Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 271 of 362
Found at i:91743719 original size:18 final size:19
Alignment explanation
Indices: 91743677--91743719 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
91743667 TCATCCAAAT
91743677 ATTCATGCACACATCAATA
1 ATTCATGCACACATCAATA
* *
91743696 AATCATG-ACACATCTATA
1 ATTCATGCACACATCAATA
*
91743714 TTTCAT
1 ATTCAT
91743720 TTTCATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTCATGCACACATCAATA
Found at i:91751770 original size:40 final size:40
Alignment explanation
Indices: 91751733--91751924 Score: 244
Period size: 40 Copynumber: 4.8 Consensus size: 40
91751723 GGGTATAGCT
* * *
91751733 ACTCACTCGAATGCCTTCAGGACATAGCCCGGATATAGTA
1 ACTCACACAAATGCCTTCAGGACTTAGCCCGGATATAGTA
* *
91751773 ACTCACACCAATGCCTTCAGGACTTAACCCGGATATAGTA
1 ACTCACACAAATGCCTTCAGGACTTAGCCCGGATATAGTA
* *
91751813 ACTCACACAAATGCCTTCGGGACTTAGCCCAGATATAGTA
1 ACTCACACAAATGCCTTCAGGACTTAGCCCGGATATAGTA
* * *
91751853 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTC
1 ACTCACACAAATGCCTTCAGGACTTAGCCCGGATA-TAGTA
* *
91751893 ACT-AGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTCA-CACAAATGCCTTCAGGACTTAGCCCGG
91751925 TTATCATCCA
Statistics
Matches: 137, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 136 0.99
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (40 bp):
ACTCACACAAATGCCTTCAGGACTTAGCCCGGATATAGTA
Found at i:91751841 original size:80 final size:79
Alignment explanation
Indices: 91751707--91751924 Score: 262
Period size: 80 Copynumber: 2.7 Consensus size: 79
91751697 AAGCCAAGTA
* * * * * *
91751707 CCTTCGGGATTTAA-CCGGGTATAGCTACTCACTCGAATGCCTTCAGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAACCCGGATATAG-TACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
91751771 TAACTCACACCAATG
65 TAACTCACACAAATG
* *
91751786 CCTTCAGGACTTAACCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCAGATATAG
1 CCTTCGGGACTTAACCCGGATATAGT-ACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
91751851 TAACTCGCACAAATG
65 TAACTCACACAAATG
* *
91751866 CCTTCGGGACTTAGCCCGGA-ACTAGTCACT-AGCGCAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAACCCGGATA-TAGT-ACTCA-CACAAATGCCTTCGGGACTTAGCCCGG
91751925 TTATCATCCA
Statistics
Matches: 120, Mismatches: 15, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
79 15 0.12
80 105 0.88
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACTTAACCCGGATATAGTACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCACACAAATG
Found at i:91751980 original size:18 final size:19
Alignment explanation
Indices: 91751938--91751980 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
91751928 TCATCCAAAT
91751938 ATTCATGCACACATCAATA
1 ATTCATGCACACATCAATA
* *
91751957 AATCATG-ACACATCTATA
1 ATTCATGCACACATCAATA
*
91751975 TTTCAT
1 ATTCAT
91751981 TTTCATAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (19 bp):
ATTCATGCACACATCAATA
Found at i:91754307 original size:12 final size:13
Alignment explanation
Indices: 91754275--91754307 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
91754265 CTAGCCACAC
91754275 GCCCGTGTCTCCA
1 GCCCGTGTCTCCA
*
91754288 GGCCGTGTCT-CA
1 GCCCGTGTCTCCA
91754300 GCCCGTGT
1 GCCCGTGT
91754308 GGCCAACACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.06, C:0.39, G:0.30, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCTCCA
Found at i:91756140 original size:47 final size:49
Alignment explanation
Indices: 91756067--91756198 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 49
91756057 GGTATAATGG
* *
91756067 TGATGCCATGTCCCAAACATGCTCTTACACTAGCTCATC-CATCAA-G-
1 TGATGCCATGTCCCAGACATGCTCTTACACTAGCTCATCAAATCAAGGA
* * *
91756113 TCGATGCCATGTCCCAGACATGGTCTTACATTGGCT-ATCGAAATCAAGGA
1 T-GATGCCATGTCCCAGACATGCTCTTACACTAGCTCATC-AAATCAAGGA
* *
91756163 TGACGCCATGTCCCAGACATGTTCTTACACTAGCTC
1 TGATGCCATGTCCCAGACATGCTCTTACACTAGCTC
91756199 TCACATATCT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
46 4 0.06
47 30 0.42
48 5 0.07
49 31 0.44
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (49 bp):
TGATGCCATGTCCCAGACATGCTCTTACACTAGCTCATCAAATCAAGGA
Found at i:91756315 original size:46 final size:47
Alignment explanation
Indices: 91756257--91756384 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 47
91756247 ATATCTCGTA
**
91756257 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TCTCATCTTAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCTCATAAT-ATG
* * * *
91756303 GCCGATGCATGTCCCAGATATGTCTTACACTGGCATTTCATAATGTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCTCATAATATG
*
91756350 GCCGATGCATGTCCCAAACATGTCTTACACTAGCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCA
91756385 CACACATATC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
46 33 0.46
47 38 0.54
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCTCATAATATG
Found at i:91761212 original size:16 final size:16
Alignment explanation
Indices: 91761193--91761229 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
91761183 TCTTATTTAA
91761193 TTTTTAAGACTCATTT
1 TTTTTAAGACTCATTT
*
91761209 TTTTTAAGATTCATTT
1 TTTTTAAGACTCATTT
*
91761225 GTTTT
1 TTTTT
91761230 CCTTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTTTAAGACTCATTT
Found at i:91762939 original size:13 final size:13
Alignment explanation
Indices: 91762921--91762947 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91762911 GAAGTAATCG
91762921 CACACAGGCGTGT
1 CACACAGGCGTGT
91762934 CACACAGGCGTGT
1 CACACAGGCGTGT
91762947 C
1 C
91762948 CCTGCCGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACAGGCGTGT
Found at i:91763640 original size:32 final size:33
Alignment explanation
Indices: 91763594--91763661 Score: 129
Period size: 32 Copynumber: 2.1 Consensus size: 33
91763584 TAGTGATAAT
91763594 AACATAACTTAGGGATCTCTACGGAACAAGTTG
1 AACATAACTTAGGGATCTCTACGGAACAAGTTG
91763627 AACA-AACTTAGGGATCTCTACGGAACAAGTTG
1 AACATAACTTAGGGATCTCTACGGAACAAGTTG
91763659 AAC
1 AAC
91763662 GAATAAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 31 0.89
33 4 0.11
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (33 bp):
AACATAACTTAGGGATCTCTACGGAACAAGTTG
Found at i:91786998 original size:23 final size:23
Alignment explanation
Indices: 91786949--91786998 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
91786939 ATATCGTAAT
* * * *
91786949 GAAGCTACTGACAGCCGTGCAAT
1 GAAGCTACTAACAGCAGCGCAAC
*
91786972 GAAGCTACTAACAGCAGCGCAGC
1 GAAGCTACTAACAGCAGCGCAAC
91786995 GAAG
1 GAAG
91786999 TTGCTAATAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.28, T:0.12
Consensus pattern (23 bp):
GAAGCTACTAACAGCAGCGCAAC
Found at i:91789281 original size:13 final size:13
Alignment explanation
Indices: 91789263--91789288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91789253 TCGAGGCATT
91789263 ACACACACGGCCA
1 ACACACACGGCCA
91789276 ACACACACGGCCA
1 ACACACACGGCCA
91789289 TGTGGCTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.46, G:0.15, T:0.00
Consensus pattern (13 bp):
ACACACACGGCCA
Found at i:91798432 original size:24 final size:24
Alignment explanation
Indices: 91798400--91798501 Score: 141
Period size: 24 Copynumber: 4.1 Consensus size: 24
91798390 ACGGCATTGT
** *
91798400 TCTAAGTGAAATAAAACCATGACA
1 TCTAAGTGAAATAAGTCCATGGCA
91798424 TCTAAGTGAAATAAGTCCATGGCAA
1 TCTAAGTGAAATAAGTCCATGGC-A
91798449 TGTGCTAAGTGAAATAAGTCCATGGCA
1 --T-CTAAGTGAAATAAGTCCATGGCA
91798476 TCTAAGTGAAATAAGTCCATGGCA
1 TCTAAGTGAAATAAGTCCATGGCA
91798500 TC
1 TC
91798502 GTGCTAAATG
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
24 45 0.63
25 2 0.03
27 2 0.03
28 22 0.31
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (24 bp):
TCTAAGTGAAATAAGTCCATGGCA
Found at i:91798465 original size:28 final size:27
Alignment explanation
Indices: 91798392--91798508 Score: 129
Period size: 24 Copynumber: 4.4 Consensus size: 27
91798382 TTTAGGATAC
* **
91798392 GGCATTGTTCTAAGTGAAATAAAACCAT
1 GGCA-TGTGCTAAGTGAAATAAGTCCAT
*
91798420 GACA--T-CTAAGTGAAATAAGTCCAT
1 GGCATGTGCTAAGTGAAATAAGTCCAT
91798444 GGCAATGTGCTAAGTGAAATAAGTCCAT
1 GGC-ATGTGCTAAGTGAAATAAGTCCAT
91798472 GGCA--T-CTAAGTGAAATAAGTCCAT
1 GGCATGTGCTAAGTGAAATAAGTCCAT
91798496 GGCATCGTGCTAA
1 GGCAT-GTGCTAA
91798509 ATGAGAAATT
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
24 42 0.55
25 3 0.04
27 3 0.04
28 29 0.38
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (27 bp):
GGCATGTGCTAAGTGAAATAAGTCCAT
Found at i:91798465 original size:52 final size:52
Alignment explanation
Indices: 91798392--91798508 Score: 173
Period size: 52 Copynumber: 2.2 Consensus size: 52
91798382 TTTAGGATAC
* *
91798392 GGCATTGTTCTAAGTGAAATAAAACCATGACATCTAAGTGAAATAAGTCCAT
1 GGCAATGTGCTAAGTGAAATAAAACCATGACATCTAAGTGAAATAAGTCCAT
** *
91798444 GGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCAT
1 GGCAATGTGCTAAGTGAAATAAAACCATGACATCTAAGTGAAATAAGTCCAT
91798496 GGC-ATCGTGCTAA
1 GGCAAT-GTGCTAA
91798509 ATGAGAAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 2 0.03
52 57 0.97
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (52 bp):
GGCAATGTGCTAAGTGAAATAAAACCATGACATCTAAGTGAAATAAGTCCAT
Found at i:91798612 original size:51 final size:51
Alignment explanation
Indices: 91798536--91798785 Score: 358
Period size: 51 Copynumber: 4.9 Consensus size: 51
91798526 TGAACCTTAG
** * * * *
91798536 GAATAAAATAAATTTAGACACAAGTGTAGTACTATGTGAAGGCCATTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
**
91798587 GAATATTATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
91798638 GAATATAATAGTTTTGGACACAAGTGTGGTACTATGTGAAAGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
91798689 GAATAAAATAGCTTTGAACACAAGTGTGGTACTATGTTAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
91798740 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
91798786 CGTGTATCCG
Statistics
Matches: 179, Mismatches: 19, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
50 1 0.01
51 178 0.99
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:91804643 original size:26 final size:27
Alignment explanation
Indices: 91804614--91804673 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
91804604 ATGGGCCTAA
*
91804614 AAAATTGCCCA-AGCCCGGCCCGAAAT
1 AAAATTGCCAAGAGCCCGGCCCGAAAT
**
91804640 AAAATTGTTAAGAGCCCGGCCCGAAAT
1 AAAATTGCCAAGAGCCCGGCCCGAAAT
91804667 AAAATTG
1 AAAATTG
91804674 TTAAGCCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (27 bp):
AAAATTGCCAAGAGCCCGGCCCGAAAT
Found at i:91804693 original size:31 final size:27
Alignment explanation
Indices: 91804625--91804678 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
91804615 AAATTGCCCA
91804625 AGCCCGGCCCGAAATAAAATTGTTAAG
1 AGCCCGGCCCGAAATAAAATTGTTAAG
91804652 AGCCCGGCCCGAAATAAAATTGTTAAG
1 AGCCCGGCCCGAAATAAAATTGTTAAG
91804679 CCTGAGCCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
AGCCCGGCCCGAAATAAAATTGTTAAG
Found at i:91804815 original size:40 final size:40
Alignment explanation
Indices: 91804771--91804851 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
91804761 TCAAATACAT
91804771 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * **
91804811 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
91804851 T
1 T
91804852 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:91804860 original size:20 final size:19
Alignment explanation
Indices: 91804837--91804911 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 19
91804827 AACAATACAC
91804837 AAATTGAAAATATATAATAA
1 AAATTGAAAATATA-AATAA
** *
91804857 AAATTGATTATATTAAAATTA
1 AAATTGAAAATA-T-AAATAA
91804878 AAATT-AAAATATAAAT-A
1 AAATTGAAAATATAAATAA
* *
91804895 TAATTAAAAATA-AAATA
1 AAATTGAAAATATAAATA
91804912 TATATATTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
17 9 0.20
18 10 0.22
19 1 0.02
20 14 0.31
21 10 0.22
22 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATTGAAAATATAAATAA
Found at i:91804899 original size:17 final size:17
Alignment explanation
Indices: 91804879--91804913 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
91804869 TTAAAATTAA
91804879 AATT-AAAATATAAATAT
1 AATTAAAAATA-AAATAT
91804896 AATTAAAAATAAAATAT
1 AATTAAAAATAAAATAT
91804913 A
1 A
91804914 TATATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTAAAAATAAAATAT
Found at i:91804902 original size:23 final size:23
Alignment explanation
Indices: 91804873--91804918 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
91804863 ATTATATTAA
*
91804873 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAATATAAATAT
*
91804896 AATTAAAAATAAAATATATATAT
1 AATTAAAAATAAAATATAAATAT
91804919 TTATTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AATTAAAAATAAAATATAAATAT
Found at i:91805505 original size:10 final size:11
Alignment explanation
Indices: 91805484--91805515 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
91805474 GAGAAGCAAG
*
91805484 AAAAATGAAAA
1 AAAAAAGAAAA
91805495 AAAAAAGAAAA
1 AAAAAAGAAAA
91805506 AAAAAAGAAA
1 AAAAAAGAAA
91805516 GAGAGCTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:91808041 original size:27 final size:28
Alignment explanation
Indices: 91807993--91808047 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
91807983 ATATATAGTT
91807993 TTTAAAATTTATAAATAAAT-AAATAAA
1 TTTAAAATTTATAAATAAATAAAATAAA
*
91808020 TTTAAAATTTAT-ATTAATATAAAATAAA
1 TTTAAAATTTATAAATAA-ATAAAATAAA
91808048 GTAAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 4 0.16
27 14 0.56
28 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
TTTAAAATTTATAAATAAATAAAATAAA
Found at i:91808052 original size:27 final size:27
Alignment explanation
Indices: 91807995--91808054 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
91807985 ATATAGTTTT
*
91807995 TAAAATTTATAAATAAATAAATAAATT
1 TAAAATTTATAAATAAATAAATAAATG
*
91808022 TAAAATTTAT-ATTAATATAAAATAAA-G
1 TAAAATTTATAAATAA-AT-AAATAAATG
91808049 TAAAAT
1 TAAAAT
91808055 AAAATCTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.14
27 18 0.62
28 7 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (27 bp):
TAAAATTTATAAATAAATAAATAAATG
Found at i:91808415 original size:20 final size:20
Alignment explanation
Indices: 91808390--91808431 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
91808380 TCAACGGTAA
91808390 TATTTACTTTTGTCTGATGT
1 TATTTACTTTTGTCTGATGT
91808410 TATTTACTTTTGTCTGATGT
1 TATTTACTTTTGTCTGATGT
91808430 TA
1 TA
91808432 CGGCAGTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.10, G:0.14, T:0.60
Consensus pattern (20 bp):
TATTTACTTTTGTCTGATGT
Found at i:91811833 original size:45 final size:45
Alignment explanation
Indices: 91811781--91811867 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
91811771 TATGTAATCT
*
91811781 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATCC
*
91811826 GAACTCATTGAGTTGTGGTCTAAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACA
91811868 CGTGTTTTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (45 bp):
GAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGACATCC
Found at i:91814359 original size:46 final size:48
Alignment explanation
Indices: 91814308--91814438 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 48
91814298 ATGGTTGAGC
91814308 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * * *
91814355 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
91814400 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91814439 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
45 3 0.04
46 29 0.42
47 29 0.42
48 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:91822856 original size:29 final size:29
Alignment explanation
Indices: 91822793--91822860 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
91822783 TAATCAACCA
91822793 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
91822822 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
91822851 CGCACACTTA
1 CGCACACTTA
91822861 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:91822972 original size:173 final size:173
Alignment explanation
Indices: 91822683--91823182 Score: 901
Period size: 173 Copynumber: 2.9 Consensus size: 173
91822673 AACTCAAGGT
* *
91822683 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCACACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
91822748 GAAATTATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAATTATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
91822813 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
91822856 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
91822921 GAAATTATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAATTATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
91822986 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
91823029 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
* * * * * *
91823094 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAATTATATATTGGGTT-GCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGC
*
91823159 ACTTTAAACTCGCACACTTAGTGC
130 ACTTTAAACTCACACACTTAGTGC
91823183 TGTACAATTT
Statistics
Matches: 316, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
173 252 0.80
174 64 0.20
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
GAAATTATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:91823029 original size:29 final size:29
Alignment explanation
Indices: 91822966--91823033 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
91822956 TAATCAACCA
91822966 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
91822995 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
91823024 CGCACACTTA
1 CGCACACTTA
91823034 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:91823174 original size:29 final size:30
Alignment explanation
Indices: 91823135--91823213 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
91823125 CTTAATAATC
91823135 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
91823165 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
91823194 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
91823214 ATCCCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:91825993 original size:46 final size:45
Alignment explanation
Indices: 91825906--91826122 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 45
91825896 GGTAAGGTGT
*
91825906 CGATGCCATGTCCCAGACATAGTCTTACACTGAC-TATCATCTCATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCA-AGC
* * *
91825954 CGACGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGC
* * * * *
91826000 CGATGCATGTCCCAAACATGTCTTACACTAGCACT-CGTCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCTCAA-GC
* * **
91826046 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAAT-GTGCC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTCAAG-C
91826094 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
91826123 AGCTCACACA
Statistics
Matches: 140, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 69 0.49
47 46 0.33
48 23 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGC
Found at i:91826142 original size:46 final size:45
Alignment explanation
Indices: 91825953--91826143 Score: 152
Period size: 46 Copynumber: 4.1 Consensus size: 45
91825943 CATCTCATAG
* * * * ** * *
91825953 CCGACGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCACA-CAAGTGC
* * *
91825999 CCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAA-TG-
1 CCGATGCATGTCCCAGACATGTCTTACACTAG--CTC-ACACAAGTGC
* * ** *
91826045 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTGC
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACACAA-GTGC
91826093 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCACACAAGTGAC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCACACAAGTG-C
91826139 CCGAT
1 CCGAT
91826144 CGTCATGGCA
Statistics
Matches: 115, Mismatches: 21, Indels: 18
0.75 0.14 0.12
Matches are distributed among these distances:
45 7 0.06
46 58 0.50
47 30 0.26
48 19 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCACACAAGTGC
Found at i:91827490 original size:43 final size:42
Alignment explanation
Indices: 91827440--91827563 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
91827430 TCACATGTAT
*
91827440 CACATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGC
1 CACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
* * *
91827482 TCGCATCCATAATGAACTCGGACCACTCAACAAGCTCGAATGC
1 -CACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
** * * *
91827525 CACATATATCACGAAC-CAGGACCACTCAACGAGTTCGGA
1 CACATCCATAATGAACTC-GGACCACTCAACGAGCTCGGA
91827564 CTTCTTAATT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 29 0.43
43 38 0.56
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (42 bp):
CACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
Found at i:91827880 original size:43 final size:43
Alignment explanation
Indices: 91827819--91827904 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
91827809 CACTTACCTC
*
91827819 GGTACAAAAATTATGGTAATCAAACCTAATCGTCGTATACTTT
1 GGTACAAAAATGATGGTAATCAAACCTAATCGTCGTATACTTT
91827862 GGTACAAAAATGATGGTAATCAAACCTAATCGTCGTATACTTT
1 GGTACAAAAATGATGGTAATCAAACCTAATCGTCGTATACTTT
91827905 ATTCTTCCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (43 bp):
GGTACAAAAATGATGGTAATCAAACCTAATCGTCGTATACTTT
Found at i:91836784 original size:43 final size:43
Alignment explanation
Indices: 91836736--91836821 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
91836726 ATCACGTGTA
** *
91836736 TCGCATCCATTATGAACTCAGACCACTCAACGAGCTTGGATGC
1 TCGCATCCAGAATGAACTCAGACCACTCAAAGAGCTTGGATGC
*
91836779 TCGCATCCAGAATGAACTCGGACCACTCAAAGAGCTTGGATGC
1 TCGCATCCAGAATGAACTCAGACCACTCAAAGAGCTTGGATGC
91836822 CACATATAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (43 bp):
TCGCATCCAGAATGAACTCAGACCACTCAAAGAGCTTGGATGC
Found at i:91845640 original size:39 final size:40
Alignment explanation
Indices: 91845436--91845658 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
91845426 TTGAATGCTG
* * * * * *
91845436 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
91845476 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
91845516 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
91845556 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
91845596 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
91845635 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
91845659 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:91845678 original size:79 final size:80
Alignment explanation
Indices: 91845511--91845693 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
91845501 GTGCGAGATA
** * *
91845511 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
91845576 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
91845591 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
91845655 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
91845670 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
91845694 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:91853546 original size:39 final size:40
Alignment explanation
Indices: 91853342--91853564 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
91853332 TTGAATGCTG
* * * * * *
91853342 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
91853382 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
91853422 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
91853462 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
91853502 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
91853541 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
91853565 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:91853584 original size:79 final size:80
Alignment explanation
Indices: 91853417--91853599 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
91853407 GTGCGAGATA
* * *
91853417 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
91853482 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
91853497 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
91853561 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
91853576 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
91853600 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:91855318 original size:45 final size:45
Alignment explanation
Indices: 91855258--91855344 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
91855248 TATGTAATCT
91855258 GAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGACATCC
* * * *
91855303 GAACTCCTTGGGTTATGGTCTGAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGACA
91855345 CTTGTTTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (45 bp):
GAACTCATTGAGTTATGGTCTAAGTTCATGATATATGTGACATCC
Found at i:91859389 original size:21 final size:20
Alignment explanation
Indices: 91859365--91859413 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
91859355 TCATGCATAT
*
91859365 ACATTCAACCTATTTAAGCA
1 ACATTCAACCTACTTAAGCA
* *
91859385 CACATTCGACGTACTTAAGCA
1 -ACATTCAACCTACTTAAGCA
*
91859406 TCATTCAA
1 ACATTCAA
91859414 ACTTGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.29
Consensus pattern (20 bp):
ACATTCAACCTACTTAAGCA
Found at i:91859953 original size:40 final size:40
Alignment explanation
Indices: 91859909--91860132 Score: 192
Period size: 40 Copynumber: 5.6 Consensus size: 40
91859899 ACTAGAGTTT
* * *
91859909 AAACA-AGGCCGTGAAAGTGAATTCAGGGGTACTGAAGTAG
1 AAACAGAGGCCGTG-ATGTGCATTCAGGGGTACTGAAGTAC
* * * * * *
91859949 AAACAG-GGGCATGTATGTGCATTTAAGGGTACTAAAGTAG
1 AAACAGAGGCCGTG-ATGTGCATTCAGGGGTACTGAAGTAC
* *
91859989 AAACAGAGGCACGT-ATGTGCATCCAGGGGTACTGAAGTAT
1 AAACAGAGGC-CGTGATGTGCATTCAGGGGTACTGAAGTAC
* * *
91860029 AAACA-AGGGCATGTATGTGCATTCAGGGGTACCGAA-TAC
1 AAACAGAGGCCGTG-ATGTGCATTCAGGGGTACTGAAGTAC
* *
91860068 AAACAGAGGCACGT-ATGTGCATTCAAGGGTACTAAAGTAC
1 AAACAGAGGC-CGTGATGTGCATTCAGGGGTACTGAAGTAC
*
91860108 AAACAGAGG-CATGTATGTGCATTCA
1 AAACAGAGGCCGTG-ATGTGCATTCA
91860133 TACAATAATT
Statistics
Matches: 148, Mismatches: 26, Indels: 20
0.76 0.13 0.10
Matches are distributed among these distances:
38 4 0.03
39 29 0.20
40 109 0.74
41 4 0.03
42 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (40 bp):
AAACAGAGGCCGTGATGTGCATTCAGGGGTACTGAAGTAC
Found at i:91860112 original size:79 final size:80
Alignment explanation
Indices: 91859929--91860132 Score: 286
Period size: 79 Copynumber: 2.6 Consensus size: 80
91859919 GTGAAAGTGA
* * * * *
91859929 ATTCAGGGGTACTGAAGTAGAAACAGGGGCATGTATGTGCATTTAAGGGTACTAAAGTAGAAACA
1 ATTCAGGGGTACTGAAGTACAAACAAGGGCATGTATGTGCATTCAAGGGTACCAAAGTACAAACA
91859994 GAGGCACGTATGTGC
66 GAGGCACGTATGTGC
* * * *
91860009 ATCCAGGGGTACTGAAGTATAAACAAGGGCATGTATGTGCATTCAGGGGTACCGAA-TACAAACA
1 ATTCAGGGGTACTGAAGTACAAACAAGGGCATGTATGTGCATTCAAGGGTACCAAAGTACAAACA
91860073 GAGGCACGTATGTGC
66 GAGGCACGTATGTGC
* *
91860088 ATTCAAGGGTACTAAAGTACAAAC-AGAGGCATGTATGTGCATTCA
1 ATTCAGGGGTACTGAAGTACAAACAAG-GGCATGTATGTGCATTCA
91860133 TACAATAATT
Statistics
Matches: 111, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
78 2 0.02
79 60 0.54
80 49 0.44
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.22
Consensus pattern (80 bp):
ATTCAGGGGTACTGAAGTACAAACAAGGGCATGTATGTGCATTCAAGGGTACCAAAGTACAAACA
GAGGCACGTATGTGC
Found at i:91867478 original size:14 final size:15
Alignment explanation
Indices: 91867454--91867486 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
91867444 GTTATGGTTA
91867454 TATGAAAAGGCACAC
1 TATGAAAAGGCACAC
91867469 TATG-AAAGGCACAC
1 TATGAAAAGGCACAC
91867483 TATG
1 TATG
91867487 TGTGAGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (15 bp):
TATGAAAAGGCACAC
Found at i:91869184 original size:25 final size:25
Alignment explanation
Indices: 91869155--91869251 Score: 122
Period size: 25 Copynumber: 3.9 Consensus size: 25
91869145 TTATTGATTC
* *
91869155 CAGCTCGTATGAGCTTACCATTACT
1 CAGCTCGGATGAGCTTACCATTATT
* * *
91869180 CAGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGGATGAGCTTACCATTATT
*
91869205 CAGCTCGGATGAGCTTACCTTTATT
1 CAGCTCGGATGAGCTTACCATTATT
* *
91869230 CAGCTCGGAGGAGATTACCATT
1 CAGCTCGGATGAGCTTACCATT
91869252 TACAACTCGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (25 bp):
CAGCTCGGATGAGCTTACCATTATT
Found at i:91869272 original size:24 final size:25
Alignment explanation
Indices: 91869245--91869305 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
91869235 CGGAGGAGAT
91869245 TACCATTTACAA-CTCGTAA-GAGCA
1 TACCATTTACAAGCTC-TAATGAGCA
91869269 TACCGATTTA-AAGCTCTAATGAGCA
1 TACC-ATTTACAAGCTCTAATGAGCA
*
91869294 TA-CATGTACAAG
1 TACCATTTACAAG
91869306 AATTGACAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
23 4 0.12
24 13 0.41
25 15 0.47
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (25 bp):
TACCATTTACAAGCTCTAATGAGCA
Found at i:91883088 original size:93 final size:93
Alignment explanation
Indices: 91882976--91883147 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
91882966 CGCCCCTAAG
* * *
91882976 TGAATTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
91883041 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
91883069 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
91883134 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
91883148 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:91883144 original size:46 final size:46
Alignment explanation
Indices: 91882972--91883144 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
91882962 AACCCGCCCC
* * * * *
91882972 TAAGTGAATTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
91883018 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
*
91883066 TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
91883111 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
91883145 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 61 0.57
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:91883605 original size:30 final size:30
Alignment explanation
Indices: 91883571--91883630 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
91883561 ATTTAATACG
91883571 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
91883601 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
91883631 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:91890628 original size:46 final size:46
Alignment explanation
Indices: 91890508--91890629 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
91890498 AACCCGCCCC
* * * *
91890508 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
91890554 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
91890600 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
91890630 TGGATGCTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:91891089 original size:30 final size:30
Alignment explanation
Indices: 91891055--91891114 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
91891045 ATTTAATACG
91891055 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
91891085 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
91891115 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:91892170 original size:6 final size:6
Alignment explanation
Indices: 91892161--91892185 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
91892151 AGAAATGAAC
91892161 TGAAAA TGAAAA TGAAAA TGAAAA T
1 TGAAAA TGAAAA TGAAAA TGAAAA T
91892186 TTACAATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (6 bp):
TGAAAA
Found at i:91893787 original size:46 final size:46
Alignment explanation
Indices: 91893733--91893908 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
91893723 TGTTTGGGCA
* *
91893733 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *** * ** ** *
91893779 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGTAAACG
* *
91893826 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
*
91893872 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91893909 GTGGGTTACA
Statistics
Matches: 104, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
45 2 0.02
46 69 0.66
47 33 0.32
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:91893888 original size:93 final size:93
Alignment explanation
Indices: 91893729--91893900 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
91893719 AGGATGTTTG
*
91893729 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCAAACTCGTTGAG
91893794 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* ** * *
91893822 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-AAACTCGTTGA
91893886 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
91893901 ACTTATGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCAAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:91905916 original size:19 final size:19
Alignment explanation
Indices: 91905885--91905922 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
91905875 TACATACAAT
*
91905885 TGTACAAAATTAAATTTTA
1 TGTACAAAATTAAAATTTA
91905904 TGTA-AAAATTTAAAATTTA
1 TGTACAAAA-TTAAAATTTA
91905923 CCATATTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
TGTACAAAATTAAAATTTA
Found at i:91907867 original size:67 final size:67
Alignment explanation
Indices: 91907759--91907893 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
91907749 TGCACCATTG
91907759 AGGTAAAGAACCAAATTCAATTGGTGGTGTTGATTTCTTTTGCCAATTGAAAAAAAAAACAAAAA
1 AGGTAAAGAACCAAATTCAATTGGTGGTGTTGATTTCTTTTGCCAATTGAAAAAAAAAACAAAAA
91907824 CA
66 CA
91907826 AGGTAAAGAACCAAATTCAATTGGTGGTGTTGATTTCTTTTGCCAATTGAAAAAAAAAACAAAAA
1 AGGTAAAGAACCAAATTCAATTGGTGGTGTTGATTTCTTTTGCCAATTGAAAAAAAAAACAAAAA
91907891 CA
66 CA
91907893 A
1 A
91907894 AGAACCACCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (67 bp):
AGGTAAAGAACCAAATTCAATTGGTGGTGTTGATTTCTTTTGCCAATTGAAAAAAAAAACAAAAA
CA
Found at i:91912992 original size:37 final size:35
Alignment explanation
Indices: 91912951--91913120 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
91912941 TAGTATCATA
*
91912951 TATTATGATTTTAGTAAATTCATATAAGAATATTGAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* * *
91912988 TATTAAGAATTTTATTAAATTATAT---ATTTTAAT
1 TATTATG-ATTTTAGTAAATTATATAAAATATTAAT
* * * *
91913021 TATAAT-ATATTTAATAATAATTATGTTAAATTATCT-A-
1 TATTATGAT-TTTAGT-A-AATTAT-ATAAAATAT-TAAT
*
91913058 TATTATGATTTGAGTAAATTCATATAAGAATATTAAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* *
91913095 TATTAAGAATTTTATTAAATTATATA
1 TATTATG-ATTTTAGTAAATTATATA
91913121 TTTTAATTAT
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 2 0.02
32 5 0.05
33 11 0.11
34 6 0.06
35 9 0.09
36 8 0.08
37 30 0.30
38 28 0.28
39 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (35 bp):
TATTATGATTTTAGTAAATTATATAAAATATTAAT
Found at i:91913030 original size:16 final size:16
Alignment explanation
Indices: 91913009--91913054 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
91912999 TTATTAAATT
91913009 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
91913025 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
91913040 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
91913055 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:91913067 original size:107 final size:109
Alignment explanation
Indices: 91912944--91913159 Score: 400
Period size: 107 Copynumber: 2.0 Consensus size: 109
91912934 TATTTTATAG
* *
91912944 TATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
91913009 ATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
91913052 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
91913116 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
91913160 ATGATTAAAT
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 95 0.90
108 10 0.10
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (109 bp):
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
Found at i:91913137 original size:16 final size:16
Alignment explanation
Indices: 91913116--91913157 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
91913106 TTATTAAATT
*
91913116 ATATATTTTAATTATA
1 ATATATTTTAATAATA
91913132 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
91913147 AT-TATGTTTAA
1 ATATAT-TTTAA
91913158 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:91913142 original size:15 final size:15
Alignment explanation
Indices: 91913107--91913148 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
91913097 TTAAGAATTT
*
91913107 TATTAAATTAT-ATA
1 TATTTAATTATAATA
91913121 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
91913135 TATTTAATAATAAT
1 TATTTAATTATAAT
91913149 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:91913172 original size:75 final size:74
Alignment explanation
Indices: 91913092--91913330 Score: 162
Period size: 79 Copynumber: 3.1 Consensus size: 74
91913082 TAAGAATATT
91913092 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATA-ATTTAATAATAATTATGTTTA
91913157 AATATGATTA
65 AATATGATTA
* ** * * * * **
91913167 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAA--ATAACAATGACAATAATAATT-
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTATAATAAT-TTAATAATAATTA
**** * * *
91913229 TACCAAAACAAAT-TTCTGCT
59 T-GTTTAA-ATATGAT-T--A
*
91913249 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATA-ATTTAATAATAATTATGTTTA
91913314 AATATGATTA
65 AATATGATTA
*
91913324 AAATATT
1 AATTATT
91913331 TATTATTGAT
Statistics
Matches: 113, Mismatches: 34, Indels: 34
0.62 0.19 0.19
Matches are distributed among these distances:
75 17 0.15
76 12 0.11
77 8 0.07
78 22 0.19
79 23 0.20
80 8 0.07
81 12 0.11
82 11 0.10
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (74 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATAATTTAATAATAATTATGTTTAA
ATATGATTA
Found at i:91913263 original size:157 final size:154
Alignment explanation
Indices: 91913091--91913404 Score: 538
Period size: 157 Copynumber: 2.0 Consensus size: 154
91913081 ATAAGAATAT
* *
91913091 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* *
91913156 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATGACAA
66 AAATATGATTAAAATATTTATTATTG--A-TAATAATCTTATTAAAATTTAAATAACAATAACAA
*
91913221 TAATAATTTACCAAAACAAATTTCTGC
128 TAATAATTTACCAAAACAAATTTATGC
91913248 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
91913313 AAATATGATTAAAATATTTATTATTGATAATAATCTTATTAAAATTTAAATAACAATAACAATAA
66 AAATATGATTAAAATATTTATTATTGATAATAATCTTATTAAAATTTAAATAACAATAACAATAA
* *
91913378 TCATTTACTAAAACAAATTTATGC
131 TAATTTACCAAAACAAATTTATGC
91913402 TAA
1 TAA
91913405 GGGTATTCTA
Statistics
Matches: 150, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
154 61 0.41
155 1 0.01
157 88 0.59
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (154 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATCTTATTAAAATTTAAATAACAATAACAATAA
TAATTTACCAAAACAAATTTATGC
Found at i:91913548 original size:16 final size:16
Alignment explanation
Indices: 91913527--91913578 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
91913517 GATTTGCTAT
91913527 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
91913543 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
91913559 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
91913575 TACA
1 TACA
91913579 ACGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:91914887 original size:18 final size:18
Alignment explanation
Indices: 91914864--91914901 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
91914854 ATTCGGGTAA
91914864 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
91914882 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
91914900 AA
1 AA
91914902 TCGGTCGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:91915247 original size:9 final size:9
Alignment explanation
Indices: 91915231--91915300 Score: 113
Period size: 9 Copynumber: 7.8 Consensus size: 9
91915221 GGTATTTTTC
91915231 GGTAATTCG
1 GGTAATTCG
*
91915240 GTTAATTCG
1 GGTAATTCG
*
91915249 GTTAATTCG
1 GGTAATTCG
*
91915258 GTTAATTCG
1 GGTAATTCG
91915267 GGTAATTCG
1 GGTAATTCG
91915276 GGTAATTCG
1 GGTAATTCG
91915285 GGTAATTCG
1 GGTAATTCG
91915294 GGTAATT
1 GGTAATT
91915301 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:91918926 original size:56 final size:55
Alignment explanation
Indices: 91918814--91918926 Score: 190
Period size: 55 Copynumber: 2.0 Consensus size: 55
91918804 GCTTAAAAAT
*
91918814 AATATATAATAAATAATAAAACGTATAGTTTCAACGTATTAATAATAAGTTATAC
1 AATATATAATAAATAATAAAACGTATAGTTTAAACGTATTAATAATAAGTTATAC
* *
91918869 AATATATAATAAATAATTAAACGTATGGTTTGAAACGTATTAATAATAAGTTATAC
1 AATATATAATAAATAATAAAACGTATAGTTT-AAACGTATTAATAATAAGTTATAC
91918925 AA
1 AA
91918927 CATGTATGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 29 0.54
56 25 0.46
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (55 bp):
AATATATAATAAATAATAAAACGTATAGTTTAAACGTATTAATAATAAGTTATAC
Found at i:91923048 original size:31 final size:30
Alignment explanation
Indices: 91922992--91923049 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
91922982 TAGCAAAATT
* *
91922992 AATAATAAAACAAGAGTTATACAATATCCA
1 AATAATAAAACAAGAATAATACAATATCCA
91923022 AATAATAAAAACAA-AATAATAGCAATAT
1 AATAAT-AAAACAAGAATAATA-CAATAT
91923050 AATAGTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.22
Consensus pattern (30 bp):
AATAATAAAACAAGAATAATACAATATCCA
Found at i:91923505 original size:27 final size:28
Alignment explanation
Indices: 91923463--91923526 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 28
91923453 GAACAAACAT
91923463 TATT-AAATTTTAATAAAAAT-ATTAAAA
1 TATTAAAATTTTAATAAAAATCA-TAAAA
91923490 TATTAAAATTTT-ATAAAAATCATAAAA
1 TATTAAAATTTTAATAAAAATCATAAAA
*
91923517 AATATAAAAT
1 TAT-TAAAAT
91923527 ACATCAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 19 0.58
28 14 0.42
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
TATTAAAATTTTAATAAAAATCATAAAA
Found at i:91923762 original size:10 final size:10
Alignment explanation
Indices: 91923749--91923883 Score: 64
Period size: 10 Copynumber: 13.5 Consensus size: 10
91923739 TTCTTTACGT
91923749 TTTTTTATAA
1 TTTTTTATAA
*
91923759 TTTTCTTACAA
1 TTTT-TTATAA
* **
91923770 CTTTACA-AA
1 TTTTTTATAA
*
91923779 ATTTT-ATAA
1 TTTTTTATAA
*
91923788 TTTTTTCT-A
1 TTTTTTATAA
*
91923797 TATTTTATAA
1 TTTTTTATAA
*
91923807 TTTTTTTCTAA
1 -TTTTTTATAA
91923818 TTTTTTAATAA
1 TTTTTT-ATAA
** *
91923829 AATTTAACT-A
1 TTTTTTA-TAA
91923839 TTTTTTAT-A
1 TTTTTTATAA
91923848 TTTTTTAATAA
1 TTTTTT-ATAA
* *
91923859 TATTTAATAA
1 TTTTTTATAA
91923869 TTTTTTATAA
1 TTTTTTATAA
*
91923879 CTTTT
1 TTTTT
91923884 ATTTTTTTTA
Statistics
Matches: 92, Mismatches: 24, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
8 1 0.01
9 26 0.28
10 37 0.40
11 28 0.30
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:91923803 original size:19 final size:18
Alignment explanation
Indices: 91923778--91923826 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
91923768 AACTTTACAA
91923778 AATTTTATAATTTTTTCT
1 AATTTTATAATTTTTTCT
91923796 ATATTTTATAATTTTTTTCT
1 A-ATTTTATAA-TTTTTTCT
*
91923816 AATTTTTTAAT
1 AATTTTATAAT
91923827 AAAATTTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 17 0.61
20 9 0.32
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
AATTTTATAATTTTTTCT
Found at i:91923884 original size:30 final size:30
Alignment explanation
Indices: 91923780--91923884 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 30
91923770 CTTTACAAAA
** *
91923780 TTTTATAATTTTTTCT-ATATTTTATAATTT
1 TTTTATAATTTTTAATAATATTTAATAA-TT
* *
91923810 TTTTCTAATTTTTTAATAAAATTTAACT-ATT
1 TTTTATAA-TTTTTAATAATATTTAA-TAATT
*
91923841 TTTTATATTTTTTAATAATATTTAATAATT
1 TTTTATAATTTTTAATAATATTTAATAATT
*
91923871 TTTTATAACTTTTA
1 TTTTATAATTTTTA
91923885 TTTTTTTTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
29 1 0.02
30 38 0.62
31 14 0.23
32 7 0.11
33 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTATAATTTTTAATAATATTTAATAATT
Found at i:91929989 original size:79 final size:79
Alignment explanation
Indices: 91929853--91930070 Score: 255
Period size: 79 Copynumber: 2.7 Consensus size: 79
91929843 TCGAATGATG
* * **
91929853 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGCATT
91929917 TGTGCGAGTTACTA-A
64 TGTGCGAGTTACTATA
* *
91929932 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGCATT
91929996 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTATA
* * ** * *
91930012 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTT-AAGTCCGAAGG
91930071 TACGTGATTC
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 71 0.60
80 47 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:91930044 original size:40 final size:40
Alignment explanation
Indices: 91929853--91930056 Score: 254
Period size: 40 Copynumber: 5.1 Consensus size: 40
91929843 TCGAATGATG
* *
91929853 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
91929893 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
91929932 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
91929972 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * ** *
91930012 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
91930052 TCCGG
1 TCCGG
91930057 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.24
40 100 0.70
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:91945761 original size:72 final size:72
Alignment explanation
Indices: 91945675--91945809 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 72
91945665 GTGAGCTAGT
* * *
91945675 ATAAGACCATGTTTG-GAACATGGCATCAGCATTGATATGAGAGCTAGTGTAAGAACATGTTTGA
1 ATAAGACCATGTTTGAG-ACATGACATCAGCATCGATATGAGAGCCAGTGTAAGAACATGTTTGA
91945739 GACATAGC
65 GACATAGC
* * * **
91945747 ATAAGACCATGTTTGAGACATGACATCGGCCTCGATATGTGAGCCAGTGTAAGGCCATGTTTG
1 ATAAGACCATGTTTGAGACATGACATCAGCATCGATATGAGAGCCAGTGTAAGAACATGTTTG
91945810 GAACATGGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
72 53 0.98
73 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (72 bp):
ATAAGACCATGTTTGAGACATGACATCAGCATCGATATGAGAGCCAGTGTAAGAACATGTTTGAG
ACATAGC
Found at i:91945809 original size:48 final size:47
Alignment explanation
Indices: 91945748--91945968 Score: 214
Period size: 48 Copynumber: 4.6 Consensus size: 47
91945738 AGACATAGCA
* *
91945748 TAAGACCATGTTTGAGACATGACATCGGCCTCGATATGTGAGCCAGTG
1 TAAGACCATGTTTG-GACATGGCATCGGCCTCGATATGAGAGCCAGTG
* * ** *
91945796 TAAGGCCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTG
1 TAAGACCATGTTTGG-ACATGGCATCGGCCTCGATATGAGAGCCAGTG
* * *
91945844 TAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGTAG-G-CAGGTG
1 TAAGACCATGT-TTGGACATGGCATCGGCCTCGATATG-AGAGCCA-GTG
**
91945892 TAAGACCATGTTTGGAACATGGCATCAACAC-CGATATATGAGAGCCAGTG
1 TAAGACCATGTTTGG-ACATGGCATCGGC-CTCG--ATATGAGAGCCAGTG
*
91945942 TAAGACCATGTTTGGGACATGGTATCG
1 TAAGACCATGTTT-GGACATGGCATCG
91945969 ACATCTTACC
Statistics
Matches: 142, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
47 5 0.04
48 95 0.67
49 8 0.06
50 30 0.21
51 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
TAAGACCATGTTTGGACATGGCATCGGCCTCGATATGAGAGCCAGTG
Found at i:91945901 original size:96 final size:97
Alignment explanation
Indices: 91945748--91945968 Score: 293
Period size: 96 Copynumber: 2.3 Consensus size: 97
91945738 AGACATAGCA
* * * *
91945748 TAAGACCATGTTTGAGACATGACATCGGCCTCGATATGTGAGCCAGTGTAAGGCCATGTTTGGAA
1 TAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTTTGGAA
** ** *
91945813 CATGGCATCGGCA-TTTATATGAGAGCTAGTG
66 CATGGCATCAACACGATATATGAGAGCCAGTG
* * *
91945844 TAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGT-AGGCAGGTGTAAGACCATGTTTGGA
1 TAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCA-GTGTAAGACCATGTTTGGA
91945908 ACATGGCATCAACACCGATATATGAGAGCCAGTG
65 ACATGGCATCAACA-CGATATATGAGAGCCAGTG
*
91945942 TAAGACCATGTTTGGGACATGGTATCG
1 TAAGACCATGTTTGGGACATGGCATCG
91945969 ACATCTTACC
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 4 0.04
96 64 0.59
98 40 0.37
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (97 bp):
TAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTTTGGAA
CATGGCATCAACACGATATATGAGAGCCAGTG
Found at i:91946068 original size:21 final size:21
Alignment explanation
Indices: 91946039--91946078 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91946029 CGAGTAATTT
91946039 AAAAATTAT-ATTATGATTGAG
1 AAAAATTATGATTAT-ATTGAG
*
91946060 AAAAGTTATGATTATATTG
1 AAAAATTATGATTATATTG
91946079 CAAGTGGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (21 bp):
AAAAATTATGATTATATTGAG
Found at i:91950247 original size:25 final size:25
Alignment explanation
Indices: 91950218--91950265 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
91950208 TTATAACATG
* *
91950218 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
91950243 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
91950266 GTTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:91950366 original size:20 final size:20
Alignment explanation
Indices: 91950302--91950366 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
91950292 ATTTTGAAAA
*
91950302 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
91950322 ACATAACATGTATGATATGC
1 ACATGATATGTATGATATGC
91950342 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
91950362 ACATG
1 ACATG
91950367 CTGTATTCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:91950445 original size:24 final size:24
Alignment explanation
Indices: 91950418--91950558 Score: 209
Period size: 23 Copynumber: 6.0 Consensus size: 24
91950408 GAGGAAGTGA
91950418 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
91950442 AAAA-GGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
91950465 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
91950488 -AAAGGGCTTATGCCGCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
91950511 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
91950535 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
91950559 ATGTTAAAGC
Statistics
Matches: 108, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 3 0.03
23 60 0.56
24 34 0.31
25 11 0.10
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:91950792 original size:31 final size:31
Alignment explanation
Indices: 91950757--91950820 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
91950747 CGTTTACAGT
* *
91950757 AAAGGCTTTGGCCCAGTAATATTAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
91950788 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
91950819 AA
1 AA
91950821 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:91959882 original size:43 final size:42
Alignment explanation
Indices: 91959834--91959993 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 42
91959824 TGTGACAACA
* *
91959834 TGTAAGACCTTGTCTGGGACATTGGCATTGTATTGAGATTACG
1 TGTAAGACCATGTCTAGGACATTGGCATTGTATTG-GATTACG
* *
91959877 TGTAAGACCATGTCTAGGACATTGGCATAGTTAATT-GATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATTG-T-ATTGGATTACG
* * * * *
91959920 TGTAAGACCCTGTCTAGGACAGTGGCATCG-ATATGTGATAACA
1 TGTAAGACCATGTCTAGGACATTGGCATTGTAT-TG-GATTACG
* * *
91959963 TGTAAGACCATATCTGGGATA-TGGCATTGTA
1 TGTAAGACCATGTCTAGGACATTGGCATTGTA
91959994 CTAGTTTATG
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 7 0.07
43 82 0.85
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATTGTATTGGATTACG
Found at i:91961461 original size:4 final size:4
Alignment explanation
Indices: 91961452--91961480 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
91961442 AGATGTTAAT
91961452 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
91961481 GAATTGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:91967739 original size:8 final size:8
Alignment explanation
Indices: 91967726--91967750 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
91967716 TTTCACCATG
91967726 AATTTTAC
1 AATTTTAC
91967734 AATTTTAC
1 AATTTTAC
91967742 AATTTTAC
1 AATTTTAC
91967750 A
1 A
91967751 CATAAATCCC
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTAC
Found at i:91973384 original size:56 final size:56
Alignment explanation
Indices: 91973318--91973423 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 56
91973308 GACCACGACA
* * *
91973318 TCGATATATGTGTGCGAGTAAGACGATGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATT
* *
91973374 TCGATATATGTGTGCGAGTAAGACCACGTCTAGTATGTTGGCATCGATAT
1 TCGATATATGTGTGCGAGTAAGACCACGTCTAATACGTTGGCATCGATAT
91973424 ATGTGGTTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATT
Found at i:91973946 original size:15 final size:15
Alignment explanation
Indices: 91973925--91973969 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
91973915 TTCAAGTATA
91973925 CGAATTTGGTTTATG
1 CGAATTTGGTTTATG
*
91973940 TGAATTTGGTTTATG
1 CGAATTTGGTTTATG
*
91973955 CAAATTTGGTTTATG
1 CGAATTTGGTTTATG
91973970 GATTTTCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.49
Consensus pattern (15 bp):
CGAATTTGGTTTATG
Found at i:91978127 original size:40 final size:40
Alignment explanation
Indices: 91978068--91978289 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
91978058 GAGGATTATA
*
91978068 TCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * * *
91978108 TCCAGGTTAAGTCTCGAAGGCATTCGTGCTAGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * *
91978148 TCTGGGTTAAGTCCTGAAGGCATTCGTGCTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * *
91978188 TCCGGGTTAAGCCCCGAAGGCATTCGTGTTGGTCGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * * **
91978228 TCCGGGTTAAGTCCCGAAGACATTTGTGCTGGTTGTTACA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
91978268 TCCGGGCTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
91978290 ATTGGGTTGG
Statistics
Matches: 157, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
Found at i:91984353 original size:40 final size:40
Alignment explanation
Indices: 91984244--91984389 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
91984234 TTGAATGATG
* * * * *
91984244 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
91984284 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
91984324 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
91984365 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
91984390 AACGAGGAGC
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
39 1 0.01
40 84 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:91987499 original size:15 final size:15
Alignment explanation
Indices: 91987478--91987522 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
91987468 TTCAAGTATA
91987478 CGAATTTGGTTTATG
1 CGAATTTGGTTTATG
*
91987493 TGAATTTGGTTTATG
1 CGAATTTGGTTTATG
*
91987508 CAAATTTGGTTTATG
1 CGAATTTGGTTTATG
91987523 GATTTTCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.49
Consensus pattern (15 bp):
CGAATTTGGTTTATG
Found at i:91990137 original size:42 final size:42
Alignment explanation
Indices: 91990088--91990184 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
91990078 CTGAGACTAC
91990088 GTGTAAGACCATATCT-AGGATATGACATCAATATCAGAA-TTT
1 GTGTAAGACCATATCTGA-GATATGACATCAATATCA-AATTTT
* * * * *
91990130 GTGTAAGACCATATCTGAGCTATGGCATCGATGTGAAATTTT
1 GTGTAAGACCATATCTGAGATATGACATCAATATCAAATTTT
91990172 GTGTAAGACCATA
1 GTGTAAGACCATA
91990185 GCTGGGCTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.04
42 45 0.94
43 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCTGAGATATGACATCAATATCAAATTTT
Found at i:91993030 original size:40 final size:40
Alignment explanation
Indices: 91992975--91993282 Score: 526
Period size: 40 Copynumber: 7.7 Consensus size: 40
91992965 GAGCATTGGA
*
91992975 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
91993015 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
91993055 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
91993095 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
91993135 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
91993175 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
91993215 ATATAGCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
91993255 ATATATCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
91993283 ATGTGTTTGC
Statistics
Matches: 253, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:91996174 original size:25 final size:25
Alignment explanation
Indices: 91996145--91996192 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
91996135 TTATAACATG
* * *
91996145 AAAATGACCTTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
91996170 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
91996193 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:91996259 original size:20 final size:20
Alignment explanation
Indices: 91996236--91996289 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
91996226 AAAACATGGT
91996236 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
91996256 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
91996276 ATGTATGATATGCA
1 ATGTATGATATGCA
91996290 TATGCTGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:91996293 original size:11 final size:11
Alignment explanation
Indices: 91996239--91996293 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
91996229 ACATGGTATG
91996239 TATGATATGCA
1 TATGATATGCA
* *
91996250 CATGACATG--
1 TATGATATGCA
91996259 TATGATATGCA
1 TATGATATGCA
*
91996270 CATGATATG--
1 TATGATATGCA
91996279 TATGATATGCA
1 TATGATATGCA
91996290 TATG
1 TATG
91996294 CTGTATTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (11 bp):
TATGATATGCA
Found at i:91996376 original size:23 final size:23
Alignment explanation
Indices: 91996346--91996418 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
91996336 AGGAAGTGAA
91996346 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
91996369 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
91996392 AAAAGGGCTTTTTCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
91996416 AAA
1 AAA
91996419 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:91996435 original size:25 final size:24
Alignment explanation
Indices: 91996345--91996439 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
91996335 GAGGAAGTGA
91996345 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
91996369 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
91996392 AAAAGGGCTTTTTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
91996416 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
91996440 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.37
24 29 0.46
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:91996670 original size:31 final size:31
Alignment explanation
Indices: 91996635--91996696 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
91996625 TTTACGGTAT
91996635 AGGCTTCGGCCCAGTAATATGAAATATGAAA
1 AGGCTTCGGCCCAGTAATATGAAATATGAAA
** *
91996666 AGGCTTCGGCCCAGTGTTTTGAAATATGAAA
1 AGGCTTCGGCCCAGTAATATGAAATATGAAA
91996697 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (31 bp):
AGGCTTCGGCCCAGTAATATGAAATATGAAA
Found at i:92004299 original size:18 final size:18
Alignment explanation
Indices: 92004278--92004335 Score: 80
Period size: 18 Copynumber: 3.1 Consensus size: 18
92004268 TTTTGATAAA
*
92004278 CATGGTATGTATGATATG
1 CATGATATGTATGATATG
*
92004296 CATGACATGTATGATATG
1 CATGATATGTATGATATG
92004314 CACATGATATGTATGATATG
1 --CATGATATGTATGATATG
92004334 CA
1 CA
92004336 CATGATGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 18 0.51
20 17 0.49
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.34
Consensus pattern (18 bp):
CATGATATGTATGATATG
Found at i:92004300 original size:9 final size:9
Alignment explanation
Indices: 92004278--92004335 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
92004268 TTTTGATAAA
*
92004278 CATGGTATG
1 CATGATATG
*
92004287 TATGATATG
1 CATGATATG
*
92004296 CATGACATG
1 CATGATATG
*
92004305 TATGATATG
1 CATGATATG
92004314 CACATGATATG
1 --CATGATATG
*
92004325 TATGATATG
1 CATGATATG
92004334 CA
1 CA
92004336 CATGATGTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
9 30 0.79
11 8 0.21
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.34
Consensus pattern (9 bp):
CATGATATG
Found at i:92004325 original size:20 final size:20
Alignment explanation
Indices: 92004277--92004341 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
92004267 ATTTTGATAA
*
92004277 ACATGGTATGTATGATATG-
1 ACATGATATGTATGATATGC
*
92004296 -CATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
92004315 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
92004335 ACATGAT
1 ACATGAT
92004342 GTATTCATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.39
20 25 0.61
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:92004429 original size:23 final size:23
Alignment explanation
Indices: 92004399--92004568 Score: 160
Period size: 23 Copynumber: 8.0 Consensus size: 23
92004389 GAAAAAGGTG
92004399 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92004422 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92004445 AAAGGGC--ATG--CCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92004464 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
92004488 AAAAGGGCTTA------AGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
92004506 AAA--GC---TG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92004523 AAAAGGGCTT-TGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
92004546 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
92004569 ATGATAAAGC
Statistics
Matches: 127, Mismatches: 1, Indels: 37
0.77 0.01 0.22
Matches are distributed among these distances:
15 2 0.02
17 10 0.08
18 10 0.08
19 9 0.07
20 9 0.07
21 3 0.02
22 10 0.08
23 46 0.36
24 28 0.22
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:92004476 original size:43 final size:43
Alignment explanation
Indices: 92004413--92004568 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 43
92004403 GGCTTATGCC
92004413 CCAGTTATTAAAGGGCTTATGCCCCAGTTATT-AAAGGGCATG
1 CCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCATG
92004455 CCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGC-T-
1 CCAGTTATT-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCATG
** *
92004497 TAAGTTATTAAA--GC---TG-CCCAGTTATTAAAAGGGCTTTG
1 CCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGC-ATG
*
92004535 CCCCAGTTATTAAAGAGGC-TAGGCCTCCAGTTAT
1 --CCAGTTATTAAAG-GGCTTATGCC-CCAGTTAT
92004569 ATGATAAAGC
Statistics
Matches: 95, Mismatches: 5, Indels: 23
0.77 0.04 0.19
Matches are distributed among these distances:
35 18 0.19
36 2 0.02
37 1 0.01
39 2 0.02
40 10 0.11
41 3 0.03
42 16 0.17
43 26 0.27
44 7 0.07
45 1 0.01
46 1 0.01
47 8 0.08
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
CCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCATG
Found at i:92004793 original size:30 final size:31
Alignment explanation
Indices: 92004757--92004819 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
92004747 CGTTTACAGT
92004757 AAAGGCTTC-GCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
92004787 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
92004818 AA
1 AA
92004820 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:92005731 original size:21 final size:21
Alignment explanation
Indices: 92005707--92005749 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
92005697 ATGTGATTGA
*
92005707 TATGAATAG-ATGTTAATTATG
1 TATGAAT-GTATGTGAATTATG
*
92005728 TATGTATGTATGTGAATTATG
1 TATGAATGTATGTGAATTATG
92005749 T
1 T
92005750 GTGATTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (21 bp):
TATGAATGTATGTGAATTATG
Found at i:92008550 original size:47 final size:47
Alignment explanation
Indices: 92008472--92008926 Score: 721
Period size: 47 Copynumber: 9.6 Consensus size: 47
92008462 CCCTTCGGGA
* * * * * *
92008472 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
92008519 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
92008566 CTTATCACATATATACACTTTCAGATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92008613 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92008660 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92008707 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
92008756 CTTATCACATATATATCACGTTCACATTCATGACATTGGCCATTCGGC
1 CTTATCACATATATA-CACTTTCACATTCATCACATCGGCCATTAGGC
92008804 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
92008851 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
92008900 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
92008927 TATTTCAAAT
Statistics
Matches: 379, Mismatches: 24, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
47 244 0.64
48 43 0.11
49 92 0.24
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:92008845 original size:144 final size:143
Alignment explanation
Indices: 92008472--92008926 Score: 761
Period size: 144 Copynumber: 3.2 Consensus size: 143
92008462 CCCTTCGGGA
* * * * * *
92008472 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
92008537 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCAGATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
92008600 TCGGCTATTAGGC
131 TCGGCCATTAGGC
* *
92008613 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
92008678 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
92008743 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
92008756 CTTATCACATATATATCACGTTCACATTCATGACATTGGCCATTCGGCCTTATCACATATATACA
1 CTTATCACATATATA-CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
92008821 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
* *
92008886 ATTGGCCATTCGGC
130 ATCGGCCATTAGGC
92008900 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
92008927 TATTTCAAAT
Statistics
Matches: 294, Mismatches: 17, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
141 94 0.32
143 63 0.21
144 137 0.47
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:92019135 original size:49 final size:47
Alignment explanation
Indices: 92019051--92019506 Score: 714
Period size: 47 Copynumber: 9.6 Consensus size: 47
92019041 TATTTGAATA
* *
92019051 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92019098 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
92019147 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTCATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92019194 AATGTGAACGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
92019243 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
92019292 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92019339 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92019386 AATCTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
92019433 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92019480 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
92019507 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 244 0.64
49 137 0.36
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:92019159 original size:96 final size:96
Alignment explanation
Indices: 92019051--92019506 Score: 735
Period size: 96 Copynumber: 4.8 Consensus size: 96
92019041 TATTTGAATA
92019051 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
92019116 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92019147 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTCATGAATGTGAACGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
92019212 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92019243 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
92019306 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
92019339 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATCTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
92019402 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
92019433 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
92019497 -ATGTGATAAG
66 TATGTGATAAG
92019507 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
94 140 0.41
95 1 0.00
96 155 0.46
98 43 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:92023218 original size:31 final size:31
Alignment explanation
Indices: 92023180--92023243 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
92023170 CCTTTTCATA
92023180 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
92023211 TTTCATATTTCATATTACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
92023242 TT
1 TT
92023244 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:92023501 original size:23 final size:24
Alignment explanation
Indices: 92023437--92023644 Score: 299
Period size: 23 Copynumber: 9.0 Consensus size: 24
92023427 GATTTATCAT
*
92023437 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
92023462 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
92023486 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
92023508 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
92023532 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
92023556 ATAACT--GG--TATGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
92023576 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
92023599 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
92023622 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
92023645 TCACTTCCTC
Statistics
Matches: 169, Mismatches: 6, Indels: 17
0.88 0.03 0.09
Matches are distributed among these distances:
20 17 0.10
22 14 0.08
23 68 0.40
24 58 0.34
25 12 0.07
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:92023634 original size:90 final size:90
Alignment explanation
Indices: 92023477--92023644 Score: 311
Period size: 90 Copynumber: 1.9 Consensus size: 90
92023467 TGGGGCAAAA
92023477 GCCCTTTTAATAACTGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGG
1 GCCCTTTTAATAACTGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGG
92023542 CATAAGCCCTTTTAATAACTGGTAT
66 CATAAGCCCTTTTAATAACTGGTAT
*
92023567 GCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC-TTTAATAATTGGG
1 GCCCTTTTAATAACT-GGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGG
92023631 GCATAAGCCCTTTT
65 GCATAAGCCCTTTT
92023645 TCACTTCCTC
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
90 41 0.54
91 35 0.46
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (90 bp):
GCCCTTTTAATAACTGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGG
CATAAGCCCTTTTAATAACTGGTAT
Found at i:92023716 original size:9 final size:9
Alignment explanation
Indices: 92023702--92023754 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
92023692 ACATCATGTG
92023702 CATATCATA
1 CATATCATA
*
92023711 CATATCATGTG
1 CATATCA--TA
92023722 CATATCATA
1 CATATCATA
*
92023731 CATGTCATA
1 CATATCATA
92023740 TGCATATCATA
1 --CATATCATA
92023751 CATA
1 CATA
92023755 CCATGTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:92023719 original size:20 final size:20
Alignment explanation
Indices: 92023694--92023760 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
92023684 TTATGAATAC
92023694 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
92023714 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
92023734 GTCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
92023754 ACCATGT
1 ATCATGT
92023761 TTTTCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:92023734 original size:15 final size:15
Alignment explanation
Indices: 92023706--92023749 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
92023696 CATGTGCATA
92023706 TCATA-CATATCATG
1 TCATATCATATCATG
92023720 TGCATATCATA-CATG
1 T-CATATCATATCATG
92023735 TCATATGCATATCAT
1 TCATAT-CATATCAT
92023750 ACATACCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.23
15 13 0.50
16 7 0.27
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (15 bp):
TCATATCATATCATG
Found at i:92026376 original size:34 final size:34
Alignment explanation
Indices: 92026333--92026401 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
92026323 ATATACAAAG
92026333 AAAATAAAGCTTTGGAGAGCATTTAGGGTTCGGC
1 AAAATAAAGCTTTGGAGAGCATTTAGGGTTCGGC
92026367 AAAATAAAGCTTTGGAGAGCATTTAGGGTTCGGC
1 AAAATAAAGCTTTGGAGAGCATTTAGGGTTCGGC
92026401 A
1 A
92026402 CTAATCTAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (34 bp):
AAAATAAAGCTTTGGAGAGCATTTAGGGTTCGGC
Found at i:92027315 original size:43 final size:43
Alignment explanation
Indices: 92027254--92027336 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
92027244 GTTAGTATAC
*
92027254 TCTGGGACATTGGCATTGTATTGAGATTACGTGTAAGACCTTG
1 TCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACCTTG
92027297 TCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACC
1 TCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACC
92027337 ATGTATGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
TCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACCTTG
Found at i:92043896 original size:23 final size:23
Alignment explanation
Indices: 92043866--92043911 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
92043856 TAATTAGAAG
92043866 AAGAAGAACAACACAACAATCAT
1 AAGAAGAACAACACAACAATCAT
92043889 AAGAAGAACAACACAACAATCAT
1 AAGAAGAACAACACAACAATCAT
92043912 TCATATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.22, G:0.09, T:0.09
Consensus pattern (23 bp):
AAGAAGAACAACACAACAATCAT
Done.