Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 322 of 325
Found at i:97445923 original size:46 final size:46
Alignment explanation
Indices: 97445748--97445923 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
97445738 TGTAACCCGC
* * *
97445748 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
97445794 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
97445844 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
97445887 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
97445924 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:97453446 original size:93 final size:93
Alignment explanation
Indices: 97453334--97453505 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
97453324 CGCCCATAAG
* *
97453334 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97453399 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
97453427 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97453492 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
97453506 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:97453502 original size:46 final size:46
Alignment explanation
Indices: 97453327--97453502 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
97453317 TGTAACCCGC
* * *
97453327 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
97453373 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
97453423 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
97453466 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
97453503 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:97461024 original size:93 final size:93
Alignment explanation
Indices: 97460912--97461083 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
97460902 CGCCCATAAG
* *
97460912 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97460977 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
97461005 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97461070 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
97461084 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:97461080 original size:46 final size:46
Alignment explanation
Indices: 97460905--97461080 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
97460895 TGTAACCCGC
* * *
97460905 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
97460951 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
97461001 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
97461044 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
97461081 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:97462452 original size:29 final size:29
Alignment explanation
Indices: 97462418--97462607 Score: 265
Period size: 29 Copynumber: 6.6 Consensus size: 29
97462408 TACTCGATTT
** * *
97462418 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
97462447 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
97462476 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
97462505 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
97462534 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
97462563 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
97462592 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
97462608 ATCTCGTCAC
Statistics
Matches: 145, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
28 2 0.01
29 143 0.99
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:97466000 original size:18 final size:20
Alignment explanation
Indices: 97465977--97466015 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
97465967 AAGGGAGAAT
97465977 AAAG-AAATG-GAAAAAAAA
1 AAAGAAAATGAGAAAAAAAA
97465995 AAAGAAAATGATGAAAAAAAA
1 AAAGAAAATGA-GAAAAAAAA
97466016 TGTGTGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
21 9 0.50
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAGAAAATGAGAAAAAAAA
Found at i:97467356 original size:29 final size:29
Alignment explanation
Indices: 97467324--97467426 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
97467314 GTGACGAGAT
* *
97467324 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
97467353 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
97467382 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
97467411 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
97467427 TGATCGAATA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:97473166 original size:45 final size:45
Alignment explanation
Indices: 97473117--97473206 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
97473107 GAAGAATTAA
97473117 AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
1 AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
* *
97473162 AATATTAATTTATTTATAGCCTTAATTCAATGTACAACCATAATC
1 AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
97473207 TAAATAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.40
Consensus pattern (45 bp):
AATATTAATTTATTTATAGCCTTAATTCAATATACAAACATAATC
Found at i:97473767 original size:6 final size:6
Alignment explanation
Indices: 97473756--97473791 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
97473746 ATATATGATA
* *
97473756 AGATTT AGATTT AGATTT AGATTT AAATTT AAATTT
1 AGATTT AGATTT AGATTT AGATTT AGATTT AGATTT
97473792 TTATTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (6 bp):
AGATTT
Found at i:97474599 original size:2 final size:2
Alignment explanation
Indices: 97474592--97474621 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
97474582 GTAAGGATTC
97474592 AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
97474622 AATTATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:97479640 original size:24 final size:24
Alignment explanation
Indices: 97479613--97479663 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
97479603 TTCTAGTGTT
* * *
97479613 AAAATCAAGGATTTTTGTGAGTAA
1 AAAATCAACGACTTTTGTAAGTAA
*
97479637 AAAATCAACTACTTTTGTAAGTAA
1 AAAATCAACGACTTTTGTAAGTAA
97479661 AAA
1 AAA
97479664 TTATAGGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (24 bp):
AAAATCAACGACTTTTGTAAGTAA
Found at i:97481567 original size:14 final size:14
Alignment explanation
Indices: 97481548--97481594 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
97481538 TATATGCATA
97481548 GAAAATATATATTT
1 GAAAATATATATTT
* *
97481562 GAAAATA-A-ACTA
1 GAAAATATATATTT
97481574 GAAAATATATATTT
1 GAAAATATATATTT
97481588 GAAAATA
1 GAAAATA
97481595 AACTATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 16 0.59
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (14 bp):
GAAAATATATATTT
Found at i:97481575 original size:26 final size:26
Alignment explanation
Indices: 97481546--97481599 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
97481536 TATATATGCA
97481546 TAGAAAATATATATTTGAAAATAAAC
1 TAGAAAATATATATTTGAAAATAAAC
97481572 TAGAAAATATATATTTGAAAATAAAC
1 TAGAAAATATATATTTGAAAATAAAC
97481598 TA
1 TA
97481600 TATAAAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (26 bp):
TAGAAAATATATATTTGAAAATAAAC
Found at i:97481965 original size:22 final size:21
Alignment explanation
Indices: 97481935--97481999 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 21
97481925 TTCAAATTAA
97481935 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
97481957 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
97481978 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
97481997 ATC
1 ATC
97482000 GAAGATTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
19 18 0.45
21 10 0.25
22 12 0.30
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:97481987 original size:19 final size:19
Alignment explanation
Indices: 97481952--97482049 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
97481942 AGATTACAAG
97481952 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
97481973 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
97481992 ATCATATCGAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
97482009 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
97482028 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
97482047 ATC
1 ATC
97482050 CTTAAAGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 15 0.21
19 47 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:97482015 original size:36 final size:37
Alignment explanation
Indices: 97481963--97482049 Score: 131
Period size: 36 Copynumber: 2.3 Consensus size: 37
97481953 TCATATCTTC
97481963 AAGATTGCATATCATATCTAAGATTGCATATCATATCG
1 AAGATTG-ATATCATATCTAAGATTGCATATCATATCG
* *
97482001 AAGATTG-TATCATATCTAATATTGCATATCATATCT
1 AAGATTGATATCATATCTAAGATTGCATATCATATCG
97482037 AAGATTGCATATC
1 AAGATTG-ATATC
97482050 CTTAAAGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 34 0.76
38 11 0.24
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
AAGATTGATATCATATCTAAGATTGCATATCATATCG
Found at i:97485107 original size:49 final size:49
Alignment explanation
Indices: 97485049--97485147 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
97485039 CATCCAAAAC
*
97485049 GCCATAGAAGGTTTGGAGAAAGCTGGTTTTTCATATTTTTACATCATGT
1 GCCATAGAAGGTCTGGAGAAAGCTGGTTTTTCATATTTTTACATCATGT
97485098 GCCATAGAAGGTCTGGAGAAAGCTGGTTTTTCATATTTTTACATCATGT
1 GCCATAGAAGGTCTGGAGAAAGCTGGTTTTTCATATTTTTACATCATGT
97485147 G
1 G
97485148 AGTTTAATTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (49 bp):
GCCATAGAAGGTCTGGAGAAAGCTGGTTTTTCATATTTTTACATCATGT
Found at i:97486049 original size:53 final size:53
Alignment explanation
Indices: 97485893--97486058 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
97485883 GACAAAAAAT
* * **
97485893 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCTGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
97485945 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
97485998 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
97486052 TATGTGA
1 -ATGTGA
97486059 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 80 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:97507263 original size:40 final size:40
Alignment explanation
Indices: 97507208--97507352 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
97507198 GGCTCGGATG
97507208 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
1 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
* *
97507248 TAATAACCCGCACGAATGCCTTCGGGACTTAACCCGATTA
1 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
** *
97507288 TAATAACCCA-CACGAATGCCTTC-GGATCTTAGTCCGGATA
1 TAATAA-CCAGCACGAATGCCTTCGGGA-CTTAACCCGGTTA
* * *
97507328 TAGTAACTAGCACAAATGCCTTCGG
1 TAATAACCAGCACGAATGCCTTCGG
97507353 ATCTTAGTCC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
39 5 0.05
40 83 0.91
41 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
Found at i:97510579 original size:15 final size:15
Alignment explanation
Indices: 97510556--97510585 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97510546 AAAATTATAA
97510556 CGAAAATAATAAAAT
1 CGAAAATAATAAAAT
*
97510571 CGAAGATAATAAAAT
1 CGAAAATAATAAAAT
97510586 TCAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (15 bp):
CGAAAATAATAAAAT
Found at i:97510637 original size:14 final size:14
Alignment explanation
Indices: 97510612--97510666 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
97510602 AAAAAAATAA
97510612 TTGAAGATTGAAATT
1 TTGAAGATTGAAA-T
*
97510627 TTGAA-ATTGAAAA
1 TTGAAGATTGAAAT
* *
97510640 TTGAACATTTAAAT
1 TTGAAGATTGAAAT
97510654 TTGAAGATTGAAA
1 TTGAAGATTGAAA
97510667 ATATAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
13 5 0.15
14 24 0.71
15 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.36
Consensus pattern (14 bp):
TTGAAGATTGAAAT
Found at i:97510642 original size:28 final size:27
Alignment explanation
Indices: 97510610--97510712 Score: 91
Period size: 28 Copynumber: 3.7 Consensus size: 27
97510600 TTAAAAAAAT
97510610 AATTGAAGATTGAAATTTTGAAATTGAA
1 AATTGAAGATTGAAA-TTTGAAATTGAA
* *
97510638 AATTGAACATTTAAATTTGAAGATTGAA
1 AATTGAAGATTGAAATTTGAA-ATTGAA
* * *
97510666 AATAT-AAAATTGGAAATTGGAGATTGAA
1 AAT-TGAAGATT-GAAATTTGAAATTGAA
* *
97510694 GATTGAGGATTGAGAATTT
1 AATTGAAGATTGA-AATTT
97510713 AGGAAGGAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
27 9 0.15
28 43 0.72
29 8 0.13
ACGTcount: A:0.45, C:0.01, G:0.20, T:0.34
Consensus pattern (27 bp):
AATTGAAGATTGAAATTTGAAATTGAA
Found at i:97510673 original size:21 final size:20
Alignment explanation
Indices: 97510610--97510713 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 20
97510600 TTAAAAAAAT
*
97510610 AATTGAAGATTGAAATTTTGA
1 AATTGAAGATTGAAAATTT-A
* *
97510631 AATTGAAAATTGAACATTTA
1 AATTGAAGATTGAAAATTTA
*
97510651 AATTTGAAGATTGAAAATATAA
1 AA-TTGAAGATTGAAAAT-TTA
* * *
97510673 AATTGGAA-ATTGGAGATTGA
1 AATT-GAAGATTGAAAATTTA
* *
97510693 AGATTGAGGATTGAGAATTTA
1 A-ATTGAAGATTGAAAATTTA
97510714 GGAAGGAAGA
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
20 8 0.12
21 49 0.77
22 7 0.11
ACGTcount: A:0.45, C:0.01, G:0.20, T:0.34
Consensus pattern (20 bp):
AATTGAAGATTGAAAATTTA
Found at i:97513763 original size:3 final size:3
Alignment explanation
Indices: 97513755--97513779 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
97513745 ATTGTTCCTA
97513755 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
97513780 GAAGTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:97514939 original size:19 final size:19
Alignment explanation
Indices: 97514915--97514955 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
97514905 TATGCGCTAA
97514915 TTGTTTATGTGGTTGAGTT
1 TTGTTTATGTGGTTGAGTT
97514934 TTGTTTATGTGGTTGAGTT
1 TTGTTTATGTGGTTGAGTT
97514953 TTG
1 TTG
97514956 CTCAAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.32, T:0.59
Consensus pattern (19 bp):
TTGTTTATGTGGTTGAGTT
Found at i:97516352 original size:6 final size:6
Alignment explanation
Indices: 97516341--97516366 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
97516331 ATTCCATTTC
97516341 TTCATT TTCATT TTCATT TTCATT TT
1 TTCATT TTCATT TTCATT TTCATT TT
97516367 GGAGAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCATT
Found at i:97520682 original size:17 final size:18
Alignment explanation
Indices: 97520660--97520695 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
97520650 CAATTTTTCG
97520660 ATTT-CATTCTATAGTTC
1 ATTTACATTCTATAGTTC
97520677 ATTTCACATTCTATAGTTC
1 ATTT-ACATTCTATAGTTC
97520696 TTAATTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
19 13 0.76
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTTACATTCTATAGTTC
Found at i:97525226 original size:58 final size:59
Alignment explanation
Indices: 97525138--97525255 Score: 211
Period size: 58 Copynumber: 2.0 Consensus size: 59
97525128 TACTTAAGAC
*
97525138 TAAGGACGTTAATTTTTTGCTAATGTGGTAGCGCGCACGTGGCGTCCTATTGTACCTTT
1 TAAGGACGTTAATTTTTTCCTAATGTGGTAGCGCGCACGTGGCGTCCTATTGTACCTTT
*
97525197 TAAGGACGTTAA-TTTTTCCTAATGTGGTAGCGCGCACTTGGCGTCCTATTGTACCTTT
1 TAAGGACGTTAATTTTTTCCTAATGTGGTAGCGCGCACGTGGCGTCCTATTGTACCTTT
97525255 T
1 T
97525256 TTCTCTTTCT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 45 0.79
59 12 0.21
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (59 bp):
TAAGGACGTTAATTTTTTCCTAATGTGGTAGCGCGCACGTGGCGTCCTATTGTACCTTT
Found at i:97533701 original size:2 final size:2
Alignment explanation
Indices: 97533694--97533731 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
97533684 GTTCTCTGAG
97533694 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
97533732 ATCCATCTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:97534597 original size:42 final size:42
Alignment explanation
Indices: 97534550--97534633 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
97534540 ATTAGACTGT
97534550 ATAAAATTTATAACTAAATTTATCATTCTACCAGTTAAAAAA
1 ATAAAATTTATAACTAAATTTATCATTCTACCAGTTAAAAAA
*
97534592 ATAAAATTTATAACTAAATTTATCATTCTACTAGTTAAAAAA
1 ATAAAATTTATAACTAAATTTATCATTCTACCAGTTAAAAAA
97534634 GTGTCGCACC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (42 bp):
ATAAAATTTATAACTAAATTTATCATTCTACCAGTTAAAAAA
Found at i:97538663 original size:44 final size:45
Alignment explanation
Indices: 97538577--97538663 Score: 131
Period size: 44 Copynumber: 1.9 Consensus size: 45
97538567 AACAGAAATA
*
97538577 AGCCATGTAAGTCCATATTAGAAATATGGCTTTAGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTAGAGACAGGATTG
* *
97538623 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTAGAGACAGGA
97538664 ATATTTCATG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 19 0.50
46 19 0.50
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTAGAGACAGGATTG
Found at i:97538674 original size:44 final size:45
Alignment explanation
Indices: 97538568--97538682 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 45
97538558 ACAGGACAGA
* * *
97538568 ACAGAAATAAGCCATGTAAGTCCATATTAGAAATATGGCTTTAGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTAGAG
* * *
97538614 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
**
97538658 ACAGGAAT-ATTTCATGTAAGTCCAT
1 ACAGGAATGA-GCCATGTAAGTCCAT
97538683 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 33 0.56
46 25 0.42
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTAGAG
Found at i:97540376 original size:18 final size:19
Alignment explanation
Indices: 97540295--97540378 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 19
97540285 TAAAATTACA
97540295 AAAAAAATTAAAA-TATTT
1 AAAAAAATTAAAATTATTT
*
97540313 ATAAAAATTCTAAAATTTATATTT
1 A-AAAAAAT-TAAAA--T-TATTT
* **
97540337 TAAAAAATTATAAAGAATTT
1 AAAAAAATTA-AAATTATTT
97540357 AAAAAAATTAAAATT-TTT
1 AAAAAAATTAAAATTATTT
97540375 AAAA
1 AAAA
97540379 TTTTCTAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
18 8 0.16
19 9 0.18
20 18 0.35
22 2 0.04
23 9 0.18
24 5 0.10
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (19 bp):
AAAAAAATTAAAATTATTT
Found at i:97546896 original size:25 final size:25
Alignment explanation
Indices: 97546868--97546915 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
97546858 GTAATTTAAT
*
97546868 TTTAATTTTAAATAGTTT-TAAAAAA
1 TTTAACTTTAAATA-TTTATAAAAAA
*
97546893 TTTAGCTTTAAATATTTATAAAA
1 TTTAACTTTAAATATTTATAAAA
97546916 TTTGTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTAACTTTAAATATTTATAAAAAA
Found at i:97546896 original size:61 final size:61
Alignment explanation
Indices: 97546811--97546952 Score: 184
Period size: 61 Copynumber: 2.4 Consensus size: 61
97546801 AAAATTGATA
* *
97546811 TTAAATTTAAAA-TTTT-AATAATTTAGCCTAT-AATGTTTATAAAATTTGT-AATTTAATT
1 TTAAATTTAAAAGTTTTAAAAAATTTAG-CTATAAATATTTATAAAATTTGTCAATTTAATT
* * *
97546869 TTAATTTTAAATAGTTTTAAAAAATTTAGCTTTAAATATTTATAAAATTTGTCATTTTAATT
1 TTAAATTTAAA-AGTTTTAAAAAATTTAGCTATAAATATTTATAAAATTTGTCAATTTAATT
*
97546931 TTAAATTTAAAAGTTTTTAAAA
1 TTAAATTTAAAAGTTTTAAAAA
97546953 GGAAAAATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
58 10 0.14
59 1 0.01
60 7 0.10
61 36 0.50
62 18 0.25
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (61 bp):
TTAAATTTAAAAGTTTTAAAAAATTTAGCTATAAATATTTATAAAATTTGTCAATTTAATT
Found at i:97547156 original size:23 final size:23
Alignment explanation
Indices: 97547130--97547176 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
97547120 ACTCTTACTC
97547130 ATATAATTTTGAGCTTTAAAATA
1 ATATAATTTTGAGCTTTAAAATA
97547153 ATATAATTTTGAGCTTTAAAATA
1 ATATAATTTTGAGCTTTAAAATA
97547176 A
1 A
97547177 GTTGCGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
ATATAATTTTGAGCTTTAAAATA
Found at i:97573505 original size:67 final size:67
Alignment explanation
Indices: 97573427--97573554 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 67
97573417 GCTTTTGGGC
* * *
97573427 CAATTTTTGGCTTGAGAGAAATA-TTTTTTTCTCAAAAAGCAGCTTGTTTAGGAATGTTTTTATC
1 CAATTTTTGGCTTGAGAG-AATACTCTTTCTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTTATC
97573491 GGT
65 GGT
* *
97573494 CAATTTTTGGCTTGAGAGAGTACTCTTTCTCTCAAAAAGCATCTTGTTTAGGAATGCTTTT
1 CAATTTTTGGCTTGAGAGAATACTCTTTCTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTT
97573555 GTCCCAAAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 3 0.05
67 52 0.95
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (67 bp):
CAATTTTTGGCTTGAGAGAATACTCTTTCTCTCAAAAAGCAGCTTGTTTAGGAATGCTTTTATCG
GT
Found at i:97576388 original size:22 final size:21
Alignment explanation
Indices: 97576346--97576388 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
97576336 AAGTTGTAAT
**
97576346 TAAAATTTTATACCTATAAAA
1 TAAAATTTTATAAATATAAAA
97576367 TAAAATTTTATATAATATAAAA
1 TAAAATTTTATA-AATATAAAA
97576389 GGAAAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATTTTATAAATATAAAA
Found at i:97577478 original size:24 final size:26
Alignment explanation
Indices: 97577445--97577496 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
97577435 TGGGGTGTAT
97577445 CTTCTCCTC-T-TATGGTAATTGAAG
1 CTTCTCCTCTTATATGGTAATTGAAG
*
97577469 CTTCTTCTCTTATATGGTAATTGAAG
1 CTTCTCCTCTTATATGGTAATTGAAG
97577495 CT
1 CT
97577497 AAATTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.32
25 1 0.04
26 16 0.64
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.44
Consensus pattern (26 bp):
CTTCTCCTCTTATATGGTAATTGAAG
Found at i:97578356 original size:50 final size:50
Alignment explanation
Indices: 97578290--97578483 Score: 286
Period size: 50 Copynumber: 3.9 Consensus size: 50
97578280 TTATAAAATA
97578290 TATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
1 TATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
* * * *
97578340 TATTTTTATGATCTTTTATAATTTGGTTATTTATCATGTACAA-GAATCT
1 TATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
*
97578389 TCATTCTTATGAA-TTTT-TAATTTGGTTATTCACCATGTACAAGGATTCT
1 T-ATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
* * *
97578438 CATTCTTATAAACTTTTATAATTTGGTTATTCACCGTGTACAAGGA
1 TATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGA
97578484 TTCCCGCTAA
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
48 33 0.26
49 20 0.16
50 75 0.59
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (50 bp):
TATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCT
Found at i:97578478 original size:98 final size:100
Alignment explanation
Indices: 97578291--97578481 Score: 296
Period size: 98 Copynumber: 1.9 Consensus size: 100
97578281 TATAAAATAT
* * * *
97578291 ATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCTTATTTTTATGATCTTT
1 ATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCTCATTCTTATAAACTTT
* *
97578356 TATAATTTGGTTATTTATCATGTACAAGAATCTTC
66 TATAATTTGGTTATTCACCATGTACAAGAATCTTC
*
97578391 ATTCTTATGAA-TTTT-TAATTTGGTTATTCACCATGTACAAGGATTCTCATTCTTATAAACTTT
1 ATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCTCATTCTTATAAACTTT
*
97578454 TATAATTTGGTTATTCACCGTGTACAAG
66 TATAATTTGGTTATTCACCATGTACAAG
97578482 GATTCCCGCT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
98 68 0.82
99 4 0.05
100 11 0.13
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.47
Consensus pattern (100 bp):
ATTCTTATGAACTTTTATAATTTGGTTATTCACCATGTACAAGGAATCTCATTCTTATAAACTTT
TATAATTTGGTTATTCACCATGTACAAGAATCTTC
Found at i:97579093 original size:37 final size:36
Alignment explanation
Indices: 97579049--97579121 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
97579039 AAACACTACT
*
97579049 ATAAATATAACAAATGTTCTATTATATTAAAATATAA
1 ATAAATATAACAAATATTCTATTATATT-AAATATAA
* * *
97579086 ATAAATATAATAAATATTTTATTGTATTAAATATAA
1 ATAAATATAACAAATATTCTATTATATTAAATATAA
97579122 TTTTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 8 0.25
37 24 0.75
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
ATAAATATAACAAATATTCTATTATATTAAATATAA
Found at i:97586454 original size:6 final size:6
Alignment explanation
Indices: 97586443--97586475 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
97586433 GATACTGAGA
97586443 TTGCTC TTGCTC TTGCTC TTGCTC TTGCTC TTG
1 TTGCTC TTGCTC TTGCTC TTGCTC TTGCTC TTG
97586476 GATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.30, G:0.18, T:0.52
Consensus pattern (6 bp):
TTGCTC
Found at i:97587853 original size:21 final size:23
Alignment explanation
Indices: 97587827--97587880 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
97587817 TTGAAAAAAT
**
97587827 AAAATAAAATCAACCA-TT-AAA
1 AAAATAAAAAAAACCATTTGAAA
*
97587848 AAAATAAAAAAAACCATTTGTAA
1 AAAATAAAAAAAACCATTTGAAA
97587871 AAAATAAAAA
1 AAAATAAAAA
97587881 TTTGAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 14 0.50
22 2 0.07
23 12 0.43
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (23 bp):
AAAATAAAAAAAACCATTTGAAA
Found at i:97587888 original size:16 final size:17
Alignment explanation
Indices: 97587863--97587895 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
97587853 AAAAAAAACC
97587863 ATTTGTAAAAAATAAAA
1 ATTTGTAAAAAATAAAA
*
97587880 ATTTG-AAAAATTAAAA
1 ATTTGTAAAAAATAAAA
97587896 CCACCATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
ATTTGTAAAAAATAAAA
Found at i:97588246 original size:50 final size:50
Alignment explanation
Indices: 97588165--97588265 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
97588155 TAATATAACA
*
97588165 TTTGGTACTTGAACTTGATACTTTTTCTTAATTGGGTACTTAAACTTTTT
1 TTTGGTACTTGAACTTGATACTTTTTCTTAATTGGGTACCTAAACTTTTT
* *
97588215 TTTGGCTACTTGAACTTGTTAC-TTTTCTTAATTTGGTACCTAAACTTTTT
1 TTTGG-TACTTGAACTTGATACTTTTTCTTAATTGGGTACCTAAACTTTTT
97588265 T
1 T
97588266 GGGCTTAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 32 0.68
51 15 0.32
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (50 bp):
TTTGGTACTTGAACTTGATACTTTTTCTTAATTGGGTACCTAAACTTTTT
Found at i:97588778 original size:31 final size:31
Alignment explanation
Indices: 97588742--97588819 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
97588732 CCCAAGAAGT
* *
97588742 TTTAAGTACCAATTTAAGAAAAAGTATCAAG
1 TTTAAGTACCAAATTAAGAAAAAGTATCAAA
* * *
97588773 TTTAAGTACTAAATTAGGAAAAAGTGTCAAA
1 TTTAAGTACCAAATTAAGAAAAAGTATCAAA
* *
97588804 TTTACGTATCAAATTA
1 TTTAAGTACCAAATTA
97588820 GACTAAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (31 bp):
TTTAAGTACCAAATTAAGAAAAAGTATCAAA
Found at i:97589751 original size:17 final size:17
Alignment explanation
Indices: 97589729--97589777 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
97589719 TTAAATTTAC
*
97589729 TTATTTTTATTTAGTTT
1 TTATTTTTATTTAATTT
97589746 TTATTTTTATTTAATTT
1 TTATTTTTATTTAATTT
*
97589763 CTATTATTTATTTAA
1 TTATT-TTTATTTAA
97589778 GATTTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTTTATTTAATTT
Found at i:97592693 original size:42 final size:42
Alignment explanation
Indices: 97592634--97592725 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
97592624 CAAGTACGTA
97592634 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
1 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
*
97592676 CGAGGCGAGAAGAGTCGGCGAGGTGACAATAACCCCATGTAG
1 CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
97592718 CGAGGCGA
1 CGAGGCGA
97592726 AGCGAGACCC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.30, C:0.23, G:0.37, T:0.10
Consensus pattern (42 bp):
CGAGGCGAGAAGAGTCGGCGAGGTGACAACAACCCCATGTAG
Found at i:97596670 original size:20 final size:21
Alignment explanation
Indices: 97596631--97596671 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
97596621 ATATTTTTTA
* *
97596631 AAAAATACAGTTATGCTATTT
1 AAAAATAAAGTAATGCTATTT
97596652 AAAAATAAAGTAATG-TATTT
1 AAAAATAAAGTAATGCTATTT
97596672 TTTTAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (21 bp):
AAAAATAAAGTAATGCTATTT
Found at i:97599188 original size:20 final size:20
Alignment explanation
Indices: 97599160--97599273 Score: 83
Period size: 20 Copynumber: 5.5 Consensus size: 20
97599150 ATTACAAAAT
*
97599160 AATTTAAAATAATTTTTAAA
1 AATTCAAAATAATTTTTAAA
*
97599180 AATTCAAAATGATTTTT-AA
1 AATTCAAAATAATTTTTAAA
* *
97599199 AATTCATAAT-ATTTATAAA
1 AATTCAAAATAATTTTTAAA
*
97599218 AATTTCAAAATTCATATTTTAAAA
1 AA-TTCAAAA-T-A-ATTTTTAAA
*
97599242 AATT-ATAAA-AAATTTTAAA
1 AATTCA-AAATAATTTTTAAA
97599261 AGATTCTAAAATA
1 A-ATTC-AAAATA
97599274 TATATAAAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
18 5 0.07
19 23 0.31
20 25 0.34
21 4 0.05
22 3 0.04
23 5 0.07
24 9 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (20 bp):
AATTCAAAATAATTTTTAAA
Found at i:97599242 original size:24 final size:27
Alignment explanation
Indices: 97599197--97599245 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
97599187 AATGATTTTT
97599197 AAAATTCATAATATTTATAAAAATTTC
1 AAAATTCATAATATTTATAAAAATTTC
97599224 AAAATTCAT-AT-TTTA-AAAAATT
1 AAAATTCATAATATTTATAAAAATT
97599246 ATAAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 4 0.18
26 2 0.09
27 9 0.41
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAATTCATAATATTTATAAAAATTTC
Found at i:97599251 original size:24 final size:26
Alignment explanation
Indices: 97599194--97599251 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
97599184 CAAAATGATT
97599194 TTTAAAATTCATAATATTTATAAAAA
1 TTTAAAATTCATAATATTTATAAAAA
97599220 TTTCAAAATTCAT-AT-TTTA-AAAAA
1 TTT-AAAATTCATAATATTTATAAAAA
97599244 TTATAAAA
1 TT-TAAAA
97599252 AATTTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 11 0.37
25 5 0.17
26 5 0.17
27 9 0.30
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (26 bp):
TTTAAAATTCATAATATTTATAAAAA
Found at i:97612138 original size:26 final size:24
Alignment explanation
Indices: 97612073--97612139 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
97612063 TTTTAAAATA
* *
97612073 AAAATTCAAAAA-AAACAATTTTT
1 AAAATTCAAAAATAAAAAATTATT
97612096 AAAATAT-AAAAAGTAAATAAATTATT
1 AAAAT-TCAAAAA-TAAA-AAATTATT
97612122 AAAATTCAAAATATAAAA
1 AAAATTCAAAA-ATAAAA
97612140 TATAAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
23 10 0.28
24 1 0.03
25 5 0.14
26 19 0.53
27 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (24 bp):
AAAATTCAAAAATAAAAAATTATT
Found at i:97612216 original size:23 final size:22
Alignment explanation
Indices: 97612172--97612216 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
97612162 GAAAAATGTT
* *
97612172 TTTTTAATTTCTATTTATTTAA
1 TTTTTAATTTCTATCTAATTAA
*
97612194 TTTTTAATTTTTTATCTAATTAA
1 TTTTTAA-TTTCTATCTAATTAA
97612217 ATATTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTAATTTCTATCTAATTAA
Found at i:97612921 original size:12 final size:12
Alignment explanation
Indices: 97612904--97612928 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97612894 ATTTTAAGCT
97612904 TTTTTTAATTAA
1 TTTTTTAATTAA
97612916 TTTTTTAATTAA
1 TTTTTTAATTAA
97612928 T
1 T
97612929 AAATATATTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTAATTAA
Found at i:97613057 original size:13 final size:14
Alignment explanation
Indices: 97613039--97613071 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
97613029 TGTATTTTTC
97613039 TTTATATAT-AATA
1 TTTATATATAAATA
97613052 TTTATATATCAAATA
1 TTTATATAT-AAATA
97613067 TTTAT
1 TTTAT
97613072 TTCCTCCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:97613144 original size:15 final size:15
Alignment explanation
Indices: 97613120--97613158 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
97613110 GGATTGAAAA
*
97613120 ATAAATATTATATAT
1 ATAAAAATTATATAT
*
97613135 ATAAAAATTATATTT
1 ATAAAAATTATATAT
97613150 ACTAAAAAT
1 A-TAAAAAT
97613159 AATGATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAAAATTATATAT
Found at i:97626899 original size:4 final size:4
Alignment explanation
Indices: 97626890--97626914 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
97626880 TCAAATACAA
97626890 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
97626915 ATCATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:97628230 original size:17 final size:17
Alignment explanation
Indices: 97628203--97628247 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
97628193 TTTTATATAT
97628203 TTTTAAT-AATTTTAAA
1 TTTTAATAAATTTTAAA
**
97628219 TTTTAATAAATTTTTCA
1 TTTTAATAAATTTTAAA
97628236 TTTT-ATAAATTT
1 TTTTAATAAATTT
97628248 ATTTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAATAAATTTTAAA
Found at i:97633406 original size:21 final size:21
Alignment explanation
Indices: 97633380--97633420 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
97633370 AATAATAAAA
*
97633380 ATAAAAAAATTGAAATAATAC
1 ATAAAAAAATTAAAATAATAC
**
97633401 ATAAAACTATTAAAATAATA
1 ATAAAAAAATTAAAATAATA
97633421 TACAAATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (21 bp):
ATAAAAAAATTAAAATAATAC
Found at i:97635742 original size:26 final size:27
Alignment explanation
Indices: 97635678--97635742 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 27
97635668 AACACTTAAT
* * * *
97635678 TTTTTTAAAAGTATTTTTCAAAGATAC
1 TTTTTTAAAAATACTTCTCAAAAATAC
* *
97635705 TTTTCT-ATAATACTTCTCAAAAATA-
1 TTTTTTAAAAATACTTCTCAAAAATAC
97635730 TTTTTTAAAAATA
1 TTTTTTAAAAATA
97635743 TTACTAAACT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
25 5 0.17
26 19 0.66
27 5 0.17
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (27 bp):
TTTTTTAAAAATACTTCTCAAAAATAC
Found at i:97636464 original size:15 final size:15
Alignment explanation
Indices: 97636446--97636487 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
97636436 TTATAAAATA
97636446 AAAAATAATTATATT
1 AAAAATAATTATATT
97636461 AAAAATAA-TATA--
1 AAAAATAATTATATT
*
97636473 AAATATAATTATATT
1 AAAAATAATTATATT
97636488 TGTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 4 0.17
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAATAATTATATT
Found at i:97636918 original size:23 final size:23
Alignment explanation
Indices: 97636870--97636918 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
97636860 AAAATCAAAT
* * *
97636870 TTCAAGTTAATTGAATTGAGTTA
1 TTCAAGTCAATTGAATTAAGTAA
97636893 TTCAAGTCAACTTGAA-TAAGTAA
1 TTCAAGTCAA-TTGAATTAAGTAA
97636916 TTC
1 TTC
97636919 GAGTTCAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (23 bp):
TTCAAGTCAATTGAATTAAGTAA
Found at i:97648403 original size:34 final size:34
Alignment explanation
Indices: 97648360--97648427 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
97648350 GTATACATAA
97648360 TGTCTGTATTACAAATCAACAAGGAGAAATTAAC
1 TGTCTGTATTACAAATCAACAAGGAGAAATTAAC
*
97648394 TGTCTGTATTACAAATCAACAAGGTGAAATTAAC
1 TGTCTGTATTACAAATCAACAAGGAGAAATTAAC
97648428 GAAAAACAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (34 bp):
TGTCTGTATTACAAATCAACAAGGAGAAATTAAC
Found at i:97653085 original size:14 final size:15
Alignment explanation
Indices: 97653066--97653095 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
97653056 ACAGATAATC
97653066 TTTTAAAATC-ATTT
1 TTTTAAAATCAATTT
97653080 TTTTAAAATCAATTT
1 TTTTAAAATCAATTT
97653095 T
1 T
97653096 GAACGATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAAATCAATTT
Found at i:97654505 original size:14 final size:14
Alignment explanation
Indices: 97654486--97654515 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
97654476 TCAAAATTTT
97654486 ATAAAATTATAAAA
1 ATAAAATTATAAAA
97654500 ATAAAATTATAAAA
1 ATAAAATTATAAAA
97654514 AT
1 AT
97654516 TTTCCGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAAATTATAAAA
Found at i:97654719 original size:19 final size:21
Alignment explanation
Indices: 97654695--97654733 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
97654685 AAATTTTTAT
97654695 AAAT-AAAT-TATTAAAAATA
1 AAATAAAATATATTAAAAATA
97654714 AAATAAAATATATTAAAAAT
1 AAATAAAATATATTAAAAAT
97654734 GATTATAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAAAATATATTAAAAATA
Found at i:97663288 original size:13 final size:14
Alignment explanation
Indices: 97663260--97663289 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
97663250 AGATTGAATG
97663260 AAAAATATTATAAA
1 AAAAATATTATAAA
*
97663274 AAAAATATTAGAAA
1 AAAAATATTATAAA
97663288 AA
1 AA
97663290 TATATTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAAATATTATAAA
Found at i:97664219 original size:13 final size:11
Alignment explanation
Indices: 97664191--97664233 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
97664181 AGTTAAATTT
97664191 TATTTTATTAA
1 TATTTTATTAA
97664202 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
97664215 TA-TTTATTAT
1 TATTTTATTAA
97664225 TATTTTATT
1 TATTTTATT
97664234 TAGAAAATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:97664220 original size:23 final size:23
Alignment explanation
Indices: 97664194--97664237 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
97664184 TAAATTTTAT
97664194 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
97664217 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
97664238 AAATGCTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:97668205 original size:50 final size:51
Alignment explanation
Indices: 97668121--97668229 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 51
97668111 CTTTTGGAAA
* **
97668121 CAGTCAGTCACGTCGCAACGACATACTCTCAATGTCGTGACGAGAACAAGT
1 CAGTGAGTCACGTCGCAACGACATACTCTCAATGTCACGACGAGAACAAGT
** ** * * *
97668172 -AGTGAGTCACGTCGTGACGATGTACTCTTAATGTCACGATGAGATCAAGT
1 CAGTGAGTCACGTCGCAACGACATACTCTCAATGTCACGACGAGAACAAGT
97668222 CAGTGAGT
1 CAGTGAGT
97668230 TACATCATGA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 40 0.85
51 7 0.15
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (51 bp):
CAGTGAGTCACGTCGCAACGACATACTCTCAATGTCACGACGAGAACAAGT
Found at i:97671256 original size:9 final size:9
Alignment explanation
Indices: 97671242--97671267 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
97671232 ACATTTTCGT
97671242 CTTTTGGGA
1 CTTTTGGGA
97671251 CTTTTGGGA
1 CTTTTGGGA
97671260 CTTTTGGG
1 CTTTTGGG
97671268 TTGAAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.12, G:0.35, T:0.46
Consensus pattern (9 bp):
CTTTTGGGA
Found at i:97673820 original size:17 final size:18
Alignment explanation
Indices: 97673800--97673841 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
97673790 GAAATTAAAT
*
97673800 AATATATAAAATT-TTAA
1 AATATATAAAATTGATAA
97673817 AATATAT-AAATTGATAA
1 AATATATAAAATTGATAA
97673834 AATATATA
1 AATATATA
97673842 TAAAAGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATATAAAATTGATAA
Found at i:97673978 original size:8 final size:8
Alignment explanation
Indices: 97673967--97673992 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
97673957 ATATATATAT
97673967 TTATAAAA
1 TTATAAAA
97673975 TTATAAAA
1 TTATAAAA
97673983 TTATAAAA
1 TTATAAAA
97673991 TT
1 TT
97673993 TTAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTATAAAA
Found at i:97673979 original size:16 final size:16
Alignment explanation
Indices: 97673960--97674010 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
97673950 TATATATATA
*
97673960 TATATATTTATAAAAT
1 TATATAATTATAAAAT
*
97673976 TATAAAATTATAAAAT
1 TATATAATTATAAAAT
*
97673992 T-T-TAATTAT-ATAT
1 TATATAATTATAAAAT
97674005 TATATA
1 TATATA
97674011 TTTTAAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 3 0.10
16 15 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATAATTATAAAAT
Found at i:97674261 original size:25 final size:23
Alignment explanation
Indices: 97674233--97674280 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
97674223 ATGTAAAAAA
97674233 ATATACTATTTTTATTAATATATAC
1 ATAT-CTATTTTT-TTAATATATAC
* *
97674258 ATATTTATTTTTTTAATTTATAC
1 ATATCTATTTTTTTAATATATAC
97674281 CTACCACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 7 0.33
25 4 0.19
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (23 bp):
ATATCTATTTTTTTAATATATAC
Found at i:97675222 original size:24 final size:24
Alignment explanation
Indices: 97675195--97675241 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
97675185 TATTCTTTTA
* *
97675195 AAATTTTATAATTTTTTTAAATAC
1 AAATTTTAGAATTTTTATAAATAC
*
97675219 AAATTTTGGAATTTTTATAAATA
1 AAATTTTAGAATTTTTATAAATA
97675242 TTTTGAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (24 bp):
AAATTTTAGAATTTTTATAAATAC
Found at i:97675254 original size:20 final size:20
Alignment explanation
Indices: 97675221--97675268 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
97675211 TTAAATACAA
97675221 ATTTTGGAATTTTT-ATAAA-T
1 ATTTT-GAATTTTTGA-AAATT
97675241 ATTTTGAATTTTTTGAAAATT
1 ATTTTGAA-TTTTTGAAAATT
97675262 ATTTTGA
1 ATTTTGA
97675269 TTATGTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 3 0.12
20 13 0.52
21 9 0.36
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:97678908 original size:20 final size:21
Alignment explanation
Indices: 97678870--97678908 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
97678860 AATTTTTAAC
* *
97678870 ATTTTTTATATACTCTTTAGA
1 ATTTTTTATATAATATTTAGA
97678891 ATTTTTT-TATAATATTTA
1 ATTTTTTATATAATATTTA
97678909 TATTCGGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTTTATATAATATTTAGA
Found at i:97684135 original size:20 final size:20
Alignment explanation
Indices: 97684110--97684184 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
97684100 TTTAATAAAA
*
97684110 AATTGAGAATGAACTGAGAG
1 AATTGAGAATGAATTGAGAG
* *
97684130 AATTGAGTGA-GAATTAAGAG
1 AATTGAG-AATGAATTGAGAG
97684150 AAGATTGAGAATGAATTGAGAG
1 -A-ATTGAGAATGAATTGAGAG
* *
97684172 AGTTGAGAGTGAA
1 AATTGAGAATGAA
97684185 ATGAAAAAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 25 0.57
21 4 0.09
22 15 0.34
ACGTcount: A:0.44, C:0.01, G:0.32, T:0.23
Consensus pattern (20 bp):
AATTGAGAATGAATTGAGAG
Found at i:97693255 original size:77 final size:77
Alignment explanation
Indices: 97693168--97693396 Score: 325
Period size: 77 Copynumber: 3.0 Consensus size: 77
97693158 TTTTATTCTG
* *
97693168 TTCTATCATGTAGATTGGAGTTCACTTTAAAAGGATATGGCCCTAATATGATGAATAATATAGGT
1 TTCTATCATGTAGATTGGAGTTTACTTTAAAAGGATTTGGCCCTAATATGATGAATAATATAGGT
* *
97693233 ATTTAATTTTTT
66 ATTTAAATTTTC
* * **
97693245 TTCTATCATGTAGATTGGAGTTTACTTTAAAAGGGTTTGGCCCTAATATGATGAATACTATAAAT
1 TTCTATCATGTAGATTGGAGTTTACTTTAAAAGGATTTGGCCCTAATATGATGAATAATATAGGT
97693310 ATTTAAATTTTC
66 ATTTAAATTTTC
* * * * *
97693322 TTCTATCAAGTAGATTGAAGTTTACCTTAAAAGGATTTGGTCCTAATATGAT-ATATAATTTAGG
1 TTCTATCATGTAGATTGGAGTTTACTTTAAAAGGATTTGGCCCTAATATGATGA-ATAATATAGG
97693386 TATTTAAATTT
65 TATTTAAATTT
97693397 CCGAAGCAGA
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
76 1 0.01
77 133 0.99
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (77 bp):
TTCTATCATGTAGATTGGAGTTTACTTTAAAAGGATTTGGCCCTAATATGATGAATAATATAGGT
ATTTAAATTTTC
Found at i:97703546 original size:29 final size:29
Alignment explanation
Indices: 97703487--97703547 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
97703477 GTTATTATTT
* **
97703487 AAAACCAAATCGATATAAACGTTCATCCA
1 AAAACCAAATCGATATAAACGTCCAAACA
97703516 AAAACCAAATCGATATAAACGTCCAAACA
1 AAAACCAAATCGATATAAACGTCCAAACA
97703545 AAA
1 AAA
97703548 TTACATGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.54, C:0.23, G:0.07, T:0.16
Consensus pattern (29 bp):
AAAACCAAATCGATATAAACGTCCAAACA
Found at i:97708931 original size:26 final size:26
Alignment explanation
Indices: 97708902--97709009 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
97708892 TGGTACAAAT
97708902 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
97708928 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
97708954 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
97708980 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
97709006 TGAT
1 TGAT
97709010 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:97714161 original size:21 final size:22
Alignment explanation
Indices: 97714123--97714174 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
97714113 TATTTGCTAA
*
97714123 TATTA-ATTTTACTCAA-TTAT
1 TATTATATTTTACTAAATTTAT
*
97714143 TATTATATTTTATTAAATTTAT
1 TATTATATTTTACTAAATTTAT
97714165 T-TTAT-TTTTA
1 TATTATATTTTA
97714175 GAAATATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.36
21 13 0.46
22 5 0.18
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATATTTTACTAAATTTAT
Found at i:97715344 original size:26 final size:27
Alignment explanation
Indices: 97715310--97715373 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
97715300 AGTGATTTAA
* *
97715310 ATAA-AAAATAGTTGAAATAAATAAT-
1 ATAATAAAATAGTTAAAATAAACAATG
*
97715335 AT-ATAGAAATATTTAAAATAAACAATG
1 ATAATA-AAATAGTTAAAATAAACAATG
97715362 ATAATAAAATAG
1 ATAATAAAATAG
97715374 AGAAGTGACA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
24 1 0.03
25 3 0.10
26 17 0.55
27 7 0.23
28 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (27 bp):
ATAATAAAATAGTTAAAATAAACAATG
Found at i:97719094 original size:3 final size:3
Alignment explanation
Indices: 97719088--97719275 Score: 66
Period size: 3 Copynumber: 62.3 Consensus size: 3
97719078 TTTTTAAAAA
* * * * *
97719088 AAT AAT AAT GAT AAT AAA AAT AGT AGT AAT AAC AAT AAT AAT AGA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * * * * *
97719133 AAC AAC AAT AAT AAT AAT AAC ATAT AAGT AAAT GCAG AAG AA- AAG AA-
1 AAT AAT AAT AAT AAT AAT AAT A-AT AA-T -AAT -AAT AAT AAT AAT AAT
* * *
97719180 AAT -GT AAT AAT AAT AAT ATT AATT AACT -TT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AAT AAT
** * * *
97719224 AAT AAT GGT AAT AAT AAT TAT AAT ATT AA- AACT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
*
97719269 GAT AAT A
1 AAT AAT A
97719276 GAAAAATCAA
Statistics
Matches: 138, Mismatches: 34, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
2 11 0.08
3 113 0.82
4 12 0.09
5 2 0.01
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:97726035 original size:21 final size:21
Alignment explanation
Indices: 97726011--97726057 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
97726001 ATCTTTTGCA
*
97726011 TTTTTTTACCGTTCTTGTTAT
1 TTTTTTTAACGTTCTTGTTAT
* *
97726032 TTTTTTTAACTTTTTTGTTAT
1 TTTTTTTAACGTTCTTGTTAT
97726053 TTTTT
1 TTTTT
97726058 ACTATTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.11, C:0.09, G:0.06, T:0.74
Consensus pattern (21 bp):
TTTTTTTAACGTTCTTGTTAT
Found at i:97726493 original size:14 final size:14
Alignment explanation
Indices: 97726474--97726510 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
97726464 TTTCCACATT
*
97726474 TAAATGTGTTTATA
1 TAAATGTATTTATA
97726488 TAAATGTATTTATA
1 TAAATGTATTTATA
97726502 TAAATGTAT
1 TAAATGTAT
97726511 ATAATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (14 bp):
TAAATGTATTTATA
Found at i:97726702 original size:31 final size:31
Alignment explanation
Indices: 97726666--97726734 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
97726656 ATTTAACGGA
*
97726666 GAGTGATCAA-AATAAAAATGATTTAAAACAT
1 GAGTGA-CAAGAATAAAAATGATCTAAAACAT
*
97726697 GAGTGACAAGAATAGAAATGATCTAAAACAT
1 GAGTGACAAGAATAAAAATGATCTAAAACAT
*
97726728 TAGTGAC
1 GAGTGAC
97726735 TAAGTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 3 0.09
31 31 0.91
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (31 bp):
GAGTGACAAGAATAAAAATGATCTAAAACAT
Found at i:97727483 original size:11 final size:11
Alignment explanation
Indices: 97727467--97727514 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
97727457 CAAAAATTAC
97727467 AAAATAAATTT
1 AAAATAAATTT
97727478 AAAATAAATTT
1 AAAATAAATTT
* *
97727489 -CAA-AAATTC
1 AAAATAAATTT
97727498 AAAATAAATTTT
1 AAAATAAA-TTT
97727510 AAAAT
1 AAAAT
97727515 TCAAAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
9 5 0.17
10 4 0.13
11 14 0.47
12 7 0.23
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATAAATTT
Found at i:97727515 original size:19 final size:20
Alignment explanation
Indices: 97727472--97727522 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
97727462 ATTACAAAAT
*
97727472 AAATTTAAAATAAATTTCAA
1 AAATTCAAAATAAATTTCAA
*
97727492 AAATTCAAAATAAATTT-TA
1 AAATTCAAAATAAATTTCAA
97727511 AAATTCAAAATA
1 AAATTCAAAATA
97727523 TTTATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTCAAAATAAATTTCAA
Found at i:97727532 original size:19 final size:19
Alignment explanation
Indices: 97727472--97727534 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
97727462 ATTACAAAAT
* *
97727472 AAATTTAAAATAAATTTCAA
1 AAATTCAAAAT-AATTTTAA
97727492 AAATTCAAAATAAATTTT-A
1 AAATTCAAAAT-AATTTTAA
97727511 AAATTCAAAAT-ATTTATAA
1 AAATTCAAAATAATTT-TAA
97727530 AAATT
1 AAATT
97727535 TTAAAATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.10
18 1 0.03
19 18 0.46
20 16 0.41
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTCAAAATAATTTTAA
Found at i:97729231 original size:32 final size:32
Alignment explanation
Indices: 97729195--97729260 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
97729185 GCTTTGGAAG
97729195 TGTATGCTTTATTTTCTGCAATTGTTCTTCCA
1 TGTATGCTTTATTTTCTGCAATTGTTCTTCCA
97729227 TGTATGCTTTATTTTCTGCAATTGTTCTTCCA
1 TGTATGCTTTATTTTCTGCAATTGTTCTTCCA
97729259 TG
1 TG
97729261 GTTGTTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.18, G:0.14, T:0.53
Consensus pattern (32 bp):
TGTATGCTTTATTTTCTGCAATTGTTCTTCCA
Found at i:97732799 original size:18 final size:18
Alignment explanation
Indices: 97732759--97732813 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
97732749 AATAATTTAT
97732759 TTTTA-TAAAAATTTAATAA
1 TTTTAGTAAAAA-TTAA-AA
97732778 -TTTAGTAAAAATTAAAA
1 TTTTAGTAAAAATTAAAA
*
97732795 TTTTATGTGAATAATTAAA
1 TTTTA-GT-AAAAATTAAA
97732814 GCAAATTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.06
18 12 0.39
19 8 0.26
20 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTTAGTAAAAATTAAAA
Found at i:97746599 original size:18 final size:18
Alignment explanation
Indices: 97746572--97746606 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
97746562 GCAATTAATT
* *
97746572 AAATTTAAAAATTATAAA
1 AAATTCAAAAAATATAAA
97746590 AAATTCAAAAAATATAA
1 AAATTCAAAAAATATAA
97746607 TTATTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATTCAAAAAATATAAA
Found at i:97753596 original size:15 final size:16
Alignment explanation
Indices: 97753570--97753599 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
97753560 AGAGTTTTTT
97753570 GGCCCGGGCCCGGCCA
1 GGCCCGGGCCCGGCCA
97753586 GGCCC-GGCCCGGCC
1 GGCCCGGGCCCGGCC
97753600 CGAATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.53, G:0.43, T:0.00
Consensus pattern (16 bp):
GGCCCGGGCCCGGCCA
Found at i:97753644 original size:15 final size:16
Alignment explanation
Indices: 97753624--97753656 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
97753614 ATATATTTTT
97753624 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
97753639 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
97753656 T
1 T
97753657 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:97753741 original size:22 final size:22
Alignment explanation
Indices: 97753702--97753760 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
97753692 GTTTTAAAAA
*
97753702 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
97753723 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
97753745 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
97753761 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:97753777 original size:26 final size:24
Alignment explanation
Indices: 97753731--97753790 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
97753721 ATTTGTTTTA
*
97753731 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
97753755 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
97753781 TTTTTTATTT
1 ATATTTATTT
97753791 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:97755850 original size:2 final size:2
Alignment explanation
Indices: 97755843--97755874 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
97755833 GGATCATCTC
97755843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97755875 CACAATTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97762583 original size:9 final size:9
Alignment explanation
Indices: 97762569--97762595 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
97762559 TTGAAGATAG
97762569 AAATAAAGA
1 AAATAAAGA
97762578 AAATAAAGA
1 AAATAAAGA
97762587 AAATAAAGA
1 AAATAAAGA
97762596 GATCTCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AAATAAAGA
Found at i:97772556 original size:29 final size:27
Alignment explanation
Indices: 97772523--97772586 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
97772513 ATAGGGATCT
* * *
97772523 AATCAAATTAGTCTCTCTATTATTAAA
1 AATCAAATTAATCTCTATACTATTAAA
*
97772550 TAGATCAAATTAATCTTTATACTATTAAA
1 -A-ATCAAATTAATCTCTATACTATTAAA
97772579 AATCAAAT
1 AATCAAAT
97772587 AATGACAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 2 0.06
29 22 0.71
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.39
Consensus pattern (27 bp):
AATCAAATTAATCTCTATACTATTAAA
Found at i:97773590 original size:26 final size:26
Alignment explanation
Indices: 97773560--97773609 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
97773550 AATCACATTG
97773560 TCATATTCATGGAAAAGTAACTCTTA
1 TCATATTCATGGAAAAGTAACTCTTA
97773586 TCATATTCATGGAAAAGTAACTCT
1 TCATATTCATGGAAAAGTAACTCT
97773610 CAATGGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (26 bp):
TCATATTCATGGAAAAGTAACTCTTA
Found at i:97775598 original size:17 final size:18
Alignment explanation
Indices: 97775576--97775610 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97775566 ATGTATAGTA
*
97775576 AAATATTTAAAA-AAATT
1 AAATATATAAAAGAAATT
97775593 AAATATATAAAAGAAATT
1 AAATATATAAAAGAAATT
97775611 GGAAACATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATATATAAAAGAAATT
Found at i:97785076 original size:31 final size:31
Alignment explanation
Indices: 97785033--97785095 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
97785023 TTTTACTCTT
97785033 ACATATGACAGTCCTTTTTGTGTTTATGCAA
1 ACATATGACAGTCCTTTTTGTGTTTATGCAA
*
97785064 ACATATGCCAGTCCTTTTTGTGTTTATGCAA
1 ACATATGACAGTCCTTTTTGTGTTTATGCAA
97785095 A
1 A
97785096 AGAATTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.41
Consensus pattern (31 bp):
ACATATGACAGTCCTTTTTGTGTTTATGCAA
Found at i:97789070 original size:57 final size:57
Alignment explanation
Indices: 97789004--97789117 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
97788994 ATGAATTCTT
97789004 TCACTATTGCGGTTACTGTTAGTTTCTCTTTCTCCTCTCTATTAGAATTATTTTACA
1 TCACTATTGCGGTTACTGTTAGTTTCTCTTTCTCCTCTCTATTAGAATTATTTTACA
97789061 TCACTATTGCGGTTACTGTTAGTTTCTCTTTCTCCTCTCTATTAGAATTATTTTACA
1 TCACTATTGCGGTTACTGTTAGTTTCTCTTTCTCCTCTCTATTAGAATTATTTTACA
97789118 AACATGACAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (57 bp):
TCACTATTGCGGTTACTGTTAGTTTCTCTTTCTCCTCTCTATTAGAATTATTTTACA
Found at i:97792655 original size:16 final size:16
Alignment explanation
Indices: 97792634--97792664 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
97792624 ACATTATAAA
97792634 ATAAATTATCAAATTG
1 ATAAATTATCAAATTG
97792650 ATAAATTATCAAATT
1 ATAAATTATCAAATT
97792665 CTAATATTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
ATAAATTATCAAATTG
Found at i:97798602 original size:25 final size:26
Alignment explanation
Indices: 97798565--97798633 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
97798555 GATTATTATG
* **
97798565 TATTTTATTTTATTTTTTTTAATTT-
1 TATTTTATATTATTTTTTAAAATTTA
*
97798590 TATTATATATTATATTTTTAAAATTTA
1 TATTTTATATTAT-TTTTTAAAATTTA
*
97798617 TATTTTCTATTATTTTT
1 TATTTTATATTATTTTT
97798634 AATAGTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 11 0.31
26 14 0.39
27 11 0.31
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (26 bp):
TATTTTATATTATTTTTTAAAATTTA
Found at i:97799219 original size:30 final size:30
Alignment explanation
Indices: 97799183--97799242 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
97799173 CAATTTAACA
* *
97799183 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATACCTCTAAAATAATAAAAAAATT
* *
97799213 AGCAAATATCTTTAAAATAATAAAAAAATT
1 AGCAAATACCTCTAAAATAATAAAAAAATT
97799243 TAACAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.27
Consensus pattern (30 bp):
AGCAAATACCTCTAAAATAATAAAAAAATT
Found at i:97799303 original size:22 final size:22
Alignment explanation
Indices: 97799278--97799320 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
97799268 TATCCAAATA
97799278 ATAACAAC-AAAATAATAGCAAC
1 ATAA-AACTAAAATAATAGCAAC
* *
97799300 ATAATACTAAAATAGTAGCAA
1 ATAAAACTAAAATAATAGCAA
97799321 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (22 bp):
ATAAAACTAAAATAATAGCAAC
Found at i:97800900 original size:17 final size:15
Alignment explanation
Indices: 97800868--97800897 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97800858 AAATGGAAAT
97800868 AAAAATAAAAATATA
1 AAAAATAAAAATATA
*
97800883 AAAAATTAAAATATA
1 AAAAATAAAAATATA
97800898 TAATTTAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATAAAAATATA
Found at i:97800900 original size:25 final size:24
Alignment explanation
Indices: 97800864--97800968 Score: 56
Period size: 25 Copynumber: 4.3 Consensus size: 24
97800854 TAAAAAATGG
*
97800864 AAATAAAA--ATAAAAATATAAAA
1 AAATAAAATTATAAAAATATACAA
* **
97800886 AATTAAAA-TATATAATTTAGTA-AA
1 AAATAAAATTATA-AAAATA-TACAA
* **
97800910 AAATATAAATTATAAAAATTTATTA
1 AAATA-AAATTATAAAAATATACAA
*
97800935 AAATAAAATTTATAAAAAAATACAA
1 AAATAAAA-TTATAAAAATATACAA
*
97800960 TAATTAAAA
1 -AAATAAAA
97800969 GAAATTAGTT
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
22 7 0.11
23 3 0.05
24 15 0.24
25 26 0.42
26 11 0.18
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (24 bp):
AAATAAAATTATAAAAATATACAA
Found at i:97800909 original size:17 final size:16
Alignment explanation
Indices: 97800874--97800927 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
97800864 AAATAAAAAT
**
97800874 AAAAATATAAAAAATTA
1 AAAAATATAAATTA-TA
* *
97800891 AAATATATAATTTAGTA
1 AAAAATATAAATTA-TA
97800908 AAAAATATAAATTATA
1 AAAAATATAAATTATA
97800924 AAAA
1 AAAA
97800928 TTTATTAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 6 0.20
17 24 0.80
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAAATATAAATTATA
Found at i:97800968 original size:42 final size:44
Alignment explanation
Indices: 97800868--97800968 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 44
97800858 AAATGGAAAT
*
97800868 AAAAATAAAAAT-ATAAAAA---ATTAAAATATATAATTTAGTA
1 AAAAATATAAATAATAAAAATTTATTAAAATATATAATTTAGTA
*
97800908 AAAAATATAAATTATAAAAATTTATTAAAATA-A-AATTTA-TA
1 AAAAATATAAATAATAAAAATTTATTAAAATATATAATTTAGTA
*
97800949 AAAAA-ATACAATAATTAAAA
1 AAAAATATA-AATAATAAAAA
97800969 GAAATTAGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
40 14 0.26
41 23 0.43
42 6 0.11
43 1 0.02
44 9 0.17
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (44 bp):
AAAAATATAAATAATAAAAATTTATTAAAATATATAATTTAGTA
Found at i:97801164 original size:15 final size:15
Alignment explanation
Indices: 97801118--97801164 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
97801108 TTGTATATAT
*
97801118 TATTTTAAAATTTTA
1 TATTTTAGAATTTTA
* *
97801133 AATTTTAGAATTATA
1 TATTTTAGAATTTTA
97801148 TATTTTAGAATTTTA
1 TATTTTAGAATTTTA
97801163 TA
1 TA
97801165 AAAAATATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (15 bp):
TATTTTAGAATTTTA
Found at i:97804134 original size:30 final size:30
Alignment explanation
Indices: 97804100--97804162 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
97804090 ATTTATTTTA
97804100 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
97804130 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
97804160 TTG
1 TTG
97804163 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:97806538 original size:11 final size:11
Alignment explanation
Indices: 97806524--97806555 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
97806514 AATTTTCCCC
97806524 TTTTTTTTTGT
1 TTTTTTTTTGT
97806535 TTTTTTTTTGT
1 TTTTTTTTTGT
97806546 TTTTTGTTTT
1 TTTTT-TTTT
97806556 TATATAGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:97806781 original size:15 final size:15
Alignment explanation
Indices: 97806761--97806790 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
97806751 TACTATTATT
97806761 TAAGTTATTGGCTAA
1 TAAGTTATTGGCTAA
97806776 TAAGTTATTGGCTAA
1 TAAGTTATTGGCTAA
97806791 GTTGATGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
TAAGTTATTGGCTAA
Done.