGCCTAT
1 TGCCTAT
*
23453114 TGCCTGT
1 TGCCTAT
23453121 TGCCT
1 TGCCT
23453126 GTGCCGGACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.10, C:0.30, G:0.17, T:0.42
Consensus pattern (7 bp):
TGCCTAT
Found at i:23460682 original size:54 final size:55
Alignment explanation
Indices: 23460589--23460692 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 55
23460579 GAAATGATGA
*
23460589 AATGGAGAAACATGAAACATTGGGAAATGATTAAAGTTTTCTCCAAAATTAAAAT
1 AATGGAGAAACATGAAACATTGGGAAATGAATAAAGTTTTCTCCAAAATTAAAAT
* ***
23460644 AATGGAG-AA-ATGAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATT
1 AATGGAGAAACATGAAA-CATTGGGAAATGAATAAAGTTTTCTCCAAAATT
23460693 GAAGTGAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 6 0.14
54 30 0.70
55 7 0.16
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (55 bp):
AATGGAGAAACATGAAACATTGGGAAATGAATAAAGTTTTCTCCAAAATTAAAAT
Found at i:23460708 original size:6 final size:6
Alignment explanation
Indices: 23460697--23460723 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23460687 AAAATTGAAG
23460697 TGAAAA TGAAAA TGAAAA TGAAAA TGA
1 TGAAAA TGAAAA TGAAAA TGAAAA TGA
23460724 GAAACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.19
Consensus pattern (6 bp):
TGAAAA
Found at i:23479002 original size:20 final size:20
Alignment explanation
Indices: 23478963--23479002 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
23478953 CTAAAAGAAA
23478963 GAAATCGAAATTAGATCGAGG
1 GAAATCGAAATTA-ATCGAGG
23478984 GAAATCGAAAGTT-ATCGAG
1 GAAATCGAAA-TTAATCGAG
23479003 TAATCGATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 10 0.56
22 2 0.11
ACGTcount: A:0.42, C:0.10, G:0.28, T:0.20
Consensus pattern (20 bp):
GAAATCGAAATTAATCGAGG
Found at i:23496849 original size:43 final size:43
Alignment explanation
Indices: 23496783--23496939 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
23496773 AGCTAGTATA
*
23496783 ATGCCAATGTCCCAAACATGGTCTTACATGTAA-TCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAGTCAAATAT-G
** * *
23496826 ATGCCGCTGTCCCAGACAGGGTCTTACACG-AAGTCAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAGTCAAATATG
* *
23496868 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAGGT-TG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAGTCA-A-ATATG
* *
23496912 ATGCTAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
23496940 CAAATACACA
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 29 0.30
43 38 0.39
44 29 0.30
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAAGTCAAATATG
Found at i:23506985 original size:43 final size:43
Alignment explanation
Indices: 23506905--23507032 Score: 145
Period size: 42 Copynumber: 3.0 Consensus size: 43
23506895 AGCTCGTACA
* * * *
23506905 ATGCTAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
23506948 ATGCC-ACTGTCCTAGAC-TGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACAT-GGTCTTACACGAAATCAAATATCG
* * *
23506990 ATGCCAACGTCCCAGACATGGTCTTACACAAAAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
23507033 GATCCTATGT
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 36 0.50
43 36 0.50
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:23508304 original size:26 final size:26
Alignment explanation
Indices: 23508273--23508325 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23508263 ATTTTAGAAG
23508273 TTCCACTTAAACCCTTAAATATTTAT
1 TTCCACTTAAACCCTTAAATATTTAT
23508299 TTCCACTTAAACCCTTAAATATTTAT
1 TTCCACTTAAACCCTTAAATATTTAT
23508325 T
1 T
23508326 AACAAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (26 bp):
TTCCACTTAAACCCTTAAATATTTAT
Found at i:23512890 original size:48 final size:49
Alignment explanation
Indices: 23512727--23512948 Score: 176
Period size: 50 Copynumber: 4.6 Consensus size: 49
23512717 CCATCAAGTT
* * * * *
23512727 GATGCCATGTCCCAGACATGGTCTTACACTGACTA--TCAAAATCGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAAC-ACCTCTATATCG-TGCC
* * * *
23512776 GACGCCGTGTCCCAAACATGGTCTTACACTAGC-TCTCATATATCTGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAACACCTC-TATATC-GTGCC
* *
23512826 GATGCTATGTCTCAAACATGGTCTTACACTAACACCTCTATA-CGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAACACCTCTATATCGTGCC
* * * * *
23512874 GATGCCATGTCCCAAACACGGTCTAACATTAACA---C-ATCTCGTAGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAACACCTCTATATCGT-GCC
*
23512920 GATG-CATGTCCCAGACAT-GTCTTACACTA
1 GATGCCATGTCCCAAACATGGTCTTACACTA
23512949 GCTTACATCT
Statistics
Matches: 141, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 6 0.04
48 34 0.24
49 31 0.22
50 39 0.28
51 4 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAACACCTCTATATCGTGCC
Found at i:23513047 original size:48 final size:47
Alignment explanation
Indices: 23512674--23513087 Score: 223
Period size: 46 Copynumber: 8.7 Consensus size: 47
23512664 CATAGGGTAA
* *
23512674 AATGCCGATACCATGTCCCAGACATGGTCTTACACTGGCT-T-ATCCATC
1 AATGCCGAT-GCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-C-TC
** * **
23512722 AA-GTTGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCAAAATC
1 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTCTC-ATCTC
* * * * * *
23512770 GAGGCCGACGCCGTGTCCCAAACATGGTCTTACACTAGCTCTCATATATC
1 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTC--ATCTC
** * * * *
23512820 TGTGCCGATGCTATGTCTCAAACATGGTCTTACACTAACAC-C-TCT-
1 AATGCCGATGC-ATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* * * * * *
23512865 ATACGTGCCGATGCCATGTCCCAAACACGGTCTAACATTA--ACACATCTC
1 A-A--TGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* *
23512914 -GTAGCTGATGCATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTC
1 AAT-GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTC
* * *
23512960 GAGGCCGATGCATATCCCAGACAT-GTCTTACACTAGCTCTCATCTC
1 AATGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* *
23513006 AATGCTGATGACATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-
1 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* *
23513051 AATGTGGCCGATGCATTTCCCAGGCAT-GTCTTACACT
1 AA--T-GCCGATGCATGTCCCAGACATGGTCTTACACT
23513088 GGCGCACAAA
Statistics
Matches: 290, Mismatches: 49, Indels: 56
0.73 0.12 0.14
Matches are distributed among these distances:
44 9 0.03
45 15 0.05
46 74 0.26
47 59 0.20
48 61 0.21
49 35 0.12
50 37 0.13
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
AATGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
Found at i:23513062 original size:94 final size:95
Alignment explanation
Indices: 23512677--23513087 Score: 303
Period size: 94 Copynumber: 4.3 Consensus size: 95
23512667 AGGGTAAAAT
* * *
23512677 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCT-T-ATCCATCAA-GTTGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-C-TCAATGCTGATG-CATGTCC
* * *
23512739 CAGACATGGTCTTACACTGACTATCAAAATCGAG
62 CAGACATGGTCTTACACTAACTCTCATAATCGAG
* * * * ** * *
23512773 GCCGACGCCGTGTCCCAAACATGGTCTTACACTAGCTCTCATATATCTGTGCCGATGCTATGTCT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTC--ATCTCAATGCTGATGC-ATGTCC
* * *
23512838 CAAACATGGTCTTACACTAACACCTC-T-ATACG-T
62 CAGACATGGTCTTACACTAAC-TCTCATAAT-CGAG
* * * * * * *
23512871 GCCGATGCCATGTCCCAAACACGGTCTAACATTA--ACACATCTC-GTAGCTGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTAGCTCTCATCTCAAT-GCTGATGCATGTCCCA
* *
23512933 GACAT-GTCTTACACTAGCT-TACAT-CTCGAG
64 GACATGGTCTTACACTAACTCT-CATAATCGAG
*
23512963 GCCGATG-CATATCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATGACATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATG-CATGTCCCAG
** *
23513027 ACATGGTCTTACACTGGCTCTCATAAT-GTG
65 ACATGGTCTTACACTAACTCTCATAATCGAG
* *
23513057 GCCGATG-CATTTCCCAGGCATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
23513088 GGCGCACAAA
Statistics
Matches: 250, Mismatches: 45, Indels: 42
0.74 0.13 0.12
Matches are distributed among these distances:
90 10 0.04
91 14 0.06
92 35 0.14
93 28 0.11
94 58 0.23
95 2 0.01
96 34 0.14
97 1 0.00
98 33 0.13
99 31 0.12
100 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATGCATGTCCCAGA
CATGGTCTTACACTAACTCTCATAATCGAG
Found at i:23519104 original size:2 final size:2
Alignment explanation
Indices: 23519091--23519127 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
23519081 CCAGTTTTAA
*
23519091 TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23519128 TTGTTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:23528795 original size:92 final size:92
Alignment explanation
Indices: 23528632--23528800 Score: 239
Period size: 92 Copynumber: 1.8 Consensus size: 92
23528622 CAGTATGAAC
* * * *
23528632 TGCCAGATCAGATAGTAGTACGTAGCGTAGCCAAGGTACATGCGGTATGGTGCAATGCAATAATT
1 TGCCAGATCAGATAATAGTACGTAGCGTAGCCAACGTACATGCGGTACGGTGCAATGCAATAATC
23528697 CACTATACCGATAGGTTGCAGTAAAAT
66 CACTATACCGATAGGTTGCAGTAAAAT
* * * * * *
23528724 TGCCAGTTCAGTTAATAGTATGTAGCGTAGCTAACGTACATGTGGTACGGTGCAATGCGATAATC
1 TGCCAGATCAGATAATAGTACGTAGCGTAGCCAACGTACATGCGGTACGGTGCAATGCAATAATC
*
23528789 CGCTATACCGAT
66 CACTATACCGAT
23528801 GTGTTGTCAT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (92 bp):
TGCCAGATCAGATAATAGTACGTAGCGTAGCCAACGTACATGCGGTACGGTGCAATGCAATAATC
CACTATACCGATAGGTTGCAGTAAAAT
Found at i:23531987 original size:26 final size:25
Alignment explanation
Indices: 23531959--23532059 Score: 184
Period size: 26 Copynumber: 4.0 Consensus size: 25
23531949 TCCCATCCTG
23531959 GAACATTTACCTAACCCATTATCAT
1 GAACATTTACCTAACCCATTATCAT
23531984 GGAACATTTACCTAACCCATTATCAT
1 -GAACATTTACCTAACCCATTATCAT
23532010 GAATCATTTACCTAACCCATTATCAT
1 GAA-CATTTACCTAACCCATTATCAT
23532036 GAACATTTACCTAACCCATTATCA
1 GAACATTTACCTAACCCATTATCA
23532060 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
25 24 0.32
26 50 0.68
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.32
Consensus pattern (25 bp):
GAACATTTACCTAACCCATTATCAT
Found at i:23532058 original size:51 final size:52
Alignment explanation
Indices: 23531962--23532059 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 52
23531952 CATCCTGGAA
23531962 CATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATTATCATGAAT
1 CATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATTATCATGAAT
23532014 CATTTACCTAACCCATTATCAT-GAACATTTACCTAACCCATTATCA
1 CATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATTATCA
23532060 ATTTGTATCA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 24 0.52
52 22 0.48
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.33
Consensus pattern (52 bp):
CATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATTATCATGAAT
Found at i:23539083 original size:26 final size:26
Alignment explanation
Indices: 23539053--23539156 Score: 199
Period size: 26 Copynumber: 4.0 Consensus size: 26
23539043 ATTCCCATCC
23539053 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
23539079 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
*
23539105 TGAAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
23539131 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
23539157 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:23543749 original size:23 final size:23
Alignment explanation
Indices: 23543668--23543753 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
23543658 CTAATTAGAG
*
23543668 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
23543690 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* *
23543710 TACGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
23543733 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
23543754 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
23 19 0.35
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:23544149 original size:15 final size:15
Alignment explanation
Indices: 23544124--23544181 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
23544114 TCATATATAT
23544124 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
23544140 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
23544155 AATAATTTCAATCAA
1 TATAAATTCAATCAA
23544170 TATAAATTCAAT
1 TATAAATTCAAT
23544182 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:23545419 original size:5 final size:5
Alignment explanation
Indices: 23545411--23545462 Score: 86
Period size: 5 Copynumber: 10.2 Consensus size: 5
23545401 TCTTTAGTTT
*
23545411 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATTAAA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A-TATA ATATA
23545462 A
1 A
23545463 AATATCTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 40 0.91
6 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:23545502 original size:8 final size:8
Alignment explanation
Indices: 23545418--23545513 Score: 53
Period size: 8 Copynumber: 12.1 Consensus size: 8
23545408 TTTATATAAT
23545418 ATAATATA
1 ATAATATA
23545426 AT-ATA-A
1 ATAATATA
23545432 TATAATATA
1 -ATAATATA
23545441 AT-ATA-A
1 ATAATATA
23545447 TATAAT-TA
1 -ATAATATA
23545455 A-AATATA
1 ATAATATA
*
23545462 A-AATATCTTT
1 ATAATA---TA
*
23545472 ATTATATA
1 ATAATATA
*
23545480 ATAATAGA
1 ATAATATA
23545488 ATAATATA
1 ATAATATA
23545496 ATAATATA
1 ATAATATA
*
23545504 CTAAATATA
1 AT-AATATA
23545513 A
1 A
23545514 AAAAAATCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
6 5 0.07
7 18 0.26
8 33 0.49
9 7 0.10
10 2 0.03
11 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:23550258 original size:34 final size:34
Alignment explanation
Indices: 23550215--23550282 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
23550205 CTCATTCTTG
23550215 TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
1 TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
23550249 TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
1 TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
23550283 AGATTAGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (34 bp):
TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
Found at i:23552591 original size:26 final size:26
Alignment explanation
Indices: 23552555--23552645 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 26
23552545 TTATTATTTG
23552555 AAAATTATAAAAAAAATTTAAAAATT
1 AAAATTATAAAAAAAATTTAAAAATT
** *
23552581 AAAATTAT-AAAAAGTTTTATAAA-T
1 AAAATTATAAAAAAAATTTAAAAATT
* * *
23552605 AAAA-AATAAAAAATATATTAAAATTT
1 AAAATTATAAAAAAAAT-TTAAAAATT
*
23552631 AAAATTATATAAAAA
1 AAAATTATAAAAAAA
23552646 TTAATAATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
23 2 0.04
24 11 0.22
25 17 0.34
26 13 0.26
27 7 0.14
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (26 bp):
AAAATTATAAAAAAAATTTAAAAATT
Found at i:23552627 original size:18 final size:18
Alignment explanation
Indices: 23552606--23552665 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
23552596 TTTATAAATA
23552606 AAAAATAAAAAATATATT
1 AAAAATAAAAAATATATT
* * *
23552624 AAAATTTAAAATTATA-T
1 AAAAATAAAAAATATATT
* * *
23552641 AAAAATTAATAATATTTT
1 AAAAATAAAAAATATATT
*
23552659 AATAATA
1 AAAAATA
23552666 TTAAGTAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATAAAAAATATATT
Found at i:23552732 original size:18 final size:17
Alignment explanation
Indices: 23552707--23552740 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
23552697 TAATTCTCAT
23552707 AAATTTTTATAAAAATA
1 AAATTTTTATAAAAATA
23552724 AAATGTTTTATAAAAAT
1 AAAT-TTTTATAAAAAT
23552741 CTATTCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATTTTTATAAAAATA
Found at i:23555686 original size:21 final size:21
Alignment explanation
Indices: 23555637--23555677 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23555627 TATGAGATTT
* *
23555637 AATGATTGCTGATAGATTATA
1 AATGTTTGATGATAGATTATA
23555658 AATGTTTGATGATAG-TTATA
1 AATGTTTGATGATAGATTATA
23555678 CAAGTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATA
Found at i:23558830 original size:9 final size:9
Alignment explanation
Indices: 23558816--23558852 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23558806 TATAGTCTGA
23558816 TATTCGAAT
1 TATTCGAAT
23558825 TATTCGAAT
1 TATTCGAAT
* *
23558834 CATTCGAGT
1 TATTCGAAT
23558843 TATTCGAAT
1 TATTCGAAT
23558852 T
1 T
23558853 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:23558929 original size:18 final size:18
Alignment explanation
Indices: 23558903--23558937 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23558893 ATTCAAGTTG
*
23558903 ACTCGAATAACTTGATTA
1 ACTCGAATAACTCGATTA
*
23558921 ACTCTAATAACTCGATT
1 ACTCGAATAACTCGATT
23558938 CGTTTAATTC
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:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:23562711 original size:36 final size:36
Alignment explanation
Indices: 23562670--23562754 Score: 107
Period size: 36 Copynumber: 2.4 Consensus size: 36
23562660 AATAGTAAGT
*
23562670 TGTGCCCAACACTAGTTGGTAAAACCGAAAAATAGA
1 TGTGCCCAACACTAGTTAGTAAAACCGAAAAATAGA
* * * * *
23562706 TGTGCCCAACACTGGTTAGTATAACCGACAAATGGG
1 TGTGCCCAACACTAGTTAGTAAAACCGAAAAATAGA
*
23562742 TGTGCCCAGCACT
1 TGTGCCCAACACT
23562755 CCCGATACGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (36 bp):
TGTGCCCAACACTAGTTAGTAAAACCGAAAAATAGA
Found at i:23563496 original size:51 final size:51
Alignment explanation
Indices: 23563420--23563523 Score: 192
Period size: 51 Copynumber: 2.0 Consensus size: 51
23563410 TATTATTTGG
23563420 ATGCCCCTATACTTTTTCATTTTATTCAATTTAGTCCCTAAAATCAAAACT
1 ATGCCCCTATACTTTTTCATTTTATTCAATTTAGTCCCTAAAATCAAAACT
23563471 ATGCCCCTATACTTTTGT-ATTTTATTCAATTTAGTCCCTAAAATCAAAACT
1 ATGCCCCTATACTTTT-TCATTTTATTCAATTTAGTCCCTAAAATCAAAACT
23563522 AT
1 AT
23563524 CATAGTTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 51 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (51 bp):
ATGCCCCTATACTTTTTCATTTTATTCAATTTAGTCCCTAAAATCAAAACT
Found at i:23566863 original size:19 final size:20
Alignment explanation
Indices: 23566839--23566876 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23566829 ACTTTTTTCA
*
23566839 TTTTACTT-TCTCTCAAAAC
1 TTTTACTTCTCCCTCAAAAC
23566858 TTTTACTTCTCCCTCAAAA
1 TTTTACTTCTCCCTCAAAA
23566877 AATTTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTACTTCTCCCTCAAAAC
Found at i:23566878 original size:75 final size:74
Alignment explanation
Indices: 23566773--23566941 Score: 216
Period size: 74 Copynumber: 2.3 Consensus size: 74
23566763 CCTCAACCCC
* * * *
23566773 CTCTCAAACCCTTTTACTT-TCCCCTAAAAAATTTTACTTCTCCCCAAACTCTCAAAACTTTTTT
1 CTCTCAAA-ACTTTTACTTCTCCCCTAAAAAA-TTTAATTCTCCCCAAACCCCCAAAACTTTTTT
23566837 CATTTTACTTT
64 CATTTTACTTT
* * *
23566848 CTCTCAAAACTTTTACTTCT-CCCTCAAAAAATTTAATTCTCTCCGAACCCCCAAAACTTTTTTT
1 CTCTCAAAACTTTTACTTCTCCCCT-AAAAAATTTAATTCTCCCCAAACCCCCAAAACTTTTTTC
23566912 ATTTTACTTT
65 ATTTTACTTT
*
23566922 CTCCCTAAAACTTTTACTTC
1 CTCTC-AAAACTTTTACTTC
23566942 CCCAAACTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
74 54 0.65
75 29 0.35
ACGTcount: A:0.27, C:0.30, G:0.01, T:0.42
Consensus pattern (74 bp):
CTCTCAAAACTTTTACTTCTCCCCTAAAAAATTTAATTCTCCCCAAACCCCCAAAACTTTTTTCA
TTTTACTTT
Found at i:23566882 original size:20 final size:20
Alignment explanation
Indices: 23566840--23566888 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
23566830 CTTTTTTCAT
* **
23566840 TTTACTT-TCTCTCAAAACT
1 TTTACTTCTCCCTCAAAAAA
23566859 TTTACTTCTCCCTCAAAAAA
1 TTTACTTCTCCCTCAAAAAA
*
23566879 TTTAATTCTC
1 TTTACTTCTC
23566889 TCCGAACCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTACTTCTCCCTCAAAAAA
Found at i:23568423 original size:5 final size:5
Alignment explanation
Indices: 23568413--23568437 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23568403 GCTCTCAGAG
23568413 TCTCC TCTCC TCTCC TCTCC TCTCC
1 TCTCC TCTCC TCTCC TCTCC TCTCC
23568438 CTGCCTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
TCTCC
Found at i:23569373 original size:16 final size:16
Alignment explanation
Indices: 23569352--23569383 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23569342 TCATGAAGTC
23569352 GAATTGGCAATAAAGA
1 GAATTGGCAATAAAGA
23569368 GAATTGGCAATAAAGA
1 GAATTGGCAATAAAGA
23569384 AAGAAGTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.25, T:0.19
Consensus pattern (16 bp):
GAATTGGCAATAAAGA
Found at i:23572784 original size:23 final size:22
Alignment explanation
Indices: 23572758--23572801 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23572748 AATTTATAAT
*
23572758 TATAAAATATTAAAAAATAAAAA
1 TATAAAAT-TAAAAAAATAAAAA
23572781 TATAAAATTAAAAAAATAAAA
1 TATAAAATTAAAAAAATAAAA
23572802 CAACTCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
TATAAAATTAAAAAAATAAAAA
Found at i:23573233 original size:15 final size:15
Alignment explanation
Indices: 23573209--23573247 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
23573199 GCCCGTGAGT
23573209 GAAGGAGAAGAAAAA
1 GAAGGAGAAGAAAAA
* *
23573224 GAATGAGAAGAAGAA
1 GAAGGAGAAGAAAAA
23573239 GAAGGAGAA
1 GAAGGAGAA
23573248 TGAGAGGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.03
Consensus pattern (15 bp):
GAAGGAGAAGAAAAA
Found at i:23573233 original size:21 final size:21
Alignment explanation
Indices: 23573209--23573252 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
23573199 GCCCGTGAGT
*
23573209 GAAGGAGAAGAAAAAGAATGA
1 GAAGAAGAAGAAAAAGAATGA
**
23573230 GAAGAAGAAGAAGGAGAATGA
1 GAAGAAGAAGAAAAAGAATGA
23573251 GA
1 GA
23573253 GGGCGGGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (21 bp):
GAAGAAGAAGAAAAAGAATGA
Found at i:23573267 original size:5 final size:5
Alignment explanation
Indices: 23573257--23573282 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23573247 ATGAGAGGGC
23573257 GGGAA GGGAA GGGAA GGGAA GGGAA G
1 GGGAA GGGAA GGGAA GGGAA GGGAA G
23573283 AGAAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:23573739 original size:63 final size:63
Alignment explanation
Indices: 23573671--23573797 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
23573661 TTGGCATGTT
23573671 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
1 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
23573734 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
1 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
23573797 A
1 A
23573798 ATTTGGAATT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.54
Consensus pattern (63 bp):
ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
Found at i:23575385 original size:14 final size:14
Alignment explanation
Indices: 23575366--23575394 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23575356 GACAAATTCT
23575366 TTATAATGATACTA
1 TTATAATGATACTA
23575380 TTATAATGATACTA
1 TTATAATGATACTA
23575394 T
1 T
23575395 ATTTACCTGA
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:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
TTATAATGATACTA
Found at i:23576252 original size:33 final size:33
Alignment explanation
Indices: 23576210--23576301 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
23576200 TCTTTGGGTT
* * *
23576210 GTATCCACCGTAGTACAGCACTTCT-TCCGACCC
1 GTATCCACCGCAGTACAACACTCCTCTCCGA-CC
*
23576243 GTATCCACCGCAGTACAACACTCCTCTCGGACC
1 GTATCCACCGCAGTACAACACTCCTCTCCGACC
** **
23576276 GTATCCACTACAGTACTTCACTCCTC
1 GTATCCACCGCAGTACAACACTCCTC
23576302 CTGGGTCGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
33 46 0.92
34 4 0.08
ACGTcount: A:0.23, C:0.40, G:0.13, T:0.24
Consensus pattern (33 bp):
GTATCCACCGCAGTACAACACTCCTCTCCGACC
Found at i:23581267 original size:15 final size:17
Alignment explanation
Indices: 23581247--23581278 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
23581237 CCCTCTCTAT
23581247 TCTTTTT-GTTG-TTTC
1 TCTTTTTAGTTGCTTTC
23581262 TCTTTTTAGTTGCTTTC
1 TCTTTTTAGTTGCTTTC
23581279 AGCCGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.03, C:0.16, G:0.12, T:0.69
Consensus pattern (17 bp):
TCTTTTTAGTTGCTTTC
Found at i:23587900 original size:27 final size:27
Alignment explanation
Indices: 23587857--23587908 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
23587847 GATAATAGTC
* *
23587857 CATTTCTAGCTAAATCAAATTTATTGT
1 CATTTCTAGATAAATCAAATATATTGT
23587884 CATTTCTA-ATAATATCAAATATATT
1 CATTTCTAGATAA-ATCAAATATATT
23587909 AAAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.44
Consensus pattern (27 bp):
CATTTCTAGATAAATCAAATATATTGT
Found at i:23589244 original size:20 final size:19
Alignment explanation
Indices: 23589215--23589252 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
23589205 ATAGTCATGA
23589215 TTCATATTAAAAAAATGATC
1 TTCATATT-AAAAAATGATC
*
23589235 TTCATGTTAAAAAATGAT
1 TTCATATTAAAAAATGAT
23589253 AAAATTACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (19 bp):
TTCATATTAAAAAATGATC
Found at i:23589335 original size:21 final size:21
Alignment explanation
Indices: 23589309--23589348 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23589299 ATATAATTAT
23589309 AAAA-TTACACTTTCATTTTCA
1 AAAATTTACA-TTTCATTTTCA
*
23589330 AAAATTTATATTTCATTTT
1 AAAATTTACATTTCATTTT
23589349 TACTCTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATTTACATTTCATTTTCA
Found at i:23592311 original size:15 final size:15
Alignment explanation
Indices: 23592293--23592321 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23592283 TTATTTTTAA
23592293 TATATATATTTGAAG
1 TATATATATTTGAAG
23592308 TATATATATTTGAA
1 TATATATATTTGAA
23592322 AATATTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
TATATATATTTGAAG
Found at i:23602929 original size:16 final size:16
Alignment explanation
Indices: 23602910--23602940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23602900 CTTCTTCACT
23602910 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
23602926 TACTTACTTACTTAA
1 TACTCACTTACTTAA
23602941 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:23602946 original size:20 final size:20
Alignment explanation
Indices: 23602907--23602946 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23602897 AAACTTCTTC
* *
23602907 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
23602927 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
23602947 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:23603066 original size:5 final size:5
Alignment explanation
Indices: 23603056--23603088 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
23603046 TATAACTCGT
23603056 CTTAC CTTAC CTTAC CTTAC CTTAC CTTAC CTT
1 CTTAC CTTAC CTTAC CTTAC CTTAC CTTAC CTT
23603089 GATATTCTCT
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:0.18, C:0.39, G:0.00, T:0.42
Consensus pattern (5 bp):
CTTAC
Found at i:23603337 original size:55 final size:53
Alignment explanation
Indices: 23603150--23603401 Score: 203
Period size: 55 Copynumber: 4.8 Consensus size: 53
23603140 TGGGTACCTT
* * * * * * *
23603150 ACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-TAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTC
* *
23603199 ACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTC
* * *
23603252 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTC
* * *** * *
23603307 ATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTGA-GAAACCC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AACTC
* *
23603360 TACCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 -ACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTT
23603402 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
52 4 0.02
53 49 0.30
54 6 0.04
55 68 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTC
Found at i:23608217 original size:13 final size:14
Alignment explanation
Indices: 23608199--23608231 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
23608189 GGGCCTCATG
23608199 TTTTTG-TCATGTA
1 TTTTTGATCATGTA
23608212 TTTTTGTATCATGTA
1 TTTTTG-ATCATGTA
23608227 TTTTT
1 TTTTT
23608232 ATACCATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
15 12 0.67
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (14 bp):
TTTTTGATCATGTA
Found at i:23609033 original size:131 final size:129
Alignment explanation
Indices: 23608829--23609247 Score: 311
Period size: 131 Copynumber: 3.2 Consensus size: 129
23608819 TGGCAATCGT
* ** * * *
23608829 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTCC
1 GGAATCGTGCCCTATCGTGCTGGGTTGTGACTTCTCGTTTGCTCAAAACAATCAAATATCCCTCC
* * *
23608894 AAAATTTCACGCATGTCTT-CTAAAAATCATTTAAAACGAAGCCAATATTCGGTGATTGACAATT
66 AAAATTTCACGCATGT-TTACTAAAAATCATTCAAAACAAAG--AATATTCGATGATTGACAATT
23608958 CG
128 CG
* * * **
23608960 GGAATCATGCCCTATCGTGCTGGGTTGTGACTTCTCGTTTGCTCAAAACAATCGAATATTCCTTT
1 GGAATCGTGCCCTATCGTGCTGGGTTGTGACTTCTCGTTTGCTCAAAACAATCAAATATCCCTCC
*** * * * * * * * * *
23609025 AGGTTTTCACTCATGTTTATTAAAAATCCTTCAAAACAAAGGATGTTCGATGTTTGGCGATTTG
66 AAAATTTCACGCATGTTTACTAAAAATCATTCAAAACAAAGAATATTCGATGATTGACAATTCG
* * * * * * * * *
23609089 AGAATCGTGCCCTATCGTGCTGGGTTGTG-CTTTTTCATTCGCCCTAAACAATCGAAGATCCCTT
1 GGAATCGTGCCCTATCGTGCTGGGTTGTGAC-TTCTCGTTTGCTCAAAACAATCAAATATCCCTC
* * ** * * * * * ** * *
23609153 CGAAGTTTCATTCAGGTTTTCTAAAAACCCTTTAAAACGAAAGAAGTGCTCGATGTTTGGCAATT
65 CAAAATTTCACGCATGTTTACTAAAAATCATTCAAAAC-AAAGAA-TATTCGATGATTGACAATT
23609218 CGG
128 C-G
* *
23609221 GGAATAGAGCCCTATCGTGCTGGGTTG
1 GGAATCGTGCCCTATCGTGCTGGGTTG
23609248 CAATCTCCCG
Statistics
Matches: 230, Mismatches: 53, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
128 1 0.00
129 96 0.42
130 7 0.03
131 101 0.44
132 25 0.11
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (129 bp):
GGAATCGTGCCCTATCGTGCTGGGTTGTGACTTCTCGTTTGCTCAAAACAATCAAATATCCCTCC
AAAATTTCACGCATGTTTACTAAAAATCATTCAAAACAAAGAATATTCGATGATTGACAATTCG
Found at i:23609138 original size:129 final size:132
Alignment explanation
Indices: 23608953--23609247 Score: 325
Period size: 129 Copynumber: 2.3 Consensus size: 132
23608943 CGGTGATTGA
* * * * *
23608953 CAATTCGG-GAATCATGCCCTATCGTGCTGGGTTGTGACTTCTCGTTTGCTCAAAACAATCGAAT
1 CAATTCGGAGAATCGTGCCCTATCGTGCTGGGTTGTGACTTCTCATTCGCCCAAAACAATCGAAG
* * * * * * *
23609017 ATTCCTT-TAGGTTTTCACTCATGTTTAT-TAAAAATCCTTCAAAAC-AAAGGA-TGTTCGATGT
66 ATCCCTTCGAAG-TTTCACTCAGGTTT-TCTAAAAACCCTTCAAAACGAAAGAAGTGCTCGATGT
23609078 TTGG
129 TTGG
* * * *
23609082 CGATT-TGAGAATCGTGCCCTATCGTGCTGGGTTGTG-CTTTTTCATTCGCCCTAAACAATCGAA
1 CAATTCGGAGAATCGTGCCCTATCGTGCTGGGTTGTGAC-TTCTCATTCGCCCAAAACAATCGAA
* *
23609145 GATCCCTTCGAAGTTTCATTCAGGTTTTCTAAAAACCCTTTAAAACGAAAGAAGTGCTCGATGTT
65 GATCCCTTCGAAGTTTCACTCAGGTTTTCTAAAAACCCTTCAAAACGAAAGAAGTGCTCGATGTT
23609210 TGG
130 TGG
* * *
23609213 CAATTCGGGGAATAGAGCCCTATCGTGCTGGGTTG
1 CAATTCGGAGAATCGTGCCCTATCGTGCTGGGTTG
23609248 CAATCTCCCG
Statistics
Matches: 136, Mismatches: 23, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
128 3 0.02
129 84 0.62
130 7 0.05
131 17 0.12
132 25 0.18
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (132 bp):
CAATTCGGAGAATCGTGCCCTATCGTGCTGGGTTGTGACTTCTCATTCGCCCAAAACAATCGAAG
ATCCCTTCGAAGTTTCACTCAGGTTTTCTAAAAACCCTTCAAAACGAAAGAAGTGCTCGATGTTT
GG
Found at i:23622412 original size:30 final size:30
Alignment explanation
Indices: 23622378--23622447 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
23622368 ACCATCTCGC
23622378 ATGCGAACCCCCTTGCATGT-GAACCTCTAT
1 ATGCGAACCCCCTTGCATGTGGAACC-CTAT
*
23622408 ATGCGAAACCCCTTGCATGTGGAACCCTAT
1 ATGCGAACCCCCTTGCATGTGGAACCCTAT
*
23622438 ATACGAACCC
1 ATGCGAACCC
23622448 ATTTATATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 31 0.86
31 5 0.14
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (30 bp):
ATGCGAACCCCCTTGCATGTGGAACCCTAT
Found at i:23622838 original size:23 final size:21
Alignment explanation
Indices: 23622803--23622861 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
23622793 GAACCCAATA
* *
23622803 TGTATGTGTGAACCCTACATG
1 TGTATATGCGAACCCTACATG
*
23622824 TTGTGATATGCGAACCCTATATG
1 -TGT-ATATGCGAACCCTACATG
*
23622847 TGTATATGCAAACCC
1 TGTATATGCGAACCC
23622862 ATATGTGCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 11 0.34
22 6 0.19
23 15 0.47
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (21 bp):
TGTATATGCGAACCCTACATG
Found at i:23622865 original size:20 final size:20
Alignment explanation
Indices: 23622825--23622868 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
23622815 CCCTACATGT
*
23622825 TGTGATATGCGAACCCTATA
1 TGTGATATGCAAACCCTATA
23622845 TGTGTATATGCAAACCC-ATA
1 TGTG-ATATGCAAACCCTATA
23622865 TGTG
1 TGTG
23622869 CGAATCCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (20 bp):
TGTGATATGCAAACCCTATA
Found at i:23623576 original size:48 final size:48
Alignment explanation
Indices: 23623505--23623600 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
23623495 CAAGATCACT
*
23623505 TCGATGATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
1 TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
23623553 TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
1 TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
23623601 GTCGGGAGTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
Found at i:23629932 original size:13 final size:13
Alignment explanation
Indices: 23629916--23629951 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
23629906 CAATGCTTTT
23629916 GAAAAGTGCTGCA
1 GAAAAGTGCTGCA
*
23629929 GAAAAGTGCTGTA
1 GAAAAGTGCTGCA
*
23629942 GAGAAGTGCT
1 GAAAAGTGCT
23629952 CTTGAGAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.33, T:0.19
Consensus pattern (13 bp):
GAAAAGTGCTGCA
Found at i:23640646 original size:3 final size:3
Alignment explanation
Indices: 23640638--23640889 Score: 142
Period size: 3 Copynumber: 82.3 Consensus size: 3
23640628 CTATTTTACC
* * *
23640638 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TGT ATC CTT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* ** * *
23640683 A-T ATT ATT ATC ATT -TCCT CCT ATT ATT ATT AACCT ATT ATT ATT CTT
1 ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT -A-TT ATT ATT ATT ATT
* *
23640730 ATT AGT A-T ATT ATT ATT -TCCT ATT CTT -TAT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT--T ATT ATT AT-T ATT ATT ATT ATT ATT
* *
23640775 ATT ATT ATT ATT CATGT ATAT ATT ATT ATT GTT ATT ATT TTT ATT ATT
1 ATT ATT ATT ATT -AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
23640823 AAT ATT CTT ATC GTT ACT ATT ATT TTT ATT CCTT -TT ATT AGTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT ATT
* *
23640869 ATC AAT A-T ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
23640890 CCACCGTATT
Statistics
Matches: 192, Mismatches: 37, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
2 12 0.06
3 159 0.83
4 18 0.09
5 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:23640746 original size:34 final size:35
Alignment explanation
Indices: 23640703--23640781 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 35
23640693 CATTTCCTCC
*
23640703 TATTATTATTAACCTATTA-TTATTCTTATTAGTA-
1 TATTATTATTAACCTATTATTTA-TATTATTAGTAT
* * *
23640737 TATTATTATT-TCCTATTCTTTATATTATTATTAT
1 TATTATTATTAACCTATTATTTATATTATTAGTAT
23640771 TATTATTATTA
1 TATTATTATTA
23640782 TTATTCATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 15 0.39
34 23 0.61
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (35 bp):
TATTATTATTAACCTATTATTTATATTATTAGTAT
Found at i:23640953 original size:7 final size:8
Alignment explanation
Indices: 23640938--23640965 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
23640928 GTCACCATTA
23640938 TATTTTTT
1 TATTTTTT
23640946 TATTTTTT
1 TATTTTTT
23640954 TATTTTTT
1 TATTTTTT
23640962 TATT
1 TATT
23640966 ATTACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TATTTTTT
Found at i:23641276 original size:14 final size:14
Alignment explanation
Indices: 23641227--23641278 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
23641217 TAATTTCAAA
23641227 TATTT-TTTTAGCT
1 TATTTATTTTAGCT
*
23641240 TATTTATTATT-TCT
1 TATTTATT-TTAGCT
*
23641254 TTTTTATTTTAGCT
1 TATTTATTTTAGCT
*
23641268 TATTCATTTTA
1 TATTTATTTTA
23641279 CCCATTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 22 0.71
15 2 0.06
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.69
Consensus pattern (14 bp):
TATTTATTTTAGCT
Found at i:23643416 original size:27 final size:27
Alignment explanation
Indices: 23643369--23643424 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
23643359 TAAATTAGAA
* *
23643369 AAAAAATTAAATATAATTTTTAATATT
1 AAAAAATTAAATATAAGTTTTAACATT
* *
23643396 AAAAAATTGAATTTAAGTTTTAACATT
1 AAAAAATTAAATATAAGTTTTAACATT
23643423 AA
1 AA
23643425 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (27 bp):
AAAAAATTAAATATAAGTTTTAACATT
Found at i:23644280 original size:23 final size:22
Alignment explanation
Indices: 23644254--23644299 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
23644244 TGTATATATC
23644254 TTTTAAAGATTATGCAATATACT
1 TTTTAAAGATTATGCAAT-TACT
** *
23644277 TTTTAATTATTGTGCAATTACT
1 TTTTAAAGATTATGCAATTACT
23644299 T
1 T
23644300 AATTATGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTTAAAGATTATGCAATTACT
Found at i:23644410 original size:75 final size:75
Alignment explanation
Indices: 23644316--23644467 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
23644306 GATTTGAAAG
* *
23644316 AATGTTACGAAATACAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACGTTATATGAG
1 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACATTATATGAG
23644381 TGAGCAAAAC
66 TGAGCAAAAC
*
23644391 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCTTGTACATTATATGAG
1 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACATTATATGAG
23644456 TGAGCAAAAC
66 TGAGCAAAAC
23644466 AA
1 AA
23644468 CACTTCCATT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (75 bp):
AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACATTATATGAG
TGAGCAAAAC
Found at i:23646781 original size:9 final size:9
Alignment explanation
Indices: 23646767--23646803 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
23646757 TATAGTTTAA
23646767 TATTCGAAT
1 TATTCGAAT
23646776 TATTCGAAT
1 TATTCGAAT
*
23646785 TATTCGAGT
1 TATTCGAAT
23646794 TATTCGAAT
1 TATTCGAAT
23646803 T
1 T
23646804 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:23646869 original size:9 final size:9
Alignment explanation
Indices: 23646855--23646887 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
23646845 ATTCGAGTTG
23646855 ACTCGAATA
1 ACTCGAATA
*
23646864 ACTCGATTA
1 ACTCGAATA
23646873 ACTCGAATA
1 ACTCGAATA
23646882 ACTCGA
1 ACTCGA
23646888 TTTGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:23646878 original size:18 final size:18
Alignment explanation
Indices: 23646855--23646889 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23646845 ATTCGAGTTG
23646855 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
23646873 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
23646890 TGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:23656863 original size:94 final size:92
Alignment explanation
Indices: 23656704--23656874 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 92
23656694 CTTTGTCGAG
* * ** *
23656704 GCCGATGCATGTCCTAGACATGTCTTACTCTGGCACTCATAATATGGCTGAAGCATGTCCTAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAATACGGCCAAAGCATGTCCCAGAC
23656769 ATGTCTTACACTAGCCCTTATCTGGAT
66 ATGTCTTACACTAGCCCTTATCTGGAT
* *
23656796 GCCGATGCCATGTCCCAGACATGGTCTTA-TACTGGCTCTCATAGTACGGCCAAAGCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACT-CTGGCACTCATAATACGGCCAAAGCATGTCCCA
23656860 GACATGTCTTACACT
63 GACATGTCTTACACT
23656875 GGCGTACAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 48 0.70
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAATACGGCCAAAGCATGTCCCAGAC
ATGTCTTACACTAGCCCTTATCTGGAT
Found at i:23660683 original size:47 final size:46
Alignment explanation
Indices: 23660563--23660744 Score: 192
Period size: 47 Copynumber: 3.9 Consensus size: 46
23660553 ATAATTTCAC
*
23660563 CCATAATGAACTCGGAACGCAACTCAACGAGCTTAGG-TGCTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAG-TTCGGATGCTCACAT
* * * **
23660609 CCATAATGAACTCGGAACACAATTCAACAAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTCACAT
* *
23660655 CCATAAGTGAAC-CTGTAACGCAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTC-GGAACGCAACTCAACGAGTTCGGATG-CTCA-CAT
* * *
23660704 TC-TCACGAACTCGGAACGCAACTCAACGAGTTCGGAT-CTCA
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTCA
23660745 ATTTCCTAGT
Statistics
Matches: 113, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
45 8 0.07
46 42 0.37
47 55 0.49
48 5 0.04
49 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTCACAT
Found at i:23668331 original size:93 final size:92
Alignment explanation
Indices: 23668153--23668332 Score: 279
Period size: 93 Copynumber: 1.9 Consensus size: 92
23668143 CCACTTCTCC
* * * *
23668153 TGGAAGATACAGTCTAGATTTGGGTGTTCCTTTTTCCCCTTTTTTCCAATATGCTATACAGCCAG
1 TGGAAGATAAAATCTAGATTTGGGTGTTCCTTTTTCCCCTTTTTTCCAATATGCAACACAGCCAG
* *
23668218 TTTATAAAGAATTATCTAATCCCCTAT
66 TATATAAAGAAATATCTAATCCCCTAT
* *
23668245 TGGAAGATAAAATCTAGATTTGGGTGTTCTTTTTTCCCCTTTTTTTCCATTATGCAACACAGCCA
1 TGGAAGATAAAATCTAGATTTGGGTGTTCCTTTTTCCCC-TTTTTTCCAATATGCAACACAGCCA
23668310 GTATATAAAGAAATATCTAATCC
65 GTATATAAAGAAATATCTAATCC
23668333 TCAACTTTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 36 0.46
93 43 0.54
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (92 bp):
TGGAAGATAAAATCTAGATTTGGGTGTTCCTTTTTCCCCTTTTTTCCAATATGCAACACAGCCAG
TATATAAAGAAATATCTAATCCCCTAT
Found at i:23668949 original size:174 final size:174
Alignment explanation
Indices: 23668658--23669007 Score: 673
Period size: 174 Copynumber: 2.0 Consensus size: 174
23668648 GCCTATAGCA
23668658 TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
1 TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
*
23668723 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCTATTTGAGTGGCTTAGTAAG
66 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCAATTTGAGTGGCTTAGTAAG
23668788 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
131 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
* *
23668832 TTACTACTGCAGGTAATAATGTATTTTATGCTTACATTACGTATGTTTCATAAATATATGAAGAG
1 TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
23668897 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCAATTTGAGTGGCTTAGTAAG
66 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCAATTTGAGTGGCTTAGTAAG
23668962 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
131 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
23669006 TT
1 TT
23669008 TCTATCACTT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 173 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (174 bp):
TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCAATTTGAGTGGCTTAGTAAG
CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
Found at i:23673095 original size:14 final size:14
Alignment explanation
Indices: 23673076--23673106 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23673066 TAGTTTAAAC
23673076 TTGATAATCACAAA
1 TTGATAATCACAAA
23673090 TTGATAATCACAAA
1 TTGATAATCACAAA
23673104 TTG
1 TTG
23673107 GAGAATAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (14 bp):
TTGATAATCACAAA
Found at i:23673451 original size:26 final size:25
Alignment explanation
Indices: 23673422--23673470 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
23673412 TTATATCAAT
*
23673422 TTTAAAAAATTATAAAATATAAAAAA
1 TTTAAAAAAGTATAAAA-ATAAAAAA
*
23673448 TTTAGAAAAGTATAAAAATAAAA
1 TTTAAAAAAGTATAAAAATAAAA
23673471 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
TTTAAAAAAGTATAAAAATAAAAAA
Found at i:23673456 original size:18 final size:18
Alignment explanation
Indices: 23673424--23673465 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
23673414 ATATCAATTT
*
23673424 TAAAAAATTATAAAA-TA
1 TAAAAAATTAGAAAAGTA
23673441 TAAAAAATTTAGAAAAGTA
1 TAAAAAA-TTAGAAAAGTA
23673460 TAAAAA
1 TAAAAA
23673466 TAAAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 7 0.32
19 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAAAATTAGAAAAGTA
Found at i:23673466 original size:18 final size:17
Alignment explanation
Indices: 23673424--23673466 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
23673414 ATATCAATTT
* *
23673424 TAAAAAATTATAAAATA
1 TAAAAATTTAGAAAATA
23673441 TAAAAAATTTAGAAAAGTA
1 T-AAAAATTTAGAAAA-TA
23673460 TAAAAAT
1 TAAAAAT
23673467 AAAATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAAAATTTAGAAAATA
Found at i:23673475 original size:14 final size:15
Alignment explanation
Indices: 23673453--23673485 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23673443 AAAAATTTAG
23673453 AAAAGTAT-AAAAAT
1 AAAAGTATAAAAAAT
*
23673467 AAAATTATAAAAAAT
1 AAAAGTATAAAAAAT
23673482 AAAA
1 AAAA
23673486 AATCATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAGTATAAAAAAT
Found at i:23673486 original size:22 final size:23
Alignment explanation
Indices: 23673422--23673488 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 23
23673412 TTATATCAAT
23673422 TTTA-AAAAATTATAAAATATAAAAAA
1 TTTAGAAAAA-TATAAAA-AT--AAAA
*
23673448 TTTAGAAAAGTATAAAAATAAAA
1 TTTAGAAAAATATAAAAATAAAA
23673471 TTATA-AAAAATA-AAAAAT
1 TT-TAGAAAAATATAAAAAT
23673489 CATTAATTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 6 0.16
23 12 0.32
24 2 0.05
25 2 0.05
26 11 0.30
27 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (23 bp):
TTTAGAAAAATATAAAAATAAAA
Found at i:23681147 original size:19 final size:19
Alignment explanation
Indices: 23681119--23681155 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23681109 CTGGCGCACA
23681119 AAGCGAATGCTAGCACACG
1 AAGCGAATGCTAGCACACG
* *
23681138 AAGCGCATGCTGGCACAC
1 AAGCGAATGCTAGCACAC
23681156 AAGGTGCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.30, G:0.27, T:0.11
Consensus pattern (19 bp):
AAGCGAATGCTAGCACACG
Found at i:23681500 original size:18 final size:18
Alignment explanation
Indices: 23681477--23681513 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23681467 GTATATTTAT
23681477 CTAATTAACACATATAGG
1 CTAATTAACACATATAGG
23681495 CTAATTAACACATATAGG
1 CTAATTAACACATATAGG
23681513 C
1 C
23681514 AAGCACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (18 bp):
CTAATTAACACATATAGG
Found at i:23684514 original size:43 final size:43
Alignment explanation
Indices: 23684446--23684615 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
23684436 AACTCGTACA
*
23684446 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
* *
23684489 ATGCC-ACTGTCCCAGACAG-GATCTTACATAAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATATCG
* * * ** *
23684531 ATGCCGATGTCCTAGATATGGTCTTACACGTAAAT-ATCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AAATCA--AATATCG
*
23684575 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATAT
23684616 TGGAAATCCT
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
42 26 0.26
43 44 0.44
44 30 0.30
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
Found at i:23686634 original size:17 final size:18
Alignment explanation
Indices: 23686614--23686647 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23686604 AAAATTAATT
*
23686614 AAAATTAAAAA-ATAAAG
1 AAAATAAAAAAGATAAAG
23686631 AAAATAAAAAAGATAAA
1 AAAATAAAAAAGATAAA
23686648 ATAATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAG
Found at i:23686715 original size:115 final size:118
Alignment explanation
Indices: 23686495--23686731 Score: 281
Period size: 115 Copynumber: 2.0 Consensus size: 118
23686485 AAAAAACTAA
* ** * *
23686495 AATT-AAATCTAAAAAATAAAAACATAAAGAAATTTAAATTAGTTTTTCCTATAAAAATTCAGAT
1 AATTAAAATCTAAAAAATAAAAAAATAAAGAAAGATAAAATAATTTTTCCTATAAAAATTCAGAT
* * *
23686559 AATTTCTAGTAAAATCTCATGTTTTTTCTTTTTACT-GGAAA-AACTAAAATT
66 AATTTCTAGTAAAATCTAATGTTTTTTCCTTTTACTAGAAAACAACTAAAATT
* * *
23686610 AATTAAAAT-TAAAAAATAAAGAAAATAAA-AAAGATAAAATAATTTTTCTTATAAAAATTGAGG
1 AATTAAAATCTAAAAAATAAA-AAAATAAAGAAAGATAAAATAATTTTTCCTATAAAAATTCAGA
* *
23686673 TAATTTCTA-TAAAATCTTAATTTTTTTTCCTTTTA-TAAGAAAACAACTGAAATT
65 TAATTTCTAGTAAAATC-TAATGTTTTTTCCTTTTACT-AGAAAACAACTAAAATT
23686727 AATTA
1 AATTA
23686732 TAAAAAATTA
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
114 8 0.08
115 66 0.64
116 15 0.15
117 14 0.14
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.38
Consensus pattern (118 bp):
AATTAAAATCTAAAAAATAAAAAAATAAAGAAAGATAAAATAATTTTTCCTATAAAAATTCAGAT
AATTTCTAGTAAAATCTAATGTTTTTTCCTTTTACTAGAAAACAACTAAAATT
Found at i:23694311 original size:30 final size:31
Alignment explanation
Indices: 23694241--23694311 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
23694231 AACCGAACAT
*
23694241 TATTCTAT-TTTTTTAATTCATATATAATTAA
1 TATT-TATATTTTTTAATTCATATAAAATTAA
23694272 T-TTTA-ATTTTTT-ATT-ATATAAAATTAAA
1 TATTTATATTTTTTAATTCATATAAAATT-AA
23694300 TATTTATATTTT
1 TATTTATATTTT
23694312 AAAAAGTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 9 0.26
28 6 0.17
29 12 0.34
30 7 0.20
31 1 0.03
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (31 bp):
TATTTATATTTTTTAATTCATATAAAATTAA
Found at i:23695387 original size:62 final size:62
Alignment explanation
Indices: 23695311--23695434 Score: 194
Period size: 62 Copynumber: 2.0 Consensus size: 62
23695301 ATGTTATTTG
* *
23695311 AATGAGTAATTAGGTTCAAGTGGTAAATCCATAAAGTCAAGTGGTTTTAGAAAATGAGGTAT
1 AATGAGTAATTAGGTTCAAGTGGTAAATCCATAAAGTCAAGCGATTTTAGAAAATGAGGTAT
* ** *
23695373 AATGAGTAATTAGGTTTAAGTGGTAAATCTTTAAAGTTAAGCGATTTTAGAAAATGAGGTAT
1 AATGAGTAATTAGGTTCAAGTGGTAAATCCATAAAGTCAAGCGATTTTAGAAAATGAGGTAT
23695435 CGAGACCTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (62 bp):
AATGAGTAATTAGGTTCAAGTGGTAAATCCATAAAGTCAAGCGATTTTAGAAAATGAGGTAT
Found at i:23698014 original size:41 final size:42
Alignment explanation
Indices: 23697952--23698030 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
23697942 TACCTAGTAC
*
23697952 CTCATCGGATTTAATCCGAAGCAATCA-TACAACACATAGTGT
1 CTCATCGGAATTAATCCGAAGCAAT-ATTACAACACATAGTGT
*
23697994 CTCATCGGAATT-ATCCGAAGCAATATTACTACACATA
1 CTCATCGGAATTAATCCGAAGCAATATTACAACACATA
23698031 TAGTGCCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 1 0.03
41 22 0.65
42 11 0.32
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (42 bp):
CTCATCGGAATTAATCCGAAGCAATATTACAACACATAGTGT
Done.