Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 203 of 297
Found at i:68869191 original size:101 final size:100
Alignment explanation
Indices: 68869001--68869184 Score: 251
Period size: 100 Copynumber: 1.8 Consensus size: 100
68868991 GTGAGGCCAT
* * * *
68869001 GTGTGTAGTACTAAGTGCAGGCTACTACGTGCACCGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGCACCAGATAATTGGTCACACGTGTAGTACTAAGT
*
68869066 GCAGGCTACTATGCGTACGCGATAACTTTTATCAC
66 GCAGGCTACTACGCGTACGCGATAACTTTTATCAC
* * * ** *
68869101 GTGTGTAGTACTAAGTGCAAGCTACTACTTGTATCAGATGGTTAGGTCACGCGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGCACCAGATAATT-GGTCACACGTGTAGTACTAAG
*
68869166 TGCAGGCTACTACGTGTAC
65 TGCAGGCTACTACGCGTAC
68869185 TGGATAATTG
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 36 0.51
101 35 0.49
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAAGCTACTACGTGCACCAGATAATTGGTCACACGTGTAGTACTAAGT
GCAGGCTACTACGCGTACGCGATAACTTTTATCAC
Found at i:68875035 original size:40 final size:40
Alignment explanation
Indices: 68874980--68875921 Score: 1696
Period size: 40 Copynumber: 23.6 Consensus size: 40
68874970 GATGATAACG
*
68874980 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875020 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875060 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875100 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875140 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875180 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875220 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875260 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875300 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875340 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875380 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875420 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875460 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875500 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875540 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875580 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875620 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875660 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
*
68875700 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68875740 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
* * * *
68875780 GGGCTAAGTCCGGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
* * *
68875820 GGGCTAAGTCCCGAAGGCATTTGTAG-GAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGTATTTGT-GCTAGTGACTAAT-TCC
* * *
68875860 GGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATAT-C
1 GGGCTAAGTCCCGAAGGTATTTGTGC-TAGTGACTAAT-TCC
*
68875899 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGTATTTG
68875922 AGCGAGTAGC
Statistics
Matches: 888, Mismatches: 10, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
39 27 0.03
40 858 0.97
41 3 0.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
Found at i:68884221 original size:40 final size:40
Alignment explanation
Indices: 68883780--68884202 Score: 681
Period size: 40 Copynumber: 10.6 Consensus size: 40
68883770 GATGATAACG
*
68883780 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68883820 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68883860 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68883900 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68883940 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68883980 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
68884020 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
* * *
68884060 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
* * * *
68884100 GGGCTAAGTCCCGAAGGCAGTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAAT-TCC
* * * *
68884140 GAGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACT-ATATCC
1 GGGCTAAGTCCCGAAGGTATTTGTGC-TAGTGACTAAT-TCC
*
68884180 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGTATTTG
68884203 AGCGAGTAGC
Statistics
Matches: 371, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
39 2 0.01
40 367 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTAATTCC
Found at i:68888749 original size:48 final size:48
Alignment explanation
Indices: 68888659--68889061 Score: 262
Period size: 48 Copynumber: 8.5 Consensus size: 48
68888649 TGTGTGCTAT
* * *
68888659 TGTAAGA-CATGTCTGGAACAT-GCATCGGCCA-CATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CATTAATATGAGAGCCAG
* * *
68888705 TGTAAGACCATGTCTGGTACATGGCATCGGCATTAATACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAGAGCCAG
* * * ** *
68888753 TGTAAGA-CATGTTTAGGACAT-GCATCGGCCTCGAGATGTA-AGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATG-AGAGCCAG
* *
68888799 TGTAAGA-CATGTCTGGGACAT-GCATCGGC--TACGATAT--GTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTA--ATATGAGAGCCAG
* * * *
68888843 TGTAAGACCATGTCTGGGACATGGCATCGGCACGT-ATA-GAGGTGTCAT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA-TTAATATGA-GAGCCAG
* * ** *
68888891 TGTAAGACCATGTTTGGGGCATGGCATCGGCAAGAATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTAATA--TGAGAGCCAG
* ** * * * ** * *
68888941 TGTAAGACCATGTATGGGGTATGGCGTTGGCCTCGATTTCGATAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTAATAT-GAGAGCCAG
** * *
68888990 TGTAAGACCATGTCTGGGACATGGCATCAAC-TTAAT-GGATGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGA-GAGCCAG
*
68889037 CGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
68889062 TTTAGCATTA
Statistics
Matches: 282, Mismatches: 54, Indels: 41
0.75 0.14 0.11
Matches are distributed among these distances:
44 11 0.04
45 14 0.05
46 67 0.24
47 56 0.20
48 68 0.24
49 32 0.11
50 32 0.11
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTAATATGAGAGCCAG
Found at i:68888801 original size:46 final size:45
Alignment explanation
Indices: 68888659--68888873 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 45
68888649 TGTGTGCTAT
* * *
68888659 TGTAAGACATGTCTGGAACATGCATCGGCC-AC-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTACGA-GAT--GTGCCAG
* * ** * *
68888705 TGTAAGACCATGTCTGGTACATGGCATCGGCATTAATACGA-GAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTACGA-GATGTGCCAG
* *
68888753 TGTAAGACATGTTTAGGACATGCATCGGCCT-CGAGATGTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGT--GCCAG
* *
68888799 TGTAAGACATGTCTGGGACATGCATCGG-CTACGATATGTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGCCAG
68888843 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
68888874 ACGTATAGAG
Statistics
Matches: 139, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.01
44 13 0.09
45 17 0.12
46 59 0.42
47 24 0.17
48 21 0.15
50 1 0.01
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGCCAG
Found at i:68890209 original size:20 final size:21
Alignment explanation
Indices: 68890171--68890209 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
68890161 TTATAATGAC
68890171 CACACGGGCGTGTTGCCCTTT
1 CACACGGGCGTGTTGCCCTTT
68890192 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
68890210 ATTTCAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTT
Found at i:68895732 original size:13 final size:13
Alignment explanation
Indices: 68895714--68895738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68895704 TTTTGGACCC
68895714 CTTGTAACATGAA
1 CTTGTAACATGAA
68895727 CTTGTAACATGA
1 CTTGTAACATGA
68895739 GCTTTTTGTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CTTGTAACATGAA
Found at i:68896652 original size:46 final size:49
Alignment explanation
Indices: 68896554--68896771 Score: 205
Period size: 46 Copynumber: 4.7 Consensus size: 49
68896544 AGATGTAAGC
*
68896554 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATAT-G-T--
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTGATATCGATAG
*
68896598 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TGATAT-G-TGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTGATATCGAT-AG
* * * *
68896645 -AGCGTAAGACTATGTCTGGGACATGGCATCGGC-CTTGATTTCGATAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTGATATCGATAG
* * *
68896692 TTAGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TTA-ATGGATGAG
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTGATATCGAT-AG
68896739 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCG
68896772 ACATTATACC
Statistics
Matches: 149, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
44 16 0.11
45 17 0.11
46 48 0.32
47 37 0.25
48 3 0.02
49 28 0.19
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTGATATCGATAG
Found at i:68896710 original size:95 final size:96
Alignment explanation
Indices: 68896591--68896771 Score: 271
Period size: 95 Copynumber: 1.9 Consensus size: 96
68896581 TCGGCTACGA
68896591 GATATGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATAT-G-TGAG-AGCGTAAG
1 GATATGTTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTGA-ATGGATGAGCAGCGTAAG
*
68896653 ACTATGTCTGGGACATGGCATCGGCCTTGATTTC
63 ACCATGTCTGGGACATGGCATCGGCCTTGATTTC
* *
68896687 GATA-GTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATGGATGAGCCAGTGTAAGAC
1 GATATGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTGAATGGATGAG-CAGCGTAAGAC
68896751 CATGTCTGGGACATGGCATCG
65 CATGTCTGGGACATGGCATCG
68896772 ACATTATACC
Statistics
Matches: 78, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
92 2 0.03
93 5 0.06
94 5 0.06
95 33 0.42
96 33 0.42
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (96 bp):
GATATGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTGAATGGATGAGCAGCGTAAGACC
ATGTCTGGGACATGGCATCGGCCTTGATTTC
Found at i:68899759 original size:12 final size:13
Alignment explanation
Indices: 68899742--68899770 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
68899732 ATATACATAG
68899742 TTTTCTTTTTTT-
1 TTTTCTTTTTTTC
68899754 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
68899767 TTTT
1 TTTT
68899771 AAGAACAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:68900646 original size:17 final size:17
Alignment explanation
Indices: 68900624--68900656 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
68900614 AAGAAGAACA
68900624 AATGAATCTTAAAAACG
1 AATGAATCTTAAAAACG
68900641 AATGAATCTTAAAAAC
1 AATGAATCTTAAAAAC
68900657 TTAATAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
AATGAATCTTAAAAACG
Found at i:68903426 original size:28 final size:28
Alignment explanation
Indices: 68903394--68903521 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
68903384 ATAGTAAGTC
*
68903394 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
68903422 CGCACACTTAGTGCCTACATAATCAAACT
1 CGCACACTTAGTG-CTATATAATCAAACT
68903451 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
68903479 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
68903508 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68903522 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:68903452 original size:29 final size:28
Alignment explanation
Indices: 68903394--68903521 Score: 159
Period size: 29 Copynumber: 4.5 Consensus size: 28
68903384 ATAGTAAGTC
* *
68903394 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
68903422 CGCACACTTAGTGCCTACATAATCAAACT
1 CGCACACTTAGTG-CTACATAATCAAACT
*
68903451 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
68903479 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCTA--CATAATCAAACT
68903508 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68903522 CAATCTCATG
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
28 42 0.48
29 45 0.51
30 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:68903512 original size:57 final size:57
Alignment explanation
Indices: 68903393--68903521 Score: 181
Period size: 57 Copynumber: 2.3 Consensus size: 57
68903383 TATAGTAAGT
*
68903393 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCCTACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCCTACATAATCAAAC
* * * *
68903450 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTG-CTATGCA-ATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCCTA--CATAATCAAAC
68903507 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
68903522 CAATCTCATG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
56 3 0.05
57 59 0.92
58 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCCTACATAATCAAAC
Found at i:68908200 original size:21 final size:21
Alignment explanation
Indices: 68908176--68908232 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 21
68908166 CTTCAGTCTT
68908176 GATGATGAATCCGGCTTCTGA
1 GATGATGAATCCGGCTTCTGA
*
68908197 GATG--G-ATCTGGCTTCTGA
1 GATGATGAATCCGGCTTCTGA
*
68908215 GATGGATCAAT-CGGCTTC
1 GAT-GATGAATCCGGCTTC
68908233 CTTGGGGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
18 15 0.52
19 2 0.07
21 10 0.34
22 2 0.07
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (21 bp):
GATGATGAATCCGGCTTCTGA
Found at i:68908209 original size:18 final size:18
Alignment explanation
Indices: 68908188--68908222 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
68908178 TGATGAATCC
68908188 GGCTTCTGAGATGGATCT
1 GGCTTCTGAGATGGATCT
68908206 GGCTTCTGAGATGGATC
1 GGCTTCTGAGATGGATC
68908223 AATCGGCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (18 bp):
GGCTTCTGAGATGGATCT
Found at i:68911840 original size:17 final size:16
Alignment explanation
Indices: 68911810--68911847 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
68911800 GAAAGAAAGA
68911810 AAAAATTTCCAAAAAT
1 AAAAATTTCCAAAAAT
68911826 AAAAATTTCCAAAAAT
1 AAAAATTTCCAAAAAT
68911842 AAAAAT
1 AAAAAT
68911848 AAATAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATTTCCAAAAAT
Found at i:68916415 original size:40 final size:40
Alignment explanation
Indices: 68916317--68916579 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
68916307 TCCTCGTTCA
* * * ** *
68916317 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
68916356 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
68916396 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
68916436 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
68916476 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
68916516 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
68916556 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
68916580 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:68924365 original size:40 final size:40
Alignment explanation
Indices: 68924267--68924529 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
68924257 TCCTCGTTCA
* * * * *
68924267 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
68924306 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
68924346 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
68924386 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
68924426 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
68924466 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
68924506 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
68924530 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:68924538 original size:41 final size:41
Alignment explanation
Indices: 68924461--68924538 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
68924451 TTAGTATCTC
* * *
68924461 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
68924502 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
68924539 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:68927854 original size:24 final size:24
Alignment explanation
Indices: 68927827--68927899 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
68927817 GAGTTTGTAA
68927827 TGTATATAGCCATATGATTTGGCT
1 TGTATATAGCCATATGATTTGGCT
* *** * *
68927851 TGTAAAT-GATGTATGTTTTGGTT
1 TGTATATAGCCATATGATTTGGCT
* *
68927874 ATGTGTATAACCATATGATTTGGCT
1 -TGTATATAGCCATATGATTTGGCT
68927899 T
1 T
68927900 ATTTTGGTTT
Statistics
Matches: 33, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
23 11 0.33
24 12 0.36
25 10 0.30
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (24 bp):
TGTATATAGCCATATGATTTGGCT
Found at i:68933208 original size:17 final size:18
Alignment explanation
Indices: 68933168--68933219 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
68933158 TCAAATATTA
68933168 AAAAAATATTAAAAATTGG
1 AAAAAATA-TAAAAATTGG
*
68933187 AAAAAATATAAACA-TGG
1 AAAAAATATAAAAATTGG
68933204 TAAAAATATATAAAAA
1 -AAAAA-ATATAAAAA
68933220 AATTGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 10 0.34
19 16 0.55
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (18 bp):
AAAAAATATAAAAATTGG
Found at i:68933577 original size:20 final size:19
Alignment explanation
Indices: 68933554--68933591 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
68933544 AATAATTTTT
*
68933554 AAATTTTTATTAAAATTTAA
1 AAATTTTT-CTAAAATTTAA
68933574 AAATTTTTCTAAAATTTA
1 AAATTTTTCTAAAATTTA
68933592 TTATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTTTTCTAAAATTTAA
Found at i:68933630 original size:18 final size:18
Alignment explanation
Indices: 68933576--68933631 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
68933566 AAATTTAAAA
** *
68933576 ATTTTTCTAAAATTTATT
1 ATTTTTCTAATTTTTAAT
*
68933594 ATTTTT-TATTTTTTATAAT
1 ATTTTTCTA-ATTTT-TAAT
68933613 ATTTTTCTAATTTTTAAT
1 ATTTTTCTAATTTTTAAT
68933631 A
1 A
68933632 AGAGTAGGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 2 0.07
18 13 0.43
19 13 0.43
20 2 0.07
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTCTAATTTTTAAT
Found at i:68933784 original size:63 final size:64
Alignment explanation
Indices: 68933690--68933810 Score: 138
Period size: 63 Copynumber: 1.9 Consensus size: 64
68933680 TTATACATTT
* * * *
68933690 TGAAAATTCAAGTACCCAATTGAACGAAAAAA-AAGGAGGGGCTTAATT-GTTTTTTTTAAGAAG
1 TGAAAATTCAAGTACACAATTGAACGAAAAAAGAA-AAAGGGCTTAATTACTTTTTTTTAAGAAG
* * ** *
68933753 TGAAAGTTCAAGTGCACAATTGAGTGCAAAAAGAAAAAGGGCTTAATTACTTTTTTTT
1 TGAAAATTCAAGTACACAATTGAACGAAAAAAGAAAAAGGGCTTAATTACTTTTTTTT
68933811 TTTTTAAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
63 37 0.79
64 10 0.21
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (64 bp):
TGAAAATTCAAGTACACAATTGAACGAAAAAAGAAAAAGGGCTTAATTACTTTTTTTTAAGAAG
Found at i:68936987 original size:16 final size:18
Alignment explanation
Indices: 68936968--68937005 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
68936958 TATGTTTTAT
68936968 TATTAATATAA-TTAA-A
1 TATTAATATAACTTAATA
*
68936984 TATTATTATAACTTAATA
1 TATTAATATAACTTAATA
68937002 TATT
1 TATT
68937006 TGTCACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTAATATAACTTAATA
Found at i:68942831 original size:27 final size:27
Alignment explanation
Indices: 68942794--68942904 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
68942784 AGCATGGCTG
* *
68942794 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
68942820 CCAGATACAGATA-TTGTGGCAAAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
68942847 CCAGAACAGATATTTATGGCAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
68942874 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
68942902 CCA
1 CCA
68942905 AAACTTTTCC
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.16
27 39 0.52
28 24 0.32
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:68943044 original size:26 final size:27
Alignment explanation
Indices: 68943008--68943071 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
68942998 GAAAATCAAC
*
68943008 CCTAAGGGTATAATGGTAATTTT-ACA
1 CCTAGGGGTATAATGGTAATTTTCACA
*
68943034 CCTAGGGGTATAATGGTAATTTTCATA
1 CCTAGGGGTATAATGGTAATTTTCACA
*
68943061 CTTAGGGGTAT
1 CCTAGGGGTAT
68943072 TTTAGTGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATGGTAATTTTCACA
Found at i:68945325 original size:17 final size:17
Alignment explanation
Indices: 68945305--68945338 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
68945295 ACTTTTAAAA
68945305 GACATAAAAGATTAATT
1 GACATAAAAGATTAATT
68945322 GACATAAAAGATTAATT
1 GACATAAAAGATTAATT
68945339 CTTACCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
GACATAAAAGATTAATT
Found at i:68945931 original size:96 final size:96
Alignment explanation
Indices: 68945799--68945988 Score: 292
Period size: 96 Copynumber: 2.0 Consensus size: 96
68945789 ATGAAAGGAG
***
68945799 GAATACAATTGAGCTATCACCTTTTGTGTAGAGTTATTGGTGTAGTTCAAAAGATCATAAGGGTT
1 GAATACAATTGAGCTATCACCTTTTGCACAGAGTTATTGGTGTAGTTCAAAAGATCATAAGGGTT
*
68945864 TCAAATGTGCAATTAAATATCTAAATAGAGA
66 TCAAATGTCCAATTAAATATCTAAATAGAGA
* *
68945895 GAATATAATTGAGCTATGACCTTTTGCACA-ATGTTATTGGTGTAGTTCAAAAGATCATAAGGGT
1 GAATACAATTGAGCTATCACCTTTTGCACAGA-GTTATTGGTGTAGTTCAAAAGATCATAAGGGT
* *
68945959 TTCCAATGTCCAATTAAATATCTAAGTAGA
65 TTCAAATGTCCAATTAAATATCTAAATAGA
68945989 AAAGAAAGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
95 1 0.01
96 84 0.99
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (96 bp):
GAATACAATTGAGCTATCACCTTTTGCACAGAGTTATTGGTGTAGTTCAAAAGATCATAAGGGTT
TCAAATGTCCAATTAAATATCTAAATAGAGA
Found at i:68953368 original size:29 final size:28
Alignment explanation
Indices: 68953336--68953503 Score: 97
Period size: 28 Copynumber: 6.0 Consensus size: 28
68953326 TGATTCAAGA
*
68953336 ATATATATATAGTCCGCACACTCAGTGCT
1 ATATATATATA-TCCGCACACTTAGTGCT
*
68953365 ATATATA-ATCAACTCGCACACTTAGTGCT
1 ATATATATAT-ATC-CGCACACTTAGTGCT
*
68953394 ACATA-ATCATA-CTCGCACACTTAGTGCT
1 ATATATAT-ATATC-CGCACACTTAGTGCT
* *
68953422 ACATAGT-CA-A-CTCGCACACTTAGTGCT
1 ATATA-TATATATC-CGCACACTTAGTGCT
*
68953449 ACATA-ATCATA-CTCGCACACTTAGTGCT
1 ATATATAT-ATATC-CGCACACTTAGTGCT
*
68953477 ACATAGTCA-AT-T-CGCACACTTAGTGCT
1 ATATA-T-ATATATCCGCACACTTAGTGCT
68953504 GCACAATTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 28
0.79 0.03 0.18
Matches are distributed among these distances:
27 39 0.32
28 50 0.41
29 29 0.24
30 2 0.02
31 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (28 bp):
ATATATATATATCCGCACACTTAGTGCT
Found at i:68953442 original size:27 final size:27
Alignment explanation
Indices: 68953350--68953503 Score: 227
Period size: 27 Copynumber: 5.6 Consensus size: 27
68953340 ATATATAGTC
* *
68953350 CGCACACTCAGTGCTATATATAATCAACT
1 CGCACACTTAGTGC--TACATAATCAACT
68953379 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
68953407 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
68953434 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* *
68953462 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
68953489 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68953504 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
27 52 0.44
28 52 0.44
29 13 0.11
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:68953442 original size:55 final size:55
Alignment explanation
Indices: 68953350--68953503 Score: 254
Period size: 55 Copynumber: 2.8 Consensus size: 55
68953340 ATATATAGTC
* * *
68953350 CGCACACTCAGTGCTATATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGC--TACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
68953407 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
*
68953462 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
68953504 GCACAATTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 80 0.86
57 13 0.14
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCATACT
Found at i:68963287 original size:68 final size:68
Alignment explanation
Indices: 68963155--68963349 Score: 284
Period size: 68 Copynumber: 2.8 Consensus size: 68
68963145 CGATTTATCT
* * * * *
68963155 CGTAGCTCTCTTGTCTACATGGTG-TCCTTCACTTGGAATCACTCATGCGACCTAGCTACATTTA
1 CGTAGCTCTCTTGTCTACATGG-GATACATC-C-T-GTATCACACATGTGACCTAGCTACATTTA
68963219 TCTCTCA
62 TCTCTCA
68963226 CGTAGCTCTCTTGTCTACATGGGATACATCCTGTATCACACATGTGACCTAGCTACATTTATCTC
1 CGTAGCTCTCTTGTCTACATGGGATACATCCTGTATCACACATGTGACCTAGCTACATTTATCTC
68963291 TCA
66 TCA
* *
68963294 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGATCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGGATACATCCTGTATCACACATGTGACCTAGCTAC
68963350 TATATAGTAT
Statistics
Matches: 116, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 87 0.75
69 1 0.01
70 2 0.02
71 26 0.22
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (68 bp):
CGTAGCTCTCTTGTCTACATGGGATACATCCTGTATCACACATGTGACCTAGCTACATTTATCTC
TCA
Found at i:68963382 original size:68 final size:67
Alignment explanation
Indices: 68963192--68963375 Score: 237
Period size: 68 Copynumber: 2.7 Consensus size: 67
68963182 TTCACTTGGA
* * * *
68963192 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
*
68963257 TGT
65 CGT
* *
68963260 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
68963325 CGT
65 CGT
*
68963328 ATCACACATGTGATCTAGCTACTATATAGTATCT-CGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATATA-TATCTACGTAGCTC-TCTTGT
68963376 ACACATGATG
Statistics
Matches: 107, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
67 1 0.01
68 98 0.92
69 4 0.04
70 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (67 bp):
ATCACACATGTGACCTAGCTACATATATATCTACGTAGCTCTCTTGTCTACATGGGATACATCCC
GT
Found at i:68965328 original size:14 final size:14
Alignment explanation
Indices: 68965290--68965342 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
68965280 CTTGCCTCTC
*
68965290 TTTTCTTTTGATAGCT
1 TTTTCTTTTCAT--CT
68965306 TTTTGCTTTTCATCT
1 TTTT-CTTTTCATCT
*
68965321 TTTTCTTTTC-TCG
1 TTTTCTTTTCATCT
68965334 TTTTCTTTT
1 TTTTCTTTT
68965343 TACAAGAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 11 0.32
14 6 0.18
15 6 0.18
16 4 0.12
17 7 0.21
ACGTcount: A:0.06, C:0.17, G:0.08, T:0.70
Consensus pattern (14 bp):
TTTTCTTTTCATCT
Found at i:68967090 original size:26 final size:25
Alignment explanation
Indices: 68967061--68967110 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
68967051 GAAAATGATG
68967061 TGAATGAATGAACAC-CAATGGGCAGA
1 TGAATGAA-GAA-ACGCAATGGGCAGA
68967087 TGAATGAAGAAACTGCAATGGGCA
1 TGAATGAAGAAAC-GCAATGGGCA
68967111 TACAATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 2 0.09
25 3 0.14
26 17 0.77
ACGTcount: A:0.42, C:0.14, G:0.28, T:0.16
Consensus pattern (25 bp):
TGAATGAAGAAACGCAATGGGCAGA
Found at i:68969682 original size:32 final size:32
Alignment explanation
Indices: 68969641--68969706 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
68969631 ACCCTTAGTA
68969641 TCTGTCAGCAACATTACTTCAAAGTTATAGCC
1 TCTGTCAGCAACATTACTTCAAAGTTATAGCC
68969673 TCTGTCAGCAACATTACTTCAAAGTTATAGCC
1 TCTGTCAGCAACATTACTTCAAAGTTATAGCC
68969705 TC
1 TC
68969707 AAATCGTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (32 bp):
TCTGTCAGCAACATTACTTCAAAGTTATAGCC
Found at i:68972526 original size:23 final size:23
Alignment explanation
Indices: 68972496--68972543 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
68972486 CGCAGGGGAC
*
68972496 GACGCTCTATCCTAAGCCATGTT
1 GACGCTCTATCCCAAGCCATGTT
*
68972519 GACGCTCTATCCCAGGCCATGTT
1 GACGCTCTATCCCAAGCCATGTT
68972542 GA
1 GA
68972544 GAGTTTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (23 bp):
GACGCTCTATCCCAAGCCATGTT
Found at i:68978489 original size:13 final size:12
Alignment explanation
Indices: 68978465--68978497 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
68978455 GTTAATAAAT
68978465 AAAATAATAATA
1 AAAATAATAATA
68978477 AAAATATATAATA
1 AAAATA-ATAATA
68978490 AAAA-AATA
1 AAAATAATA
68978498 GGCAATAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 7 0.35
13 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAATAATA
Found at i:68978489 original size:16 final size:15
Alignment explanation
Indices: 68978457--68978497 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
68978447 TCATACGGGT
68978457 TAATAAATAAAATA-A
1 TAATAAA-AAAATATA
68978472 TAAT--AAAAATATA
1 TAATAAAAAAATATA
68978485 TAATAAAAAAATA
1 TAATAAAAAAATA
68978498 GGCAATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.26
13 6 0.26
15 11 0.48
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATAAAAAAATATA
Found at i:68980058 original size:40 final size:40
Alignment explanation
Indices: 68979995--68980205 Score: 223
Period size: 40 Copynumber: 5.3 Consensus size: 40
68979985 GTTCGCATAC
* * * *
68979995 TATGTG-ATTCAGGGTTACAAAAGTATAAATAGGGGCATG
1 TATGTGCATTCAGGGGTACCAAAGTACAAATAGGGGCACG
* * * * *
68980034 TATGTGTATTCAAGGGTACCAAAGTAAAAACAGGGGCATG
1 TATGTGCATTCAGGGGTACCAAAGTACAAATAGGGGCACG
* *
68980074 TATGTGCATTTC-GGGGTACCGAAGTACAAAT-GGGGCACA
1 TATGTGCA-TTCAGGGGTACCAAAGTACAAATAGGGGCACG
* **** *
68980113 TATGTGCATTTAGGGGTATTGTAGTATAAATAGGGGCACG
1 TATGTGCATTCAGGGGTACCAAAGTACAAATAGGGGCACG
68980153 TATGTGCATTCAGGGGTACCAAAGTACAAATTA-GGGCACG
1 TATGTGCATTCAGGGGTACCAAAGTACAAA-TAGGGGCACG
68980193 TATGTGCATTCAG
1 TATGTGCATTCAG
68980206 ATAATAATTA
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.01
39 35 0.24
40 101 0.71
41 5 0.03
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.27
Consensus pattern (40 bp):
TATGTGCATTCAGGGGTACCAAAGTACAAATAGGGGCACG
Found at i:68980130 original size:79 final size:79
Alignment explanation
Indices: 68979995--68980204 Score: 226
Period size: 79 Copynumber: 2.6 Consensus size: 79
68979985 GTTCGCATAC
* * * * *
68979995 TATGTG-ATTCAGGGTTACAAAAGTATAAATAGGGGCATGTATGTGTATTCAAGGGTACCAAAGT
1 TATGTGCATTCAGGGGTACCAAAGTACAAAT-GGGGCACGTATGTGCATTCAAGGGTACCAAAGT
*
68980059 AAAAACAGGGGCATG
65 AAAAACAGGGGCACG
* * * * ****
68980074 TATGTGCATTTC-GGGGTACCGAAGTACAAATGGGGCACATATGTGCATTTAGGGGTATTGTAGT
1 TATGTGCA-TTCAGGGGTACCAAAGTACAAATGGGGCACGTATGTGCATTCAAGGGTACCAAAGT
* *
68980138 ATAAATAGGGGCACG
65 AAAAACAGGGGCACG
*
68980153 TATGTGCATTCAGGGGTACCAAAGTACAAATTAGGGCACGTATGTGCATTCA
1 TATGTGCATTCAGGGGTACCAAAGTACAAA-TGGGGCACGTATGTGCATTCA
68980205 GATAATAATT
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
78 3 0.03
79 67 0.63
80 34 0.32
81 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.27
Consensus pattern (79 bp):
TATGTGCATTCAGGGGTACCAAAGTACAAATGGGGCACGTATGTGCATTCAAGGGTACCAAAGTA
AAAACAGGGGCACG
Found at i:68993196 original size:27 final size:27
Alignment explanation
Indices: 68993166--68993343 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
68993156 ATATTGAGTC
* * * *
68993166 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
68993193 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68993220 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
68993248 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
68993275 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
68993302 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
68993329 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68993344 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:68993305 original size:82 final size:81
Alignment explanation
Indices: 68993187--68993342 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68993177 TGCTATATAA
* *
68993187 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
68993252 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
68993269 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
68993333 CACTTAGTGC
65 CACTTAGTGC
68993343 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:68995816 original size:71 final size:71
Alignment explanation
Indices: 68995700--68995833 Score: 223
Period size: 71 Copynumber: 1.9 Consensus size: 71
68995690 ACGGCATTTA
*
68995700 CGACCGTACAAAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGCAGG
1 CGACCGTACAAAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTATAAGCAGG
68995765 CACTTG
66 CACTTG
* * * *
68995771 CGACCGTATAAAGCCTCGTAAGGTGCCATCTTAATGCTTGATTGAAAGCTATTGTTATAAGCA
1 CGACCGTACAAAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTATAAGCA
68995834 AATTCAATCA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (71 bp):
CGACCGTACAAAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTATAAGCAGG
CACTTG
Found at i:68996832 original size:34 final size:34
Alignment explanation
Indices: 68996794--68996861 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
68996784 TCTTTGTCGC
68996794 AGATTCAAGTCTCGTTGAGTCATCAAATATTTGA
1 AGATTCAAGTCTCGTTGAGTCATCAAATATTTGA
68996828 AGATTCAAGTCTCGTTGAGTCATCAAATATTTGA
1 AGATTCAAGTCTCGTTGAGTCATCAAATATTTGA
68996862 GACTTTTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (34 bp):
AGATTCAAGTCTCGTTGAGTCATCAAATATTTGA
Found at i:69001213 original size:27 final size:27
Alignment explanation
Indices: 69001183--69001360 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
69001173 ATATTGAGTC
* * * *
69001183 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
69001210 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69001237 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
69001265 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
69001292 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
69001319 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
69001346 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69001361 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:69001322 original size:82 final size:81
Alignment explanation
Indices: 69001204--69001359 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
69001194 TGCTATATAA
* *
69001204 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
69001269 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
69001286 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
69001350 CACTTAGTGC
65 CACTTAGTGC
69001360 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:69011340 original size:11 final size:11
Alignment explanation
Indices: 69011324--69011349 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69011314 ATTTCAATGG
69011324 TACACGATTTA
1 TACACGATTTA
69011335 TACACGATTTA
1 TACACGATTTA
69011346 TACA
1 TACA
69011350 TTCACAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (11 bp):
TACACGATTTA
Found at i:69028404 original size:28 final size:29
Alignment explanation
Indices: 69028373--69028427 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
69028363 GATTTTTGAC
*
69028373 AAAAATGTCAATT-AAGGATTAAATTTAG
1 AAAAATGTAAATTGAAGGATTAAATTTAG
* * *
69028401 AAAAGTGTAAATTGAGGGGTTAAATTT
1 AAAAATGTAAATTGAAGGATTAAATTT
69028428 TCAAATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.33
Consensus pattern (29 bp):
AAAAATGTAAATTGAAGGATTAAATTTAG
Found at i:69029977 original size:29 final size:29
Alignment explanation
Indices: 69029944--69030009 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
69029934 CAAGGGGGAG
**
69029944 AGTAATGGGCCATAGCTGTTGATGTGGAA
1 AGTAATGCACCATAGCTGTTGATGTGGAA
*
69029973 AGTAATGCACCATAGCTGTTGATGTTGAA
1 AGTAATGCACCATAGCTGTTGATGTGGAA
69030002 AGTAATGC
1 AGTAATGC
69030010 GCCTACTCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (29 bp):
AGTAATGCACCATAGCTGTTGATGTGGAA
Found at i:69038214 original size:68 final size:68
Alignment explanation
Indices: 69038063--69038227 Score: 174
Period size: 68 Copynumber: 2.4 Consensus size: 68
69038053 CTAGTCAATT
* * * *
69038063 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGTGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGTGACCTAGCAACA
**
69038128 TTTA
65 CATA
* *
69038132 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCAA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGTGACCTAGCAA
69038194 CTACATA
63 C-ACATA
*
69038201 GTATCTCGTAGCTCTCTTGTATACATG
1 -TATCTCGTAGCTCTCTTGTCTACATG
69038228 ATGTGCATTC
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
68 42 0.52
69 7 0.09
70 6 0.07
71 26 0.32
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGTGACCTAGCAACAC
ATA
Found at i:69043160 original size:29 final size:28
Alignment explanation
Indices: 69043071--69043183 Score: 111
Period size: 29 Copynumber: 4.0 Consensus size: 28
69043061 CCCGTATCTA
* *
69043071 GCCCATTAAGCCCAATCATATTCATATG
1 GCCCATTAGGCCCAATCACATTCATATG
* * * *
69043099 GCCAACTAGGCCCAAACCACCTGT-ATATG
1 GCCCATTAGGCCC-AATCACAT-TCATATG
*
69043128 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCC-AATCACATTCATATG
* *
69043157 GCCCGTTAGGCCCAGTCACATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
69043184 TCATGCTCAC
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
28 23 0.33
29 45 0.65
30 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATG
Found at i:69044691 original size:16 final size:16
Alignment explanation
Indices: 69044666--69044698 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
69044656 GAAAATTCTA
*
69044666 GATTTTAGGATTTTTG
1 GATTTCAGGATTTTTG
69044682 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
69044698 G
1 G
69044699 GGCGTTGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.27, T:0.52
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:69050451 original size:28 final size:29
Alignment explanation
Indices: 69050408--69050522 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
69050398 TACCCGTATC
* *
69050408 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * * *
69050436 TGACCCATTAGGCCCAAACCACCTAT-ATG
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
69050465 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
** *
69050494 TGGCCTGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
69050522 T
1 T
69050523 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
28 26 0.37
29 43 0.61
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:69053355 original size:45 final size:45
Alignment explanation
Indices: 69053236--69053355 Score: 141
Period size: 45 Copynumber: 2.7 Consensus size: 45
69053226 ATCCATAATG
* * * ** *
69053236 AACTCGGACCAACTCAATGAGCTCAGATGCTTCACATATACCGCA
1 AACTTGGACCAACTCAACGAGCTTAGATTTTTCACATATACCACA
* * * * *
69053281 AATTTGGACCAACTCAACAAGTTTGGATTTTTCACATATATCACA
1 AACTTGGACCAACTCAACGAGCTTAGATTTTTCACATATACCACA
69053326 AACTTGGACCAACTCAACGAGCTTAGATTT
1 AACTTGGACCAACTCAACGAGCTTAGATTT
69053356 CTTAATTCCT
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (45 bp):
AACTTGGACCAACTCAACGAGCTTAGATTTTTCACATATACCACA
Found at i:69056771 original size:30 final size:30
Alignment explanation
Indices: 69056737--69056797 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
69056727 TCCTTAACTC
69056737 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
69056767 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
69056797 A
1 A
69056798 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:69059817 original size:15 final size:15
Alignment explanation
Indices: 69059743--69059815 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
69059733 GAGATTACAT
*
69059743 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
69059758 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
*
69059773 GAAATCCTAGATAAA
1 GAAATCCAAGATAAA
*
69059788 GAAATCCAAGATACA
1 GAAATCCAAGATAAA
69059803 GAAATCCAAGATA
1 GAAATCCAAGATA
69059816 CAATATCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 50 1.00
ACGTcount: A:0.56, C:0.16, G:0.15, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:69061751 original size:76 final size:76
Alignment explanation
Indices: 69061625--69061788 Score: 265
Period size: 76 Copynumber: 2.2 Consensus size: 76
69061615 GGACAGGGGG
* * *
69061625 ACACGCCCGTGTCTTTAGGTCGTGTAACTCTCTATTAATGACGTCTGCAAAATAAATTGAACCAC
1 ACACGCCCGTGTCCTTAGGCCGTGTAACTCTCTATTAATGACGCCTGCAAAATAAATTGAACCAC
69061690 ACAGCCAGGCC
66 ACAGCCAGGCC
* * *
69061701 ACACGCCTGTGTCCTTAGGCCGTGTAACTCTCTATTTATGATGCCTGCAAAATAAATTGAACCAC
1 ACACGCCCGTGTCCTTAGGCCGTGTAACTCTCTATTAATGACGCCTGCAAAATAAATTGAACCAC
69061766 ACAGCCAGGCC
66 ACAGCCAGGCC
*
69061777 ACACACCCGTGT
1 ACACGCCCGTGT
69061789 GCTAGGTCGT
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (76 bp):
ACACGCCCGTGTCCTTAGGCCGTGTAACTCTCTATTAATGACGCCTGCAAAATAAATTGAACCAC
ACAGCCAGGCC
Found at i:69063753 original size:45 final size:45
Alignment explanation
Indices: 69063704--69063794 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
69063694 CTCGGATGCT
* * *
69063704 TCACATATACCACGAACTTGGACCAACTCAACAAGTTCAGATTTC
1 TCACATATACCACGAACTCGGACCAACTCAACAAGCTCAAATTTC
*
69063749 TCACATATATCACGAACTCGGACCAACTCAACAAGCTCAAATTTC
1 TCACATATACCACGAACTCGGACCAACTCAACAAGCTCAAATTTC
69063794 T
1 T
69063795 TAATTCCAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.30, G:0.10, T:0.24
Consensus pattern (45 bp):
TCACATATACCACGAACTCGGACCAACTCAACAAGCTCAAATTTC
Found at i:69064040 original size:14 final size:16
Alignment explanation
Indices: 69064008--69064046 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
69063998 ATTTACATAA
69064008 CATATATCACATATAT
1 CATATATCACATATAT
*
69064024 CATATATCAC-T-TGT
1 CATATATCACATATAT
69064038 CATATATCA
1 CATATATCA
69064047 TCAGTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (16 bp):
CATATATCACATATAT
Found at i:69066100 original size:43 final size:42
Alignment explanation
Indices: 69066018--69066153 Score: 152
Period size: 42 Copynumber: 3.2 Consensus size: 42
69066008 TGTGATTTTG
* * *
69066018 TGTAAGACCACGTCTGGGACGTTGGCATC-AACTTATGATTTACA
1 TGTAAGACCATGTCTGGGAC-ATGGCATCGTA-TT-TGATTTACA
*
69066062 TGTAAGACCATGTCTGGGACATCGGTATCGTATTTGATTT-CA
1 TGTAAGACCATGTCTGGGACAT-GGCATCGTATTTGATTTACA
*
69066104 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGACA-TGGCATCG-TATTTGATTTACA
69066147 TGTAAGA
1 TGTAAGA
69066154 TCACGTCTAG
Statistics
Matches: 81, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
42 30 0.37
43 24 0.30
44 26 0.32
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGTATTTGATTTACA
Found at i:69066118 original size:42 final size:43
Alignment explanation
Indices: 69066004--69066153 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
69065994 TAGGATTTTT
* ** *
69066004 GATATGTGATTTTGTGTAAGACCACGTCTGGGAC-GTTGGCATC
1 GATATTTGATTTCATGTAAGACCATGTCTGGGACAG-TGGCATC
*
69066047 -A-ACTTATGATTTACATGTAAGACCATGTCTGGGACA-TCGGTATC
1 GATA-TT-TGATTT-CATGTAAGACCATGTCTGGGACAGT-GGCATC
*
69066091 G-TATTTGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATC
1 GATATTTGATTTCATGTAAGACCATGTCTGGGACAGTGGCATC
*
69066133 GATATTTGATTACATGTAAGA
1 GATATTTGATTTCATGTAAGA
69066154 TCACGTCTAG
Statistics
Matches: 90, Mismatches: 8, Indels: 18
0.78 0.07 0.16
Matches are distributed among these distances:
41 1 0.01
42 30 0.33
43 32 0.36
44 26 0.29
45 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GATATTTGATTTCATGTAAGACCATGTCTGGGACAGTGGCATC
Found at i:69068504 original size:46 final size:46
Alignment explanation
Indices: 69068454--69068579 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
69068444 TGGTTGAGCA
* *
69068454 TCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
*
69068500 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
* *
69068546 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
69068580 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
Found at i:69068841 original size:19 final size:20
Alignment explanation
Indices: 69068804--69068841 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
69068794 ATAAGGTGGT
69068804 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
69068824 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
69068842 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:69070469 original size:16 final size:16
Alignment explanation
Indices: 69070448--69070479 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69070438 GTGTTACATT
69070448 TGGTTGGTATCAGAGC
1 TGGTTGGTATCAGAGC
*
69070464 TGGTTGGTATTAGAGC
1 TGGTTGGTATCAGAGC
69070480 ATGATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.09, G:0.38, T:0.34
Consensus pattern (16 bp):
TGGTTGGTATCAGAGC
Found at i:69076166 original size:28 final size:28
Alignment explanation
Indices: 69076103--69076956 Score: 1674
Period size: 28 Copynumber: 30.5 Consensus size: 28
69076093 ATATTAAGTC
* *
69076103 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076130 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076158 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076186 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076214 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076242 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076270 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076298 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076326 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076354 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076382 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076410 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076438 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076466 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076494 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076522 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076550 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076578 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076606 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076634 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076662 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076690 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076718 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076746 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076774 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076802 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076830 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076858 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076886 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
69076914 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
69076942 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69076957 GTACAATTTA
Statistics
Matches: 823, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
27 21 0.03
28 802 0.97
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:69080037 original size:40 final size:40
Alignment explanation
Indices: 69079086--69080011 Score: 1719
Period size: 40 Copynumber: 23.1 Consensus size: 40
69079076 CCAGCATGAT
* * * * * * *
69079086 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*** *
69079126 TGCTCTTCGGGGTTTAG-CACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAA
*
69079166 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079206 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079246 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079286 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079326 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079366 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079406 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079446 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079486 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079526 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079566 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079606 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079646 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079686 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079726 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079766 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079806 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079846 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079886 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69079926 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
69079966 TGCTCTTCGGAACTTAGTTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
69080006 TGCTCT
1 TGCTCT
69080012 CCGGGATTTA
Statistics
Matches: 871, Mismatches: 13, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
39 1 0.00
40 869 1.00
41 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:69080204 original size:38 final size:38
Alignment explanation
Indices: 69080153--69080229 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
69080143 CCATAGCCAC
*
69080153 ATACAACAATCACATTTATAGTCATAACACTCTTTCAA
1 ATACAAAAATCACATTTATAGTCATAACACTCTTTCAA
69080191 ATACAAAAATCACATTTATAGTCATAACACTCTTTCAA
1 ATACAAAAATCACATTTATAGTCATAACACTCTTTCAA
69080229 A
1 A
69080230 ATTGCATCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (38 bp):
ATACAAAAATCACATTTATAGTCATAACACTCTTTCAA
Found at i:69080636 original size:69 final size:69
Alignment explanation
Indices: 69080525--69080662 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
69080515 TCTGATACCA
* * * * *
69080525 ATAAAATTGTACCCCCCCGTCCCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTCACAGACTA
1 ATAAAACTGTAACACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTCACAGACCA
69080590 AATT
66 AATT
69080594 ATAAAACTGTAACACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTCACAGACCA
1 ATAAAACTGTAACACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTCACAGACCA
69080659 AATT
66 AATT
69080663 CGCTTACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (69 bp):
ATAAAACTGTAACACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTCACAGACCA
AATT
Found at i:69082013 original size:37 final size:37
Alignment explanation
Indices: 69081963--69082041 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
69081953 TTATTACGAA
* * *
69081963 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
69082000 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
69082037 GTCTT
1 GTCTT
69082042 TAGAGCTCGG
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:69082231 original size:47 final size:47
Alignment explanation
Indices: 69082160--69082934 Score: 1388
Period size: 47 Copynumber: 16.4 Consensus size: 47
69082150 CCCTTCGGGA
* * * * * *
69082160 CTTATCACATTTATACACTTTCACATCCATCACGTTGACCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
69082207 CCTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082254 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082303 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082350 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082397 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082444 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082491 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082538 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
69082585 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
69082632 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082679 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082728 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082775 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082822 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
69082869 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69082916 CTTATCACATATATACACT
1 CTTATCACATATATACACT
69082935 CACATCACAA
Statistics
Matches: 705, Mismatches: 19, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
47 615 0.87
49 90 0.13
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:69084131 original size:59 final size:59
Alignment explanation
Indices: 69084039--69084157 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
69084029 GCTTAATTTA
69084039 ACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAACTCAAGATACTTAGCCC
1 ACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAACTCAAGATACTTAGCCC
*
69084098 ACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAACTCAAGGTACTTAGCCC
1 ACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAACTCAAGATACTTAGCCC
69084157 A
1 A
69084158 TATATATATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (59 bp):
ACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAACTCAAGATACTTAGCCC
Found at i:69086828 original size:40 final size:40
Alignment explanation
Indices: 69086784--69087055 Score: 409
Period size: 40 Copynumber: 6.8 Consensus size: 40
69086774 CCAGCATGAT
* * * * *
69086784 TGCTCTTCGAGACCTAGCCTGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
69086824 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
69086864 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
69086904 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
69086944 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
69086984 TGCTTTTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
69087024 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
69087056 CTCAATTCTC
Statistics
Matches: 211, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 211 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:69088509 original size:47 final size:47
Alignment explanation
Indices: 69088431--69088827 Score: 695
Period size: 47 Copynumber: 8.4 Consensus size: 47
69088421 CCCTTCGGGA
* * * * * *
69088431 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
69088478 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69088525 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69088572 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69088619 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69088666 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
69088713 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69088760 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
69088809 CTTATCACATATATACACT
1 CTTATCACATATATACACT
69088828 GTCTTGGCTG
Statistics
Matches: 336, Mismatches: 12, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
47 290 0.86
49 46 0.14
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:69091044 original size:16 final size:16
Alignment explanation
Indices: 69091023--69091058 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
69091013 CTCATGTATG
69091023 TTCATAATTTCACAAC
1 TTCATAATTTCACAAC
*
69091039 TTCATAATTTCACAAT
1 TTCATAATTTCACAAC
69091055 TTCA
1 TTCA
69091059 AAAGCGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (16 bp):
TTCATAATTTCACAAC
Found at i:69096785 original size:19 final size:19
Alignment explanation
Indices: 69096761--69096804 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
69096751 AGAGGGCCTA
69096761 CACTCTCATCAGGTAGATT
1 CACTCTCATCAGGTAGATT
69096780 CACTCTCATCAGGTAGATT
1 CACTCTCATCAGGTAGATT
69096799 CACTCT
1 CACTCT
69096805 ATGCGATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.32
Consensus pattern (19 bp):
CACTCTCATCAGGTAGATT
Found at i:69100627 original size:5 final size:5
Alignment explanation
Indices: 69100619--69100645 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
69100609 CAAAAATAAA
69100619 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
69100646 AGTTGCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:69103493 original size:16 final size:17
Alignment explanation
Indices: 69103472--69103504 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
69103462 CACATTGAAG
69103472 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
69103488 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
69103505 CTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:69104896 original size:27 final size:27
Alignment explanation
Indices: 69104866--69104927 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
69104856 AAAAATAGTT
69104866 ATTTTAC-CTTACAAGGGTATTTCGGTA
1 ATTTTACAC-TACAAGGGTATTTCGGTA
*
69104893 ATTTTACACTACAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
69104920 ATTTTACA
1 ATTTTACA
69104928 AACCAGGGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:69108737 original size:27 final size:27
Alignment explanation
Indices: 69108707--69108768 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
69108697 AAAAACATTT
*
69108707 ATTTTACCCTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
69108734 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
69108761 ATTTTACA
1 ATTTTACA
69108769 AATCGTGGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:69108778 original size:27 final size:27
Alignment explanation
Indices: 69108707--69108793 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
69108697 AAAAACATTT
**
69108707 ATTTTACCCTACAAGGGTATTTCGGTA
1 ATTTTACAATACAAGGGTATTTCGGTA
*
69108734 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACAATACAAGGGTATTTCGGTA
** *
69108761 ATTTTACAA-ATCGTGGGTATTTTGGTA
1 ATTTTACAATA-CAAGGGTATTTCGGTA
69108788 ATTTTA
1 ATTTTA
69108794 AGAATCAGGG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (27 bp):
ATTTTACAATACAAGGGTATTTCGGTA
Found at i:69109053 original size:18 final size:19
Alignment explanation
Indices: 69109017--69109063 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
69109007 GTGTGGGGCC
69109017 CACGAGCCCATTAGACCCA
1 CACGAGCCCATTAGACCCA
69109036 CACGA-CCCATTTAG-CCCA
1 CACGAGCCCA-TTAGACCCA
69109054 -ACGAGGCCCA
1 CACGA-GCCCA
69109064 GAATAGCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.16
18 8 0.32
19 13 0.52
ACGTcount: A:0.30, C:0.43, G:0.17, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGACCCA
Found at i:69114475 original size:7 final size:8
Alignment explanation
Indices: 69114460--69114484 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
69114450 ATAAAAGTGG
69114460 AAATAAAA
1 AAATAAAA
69114468 AAATAAAA
1 AAATAAAA
69114476 AAATAAAA
1 AAATAAAA
69114484 A
1 A
69114485 GTCTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:69120260 original size:12 final size:13
Alignment explanation
Indices: 69120243--69120280 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
69120233 ATCCTGGAAT
69120243 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
69120255 ATTAAGAACACATA
1 ATTAAGAACA-AGA
69120269 ATTAAGAACAAG
1 ATTAAGAACAAG
69120281 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:69123737 original size:20 final size:20
Alignment explanation
Indices: 69123708--69123753 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
69123698 AGCACATGTA
* * *
69123708 TTCATAAAATTTCAGAAGTT
1 TTCATTAAATTTCACAACTT
*
69123728 TTCATTAAATTTTACAACTT
1 TTCATTAAATTTCACAACTT
69123748 TTCATT
1 TTCATT
69123754 TTTGTCCCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (20 bp):
TTCATTAAATTTCACAACTT
Found at i:69125242 original size:101 final size:101
Alignment explanation
Indices: 69125060--69125247 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 101
69125050 GAAGCTCTCT
** * *
69125060 GGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACGTATCAATCTGGAACATATAGTAGC
1 GGTACGCATAGTAGCATGCACTTAGTACTACACATGAAACCTATCAATCTGGAACACATAGTAGC
* * *
69125125 CTGCACTTAGTGCTACACACGTAATCAAAGTTAACG
66 CTCCAATTAGTACTACACACGTAATCAAAGTTAACG
* * * *
69125161 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGAAACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCATGCACTTAGTACTACACATGAAACCTATCAATCTGGAACACATAGTAGC
*
69125226 TTCCAATTAGTACTACACACGT
66 CTCCAATTAGTACTACACACGT
69125248 GACCTAAAAC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (101 bp):
GGTACGCATAGTAGCATGCACTTAGTACTACACATGAAACCTATCAATCTGGAACACATAGTAGC
CTCCAATTAGTACTACACACGTAATCAAAGTTAACG
Found at i:69127792 original size:24 final size:23
Alignment explanation
Indices: 69127748--69127793 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
69127738 GTATATAATT
*
69127748 TAAAGATTTCTTGATTAGAAACG
1 TAAAGATTTCTGGATTAGAAACG
69127771 TAAAGAGTTTCTGGAATT-GAAAC
1 TAAAGA-TTTCTGG-ATTAGAAAC
69127794 AAGGCCGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 11 0.55
25 3 0.15
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (23 bp):
TAAAGATTTCTGGATTAGAAACG
Found at i:69130893 original size:47 final size:47
Alignment explanation
Indices: 69130823--69131256 Score: 715
Period size: 47 Copynumber: 9.2 Consensus size: 47
69130813 CCCTTCGGGA
* * * *
69130823 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * * *
69130870 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
69130917 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69130964 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
69131011 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
69131058 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69131105 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
69131152 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
69131199 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
69131246 CTTATCACATA
1 CTTATCACATA
69131257 CACATATCTT
Statistics
Matches: 360, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 360 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:69139433 original size:16 final size:16
Alignment explanation
Indices: 69139412--69139443 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
69139402 AGAATGGAGT
69139412 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
69139428 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
69139444 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:69142111 original size:40 final size:39
Alignment explanation
Indices: 69142013--69142235 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
69142003 TCCTCGTTCA
* * ** * *
69142013 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
69142052 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
* *
69142091 GAATGCCTTCGGGACTTAACCCGGAATTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
69142131 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
69142171 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
69142212 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
69142236 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 39 0.25
40 106 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:69142234 original size:120 final size:119
Alignment explanation
Indices: 69142013--69142235 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
69142003 TCCTCGTTCA
* * *
69142013 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
69142078 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGAATTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGAATTAACAACTCGCACG
* * * * *
69142132 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
69142196 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
69142236 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGAATTAACAACTCGCACG
Found at i:69144613 original size:14 final size:14
Alignment explanation
Indices: 69144594--69144624 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
69144584 TCGATTAAGT
69144594 GAATGTGATAAAAA
1 GAATGTGATAAAAA
69144608 GAATGTGATAAAAA
1 GAATGTGATAAAAA
69144622 GAA
1 GAA
69144625 ATTCATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (14 bp):
GAATGTGATAAAAA
Found at i:69145855 original size:15 final size:16
Alignment explanation
Indices: 69145822--69145865 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
69145812 TATGATATTG
*
69145822 TATCTTAGATTTC-CT
1 TATCTTGGATTTCTCT
69145837 TATCTTGGATTTCTC-
1 TATCTTGGATTTCTCT
*
69145852 TATCTTGGACTTCT
1 TATCTTGGATTTCT
69145866 TAATCCTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 25 0.96
16 1 0.04
ACGTcount: A:0.16, C:0.20, G:0.11, T:0.52
Consensus pattern (16 bp):
TATCTTGGATTTCTCT
Found at i:69148862 original size:46 final size:46
Alignment explanation
Indices: 69148805--69149206 Score: 743
Period size: 46 Copynumber: 8.7 Consensus size: 46
69148795 TGGTTGAGCA
*
69148805 TCCGAAGTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
69148851 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
69148897 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
69148943 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
69148989 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
69149035 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
*
69149081 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
* *
69149127 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
*
69149173 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
69149207 GGGGCGGATT
Statistics
Matches: 351, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
45 1 0.00
46 350 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
Found at i:69150713 original size:40 final size:40
Alignment explanation
Indices: 69150667--69150850 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
69150657 CTTGCACAAG
* * * * *
69150667 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAT
*
69150707 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAT
*
69150747 GCCTTCGGGACTTAGGCCGGATATAGTCAATAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAT
*
69150787 GCCTTCGGGACTTAGCCCGGATATAGTCAATAACACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAT
69150827 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
69150851 CATTCGAATA
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAT
Found at i:69150767 original size:80 final size:80
Alignment explanation
Indices: 69150631--69150850 Score: 302
Period size: 80 Copynumber: 2.8 Consensus size: 80
69150621 CTCAAGAAAT
* * * * * * *
69150631 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
69150693 TCACTAGCATAAATGC
65 TCAATAGCACAAATGC
*
69150709 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGGCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
69150774 CAATAGCACAAATGC
66 CAATAGCACAAATGC
* *
69150789 CTTCGGGACTTAGCCCGGATATAGTCAATAACACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
69150851 CATTCGAATA
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
78 12 0.10
79 16 0.13
80 98 0.78
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CAATAGCACAAATGC
Found at i:69160754 original size:74 final size:72
Alignment explanation
Indices: 69160628--69160782 Score: 283
Period size: 74 Copynumber: 2.1 Consensus size: 72
69160618 CGGCAATGAC
*
69160628 ATGAATTTAAAAATTCACTAAAAATAGTATAAATGGAACTAAATGATGAGTAAGTTATATGAAAT
1 ATGAGTTTAAAAATTCACTAAAAATAGTATAAATGGAACTAAATGATGAGTAAG-T-TATGAAAT
69160693 TGAATATTA
64 TGAATATTA
69160702 ATGAGTTTAAAAATTCACTAAAAATAGTATAAATGGAACTAAATGATGAGTAAGTTATGAAATTG
1 ATGAGTTTAAAAATTCACTAAAAATAGTATAAATGGAACTAAATGATGAGTAAGTTATGAAATTG
69160767 AATATTA
66 AATATTA
69160774 ATGAGTTTA
1 ATGAGTTTA
69160783 TTTTCATGTG
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
72 26 0.32
73 1 0.01
74 53 0.66
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (72 bp):
ATGAGTTTAAAAATTCACTAAAAATAGTATAAATGGAACTAAATGATGAGTAAGTTATGAAATTG
AATATTA
Found at i:69162452 original size:27 final size:27
Alignment explanation
Indices: 69162422--69162475 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
69162412 TCCTAAATCT
* *
69162422 CAGAATGCTTCTGCAGCCAGTGTAGGG
1 CAGAATACTTCGGCAGCCAGTGTAGGG
*
69162449 CAGACTACTTCGGCAGCCAGTGTAGGG
1 CAGAATACTTCGGCAGCCAGTGTAGGG
69162476 AACTCGAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.33, T:0.20
Consensus pattern (27 bp):
CAGAATACTTCGGCAGCCAGTGTAGGG
Found at i:69167484 original size:46 final size:46
Alignment explanation
Indices: 69167434--69167547 Score: 174
Period size: 46 Copynumber: 2.5 Consensus size: 46
69167424 TGGTTGAGCA
*
69167434 TCCGAAGTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
**
69167480 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * *
69167526 CCCGAGCTCATTGAGTTGAGTC
1 TCCGAACTCGTTGAGTTGAGTC
69167548 CAAATTCACT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
Found at i:69169760 original size:40 final size:40
Alignment explanation
Indices: 69169699--69169911 Score: 338
Period size: 40 Copynumber: 5.3 Consensus size: 40
69169689 ATTCGGATTG
* *
69169699 ATAACTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
** *
69169738 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
69169778 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
69169818 ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
69169858 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
69169898 ATAACCGGGCTAAG
1 ATAACCGGGCTAAG
69169912 GCATTTGAGC
Statistics
Matches: 160, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 11 0.07
40 149 0.93
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:69180917 original size:27 final size:26
Alignment explanation
Indices: 69180869--69180928 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
69180859 ACGAGGCTAC
*
69180869 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
69180896 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
69180922 CAGATAT
1 CAGATAT
69180929 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69181017 original size:27 final size:26
Alignment explanation
Indices: 69180969--69181020 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
69180959 GCGAGGCTGC
*
69180969 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
69180995 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
69181021 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69185739 original size:39 final size:40
Alignment explanation
Indices: 69185620--69185759 Score: 237
Period size: 40 Copynumber: 3.5 Consensus size: 40
69185610 TTGGCTCGGA
* * *
69185620 TATAACAACCAGCACGAATGCCTTCAGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
*
69185660 TATAATAACCCACACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
69185700 TATAATAACCCGCACGAATGCCTT-GGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
69185739 TATAATAACCCGCACGAATGC
1 TATAATAACCCGCACGAATGC
69185760 TATGCACATA
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 36 0.38
40 59 0.62
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
Found at i:69198525 original size:40 final size:39
Alignment explanation
Indices: 69198427--69198609 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
69198417 TCCTCGTTCA
* * * *
69198427 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
* *
69198466 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
* *
69198505 GAATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
* * * * *
69198545 AAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCAC
*
69198586 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
69198610 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 38 0.31
40 78 0.63
41 8 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
Found at i:69206124 original size:18 final size:18
Alignment explanation
Indices: 69206097--69206139 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
69206087 TGACTAAGCA
*
69206097 AACATGTAACATATTCAT
1 AACATATAACATATTCAT
69206115 AACATATAACATATTCAT
1 AACATATAACATATTCAT
69206133 AACATAT
1 AACATAT
69206140 TTAAGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (18 bp):
AACATATAACATATTCAT
Found at i:69210058 original size:128 final size:128
Alignment explanation
Indices: 69209830--69210086 Score: 469
Period size: 128 Copynumber: 2.0 Consensus size: 128
69209820 ATAATAACAC
*
69209830 AAGGCCAAAATATCCACATTATTATCACATATTTACTTATCAATTTTCTGCACATATTCACTGTA
1 AAGGCCAAAATATCCACATTATTATCACATATTTACTTATCAATTTTCTGCACATATTCACTATA
* *
69209895 TATTCATATTATTAGCTCATTATAAACACTATCACATGACATGAACAACACACGCTTATATTA
66 TATTCACATTATTAGCACATTATAAACACTATCACATGACATGAACAACACACGCTTATATTA
69209958 AAGGCCAAAATATCCACATTATTATCACATATTTACTTATCAATTTTCTGCACATATTCACTATA
1 AAGGCCAAAATATCCACATTATTATCACATATTTACTTATCAATTTTCTGCACATATTCACTATA
* *
69210023 TATTCACATTATTAGCACATTATAAACTCTATCACATGACATGAACAACACACGCTTCTATTA
66 TATTCACATTATTAGCACATTATAAACACTATCACATGACATGAACAACACACGCTTATATTA
69210086 A
1 A
69210087 CTTTCACATC
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 124 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.35
Consensus pattern (128 bp):
AAGGCCAAAATATCCACATTATTATCACATATTTACTTATCAATTTTCTGCACATATTCACTATA
TATTCACATTATTAGCACATTATAAACACTATCACATGACATGAACAACACACGCTTATATTA
Found at i:69212042 original size:10 final size:10
Alignment explanation
Indices: 69211967--69212056 Score: 51
Period size: 10 Copynumber: 9.0 Consensus size: 10
69211957 AATTTTTTAT
69211967 AAATTAT-AA
1 AAATTATAAA
*
69211976 AAA-CATAAA
1 AAATTATAAA
*
69211985 AAATAATTAAA
1 AAATTA-TAAA
* *
69211996 AATTTGTAAAA
1 AAATTAT-AAA
* *
69212007 AAATTTGTTAA
1 AAA-TTATAAA
69212018 AAATTATAAA
1 AAATTATAAA
*
69212028 CAATTATAAA
1 AAATTATAAA
*
69212038 AAATTAGAAA
1 AAATTATAAA
*
69212048 GAATT-TAAA
1 AAATTATAAA
69212057 TGTTGTAAGT
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
8 2 0.03
9 11 0.18
10 28 0.45
11 17 0.27
12 4 0.06
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (10 bp):
AAATTATAAA
Found at i:69212056 original size:19 final size:20
Alignment explanation
Indices: 69212016--69212056 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
69212006 AAAATTTGTT
*
69212016 AAAAATTATAAACAATTATA
1 AAAAATTAGAAACAATTATA
*
69212036 AAAAATTAGAAAGAATT-TA
1 AAAAATTAGAAACAATTATA
69212055 AA
1 AA
69212057 TGTTGTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAATTAGAAACAATTATA
Found at i:69212699 original size:5 final size:6
Alignment explanation
Indices: 69212683--69212708 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
69212673 AATTTTAAAG
69212683 ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT
69212709 AGAATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:69212782 original size:9 final size:9
Alignment explanation
Indices: 69212768--69212834 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
69212758 ACTTTTTTGC
69212768 AATAATTTT
1 AATAATTTT
69212777 AATAATTTT
1 AATAATTTT
69212786 AATAATAATTT
1 AATAAT--TTT
*
69212797 -ATAGTATTT
1 AATAAT-TTT
*
69212806 AATGATTTT
1 AATAATTTT
*
69212815 AATAATGTT
1 AATAATTTT
69212824 ATATAAGTTTT
1 A-ATAA-TTTT
69212835 TTTAAAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 30 0.64
10 11 0.23
11 6 0.13
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (9 bp):
AATAATTTT
Found at i:69217885 original size:44 final size:44
Alignment explanation
Indices: 69217808--69217936 Score: 204
Period size: 44 Copynumber: 2.9 Consensus size: 44
69217798 ACATGTATCA
* *
69217808 CATCCATAATGAACTCGGACCAAATCAATGAGCTCGGATGCTCG
1 CATCTATAATGAACTCGGACCAACTCAATGAGCTCGGATGCTCG
* * *
69217852 CATCTATAATGAACTCAGACCAACTCAACGAGCTCAGATGCTCG
1 CATCTATAATGAACTCGGACCAACTCAATGAGCTCGGATGCTCG
*
69217896 CATCTATAATGAACTCGGACCAACTCAATGAGCTCGAATGC
1 CATCTATAATGAACTCGGACCAACTCAATGAGCTCGGATGC
69217937 CTCATACATA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 76 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (44 bp):
CATCTATAATGAACTCGGACCAACTCAATGAGCTCGGATGCTCG
Found at i:69220439 original size:42 final size:42
Alignment explanation
Indices: 69220347--69220525 Score: 153
Period size: 42 Copynumber: 4.2 Consensus size: 42
69220337 TCTAGGATAT
* * * *
69220347 GACATCGGCATCGTTATGTG-TTATCATGTAAGACCATATCTGA
1 GACAT-GGCATCGATATGAGATT-TCATGTAAGACCACATCTGG
* * * * *
69220390 GATATGGCGTTGATATGAGATTTCGTGTAAGACCACGTCTGG
1 GACATGGCATCGATATGAGATTTCATGTAAGACCACATCTGG
* * * *
69220432 GACATGGCATCGAAATGAGATTTCATATAAGACCATATCTAG
1 GACATGGCATCGATATGAGATTTCATGTAAGACCACATCTGG
* * * * ** *
69220474 GATATGACATCAATGTGAGATCCCATGTAAGACCACGTCTGG
1 GACATGGCATCGATATGAGATTTCATGTAAGACCACATCTGG
69220516 GACATGGCAT
1 GACATGGCAT
69220526 TGGCATCTTA
Statistics
Matches: 104, Mismatches: 31, Indels: 3
0.75 0.22 0.02
Matches are distributed among these distances:
42 98 0.94
43 6 0.06
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
GACATGGCATCGATATGAGATTTCATGTAAGACCACATCTGG
Found at i:69220464 original size:84 final size:84
Alignment explanation
Indices: 69220370--69220525 Score: 215
Period size: 84 Copynumber: 1.9 Consensus size: 84
69220360 TTATGTGTTA
* * * ** ** *
69220370 TCATGTAAGACCATATCT-GAGATATGGCGTTGATATGAGATTTCGTGTAAGACCACGTCTGGGA
1 TCATATAAGACCATATCTAG-GATATGACATCAATATGAGATCCCATGTAAGACCACGTCTGGGA
69220434 CATGGCATCGAAATGAGATT
65 CATGGCATCGAAATGAGATT
*
69220454 TCATATAAGACCATATCTAGGATATGACATCAATGTGAGATCCCATGTAAGACCACGTCTGGGAC
1 TCATATAAGACCATATCTAGGATATGACATCAATATGAGATCCCATGTAAGACCACGTCTGGGAC
69220519 ATGGCAT
66 ATGGCAT
69220526 TGGCATCTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
84 61 0.98
85 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (84 bp):
TCATATAAGACCATATCTAGGATATGACATCAATATGAGATCCCATGTAAGACCACGTCTGGGAC
ATGGCATCGAAATGAGATT
Found at i:69226027 original size:18 final size:18
Alignment explanation
Indices: 69226004--69226042 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
69225994 TGATGAGTTT
69226004 GATGTAATACTTGGCATG
1 GATGTAATACTTGGCATG
*
69226022 GATGTAATCCTTGGCATG
1 GATGTAATACTTGGCATG
69226040 GAT
1 GAT
69226043 TGGTTAGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (18 bp):
GATGTAATACTTGGCATG
Found at i:69232123 original size:22 final size:22
Alignment explanation
Indices: 69232098--69232140 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
69232088 CGCCGTAGAC
69232098 AGGACAACACATAGCCATAAAT
1 AGGACAACACATAGCCATAAAT
* * *
69232120 AGGATAGCACATAGCCGTAAA
1 AGGACAACACATAGCCATAAA
69232141 CATCGCAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.14
Consensus pattern (22 bp):
AGGACAACACATAGCCATAAAT
Found at i:69232381 original size:22 final size:22
Alignment explanation
Indices: 69232345--69232409 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
69232335 GCAAATACGT
69232345 TTGGCACACAA-CCATAATCAGG
1 TTGGCACA-AAGCCATAATCAGG
* *
69232367 TTGGCATAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
69232389 TTGGTGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
69232410 AATAATTGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 4 0.12
22 28 0.82
23 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:69232662 original size:41 final size:41
Alignment explanation
Indices: 69232551--69232669 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
69232541 TAAAAGCCAC
* * * *
69232551 CGGTGGATCCACGATCGTCAAGCAACCCTACAATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
*
69232592 CGGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
69232633 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCT
69232670 CAATTTTTTC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
Found at i:69232963 original size:27 final size:27
Alignment explanation
Indices: 69232931--69233306 Score: 271
Period size: 27 Copynumber: 14.0 Consensus size: 27
69232921 TTGGTAAATC
*
69232931 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
69232958 TGCAAACCAATGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTTC-GATAATTT
69232985 TGA-AAATCAAGGGTATTTCTG-TAATTT
1 T-ACAAATCAAGGGTATTTC-GATAATTT
** * * *
69233012 TGTAAATTAGGGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
69233039 T-CTAAATTAAGGGTATTTTGGTAATTT
1 TAC-AAATCAAGGGTATTTCGATAATTT
* * *
69233066 TCCAAATCAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * *
69233093 TACGAATCGATGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* *
69233120 TACAAGTCGAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* *
69233147 TACAAGTCGAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
69233174 CACAAATCAGGGGTATTTTGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
69233201 TACAAA-CTAGGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCGATAATTT
* * ** * *
69233228 TTCTAATTGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** *
69233255 TGTAAACCAAGGGTA-TTC-AGTAATTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
** * *
69233281 TGTAAACCAAGGGTATTTCAATAATT
1 TACAAATCAAGGGTATTTCGATAATT
69233307 CTACCCTACA
Statistics
Matches: 292, Mismatches: 46, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
26 24 0.08
27 265 0.91
28 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Done.