Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 135 of 250
Found at i:43518105 original size:24 final size:24
Alignment explanation
Indices: 43518073--43518121 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
43518063 TGTTGAAGGT
*
43518073 AAGTTTTCACACCCTTTAGTACAA
1 AAGTTTTCAAACCCTTTAGTACAA
*
43518097 AAGTTTTCAAACGCTTTAGTACAA
1 AAGTTTTCAAACCCTTTAGTACAA
43518121 A
1 A
43518122 TTTTCTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (24 bp):
AAGTTTTCAAACCCTTTAGTACAA
Found at i:43525580 original size:17 final size:18
Alignment explanation
Indices: 43525558--43525591 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43525548 CGGGCCAGGT
43525558 CATGT-GGTCCACACGAG
1 CATGTGGGTCCACACGAG
*
43525575 CATGTGGGTCCATACGA
1 CATGTGGGTCCACACGA
43525592 CCAAGCCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (18 bp):
CATGTGGGTCCACACGAG
Found at i:43529032 original size:47 final size:47
Alignment explanation
Indices: 43528963--43529223 Score: 153
Period size: 46 Copynumber: 5.6 Consensus size: 47
43528953 TTGTGTGTGG
*
43528963 GCTAGTGTAAG--ATGTCTGGGACATGCATTGGCCACATT-ACGGGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTGACGAGA
*
43529007 GCTAGTGTAAGACCATGTCTGGGACATGGCA-T--CAACATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCACATT--GACGAGA
* *
43529055 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-C-TTGA-GATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTGACGA-G--A
* * ** * * *
43529101 GCCAGTGTAAGACATGTCTCGGACATGCATCAGCTACGA--GATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCAC-ATTGACGAGA
*
43529147 G-TCAGTGTAAGACCATGTCTGGGACATGGCA-T--CAAC-TTGA-GATATGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCACATTGACG--A-GA
*
43529194 GCCAGTGTAAGACATGTCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCAT
43529224 CGGTTATGAG
Statistics
Matches: 173, Mismatches: 16, Indels: 54
0.71 0.07 0.22
Matches are distributed among these distances:
43 2 0.01
44 15 0.09
45 14 0.08
46 62 0.36
47 52 0.30
48 26 0.15
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTGACGAGA
Found at i:43529108 original size:46 final size:47
Alignment explanation
Indices: 43529010--43529273 Score: 292
Period size: 46 Copynumber: 5.7 Consensus size: 47
43529000 TACGGGAGCT
** * * *
43529010 AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGATAGCC
*
43529058 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGATGAT-AGCC
* * * *
43529104 AGTGTAAGA-CATGTCTCGGACAT-GCATCAGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATGATAGCC
**
43529150 AGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAT-AGCC
* *
43529197 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTATGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATGATAGCC
43529243 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
43529274 ACACCTTAAC
Statistics
Matches: 187, Mismatches: 18, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
45 8 0.04
46 95 0.51
47 61 0.33
48 23 0.12
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGATAGCC
Found at i:43529172 original size:93 final size:94
Alignment explanation
Indices: 43529010--43529274 Score: 351
Period size: 93 Copynumber: 2.8 Consensus size: 94
43529000 TACGGGAGCT
* * *
43529010 AGTGTAAGACCATGTCTGGGACATGGCATCAAC-ATTGAGACGAGAG-CTAGTGTAAGA-CATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-TGAGATGATAGTC-AGTGTAAGACCATGT
* ** *
43529072 CTAGGACAT-GCATCGGCCTTGAGATGTAAGCC
62 CTGGGACATGGCATCGAACTTGAGATATAAGCC
* *
43529104 AGTGTAAGACATGTCTCGGACATGCATCAGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATAGTCAGTGTAAGACCATGTCTGG
*
43529169 GACATGGCATC-AACTTGAGATATGAGCC
66 GACATGGCATCGAACTTGAGATATAAGCC
* *
43529197 AGTGTAAGACATGTCTGGGACATGCATCGGTTATGAGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATAGTCAGTGTAAGACCATGTCTGG
43529262 GACATGGCATCGA
66 GACATGGCATCGA
43529275 CACCTTAACC
Statistics
Matches: 152, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
92 24 0.16
93 113 0.74
94 15 0.10
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATAGTCAGTGTAAGACCATGTCTGG
GACATGGCATCGAACTTGAGATATAAGCC
Found at i:43529248 original size:139 final size:142
Alignment explanation
Indices: 43529010--43529272 Score: 403
Period size: 139 Copynumber: 1.9 Consensus size: 142
43529000 TACGGGAGCT
*
43529010 AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTA
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCTA
43529075 GGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGA-CATGTCTCGGACAT-GCATCAGCTAC
66 GGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGACCATGTCTCGGACATGGCATCAGCTAC
43529138 GAGATGATAGTC
131 GAGATGATAGTC
*
43529150 AGTGTAAGACCATGTCTGGGACATGGCATCAAC-TTGAGA-TATGAGCCAGTGTAAGACATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGA-GAGCCAGTGTAAGACATGTCT
* * * *
43529213 GGGACATGCATCGG-TTATGAGATG-ATAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
65 AGGACATGCATCGGCCT-TGAGATGTA-AGCCAGTGTAAGACCATGTCTCGGACATGGCATC
43529273 GACACCTTAA
Statistics
Matches: 112, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
138 3 0.03
139 58 0.52
140 46 0.41
141 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (142 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCTA
GGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGACCATGTCTCGGACATGGCATCAGCTAC
GAGATGATAGTC
Found at i:43533984 original size:30 final size:30
Alignment explanation
Indices: 43533950--43534009 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
43533940 GGATGAAAGG
43533950 TTGGAGAAGAAAGAAAAATGATTAAGGTGA
1 TTGGAGAAGAAAGAAAAATGATTAAGGTGA
43533980 TTGGAGAAGAAAGAAAAATGATTAAGGTGA
1 TTGGAGAAGAAAGAAAAATGATTAAGGTGA
43534010 CATTTGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (30 bp):
TTGGAGAAGAAAGAAAAATGATTAAGGTGA
Found at i:43542200 original size:37 final size:38
Alignment explanation
Indices: 43542151--43542247 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 38
43542141 TAGATAGATT
*
43542151 CGATGAGGCGTTGGTCGCCAC-TTTGCTTTG-ACTTAGC
1 CGATGAGACGTTGGTCGCCACTTTTGCTTTGAAC-TAGC
** *
43542188 CGATGAGACGTTGGTCGTAACTTATTTGCTTTGAACTATC
1 CGATGAGACGTTGGTCGCCAC-T-TTTGCTTTGAACTAGC
43542228 CGATGAGACGTTGGTCGCCA
1 CGATGAGACGTTGGTCGCCA
43542248 TTCTGGTGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 18 0.36
40 30 0.60
41 2 0.04
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.32
Consensus pattern (38 bp):
CGATGAGACGTTGGTCGCCACTTTTGCTTTGAACTAGC
Found at i:43548774 original size:14 final size:14
Alignment explanation
Indices: 43548755--43548782 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43548745 ACGAAATTGG
43548755 GGAAAGAAAAGAAA
1 GGAAAGAAAAGAAA
43548769 GGAAAGAAAAGAAA
1 GGAAAGAAAAGAAA
43548783 AAGAGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
GGAAAGAAAAGAAA
Found at i:43551738 original size:79 final size:80
Alignment explanation
Indices: 43551593--43551815 Score: 371
Period size: 79 Copynumber: 2.8 Consensus size: 80
43551583 CGGATGATAA
* * *
43551593 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
43551656 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
*
43551672 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
43551736 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
*
43551751 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
43551816 AGCAAGTAGT
Statistics
Matches: 135, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
78 33 0.24
79 51 0.38
80 51 0.38
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:43551848 original size:39 final size:40
Alignment explanation
Indices: 43551593--43551815 Score: 362
Period size: 40 Copynumber: 5.6 Consensus size: 40
43551583 CGGATGATAA
* *
43551593 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
43551633 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43551672 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43551711 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43551751 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43551791 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43551816 AGCAAGTAGT
Statistics
Matches: 171, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 73 0.43
40 98 0.57
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43559540 original size:40 final size:40
Alignment explanation
Indices: 43559456--43559637 Score: 187
Period size: 39 Copynumber: 4.6 Consensus size: 40
43559446 TTGAATGCTG
* * *
43559456 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** * *
43559495 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
43559536 TCCGGGTTAAGTCCCG-AGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
43559575 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT--TAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
43559614 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43559638 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 62 0.51
40 48 0.40
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:43559658 original size:39 final size:38
Alignment explanation
Indices: 43559575--43559683 Score: 114
Period size: 39 Copynumber: 2.8 Consensus size: 38
43559565 AGATACTAAT
**
43559575 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTTAAAA
* *
43559614 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT--TAAAA
* *
43559654 -CCGGGCTATGTCCCGAA-GCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
43559684 GAGCTAAATC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
38 9 0.15
39 47 0.78
40 4 0.07
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTTAAAA
Found at i:43564774 original size:103 final size:104
Alignment explanation
Indices: 43564625--43564890 Score: 439
Period size: 104 Copynumber: 2.6 Consensus size: 104
43564615 TTGTATATAA
** *
43564625 AGGGGTTGCTGTGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
43564690 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
43564729 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
43564794 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
43564833 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA--GCGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTG-GTGGTGCTAAGTGCGATATCCACCA
43564891 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
102 1 0.01
103 68 0.44
104 84 0.55
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:43566326 original size:147 final size:148
Alignment explanation
Indices: 43566134--43566428 Score: 565
Period size: 147 Copynumber: 2.0 Consensus size: 148
43566124 CAAATAATTT
*
43566134 ACCTTGGCCGATCATGTATAATGTTTTGTACCTTAATAAATTTAACATACATTATGTATTTATAA
1 ACCTTGGCCGATCATGTATAATGATTTGTACCTTAATAAATTTAACATACATTATGTATTTATAA
43566199 TATTTGTGCAGCCAATTATCCATGGTCATACACACACAATCAAAAATAAATACCAAATTTTTCAT
66 TATTTGTGCAGCCAATTATCCATGGTCATACACACACAATCAAAAATAAATACCAAATTTTTCAT
43566264 ATCCTTTATGCCCTAAGC
131 ATCCTTTATGCCCTAAGC
*
43566282 ACCTTGGCCGATCATGTATAAT-ATTTGTAGCTTAATAAATTTAACATACATTATGTATTTATAA
1 ACCTTGGCCGATCATGTATAATGATTTGTACCTTAATAAATTTAACATACATTATGTATTTATAA
43566346 TATTTGTGCAGCCAATTATCCATGGTCATACACACACAATCAAAAATAAATACCAAATTTTTCAT
66 TATTTGTGCAGCCAATTATCCATGGTCATACACACACAATCAAAAATAAATACCAAATTTTTCAT
43566411 ATCCTTTATGCCCTAAGC
131 ATCCTTTATGCCCTAAGC
43566429 CGAATACACT
Statistics
Matches: 145, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
147 123 0.85
148 22 0.15
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (148 bp):
ACCTTGGCCGATCATGTATAATGATTTGTACCTTAATAAATTTAACATACATTATGTATTTATAA
TATTTGTGCAGCCAATTATCCATGGTCATACACACACAATCAAAAATAAATACCAAATTTTTCAT
ATCCTTTATGCCCTAAGC
Found at i:43567764 original size:11 final size:11
Alignment explanation
Indices: 43567750--43567781 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
43567740 GCATTTCAAA
43567750 CACATATTAAG
1 CACATATTAAG
43567761 CACATATTAAG
1 CACATATTAAG
43567772 CACATATTAA
1 CACATATTAA
43567782 CATGTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (11 bp):
CACATATTAAG
Found at i:43568758 original size:40 final size:40
Alignment explanation
Indices: 43568616--43568920 Score: 515
Period size: 40 Copynumber: 7.7 Consensus size: 40
43568606 CTAGCATGAT
* *
43568616 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
43568656 TGCT-TTCGGGACTTAGCCTGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
43568695 TGCTCTTC-GGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
43568734 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* * *
43568774 TGCTTTTCGGGACTTTGCCCGGATATAACATCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
43568814 TGCTCTTCGGGACTTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
43568854 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
43568894 TGCTCTTCGGGACTTAGCCCGGCTATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
43568921 TAACTCTCAA
Statistics
Matches: 249, Mismatches: 14, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
39 74 0.30
40 175 0.70
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:43570251 original size:37 final size:37
Alignment explanation
Indices: 43570193--43570300 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
43570183 TAGCTCGAAT
* *
43570193 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
43570230 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
43570267 AATCTTCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
43570301 ATATATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:43570501 original size:48 final size:48
Alignment explanation
Indices: 43570449--43571153 Score: 1266
Period size: 48 Copynumber: 14.7 Consensus size: 48
43570439 ACATCTCCTC
*
43570449 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
* *
43570497 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTGATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43570545 TATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43570593 CATATTTCACATTAGCCATTCGGCTTCACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43570641 CATATTTAACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43570689 CATATTTCACATTAGCCATTCGGCTTTACCATATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43570737 CATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
43570785 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
* * *
43570833 TATATTTCACATTAGCCATTCAGTTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43570881 CATATTTCACATTAGCAATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43570929 CATATTTCACATTAGCAATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43570977 CATATTTCACATTAGCCATTCGGCTTCACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
43571025 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43571073 TATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
43571121 CATATTTCACACTAGCCATTCGGCTTTACCACA
1 CATATTTCACATTAGCCATTCGGCTTTACCACA
43571154 CACATATATA
Statistics
Matches: 631, Mismatches: 26, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 631 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
Found at i:43572362 original size:148 final size:148
Alignment explanation
Indices: 43572150--43572445 Score: 565
Period size: 148 Copynumber: 2.0 Consensus size: 148
43572140 CAAATAATTT
43572150 ACCTTGGCCGATCATATATAATGTTTTGTAGCTTAATAAATTTAACATACATTATGCATTTATAA
1 ACCTTGGCCGATCATATATAATGTTTTGTAGCTTAATAAATTTAACATACATTATGCATTTATAA
*
43572215 TATTTGTGCAGCCAATTATCCATGGTCATACACATACAATCAAAAATAAATACCAAATTTTTCAT
66 TATTTGTGCAGCCAATTATCCATGGTCATACACACACAATCAAAAATAAATACCAAATTTTTCAT
43572280 ATCCTTTATGCCCTAAGC
131 ATCCTTTATGCCCTAAGC
* *
43572298 ACCTTGGCCGATCATGTATAATGTTTTGTAGCTTAATAAATTTAACATACATTATGTATTTATAA
1 ACCTTGGCCGATCATATATAATGTTTTGTAGCTTAATAAATTTAACATACATTATGCATTTATAA
43572363 TATTTGTGCAGCCAATTATCCATGGTCATACACACACAATCAAAAATAAATACCAAATTTTTCAT
66 TATTTGTGCAGCCAATTATCCATGGTCATACACACACAATCAAAAATAAATACCAAATTTTTCAT
43572428 ATCCTTTATGCCCTAAGC
131 ATCCTTTATGCCCTAAGC
43572446 CGAATACACT
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (148 bp):
ACCTTGGCCGATCATATATAATGTTTTGTAGCTTAATAAATTTAACATACATTATGCATTTATAA
TATTTGTGCAGCCAATTATCCATGGTCATACACACACAATCAAAAATAAATACCAAATTTTTCAT
ATCCTTTATGCCCTAAGC
Found at i:43575430 original size:55 final size:54
Alignment explanation
Indices: 43575275--43575481 Score: 193
Period size: 53 Copynumber: 3.8 Consensus size: 54
43575265 TTCCTTTTTA
* * * *
43575275 AACTTACCATTTCCATGTCTTGACATGGTCTTACGT-AGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGA-TATCCTTGCCTTATAG
** * * ** *
43575328 AACTCGCCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
** * * * * *
43575382 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
* * *
43575437 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
43575482 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 42 0.35
54 38 0.32
55 40 0.33
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
Found at i:43579897 original size:58 final size:58
Alignment explanation
Indices: 43579823--43579934 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
43579813 CATTTTAGTA
* * *
43579823 TTGTCAGCTCAGAAATGTGTCCAGAAAGGTTACGAGGCATATTTGGCTTACATCAGCT
1 TTGTCAGCTCAAAAATGTGTCCAAAAAGGTTACAAGGCATATTTGGCTTACATCAGCT
*
43579881 TTGTCAGCTCAAAAATGTGTCTAAAAAGGTTACAAGGCATATTTGGCTTACATC
1 TTGTCAGCTCAAAAATGTGTCCAAAAAGGTTACAAGGCATATTTGGCTTACATC
43579935 TTAGATACCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (58 bp):
TTGTCAGCTCAAAAATGTGTCCAAAAAGGTTACAAGGCATATTTGGCTTACATCAGCT
Found at i:43586554 original size:34 final size:34
Alignment explanation
Indices: 43586511--43586581 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
43586501 TGGGTGGAGA
43586511 AAACATTCCAGATACCGACATAAAAAACTTGCAT
1 AAACATTCCAGATACCGACATAAAAAACTTGCAT
43586545 AAACATTCCAGATACCGACATAAAAAACTTGCAT
1 AAACATTCCAGATACCGACATAAAAAACTTGCAT
43586579 AAA
1 AAA
43586582 TACCGATCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.20
Consensus pattern (34 bp):
AAACATTCCAGATACCGACATAAAAAACTTGCAT
Found at i:43600836 original size:40 final size:40
Alignment explanation
Indices: 43600769--43600863 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
43600759 TCAATGTCTT
* * *
43600769 GCACACTAAGTGACGTACATAGCCGAAGCTATCTTAAATC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATC
* * * *
43600809 GCACACTAAGTGCCATATATAGTCGAAGCTATGTCGAATC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATC
*
43600849 GTACACTAAGTGCCA
1 GCACACTAAGTGCCA
43600864 CAAATAACCG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATC
Found at i:43602186 original size:33 final size:33
Alignment explanation
Indices: 43602148--43602216 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
43602138 GACATTGTGG
43602148 AGGCCACTAT-ATGGAAAATGGCTGAAGAACATA
1 AGGCCACTATGAT-GAAAATGGCTGAAGAACATA
* *
43602181 AGGCCACTGTGATGAAAATGGCTGAAGAATATA
1 AGGCCACTATGATGAAAATGGCTGAAGAACATA
43602214 AGG
1 AGG
43602217 TTGCGATTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.41, C:0.13, G:0.28, T:0.19
Consensus pattern (33 bp):
AGGCCACTATGATGAAAATGGCTGAAGAACATA
Found at i:43603053 original size:103 final size:103
Alignment explanation
Indices: 43602869--43603173 Score: 305
Period size: 103 Copynumber: 3.0 Consensus size: 103
43602859 TTAAGTTGCT
* * * * * * *
43602869 AGCTTAACTTAACTAACCTTTAAACAT-TAGTAGGGAATGTAGGTCCAC-AGGCTATTTCAGAGT
1 AGCTTAACTCAGCTAACCTTTAAACATCAACTA-GGAACGTAAGTCCACGA-GCCATTTCAGAGT
* * * *
43602932 TGTGAGCTTAACTTAGCTAACTCAAATAATTTTA-G-TAGCG
64 TGCGAGCTTAACTAAGCTAACTCAAATAA-CTTAGGTTA-CA
* * **
43602972 AGTTTAACTCAGCTAACCTTTAAACATCAACTAGGAAGGTAAGTCCACGAGCCATTTTGGAGTTG
1 AGCTTAACTCAGCTAACCTTTAAACATCAACTAGGAACGTAAGTCCACGAGCCATTTCAGAGTTG
*
43603037 CGATCTTAACTAAGCTAACTCAAATAACTTAGGTTACA
66 CGAGCTTAACTAAGCTAACTCAAATAACTTAGGTTACA
* * * * * ** *
43603075 AGCTTAACTCAGCTGACCTTTAAACCTTAGCTAGGAACGTAGGTCTGCGAGCTATTTCAGAGTTG
1 AGCTTAACTCAGCTAACCTTTAAACATCAACTAGGAACGTAAGTCCACGAGCCATTTCAGAGTTG
*
43603140 CAAGCTTAACTCAA-CTAACTCAAATAACTTAGGT
66 CGAGCTTAACT-AAGCTAACTCAAATAACTTAGGT
43603174 ACAGATTTCT
Statistics
Matches: 168, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
102 3 0.02
103 157 0.93
104 8 0.05
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (103 bp):
AGCTTAACTCAGCTAACCTTTAAACATCAACTAGGAACGTAAGTCCACGAGCCATTTCAGAGTTG
CGAGCTTAACTAAGCTAACTCAAATAACTTAGGTTACA
Found at i:43608745 original size:53 final size:53
Alignment explanation
Indices: 43608666--43608770 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
43608656 TTCCTTTTTA
* * * * * *
43608666 AACTTACCATTTTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTTCCATGCCTTAACATGGTCTTACATGGGATCCTTGCCTTATG
* *
43608719 AACTCACCATTTCCATGCCTTAACATGGTCTTACATGGGATCTTTGTCTTAT
1 AACTCACCATTTCCATGCCTTAACATGGTCTTACATGGGATCCTTGCCTTAT
43608771 CATAGTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (53 bp):
AACTCACCATTTCCATGCCTTAACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:43610030 original size:25 final size:25
Alignment explanation
Indices: 43610002--43610053 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
43609992 ACTAGGTAAA
*
43610002 TTATAAAAATTAATGGGAATATACT
1 TTATAAAAATTAATCGGAATATACT
43610027 TTATAAAAATTAATCGGAATATACT
1 TTATAAAAATTAATCGGAATATACT
43610052 TT
1 TT
43610054 TCTATCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (25 bp):
TTATAAAAATTAATCGGAATATACT
Found at i:43616162 original size:53 final size:54
Alignment explanation
Indices: 43616094--43616300 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 54
43616084 TTTCCTTTTT
* * **
43616094 AACTTACCATTGCCATGTCTTGACATGGTCTTATTTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * *
43616147 AACTCACCATTGCCATGCCTTGGCATGGTCTTATATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
43616201 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
43616256 AACTGACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
43616301 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 46 0.38
54 36 0.30
55 39 0.32
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:43619321 original size:17 final size:17
Alignment explanation
Indices: 43619299--43619335 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
43619289 ATACATCTGC
43619299 AATGAAGAGCATAGATA
1 AATGAAGAGCATAGATA
43619316 AATGAAGAGCATAGATA
1 AATGAAGAGCATAGATA
43619333 AAT
1 AAT
43619336 AAAAAGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.22, T:0.19
Consensus pattern (17 bp):
AATGAAGAGCATAGATA
Found at i:43620090 original size:16 final size:16
Alignment explanation
Indices: 43620071--43620114 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
43620061 TGTATTAGAT
43620071 TAGAGGTGTAATGGAA
1 TAGAGGTGTAATGGAA
43620087 TAGAGGTGTAATGGAA
1 TAGAGGTGTAATGGAA
43620103 TAGAGGTGTAAT
1 TAGAGGTGTAAT
43620115 AGCAAATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.27
Consensus pattern (16 bp):
TAGAGGTGTAATGGAA
Found at i:43620159 original size:45 final size:44
Alignment explanation
Indices: 43620093--43620183 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
43620083 GGAATAGAGG
*
43620093 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
43620138 TGTAATGGAATATAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
43620182 TG
1 TG
43620184 GAATACAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:43620369 original size:18 final size:17
Alignment explanation
Indices: 43620348--43620382 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43620338 TTATTATTAA
*
43620348 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43620366 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43620383 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43620471 original size:120 final size:120
Alignment explanation
Indices: 43620326--43620854 Score: 886
Period size: 120 Copynumber: 4.4 Consensus size: 120
43620316 ATTTAATTAT
* *
43620326 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * * * * * *
43620391 ATCAATATTTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATAT-
65 TTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
43620446 ATCTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 AT-TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
**
43620511 TTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATA
65 TTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
43620567 ATTTAACAT-A--ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
*
43620629 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
43620684 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
43620749 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
43620804 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
43620855 CTAAAGTTTG
Statistics
Matches: 390, Mismatches: 14, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
117 112 0.29
118 1 0.00
119 1 0.00
120 272 0.70
121 4 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
Found at i:43620708 original size:26 final size:26
Alignment explanation
Indices: 43620678--43620835 Score: 83
Period size: 26 Copynumber: 6.5 Consensus size: 26
43620668 AATACTATAT
43620678 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
*
43620704 AATATAATTTAATAA-AAATA-TA-T-
1 AATATAATTTAA-AATAATTATTATTA
* ** *
43620727 AATTTAA--TAAAATTCTTAATATTA
1 AATATAATTTAAAATAATTATTATTA
* * *
43620751 AATAT--TCTT-ATATGAATT-TAATAA
1 AATATAAT-TTAAAAT-AATTATTATTA
* * *
43620775 AATCATAA--T-ATATAA-TACTATAA
1 AAT-ATAATTTAAAATAATTATTATTA
43620798 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
43620824 AATATAATTTAA
1 AATATAATTTAA
43620836 TAAAAATATA
Statistics
Matches: 98, Mismatches: 17, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.02
21 5 0.05
22 7 0.07
23 16 0.16
24 20 0.20
25 12 0.12
26 34 0.35
27 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
AATATAATTTAAAATAATTATTATTA
Found at i:43620751 original size:18 final size:18
Alignment explanation
Indices: 43620585--43620738 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
43620575 TAATTATTAA
43620585 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
43620603 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
43620621 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
43620640 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
43620658 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
43620674 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
43620693 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
43620705 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
43620723 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
43620739 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:43620755 original size:237 final size:239
Alignment explanation
Indices: 43620326--43620854 Score: 875
Period size: 237 Copynumber: 2.2 Consensus size: 239
43620316 ATTTAATTAT
* *
43620326 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * * * * *
43620391 ATCAATATTTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATATCTTAACAT
64 ATAAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATATCTTAAAAT
43620456 AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
129 AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
**
43620521 TTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATA
194 TTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
* *
43620567 ATTTAACAT-A-ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 ATTTAAAATAATATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
* *
43620630 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAAT-TTAAAATA
66 AAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATAT-ATCTTAAAATA
43620694 ATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
130 ATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
43620759 TATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
195 TATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
43620804 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 ATTTAAAATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAAT
43620855 CTAAAGTTTG
Statistics
Matches: 269, Mismatches: 15, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
237 219 0.81
238 3 0.01
239 1 0.00
240 40 0.15
241 6 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (239 bp):
ATTTAAAATAATATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATATCTTAAAATAA
TTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
ATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
Found at i:43625298 original size:14 final size:13
Alignment explanation
Indices: 43625263--43625311 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
43625253 ACCATAATTT
*
43625263 TAATAAAATTTCA
1 TAATAAAATTTAA
*
43625276 -AA-AATATTTAA
1 TAATAAAATTTAA
43625287 TAATAAGAATTTAA
1 TAATAA-AATTTAA
43625301 TAATAAAATTT
1 TAATAAAATTT
43625312 TTAAACATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 7 0.23
12 4 0.13
13 7 0.23
14 12 0.40
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
TAATAAAATTTAA
Found at i:43631086 original size:16 final size:18
Alignment explanation
Indices: 43631060--43631092 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43631050 ATCAAACCAC
43631060 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
43631077 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
43631093 CTCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:43633411 original size:3 final size:3
Alignment explanation
Indices: 43633403--43633431 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43633393 GATGTACCGG
43633403 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
43633432 TGATTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:43633695 original size:2 final size:2
Alignment explanation
Indices: 43633688--43633720 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
43633678 GAATCTTGTT
*
43633688 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43633721 TTAAAGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43638508 original size:18 final size:17
Alignment explanation
Indices: 43638466--43638508 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
43638456 AAAAATATAA
43638466 TAAAAAATAGAATTTAG
1 TAAAAAATAGAATTTAG
*
43638483 -ATAGAAATAGAATTTTAG
1 TA-AAAAATAGAA-TTTAG
43638501 TAAAAAAT
1 TAAAAAAT
43638509 TTTAAGAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
16 1 0.05
17 9 0.43
18 10 0.48
19 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (17 bp):
TAAAAAATAGAATTTAG
Found at i:43647236 original size:18 final size:19
Alignment explanation
Indices: 43647191--43647238 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
43647181 CATGATATAC
*
43647191 ATAACATATATATTAAAACA
1 ATAACATA-ATATGAAAACA
*
43647211 ATAA-ATAATATGAAAATA
1 ATAACATAATATGAAAACA
43647229 A-AACATAATA
1 ATAACATAATA
43647239 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAACATAATATGAAAACA
Found at i:43647437 original size:20 final size:20
Alignment explanation
Indices: 43647401--43647438 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43647391 GGAAAATAAT
*
43647401 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
43647421 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
43647439 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:43649203 original size:83 final size:83
Alignment explanation
Indices: 43649059--43649833 Score: 973
Period size: 83 Copynumber: 9.2 Consensus size: 83
43649049 TTCGATTTGT
* * * * *
43649059 AAGGATGTCAAATTATCTTGAGTCTGCTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCAA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
43649124 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
43649142 AAGGATGCCAAACCATCTTGAGTCTGTTTGA-AGACATTTGAGAGTCATATCTGCAACGTCCTCG
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGA-ACATTTGAGAGTCATATCTGCAACGTCCTCG
43649206 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* *
43649225 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGGACATTTGAGAGTCATATCTGCAACGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
*
43649290 TTTGTTCCTTGTAAGTAC
66 TTTGTTCCTTGTAAGCAC
* * *
43649308 AAGGATACCAAA-CAATCTTAAATCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGT-C-C-
1 AAGGATGCCAAATC-ATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCG
43649369 ------T-CTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* *
43649381 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGTAACGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
43649446 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
43649464 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCCCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
43649529 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
43649547 AAGGATGCCAAATTATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
* *
43649612 TTTGTTTCTTGTAAACAC
66 TTTGTTCCTTGTAAGCAC
* * * *
43649630 AAGAATGCCAAATCATCTTG-GATCTGAAGGTTAGATCTGCTATATTTGAGAACGTCTGAGAGTC
1 AAGGATGCCAAATCATCTTGAG-TCT----GTTTGA---G-AACATTTGAG-A-GTC----A-T-
* *
43649694 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCAC
49 --ATCTGCAACGTCCTCGATTTGTTCCTTGTAAGCAC
* *
43649731 AAGGATACCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTTGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
* * *
43649796 TTTGTTTCTTGTAAACAT
66 TTTGTTCCTTGTAAGCAC
* * *
43649814 AAGAATACCGAATCATCTTG
1 AAGGATGCCAAATCATCTTG
43649834 GATCTGCTTC
Statistics
Matches: 611, Mismatches: 47, Indels: 68
0.84 0.06 0.09
Matches are distributed among these distances:
73 62 0.10
74 3 0.00
75 1 0.00
81 1 0.00
82 5 0.01
83 446 0.73
86 1 0.00
87 6 0.01
90 1 0.00
91 11 0.02
92 2 0.00
93 11 0.02
94 1 0.00
97 6 0.01
98 1 0.00
101 52 0.09
102 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (83 bp):
AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:43649514 original size:239 final size:242
Alignment explanation
Indices: 43649081--43649809 Score: 910
Period size: 239 Copynumber: 2.9 Consensus size: 242
43649071 TTATCTTGAG
* *
43649081 TCTGCTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCAATTTGTTCCTTGTAAGCACAAGG
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTC------TT-CTTGTAAGCACAAGG
* * *
43649146 ATGCCAAACCATCTTGAGTCTGTTTGA-AGACATTTGAGAGTCATATCTGCAACGTCCTCGATTT
59 ATGCCAAATCATCTTGAGTCTGTTTGAGA-ACGTTTGAGAGTCATATCTGTAACGTCCTCGATTT
* *
43649210 GTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGGACATTTGAGAGTCATAT
123 GTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATAT
*
43649275 CTGCAACGTCCTCGATTTGTTCCTTGTAAGTACAAGGATACCAAACAATCTTAAA
188 CTGCAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACAATCTTAAA
43649330 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGT-C-C-TCTTGTAAGCACAAGGATGCCAA
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCTTCTTGTAAGCACAAGGATGCCAA
43649392 ATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGTAACGTCCTCGATTTGTTCCTTG
66 ATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGTAACGTCCTCGATTTGTTCCTTG
*
43649457 TAAGCACAAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACG
131 TAAGCACAAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACG
* * ** * *
43649522 TCCCCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATTATCTTGAG
196 TCCTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACAATCTTAAA
* *
43649569 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTTGTAAACACAAGA
1 TCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTC-------TTCTTGTAAGCACAAGG
* *
43649634 ATGCCAAATCATCTTGGATCTGAAGGTTAGATCTGCTATATTTGAGAACGTCTGAGAGTCAAATC
59 ATGCCAAATCATC-----T-T----G--AG-TCTG-----TTTGAGAACGTTTGAGAGTCATATC
* *
43649699 TGCT-ATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGAGTCTGTTTGAG
106 TG-TAACGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTGTTTGAG
* *
43649763 AACATTTGAGAGTCATATCTGCAACGTCCTTGATTTGTTTCTTGTAA
170 AACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTCCTTGTAA
43649810 ACATAAGAAT
Statistics
Matches: 425, Mismatches: 25, Indels: 42
0.86 0.05 0.09
Matches are distributed among these distances:
239 221 0.52
240 3 0.01
241 1 0.00
247 1 0.00
248 1 0.00
249 62 0.15
254 1 0.00
255 1 0.00
259 1 0.00
261 2 0.00
262 4 0.01
267 126 0.30
268 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (242 bp):
TCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCTTCTTGTAAGCACAAGGATGCCAA
ATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGTAACGTCCTCGATTTGTTCCTTG
TAAGCACAAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACG
TCCTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACAATCTTAAA
Found at i:43649800 original size:184 final size:184
Alignment explanation
Indices: 43649490--43649839 Score: 601
Period size: 184 Copynumber: 1.9 Consensus size: 184
43649480 CTTGAGTCTG
* * *
43649490 TTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCCCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCAACGTCCCCGATTTGTTCCTTGTAAGCACAAGGATAC
*
43649555 CAAATTATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTC
66 CAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTC
*
43649620 TTGTAAACACAAGAATGCCAAATCATCTTGGATCTGAAGGTTAGATCTGCTATA
131 TTGTAAACACAAGAATACCAAATCATCTTGGATCTGAAGGTTAGATCTGCTATA
* * *
43649674 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCAACGTCCCCGATTTGTTCCTTGTAAGCACAAGGATAC
*
43649739 CAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTTGATTTGTTTC
66 CAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTC
* *
43649804 TTGTAAACATAAGAATACCGAATCATCTTGGATCTG
131 TTGTAAACACAAGAATACCAAATCATCTTGGATCTG
43649840 CTTCAATATA
Statistics
Matches: 155, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 155 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (184 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCAACGTCCCCGATTTGTTCCTTGTAAGCACAAGGATAC
CAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTC
TTGTAAACACAAGAATACCAAATCATCTTGGATCTGAAGGTTAGATCTGCTATA
Found at i:43654146 original size:18 final size:19
Alignment explanation
Indices: 43654114--43654151 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
43654104 GATACGCCAC
43654114 AATCCTGAACATCTT-TAA
1 AATCCTGAACATCTTCTAA
43654132 AATCCTGAGAC-TCTTCTAA
1 AATCCTGA-ACATCTTCTAA
43654151 A
1 A
43654152 CACATGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (19 bp):
AATCCTGAACATCTTCTAA
Found at i:43661931 original size:39 final size:39
Alignment explanation
Indices: 43661874--43662029 Score: 117
Period size: 39 Copynumber: 3.9 Consensus size: 39
43661864 AATATATGTG
*
43661874 AAAATATAATAATATATAAAAAG-ATGTAAAATA-ATAATTT
1 AAAA-ATAATAATATATAAAAAGTA-ATAAAATATATAA-TT
*
43661914 AAGAAA-AATAATATATAATAAGTAATAAAATATATAATT
1 AA-AAATAATAATATATAAAAAGTAATAAAATATATAATT
* * ** *
43661953 AAAAATAATATTATAATAAAAAATTTTATAATATATAATAT
1 AAAAATAATAATAT-ATAAAAAGTAATAAAATATATAAT-T
*
43661994 AAAAA-AATTAA-A-ATAAACAAATAATAAATATATATA
1 AAAAATAA-TAATATATAAA-AAGTAATAAA-ATATATA
43662030 TGAATAATAT
Statistics
Matches: 95, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
38 8 0.08
39 40 0.42
40 37 0.39
41 10 0.11
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (39 bp):
AAAAATAATAATATATAAAAAGTAATAAAATATATAATT
Found at i:43661940 original size:17 final size:16
Alignment explanation
Indices: 43661901--43661974 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 16
43661891 AAAAAGATGT
* *
43661901 AAAATAATAATTTAAGA
1 AAAATAAT-ATATAATA
43661918 AAAATAATATATAATA
1 AAAATAATATATAATA
*
43661934 AGTAATAAAATATATAATTA
1 A--AA-ATAATATATAA-TA
43661954 AAAATAATATTATAATA
1 AAAATAATA-TATAATA
43661971 AAAA
1 AAAA
43661975 ATTTTATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
16 7 0.15
17 19 0.40
18 9 0.19
19 10 0.21
20 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAATAATATATAATA
Found at i:43661959 original size:19 final size:20
Alignment explanation
Indices: 43661900--43661969 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 20
43661890 TAAAAAGATG
43661900 TAAAATA-ATAATTTAAGAAA
1 TAAAATATATAA-TTAAGAAA
*
43661920 -AATAATATATAA-TAAGTAA
1 TAA-AATATATAATTAAGAAA
43661939 TAAAATATATAATTAA-AAA
1 TAAAATATATAATTAAGAAA
*
43661958 TAATAT-TATAAT
1 TAAAATATATAAT
43661970 AAAAAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 6 0.14
19 24 0.56
20 9 0.21
21 4 0.09
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
TAAAATATATAATTAAGAAA
Found at i:43661975 original size:19 final size:18
Alignment explanation
Indices: 43661917--43662019 Score: 70
Period size: 16 Copynumber: 5.6 Consensus size: 18
43661907 ATAATTTAAG
43661917 AAAAATAATATATAATAA
1 AAAAATAATATATAATAA
* *
43661935 GTAATAA-AATATATAAT-T
1 --AAAAATAATATATAATAA
43661953 AAAAATAATATTATAATAA
1 AAAAATAATA-TATAATAA
*
43661972 AAAATTTTATAATATATAATAT
1 AAAA----ATAATATATAATAA
*
43661994 AAAAA-AAT-TAAAATAA
1 AAAAATAATATATAATAA
*
43662010 ACAAATAATA
1 AAAAATAATA
43662020 AATATATATA
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
16 14 0.21
17 10 0.15
18 7 0.11
19 14 0.21
20 4 0.06
22 11 0.17
23 6 0.09
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (18 bp):
AAAAATAATATATAATAA
Found at i:43662027 original size:40 final size:40
Alignment explanation
Indices: 43661936--43662029 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
43661926 ATATAATAAG
*
43661936 TAATAAAATATATAATTAAAAATAATATTATAATAAAAAA
1 TAATAAAATATATAATTAAAAATAATATTAAAATAAAAAA
** *
43661976 TTTTATAATATATAA-TATAAAA-AA-ATTAAAATAAACAAA
1 TAATAAAATATATAATTA-AAAATAATATTAAAATAAA-AAA
43662015 TAATAAATATATATA
1 TAATAAA-ATATATA
43662030 TGAATAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
38 10 0.23
39 11 0.25
40 23 0.52
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (40 bp):
TAATAAAATATATAATTAAAAATAATATTAAAATAAAAAA
Found at i:43679015 original size:40 final size:40
Alignment explanation
Indices: 43678917--43679124 Score: 277
Period size: 40 Copynumber: 5.3 Consensus size: 40
43678907 AACCGGTTAA
* *
43678917 TAAGTCCCGAAGGCATTTGTGCTAGTGAGTA-ATTCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
*
43678956 TAAG-CCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
*
43678995 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
*
43679035 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* *
43679075 T-AGTCCCGAAGGCATTTGAGCGAGT-AGTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
*
43679112 TAAATCCCGAAGG
1 TAAGTCCCGAAGG
43679125 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 6, Indels: 9
0.91 0.03 0.05
Matches are distributed among these distances:
37 4 0.03
38 48 0.30
39 34 0.21
40 72 0.45
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
Found at i:43679032 original size:78 final size:78
Alignment explanation
Indices: 43678917--43679124 Score: 280
Period size: 78 Copynumber: 2.7 Consensus size: 78
43678907 AACCGGTTAA
* * *
43678917 TAAGTCCCGAAGGCATTTGTGCTAGTGAGTA-ATTCCGGCTAAGCCCGAAGGCATTTGTGCTAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTAGTATA-TCCGGCTAAGCCCGAAGGCATTTGTGCGAGT
43678981 GACTA-ATTCCGGGC
65 GACTATA-TCCGGGC
*
43678995 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTAGTATATCC-GGCTAAG-CCCGAAGGCATTTGTGCGAG
*
43679060 TTACTATATCCGGGC
64 TGACTATATCCGGGC
* *
43679075 T-AGTCCCGAAGGCATTTGAGCGAG-TAGTATATCCGGCTAAATCCCGAAGG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTAGTATATCCGGCT-AAGCCCGAAGG
43679125 TACTTGGTTT
Statistics
Matches: 117, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
77 12 0.10
78 42 0.36
79 30 0.26
80 32 0.27
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTAGTATATCCGGCTAAGCCCGAAGGCATTTGTGCGAGTG
ACTATATCCGGGC
Found at i:43686949 original size:39 final size:40
Alignment explanation
Indices: 43686895--43687110 Score: 291
Period size: 40 Copynumber: 5.5 Consensus size: 40
43686885 CGGATGATAA
*
43686895 CCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
43686934 CCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* *
43686973 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
43687013 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
43687053 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
*
43687093 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43687111 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
39 64 0.39
40 101 0.61
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:43691014 original size:26 final size:26
Alignment explanation
Indices: 43690976--43691059 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
43690966 CATGAAATTC
* *
43690976 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
43691002 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
43691028 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
43691054 TTATCA
1 TTATCA
43691060 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:43692986 original size:101 final size:97
Alignment explanation
Indices: 43692798--43693039 Score: 288
Period size: 100 Copynumber: 2.4 Consensus size: 97
43692788 TATTGTAAGG
* * * *
43692798 TCACATGTGTAGTACTAATTGTAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCGCA-GTGTAGTACT
*
43692863 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
65 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * *
43692898 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGCA-TGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATT-GGT--CGCAGTGTAGTA
* * * *
43692962 CTAAGTGCAGGCTACTACGTGTACCGGGTAATTGG
63 CTAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* * *
43692997 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
43693040 AGCTTTGGCT
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
99 39 0.32
100 42 0.34
101 37 0.30
103 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (97 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCGCAGTGTAGTACTA
AGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:43693035 original size:49 final size:50
Alignment explanation
Indices: 43692795--43693027 Score: 267
Period size: 49 Copynumber: 4.7 Consensus size: 50
43692785 ATCTATTGTA
* * * *
43692795 AGGTCACATGTGTAGTACTAATTGTAGGCTACTACGTGTACCGGATTATT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
43692845 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
43692895 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
43692945 AGGTCACGCA--TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATT
1 AGGT--CGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
43692995 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
43693028 TGCGTACCAG
Statistics
Matches: 152, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
47 4 0.03
49 67 0.44
50 41 0.27
51 38 0.25
52 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:43712477 original size:44 final size:45
Alignment explanation
Indices: 43712415--43712583 Score: 150
Period size: 45 Copynumber: 3.8 Consensus size: 45
43712405 CGCAAATCAC
* * * *
43712415 CGGCATT-TCGCCTGCTAGGATCG-AGGCCCGATTA-TCATTTCAT
1 CGGCATTATAGCCTGCTAGGATCGAAAGCCCGAATAGT-ATCTCAT
* *
43712458 CGGCATTATAGTCTGCTAGGCTCGAAAGCCCGAATAGTATCTCAT
1 CGGCATTATAGCCTGCTAGGATCGAAAGCCCGAATAGTATCTCAT
* * * * *
43712503 CGGCATTATAGCCTGCTAAG-CCCAAAGGCCCGAATAGTGTCTCAC
1 CGGCATTATAGCCTGCTAGGATCGAAA-GCCCGAATAGTATCTCAT
* * *
43712548 CGGCATAATAGCTTGCTAGGCTC-AAAGGCCCGAATA
1 CGGCATTATAGCCTGCTAGGATCGAAA-GCCCGAATA
43712584 TAATACCAGC
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
43 7 0.07
44 17 0.16
45 79 0.75
46 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGATCGAAAGCCCGAATAGTATCTCAT
Found at i:43712503 original size:45 final size:44
Alignment explanation
Indices: 43712454--43712583 Score: 172
Period size: 45 Copynumber: 2.9 Consensus size: 44
43712444 GATTATCATT
43712454 TCATCGGCATTATAGTCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCATCGGCATTATAG-CTGCTAGGCTC-AAAGGCCCGAATAGTATC
* * *
43712499 TCATCGGCATTATAGCCTGCTAAGCCCAAAGGCCCGAATAGTGTC
1 TCATCGGCATTATAG-CTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
43712544 TCACCGGCATAATAGCTTGCTAGGCTCAAAGGCCCGAATA
1 TCATCGGCATTATAGC-TGCTAGGCTCAAAGGCCCGAATA
43712584 TAATACCAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 4 0.05
45 71 0.95
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (44 bp):
TCATCGGCATTATAGCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:43712717 original size:38 final size:38
Alignment explanation
Indices: 43712581--43712708 Score: 202
Period size: 38 Copynumber: 3.4 Consensus size: 38
43712571 AAAGGCCCGA
* *
43712581 ATATAATACCAGCACTAGGCCTGCGGGATTTAACCAGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
*
43712619 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
* *
43712657 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
*
43712695 ATATAATTCCAGCA
1 ATATAATACCAGCA
43712709 TATAGCCTGT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 83 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCAGG
Found at i:43718905 original size:10 final size:10
Alignment explanation
Indices: 43718892--43718949 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
43718882 GAAGAAGAAT
43718892 GAGCTGAAAC
1 GAGCTGAAAC
*
43718902 GAGCTGAATTC
1 GAGCTGAA-AC
* *
43718913 GAGCTCAAAT
1 GAGCTGAAAC
*
43718923 GAGCTGAATC
1 GAGCTGAAAC
* *
43718933 GAGCTCAAGC
1 GAGCTGAAAC
43718943 GAGCTGA
1 GAGCTGA
43718950 TTTGAGCTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
10 29 0.78
11 8 0.22
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (10 bp):
GAGCTGAAAC
Found at i:43718946 original size:20 final size:20
Alignment explanation
Indices: 43718888--43718949 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
43718878 AGATGAAGAA
*
43718888 GAAT-GAGCTGAAACGAGCT
1 GAATCGAGCTCAAACGAGCT
*
43718907 GAATTCGAGCTCAAATGAGCT
1 GAA-TCGAGCTCAAACGAGCT
*
43718928 GAATCGAGCTCAAGCGAGCT
1 GAATCGAGCTCAAACGAGCT
43718948 GA
1 GA
43718950 TTTGAGCTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 3 0.08
20 18 0.49
21 16 0.43
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (20 bp):
GAATCGAGCTCAAACGAGCT
Found at i:43718956 original size:20 final size:20
Alignment explanation
Indices: 43718892--43718957 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
43718882 GAAGAAGAAT
*
43718892 GAGCTGAAACGAGCTGAATTC
1 GAGCTCAAACGAGCTG-ATTC
* *
43718913 GAGCTCAAATGAGCTGAATC
1 GAGCTCAAACGAGCTGATTC
* *
43718933 GAGCTCAAGCGAGCTGATTT
1 GAGCTCAAACGAGCTGATTC
43718953 GAGCT
1 GAGCT
43718958 GAATGGCGCA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 24 0.63
21 14 0.37
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (20 bp):
GAGCTCAAACGAGCTGATTC
Found at i:43720960 original size:17 final size:18
Alignment explanation
Indices: 43720940--43720977 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
43720930 TTGTTCACTT
*
43720940 TCTTTTATTTTTTTC-TC
1 TCTTTTATTTGTTTCTTC
*
43720957 TCTTTTCTTTGTTTCTTC
1 TCTTTTATTTGTTTCTTC
43720975 TCT
1 TCT
43720978 CGATTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (18 bp):
TCTTTTATTTGTTTCTTC
Found at i:43721054 original size:17 final size:17
Alignment explanation
Indices: 43721025--43721071 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
43721015 CTTTTCTTGC
*
43721025 CTCTCTTTTCTTTTGAT
1 CTCTCTTTTCTTTTCAT
43721042 CTCT-TTTTGCTTTTCAT
1 CTCTCTTTT-CTTTTCAT
43721059 CTTCTTCTTTTCT
1 C-TC-TCTTTTCT
43721072 CGCTTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 4 0.16
17 12 0.48
18 2 0.08
19 3 0.12
20 4 0.16
ACGTcount: A:0.04, C:0.26, G:0.04, T:0.66
Consensus pattern (17 bp):
CTCTCTTTTCTTTTCAT
Found at i:43723057 original size:20 final size:20
Alignment explanation
Indices: 43722992--43723058 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
43722982 GAAGAAGGAA
* *
43722992 TGAGCTGAAACGAGTTGAATT
1 TGAGCTCAAACGAGCTG-ATT
* *
43723013 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACGAGCTGATT
* *
43723033 CGAGCTCAAGCGAGCTGATT
1 TGAGCTCAAACGAGCTGATT
43723053 TGAGCT
1 TGAGCT
43723059 GAATGGCGCA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGATT
Found at i:43724786 original size:3 final size:3
Alignment explanation
Indices: 43724780--43724810 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
43724770 TAATAATAAA
*
43724780 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
43724811 TGGTAAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:43724798 original size:18 final size:18
Alignment explanation
Indices: 43724756--43724810 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
43724746 TTGATGCAAA
* * *
43724756 AAGAAAAAGAATAATAAT
1 AAGAAAAAGAAGAAGAAG
*
43724774 AATAAAAAGAAGAAGAAG
1 AAGAAAAAGAAGAAGAAG
43724792 AAGAAAAAGAAGAAGAAG
1 AAGAAAAAGAAGAAGAAG
43724810 A
1 A
43724811 TGGTAAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (18 bp):
AAGAAAAAGAAGAAGAAG
Found at i:43728494 original size:23 final size:23
Alignment explanation
Indices: 43728468--43728594 Score: 104
Period size: 23 Copynumber: 5.7 Consensus size: 23
43728458 TCAAGATGAG
43728468 TATTAAATTAATATTAATAAATT
1 TATTAAATTAATATTAATAAATT
* *
43728491 TATTAAAATAATATT-ATTAATT
1 TATTAAATTAATATTAATAAATT
* *
43728513 TAATAAATT--TATTATTAAA-T
1 TATTAAATTAATATTAATAAATT
* * * * *
43728533 TAATAAAATACTA-TCA-AGATT
1 TATTAAATTAATATTAATAAATT
43728554 AGTATTAAATTAATATTAATAAATT
1 --TATTAAATTAATATTAATAAATT
*
43728579 TATTAAACTAATATTA
1 TATTAAATTAATATTA
43728595 TTTTTGGAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
20 15 0.19
21 5 0.06
22 15 0.19
23 39 0.49
24 2 0.03
25 4 0.05
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTAAATTAATATTAATAAATT
Found at i:43728517 original size:17 final size:18
Alignment explanation
Indices: 43728497--43728538 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
43728487 AATTTATTAA
*
43728497 AATAA-TATTATTAATTT
1 AATAATTATTATTAAATT
43728514 AATAAATTTATTATTAAATT
1 AAT-AA-TTATTATTAAATT
43728534 AATAA
1 AATAA
43728539 AATACTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 2 0.10
19 2 0.10
20 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATAATTATTATTAAATT
Found at i:43728524 original size:88 final size:88
Alignment explanation
Indices: 43728432--43728596 Score: 312
Period size: 88 Copynumber: 1.9 Consensus size: 88
43728422 AGATAATCAC
43728432 TTTATTATTAAATTAATAAAATACTATCAAGATGAGTATTAAATTAATATTAATAAATTTATTAA
1 TTTATTATTAAATTAATAAAATACTATCAAGATGAGTATTAAATTAATATTAATAAATTTATTAA
43728497 AATAATATTATTAATTTAATAAA
66 AATAATATTATTAATTTAATAAA
*
43728520 TTTATTATTAAATTAATAAAATACTATCAAGATTAGTATTAAATTAATATTAATAAATTTATTAA
1 TTTATTATTAAATTAATAAAATACTATCAAGATGAGTATTAAATTAATATTAATAAATTTATTAA
*
43728585 ACTAATATTATT
66 AATAATATTATT
43728597 TTTGGAATAG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (88 bp):
TTTATTATTAAATTAATAAAATACTATCAAGATGAGTATTAAATTAATATTAATAAATTTATTAA
AATAATATTATTAATTTAATAAA
Found at i:43728527 original size:20 final size:20
Alignment explanation
Indices: 43728502--43728539 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43728492 ATTAAAATAA
*
43728502 TATTATTAATTTAATAAATT
1 TATTATTAAATTAATAAATT
43728522 TATTATTAAATTAATAAA
1 TATTATTAAATTAATAAA
43728540 ATACTATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTATTAAATTAATAAATT
Found at i:43731081 original size:25 final size:25
Alignment explanation
Indices: 43731047--43731095 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
43731037 GATAGACCTG
43731047 TGATAGCATGACATTCTATTGTATT
1 TGATAGCATGACATTCTATTGTATT
*
43731072 TGATAGCATGACATTCTGTTGTAT
1 TGATAGCATGACATTCTATTGTAT
43731096 GTTGCAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (25 bp):
TGATAGCATGACATTCTATTGTATT
Found at i:43743359 original size:21 final size:22
Alignment explanation
Indices: 43743333--43743386 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
43743323 TGACCTGCAG
**
43743333 CACGGGCGTGT-CCTAGGGTCA
1 CACGGGCGTGTCCCTAGGACCA
* *
43743354 CACGGGCATGTCCCTTGGACCA
1 CACGGGCGTGTCCCTAGGACCA
43743376 CACGGGCGTGT
1 CACGGGCGTGT
43743387 GGGCCCTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (22 bp):
CACGGGCGTGTCCCTAGGACCA
Found at i:43747653 original size:43 final size:42
Alignment explanation
Indices: 43747579--43747729 Score: 176
Period size: 42 Copynumber: 3.6 Consensus size: 42
43747569 ATACCAATGT
* * ** *
43747579 CATATGCCAGATATGGTCTTACATGGGATCTCCTATTGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATTGATGC
* ** *
43747621 CAATAGCCCAGCGATGGTCTTACACGAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATATTGATGC
* ** *
43747664 CATATCCTAGATATGGTCTTACATAAAATCTCATAATGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATTGATGC
43747706 CATATCCCAGATATGGTCTTACAC
1 CATATCCCAGATATGGTCTTACAC
43747730 ATAGTCTCAG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 56 0.63
43 33 0.37
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATTGATGC
Found at i:43751057 original size:40 final size:40
Alignment explanation
Indices: 43750996--43751250 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
43750986 CGGATGATAA
*
43750996 CGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TC
*
43751035 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TC
*
43751075 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATC
*
43751115 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATC
*
43751155 CGGGCTAAGTCCCGAAGGCATTTGTGCGACT-ACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATC
*
43751194 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATC
* *
43751234 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
43751251 TACTTGGTTT
Statistics
Matches: 206, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
39 62 0.30
40 143 0.69
41 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATC
Found at i:43759108 original size:40 final size:40
Alignment explanation
Indices: 43759053--43759293 Score: 350
Period size: 40 Copynumber: 6.1 Consensus size: 40
43759043 CGGATGATAA
*
43759053 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
43759093 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
43759133 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
43759173 CC-GGCTAAGTCCCGAAGGCATTTGGGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
*
43759212 CCGGGCTAAGTCCCGAA-GCATTTGTGCGAACT-ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATAT
*
43759251 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
43759290 CCGG
1 CCGG
43759294 TTAAAGCCCG
Statistics
Matches: 189, Mismatches: 7, Indels: 11
0.91 0.03 0.05
Matches are distributed among these distances:
39 84 0.44
40 104 0.55
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:43759221 original size:79 final size:80
Alignment explanation
Indices: 43759053--43759293 Score: 348
Period size: 79 Copynumber: 3.0 Consensus size: 80
43759043 CGGATGATAA
* *
43759053 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
* * *
43759117 GTGCTAGTGACTA-ATT
65 GAGCGAGTTACTATA-T
43759133 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
43759197 GGCGAGTTACTATAT
66 AGCGAGTTACTATAT
**
43759212 CCGGGCTAAGTCCCGAA-GCATTTGTGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
43759276 AGCGAG-TGCTATAT
66 AGCGAGTTACTATAT
43759290 CCGG
1 CCGG
43759294 TTAAAGCCCG
Statistics
Matches: 149, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
78 33 0.22
79 76 0.51
80 39 0.26
81 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTTACTATAT
Found at i:43764460 original size:17 final size:17
Alignment explanation
Indices: 43764438--43764470 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43764428 TTTTTATCAT
*
43764438 TTATCATTTATCGGGCA
1 TTATCATTGATCGGGCA
43764455 TTATCATTGATCGGGC
1 TTATCATTGATCGGGC
43764471 TTTTTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (17 bp):
TTATCATTGATCGGGCA
Found at i:43769788 original size:19 final size:19
Alignment explanation
Indices: 43769760--43769803 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
43769750 ACGTTCTTCT
* *
43769760 TTTTCCCGTCTCCCATTCG
1 TTTTCTCGTCTCACATTCG
43769779 TTTTCTCGTCTCACATTCG
1 TTTTCTCGTCTCACATTCG
43769798 TTTTCT
1 TTTTCT
43769804 TTTTCTTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.34, G:0.09, T:0.50
Consensus pattern (19 bp):
TTTTCTCGTCTCACATTCG
Found at i:43773077 original size:53 final size:54
Alignment explanation
Indices: 43772999--43773109 Score: 188
Period size: 53 Copynumber: 2.1 Consensus size: 54
43772989 TAACTTGTAT
* *
43772999 CACACGGTCGACCACACGCCTGTGTGCTAGGCCGTGTAGTACACACGGCCGAGA
1 CACACGGTCGACCACACACCCGTGTGCTAGGCCGTGTAGTACACACGGCCGAGA
*
43773053 CACAC-GTCGACCACACACCCGTGTGCTAGGCCGTGTAGTACACACGGCTGAGA
1 CACACGGTCGACCACACACCCGTGTGCTAGGCCGTGTAGTACACACGGCCGAGA
43773106 CACA
1 CACA
43773110 TGCCCGTGTC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 49 0.91
54 5 0.09
ACGTcount: A:0.24, C:0.34, G:0.27, T:0.14
Consensus pattern (54 bp):
CACACGGTCGACCACACACCCGTGTGCTAGGCCGTGTAGTACACACGGCCGAGA
Found at i:43782363 original size:13 final size:13
Alignment explanation
Indices: 43782345--43782369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43782335 CATAAACATG
43782345 AAAAAATAAATTT
1 AAAAAATAAATTT
43782358 AAAAAATAAATT
1 AAAAAATAAATT
43782370 ATCAAATTAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAAATAAATTT
Found at i:43782864 original size:8 final size:8
Alignment explanation
Indices: 43782851--43782888 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
43782841 ACATCATATA
43782851 AATTTTTT
1 AATTTTTT
43782859 AATTTTTT
1 AATTTTTT
43782867 AATTCTTTT
1 AATT-TTTT
43782876 -ATTTTTT
1 AATTTTTT
*
43782883 TATTTT
1 AATTTT
43782889 CTTTTACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 4 0.14
8 20 0.71
9 4 0.14
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (8 bp):
AATTTTTT
Found at i:43782890 original size:18 final size:17
Alignment explanation
Indices: 43782851--43782894 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
43782841 ACATCATATA
43782851 AATT-TTTTAATTTTTT
1 AATTCTTTTAATTTTTT
*
43782867 AATTCTTTTATTTTTTT
1 AATTCTTTTAATTTTTT
*
43782884 ATTTTCTTTTA
1 A-ATTCTTTTA
43782895 CTTAATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 12 0.50
18 8 0.33
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (17 bp):
AATTCTTTTAATTTTTT
Found at i:43785477 original size:34 final size:34
Alignment explanation
Indices: 43785433--43785531 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 34
43785423 CATTACCTAT
**
43785433 ACTTTGTTTTATTACAACTTTGCCTTCAAGGC-A
1 ACTTTGTTTTATTACAACTTTAACTTCAAGGCTA
*
43785466 AGCTTTGTTTTATTACAACTTTAACTTCAAGTCTA
1 A-CTTTGTTTTATTACAACTTTAACTTCAAGGCTA
* * *
43785501 ACTTTGTTCTATTACAGCTTTATCTTCAAGG
1 ACTTTGTTTTATTACAACTTTAACTTCAAGG
43785532 GGAGCTCAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
33 1 0.02
34 54 0.95
35 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (34 bp):
ACTTTGTTTTATTACAACTTTAACTTCAAGGCTA
Found at i:43785563 original size:35 final size:35
Alignment explanation
Indices: 43785516--43785695 Score: 125
Period size: 35 Copynumber: 5.2 Consensus size: 35
43785506 GTTCTATTAC
* *
43785516 AGCTTTAT-CTTCAAGGGGAGCTCAAATTATCAAAA
1 AGCTTT-TCCTTCAAGGCGAGCTCGAATTATCAAAA
* * * *
43785551 AGCTTTTCCTTCAAAGCAAGCTCGAATTGTAAAAA
1 AGCTTTTCCTTCAAGGCGAGCTCGAATTATCAAAA
* * ** * *
43785586 ATCTTTAT-CTTCAAGGCTAGCTTCGTTTTAT-TACA
1 AGCTTT-TCCTTCAAGGCGAGC-TCGAATTATCAAAA
* ***
43785621 A-CTTTACCTTCAAAATGAGCTCGAATTATCAAAA
1 AGCTTTTCCTTCAAGGCGAGCTCGAATTATCAAAA
* * *
43785655 AGCATTACCTTCAAGGCGAGCTCAAATTATCAAAA
1 AGCTTTTCCTTCAAGGCGAGCTCGAATTATCAAAA
*
43785690 GGCTTT
1 AGCTTT
43785696 GCTTTCAATG
Statistics
Matches: 109, Mismatches: 30, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
33 7 0.06
34 17 0.16
35 78 0.72
36 7 0.06
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (35 bp):
AGCTTTTCCTTCAAGGCGAGCTCGAATTATCAAAA
Found at i:43785632 original size:34 final size:34
Alignment explanation
Indices: 43785438--43785633 Score: 112
Period size: 34 Copynumber: 5.7 Consensus size: 34
43785428 CCTATACTTT
* *
43785438 GTTTTATTACAACTTTGCCTTCAAGGCAAGCTTT
1 GTTTTATTACAACTTTACCTTCAAGGCAAGCTTC
* * *
43785472 GTTTTATTACAACTTTAACTTCAAGTCTAA-CTTT
1 GTTTTATTACAACTTTACCTTCAAGGC-AAGCTTC
* * * **
43785506 GTTCTATTACAGCTTTATCTTCAAGGGGAGC-TC
1 GTTTTATTACAACTTTACCTTCAAGGCAAGCTTC
*** * * * *
43785539 AAATTATCAAAAAGCTTTTCCTTCAAAGCAAGC-TC
1 GTTTTAT-TACAA-CTTTACCTTCAAGGCAAGCTTC
* * * * *
43785574 GAATTGTA-AAAAATCTTTATCTTCAAGGCTAGCTTC
1 G--TTTTATTACAA-CTTTACCTTCAAGGCAAGCTTC
43785610 GTTTTATTACAACTTTACCTTCAA
1 GTTTTATTACAACTTTACCTTCAA
43785634 AATGAGCTCG
Statistics
Matches: 119, Mismatches: 35, Indels: 16
0.70 0.21 0.09
Matches are distributed among these distances:
33 5 0.04
34 68 0.57
35 41 0.34
36 3 0.03
37 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (34 bp):
GTTTTATTACAACTTTACCTTCAAGGCAAGCTTC
Found at i:43785641 original size:104 final size:104
Alignment explanation
Indices: 43785484--43785682 Score: 254
Period size: 104 Copynumber: 1.9 Consensus size: 104
43785474 TTTATTACAA
* * * * **
43785484 CTTTAACTTCAAGTCTAACTTTGTTCTATTACAGCTTTATCTTCAAGGGGAGCTCAAATTATCAA
1 CTTTAACTTCAAGGCTAACTTCGTTCTATTACAACTTTACCTTCAAAAGGAGCTCAAATTATCAA
* * *
43785549 AAAGCTTTTCCTTCAAAGCAAGCTCGAATTGTAAAAAAT
66 AAAGCATTACCTTCAAAGCAAGCTCAAATTGTAAAAAAT
* * * * *
43785588 CTTTATCTTCAAGGCTAGCTTCGTTTTATTACAACTTTACCTTCAAAATGAGCTCGAATTATCAA
1 CTTTAACTTCAAGGCTAACTTCGTTCTATTACAACTTTACCTTCAAAAGGAGCTCAAATTATCAA
* *
43785653 AAAGCATTACCTTCAAGGCGAGCTCAAATT
66 AAAGCATTACCTTCAAAGCAAGCTCAAATT
43785683 ATCAAAAGGC
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
104 79 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.34
Consensus pattern (104 bp):
CTTTAACTTCAAGGCTAACTTCGTTCTATTACAACTTTACCTTCAAAAGGAGCTCAAATTATCAA
AAAGCATTACCTTCAAAGCAAGCTCAAATTGTAAAAAAT
Found at i:43785712 original size:104 final size:104
Alignment explanation
Indices: 43785510--43785725 Score: 227
Period size: 104 Copynumber: 2.1 Consensus size: 104
43785500 AACTTTGTTC
* * ** * * *
43785510 TATTACAGCTTTATCTTCAAGGGGAGCTCAAATTATCAAAAAGCTTTTCCTTCAAAGCAAGCTCG
1 TATTACAACTTTACCTTCAAAAGGAGCTCAAATTATCAAAAAGCATTACCTTCAAAGCAAGCTCA
* * ** *
43785575 AATTGTAAAAAATCTTTATCTTCAAGGCTAGCTTCGTTT
66 AATTATAAAAAAGCTTTATCTTCAAGGAGAGCTTCATTT
* * * *
43785614 TATTACAACTTTACCTTCAAAATGAGCTCGAATTATCAAAAAGCATTACCTTCAAGGCGAGCTCA
1 TATTACAACTTTACCTTCAAAAGGAGCTCAAATTATCAAAAAGCATTACCTTCAAAGCAAGCTCA
* * * *
43785679 AATTATCAAAAGGCTTT-GCTTTCAATGAGAGCTTCATTT
66 AATTATAAAAAAGCTTTATC-TTCAAGGAGAGCTTCATTT
*
43785718 TATGACAA
1 TATTACAA
43785726 ATTTGTCTTC
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
103 1 0.01
104 89 0.99
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (104 bp):
TATTACAACTTTACCTTCAAAAGGAGCTCAAATTATCAAAAAGCATTACCTTCAAAGCAAGCTCA
AATTATAAAAAAGCTTTATCTTCAAGGAGAGCTTCATTT
Found at i:43786791 original size:23 final size:25
Alignment explanation
Indices: 43786765--43786811 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
43786755 TATCATTCAT
*
43786765 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
43786788 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
43786812 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:43787240 original size:46 final size:46
Alignment explanation
Indices: 43787072--43787291 Score: 269
Period size: 46 Copynumber: 5.0 Consensus size: 46
43787062 TTTGACGTGA
* * * * * *
43787072 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
43787118 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43787164 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43787210 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43787248 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
43787292 AGAGCACACT
Statistics
Matches: 154, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
38 33 0.21
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 107 0.69
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:43787256 original size:38 final size:38
Alignment explanation
Indices: 43787205--43787280 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
43787195 CATTTCATAT
43787205 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
43787243 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
43787281 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:43789434 original size:27 final size:28
Alignment explanation
Indices: 43789403--43789480 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 28
43789393 TCTTTATATA
43789403 CTAAAAAAATAATAATAAAATATCTTAT
1 CTAAAAAAATAATAATAAAATATCTTAT
** *
43789431 -TAAAGTATTAATAA-AATAATAT-TTAT
1 CTAAAAAAATAATAATAA-AATATCTTAT
** *
43789457 CTAATTAAATAATTATAAAATATC
1 CTAAAAAAATAATAATAAAATATC
43789481 AAAATATCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
26 6 0.16
27 30 0.79
28 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.37
Consensus pattern (28 bp):
CTAAAAAAATAATAATAAAATATCTTAT
Found at i:43790901 original size:69 final size:69
Alignment explanation
Indices: 43790782--43790958 Score: 194
Period size: 69 Copynumber: 2.6 Consensus size: 69
43790772 TGGTAGATCA
* *
43790782 ACCTTCAAGGCAAGCTTCATTCTATTACAACTTTGCCTTCAAGGTAAGCTCAGATTATCAAAAAG
1 ACCTTCAAGGCAAGCTTCATTCTATTACAACCTTGCCTTCAACGTAAGCTCAGATTATCAAAAAG
*
43790847 CTTT
66 CTTC
* * * * * *
43790851 ACCTTCAAGGCGAGCTTCGTTTTATTACAACGCTT-CCTTCAACGTGAGCTCGGATTATTAAAAA
1 ACCTTCAAGGCAAGCTTCATTCTATTACAAC-CTTGCCTTCAACGTAAGCTCAGATTATCAAAAA
43790915 GCTTC
65 GCTTC
* ** * * * *
43790920 GCCTTCAAACCAAGCTTTATTTTATTACATCTTTGCCTT
1 ACCTTCAAGGCAAGCTTCATTCTATTACAACCTTGCCTT
43790959 TGAGGCAGGC
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
68 2 0.02
69 85 0.96
70 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (69 bp):
ACCTTCAAGGCAAGCTTCATTCTATTACAACCTTGCCTTCAACGTAAGCTCAGATTATCAAAAAG
CTTC
Found at i:43798516 original size:37 final size:37
Alignment explanation
Indices: 43798466--43798544 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43798456 TTATTACGAA
* * *
43798466 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
43798503 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
43798540 GTCTT
1 GTCTT
43798545 TAGAGATCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:43798887 original size:47 final size:47
Alignment explanation
Indices: 43798663--43799718 Score: 1752
Period size: 47 Copynumber: 22.1 Consensus size: 47
43798653 CCCTTCGGGA
* * * * * * *
43798663 CTTATCACATTTATACAATTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
43798710 CCTGTCACATATATATACACTCCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43798759 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43798808 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43798857 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43798904 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43798953 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43799000 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43799049 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43799096 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43799143 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43799190 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43799237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43799284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43799333 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43799382 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43799429 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43799476 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43799523 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43799572 CTTATCACATATATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43799619 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43799666 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43799715 CTTA
1 CTTA
43799719 CTATCATTTC
Statistics
Matches: 964, Mismatches: 33, Indels: 22
0.95 0.03 0.02
Matches are distributed among these distances:
47 560 0.58
49 404 0.42
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43798894 original size:96 final size:96
Alignment explanation
Indices: 43798663--43799718 Score: 1790
Period size: 96 Copynumber: 11.0 Consensus size: 96
43798653 CCCTTCGGGA
* * * * * * * * *
43798663 CTTATCACATTTATACAATTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
**
43798728 ACTCCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
43798759 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
43798824 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
43798857 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43798922 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
43798953 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43799018 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43799049 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43799112 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
43799143 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43799206 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43799237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43799302 ACTTTCACATTCATCACATCGGCCATTAGAC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
43799333 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
43799396 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
43799429 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
43799492 ACTTTCACATTCATCACATCGGCCATTAGAC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
43799523 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
43799586 ACACTTTCACATTCCTCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
43799619 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
43799684 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
43799715 CTTA
1 CTTA
43799719 CTATCATTTC
Statistics
Matches: 919, Mismatches: 31, Indels: 20
0.95 0.03 0.02
Matches are distributed among these distances:
94 323 0.35
96 464 0.50
98 132 0.14
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43799076 original size:143 final size:141
Alignment explanation
Indices: 43798663--43799718 Score: 1752
Period size: 143 Copynumber: 7.4 Consensus size: 141
43798653 CCCTTCGGGA
* * * * * * * * *
43798663 CTTATCACATTTATACAATTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
** *
43798728 ACTCCCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
43798793 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
*
43798808 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
43798873 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
43798938 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
* *
43798953 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
43799018 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43799083 TCGGCCATTAGGC
129 TCGGCCATTAGGC
43799096 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
43799161 TTTCACATTCATCACATCGGCCATTAGACCCTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
43799226 GGCCATTAGGC
131 GGCCATTAGGC
43799237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
43799302 ACTTTCACATTCATCACATCGGCCATTAGACCCTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
43799367 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
43799382 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
43799447 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
43799512 GGCCATTAGAC
131 GGCCATTAGGC
*
43799523 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
43799588 ACTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
43799653 TCGGCCATTAGGC
129 TCGGCCATTAGGC
43799666 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
43799719 CTATCATTTC
Statistics
Matches: 874, Mismatches: 27, Indels: 22
0.95 0.03 0.02
Matches are distributed among these distances:
141 184 0.21
143 412 0.47
145 240 0.27
147 38 0.04
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:43803402 original size:8 final size:8
Alignment explanation
Indices: 43803389--43803425 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
43803379 CAACAGCCCA
43803389 CTTTTCGG
1 CTTTTCGG
*
43803397 CTTTTCTG
1 CTTTTCGG
43803405 CTTTTCGG
1 CTTTTCGG
43803413 CTTTTCGG
1 CTTTTCGG
43803421 CTTTT
1 CTTTT
43803426 GCCGTTTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.24, G:0.19, T:0.57
Consensus pattern (8 bp):
CTTTTCGG
Found at i:43806738 original size:19 final size:19
Alignment explanation
Indices: 43806662--43806738 Score: 66
Period size: 20 Copynumber: 4.0 Consensus size: 19
43806652 CACTCTCAAT
* *
43806662 CATATAAACAGTAAATCATT
1 CATAT-AACAGTAATTCATC
*
43806682 C-GATAACAGTAATTCATC
1 CATATAACAGTAATTCATC
* * *
43806700 CATTTAAACAATACTTCATC
1 CATAT-AACAGTAATTCATC
*
43806720 CATATAATAGTAATTCATC
1 CATATAACAGTAATTCATC
43806739 TGTATAACAC
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
18 13 0.30
19 14 0.32
20 17 0.39
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (19 bp):
CATATAACAGTAATTCATC
Found at i:43806968 original size:24 final size:23
Alignment explanation
Indices: 43806919--43806983 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
43806909 TGATGGACAT
* *
43806919 TAAGCTCTATTGAGATG-AAACGG
1 TAAGCTCTA-TGAGTTGAAAACAG
43806942 TAAGCTCTGATGAGTTGAAAACAG
1 TAAGCTCT-ATGAGTTGAAAACAG
43806966 TAAGCTCTTATGAGTTGA
1 TAAGCTC-TATGAGTTGA
43806984 TATATCAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 14 0.38
24 22 0.59
25 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (23 bp):
TAAGCTCTATGAGTTGAAAACAG
Found at i:43817917 original size:30 final size:30
Alignment explanation
Indices: 43817883--43818011 Score: 116
Period size: 30 Copynumber: 4.3 Consensus size: 30
43817873 AATTGGTTGT
* *
43817883 CGAAGCTAACTCATTTCATAATTCGATAGC
1 CGAAGCTATCTCTTTTCATAATTCGATAGC
* * * *
43817913 CGAAGCTATCTTTTTTCATAATTTGATGGT
1 CGAAGCTATCTCTTTTCATAATTCGATAGC
* * *
43817943 CGTCA-CCATCTCTTTTCATAATTCGATAGT
1 CG-AAGCTATCTCTTTTCATAATTCGATAGC
* * * *
43817973 CAAAGCTACCCCTTTTCATAATTTTGATAGC
1 CGAAGCTATCTCTTTTCATAA-TTCGATAGC
43818004 CGAAGCTA
1 CGAAGCTA
43818012 CCCTTTTTCA
Statistics
Matches: 77, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
29 1 0.01
30 61 0.79
31 15 0.19
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (30 bp):
CGAAGCTATCTCTTTTCATAATTCGATAGC
Found at i:43818016 original size:30 final size:30
Alignment explanation
Indices: 43817954--43818022 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
43817944 GTCACCATCT
*
43817954 CTTTTCATAATTCGATAGTCAAAGCTACCC
1 CTTTTCATAATTCGATAGCCAAAGCTACCC
* *
43817984 CTTTTCATAATTTTGATAGCCGAAGCTACCC
1 CTTTTCATAA-TTCGATAGCCAAAGCTACCC
*
43818015 TTTTTCAT
1 CTTTTCAT
43818023 TTTTTGAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (30 bp):
CTTTTCATAATTCGATAGCCAAAGCTACCC
Found at i:43838791 original size:15 final size:15
Alignment explanation
Indices: 43838771--43838800 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43838761 CCGAATGAGG
43838771 CCTAAGAAAGAGCTA
1 CCTAAGAAAGAGCTA
43838786 CCTAAGAAAGAGCTA
1 CCTAAGAAAGAGCTA
43838801 ACATACTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (15 bp):
CCTAAGAAAGAGCTA
Found at i:43841764 original size:34 final size:34
Alignment explanation
Indices: 43841716--43841808 Score: 150
Period size: 34 Copynumber: 2.7 Consensus size: 34
43841706 GCGCATACAT
* *
43841716 TCTGGGCCTAAGCCCATATCAGTAACAGTAGCAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
43841750 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCGG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
43841784 TCTGGGCTTTAGCCCATTTCAGTAA
1 TCTGGGCCTTAGCCCATTTCAGTAA
43841809 TATTAATCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
Found at i:43841826 original size:18 final size:18
Alignment explanation
Indices: 43841812--43841879 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
43841802 TCAGTAATAT
43841812 TAATCAATGCAGTAACAG
1 TAATCAATGCAGTAACAG
*
43841830 TAATCAGTGC-GATAACCA-
1 TAATCAATGCAG-TAA-CAG
*
43841848 TGATCAATGCAGTAACAG
1 TAATCAATGCAGTAACAG
*
43841866 TAATCAGTGCAGTA
1 TAATCAATGCAGTA
43841880 TGTAAGCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 3 0.07
18 35 0.85
19 3 0.07
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.24
Consensus pattern (18 bp):
TAATCAATGCAGTAACAG
Found at i:43842187 original size:23 final size:23
Alignment explanation
Indices: 43842138--43842187 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
43842128 ACCCCATGCA
*
43842138 ATGCAACATAGTATTATACATGG
1 ATGCAACATAATATTATACATGG
43842161 ATGCAACATACATA-TA-ACATGG
1 ATGCAACATA-ATATTATACATGG
43842183 CATGC
1 -ATGC
43842188 TCAAATACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 16 0.67
24 2 0.08
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (23 bp):
ATGCAACATAATATTATACATGG
Found at i:43842269 original size:27 final size:27
Alignment explanation
Indices: 43842222--43842345 Score: 105
Period size: 27 Copynumber: 4.7 Consensus size: 27
43842212 GAACAAATAT
* ** *
43842222 GTCATTTTACCTTACCGGGGTATTACA
1 GTCATTTTACCCTACAAGGGTATTTCA
43842249 GTCATTTTACCCTACAAGGGTATTTCA
1 GTCATTTTACCCTACAAGGGTATTTCA
** **
43842276 GTCATCCTACCCTA-TGGGGTATTT--
1 GTCATTTTACCCTACAAGGGTATTTCA
* *
43842300 -TCATTTTACCCTATGAA-GGTATTTCG
1 GTCATTTTACCCTA-CAAGGGTATTTCA
*
43842326 GTCATTTTACCCTATAAGGG
1 GTCATTTTACCCTACAAGGG
43842346 CAAAATCATC
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
23 11 0.14
24 7 0.09
26 10 0.13
27 50 0.64
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTTCA
Found at i:43845061 original size:25 final size:25
Alignment explanation
Indices: 43845004--43845077 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
43844994 TTTCTAATCC
* * *
43845004 CAATTTTACTCCAATAAAATTTTGA
1 CAATTTTACTCTAGTAAAATTTTAA
*
43845029 CAACTTTACTCTAGTAAAATTTTAA
1 CAATTTTACTCTAGTAAAATTTTAA
** *
43845054 TGATTTTACCCTCAGTAAAATTTT
1 CAATTTTACTCT-AGTAAAATTTT
43845078 GAGAAAATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 29 0.73
26 11 0.28
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (25 bp):
CAATTTTACTCTAGTAAAATTTTAA
Found at i:43866546 original size:31 final size:31
Alignment explanation
Indices: 43866508--43866578 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
43866498 TTACTAGGCG
43866508 GAAGCCTTTTCATAAATCATATCACTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTGGGCC
*
43866539 GAAGCCTTTTCATAAATCATTTCACTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTGGGCC
43866570 GAAGCCTTT
1 GAAGCCTTT
43866579 ACTGTAAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (31 bp):
GAAGCCTTTTCATAAATCATATCACTGGGCC
Found at i:43866649 original size:42 final size:42
Alignment explanation
Indices: 43866602--43866693 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
43866592 TGGCTCATAG
* ** *
43866602 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
43866644 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
43866686 GCCCATTT
1 GCCCATTT
43866694 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:43866910 original size:26 final size:26
Alignment explanation
Indices: 43866839--43866935 Score: 144
Period size: 25 Copynumber: 3.8 Consensus size: 26
43866829 CTCTTTTAAT
*
43866839 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
43866864 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
43866889 AACTGGAGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
43866915 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
43866936 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 33 0.50
26 33 0.50
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:43867010 original size:20 final size:20
Alignment explanation
Indices: 43866985--43867071 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
43866975 TTATGAATAC
*
43866985 ATCATGAGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
43867005 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
43867025 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
43867045 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
43867065 ATCATGT
1 ATCATGT
43867072 ATATCATATC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:43867868 original size:27 final size:27
Alignment explanation
Indices: 43867777--43867860 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
43867767 GGGCATATTC
*
43867777 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
43867804 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
43867831 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
43867858 GTC
1 GTC
43867861 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:43867877 original size:27 final size:26
Alignment explanation
Indices: 43867777--43867870 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
43867767 GGGCATATTC
*
43867777 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
43867804 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
43867831 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
43867858 GTCTTTTTACCTA
1 GTCACTTTACCTA
43867871 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.07
27 54 0.89
28 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:43867952 original size:27 final size:27
Alignment explanation
Indices: 43867907--43868231 Score: 221
Period size: 27 Copynumber: 12.0 Consensus size: 27
43867897 TAAAATGGTG
* * *
43867907 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
** * *
43867934 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* * **
43867961 TTTCT-ATAATTTCTAGAAAGTTAAGGGTA
1 TTT-TGGTAATTT-TATAAA-CCAAGGGTA
* **
43867990 TTTCT-GTAATTTTGTAAATTAAGGGTA
1 TTT-TGGTAATTTTATAAACCAAGGGTA
* **
43868017 TTTTGGTAATTTTACAAATTAAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* *
43868044 TTTTGGTAATTTCACAAACC-AGTGGTA
1 TTTTGGTAATTTTATAAACCAAG-GGTA
* * *
43868071 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
*
43868098 TTTTGGTAATTTTACAAACC-AGAGGTA
1 TTTTGGTAATTTTATAAACCAAG-GGTA
* * * * *
43868125 TTATAGCAATTTTACAGACC-AGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* *
43868151 TTTTGGTAATTTTACT-AATCGAGGGTA
1 TTTTGGTAATTTTA-TAAACCAAGGGTA
*
43868178 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
* * * * *
43868205 CTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTATAAACCAAGGGTA
43868232 AAACAGTAAT
Statistics
Matches: 244, Mismatches: 44, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
26 22 0.09
27 196 0.80
28 9 0.04
29 17 0.07
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTATAAACCAAGGGTA
Found at i:43868197 original size:80 final size:80
Alignment explanation
Indices: 43868011--43868204 Score: 248
Period size: 81 Copynumber: 2.4 Consensus size: 80
43868001 TTGTAAATTA
** * * *
43868011 AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTCACAAACCAGTGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTATAGCAATTTCACAAACCAGTGGTATTTTG
*
43868076 GTAATTTTACAAACT
66 GTAATTTTACAAACG
* *
43868091 AGGGGTATTTTGGTAATTTTACAAACC-AGAGGTATTATAGCAATTTTACAGACCAG-GGTATTT
1 A-GGGTATTTTGGTAATTTTACAAACCAAG-GGTATTATAGCAATTTCACAAACCAGTGGTATTT
*
43868154 TGGTAATTTTACTAATCG
64 TGGTAATTTTAC-AAACG
**
43868172 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTA
43868205 CTTTAGTAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
80 49 0.49
81 50 0.51
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTATAGCAATTTCACAAACCAGTGGTATTTTG
GTAATTTTACAAACG
Found at i:43868216 original size:80 final size:79
Alignment explanation
Indices: 43868011--43868217 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 79
43868001 TTGTAAATTA
** * *
43868011 AGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTCACAAACCAGTGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTA-TTTAGTAATTTTACAAACCAGTGGTATTTTG
*
43868076 GTAATTTTACAAACT
65 GTAATTTTACAAACG
* *
43868091 AGGGGTATTTTGGTAATTTTACAAACC-AGAGGTATTATAGCAATTTTACAGACCAG-GGTATTT
1 A-GGGTATTTTGGTAATTTTACAAACCAAG-GGTATT-TAGTAATTTTACAAACCAGTGGTATTT
*
43868154 TGGTAATTTTACTAATCG
63 TGGTAATTTTAC-AAACG
**
43868172 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTACTTTAGTAATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTA-TTTAGTAATTTT
43868218 GTAAATCGAG
Statistics
Matches: 110, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
80 60 0.55
81 50 0.45
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTAGTAATTTTACAAACCAGTGGTATTTTGG
TAATTTTACAAACG
Done.