Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 275 of 344
Found at i:92208842 original size:23 final size:23
Alignment explanation
Indices: 92208816--92208861 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
92208806 TAGAATTCCA
92208816 AAATCACCGTTTATGACACCACT
1 AAATCACCGTTTATGACACCACT
92208839 AAATCACCGTTTATGACACCACT
1 AAATCACCGTTTATGACACCACT
92208862 GACTTTTAGG
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:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (23 bp):
AAATCACCGTTTATGACACCACT
Found at i:92213753 original size:30 final size:30
Alignment explanation
Indices: 92213719--92213776 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
92213709 ATGAATGAGA
*
92213719 TCAGCTTAAATGCAGCAATATTTCATGGTT
1 TCAGCTTAAATGCAACAATATTTCATGGTT
92213749 TCAGCTTAAATGCAACAATATTTCATGG
1 TCAGCTTAAATGCAACAATATTTCATGG
92213777 CTCAACTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (30 bp):
TCAGCTTAAATGCAACAATATTTCATGGTT
Found at i:92215124 original size:15 final size:16
Alignment explanation
Indices: 92215088--92215129 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
92215078 TGTCAGTGAC
*
92215088 ACATTAATTTAATTAA
1 ACATAAATTTAATTAA
*
92215104 ATATAAATTTAA-TAA
1 ACATAAATTTAATTAA
92215119 ACATAAATTTA
1 ACATAAATTTA
92215130 TATTTATAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (16 bp):
ACATAAATTTAATTAA
Found at i:92215940 original size:12 final size:12
Alignment explanation
Indices: 92215925--92215983 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
92215915 AAACAGCAAA
92215925 AACAACAAAAAT
1 AACAACAAAAAT
*
92215937 AACAACAAAAAG
1 AACAACAAAAAT
* *
92215949 AGCAAAAAAAAT
1 AACAACAAAAAT
* * *
92215961 AATAGCAAAAAAC
1 AACAAC-AAAAAT
92215974 AACAACAAAA
1 AACAACAAAA
92215984 TACCAAGAAC
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
12 26 0.74
13 9 0.26
ACGTcount: A:0.75, C:0.15, G:0.05, T:0.05
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:92215983 original size:24 final size:23
Alignment explanation
Indices: 92215922--92216007 Score: 69
Period size: 24 Copynumber: 3.9 Consensus size: 23
92215912 TACAAACAGC
92215922 AAAAACAAC-AAAAATAACAACA
1 AAAAACAACAAAAAATAACAACA
* *
92215944 AAAAGAGCAA-AAAAAATAATAGCA
1 AAAA-A-CAACAAAAAATAACAACA
92215968 AAAAACAACAACAAAAT-AC--C-
1 AAAAACAACAA-AAAATAACAACA
*
92215988 AAGAACAACAAAAAA-AACAA
1 AAAAACAACAAAAAATAACAA
92216008 GATAATTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
19 6 0.12
20 10 0.19
21 1 0.02
22 7 0.13
23 5 0.10
24 23 0.44
ACGTcount: A:0.74, C:0.16, G:0.05, T:0.05
Consensus pattern (23 bp):
AAAAACAACAAAAAATAACAACA
Found at i:92221902 original size:21 final size:21
Alignment explanation
Indices: 92221860--92221904 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
92221850 GACCTTAAAA
** * *
92221860 CATGCCAAAATATTTTCTTTT
1 CATGCCAAAATAAATACCTTT
92221881 CATGCCAAAATAAATACCTTT
1 CATGCCAAAATAAATACCTTT
92221902 CAT
1 CAT
92221905 TCCCATACCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (21 bp):
CATGCCAAAATAAATACCTTT
Found at i:92223014 original size:15 final size:15
Alignment explanation
Indices: 92222967--92223020 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
92222957 TGAATAATAA
*
92222967 ACTAACAACTAATTAG
1 ACTAACAGCT-ATTAG
* **
92222983 ACTACCAGCTAACAG
1 ACTAACAGCTATTAG
92222998 ACTAACAGCTATTAG
1 ACTAACAGCTATTAG
92223013 ACTAACAG
1 ACTAACAG
92223021 ACTCTAACAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 23 0.74
16 8 0.26
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.20
Consensus pattern (15 bp):
ACTAACAGCTATTAG
Found at i:92226016 original size:26 final size:26
Alignment explanation
Indices: 92225987--92226094 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
92225977 TGGTACAAAT
92225987 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
92226013 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92226039 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92226065 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92226091 TGAT
1 TGAT
92226095 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:92231091 original size:23 final size:23
Alignment explanation
Indices: 92231064--92231117 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
92231054 TGAATAACAA
92231064 ACTAACAG-CTAATCAGACTACTAG
1 ACTAACAGACTAA-CA-ACTACTAG
*
92231088 -CTAACAGACTAACAACTATTAG
1 ACTAACAGACTAACAACTACTAG
92231110 ACTAACAG
1 ACTAACAG
92231118 TCTCTAACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.20
Consensus pattern (23 bp):
ACTAACAGACTAACAACTACTAG
Found at i:92232806 original size:19 final size:17
Alignment explanation
Indices: 92232784--92232823 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
92232774 ATAATTTCTC
92232784 ATAATTTCTATATTTTTAT
1 ATAATTTCTA-ATTTTT-T
*
92232803 ATAATTTTTAATTTTTT
1 ATAATTTCTAATTTTTT
92232820 ATAA
1 ATAA
92232824 AATTTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATAATTTCTAATTTTTT
Found at i:92237274 original size:29 final size:31
Alignment explanation
Indices: 92237217--92237275 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
92237207 TAAATTTGAT
92237217 ATTTAATCTTTATACATTAATTTTTAATATA
1 ATTTAATCTTTATACATTAATTTTTAATATA
* *
92237248 ATTTAAT-TTT-TATATTACTTTTTAATAT
1 ATTTAATCTTTATACATTAATTTTTAATAT
92237276 TGTTAATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 16 0.62
30 3 0.12
31 7 0.27
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTTAATCTTTATACATTAATTTTTAATATA
Found at i:92237412 original size:29 final size:30
Alignment explanation
Indices: 92237352--92237414 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
92237342 TTTGAAAGCG
** *
92237352 AATTTTTAAATCTAAAAAGTAGATGAATTA
1 AATTTTTAAAAATAAAAAGTAGATGAACTA
92237382 AATTTTTAAAAAT-AAAAGTAGGATG-ACTA
1 AATTTTTAAAAATAAAAAGTA-GATGAACTA
92237411 AATT
1 AATT
92237415 CCAAATGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (30 bp):
AATTTTTAAAAATAAAAAGTAGATGAACTA
Found at i:92238112 original size:30 final size:30
Alignment explanation
Indices: 92238067--92238129 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
92238057 TGAAAGCGGG
* * **
92238067 TTTTTAAATTCAAAAAATAGATGAATTAAAT
1 TTTTTAAAATC-AAAAATAAAAAAATTAAAT
92238098 TTTTTAAAAT-AAAAATAAAAAAATTAAAT
1 TTTTTAAAATCAAAAATAAAAAAATTAAAT
92238127 TTT
1 TTT
92238130 AAATATACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 19 0.68
31 9 0.32
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (30 bp):
TTTTTAAAATCAAAAATAAAAAAATTAAAT
Found at i:92247006 original size:21 final size:21
Alignment explanation
Indices: 92246980--92247031 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
92246970 CGACACATAA
*
92246980 GTGCCTGAAACGACAAACGAG
1 GTGCCTGAAACGACAAACAAG
*** *
92247001 GTGCCTGCTGCGACACACAAG
1 GTGCCTGAAACGACAAACAAG
92247022 GTGCCTGAAA
1 GTGCCTGAAA
92247032 TATGACACAT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.29, T:0.13
Consensus pattern (21 bp):
GTGCCTGAAACGACAAACAAG
Found at i:92247316 original size:29 final size:29
Alignment explanation
Indices: 92247238--92247317 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 29
92247228 CACCAAAATG
* * *
92247238 TCCAACCAAAACACACCAGTATCATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
*
92247267 TCC-TCCCAAACACACCAGAATAATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
92247295 TCCATCCAAAACACACCAGAATA
1 TCCATCCAAAACACACCAGAATA
92247318 GCACAAAGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.47, C:0.33, G:0.04, T:0.16
Consensus pattern (29 bp):
TCCATCCAAAACACACCAGAATAATATAA
Found at i:92256398 original size:40 final size:37
Alignment explanation
Indices: 92256354--92256446 Score: 98
Period size: 40 Copynumber: 2.4 Consensus size: 37
92256344 ACCAGGATCG
*
92256354 CGACCAACGCCTCATCAGAT-AGTTCGAAGCAAATAAGTGA
1 CGACCAACGCCTCATCAGATAAGCT-GAAGC--A-AAGTGA
* * * *
92256394 CGACCAACGTCTCATCGGCTAAGCTGAAGCAAAGTGG
1 CGACCAACGCCTCATCAGATAAGCTGAAGCAAAGTGA
92256431 CGACCAACGCCTCATC
1 CGACCAACGCCTCATC
92256447 TATCCGGAGC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
37 20 0.43
38 1 0.02
40 22 0.48
41 3 0.07
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (37 bp):
CGACCAACGCCTCATCAGATAAGCTGAAGCAAAGTGA
Found at i:92257616 original size:3 final size:3
Alignment explanation
Indices: 92257608--92257643 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
92257598 ACCATTTGTA
92257608 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
92257644 TTATTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:92267609 original size:39 final size:41
Alignment explanation
Indices: 92267525--92267618 Score: 124
Period size: 39 Copynumber: 2.4 Consensus size: 41
92267515 GATTATGTTC
*
92267525 GGCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAATA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAATA
* *
92267566 -GCACTAAG-GTGCGAATTGGAATAGCTTCGG-T-TATATGA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT-A
92267604 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
92267619 GTACCGAGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
37 4 0.09
38 2 0.04
39 28 0.60
40 13 0.28
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAATA
Found at i:92269033 original size:12 final size:12
Alignment explanation
Indices: 92269016--92269040 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92269006 TAGGCGTCTA
92269016 AAAATGGAAATG
1 AAAATGGAAATG
92269028 AAAATGGAAATG
1 AAAATGGAAATG
92269040 A
1 A
92269041 TTTATTTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:92269234 original size:25 final size:26
Alignment explanation
Indices: 92269169--92269239 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
92269159 ATTTTCTCAA
*
92269169 AATTTTACCAGGGGTAAAATCATCAT
1 AATTTTATCAGGGGTAAAATCATCAT
* *
92269195 AATTTTGT-AGGGGGTAAAA-CGTCAT
1 AATTTTATCA-GGGGTAAAATCATCAT
*
92269220 AATTTTATCATGGGTAAAAT
1 AATTTTATCAGGGGTAAAAT
92269240 TTGGATGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 21 0.57
26 16 0.43
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (26 bp):
AATTTTATCAGGGGTAAAATCATCAT
Found at i:92272618 original size:22 final size:22
Alignment explanation
Indices: 92272574--92272618 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
92272564 TTAATCATTA
* **
92272574 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTAACAGTCAAATAT
*
92272596 TTATTTAGTAACAGTCAAATAT
1 TTATTCAGTAACAGTCAAATAT
92272618 T
1 T
92272619 CAGTAGCAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (22 bp):
TTATTCAGTAACAGTCAAATAT
Found at i:92272767 original size:6 final size:6
Alignment explanation
Indices: 92272752--92272785 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
92272742 AGAATACACC
* *
92272752 GTAACG GTAACA GTAATA GTAACA GTAACA GTAA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAA
92272786 GGTACAGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:92273729 original size:3 final size:3
Alignment explanation
Indices: 92273721--92273753 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
92273711 ATATAAAACC
*
92273721 ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
92273754 TTTATGCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:92292649 original size:45 final size:44
Alignment explanation
Indices: 92292592--92292718 Score: 130
Period size: 45 Copynumber: 2.8 Consensus size: 44
92292582 ATCACCTAAT
* * * * *
92292592 GTCATAGCATCTTTCATCTATAGTCTTACTCATTTCTATCATGAT
1 GTCATAACATCTTTCAACTATGGTCTTACTCATTT-TATCATAAC
* * * *
92292637 G-CTATAACATCTTTTAGCTATGGTCTTACTTATCTTTGTCATAAC
1 GTC-ATAACATCTTTCAACTATGGTCTTACTCAT-TTTATCATAAC
*
92292682 GTCATAGCATCTTTCAACTATGGTCTTACTCATTTTA
1 GTCATAACATCTTTCAACTATGGTCTTACTCATTTTA
92292719 GGCATATAAC
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
44 4 0.06
45 59 0.89
46 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.44
Consensus pattern (44 bp):
GTCATAACATCTTTCAACTATGGTCTTACTCATTTTATCATAAC
Found at i:92295397 original size:25 final size:24
Alignment explanation
Indices: 92295351--92295401 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
92295341 TGGATTCGGT
**
92295351 TTTAGTTTGGGGTCTTTATTTTAGA
1 TTTAGTTTGGGGTCTGCATTTT-GA
92295376 TTTAGTTTGGGGT-TGCAGTTTTGA
1 TTTAGTTTGGGGTCTGCA-TTTTGA
92295400 TT
1 TT
92295402 CGAGATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.14, C:0.04, G:0.27, T:0.55
Consensus pattern (24 bp):
TTTAGTTTGGGGTCTGCATTTTGA
Found at i:92295589 original size:11 final size:11
Alignment explanation
Indices: 92295569--92295603 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
92295559 ATTGACTAAG
*
92295569 AATAATATAAA
1 AATAAAATAAA
92295580 AATAAAAT-AA
1 AATAAAATAAA
92295590 AATAAAATAAA
1 AATAAAATAAA
92295601 AAT
1 AAT
92295604 TTGTATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:92297283 original size:38 final size:38
Alignment explanation
Indices: 92297232--92297381 Score: 246
Period size: 38 Copynumber: 3.9 Consensus size: 38
92297222 AGAAGCGTAA
** * *
92297232 TGTTATTCAGGCTCTGTGCCTAGCAAGTCTTGTGCTGG
1 TGTTATTTGGGCTCTGTGCCTAGCAAGTTTTGTGCCGG
92297270 TGTTATTTGGGCTCTGTGCCTAGCAAGTTTTGTGCCGG
1 TGTTATTTGGGCTCTGTGCCTAGCAAGTTTTGTGCCGG
92297308 TGTTATTTGGGCTCTGTGCCTAGCAAGTTTTGTGCCGG
1 TGTTATTTGGGCTCTGTGCCTAGCAAGTTTTGTGCCGG
* *
92297346 TGTTATTTGGGCTCTGTGCCTAGCAGGCTTTGTGCC
1 TGTTATTTGGGCTCTGTGCCTAGCAAGTTTTGTGCC
92297382 AATGTATTGA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 106 1.00
ACGTcount: A:0.11, C:0.20, G:0.31, T:0.39
Consensus pattern (38 bp):
TGTTATTTGGGCTCTGTGCCTAGCAAGTTTTGTGCCGG
Found at i:92298374 original size:22 final size:23
Alignment explanation
Indices: 92298327--92298374 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
92298317 TAAAAGTAAG
*
92298327 GTACATGTGTAATAAACATGTTT
1 GTACATGTGTAATAAACATGTAT
* *
92298350 GTACATTTGTAA-ATACATGTAT
1 GTACATGTGTAATAAACATGTAT
92298372 GTA
1 GTA
92298375 TTTACTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (23 bp):
GTACATGTGTAATAAACATGTAT
Found at i:92298496 original size:22 final size:20
Alignment explanation
Indices: 92298454--92298520 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
92298444 AATAATAAAT
*
92298454 GAAATAAAGATAGAAAAAGA
1 GAAATAAAGAGAGAAAAAGA
*
92298474 GAAAGTAAAGAGACGAAATAGA
1 GAAA-TAAAGAGA-GAAAAAGA
* *
92298496 GAAGA-ACATGGGAGAAAAAGA
1 GAA-ATA-AAGAGAGAAAAAGA
92298517 GAAA
1 GAAA
92298521 AGAAAGAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
20 5 0.13
21 18 0.47
22 14 0.37
23 1 0.03
ACGTcount: A:0.63, C:0.03, G:0.27, T:0.07
Consensus pattern (20 bp):
GAAATAAAGAGAGAAAAAGA
Found at i:92302001 original size:12 final size:12
Alignment explanation
Indices: 92301981--92302020 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
92301971 TAGTTTGGGG
* *
92301981 TTTTGATTTCGA
1 TTTTAATTTCAA
92301993 TTTTAATTTCAA
1 TTTTAATTTCAA
*
92302005 TTTTAGTTTCAA
1 TTTTAATTTCAA
92302017 TTTT
1 TTTT
92302021 GGGTTTTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.62
Consensus pattern (12 bp):
TTTTAATTTCAA
Found at i:92302716 original size:25 final size:23
Alignment explanation
Indices: 92302652--92302717 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 23
92302642 AGGGTTTTCA
92302652 TTTGGGGTTTTATATTTAGTTTTGG
1 TTTGGGG-TTTA-ATTTAGTTTTGG
* *
92302677 ATTGAGGTTTCAATTTCAGTTTTGG
1 TTTGGGGTTT-AATTT-AGTTTTGG
92302702 TTTGGGGTTATAATTT
1 TTTGGGGTT-TAATTT
92302718 TGGGTTTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 7 0.21
25 26 0.76
26 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.55
Consensus pattern (23 bp):
TTTGGGGTTTAATTTAGTTTTGG
Found at i:92303055 original size:15 final size:15
Alignment explanation
Indices: 92303021--92303053 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
92303011 TGGTTTAGGA
*
92303021 TTTTAGTGTTAGTGT
1 TTTTAGGGTTAGTGT
92303036 TTTTAGGGTTA-TGT
1 TTTTAGGGTTAGTGT
92303050 TTTT
1 TTTT
92303054 TAAGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (15 bp):
TTTTAGGGTTAGTGT
Found at i:92303467 original size:128 final size:126
Alignment explanation
Indices: 92303263--92303782 Score: 679
Period size: 128 Copynumber: 4.1 Consensus size: 126
92303253 AGCAATAAAT
* * *
92303263 TTTTTTCTACAGTAGTTTTTGAAAAAATAAATTTGAGAAGACGTTTCTGAACAAATAGTGCCAAA
1 TTTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
* * *
92303328 AACGCTTCAAGCAGGATGCACTATTAGTAAAAGCACTGAAAAAAAAGCTCCCACGTGGACGCG
66 AACGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTG--AAAAAAGCTCCCACGTGGACGCG
* * *
92303391 TTTTTTCTACAGTTGTTTCTGAAAAAATAATTTTGAGAAGATGTTTTTGAACAAATAGTGTCAAA
1 TTTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
* * * * * * * *
92303456 AACGCTTCAAGCAAGATACACTATTAGTAAAATTACTGAAAAAATCTCCCACATGGACGGG
66 AACGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCG
* * *
92303517 CTTTTTCTACAGTAGCTTGTGAAAAAA-AA-TTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
1 TTTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
* * * ** * *
92303580 AACGCTTCAAGCAGGATGTACTGTCAGCAAAAGTACTG-AAAAAGATCTTATGTGGACGCA
66 AACGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCG
* * *
92303640 CTTTTTCTACAGTGGTTTTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTTTCAAA
1 TTTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
* * * *
92303705 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGC-
66 AACGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCG
92303765 TCTTTTTCTACAGTAGTT
1 T-TTTTTCTACAGTAGTT
92303783 CTTATTTGGC
Statistics
Matches: 341, Mismatches: 47, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
123 38 0.11
124 66 0.19
125 69 0.20
126 75 0.22
128 93 0.27
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
TTTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
AACGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCG
Found at i:92303706 original size:249 final size:252
Alignment explanation
Indices: 92303264--92303780 Score: 725
Period size: 249 Copynumber: 2.1 Consensus size: 252
92303254 GCAATAAATT
* *
92303264 TTTTTCTACAGTAGTTTTTGAAAAAATAAATTTGAGAAGACGTTTCTGAACAAATAGTGCCAAAA
1 TTTTTCTACAGTAGCTTGTGAAAAAATAAATTTGAGAAGACGTTTCTGAACAAATAGTGCCAAAA
* * * **
92303329 ACGCTTCAAGCAGGATGCACTATTAGTAAAAGCACTGAAAAAAAAGCTCCCACGTGGACGCGTTT
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAAGCACTG--AAAAAAGATCCCACGTGGACGCACTT
* *
92303394 TTTCTACAGTTGTTTCTGAAAAAATAATTTTGAGAAGATGTTTTTGAACAAATAGTGTCAAAAAC
129 TTTCTACAGTGGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAAC
* * * * *
92303459 GCTTCAAGCAAGATACACTATTAGTAAAATTACTGAAAAAATCTCCCACATGGACGGGC
194 GCTTCAAGCAAGATACACTATCAGCAAAATTACTAAAAAAAGCTCCCACATGGACGCGC
* *
92303518 TTTTTCTACAGTAGCTTGTG-AAAAA-AAATTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGCTTGTGAAAAAATAAATTTGAGAAGACGTTTCTGAACAAATAGTGCCAAAA
* * * ** *
92303581 ACGCTTCAAGCAGGATGTACTGTCAGCAAAAGTACTG-AAAAAGATCTTATGTGGACGCACTTTT
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAAGCACTGAAAAAAGATCCCACGTGGACGCACTTTT
* * *
92303645 TCTACAGTGGTTTTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTTTCAAAAATGC
131 TCTACAGTGGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
* * * * *
92303710 TTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
196 TTCAAGCAAGATACACTATCAGCAAAATTACTAAAAAAAGCTCCCACATGGACGCGC
92303767 TTTTTCTACAGTAG
1 TTTTTCTACAGTAG
92303781 TTCTTATTTG
Statistics
Matches: 233, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
249 142 0.61
252 68 0.29
253 5 0.02
254 18 0.08
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (252 bp):
TTTTTCTACAGTAGCTTGTGAAAAAATAAATTTGAGAAGACGTTTCTGAACAAATAGTGCCAAAA
ACGCTTCAAGCAGGATGCACTATCAGCAAAAGCACTGAAAAAAGATCCCACGTGGACGCACTTTT
TCTACAGTGGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
TTCAAGCAAGATACACTATCAGCAAAATTACTAAAAAAAGCTCCCACATGGACGCGC
Found at i:92306921 original size:54 final size:54
Alignment explanation
Indices: 92306807--92306927 Score: 147
Period size: 54 Copynumber: 2.2 Consensus size: 54
92306797 GCATTATTTA
* * *
92306807 TATTTTATTAAAAATATAAAAATATTCAAAATATTACCTTATTTAAAAGAACTTC
1 TATTTTATTAAAAATATAAAAAAATT-AAAATATTACCTTATTCAAAACAACTTC
* * *
92306862 TATTTTATTAAAAATATAAAAGTAAATT-ACA-ATTACTTTATTCAAAACAACTTT
1 TATTTTATTAAAAATATAAAA--AAATTAAAATATTACCTTATTCAAAACAACTTC
92306916 TATTTTATTAAA
1 TATTTTATTAAA
92306928 TGTAACAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
54 31 0.53
55 23 0.40
57 4 0.07
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (54 bp):
TATTTTATTAAAAATATAAAAAAATTAAAATATTACCTTATTCAAAACAACTTC
Found at i:92307074 original size:139 final size:141
Alignment explanation
Indices: 92306824--92307108 Score: 448
Period size: 139 Copynumber: 2.0 Consensus size: 141
92306814 TTAAAAATAT
* *
92306824 AAAAATATTCAAAATATTACCTTATTTAAAAGAACTTCTATTTTATTAAAAATATAAAAGTAAAT
1 AAAAATATTAAAAATATTACCTTATTCAAAAGAACTTCTATTTTATTAAAAATATAAAAGTAAAT
*** * * *
92306889 TACAATTACTTTATTCAAAACAACTTTTATTTTATTAAATGTAACAATAT-AAAAAAGTTTGTAC
66 TACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAAGTTTATAC
92306953 AAATATA-TTA
131 AAATATATTTA
*** *
92306963 AAAAATATTAAAAATATTGGTTTATTCAAAAGAACTTTTATTTTATTAAAAATATAAAAGTAAAT
1 AAAAATATTAAAAATATTACCTTATTCAAAAGAACTTCTATTTTATTAAAAATATAAAAGTAAAT
92307028 TACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAAGTTTATAC
66 TACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAAGTTTATAC
92307093 AAATATATTTA
131 AAATATATTTA
92307104 AAAAA
1 AAAAA
92307109 ATAAATTTTG
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
139 104 0.79
140 20 0.15
141 8 0.06
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.38
Consensus pattern (141 bp):
AAAAATATTAAAAATATTACCTTATTCAAAAGAACTTCTATTTTATTAAAAATATAAAAGTAAAT
TACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAAAGTTTATAC
AAATATATTTA
Found at i:92312530 original size:94 final size:95
Alignment explanation
Indices: 92312414--92312590 Score: 284
Period size: 94 Copynumber: 1.9 Consensus size: 95
92312404 ACTTGAACTT
* * * *
92312414 TTTTTTTTTTCCTTTTCATCTCTGTTTTAGTTTCAGATCTAAGCTTCTTTATTTGTA-TTTCAGT
1 TTTTTCTTTGCCTTTTCATCTCTGTTGTAGTTTCAGATCTAAGCTTCTTTACTTGTATTTTCAGT
92312478 GAGTTTTTTGGTTTTCAGCTTTAGAACAAG
66 GAGTTTTTTGGTTTTCAGCTTTAGAACAAG
* *
92312508 TTTTTCTTTGCCTTTTCATCTCTGTTGTAGTTTCAGATTTATGCTTCTTTACTTGTATTTTCAGT
1 TTTTTCTTTGCCTTTTCATCTCTGTTGTAGTTTCAGATCTAAGCTTCTTTACTTGTATTTTCAGT
*
92312573 GGGTTTTTTGGTTTTCAG
66 GAGTTTTTTGGTTTTCAG
92312591 TTTTTGTTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
94 51 0.68
95 24 0.32
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.56
Consensus pattern (95 bp):
TTTTTCTTTGCCTTTTCATCTCTGTTGTAGTTTCAGATCTAAGCTTCTTTACTTGTATTTTCAGT
GAGTTTTTTGGTTTTCAGCTTTAGAACAAG
Found at i:92316239 original size:14 final size:15
Alignment explanation
Indices: 92316220--92316248 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
92316210 GATGTTTTGT
92316220 TCAAGTACAA-AATC
1 TCAAGTACAACAATC
92316234 TCAAGTACAACAATC
1 TCAAGTACAACAATC
92316249 ATTTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (15 bp):
TCAAGTACAACAATC
Found at i:92319671 original size:17 final size:17
Alignment explanation
Indices: 92319649--92319684 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
92319639 GACTATAACA
92319649 ATTTGCTCTTTTGAGTT
1 ATTTGCTCTTTTGAGTT
92319666 ATTTGCTCTTTTGAGTT
1 ATTTGCTCTTTTGAGTT
92319683 AT
1 AT
92319685 AAAACAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.17, T:0.58
Consensus pattern (17 bp):
ATTTGCTCTTTTGAGTT
Found at i:92325682 original size:25 final size:25
Alignment explanation
Indices: 92325607--92325682 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
92325597 TTCGCGTTTG
*
92325607 TTTCTTTCT-TCTTTCTCTTTTTCTT
1 TTTCTTTCTCTCCTT-TCTTTTTCTT
* ** *
92325632 TTTCTTTCTTTCCTTTCTGCTACTT
1 TTTCTTTCTCTCCTTTCTTTTTCTT
92325657 TTTACTTTCTCT-CTTTCTTTTTCTT
1 TTT-CTTTCTCTCCTTTCTTTTTCTT
92325682 T
1 T
92325683 ATTTCATTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 30 0.73
26 11 0.27
ACGTcount: A:0.03, C:0.25, G:0.01, T:0.71
Consensus pattern (25 bp):
TTTCTTTCTCTCCTTTCTTTTTCTT
Found at i:92335094 original size:45 final size:44
Alignment explanation
Indices: 92334952--92335125 Score: 251
Period size: 44 Copynumber: 4.0 Consensus size: 44
92334942 TTTTATCAAA
* * *
92334952 TCACCGGCATT-TCGCCTGCTAGGCTCGAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATC
* *
92334995 TCACTGGCATTATAGCCTACTAGGCTCAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATC
* *
92335039 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAGTATC
* *
92335084 TTACCAGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTA
92335126 CTGTATAATA
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
43 10 0.09
44 66 0.57
45 40 0.34
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAGTATC
Found at i:92335101 original size:89 final size:87
Alignment explanation
Indices: 92334952--92335125 Score: 249
Period size: 89 Copynumber: 2.0 Consensus size: 87
92334942 TTTTATCAAA
* * * * * **
92334952 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCCGAATAGTGTCTCACTGGCATTATAGCCTACTA
1 TCACCGGCATTTAGCCTGCTAGGCTCAAGGCCCAAATAATATCTCACCAGCATTATAGCCTACTA
92335017 GGCTCAAGGCCCGAATAGTATC
66 GGCTCAAGGCCCGAATAGTATC
* *
92335039 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAATATCTTACCAGCATTATAGCCTGC
1 TCACCGGCATT-TAGCCTGCTAGGCTC-AAGGCCCAAATAATATCTCACCAGCATTATAGCCTAC
92335104 TAGGCTCAAGGCCCGAATAGTA
64 TAGGCTCAAGGCCCGAATAGTA
92335126 CTGTATAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
87 11 0.14
88 14 0.18
89 51 0.67
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (87 bp):
TCACCGGCATTTAGCCTGCTAGGCTCAAGGCCCAAATAATATCTCACCAGCATTATAGCCTACTA
GGCTCAAGGCCCGAATAGTATC
Found at i:92338217 original size:21 final size:21
Alignment explanation
Indices: 92338193--92338234 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
92338183 TTCGGGAGAA
92338193 TTCTCATCTTTTGAGAGCTAG
1 TTCTCATCTTTTGAGAGCTAG
92338214 TTCTCATCTTTTGAGAGCTAG
1 TTCTCATCTTTTGAGAGCTAG
92338235 GCTAACTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
TTCTCATCTTTTGAGAGCTAG
Found at i:92338837 original size:27 final size:27
Alignment explanation
Indices: 92338799--92338851 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
92338789 ATAAATGAAG
*
92338799 TATGCAATATTTTAATACGATCCAACT
1 TATGCAACATTTTAATACGATCCAACT
92338826 TATGCAACATTTTAATACGATCCAAC
1 TATGCAACATTTTAATACGATCCAAC
92338852 CTTGTTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (27 bp):
TATGCAACATTTTAATACGATCCAACT
Found at i:92340095 original size:6 final size:7
Alignment explanation
Indices: 92340078--92340104 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
92340068 GTTCTTTATT
92340078 TTTTTTA
1 TTTTTTA
92340085 TTTTTTA
1 TTTTTTA
92340092 TTTTTTA
1 TTTTTTA
92340099 TTTTTT
1 TTTTTT
92340105 CACAAATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:92347725 original size:24 final size:24
Alignment explanation
Indices: 92347697--92347742 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
92347687 CTGTATAACG
*
92347697 GGAAGCTCATAAGAGCTATAATTA
1 GGAAGCTCATAAGAGCCATAATTA
92347721 GGAAGCTCATAAGAGCCATAAT
1 GGAAGCTCATAAGAGCCATAAT
92347743 CGGAAAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATTA
Found at i:92347890 original size:26 final size:26
Alignment explanation
Indices: 92347854--92347913 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
92347844 GAAGCTCTAG
92347854 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* ** * *
92347880 AGAGCCTTTAATCGGGAAGTTCACGA
1 AGAGCCATTAATCAAGAAGCTCACAA
92347906 AGAGCCAT
1 AGAGCCAT
92347914 ATATTGGGAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:92349450 original size:16 final size:17
Alignment explanation
Indices: 92349413--92349453 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
92349403 ATCTCATAAA
*
92349413 AGAGTCCGCCAGACCCT
1 AGAGTTCGCCAGACCCT
*
92349430 AGAGTTCGCCA-ACCTT
1 AGAGTTCGCCAGACCCT
92349446 AGAGTTCG
1 AGAGTTCG
92349454 TCAAATGGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (17 bp):
AGAGTTCGCCAGACCCT
Found at i:92352272 original size:15 final size:15
Alignment explanation
Indices: 92352252--92352299 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
92352242 TTATATATTA
92352252 TATTTTAAAAAAAAT
1 TATTTTAAAAAAAAT
* *
92352267 TATTTTTAAATAAAAC
1 TA-TTTTAAAAAAAAT
* *
92352283 TAATCTAAAAAAAAT
1 TATTTTAAAAAAAAT
92352298 TA
1 TA
92352300 AGTATGGGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (15 bp):
TATTTTAAAAAAAAT
Found at i:92352281 original size:17 final size:17
Alignment explanation
Indices: 92352248--92352299 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
92352238 CATTTTATAT
92352248 ATTATATTTTAAAAAAA
1 ATTATATTTTAAAAAAA
*
92352265 ATTAT-TTTTAAATAAA
1 ATTATATTTTAAAAAAA
* *
92352281 ACTA-A-TCTAAAAAAA
1 ATTATATTTTAAAAAAA
92352296 ATTA
1 ATTA
92352300 AGTATGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 11 0.38
16 13 0.45
17 5 0.17
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTATATTTTAAAAAAA
Found at i:92354110 original size:16 final size:16
Alignment explanation
Indices: 92354089--92354121 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92354079 TATAATCATT
92354089 TTAAATTACTAG-TATA
1 TTAAATTA-TAGATATA
92354105 TTAAATTATAGATATA
1 TTAAATTATAGATATA
92354121 T
1 T
92354122 ATTAGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
TTAAATTATAGATATA
Found at i:92354485 original size:22 final size:22
Alignment explanation
Indices: 92354459--92354509 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
92354449 TTCCACTTTT
* *
92354459 TCAATTTACTCTCAA-CTTTCTC
1 TCAATTCACTCTCAATC-CTCTC
*
92354481 TCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTCAATCCTCTC
92354503 TCAATTC
1 TCAATTC
92354510 TTTCTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (22 bp):
TCAATTCACTCTCAATCCTCTC
Found at i:92354514 original size:22 final size:22
Alignment explanation
Indices: 92354477--92354538 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
92354467 CTCTCAACTT
92354477 TCTCTCAATTCATTCTCAATCC
1 TCTCTCAATTCATTCTCAATCC
* * *
92354499 TCTCTCAATTCTTTCTTAATTC
1 TCTCTCAATTCATTCTCAATCC
* *
92354521 TCACTCAACTCAATTCTC
1 TCTCTCAATTC-ATTCTC
92354539 TCAGTTCACT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.44
Consensus pattern (22 bp):
TCTCTCAATTCATTCTCAATCC
Found at i:92382978 original size:54 final size:54
Alignment explanation
Indices: 92382896--92383138 Score: 432
Period size: 54 Copynumber: 4.5 Consensus size: 54
92382886 CATCTTACGG
* *
92382896 CGGGATTACTAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAAAGCATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
92382950 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
92383004 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
* * *
92383058 CGGGATTACCAGTCTAGGCTAAATCCCCTGTAGTATTAACTCATAGAGCATTGG
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
*
92383112 CAGGATTACCAGTCCAGGCTAAATCCC
1 CGGGATTACCAGTCCAGGCTAAATCCC
92383139 ATTTAACGAC
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 182 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
Found at i:92386547 original size:10 final size:10
Alignment explanation
Indices: 92386534--92386580 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
92386524 GAGCTCTATC
*
92386534 CAGCTCAATT
1 CAGCTCATTT
92386544 CAGCTCATTT
1 CAGCTCATTT
*
92386554 GAGCTCATTT
1 CAGCTCATTT
*
92386564 CAGCTCGTTT
1 CAGCTCATTT
*
92386574 GAGCTCA
1 CAGCTCA
92386581 ACTAAGCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:92386588 original size:20 final size:20
Alignment explanation
Indices: 92386535--92386581 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
92386525 AGCTCTATCC
92386535 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
92386555 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
92386575 AGCTCAA
1 AGCTCAA
92386582 CTAAGCTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:92400377 original size:13 final size:13
Alignment explanation
Indices: 92400359--92400386 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92400349 CTGGACTTCC
92400359 TCACACGGCCGTG
1 TCACACGGCCGTG
92400372 TCACACGGCCGTG
1 TCACACGGCCGTG
92400385 TC
1 TC
92400387 TATTTGGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.39, G:0.29, T:0.18
Consensus pattern (13 bp):
TCACACGGCCGTG
Found at i:92402468 original size:54 final size:54
Alignment explanation
Indices: 92402377--92402511 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
92402367 CATCTTACTG
* *
92402377 CGGGATTACCAGTCCAGGCTAAATCCCCTATAGTATTAACTAATTGAGCATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCATAGTATTAACTAATAGAGCATTGT
* * * *
92402431 CGGGATTACCAGTCTAGGCTAAATCCCCCGTATTATTAACTCATAGAGCATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCATAGTATTAACTAATAGAGCATTGT
* *
92402485 CAGGATTACCAATCCAGGCTAAATCCC
1 CGGGATTACCAGTCCAGGCTAAATCCC
92402512 TTTTAACGAC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCCATAGTATTAACTAATAGAGCATTGT
Found at i:92407595 original size:12 final size:12
Alignment explanation
Indices: 92407560--92407601 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
92407550 AGAGAAAGGA
*
92407560 TAAAAAAATAAT
1 TAAAAATATAAT
*
92407572 T-AAAAT-TTAT
1 TAAAAATATAAT
92407582 TAAAAATATAAT
1 TAAAAATATAAT
92407594 TAAAAATA
1 TAAAAATA
92407602 AATAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 4 0.16
11 9 0.36
12 12 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAAATATAAT
Found at i:92407607 original size:22 final size:22
Alignment explanation
Indices: 92407559--92407616 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
92407549 AAGAGAAAGG
* * *
92407559 ATAAAAAAATAATTAAAATTTA
1 ATAAAAATATAATTAAAAATAA
*
92407581 TTAAAAATATAATTAAAAATAA
1 ATAAAAATATAATTAAAAATAA
92407603 ATAAATTAATATAA
1 ATAAA--AATATAA
92407617 AAATGCATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 22 0.76
24 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAAAATATAATTAAAAATAA
Found at i:92409623 original size:20 final size:20
Alignment explanation
Indices: 92409600--92409662 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
92409590 AAATTCAAAT
* *
92409600 TAAAATACTAAAATTCAGGA
1 TAAAATCCTGAAATTCAGGA
92409620 TAAAATCCTGAAATTCAGGA
1 TAAAATCCTGAAATTCAGGA
*
92409640 TAAAATCCTGAAATTCAAGA
1 TAAAATCCTGAAATTCAGGA
92409660 TAA
1 TAA
92409663 GAACACTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (20 bp):
TAAAATCCTGAAATTCAGGA
Found at i:92410661 original size:76 final size:76
Alignment explanation
Indices: 92410572--92410730 Score: 209
Period size: 76 Copynumber: 2.1 Consensus size: 76
92410562 TATGTGATGT
* * *
92410572 TATTTTTTGGTATGTATAATAAAATAATAATTTTATTTTTGTAATTATAATGTTTTTTTT-G-GA
1 TATTTTTTGGTATGAATAATAAAATAATAATTTTATTTTTATAATAAT-AT-TTTTTTTTGGTGA
92410635 ATAAA-ATAGTTTAG
64 ATAAACA-A-TTTAG
* *
92410649 TATTTTTT-GTATGAATAATAAAATATTAATTTTATTTTTATAGTAATATTTTTTTTTGGTGAAT
1 TATTTTTTGGTATGAATAATAAAATAATAATTTTATTTTTATAATAATATTTTTTTTTGGTGAAT
92410713 AAACAATTTAG
66 AAACAATTTAG
92410724 TATTTTT
1 TATTTTT
92410731 GGGAGAAGAG
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
74 8 0.11
75 15 0.20
76 42 0.57
77 9 0.12
ACGTcount: A:0.35, C:0.01, G:0.10, T:0.55
Consensus pattern (76 bp):
TATTTTTTGGTATGAATAATAAAATAATAATTTTATTTTTATAATAATATTTTTTTTTGGTGAAT
AAACAATTTAG
Found at i:92411754 original size:38 final size:36
Alignment explanation
Indices: 92411677--92411760 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
92411667 GTAATTTTGT
* ***
92411677 TGCTGGTAAATTGTTGCTTATGTTAGTATACATGCC
1 TGCTGGTATATTGTTGCTTAACATAGTATACATGCC
*
92411713 TGCTGGTATATTGTTGCTTAACATATGTTATACATGGC
1 TGCTGGTATATTGTTGCTTAACATA-G-TATACATGCC
92411751 TGCTGGTATA
1 TGCTGGTATA
92411761 CATGGCTAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
36 21 0.51
37 1 0.02
38 19 0.46
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (36 bp):
TGCTGGTATATTGTTGCTTAACATAGTATACATGCC
Found at i:92412054 original size:7 final size:7
Alignment explanation
Indices: 92412042--92412073 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
92412032 ATATATGTAT
92412042 TTCTCAA
1 TTCTCAA
92412049 TTCTCAA
1 TTCTCAA
92412056 TTCTCAA
1 TTCTCAA
92412063 TTCTCAA
1 TTCTCAA
92412070 TTCT
1 TTCT
92412074 TACACATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (7 bp):
TTCTCAA
Found at i:92413385 original size:40 final size:40
Alignment explanation
Indices: 92413325--92413431 Score: 169
Period size: 40 Copynumber: 2.7 Consensus size: 40
92413315 ATTATAAAAA
*
92413325 AATACTCACTGCATGCATATTAAAAAATAGCCAACACACC
1 AATAATCACTGCATGCATATTAAAAAATAGCCAACACACC
* *
92413365 AATAATCACTGCATGCATATTAATAAATAGTCAACACACC
1 AATAATCACTGCATGCATATTAAAAAATAGCCAACACACC
* *
92413405 AACAATCAGTGCATGCATATTAAAAAA
1 AATAATCACTGCATGCATATTAAAAAA
92413432 CATTTACTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (40 bp):
AATAATCACTGCATGCATATTAAAAAATAGCCAACACACC
Found at i:92415025 original size:15 final size:15
Alignment explanation
Indices: 92415005--92415050 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
92414995 GATGCATCAC
*
92415005 TATCACTACCTGACA
1 TATCACTACCAGACA
92415020 TATCACTACCAGACA
1 TATCACTACCAGACA
* * *
92415035 CATCATTACTAGACA
1 TATCACTACCAGACA
92415050 T
1 T
92415051 GTTTTCTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (15 bp):
TATCACTACCAGACA
Found at i:92415564 original size:6 final size:6
Alignment explanation
Indices: 92415555--92415624 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
92415545 AAATAACCCT
* * * * * * *
92415555 AAATCG AAATCC AAATCC AAATCA AAATCA AAATC- AAATTCT AATTCT
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAA-TCG AAATCG
*
92415603 AAATCG AGATCG AAATCG AAAT
1 AAATCG AAATCG AAATCG AAAT
92415625 TGTATCAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 3 0.05
6 50 0.91
7 2 0.04
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.23
Consensus pattern (6 bp):
AAATCG
Found at i:92415680 original size:18 final size:18
Alignment explanation
Indices: 92415659--92415701 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
92415649 AGTGAGTGTT
* *
92415659 TCAAAATTGTAATAAAAA
1 TCAAAATAGAAATAAAAA
*
92415677 TCAAAATAGAAATCAAAA
1 TCAAAATAGAAATAAAAA
92415695 TCAAAAT
1 TCAAAAT
92415702 CAAAACCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (18 bp):
TCAAAATAGAAATAAAAA
Found at i:92415684 original size:12 final size:12
Alignment explanation
Indices: 92415669--92415706 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
92415659 TCAAAATTGT
92415669 AATAAAAATCAA
1 AATAAAAATCAA
*
92415681 AATAGAAATCAA
1 AATAAAAATCAA
*
92415693 AATCAAAATCAA
1 AATAAAAATCAA
92415705 AA
1 AA
92415707 CCGAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.16
Consensus pattern (12 bp):
AATAAAAATCAA
Found at i:92415695 original size:6 final size:6
Alignment explanation
Indices: 92415673--92415706 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
92415663 AATTGTAATA
92415673 AAAATC AAAAT- AGAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC A-AAATC AAAATC AAAATC AAAA
92415707 CCGAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 24 0.92
7 1 0.04
ACGTcount: A:0.71, C:0.12, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:92415713 original size:12 final size:12
Alignment explanation
Indices: 92415674--92415731 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
92415664 ATTGTAATAA
*
92415674 AAATCAAAATAG
1 AAATCAAAATCG
*
92415686 AAATCAAAATCA
1 AAATCAAAATCG
*
92415698 AAATCAAAACCG
1 AAATCAAAATCG
* *
92415710 AAATTAAAATTG
1 AAATCAAAATCG
*
92415722 AAACCAAAAT
1 AAATCAAAAT
92415732 AACCTTAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (12 bp):
AAATCAAAATCG
Found at i:92415713 original size:18 final size:18
Alignment explanation
Indices: 92415673--92415731 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
92415663 AATTGTAATA
*
92415673 AAAATCAAAATAGAAATC
1 AAAATCAAAATAGAAACC
92415691 AAAATCAAAATCA-AAACC
1 AAAATCAAAAT-AGAAACC
* * *
92415709 GAAATTAAAATTGAAACC
1 AAAATCAAAATAGAAACC
92415727 AAAAT
1 AAAAT
92415732 AACCTTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 33 0.97
19 1 0.03
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAATCAAAATAGAAACC
Found at i:92423564 original size:23 final size:23
Alignment explanation
Indices: 92423536--92423629 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
92423526 ATGTGTGTAT
* *
92423536 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
92423559 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
92423582 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
92423605 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
92423628 CT
1 CT
92423630 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:92428071 original size:23 final size:23
Alignment explanation
Indices: 92428043--92428136 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
92428033 ATGTGTGTAT
* *
92428043 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
92428066 CTTTTCATCTCCAAGTCACTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
92428089 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
92428112 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
92428135 CT
1 CT
92428137 CTTCTAACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.23, C:0.27, G:0.04, T:0.46
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:92438917 original size:3 final size:3
Alignment explanation
Indices: 92438909--92438957 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
92438899 TGTCAACTTT
92438909 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92438957 T
1 T
92438958 TTTTTCAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:92440146 original size:27 final size:27
Alignment explanation
Indices: 92440108--92440163 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
92440098 ATAGGAGAAT
92440108 GGTGGAATTTAATCATTTATCATCGGC
1 GGTGGAATTTAATCATTTATCATCGGC
92440135 GGTGGAATTTAATCATTTATCATCGGC
1 GGTGGAATTTAATCATTTATCATCGGC
92440162 GG
1 GG
92440164 CTTCCAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (27 bp):
GGTGGAATTTAATCATTTATCATCGGC
Found at i:92443730 original size:13 final size:15
Alignment explanation
Indices: 92443700--92443736 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
92443690 TAAATAATAA
*
92443700 AATATAGTTATATTT
1 AATATATTTATATTT
92443715 AATA-ATTTAT-TTT
1 AATATATTTATATTT
92443728 AATATATTT
1 AATATATTT
92443737 CATTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
AATATATTTATATTT
Found at i:92446778 original size:3 final size:3
Alignment explanation
Indices: 92446767--92446801 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
92446757 CATCATCATC
*
92446767 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
92446802 CATCATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:92450602 original size:18 final size:19
Alignment explanation
Indices: 92450566--92450604 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
92450556 GTGAAATGTG
92450566 TATGTTTTTGGATGAAAAA
1 TATGTTTTTGGATGAAAAA
92450585 TATGTTTTTGGATGAAAAA
1 TATGTTTTTGGATGAAAAA
92450604 T
1 T
92450605 GATTAGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (19 bp):
TATGTTTTTGGATGAAAAA
Found at i:92456965 original size:33 final size:32
Alignment explanation
Indices: 92456888--92456965 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
92456878 CAGTGTTTAT
*
92456888 ATGTAAGACCATAACTGGGCTATGACATATTA
1 ATGTAAAACCATAACTGGGCTATGACATATTA
* * *
92456920 ATGAAAAGACCATAACTGGGTTATGGCACT-TTGA
1 ATGTAAA-ACCATAACTGGGCTATGACA-TATT-A
92456954 ATGTAAAACCAT
1 ATGTAAAACCAT
92456966 GGTTGGACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
32 5 0.13
33 25 0.66
34 8 0.21
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (32 bp):
ATGTAAAACCATAACTGGGCTATGACATATTA
Found at i:92457038 original size:101 final size:101
Alignment explanation
Indices: 92456863--92457081 Score: 303
Period size: 101 Copynumber: 2.2 Consensus size: 101
92456853 GGATAAGACT
** *
92456863 ATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAACTGGGCTATGACATATTAATGAAAAG
1 ATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAACTGAGCTATGACATATTAATGAAAAG
* **
92456928 ACCATAACTGGGTTATGGCACTTTGAATGTAAAACC
66 ACCATAACTGGGTTATGACACTACGAATGTAAAACC
* ** * * *
92456964 ATGGTTGGACCATGGCAGTAATTATATGTAAGACTATAGTTGAGCTATGACATTTTGATGATAAG
1 ATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAACTGAGCTATGACATATTAATGAAAAG
*
92457029 ACCATAACTGGGTTATGACACTACGAATGTAAGACC
66 ACCATAACTGGGTTATGACACTACGAATGTAAAACC
* *
92457065 ATGGTAGGGCCATGGCA
1 ATGGTTGGACCATGGCA
92457082 ATGCATGTGT
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 103 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (101 bp):
ATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAACTGAGCTATGACATATTAATGAAAAG
ACCATAACTGGGTTATGACACTACGAATGTAAAACC
Found at i:92457366 original size:16 final size:17
Alignment explanation
Indices: 92457347--92457379 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92457337 ATGTTGGTAC
*
92457347 ATGAAAT-ATTGATATA
1 ATGAAATGAGTGATATA
92457363 ATGAAATGAGTGATATA
1 ATGAAATGAGTGATATA
92457380 TGTTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
ATGAAATGAGTGATATA
Found at i:92461706 original size:16 final size:17
Alignment explanation
Indices: 92461673--92461719 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
92461663 TAATTTTTCC
**
92461673 TTTTTAAATGAAGTTTA
1 TTTTTAAATGAAAATTA
92461690 TTTTTAAAT-AAAATTA
1 TTTTTAAATGAAAATTA
* *
92461706 TTTATATATGAAAA
1 TTTTTAAATGAAAA
92461720 AGGGGGCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TTTTTAAATGAAAATTA
Found at i:92462086 original size:13 final size:14
Alignment explanation
Indices: 92462051--92462086 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
92462041 AATTTTTTGA
92462051 TAAATTA-AAATTT
1 TAAATTATAAATTT
92462064 TAAATT-TAAA-TT
1 TAAATTATAAATTT
92462076 TAAATTATAAA
1 TAAATTATAAA
92462087 CTTTGTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAATTATAAATTT
Found at i:92464546 original size:15 final size:15
Alignment explanation
Indices: 92464514--92464542 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
92464504 ATTTTCTGTG
92464514 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
92464529 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
92464543 ATTTTGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:92465796 original size:56 final size:56
Alignment explanation
Indices: 92465710--92465840 Score: 217
Period size: 56 Copynumber: 2.3 Consensus size: 56
92465700 GGCATTGATG
*
92465710 TATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATTGATATGTGATTTCGATA
1 TATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATCGATATGTGATTTCGATA
* *
92465766 TATGTGTGCGAGTAAGGCCACGTTTAATACGTTGGCATCGATATGTGATTTCGATA
1 TATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATCGATATGTGATTTCGATA
* *
92465822 TATGTATGAGAGTAAGACC
1 TATGTGTGCGAGTAAGACC
92465841 CTGTCTGGGA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (56 bp):
TATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATCGATATGTGATTTCGATA
Found at i:92465858 original size:56 final size:56
Alignment explanation
Indices: 92465710--92465871 Score: 175
Period size: 56 Copynumber: 2.9 Consensus size: 56
92465700 GGCATTGATG
* * * * * *
92465710 TATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATTGATATGTGATTTCGATA
1 TATGTATGAGAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGATTTCGATA
* * * * *
92465766 TATGTGTGCGAGTAAGGCCACGTTTAATACGTTGGCATCGATATGTGATTTCGATA
1 TATGTATGAGAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGATTTCGATA
**
92465822 TATGTATGAGAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATT
1 TATGTATGAGAGTAAGACCAC-GTCTAAGAC-GTTGGCATCGATATGTGATT
92465872 ACATGTAACA
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
55 1 0.01
56 92 0.98
57 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (56 bp):
TATGTATGAGAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGATTTCGATA
Found at i:92470236 original size:19 final size:19
Alignment explanation
Indices: 92470212--92470274 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
92470202 TACAAAATTT
92470212 ACAACTTTCATCAATTTTC
1 ACAACTTTCATCAATTTTC
* *
92470231 ACAACTTT-ATTAAATTT-
1 ACAACTTTCATCAATTTTC
92470248 ACAACTTTCATCAATTTTC
1 ACAACTTTCATCAATTTTC
92470267 ACAACTTT
1 ACAACTTT
92470275 ACATTTTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 8 0.21
18 14 0.37
19 16 0.42
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (19 bp):
ACAACTTTCATCAATTTTC
Found at i:92470253 original size:17 final size:19
Alignment explanation
Indices: 92470206--92470274 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 19
92470196 TTTCAATACA
92470206 AAATTT-ACAACTTTCATC
1 AAATTTCACAACTTTCATC
* *
92470224 AATTTTCACAACTTT-ATT
1 AAATTTCACAACTTTCATC
92470242 AAATTT-ACAACTTTCATC
1 AAATTTCACAACTTTCATC
*
92470260 AATTTTCACAACTTT
1 AAATTTCACAACTTT
92470275 ACATTTTAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
17 8 0.19
18 19 0.44
19 16 0.37
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTTCACAACTTTCATC
Found at i:92470253 original size:36 final size:36
Alignment explanation
Indices: 92470206--92470275 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
92470196 TTTCAATACA
92470206 AAATTTACAACTTTCATCAATTTTCACAACTTTATT
1 AAATTTACAACTTTCATCAATTTTCACAACTTTATT
92470242 AAATTTACAACTTTCATCAATTTTCACAACTTTA
1 AAATTTACAACTTTCATCAATTTTCACAACTTTA
92470276 CATTTTAGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (36 bp):
AAATTTACAACTTTCATCAATTTTCACAACTTTATT
Found at i:92471294 original size:39 final size:37
Alignment explanation
Indices: 92471200--92471295 Score: 124
Period size: 36 Copynumber: 2.6 Consensus size: 37
92471190 AAAATTAGTT
* *
92471200 TGAGTCTTTAATTATGTCATAATTTGAAAAATATTTA
1 TGAGTTTTTAATTATGTCATAATCTGAAAAATATTTA
*
92471237 TGAG-TTTTAATTATGTCATAATCT-AAACATATTTA
1 TGAGTTTTTAATTATGTCATAATCTGAAAAATATTTA
92471272 GTAAGAGTTTTTAATTATGTCATA
1 -T--GAGTTTTTAATTATGTCATA
92471296 GTTTAGGACA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
35 10 0.19
36 19 0.37
37 4 0.08
38 3 0.06
39 16 0.31
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.46
Consensus pattern (37 bp):
TGAGTTTTTAATTATGTCATAATCTGAAAAATATTTA
Found at i:92479030 original size:50 final size:50
Alignment explanation
Indices: 92478955--92479131 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
92478945 CCATGGAAAC
92478955 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
92479005 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
92479055 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
92479105 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
92479132 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:92479147 original size:31 final size:31
Alignment explanation
Indices: 92479109--92479310 Score: 287
Period size: 31 Copynumber: 6.5 Consensus size: 31
92479099 AAATGACAAC
92479109 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
92479140 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
92479171 TGAAAAGTGGTAGCTTCTGCTACCTAATTAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
92479202 TGAAAAGTGGTAGCTTCGGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
92479233 TGAAAAGTGGTAGTTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* ** *
92479264 TGAAAAATGGTAGCACCAGCTACCTGATCGG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
92479295 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
92479311 TGGCTACAAG
Statistics
Matches: 152, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 152 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:92479428 original size:47 final size:48
Alignment explanation
Indices: 92479341--92479466 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 48
92479331 CAAGCGATTT
* * *
92479341 CTGTATAAGACCATATCTGGGATATGGTATCGGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
92479388 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
92479436 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
92479467 TTATGTAAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 65 0.96
48 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:92483348 original size:13 final size:13
Alignment explanation
Indices: 92483330--92483354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92483320 CCGAGCACAC
92483330 GCCCGTGTCCCTA
1 GCCCGTGTCCCTA
92483343 GCCCGTGTCCCT
1 GCCCGTGTCCCT
92483355 CAAACGGCCT
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:0.04, C:0.48, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTA
Found at i:92488915 original size:3 final size:3
Alignment explanation
Indices: 92488909--92488946 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
92488899 TTGTTGTTTA
*
92488909 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92488947 GGAATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:92489506 original size:28 final size:28
Alignment explanation
Indices: 92489433--92489509 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
92489423 ATTATGGAAT
92489433 TGAAAAG-GAAATTGAATTGATGATGGA
1 TGAAAAGTGAAATTGAATTGATGATGGA
* * * * *
92489460 T-AAGTATTGATATTAAATTGTAT-ATTGA
1 TGAA-AAGTGAAATTGAATTG-ATGATGGA
92489488 TGAAAAGTGAAATTGAATTGAT
1 TGAAAAGTGAAATTGAATTGAT
92489510 TTGTAAATGA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 27 0.73
29 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (28 bp):
TGAAAAGTGAAATTGAATTGATGATGGA
Found at i:92496141 original size:38 final size:38
Alignment explanation
Indices: 92496089--92496222 Score: 128
Period size: 39 Copynumber: 3.4 Consensus size: 38
92496079 AAAATTAGTT
* *
92496089 TGAGTCTTTAATTATGTCATAATTTGAACAT-TATTTATA
1 TGAGT-TTTAATTATGTCATAATCTGAACATCT-TTAATA
92496128 TGAGTTTTAATTATGTCATAATCTGAACATCTTTAATA
1 TGAGTTTTAATTATGTCATAATCTGAACATCTTTAATA
* * * * * *
92496166 AGGGTTTTTAATTATGTCATAGTTTAGGACATCTTAAATA
1 TGAG-TTTTAATTATGTCATAATCT-GAACATCTTTAATA
*
92496206 T-ATGTTTTAAATATGTC
1 TGA-GTTTTAATTATGTC
92496223 CTAGTTTAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
38 31 0.39
39 36 0.45
40 13 0.16
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (38 bp):
TGAGTTTTAATTATGTCATAATCTGAACATCTTTAATA
Found at i:92496214 original size:39 final size:38
Alignment explanation
Indices: 92496095--92496253 Score: 119
Period size: 39 Copynumber: 4.1 Consensus size: 38
92496085 AGTTTGAGTC
* * * *
92496095 TTTAATTATGTCATAATTT-GAACATTATTTATATGA-GT
1 TTTAATTATGTCATAGTTTAGGACA-TCTTTA-ATAATGT
* * * *
92496133 TTTAATTATGTCATAATCT-GAACATCTTTAATAAGGGTT
1 TTTAATTATGTCATAGTTTAGGACATCTTTAATAA-TG-T
*
92496172 TTTAATTATGTCATAGTTTAGGACATCTTAAATATATGT
1 TTTAATTATGTCATAGTTTAGGACATCTTTAATA-ATGT
* * *
92496211 TTTAAATATGTCCTAGTTTA-GACGTCTTTAATACATGT
1 TTTAATTATGTCATAGTTTAGGACATCTTTAATA-ATGT
92496249 CTTTA
1 -TTTA
92496254 GTTCAGACCA
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
36 3 0.03
37 5 0.05
38 39 0.38
39 41 0.40
40 13 0.13
41 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (38 bp):
TTTAATTATGTCATAGTTTAGGACATCTTTAATAATGT
Found at i:92499812 original size:22 final size:23
Alignment explanation
Indices: 92499787--92499829 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
92499777 AAGATTTTCC
*
92499787 TTGAGTAATT-TTTTTTTTAAGT
1 TTGAGTAATTATTATTTTTAAGT
92499809 TTGAGTAATTATTATTTTTAA
1 TTGAGTAATTATTATTTTTAA
92499830 TTAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (23 bp):
TTGAGTAATTATTATTTTTAAGT
Found at i:92508940 original size:55 final size:55
Alignment explanation
Indices: 92508762--92509037 Score: 322
Period size: 55 Copynumber: 4.9 Consensus size: 55
92508752 GCTACGTAAT
*
92508762 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCCAATATAAC
1 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCCAACATAAC
* * *
92508817 AATCGATTTAAACATATAAA-GATCGATTCAAAAAAAGAAGTAGCAATATTCCACCATAAC
1 AATCGATTTAAACATATAAACAATCAATTC---AAAAG-A--AGCAATATTCCAACATAAC
* * * * * * *
92508877 AATTGATTTAAACATAAAAATAATCTATTCAAAAGAAGAAATATTCCAACGTGGA-
1 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCCAACAT-AAC
** *
92508932 AATCGATTTAAACATATAAATTATCAATTCAAAAGAAGCAATATTCCAACATGAC
1 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCCAACATAAC
* * *
92508987 AATCGATTTAAACGTATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
1 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCCAACA
92509038 ATTAAGAAGA
Statistics
Matches: 189, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
54 9 0.05
55 125 0.66
56 1 0.01
57 6 0.03
58 6 0.03
60 35 0.19
61 7 0.04
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (55 bp):
AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGCAATATTCCAACATAAC
Found at i:92526631 original size:12 final size:13
Alignment explanation
Indices: 92526614--92526645 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
92526604 ATAGCACATT
92526614 TCAAAAC-ATGCA
1 TCAAAACTATGCA
92526626 TCAAAACTATGCA
1 TCAAAACTATGCA
92526639 -CAAAACT
1 TCAAAACT
92526646 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:92528590 original size:66 final size:66
Alignment explanation
Indices: 92528466--92528591 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
92528456 CATAACATCT
* * * * * *
92528466 ACAGAGATAGTCCACTAGAACAGTAAACACATAACAAAGATAGTCCTCTGGGAGAATAAACACAA
1 ACAGAGATAGACCACTAGAACAGTAAAAACAGAACAAAGATAGTCCTCTAGAACAATAAACACAA
92528531 A
66 A
* * * *
92528532 ACAGAGATAGACTACTAGGACAGTAAAAACAGAACAAAGATTGCTCGTC-AGAACAATAAA
1 ACAGAGATAGACCACTAGAACAGTAAAAACAGAACAAAGATAG-TCCTCTAGAACAATAAA
92528592 TACGGGTAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
66 45 0.92
67 4 0.08
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.15
Consensus pattern (66 bp):
ACAGAGATAGACCACTAGAACAGTAAAAACAGAACAAAGATAGTCCTCTAGAACAATAAACACAA
A
Found at i:92536101 original size:20 final size:19
Alignment explanation
Indices: 92536078--92536126 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
92536068 TTTAATAATT
**
92536078 AAAAATTATTTAAATTATTCA
1 AAAAATTATAAAAATTA-T-A
92536099 AAAAA-TATAAAAATTATA
1 AAAAATTATAAAAATTATA
92536117 AAAAATTATA
1 AAAAATTATA
92536127 TTTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 6 0.24
19 5 0.20
20 9 0.36
21 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTATAAAAATTATA
Found at i:92537526 original size:8 final size:8
Alignment explanation
Indices: 92537513--92537542 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
92537503 AATGTTTCTT
92537513 ATTTCTCC
1 ATTTCTCC
92537521 ATTTCTCC
1 ATTTCTCC
*
92537529 ATTTCACC
1 ATTTCTCC
92537537 ATTTCT
1 ATTTCT
92537543 ATTCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTCTCC
Found at i:92558287 original size:3 final size:3
Alignment explanation
Indices: 92558279--92558306 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
92558269 GCCCTCTTGA
92558279 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
92558307 CCCATCTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:92563427 original size:8 final size:8
Alignment explanation
Indices: 92563414--92563449 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
92563404 ATTCTTTTTA
92563414 TAAAATTC
1 TAAAATTC
92563422 TAAAA-TC
1 TAAAATTC
*
92563429 TATAATTC
1 TAAAATTC
92563437 TAAAATTC
1 TAAAATTC
92563445 TAAAA
1 TAAAA
92563450 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (8 bp):
TAAAATTC
Found at i:92563576 original size:22 final size:20
Alignment explanation
Indices: 92563546--92563585 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
92563536 TATTTTGATT
*
92563546 TTTTTAAATTTATAATTATACA
1 TTTTAAAATTT-T-ATTATACA
92563568 TTTTAAAATTTTATTATA
1 TTTTAAAATTTTATTATA
92563586 AATATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTAAAATTTTATTATACA
Found at i:92563594 original size:23 final size:26
Alignment explanation
Indices: 92563568--92563620 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 26
92563558 TAATTATACA
92563568 TTTTAAAATT-T-TATTATAAAT-AT
1 TTTTAAAATTATATATTATAAATGAT
*
92563591 TTTTAAAATTATATATTATATATGAT
1 TTTTAAAATTATATATTATAAATGAT
92563617 TTTT
1 TTTT
92563621 TACATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.38
24 1 0.04
25 9 0.35
26 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTAAAATTATATATTATAAATGAT
Found at i:92563619 original size:25 final size:22
Alignment explanation
Indices: 92563567--92563619 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 22
92563557 ATAATTATAC
92563567 ATTTTAAAATTTTATTATAAAT
1 ATTTTAAAATTTTATTATAAAT
*
92563589 ATTTTTAAAATTATATATTATATAT
1 A-TTTTAAAATT-T-TATTATAAAT
92563614 GATTTT
1 -ATTTT
92563620 TTACATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 10 0.38
24 1 0.04
25 13 0.50
26 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTAAAATTTTATTATAAAT
Found at i:92568680 original size:36 final size:36
Alignment explanation
Indices: 92568633--92568703 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
92568623 TAAAAGCCAT
*
92568633 ACAAGAAGAAATGCAATCTTTGCATGATAACCAAAA
1 ACAAGAAGAAATACAATCTTTGCATGATAACCAAAA
92568669 ACAAGAAGAAATACAATCTTTGCATGATAACCAAA
1 ACAAGAAGAAATACAATCTTTGCATGATAACCAAA
92568704 CTTATGATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.20
Consensus pattern (36 bp):
ACAAGAAGAAATACAATCTTTGCATGATAACCAAAA
Found at i:92571966 original size:5 final size:5
Alignment explanation
Indices: 92571956--92571980 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
92571946 TACTTTGGTT
92571956 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
92571981 AATTTTCGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:92585750 original size:23 final size:25
Alignment explanation
Indices: 92585724--92585770 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
92585714 TATCATTCAT
*
92585724 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
92585747 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
92585771 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:92586119 original size:46 final size:46
Alignment explanation
Indices: 92586031--92586342 Score: 408
Period size: 46 Copynumber: 7.0 Consensus size: 46
92586021 TTTGACGTGA
* * * * * * *
92586031 TGCCATAGTGTCTTTCAACTATGGCCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
92586077 TGCCATGGTATCTTTCAACCTTGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
92586123 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
92586169 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
92586215 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
92586261 TGCCATGGTATCTTTCAACCATGGTCTT----A--T-ACA-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
92586299 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
92586343 AGAGCACACT
Statistics
Matches: 237, Mismatches: 20, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
38 33 0.14
39 2 0.01
40 1 0.00
42 2 0.01
44 1 0.00
45 6 0.03
46 192 0.81
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:92588488 original size:27 final size:28
Alignment explanation
Indices: 92588458--92588534 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 28
92588448 TATATACTAA
92588458 TAAAATAATAATAATAAAATATCTTAT-
1 TAAAATAATAATAATAAAATATCTTATC
* *
92588485 TAAAGTATTAATAA-AATAATAT-TTATC
1 TAAAATAATAATAATAA-AATATCTTATC
* *
92588512 T-AATTAAATAATTATAAAATATC
1 TAAAAT-AATAATAATAAAATATC
92588535 AAAATATCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
26 9 0.22
27 29 0.73
28 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (28 bp):
TAAAATAATAATAATAAAATATCTTATC
Found at i:92591652 original size:28 final size:28
Alignment explanation
Indices: 92591621--92591676 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
92591611 TTTCTAATTA
* * *
92591621 AGTTCAATTTTAATCCTTTTTATATTTT
1 AGTTCAATTTAAATACTTTATATATTTT
* *
92591649 AGTTTACTTTAAATACTTTATATATTTT
1 AGTTCAATTTAAATACTTTATATATTTT
92591677 TATAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.59
Consensus pattern (28 bp):
AGTTCAATTTAAATACTTTATATATTTT
Found at i:92591787 original size:28 final size:28
Alignment explanation
Indices: 92591712--92591794 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 28
92591702 TTATTATCCA
92591712 ATACATTATTTTATCATATATTTTA-TCT
1 ATACATTATTTTAT-ATATATTTTATTCT
* *
92591740 ATAAATTATATTATATTATATATTTTATTTT
1 ATACATTAT-TT-TA-TATATATTTTATTCT
92591771 ATACATT-TCTTTATATAT-TTTTAT
1 ATACATTAT-TTTATATATATTTTAT
92591795 AAAATTGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
27 6 0.13
28 13 0.28
29 4 0.09
30 15 0.32
31 9 0.19
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (28 bp):
ATACATTATTTTATATATATTTTATTCT
Found at i:92592136 original size:21 final size:21
Alignment explanation
Indices: 92592112--92592152 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92592102 TTTCTTATAT
*
92592112 TTTTATATATTATTTATTTTG
1 TTTTATATACTATTTATTTTG
*
92592133 TTTTTTATACTATTTATTTT
1 TTTTATATACTATTTATTTT
92592153 ACTATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATATACTATTTATTTTG
Found at i:92594012 original size:17 final size:18
Alignment explanation
Indices: 92593987--92594020 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
92593977 TTTATATTAA
92593987 ATTTATATTTTA-AATAT
1 ATTTATATTTTACAATAT
*
92594004 ATTTTTATTTTACAATA
1 ATTTATATTTTACAATA
92594021 AAAGTATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTATATTTTACAATAT
Found at i:92603172 original size:46 final size:46
Alignment explanation
Indices: 92603105--92603367 Score: 366
Period size: 46 Copynumber: 5.7 Consensus size: 46
92603095 TGGCAACCTG
*
92603105 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
*
92603151 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
* * * *
92603197 TGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGATTTGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
*
92603243 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
* ** **
92603289 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGGCA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAA
* * * *
92603335 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
92603368 TCACGTCAAA
Statistics
Matches: 197, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 196 0.99
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA
Done.