Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 273 of 320
Found at i:88133741 original size:47 final size:48
Alignment explanation
Indices: 88133683--88133774 Score: 150
Period size: 47 Copynumber: 1.9 Consensus size: 48
88133673 CAATGTATAA
*
88133683 AGCTTGATTAGGTGGGCTGAATCAGGT-AGAGATATTGTATGTAACAG
1 AGCTTGATTAGGTGGGCTGAATCAGGTAAAAGATATTGTATGTAACAG
**
88133730 AGCTTGATTAGGTGGTTTGAATCAGGTAAAAGATATTGTATGTAA
1 AGCTTGATTAGGTGGGCTGAATCAGGTAAAAGATATTGTATGTAA
88133775 TTATATTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 25 0.61
48 16 0.39
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.33
Consensus pattern (48 bp):
AGCTTGATTAGGTGGGCTGAATCAGGTAAAAGATATTGTATGTAACAG
Found at i:88135646 original size:89 final size:87
Alignment explanation
Indices: 88135434--88135633 Score: 221
Period size: 89 Copynumber: 2.3 Consensus size: 87
88135424 ATAAACTACT
* *
88135434 ATTTAAAATATT--TGTATT-ATTTCTTTAGAATGTTTGTATTTTTTATATCTGTAAATTTAATT
1 ATTTAAAATTTTCGTGTATTAATTTC-TTACAATGTTTGTATTTTTTATATCTGTAAATTTAATT
* *
88135496 TATTCGTTTAAGGTTTAGGGTTTCA
65 TATCCATTTAA-GTTTA-GGTTTCA
* * * * *
88135521 TTTTTATATTTTCGTGTATTAATTTCTTAGAATGTTTGTATTTTTTGTATCTGTAAATTTAATTT
1 ATTTAAAATTTTCGTGTATTAATTTCTTACAATGTTTGTATTTTTTATATCTGTAAATTTAATTT
*
88135586 AGTCCATATTATA-TTTA-GTTTGA
66 A-TCCAT-TTA-AGTTTAGGTTTCA
88135609 ATTTAAAATTTTCGTGTATTAATTT
1 ATTTAAAATTTTCGTGTATTAATTT
88135634 TACCCATCTG
Statistics
Matches: 96, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
87 8 0.08
88 27 0.28
89 45 0.47
90 12 0.12
91 3 0.03
92 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (87 bp):
ATTTAAAATTTTCGTGTATTAATTTCTTACAATGTTTGTATTTTTTATATCTGTAAATTTAATTT
ATCCATTTAAGTTTAGGTTTCA
Found at i:88138299 original size:18 final size:20
Alignment explanation
Indices: 88138276--88138339 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 20
88138266 ACCCATATTG
88138276 TCAAA-TTATTTT-TTCATT
1 TCAAATTTATTTTATTCATT
88138294 TCAAATTTATTTTAACTTCATT
1 TCAAATTTATTTT-A-TTCATT
* *
88138316 TCAAACTTCATTTCATTCCATT
1 TCAAA-TTTATTTTATT-CATT
88138338 TC
1 TC
88138340 CTTTTAACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 5 0.13
19 7 0.18
21 2 0.05
22 18 0.47
23 6 0.16
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (20 bp):
TCAAATTTATTTTATTCATT
Found at i:88138324 original size:12 final size:12
Alignment explanation
Indices: 88138288--88138330 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
88138278 AAATTATTTT
88138288 TTCATTTCAAA-
1 TTCATTTCAAAC
* *
88138299 TTTATTT-TAAC
1 TTCATTTCAAAC
88138310 TTCATTTCAAAC
1 TTCATTTCAAAC
88138322 TTCATTTCA
1 TTCATTTCA
88138331 TTCCATTTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 2 0.08
11 12 0.46
12 12 0.46
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (12 bp):
TTCATTTCAAAC
Found at i:88138379 original size:20 final size:19
Alignment explanation
Indices: 88138354--88138413 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 19
88138344 TAACATTCCA
88138354 TTTCATTTAAATTTTCTTTT
1 TTTCATTTAAATTTT-TTTT
88138374 TTTCATTTAAATTTAATTTTT
1 TTTCATTTAAATTT--TTTTT
* *
88138395 TCTCATTTCAATTTTTTTT
1 TTTCATTTAAATTTTTTTT
88138414 CATATTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 5 0.14
20 14 0.39
21 16 0.44
22 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCATTTAAATTTTTTTT
Found at i:88138400 original size:21 final size:20
Alignment explanation
Indices: 88138354--88138408 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
88138344 TAACATTCCA
**
88138354 TTTCATTTAAATTTTCTTTT
1 TTTCATTTAAATTTAATTTT
88138374 TTTCATTTAAATTTAATTTT
1 TTTCATTTAAATTTAATTTT
*
88138394 TTCTCATTTCAATTT
1 TT-TCATTTAAATTT
88138409 TTTTTCATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTCATTTAAATTTAATTTT
Found at i:88138409 original size:16 final size:15
Alignment explanation
Indices: 88138384--88138422 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
88138374 TTTCATTTAA
88138384 ATTTAATTTTTTCTC
1 ATTTAATTTTTTCTC
*
88138399 ATTTCAATTTTTTTTC
1 ATTT-AATTTTTTCTC
88138415 ATATTAAT
1 AT-TTAAT
88138423 AACAAGTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTAATTTTTTCTC
Found at i:88138458 original size:19 final size:18
Alignment explanation
Indices: 88138434--88138477 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
88138424 ACAAGTAGTC
*
88138434 TCATTTGAATTTTGTTTTT
1 TCATTTCAATTTT-TTTTT
88138453 TCATTTCAA--TTTTTTT
1 TCATTTCAATTTTTTTTT
88138469 TCATTTCAA
1 TCATTTCAA
88138478 ATTATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 14 0.58
17 2 0.08
19 8 0.33
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.64
Consensus pattern (18 bp):
TCATTTCAATTTTTTTTT
Found at i:88138500 original size:5 final size:5
Alignment explanation
Indices: 88138490--88138529 Score: 53
Period size: 5 Copynumber: 7.4 Consensus size: 5
88138480 TATAATTTTT
88138490 TTTCA TTTCA TTTCA TATTCA TTTAACA TTTCA TTTCA TT
1 TTTCA TTTCA TTTCA T-TTCA TTT--CA TTTCA TTTCA TT
88138530 AAAATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 22 0.69
6 5 0.16
7 5 0.16
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.57
Consensus pattern (5 bp):
TTTCA
Found at i:88138547 original size:16 final size:16
Alignment explanation
Indices: 88138507--88138555 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
88138497 TCATTTCATA
* *
88138507 TTCATTTAACATTTCAT
1 TTCATTTAAAATTT-TT
88138524 TTCA-TTAAAATTTTT
1 TTCATTTAAAATTTTT
88138539 TTCATTT-AAATTTTT
1 TTCATTTAAAATTTTT
88138554 TT
1 TT
88138556 TTTTCTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 15 0.52
16 10 0.34
17 4 0.14
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (16 bp):
TTCATTTAAAATTTTT
Found at i:88138556 original size:16 final size:16
Alignment explanation
Indices: 88138483--88138556 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 16
88138473 TTCAAATTAT
88138483 AATTTTTTTTCATTT-
1 AATTTTTTTTCATTTA
* * *
88138498 CATTTCATATTCATTTA
1 AATTT-TTTTTCATTTA
**
88138515 ACATTTCATTTCA-TTA
1 A-ATTTTTTTTCATTTA
*
88138531 AAATTTTTTTCATTTA
1 AATTTTTTTTCATTTA
88138547 AATTTTTTTT
1 AATTTTTTTT
88138557 TTTCTAGTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
15 12 0.27
16 24 0.55
17 4 0.09
18 4 0.09
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTTTTTTCATTTA
Found at i:88138586 original size:19 final size:19
Alignment explanation
Indices: 88138534--88138588 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
88138524 TTCATTAAAA
88138534 TTTTTTTCAT-TTAAATTTT
1 TTTTTTTCATATTAAA-TTT
88138553 TTTTTTTCTAGTATTCAAA-TT
1 TTTTTTTC-A-TATT-AAATTT
88138574 TTTTTTTCATATTAA
1 TTTTTTTCATATTAA
88138589 TCACAAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 2 0.06
21 11 0.34
22 2 0.06
23 3 0.09
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTTCATATTAAATTT
Found at i:88138758 original size:25 final size:26
Alignment explanation
Indices: 88138725--88138778 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
88138715 TTTTTCTCAA
* *
88138725 TTTAAATTTCATTT-CATTTCAAAAT
1 TTTAAATTTCATTTAAATTTAAAAAT
*
88138750 TTTAAATTTTATTTAAATTTAAAAAT
1 TTTAAATTTCATTTAAATTTAAAAAT
88138776 TTT
1 TTT
88138779 CTCATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTAAATTTCATTTAAATTTAAAAAT
Found at i:88138958 original size:19 final size:19
Alignment explanation
Indices: 88138934--88138971 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
88138924 ACATGTTTTG
*
88138934 CCAATTTTTTTTTCTCATT
1 CCAATTTTTATTTCTCATT
88138953 CCAATTTTTATTTCTCATT
1 CCAATTTTTATTTCTCATT
88138972 TTTTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.61
Consensus pattern (19 bp):
CCAATTTTTATTTCTCATT
Found at i:88138973 original size:29 final size:29
Alignment explanation
Indices: 88138941--88139001 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
88138931 TTGCCAATTT
*
88138941 TTTTTTCTCA-TTCCAATTTTTATTTCTCA
1 TTTTTTCTCATTTCC-ATTTTCATTTCTCA
* *
88138970 TTTTTTTTCATTTTCATTTTCATTTCTCA
1 TTTTTTCTCATTTCCATTTTCATTTCTCA
88138999 TTT
1 TTT
88139002 AATTTCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (29 bp):
TTTTTTCTCATTTCCATTTTCATTTCTCA
Found at i:88138976 original size:16 final size:16
Alignment explanation
Indices: 88138957--88138989 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
88138947 CTCATTCCAA
88138957 TTTTT-ATTTCTCATTT
1 TTTTTCATTT-TCATTT
88138973 TTTTTCATTTTCATTT
1 TTTTTCATTTTCATTT
88138989 T
1 T
88138990 CATTTCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTCATTT
Found at i:88138983 original size:6 final size:6
Alignment explanation
Indices: 88138956--88139001 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
88138946 TCTCATTCCA
*
88138956 ATTTTT ATTTCTC ATTTT- -TTTTC ATTTTC ATTTTC ATTTCTC ATTT
1 ATTTTC ATTT-TC ATTTTC ATTTTC ATTTTC ATTTTC ATTT-TC ATTT
88139002 AATTTCATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
4 4 0.11
6 20 0.57
7 11 0.31
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTC
Found at i:88138989 original size:12 final size:12
Alignment explanation
Indices: 88138956--88139001 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
88138946 TCTCATTCCA
*
88138956 ATTTTTATTTCTC
1 ATTTTCATTT-TC
88138969 ATTTT--TTTTC
1 ATTTTCATTTTC
88138979 ATTTTCATTTTC
1 ATTTTCATTTTC
88138991 ATTTCTCATTT
1 ATTT-TCATTT
88139002 AATTTCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.23
11 3 0.10
12 9 0.30
13 11 0.37
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTCATTTTC
Found at i:88139007 original size:29 final size:29
Alignment explanation
Indices: 88138956--88139011 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
88138946 TCTCATTCCA
* **
88138956 ATTTTTATTTCTCATTTTTTTTCATTTTC
1 ATTTTCATTTCTCATTTAATTTCATTTTC
88138985 ATTTTCATTTCTCATTTAATTTCATTT
1 ATTTTCATTTCTCATTTAATTTCATTT
88139012 AAATTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (29 bp):
ATTTTCATTTCTCATTTAATTTCATTTTC
Found at i:88139017 original size:29 final size:29
Alignment explanation
Indices: 88138955--88139017 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
88138945 TTCTCATTCC
* ** *
88138955 AATTTTTATTTCTCATTTTTTTTCATTTT
1 AATTTTCATTTCTCATTTAATTTCATTTA
*
88138984 CATTTTCATTTCTCATTTAATTTCATTTA
1 AATTTTCATTTCTCATTTAATTTCATTTA
88139013 AATTT
1 AATTT
88139018 ATTTTTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65
Consensus pattern (29 bp):
AATTTTCATTTCTCATTTAATTTCATTTA
Found at i:88139052 original size:23 final size:21
Alignment explanation
Indices: 88139014--88139103 Score: 90
Period size: 22 Copynumber: 4.1 Consensus size: 21
88139004 TTTCATTTAA
** *
88139014 ATTTATTTTTAATTTAAATTT
1 ATTTATTTTCCATTTTAATTT
88139035 ATTTCATTTTCCATTTTAATTT
1 ATTT-ATTTTCCATTTTAATTT
*
88139057 ATTTTTTTATCTCATTTTAATTT
1 ATTTATTT-TC-CATTTTAATTT
* *
88139080 ATTTAATTTTTCATTTCAATTT
1 ATTT-ATTTTCCATTTTAATTT
88139102 AT
1 AT
88139104 AATTTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.12
22 32 0.55
23 16 0.28
24 3 0.05
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTATTTTCCATTTTAATTT
Found at i:88139117 original size:23 final size:21
Alignment explanation
Indices: 88139015--88139243 Score: 125
Period size: 21 Copynumber: 10.4 Consensus size: 21
88139005 TTCATTTAAA
* *
88139015 TTTATTTTTAATTTAAATTTAT
1 TTTA-TTTTCATTTCAATTTAT
* *
88139037 TTCATTTTCCATTTTAATTTAT
1 TTTATTTT-CATTTCAATTTAT
* *
88139059 TTTTTTATCTCATTTTAATTTAT
1 TTTATT-T-TCATTTCAATTTAT
*
88139082 TTAATTTTTCATTTCAATTTAT
1 TTTA-TTTTCATTTCAATTTAT
*
88139104 AATTTATTTTCATTTCATATTCAT
1 --TTTATTTTCATTTCA-ATTTAT
*
88139128 TTAATACTTCGTTTCATTTCATATTCAT
1 TT--TA--T--TTTCATTTCA-ATTTAT
*
88139156 TTT-TTTATCATCTCAATTTAT
1 TTTATTT-TCATTTCAATTTAT
88139177 TTT-TTTCTCATTTCAATTTAT
1 TTTATTT-TCATTTCAATTTAT
*
88139198 TCTT-TTTTCA----AATTCAT
1 T-TTATTTTCATTTCAATTTAT
88139215 TTT-TTTCTCATTTCAATTTAT
1 TTTATTT-TCATTTCAATTTAT
88139236 TTT-TTTTC
1 TTTATTTTC
88139244 TTTTTAGTTT
Statistics
Matches: 171, Mismatches: 16, Indels: 42
0.75 0.07 0.18
Matches are distributed among these distances:
16 5 0.03
17 10 0.06
20 2 0.01
21 46 0.27
22 45 0.26
23 29 0.17
24 13 0.08
26 2 0.01
28 19 0.11
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATTTTCATTTCAATTTAT
Found at i:88139117 original size:45 final size:46
Alignment explanation
Indices: 88139003--88139197 Score: 138
Period size: 45 Copynumber: 4.3 Consensus size: 46
88138993 TTCTCATTTA
* * * * *
88139003 ATTTC-ATTTA-AATTTATTTTTAATTTAAATTTATTTCATTTTCC
1 ATTTCAATTTATAATTTATTTATCATTTCAATTTATTTAATTTTTC
* *
88139047 ATTTTAATTTAT--TTT-TTTATCTCATTTTAATTTATTTAATTTTTC
1 ATTTCAATTTATAATTTATTTA--TCATTTCAATTTATTTAATTTTTC
* **
88139092 ATTTCAATTTATAATTTATTT-TCATTTCATATTCATTTAATACTTC
1 ATTTCAATTTATAATTTATTTATCATTTCA-ATTTATTTAATTTTTC
* * *
88139138 GTTTC-ATTTCATATTCATTTTTTTATCATCTCAATTTATTT--TTTTCTC
1 ATTTCAATTT-ATA---ATTTATTTATCATTTCAATTTATTTAATTTT-TC
88139186 ATTTCAATTTAT
1 ATTTCAATTTAT
88139198 TCTTTTTTCA
Statistics
Matches: 118, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.03
44 7 0.06
45 47 0.40
46 20 0.17
47 5 0.04
48 11 0.09
49 18 0.15
50 7 0.06
ACGTcount: A:0.26, C:0.11, G:0.01, T:0.62
Consensus pattern (46 bp):
ATTTCAATTTATAATTTATTTATCATTTCAATTTATTTAATTTTTC
Found at i:88139217 original size:38 final size:37
Alignment explanation
Indices: 88139170--88139243 Score: 130
Period size: 38 Copynumber: 2.0 Consensus size: 37
88139160 TTATCATCTC
*
88139170 AATTTATTTTTTTCTCATTTCAATTTATTCTTTTTTCA
1 AATTCATTTTTTTCTCATTTCAATTTATT-TTTTTTCA
88139208 AATTCATTTTTTTCTCATTTCAATTTATTTTTTTTC
1 AATTCATTTTTTTCTCATTTCAATTTATTTTTTTTC
88139244 TTTTTAGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 7 0.20
38 28 0.80
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (37 bp):
AATTCATTTTTTTCTCATTTCAATTTATTTTTTTTCA
Found at i:88139260 original size:21 final size:22
Alignment explanation
Indices: 88139213--88139260 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
88139203 TTTCAAATTC
88139213 ATTTTTTTCTCATTTCAATTTAT
1 ATTTTTTTCT-ATTTCAATTTAT
* *
88139236 -TTTTTTTCT-TTTTAGTTTAT
1 ATTTTTTTCTATTTCAATTTAT
88139256 ATTTT
1 ATTTT
88139261 AATTTCATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.41
21 4 0.18
22 9 0.41
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (22 bp):
ATTTTTTTCTATTTCAATTTAT
Found at i:88139293 original size:17 final size:18
Alignment explanation
Indices: 88139254--88139296 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
88139244 TTTTTAGTTT
*
88139254 ATATTTTAATTTCATCCC
1 ATATTTTAAATTCATCCC
*
88139272 ATATTTTAAATTCAT-TC
1 ATATTTTAAATTCATCCC
88139289 ATATTTTA
1 ATATTTTA
88139297 TTCACTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTTTAAATTCATCCC
Found at i:88139801 original size:43 final size:44
Alignment explanation
Indices: 88139714--88139804 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
88139704 GAATTAATAT
88139714 ATTTAATGTGTTTTAAATTAAATATATATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATATATGTATATTGTATTATA
*
88139758 ATTTAATGTGTTTTAAATTAAATA-GTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATATATGTATATTGTATTATA
88139801 ATTT
1 ATTT
88139805 GTATATCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 22 0.48
44 24 0.52
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAATTAAATATATATGTATATTGTATTATA
Found at i:88143104 original size:21 final size:21
Alignment explanation
Indices: 88143058--88143119 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
88143048 CGAATACACC
88143058 AATAGAAGCTCG-AA-AGCTG
1 AATAGAAGCTCGTAAGAGCTG
* *
88143077 AACAGAAGCTCGTAAGAGCTT
1 AATAGAAGCTCGTAAGAGCTG
* *
88143098 AATAGAAACTCATAAGAGCTG
1 AATAGAAGCTCGTAAGAGCTG
88143119 A
1 A
88143120 TCCATCCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 22 0.63
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.18
Consensus pattern (21 bp):
AATAGAAGCTCGTAAGAGCTG
Found at i:88145365 original size:54 final size:54
Alignment explanation
Indices: 88145298--88145510 Score: 277
Period size: 54 Copynumber: 3.9 Consensus size: 54
88145288 CATTATATAT
*
88145298 ATCTGATAAATTTGGTGTCTGCCATCAATATCCCAAAACCAAAAAAAAATAATA
1 ATCTGATAAAGTTGGTGTCTGCCATCAATATCCCAAAACCAAAAAAAAATAATA
*
88145352 ATCTGATAAATTTGGTGTCTGCCATCAATATCCCAAAACCAAAAAAAAATAATA
1 ATCTGATAAAGTTGGTGTCTGCCATCAATATCCCAAAACCAAAAAAAAATAATA
* ****
88145406 ATCTGATAAAGTTGGTGTCGGCCATCGGCGTCCCAAAACCAAAAAAAAA-AATA
1 ATCTGATAAAGTTGGTGTCTGCCATCAATATCCCAAAACCAAAAAAAAATAATA
* * ** *
88145459 ATCTGAGAAAGTTAGTG-CTAGCCATCTGTGTCCCAAAACCCAAAACAAAAAT
1 ATCTGATAAAGTTGGTGTCT-GCCATCAATATCCCAAAA-CCAAAA-AAAAAT
88145511 TTTAGGACCC
Statistics
Matches: 144, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 35 0.24
54 103 0.72
55 5 0.03
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (54 bp):
ATCTGATAAAGTTGGTGTCTGCCATCAATATCCCAAAACCAAAAAAAAATAATA
Found at i:88145572 original size:53 final size:54
Alignment explanation
Indices: 88145505--88145615 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 54
88145495 AACCCAAAAC
* * * *
88145505 AAAAATTTTAGGACCCGAAAAAGGTGGTGTCGGCCATCAATGTCCCAGA-TAAA
1 AAAAATTTTAGGACCCAAAAAAGGTGGTGCCGACCATCAATGTCCCAAAGTAAA
* * * *
88145558 AAAAATTTTGGGACCTAAAAAAGGTGGTGCCGATCATCAGTGTCCCAAAGTAAA
1 AAAAATTTTAGGACCCAAAAAAGGTGGTGCCGACCATCAATGTCCCAAAGTAAA
88145612 AAAA
1 AAAA
88145616 GTTTGCTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 41 0.84
54 8 0.16
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (54 bp):
AAAAATTTTAGGACCCAAAAAAGGTGGTGCCGACCATCAATGTCCCAAAGTAAA
Found at i:88147084 original size:13 final size:13
Alignment explanation
Indices: 88147066--88147108 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
88147056 TTTAATAATA
88147066 AAATAAAGAAATG
1 AAATAAAGAAATG
88147079 AAATAAAGAAAT-
1 AAATAAAGAAATG
* *
88147091 AAATGAAATAAAAG
1 AAAT-AAAGAAATG
88147105 AAAT
1 AAAT
88147109 GAAAAAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Found at i:88147096 original size:17 final size:18
Alignment explanation
Indices: 88147062--88147108 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
88147052 ATAGTTTAAT
* *
88147062 AATAAAATAAAGAAATGA
1 AATAAAAGAAATAAATGA
88147080 AAT-AAAGAAATAAATGA
1 AATAAAAGAAATAAATGA
88147097 AATAAAAGAAAT
1 AATAAAAGAAAT
88147109 GAAAAAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AATAAAAGAAATAAATGA
Found at i:88147100 original size:9 final size:9
Alignment explanation
Indices: 88147074--88147108 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
88147064 TAAAATAAAG
88147074 AAATGAAAT
1 AAATGAAAT
88147083 AAA-GAAAT
1 AAATGAAAT
88147091 AAATGAAAT
1 AAATGAAAT
*
88147100 AAAAGAAAT
1 AAATGAAAT
88147109 GAAAAAGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (9 bp):
AAATGAAAT
Found at i:88149736 original size:46 final size:46
Alignment explanation
Indices: 88149686--88149858 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
88149676 TTGAGCATCC
88149686 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * *
88149732 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* * *
88149779 GAACTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
88149825 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88149859 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:88149839 original size:93 final size:93
Alignment explanation
Indices: 88149680--88149851 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
88149670 GGATGATTGA
* *
88149680 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
88149745 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
88149773 GCATCCGAACTCGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
88149838 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
88149852 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88154738 original size:15 final size:15
Alignment explanation
Indices: 88154715--88154752 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
88154705 GGTAGTACGA
*
88154715 AAATGTATTATTTGT
1 AAATATATTATTTGT
88154730 AAATATATTATTTGT
1 AAATATATTATTTGT
88154745 AAATATAT
1 AAATATAT
88154753 GACCTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (15 bp):
AAATATATTATTTGT
Found at i:88155040 original size:27 final size:27
Alignment explanation
Indices: 88155002--88155085 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
88154992 ATGGTATATA
* * *
88155002 GGTTGCGCTTATCTGATAGACGCGACT
1 GGTTGAGCTTATCTGACAGGCGCGACT
*
88155029 GGTTGTGCTTATCTGACAGGCGCGACT
1 GGTTGAGCTTATCTGACAGGCGCGACT
* * *
88155056 TGTTGAACCTATCTGACAGGCGCGACT
1 GGTTGAGCTTATCTGACAGGCGCGACT
88155083 GGT
1 GGT
88155086 AGGTCCACAG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.23, G:0.31, T:0.29
Consensus pattern (27 bp):
GGTTGAGCTTATCTGACAGGCGCGACT
Found at i:88155927 original size:94 final size:94
Alignment explanation
Indices: 88155766--88155952 Score: 338
Period size: 94 Copynumber: 2.0 Consensus size: 94
88155756 CGGAGATTTC
*
88155766 GATACATCGTACAATGAGTTACAGGGATAGATAGCCACTATGAGAGAGTACGTGTCGGGGACTAT
1 GATACATCGTACAATGAGTTACAGGAATAGATAGCCACTATGAGAGAGTACGTGTCGGGGACTAT
*
88155831 AATTGAGTTGCAGACACGATCTTATTACA
66 AATTGAGTCGCAGACACGATCTTATTACA
*
88155860 GATACATCGTACAATGAGTTACAGGAATAGATAGCCGCTATGAGAGAGTACGTGTCGGGGACTAT
1 GATACATCGTACAATGAGTTACAGGAATAGATAGCCACTATGAGAGAGTACGTGTCGGGGACTAT
*
88155925 AATTGAGTCGTAGACACGATCTTATTAC
66 AATTGAGTCGCAGACACGATCTTATTAC
88155953 GGCTTGAATG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (94 bp):
GATACATCGTACAATGAGTTACAGGAATAGATAGCCACTATGAGAGAGTACGTGTCGGGGACTAT
AATTGAGTCGCAGACACGATCTTATTACA
Found at i:88164815 original size:27 final size:28
Alignment explanation
Indices: 88164785--88164846 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
88164775 TATGGGCCCT
*
88164785 ACCAGTCACGCCTCTG-AGATAGGCTCA
1 ACCAGTCACGCCCCTGCAGATAGGCTCA
*
88164812 ACCAGTCGCGCCCCTGTCAGATAGGCTCA
1 ACCAGTCACGCCCCTG-CAGATAGGCTCA
88164841 ACCAGT
1 ACCAGT
88164847 TGCACTTGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 14 0.45
29 17 0.55
ACGTcount: A:0.24, C:0.35, G:0.23, T:0.18
Consensus pattern (28 bp):
ACCAGTCACGCCCCTGCAGATAGGCTCA
Found at i:88164864 original size:27 final size:28
Alignment explanation
Indices: 88164801--88164869 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
88164791 CACGCCTCTG
*
88164801 AGATAGGCTCAACCAGTCGCGCCCCTGTC
1 AGATAGGCTCAACCAGTC-CGCACCTGTC
* *
88164830 AGATAGGCTCAACCAGT-TGCACTTGTC
1 AGATAGGCTCAACCAGTCCGCACCTGTC
*
88164857 AGATAGGCGCAAC
1 AGATAGGCTCAAC
88164870 TTCTTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 19 0.53
29 17 0.47
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.19
Consensus pattern (28 bp):
AGATAGGCTCAACCAGTCCGCACCTGTC
Found at i:88165604 original size:22 final size:22
Alignment explanation
Indices: 88165579--88165634 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
88165569 GATACCAAAT
*
88165579 TATTATTTCTTTAA-ATTTTAAA
1 TATTATTT-TTTAATATTTAAAA
88165601 TATTATTTTTTAATATTTAAAATA
1 TATTATTTTTTAATATTT-AAA-A
88165625 TATTATTTTT
1 TATTATTTTT
88165635 AAAGATACGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 5 0.17
22 12 0.40
23 2 0.07
24 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTTTTTAATATTTAAAA
Found at i:88165848 original size:23 final size:23
Alignment explanation
Indices: 88165818--88165877 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
88165808 TAAAAAATAA
88165818 TTTAAAAAATTATATTTAAAAAT
1 TTTAAAAAATTATATTTAAAAAT
*
88165841 TTTAAAAAA-TAGTATTTGAAAAT
1 TTTAAAAAATTA-TATTTAAAAAT
*
88165864 TTTAAAATATTATA
1 TTTAAAAAATTATA
88165878 AAAAATTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 2 0.06
23 29 0.88
24 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (23 bp):
TTTAAAAAATTATATTTAAAAAT
Found at i:88165921 original size:19 final size:19
Alignment explanation
Indices: 88165875--88165914 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
88165865 TTAAAATATT
* *
88165875 ATAAAAAATTGAAAAAGTAA
1 ATAAAAAA-GGAAAAAGGAA
88165895 ATAAAAAAGGAAAAAGGAA
1 ATAAAAAAGGAAAAAGGAA
88165914 A
1 A
88165915 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (19 bp):
ATAAAAAAGGAAAAAGGAA
Found at i:88167730 original size:125 final size:127
Alignment explanation
Indices: 88167529--88167790 Score: 339
Period size: 125 Copynumber: 2.1 Consensus size: 127
88167519 GAGTATGAGC
* * **
88167529 TTGCCTTCTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAATGACATTCGGATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGGATACATAGAT
* * * *
88167594 CAAACGGAAAATCAAAACCCAGTACGTTAGGGCACGACTACTCGAATTTCTAAATACGGAATA
65 CAAACGAAAAATCAAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATA
* * * * *
88167657 TTGCCTTTGTTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATCGGTTACATAGATC
1 TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGGATACATAGATC
* * * * *
88167720 AAACGAAAAATCGAAACCCAGTACGTTAGGACACGATTTCTCGAATTTCCAAGTACCGAATT
66 AAACGAAAAATCAAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATA
88167782 TTGCCTTTA
1 TTGCCTTTA
88167791 CTTGAAAAAT
Statistics
Matches: 115, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
125 80 0.70
126 3 0.03
127 25 0.22
128 7 0.06
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGGATACATAGATC
AAACGAAAAATCAAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATA
Found at i:88167967 original size:3 final size:3
Alignment explanation
Indices: 88167953--88168423 Score: 67
Period size: 3 Copynumber: 153.3 Consensus size: 3
88167943 AATAGGATGG
* * * * *
88167953 ATA ATA AAA ATA ATA GTA ATA ATA AT- ATA ATG GTA ATA ATA TTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
88167999 AAA AGTAA ATA TATA ATG ATG ATA ATA GTG TTA AAA ATA ATA ATA ATA
1 ATA A-T-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
88168047 ATGA ATAA ATGGC ATA TTA ATG GTA ATA GAAA ATG ATG ATA ATA ATA
1 AT-A AT-A AT--A ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* *
88168094 ATGGA AGTA ATGA A-A ATA ATA ATA ATA ATA GA-A ACA ATA GTA ATA
1 AT--A A-TA AT-A ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* *
88168139 A-A AGTA ATA ATA A-A ATA GAAA ATA ATA ATG ATA CATTA ATA ATA AT-
1 ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA ATA
* * * * * * **
88168185 ATA CGTG CTA ACA ATA ATA ACA AT- ATA A-A AAA AGG A-A ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
88168228 CT- ATA TTA ATA AAA ATA ATT ATA GTA GGTTA ATA ATA ATA GTA ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA AT-A
* * * * * * *
88168275 A-A AGGTA AAA ATA ATA ATA A-A AAA ATA AAA ATA CTA TTA CGTA CTA
1 ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * *
88168321 CTA ATA ATA ATA A-A A-A AGA A-A ACA ATA ATA GCATA TAGA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA -ATA ATA ATA
* * * * * * *
88168366 GTA A-A AGTA ATA AAA ATA ATA ATA GTA GTA GTA GTA GTA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
88168411 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
88168424 CACTCTCCCC
Statistics
Matches: 341, Mismatches: 86, Indels: 82
0.67 0.17 0.16
Matches are distributed among these distances:
2 31 0.09
3 262 0.77
4 32 0.09
5 15 0.04
6 1 0.00
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:88168006 original size:35 final size:38
Alignment explanation
Indices: 88167957--88168048 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 38
88167947 GGATGGATAA
88167957 TAAAAATAATAGTAATAATAATATAATG-G-TAATAATAT
1 TAAAAAT-A-AGTAATAATAATATAATGAGATAATAATAT
* *
88167995 TAAAAA-AAGT-A-AAT-ATATAATGATGATAATAGTGT
1 TAAAAATAAGTAATAATAATATAATGA-GATAATAATAT
88168030 TAAAAATAA-TAATAATAAT
1 TAAAAATAAGTAATAATAAT
88168049 GAATAAATGG
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
32 8 0.18
33 3 0.07
34 2 0.04
35 17 0.38
36 4 0.09
37 3 0.07
38 8 0.18
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (38 bp):
TAAAAATAAGTAATAATAATATAATGAGATAATAATAT
Found at i:88169224 original size:45 final size:45
Alignment explanation
Indices: 88169186--88169409 Score: 138
Period size: 45 Copynumber: 5.0 Consensus size: 45
88169176 TTCAAGAAGG
*
88169186 TAAGAGTTGGTAATTTCAACGTGCTCCACTGCAACTTCAGGGAGA
1 TAAGAGTTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGA
* * *** * *
88169231 TAAG-GTTTGTGATCTTCAGTTTTCTCCACTGCAACTTTAGGGAGA
1 TAAGAGTTGGTAAT-TTCAACCTGCTCCACTGCAACTTCAGGGAGA
* * * **
88169276 TAAGACTTGTTAA-TTCAACCTGCTCTACTGCAACTTCAGATAGA
1 TAAGAGTTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGA
** * * * *
88169320 TAA-AGTT--TACTATCTTTGATCTGCTTCGCTACAACTTCAGGGAGA
1 TAAGAGTTGGTA--AT-TTCAACCTGCTCCACTGCAACTTCAGGGAGA
* * * * *
88169365 TAAGA-TCTGCT-ATTTCAATCTCCTCCACTGTAACTTTAGGGAGA
1 TAAGAGT-TGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGA
88169409 T
1 T
88169410 GACACCTGTA
Statistics
Matches: 132, Mismatches: 37, Indels: 21
0.69 0.19 0.11
Matches are distributed among these distances:
41 2 0.02
43 4 0.03
44 57 0.43
45 62 0.47
46 6 0.05
48 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (45 bp):
TAAGAGTTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGA
Found at i:88169293 original size:89 final size:88
Alignment explanation
Indices: 88169035--88169409 Score: 271
Period size: 89 Copynumber: 4.2 Consensus size: 88
88169025 AATCCACTCT
*
88169035 ACTGCAACTTCAGGGAGAT-AGGATTAGATG-TCTTCAGTCTACTCCGCTGCAACTTCAGGGAGA
1 ACTGCAACTTCAGGGAGATAAGG-TTTG-TGATCTTCAGTCTACTCCGCTGCAACTTCAGGGAGA
*** *
88169098 TAAGACTTGTGGCTTCAATCAGCTCC
64 TAAGACTTGTTAATTCAA-CTGCTCC
* * * * * * * * * *
88169124 AATGTAATTTCAGGGAGA-AGAGATTTGT-AGCTTC-GATCTACTTCGCTGGAACTTCAAGAAGG
1 ACTGCAACTTCAGGGAGATA-AGGTTTGTGATCTTCAG-TCTACTCCGCTGCAACTTCAGGGAGA
* *
88169186 TAAGAGTTGGTAATTTCAACGTGCTCC
64 TAAGACTTGTTAA-TTCAAC-TGCTCC
* * * *
88169213 ACTGCAACTTCAGGGAGATAAGGTTTGTGATCTTCAGTTTTCTCCACTGCAACTTTAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGGTTTGTGATCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATA
*
88169278 AGACTTGTTAATTCAACCTGCTCT
66 AGACTTGTTAATTCAA-CTGCTCC
** * * * * * *
88169302 ACTGCAACTTCAGATAGATAAAGTTTACT-ATCTT-TGATCTGCTTCGCTACAACTTCAGGGAGA
1 ACTGCAACTTCAGGGAGATAAGGTTT-GTGATCTTCAG-TCTACTCCGCTGCAACTTCAGGGAGA
* * *
88169365 TAAGA-TCTGCTATTTCAATCTCCTCC
64 TAAGACT-TGTTAATTCAA-CTGCTCC
* *
88169391 ACTGTAACTTTAGGGAGAT
1 ACTGCAACTTCAGGGAGAT
88169410 GACACCTGTA
Statistics
Matches: 219, Mismatches: 54, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
87 1 0.00
88 37 0.17
89 142 0.65
90 38 0.17
91 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (88 bp):
ACTGCAACTTCAGGGAGATAAGGTTTGTGATCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATA
AGACTTGTTAATTCAACTGCTCC
Found at i:88169382 original size:178 final size:178
Alignment explanation
Indices: 88169035--88169409 Score: 384
Period size: 178 Copynumber: 2.1 Consensus size: 178
88169025 AATCCACTCT
*
88169035 ACTGCAACTTCAGGGAGATAGGATTAGATGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAGGATTAGATGTCTTCAGTCTACTCCACTGCAACTTCAGGGAGATA
** * * * * * *
88169100 AGACTTGTGGCTTCAATCAGCTCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTAC
66 AGACTTGTGAATTCAACCAGCTCCAATGCAACTTCAGAGAGAAAAGATTTCTAGCTTCGATCTAC
** * * *
88169165 TTCGCTGGAACTTCAAGAAGGTAAGAGTTGGTAATTTCAA-CGTGCTCC
131 TTCGCTACAACTTCAAGAAGATAAGAGTTGCTAATTTCAATC-TCCTCC
* * * *
88169213 ACTGCAACTTCAGGGAGATAAGG-TTTG-TGATCTTCAGTTTTCTCCACTGCAACTTTAGGGAGA
1 ACTGCAACTTCAGGGAGAT-AGGATTAGATG-TCTTCAGTCTACTCCACTGCAACTTCAGGGAGA
* * * * * * *
88169276 TAAGACTTGTTAATTCAACCTGCTCTACTGCAACTTCAGATAGATAAAG-TTTACTATCTTTGAT
64 TAAGACTTGTGAATTCAACCAGCTCCAATGCAACTTCAGAGAGA-AAAGATTT-CTAGCTTCGAT
* * *
88169340 CTGCTTCGCTACAACTTCAGGGAGATAAGA-TCTGCT-ATTTCAATCTCCTCC
127 CTACTTCGCTACAACTTCAAGAAGATAAGAGT-TGCTAATTTCAATCTCCTCC
* *
88169391 ACTGTAACTTTAGGGAGAT
1 ACTGCAACTTCAGGGAGAT
88169410 GACACCTGTA
Statistics
Matches: 161, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
177 2 0.01
178 117 0.73
179 42 0.26
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (178 bp):
ACTGCAACTTCAGGGAGATAGGATTAGATGTCTTCAGTCTACTCCACTGCAACTTCAGGGAGATA
AGACTTGTGAATTCAACCAGCTCCAATGCAACTTCAGAGAGAAAAGATTTCTAGCTTCGATCTAC
TTCGCTACAACTTCAAGAAGATAAGAGTTGCTAATTTCAATCTCCTCC
Found at i:88169686 original size:177 final size:178
Alignment explanation
Indices: 88169478--88169809 Score: 465
Period size: 177 Copynumber: 1.9 Consensus size: 178
88169468 TGATCTATTC
* * * * *
88169478 CACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGTTACATGGAGAT
1 CACTGCAACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGAT
*
88169543 AAAATTCGCCAT-ATACGATCTACTTCACTACTGCTTAGGGAGATAAGAT-T-CACTATCTTCAG
66 AAAATTCGCCATCAT-CGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCA--ATCTTCAG
*
88169605 TCTGCTCCACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTT
128 TCTGCTCCACTGCAACTTCAGAGAGATAGGACTTATATCTTGAACCTACTT
* *
88169656 CACTGCAACTTCAGGGAGATAAG-GCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGAT
1 CACTGCAACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGAT
* * * * * *
88169720 AAGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCT
66 AAAATTCGCCATCATCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCT
*
88169785 GCTCCACTGTAACTTCAGAGAGATA
131 GCTCCACTGCAACTTCAGAGAGATA
88169810 AAGCTGGTAG
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
177 110 0.81
178 23 0.17
179 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (178 bp):
CACTGCAACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGAT
AAAATTCGCCATCATCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGTCT
GCTCCACTGCAACTTCAGAGAGATAGGACTTATATCTTGAACCTACTT
Found at i:88169799 original size:133 final size:133
Alignment explanation
Indices: 88169656--88169944 Score: 425
Period size: 133 Copynumber: 2.2 Consensus size: 133
88169646 GAACCTACTT
* * * *
88169656 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATA
1 CACTGCAACTTCAGAGAGATAAGGCTGGTAGCTTAAATCTACTCCATTACCGCTACATAGAGATA
* *
88169721 AGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
88169786 CTC
131 CTC
* * * *
88169789 CACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATA
1 CACTGCAACTTCAGAGAGATAAGGCTGGTAGCTTAAATCTACTCCATTACCGCTACATAGAGATA
* * * * * *
88169854 AGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAATTTTTAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
88169919 CTC
131 CTC
*
88169922 CACTACAACTTCAGAGAGATAAG
1 CACTGCAACTTCAGAGAGATAAG
88169945 ATTTGTATCT
Statistics
Matches: 137, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 137 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
CACTGCAACTTCAGAGAGATAAGGCTGGTAGCTTAAATCTACTCCATTACCGCTACATAGAGATA
AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
CTC
Found at i:88169848 original size:310 final size:311
Alignment explanation
Indices: 88169476--88170122 Score: 886
Period size: 310 Copynumber: 2.1 Consensus size: 311
88169466 CTTGATCTAT
* * * * *
88169476 TCCACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGTTACATGGAG
1 TCCACTGTAACTTCAGAGAAATAAGAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
* *
88169541 ATAAAATTCGCCATATACGATCTACTTCACTACTGCTTAGGGAGATAAGA-TTCACTATCTTCAG
66 ATAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTTCA-AATCTTCAG
* * * *
88169605 TCTGCTCCACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTTCACTGCAACTTCAG
130 TCTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAG
* *
88169670 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATAAGATTCGCCGTCCT
195 GGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCT
* *
88169735 CGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
260 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
*
88169787 TCCACTGTAACTTCAGAGAGATAA-AGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
1 TCCACTGTAACTTCAGAGAAATAAGAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
* * * * * * * * * * *
88169851 ATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAATTTTTAGT
66 ATAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTTCAAATCTTCAGT
* * * *
88169916 CTGCTCCACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGG
131 CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
* * * * * * *
88169981 GAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATGGAGATAAGATTTGTCATCTTC
196 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTC
* * *
88170046 GATCTGCTTCACTACTACTTAGGGAGGTAAGATCTGTAATTTTCAGTCTGC
261 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
88170097 TCCACTGTAACTTCAG-GAAAATAAGA
1 TCCACTGTAACTTCAGAG-AAATAAGA
88170123 CTTGTATCTT
Statistics
Matches: 291, Mismatches: 42, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
309 1 0.00
310 264 0.91
311 26 0.09
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (311 bp):
TCCACTGTAACTTCAGAGAAATAAGAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAG
ATAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTTCAAATCTTCAGT
CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTC
GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
Found at i:88169853 original size:177 final size:176
Alignment explanation
Indices: 88169476--88169855 Score: 424
Period size: 177 Copynumber: 2.1 Consensus size: 176
88169466 CTTGATCTAT
* * * * * * *
88169476 TCCACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGTTACATGGAG
1 TCCACTGCAACTACAGGGAGATAAG-GCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAG
*
88169541 ATAAAATTCGCCATATACGATCTACTTCACTACTGCTTAGGGAGATAAGATTCACTATCTTCAGT
65 ATAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTCAC-ATCTTCAGT
* * * * *
88169606 CTGCTCCACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTAC
129 CTGCTCCACTGCAACTTCAGAGAGATAAGACTGATAGCTTAAACCTAC
* * *
88169654 TTCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGA
1 TCCACTGCAACTACAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGA
* * * * * *
88169719 TAAGATTCGCCGTCCT-CGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCA-ATTTTCAG
66 TAAAATTCGCCAT-ATACGATCTACTCCACTACTGCTTAGGGAGATAAGAT-T-CACATCTTCAG
* * *
88169782 TCTGCTCCACTGTAACTTCAGAGAGATAA-AGCTGGTAGCTTAAATCTAC
128 TCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTGATAGCTTAAACCTAC
* ** *
88169831 TCCATTGCCGCTACATGGAGATAAG
1 TCCACTGCAACTACAGGGAGATAAG
88169856 ATTTGTCGTC
Statistics
Matches: 169, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
176 1 0.01
177 142 0.84
178 24 0.14
179 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (176 bp):
TCCACTGCAACTACAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGA
TAAAATTCGCCATATACGATCTACTCCACTACTGCTTAGGGAGATAAGATTCACATCTTCAGTCT
GCTCCACTGCAACTTCAGAGAGATAAGACTGATAGCTTAAACCTAC
Found at i:88169901 original size:177 final size:177
Alignment explanation
Indices: 88169733--88170294 Score: 511
Period size: 177 Copynumber: 3.2 Consensus size: 177
88169723 ATTCGCCGTC
* ** * * ** *
88169733 CTCGA-TCTGCTCCACTTCTGCTT-AGGGAGATAAGATCTGCAATTTTCAGTCTGCTCCACTGTA
1 CTCGAGTCTGCTCCACTACAACTTCAGAGAGATAAGATCTG-AATCTTCAACCTGCTCCACTGCA
88169796 ACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATAAGATTTG
65 ACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATAAGATTTG
* * *
88169861 TCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAAT
130 TCATCTTCGATCTGCTCCACTACTACTTAGGGATATAAGATTCGAAAT
* ** * * * *
88169909 TTTTAGTCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCCATTGCAA
1 CTCGAGTCTGCTCCACTACAACTTCAGAGAGATAAGATCTGAATCTTCAACCTGCTCCACTGCAA
* * * * * *
88169974 CTTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATGGAGATAAGATTTGT
66 CTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATAAGATTTGT
* ** *
88170039 CATCTTCGATCTGCTTCACTACTACTTAGGGAGGTAAGA-TCTGTAATT
131 CATCTTCGATCTGCTCCACTACTACTTAGGGATATAAGATTC-G-AAAT
* ** * * * *
88170087 TTC-AGTCTGCTCCACTGTAACTTCAG-GAAAATAAGA-CTTGTATCTTGAACCTGCTCTACTGC
1 CTCGAGTCTGCTCCACTACAACTTCAGAG-AGATAAGATC-TGAATCTTCAACCTGCTCCACTGC
* * * * * * *
88170149 AACTTAAGGGAGATAAGGCTAGTGGCTTAAAT-TAGCTCCATTGCAGTTACATGGAGATAAGATT
64 AACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTA-CTCCATTGCCGCTACATGGAGATAAGATT
* * * * * * *
88170213 TGCCATCTTCGATCTGCTCTACTATTGCTTAGGCAGATAAGA-TCTACAAT
128 TGTCATCTTCGATCTGCTCCACTACTACTTAGGGATATAAGATTCGA-AAT
* *
88170263 -T----TCTGCTCCACTACAACTTTAGGGAGATAAGA
1 CTCGAGTCTGCTCCACTACAACTTCAGAGAGATAAGA
88170295 CTGGTCGCTT
Statistics
Matches: 322, Mismatches: 55, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
172 25 0.08
173 1 0.00
175 2 0.01
176 7 0.02
177 268 0.83
178 19 0.06
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (177 bp):
CTCGAGTCTGCTCCACTACAACTTCAGAGAGATAAGATCTGAATCTTCAACCTGCTCCACTGCAA
CTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATAAGATTTGT
CATCTTCGATCTGCTCCACTACTACTTAGGGATATAAGATTCGAAAT
Found at i:88169964 original size:44 final size:44
Alignment explanation
Indices: 88169035--88170165 Score: 353
Period size: 44 Copynumber: 25.5 Consensus size: 44
88169025 AATCCACTCT
* * * * * *
88169035 ACTGCAACTTCAGGGAGATAGGATTAGATGTCTTCAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * ** * *
88169080 GCTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCAGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * * * * *
88169124 AATGTAATTTCAGGGAGA-AGAGATTTGTAGCTTCG-ATCTACTTC
1 ACTGCAACTTCAGGGAGATA-AGATTTGTATCTT-GAATCTGCTCC
* * * * * * *
88169168 GCTGGAACTTCAAGAAGGTAAGAGTTGGTAAT-TTCAA-CGTGCTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTTGT-ATCTTGAATC-TGCTCC
* * * * *
88169213 ACTGCAACTTCAGGGAGATAAGGTTTGTGATCTTCAGTTTTCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTTGAATCTGCTCC
* * * * * *
88169258 ACTGCAACTTTAGGGAGATAAGACTTGT-TAATTCAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAT-CTTGAATCTGCTCC
** * *
88169302 ACTGCAACTTCAGATAGATAA-AGTTTACTATCTTTG-ATCTGCTTC
1 ACTGCAACTTCAGGGAGATAAGA-TTT-GTATC-TTGAATCTGCTCC
* * * * *
88169347 GCTACAACTTCAGGGAGATAAGATCTGCTAT-TTCAATCTCCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * * * ** * * * *
88169391 ACTGTAACTTTAGGGAGATGACACCTGTAACTTCAACCTG-TTC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * ** * **
88169434 TCTACAACTTCAAAGAGATAAGGTTTGCTATCCTTG-ATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAT-CTTGAATCTGCTCC
* * * ** *
88169479 ACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TTGTATCTTGAATCTGCTCC
* * * * * * * * *
88169524 ATTGC--CGTTACATGGAGATAAAATTCGCCATATACG-ATCTACTTC
1 ACTGCAAC-TT-CAGGGAGATAAGATTTG-TATCT-TGAATCTGCTCC
* ** ** * *
88169569 ACTACTGCTT-AGGGAGATAAGATTCACTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATT-TGTATCTTGAATCTGCTCC
* * * * * *
88169613 ACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTTC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
** * ** *
88169657 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * ** ** * ** *
88169701 ATTACCGCTAT-ATAGAGATAAGATTCGCCGTCCTCG-ATCTGCTCC
1 ACTGCAACT-TCAGGGAGATAAGATTTG-TAT-CTTGAATCTGCTCC
* ** * * * * *
88169746 ACTTCTGCTT-AGGGAGATAAGATCTGCAATTTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * * * * * *
88169790 ACTGTAACTTCAGAGAGATAA-AGCTGGTAGCTTAAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTTGTATCTTGAATCTGCTCC
* ** * * *
88169834 ATTGCCGCTACATGGAGATAAGATTTGTCGTCTTCG-ATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTT-GAATCTGCTCC
* ** * * * * *
88169879 ACTACTGCTT-AGGGATATAAGATTTGAAATTTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TATCTTGAATCTGCTCC
* * *
88169923 ACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* * * ** *
88169967 ATTGCAACTTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
* ** * * *
88170011 ATTGCCTCTACATGGAGATAAGATTTGTCATCTTCG-ATCTGCTTC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTT-GAATCTGCTCC
* * * * * * *
88170056 ACTACTACTT-AGGGAGGTAAGATCTGTAATTTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-ATCTTGAATCTGCTCC
* * * * * *
88170100 ACTGTAACTTCAGGAAAATAAGACTTGTATCTTGAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
*
88170144 ACTGCAACTTAAGGGAGATAAG
1 ACTGCAACTTCAGGGAGATAAG
88170166 GCTAGTGGCT
Statistics
Matches: 758, Mismatches: 280, Indels: 97
0.67 0.25 0.09
Matches are distributed among these distances:
43 27 0.04
44 450 0.59
45 269 0.35
46 11 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTATCTTGAATCTGCTCC
Found at i:88169984 original size:133 final size:133
Alignment explanation
Indices: 88169656--88169988 Score: 362
Period size: 133 Copynumber: 2.5 Consensus size: 133
88169646 GAACCTACTT
* * * * * * * ** * **
88169656 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* *
88169721 AGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
88169786 CTC
131 CTC
** * ** *
88169789 CACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* * * * * *
88169854 AGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAATTTTTAGTCTG
66 AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
88169919 CTC
131 CTC
* * * * * *
88169922 CACTACAACTTCAGAGAGAT-AAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGGGAGAT
1 CACTACAACTTCAGAGAGATAAAG-CTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGAT
88169986 AAG
65 AAG
88169989 GTTGGTGGCT
Statistics
Matches: 171, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
132 3 0.02
133 168 0.98
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
AGATTCGCCGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGTCTG
CTC
Found at i:88170031 original size:88 final size:86
Alignment explanation
Indices: 88169783--88170214 Score: 248
Period size: 89 Copynumber: 4.9 Consensus size: 86
88169773 AATTTTCAGT
* * * * * * **
88169783 CTGCTCCACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATG
1 CTGCTCCACTGCAACTT-AGGGAGAT-AAGGTTGTGGCTTAAATCTGCTCCATTGCATCTACATG
* *
88169848 GAGATAAGATTTGTCGTCTTCG-AT
64 GAGATAAGATTTGT-ATCTT-GAAC
* ** * * ** * * * * * *
88169872 CTGCTCCACTACTGCTTAGGGATATAAGATT-TGAAATTTTTAGTCTGCTCCACTACAACTTCA-
1 CTGCTCCACTGCAACTTAGGGAGATAAGGTTGTG---GCTTAAATCTGCTCCATTGCATCTACAT
88169935 GAGAGATAAGATTTGTATCTTGAAC
63 G-GAGATAAGATTTGTATCTTGAAC
* *
88169960 CTGCTCCATTGCAACTTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATG
1 CTGCTCCACTGCAACTT-AGGGAGATAAGGTT-GTGGCTTAAATCTGCTCCATTGCATCTACATG
*
88170025 GAGATAAGATTTGTCATCTTCG-AT
64 GAGATAAGATTTGT-ATCTT-GAAC
* * * * * *** * * * * * *
88170049 CTGCTTCACTACTACTTAGGGAGGTAAGATCTGTAATTTTCAGTCTGCTCCACTGTAACTTCA-G
1 CTGCTCCACTGCAACTTAGGGAGATAAGGT-TGT-GGCTTAAATCTGCTCCATTGCATCTACATG
* *
88170113 GAAAATAAGACTTGTATCTTGAAC
64 G-AGATAAGATTTGTATCTTGAAC
* *
88170137 CTGCTCTACTGCAACTTAAGGGAGATAAGGCTAGTGGCTTAAAT-TAGCTCCATTGCAGT-TACA
1 CTGCTCCACTGCAACTT-AGGGAGATAAGG-TTGTGGCTTAAATCT-GCTCCATTGCA-TCTACA
88170200 TGGAGATAAGATTTG
62 TGGAGATAAGATTTG
88170215 CCATCTTCGA
Statistics
Matches: 249, Mismatches: 74, Indels: 41
0.68 0.20 0.11
Matches are distributed among these distances:
86 1 0.00
87 7 0.03
88 117 0.47
89 120 0.48
90 2 0.01
91 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (86 bp):
CTGCTCCACTGCAACTTAGGGAGATAAGGTTGTGGCTTAAATCTGCTCCATTGCATCTACATGGA
GATAAGATTTGTATCTTGAAC
Found at i:88170032 original size:133 final size:133
Alignment explanation
Indices: 88169656--88170037 Score: 311
Period size: 133 Copynumber: 2.9 Consensus size: 133
88169646 GAACCTACTT
* * * * * * * ** * **
88169656 CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* * * * ** * * * *
88169721 AGATTCGCCGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTG
66 AGATTGGTCGGCTTAAATCTGCTCCACTACTGCTCAGGGAGATAAGATTTGAAATTTTCAGTCTG
88169786 CTC
131 CTC
** * ** *
88169789 CACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGATA
1 CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
* * ** * * *
88169854 AGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGAAATTTTTAGTCTG
66 AGATTGGTCGGCTTAAATCTGCTCCACTACTGCTCAGGGAGATAAGATTTGAAATTTTCAGTCTG
88169919 CTC
131 CTC
* * * * * *
88169922 CACTACAACTTCAGAGAGAT-AAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGGGAGAT
1 CACTACAACTTCAGAGAGATAAAG-CTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGAT
* * * *
88169986 AAGGTTGGT-GGCTTAAATCTGCTCCATTGCCT-CTACATGGAGATAAGATTTG
65 AAGATTGGTCGGCTTAAATCTGCTCCACT-ACTGCT-CAGGGAGATAAGATTTG
88170038 TCATCTTCGA
Statistics
Matches: 208, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
132 20 0.10
133 188 0.90
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (133 bp):
CACTACAACTTCAGAGAGATAAAGCTGGTAGCTTAAACCTACTCCATTGCAACTACAGGGAGATA
AGATTGGTCGGCTTAAATCTGCTCCACTACTGCTCAGGGAGATAAGATTTGAAATTTTCAGTCTG
CTC
Found at i:88170163 original size:310 final size:310
Alignment explanation
Indices: 88169476--88170392 Score: 831
Period size: 310 Copynumber: 3.0 Consensus size: 310
88169466 CTTGATCTAT
* * * * * * *** *
88169476 TCCACTGTAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTCCATTGCCGTTACATGGAG
1 TCCACTGTAACTTCAGAGAAATAA-AGCTGGTAGCTTAAACCTACTCCACTGCAACTACAGGGAG
* * * * * * * *
88169541 ATAAAATTCGCCATATACGATCTACTTCACTACTGCTTAGGGAGATAAGATTCACTATCTTCAGT
65 ATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATTCACAATCTTCAGT
* * * *
88169606 CTGCTCCACTGCAACTTCAGGGAGATAGGACTTATATCTTGAACCTACTTCACTGCAACTTCAGG
130 CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
* *
88169671 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTATATAGAGATAAGATTCGCCGTCCTC
195 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTC
* *
88169736 GATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
260 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
* * * ** *
88169787 TCCACTGTAACTTCAGAGAGATAAAGCTGGTAGCTTAAATCTACTCCATTGCCGCTACATGGAGA
1 TCCACTGTAACTTCAGAGAAATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAGGGAGA
* * * * *
88169852 TAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATTTGA-AATTTTTAGT
66 TAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGA-TTCACAATCTTCAGT
* * * *
88169916 CTGCTCCACTACAACTTCAGAGAGATAAGATTTGTATCTTGAACCTGCTCCATTGCAACTTCAGG
130 CTGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGG
* * * * * * *
88169981 GAGATAAGGTTGGTGGCTTAAATCTGCTCCATTGCCTCTACATGGAGATAAGATTTGTCATCTTC
195 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTC
* * *
88170046 GATCTGCTTCACTACTACTTAGGGAGGTAAGATCTGTAATTTTCAGTCTGC
260 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
* * * * *
88170097 TCCACTGTAACTTCAG-GAAA-ATAAGACTTGTATCTTGAACCTGCTCTACTGCAACTTA-AGGG
1 TCCACTGTAACTTCAGAGAAATA-AAG-CTGGTAGCTTAAACCTACTCCACTGCAAC-TACAGGG
** * * ** * * * * ** *
88170159 AGATAAGGCTAGT-GGCTTAAAT-TAGCTCCATTGCAG-TTACATGGAGATAAGATTTGCCATCT
63 AGATAAGATTTGTCGTCTTCGATCTA-CTCCACTACTGCTT--AGGGAGATAAGATTCACAATCT
* *** * * *
88170221 TC-GATCTGCTCTACTATTGCTT-AG-GCAGATAAGA-TCTACAAT-TT----CTGCTCCACTAC
125 TCAG-TCTGCTCCACTACAACTTCAGAG-AGATAAGACT-TA-TATCTTGAACCTACTCCACTGC
* * * * * *
88170277 AACTTTAGGGAGATAAGACTGGTCGCTTAAATCTGCTCCATTGCCGCTACAGAGAGATAAGATTT
186 AACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTC
* * * * *
88170342 GCCTTCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAATTT
251 GCCATCCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTT
88170393 CACCAGTGTT
Statistics
Matches: 504, Mismatches: 90, Indels: 30
0.81 0.14 0.05
Matches are distributed among these distances:
305 113 0.22
308 6 0.01
309 36 0.07
310 322 0.64
311 27 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (310 bp):
TCCACTGTAACTTCAGAGAAATAAAGCTGGTAGCTTAAACCTACTCCACTGCAACTACAGGGAGA
TAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATTCACAATCTTCAGTC
TGCTCCACTACAACTTCAGAGAGATAAGACTTATATCTTGAACCTACTCCACTGCAACTTCAGGG
AGATAAGGCTGGTGGCTTAAATCTGCTCCATTACCGCTACATAGAGATAAGATTCGCCATCCTCG
ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGTCTGC
Found at i:88170393 original size:128 final size:128
Alignment explanation
Indices: 88170137--88170385 Score: 349
Period size: 128 Copynumber: 1.9 Consensus size: 128
88170127 TATCTTGAAC
* * * * *
88170137 CTGCTCTACTGCAACTTAAGGGAGATAAGGCTAGTGGCTTAAATTAGCTCCATTGCAGTTACATG
1 CTGCTCCACTACAACTTAAGGGAGATAAGACTAGTCGCTTAAATTAGCTCCATTGCAGCTACATG
* * *
88170202 GAGATAAGATTTGCCATCTTCGATCTGCTCTACTATTGCTTAGGCAGATAAGATCTACAATTT
66 GAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCTACAATTT
* * *
88170265 CTGCTCCACTACAACTTTAGGGAGATAAGACTGGTCGCTTAAATCT-GCTCCATTGCCGCTACA-
1 CTGCTCCACTACAACTTAAGGGAGATAAGACTAGTCGCTTAAAT-TAGCTCCATTGCAGCTACAT
* *
88170328 GAGAGATAAGATTTGCCTTCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCT
65 G-GAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCT
88170386 GTAATTTCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
127 1 0.01
128 104 0.98
129 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (128 bp):
CTGCTCCACTACAACTTAAGGGAGATAAGACTAGTCGCTTAAATTAGCTCCATTGCAGCTACATG
GAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCTACAATTT
Found at i:88172163 original size:16 final size:16
Alignment explanation
Indices: 88172133--88172162 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88172123 TTCCACATAT
88172133 TTTTTTGTTGTTTTTG
1 TTTTTTGTTGTTTTTG
88172149 TTTTTTGTT-TTTTT
1 TTTTTTGTTGTTTTT
88172163 TTCTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTTGTTGTTTTTG
Found at i:88177359 original size:125 final size:127
Alignment explanation
Indices: 88177189--88177450 Score: 303
Period size: 125 Copynumber: 2.1 Consensus size: 127
88177179 GAGTATGAGC
* * *
88177189 TTGCCTTCTATTTCATTTAAAACTTATGTATTTAAATTTTAAAAAGGACATTCGAATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGAATACTTAGAT
* ** * * * *
88177254 CAAACGGAAAATTGAAGCCCAGTACGTTAGGGCACGACTACTCGAATTTCTAAATACGGAATA
65 CAAACGAAAAACCGAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATA
* * * * * **
88177317 TTGCCTTTGTTTTATTTAAAACTCATTTATTTTAA-TTT-AAAAGGATAATCGGTTACTTAGATC
1 TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGAATACTTAGATC
* * * * *
88177380 AAACGAAAAACCGAAACCCAGTACGTTAGGACATGATTTCTCGAATTTCCAAGTACCGAATT
66 AAACGAAAAACCGAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATA
88177442 TTGCCTTTA
1 TTGCCTTTA
88177451 CTTAAAAAAT
Statistics
Matches: 111, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
125 78 0.70
126 3 0.03
127 23 0.21
128 7 0.06
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGACAATCGAATACTTAGATC
AAACGAAAAACCGAAACCCAGTACGTTAGGACACGACTACTCGAATTTCCAAATACCGAATA
Found at i:88177652 original size:24 final size:24
Alignment explanation
Indices: 88177619--88177665 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
88177609 GGAAAATAAA
88177619 ATAATAGTAATAATAATAAAAAAT
1 ATAATAGTAATAATAATAAAAAAT
* *
88177643 ATAATGGTAATAATATTAAAAAA
1 ATAATAGTAATAATAATAAAAAA
88177666 AGTAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (24 bp):
ATAATAGTAATAATAATAAAAAAT
Found at i:88177757 original size:3 final size:3
Alignment explanation
Indices: 88177749--88178037 Score: 62
Period size: 3 Copynumber: 95.3 Consensus size: 3
88177739 GAAAATGACG
* *
88177749 ATA ATA ATA ATGGA AGTA ATGA A-A ATA ATA ATA ATCG A-A ACA ATA
1 ATA ATA ATA AT--A A-TA AT-A ATA ATA ATA ATA AT-A ATA ATA ATA
* * *
88177794 GTA ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ATA ATG ATA CATTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA
* * ** * *
88177841 ATA ATA AT- ATA CGTG CCA ATA ATA ATA ATA ACA AT- ATA A-A AAA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * * *
88177884 AGG A-A ATA ATA CT- ATA TTA ATA AAA ATA ATA ATA GTA GGTTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA
* * * * * * * *
88177929 ATA ATT GTA ATA A-A A-A GATA AAA ATA ATA AAA ACA CTA TTA CGTA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * * *
88177974 CTA GTA ATA ATA ATA ATA AAA ACA GTA ATA GT- ATA TAGA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
88178019 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
88178038 CACTCTCCCT
Statistics
Matches: 206, Mismatches: 54, Indels: 52
0.66 0.17 0.17
Matches are distributed among these distances:
2 19 0.09
3 163 0.79
4 17 0.08
5 6 0.03
6 1 0.00
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:88177992 original size:34 final size:33
Alignment explanation
Indices: 88177946--88178025 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
88177936 TAATAAAAAG
* * *
88177946 ATAAAAATAATAAAAACACTATTACGTA-CTAGTA
1 ATAATAATAATAAAAACACTAATA-GTATATAG-A
*
88177980 ATAATAATAATAAAAACAGTAATAGTATATAGA
1 ATAATAATAATAAAAACACTAATAGTATATAGA
88178013 ATAATAATAATAA
1 ATAATAATAATAA
88178026 TAATAATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
33 17 0.41
34 24 0.59
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (33 bp):
ATAATAATAATAAAAACACTAATAGTATATAGA
Found at i:88187780 original size:48 final size:48
Alignment explanation
Indices: 88187720--88187811 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
88187710 AAAAAAGGTT
* *
88187720 TATATAGGATGATGATGTTTATGTATTGTTGTCCCTTAAAAGTTTATA
1 TATATAGGATGATGATGTTAATGTATTGTTATCCCTTAAAAGTTTATA
*
88187768 TATATAGGATGATGATGTTAATGTATTGTTATCCCTTCAAAGTT
1 TATATAGGATGATGATGTTAATGTATTGTTATCCCTTAAAAGTT
88187812 AAGTTATGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (48 bp):
TATATAGGATGATGATGTTAATGTATTGTTATCCCTTAAAAGTTTATA
Found at i:88190385 original size:66 final size:67
Alignment explanation
Indices: 88190254--88190386 Score: 207
Period size: 66 Copynumber: 2.0 Consensus size: 67
88190244 TAGCTAAGAA
* * *
88190254 TATATCAATTTTTTTCCTTCTTTGTCCTTATGCTTCTTCACTCAATGTTGAAGGTATCAAATTTT
1 TATATCAATTTTTTTCCTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACCAAATTTT
88190319 TT
66 TT
* *
88190321 TATATCAATTTTTTT-CTTCTTTGTCCTCGTGCTTCTTCACTCAATGTTAAAGGTACC-GATTTT
1 TATATCAATTTTTTTCCTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACCAAATTTT
88190384 TT
66 TT
88190386 T
1 T
88190387 GTTGCACTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 8 0.13
66 38 0.62
67 15 0.25
ACGTcount: A:0.20, C:0.19, G:0.10, T:0.52
Consensus pattern (67 bp):
TATATCAATTTTTTTCCTTCTTTGTCCTCATGCTTCTTCACTCAATGTTAAAGGTACCAAATTTT
TT
Found at i:88196124 original size:16 final size:17
Alignment explanation
Indices: 88196081--88196126 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
88196071 ACAAACTAAC
* *
88196081 AGCTCAACAGCTCAGAG
1 AGCTCAACAACTCAGAA
88196098 AGCTCAACAACTCAGAA
1 AGCTCAACAACTCAGAA
88196115 AGCT-AACAACTC
1 AGCTCAACAACTC
88196127 TAATTACCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.13
Consensus pattern (17 bp):
AGCTCAACAACTCAGAA
Found at i:88199390 original size:95 final size:95
Alignment explanation
Indices: 88199227--88199402 Score: 289
Period size: 95 Copynumber: 1.9 Consensus size: 95
88199217 GACTCCAACA
* * * *
88199227 ATAATATATCTAATTATTGAATATCTCATTTTCACTCGTATTTCAACTATTTTTTTAATATATAA
1 ATAATATATATAATTATTGAATATCCCATTTCCACTCGTATTTCAACTAATTTTTTAATATATAA
88199292 ATTTTATTGATCAAATGGTCACTTAATTAC
66 ATTTTATTGATCAAATGGTCACTTAATTAC
* * *
88199322 ATAATATATATAATTATTGATTATCCCATTTCCACTCTTATTTCAACTAATTTTTTAGTATATAA
1 ATAATATATATAATTATTGAATATCCCATTTCCACTCGTATTTCAACTAATTTTTTAATATATAA
88199387 ATTTTATTGATCAAAT
66 ATTTTATTGATCAAAT
88199403 AATCACTCAA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.48
Consensus pattern (95 bp):
ATAATATATATAATTATTGAATATCCCATTTCCACTCGTATTTCAACTAATTTTTTAATATATAA
ATTTTATTGATCAAATGGTCACTTAATTAC
Found at i:88201193 original size:18 final size:18
Alignment explanation
Indices: 88201172--88201228 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
88201162 TAACATAAAA
88201172 TAAAGTCTTAAATATTTT
1 TAAAGTCTTAAATATTTT
* * ***
88201190 TAAATTTTTAACATA-AAA
1 TAAAGTCTTAA-ATATTTT
88201208 TAAAGTCTTAAATATTTT
1 TAAAGTCTTAAATATTTT
88201226 TAA
1 TAA
88201229 TTTATCCAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 4
0.66 0.24 0.10
Matches are distributed among these distances:
17 3 0.11
18 21 0.78
19 3 0.11
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (18 bp):
TAAAGTCTTAAATATTTT
Found at i:88201202 original size:36 final size:36
Alignment explanation
Indices: 88201155--88201228 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
88201145 TGACTCTTCG
88201155 AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
1 AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
88201191 AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
1 AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
88201227 AA
1 AA
88201229 TTTATCCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (36 bp):
AAATTTTTAACATAAAATAAAGTCTTAAATATTTTT
Found at i:88201789 original size:30 final size:31
Alignment explanation
Indices: 88201750--88201820 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
88201740 ATTTTTATTT
* **
88201750 GAGTTAAATTTGGCC-TCAACCTTTTTAAAA
1 GAGTTAAATTTGACCATCAACCTTTCAAAAA
* *
88201780 GAGTCAAATTTGACCATCAATCTTTCAAAAA
1 GAGTTAAATTTGACCATCAACCTTTCAAAAA
88201811 GAGTTAAATT
1 GAGTTAAATT
88201821 GTTGTTGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (31 bp):
GAGTTAAATTTGACCATCAACCTTTCAAAAA
Found at i:88210294 original size:23 final size:24
Alignment explanation
Indices: 88210249--88210301 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
88210239 TTAAATAATC
* *
88210249 AAAACTTATAATAAAACTGTTAAA
1 AAAAATTATAATAAAAATGTTAAA
* *
88210273 AGAAATTAT-ATAAAAATTTTAAA
1 AAAAATTATAATAAAAATGTTAAA
88210296 AAAAAT
1 AAAAAT
88210302 CTTAATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAATTATAATAAAAATGTTAAA
Found at i:88215136 original size:22 final size:23
Alignment explanation
Indices: 88215110--88215154 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
88215100 ATTTCAAGTA
88215110 AATAGATCCACTTT-TTTTTAGT
1 AATAGATCCACTTTATTTTTAGT
* *
88215132 AATAGTTCCATTTTATTTTTAGT
1 AATAGATCCACTTTATTTTTAGT
88215155 TGTTGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (23 bp):
AATAGATCCACTTTATTTTTAGT
Found at i:88215365 original size:19 final size:18
Alignment explanation
Indices: 88215343--88215398 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
88215333 AGTTAGATTG
88215343 TTAGTTGTTAGTCTGTTAA
1 TTAGTTGTTAG-CTGTTAA
*
88215362 TTAGCTGTTTAGCTGTTGAA
1 TTAGTTG-TTAGCTGTT-AA
88215382 -TA-TTGTTAAGCTGTTAA
1 TTAGTTGTT-AGCTGTTAA
88215399 GAGCAGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 4 0.12
18 9 0.28
19 13 0.41
20 6 0.19
ACGTcount: A:0.23, C:0.07, G:0.21, T:0.48
Consensus pattern (18 bp):
TTAGTTGTTAGCTGTTAA
Found at i:88219324 original size:203 final size:203
Alignment explanation
Indices: 88218970--88219358 Score: 724
Period size: 203 Copynumber: 1.9 Consensus size: 203
88218960 TGTCGTTAAA
* *
88218970 CCGGTAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCTCTTACGTCAGGTAGA
1 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
*
88219035 TGTGAACAATGCCTTCTTGAATGGAGATATAGAAATTGAGGTGTTTATGCATCAACCTCTAGGAT
66 TGTGAACAATGCCTTCTTGAATGGAGATATAGAAATTGAGGTGTTTATGCATCAACCTCCAGGAT
88219100 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTTCAGTTTGTC
131 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTTCAGTTTGTC
88219165 AAACCAGG
196 AAACCAGG
88219173 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
1 CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
* *
88219238 TGTGAATAATGCCTTCTTGAATGGAGATATAGACATTGAGGTGTTTATGCATCAACCTCCAGGAT
66 TGTGAACAATGCCTTCTTGAATGGAGATATAGAAATTGAGGTGTTTATGCATCAACCTCCAGGAT
*
88219303 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAGCACTT
131 ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTT
88219359 TATGGCCTTC
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
203 180 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (203 bp):
CCGGCAACTATTCGTGTTATTCTATCTGTTGCGGTTTCAAGAGGATGGCCCTTACGTCAGGTAGA
TGTGAACAATGCCTTCTTGAATGGAGATATAGAAATTGAGGTGTTTATGCATCAACCTCCAGGAT
ATGTTCAAACTGACTTGGATGGCAAGCAGCTAGTGTGCCGCCTGAAGAAAACACTTCAGTTTGTC
AAACCAGG
Found at i:88222730 original size:14 final size:14
Alignment explanation
Indices: 88222711--88222739 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88222701 ATGACTTGGC
88222711 TGCCCTTCAGTTTA
1 TGCCCTTCAGTTTA
88222725 TGCCCTTCAGTTTA
1 TGCCCTTCAGTTTA
88222739 T
1 T
88222740 ACCCATCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (14 bp):
TGCCCTTCAGTTTA
Found at i:88232439 original size:14 final size:15
Alignment explanation
Indices: 88232420--88232448 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
88232410 CAATAAATAT
88232420 TAATATTT-TTTTAA
1 TAATATTTATTTTAA
88232434 TAATATTTATTTTAA
1 TAATATTTATTTTAA
88232449 AATTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATATTTATTTTAA
Found at i:88232722 original size:22 final size:20
Alignment explanation
Indices: 88232697--88232741 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
88232687 TTAAGTTTAT
88232697 ATATGATATTAATTATTATAAA
1 ATATGATATTAATTA-TA-AAA
* *
88232719 ATATTATATTATTTATAAAA
1 ATATGATATTAATTATAAAA
88232739 ATA
1 ATA
88232742 AAATTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATGATATTAATTATAAAA
Found at i:88232734 original size:19 final size:17
Alignment explanation
Indices: 88232702--88232738 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
88232692 TTTATATATG
88232702 ATATTAATTATTATAAA
1 ATATTAATTATTATAAA
88232719 ATATTATATTATTTATAAA
1 ATATTA-ATTA-TTATAAA
88232738 A
1 A
88232739 ATAAAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTAATTATTATAAA
Found at i:88244356 original size:27 final size:28
Alignment explanation
Indices: 88244288--88244356 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
88244278 TTCATAATAT
* *
88244288 TTTATGTAAATATTTTCTTTTAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
88244316 -TTATGTATATATTTTCTTTAAAATTTA
1 TTTATGTATATATTTTCTTTAAAATTTA
88244343 TTTATGTATA-ATTT
1 TTTATGTATATATTT
88244357 GGCTTTCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 29 0.76
28 9 0.24
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTATGTATATATTTTCTTTAAAATTTA
Found at i:88247144 original size:16 final size:16
Alignment explanation
Indices: 88247123--88247190 Score: 93
Period size: 16 Copynumber: 4.2 Consensus size: 16
88247113 TTTGGTTCGC
88247123 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
*
88247139 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
* *
88247155 TGTAATGGATTAGAGG
1 TGTATTGAATTAGAGG
88247171 TGTATTGGAA-TAGAGG
1 TGTATT-GAATTAGAGG
88247187 TGTA
1 TGTA
88247191 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
16 45 0.96
17 2 0.04
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:88247167 original size:32 final size:32
Alignment explanation
Indices: 88247131--88247192 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
88247121 GCTGTATTGA
*
88247131 ATTAGAGGTGTATTGGATTAGAGGTGTAATGG
1 ATTAGAGGTGTATTGGAATAGAGGTGTAATGG
88247163 ATTAGAGGTGTATTGGAATAGAGGTGTAAT
1 ATTAGAGGTGTATTGGAATAGAGGTGTAAT
88247193 AGCAAATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.34
Consensus pattern (32 bp):
ATTAGAGGTGTATTGGAATAGAGGTGTAATGG
Found at i:88247237 original size:45 final size:44
Alignment explanation
Indices: 88247178--88247268 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
88247168 AGGTGTATTG
* *
88247178 GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGTAATA
1 GAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAATGGAATA
* ***
88247223 GAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAATGGAATA
1 GAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATGGAATA
88247267 GA
1 GA
88247269 GGTGTAATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 24 0.60
45 16 0.40
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (44 bp):
GAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATGGAATA
Found at i:88247277 original size:39 final size:40
Alignment explanation
Indices: 88247176--88247280 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
88247166 AGAGGTGTAT
88247176 TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * ***
88247216 TGTAATAGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TG-----GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
88247260 TGGAATAGAGGTGTAATAGCA
1 TGGAATAGAGGTGTAATAGCA
88247281 TAATGGAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
39 16 0.31
40 2 0.04
44 18 0.35
45 16 0.31
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (40 bp):
TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:88247443 original size:16 final size:16
Alignment explanation
Indices: 88247406--88247447 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
88247396 TTAATCATAT
*
88247406 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
88247422 TT-AAATATATTATAA
1 TTAAAATATATTATAA
88247437 TTAAAATATAT
1 TTAAAATATAT
88247448 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:88247454 original size:14 final size:15
Alignment explanation
Indices: 88247415--88247456 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
88247405 TTTAAACATA
*
88247415 ATTATTATTAAATAT
1 ATTATAATTAAATAT
88247430 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
88247444 A-TATAATTTAATA
1 ATTATAATTAAATA
88247457 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:88247533 original size:21 final size:21
Alignment explanation
Indices: 88247490--88247533 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
88247480 TATATGAATT
*
88247490 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
88247511 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
88247532 TA
1 TA
88247534 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:88253330 original size:131 final size:130
Alignment explanation
Indices: 88253096--88253428 Score: 415
Period size: 131 Copynumber: 2.6 Consensus size: 130
88253086 TAATTATTCA
* *
88253096 TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATT-CAGGGAATCGTGCCCAAT
1 TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATTCCA-GAAATCGTGCCCTAT
* * * * * *
88253160 CGTGTTAGGTTGCAATATCCCGTTTGTTCAAAATAATCAAATATTCCTTTAAAATTTCACTCATG
65 CGTGCTGGGTTGCAATATCCCATTTATTCAAAATAATCAAATATCCCTTTAAAACTTCACTCATG
88253225 T
130 T
* * *
88253226 CTTTAAAAATTCTTTAAAACGAAAGAAATGTTTGATGTTTGACAATTCCAAAAATCGTGCCCTAT
1 -TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATTCCAGAAATCGTGCCCTAT
* *
88253291 CGTGCTGGGTTGCAATTTCCCATTTATTCAAAATAATCAAATATCCCTTTAGAACTTCACTCATG
65 CGTGCTGGGTTGCAATATCCCATTTATTCAAAATAATCAAATATCCCTTTAAAACTTCACTCATG
88253356 T
130 T
** * * * * * *
88253357 TTTCTAAATTC--TAAAAC-AAGGCAATGTTCAATGTTTAAAAATTCGAGAGATCGTGCCCTA-C
1 TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATTCCAGAAATCGTGCCCTATC
88253418 TGTGCTGGGTT
66 -GTGCTGGGTT
88253429 TCGATTTTTT
Statistics
Matches: 176, Mismatches: 24, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
126 1 0.01
127 44 0.25
128 6 0.03
130 9 0.05
131 114 0.65
132 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAAACGAAAGCAATGTTCGATGTTTGACAATTCCAGAAATCGTGCCCTATC
GTGCTGGGTTGCAATATCCCATTTATTCAAAATAATCAAATATCCCTTTAAAACTTCACTCATGT
Found at i:88256838 original size:29 final size:29
Alignment explanation
Indices: 88256797--88256852 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
88256787 TTTTCGTAGA
*
88256797 TTTAGAATTTAATCCCTCTA-TTTTTATT
1 TTTAGAAGTTAATCCCTCTACTTTTTATT
88256825 TTTAGGAAGTTAATCCCTCTACTTTTTA
1 TTTA-GAAGTTAATCCCTCTACTTTTTA
88256853 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 4 0.16
29 15 0.60
30 6 0.24
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (29 bp):
TTTAGAAGTTAATCCCTCTACTTTTTATT
Found at i:88262836 original size:4 final size:4
Alignment explanation
Indices: 88262827--88262852 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
88262817 TGAGTTTCAC
88262827 CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CA
88262853 ACCCTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:88265922 original size:24 final size:24
Alignment explanation
Indices: 88265890--88265935 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
88265880 TTGGTTTGGT
* *
88265890 TTTTAAAAATATTTTTCTATTTTA
1 TTTTAAAAATAATTTTATATTTTA
88265914 TTTTAAAAATAATTTTATATTT
1 TTTTAAAAATAATTTTATATTT
88265936 CAAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTAAAAATAATTTTATATTTTA
Found at i:88265930 original size:17 final size:17
Alignment explanation
Indices: 88265908--88265945 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
88265898 ATATTTTTCT
88265908 ATTTTAT-TTTAAAAATA
1 ATTTTATATTTAAAAA-A
*
88265925 ATTTTATATTTCAAAAA
1 ATTTTATATTTAAAAAA
88265942 ATTT
1 ATTT
88265946 AAAAAACACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTATATTTAAAAAA
Found at i:88274242 original size:20 final size:20
Alignment explanation
Indices: 88274217--88274259 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
88274207 AGTAGCTACT
88274217 AAAAATTAAAGAAAAA-CATA
1 AAAAATTAAA-AAAAATCATA
88274237 AAAAATTAAAAAAAATCATA
1 AAAAATTAAAAAAAATCATA
88274257 AAA
1 AAA
88274260 GTTTTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAAATTAAAAAAAATCATA
Found at i:88274436 original size:112 final size:113
Alignment explanation
Indices: 88274313--88274546 Score: 339
Period size: 113 Copynumber: 2.1 Consensus size: 113
88274303 AAAGCAAAAG
* *
88274313 AGTTTTATATTTTAAAATAAATAATAATAA-TTTTTG-AAAAAAAATCTTCAAAATCAAAACTAT
1 AGTTTTATATTTTAAAATAAA-AAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTAT
* * *
88274376 AAACTTTTTAATATTAGATCTGGAATATA-TAAAAATAGAAAATCCAATT
65 AAACTTCTAAATATTAGATCTGAAATATATTAAAAA-AGAAAATCCAATT
* *
88274425 AGTTTTGTATTTTAAAATAAAAAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTATG
1 AGTTTTATATTTTAAAATAAAAAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTATA
*
88274490 AACTTCTAAATATTAGATCTGAAATATATTAAAAAGGAAAATCCAATT
66 AACTTCTAAATATTAGATCTGAAATATATTAAAAAAGAAAATCCAATT
88274538 GCAGTTTTA
1 --AGTTTTA
88274547 GGAAAATTGG
Statistics
Matches: 108, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
111 7 0.06
112 26 0.24
113 63 0.58
114 6 0.06
115 6 0.06
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (113 bp):
AGTTTTATATTTTAAAATAAAAAAAATAATTTTTTGAAAAAAAAATATTCAAAATCAAAACTATA
AACTTCTAAATATTAGATCTGAAATATATTAAAAAAGAAAATCCAATT
Found at i:88277986 original size:183 final size:174
Alignment explanation
Indices: 88277686--88278037 Score: 456
Period size: 183 Copynumber: 2.0 Consensus size: 174
88277676 AGGGGCATCA
* * **
88277686 TCTTCCAATTCCGCAACATGTATCAAGCTATCTTCGGTGAAAATATGGAGCATGGACAAGGTATG
1 TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAGGTATG
* * *
88277751 TGAAAGTTTGGGAATCGTATTAGGAGTGATGTCATCATCACTTTCAGCATTGAGAGGGAACTGAA
66 TGAAAGTTTGGGAATCGTAGTAGGAGTGATATCAACATCACTTTCAGCATTGAGAGGGAACTGAA
* * * *
88277816 GTGCCTCCAAAAAATCAGAGGCATTAAGAAGTAATGCAGCCTTG
131 GAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAGCCTTG
* *
88277860 TCTTCCAATTCCTCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATTGACAAGTTATG
1 TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAG----G
*
88277925 ATGATCGTGTGAAAG-TTGGAGAATCGTAGTAGGGGT-ATTATCAACATCACTTTCAGCATTGAG
62 -T-A---TGTGAAAGTTTGG-GAATCGTAGTAGGAGTGA-TATCAACATCACTTTCAGCATTGAG
*
88277988 AGGGAACTGAAGAGCCTCCAGAAAATCAAAGGCATTAAAAAGTAAAGCAG
120 AGGGAACTGAAGAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAG
88278038 AGTCGTCTTC
Statistics
Matches: 152, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
174 54 0.36
178 1 0.01
179 1 0.01
180 1 0.01
182 5 0.03
183 90 0.59
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (174 bp):
TCTTCCAATTCCGCAACATATATCAAACTATCTTCACTGAAAATATGGAGCATGGACAAGGTATG
TGAAAGTTTGGGAATCGTAGTAGGAGTGATATCAACATCACTTTCAGCATTGAGAGGGAACTGAA
GAGCCTCCAAAAAATCAAAGGCATTAAAAAGTAAAGCAGCCTTG
Found at i:88279698 original size:9 final size:9
Alignment explanation
Indices: 88279684--88279751 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
88279674 ATAAGTATAA
*
88279684 AATTAATCG
1 AATTAACCG
**
88279693 AATTAATTG
1 AATTAACCG
**
88279702 AATTAACTT
1 AATTAACCG
88279711 AATT-ACTCG
1 AATTAAC-CG
* *
88279720 AATTACCCA
1 AATTAACCG
88279729 AATTAACCG
1 AATTAACCG
88279738 AATTAACCG
1 AATTAACCG
88279747 AATTA
1 AATTA
88279752 TTTGTATAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
8 2 0.04
9 45 0.94
10 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.32
Consensus pattern (9 bp):
AATTAACCG
Found at i:88279785 original size:5 final size:6
Alignment explanation
Indices: 88279770--88279810 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
88279760 AAATTATATT
*
88279770 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
88279811 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:88293094 original size:20 final size:18
Alignment explanation
Indices: 88293068--88293114 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
88293058 TTTTTAATGA
88293068 TTAAAAAATGT-TAAAATT
1 TTAAAAAAT-TCTAAAATT
88293086 ATATAAAAAATTCTAAAATT
1 -T-TAAAAAATTCTAAAATT
88293106 TTAAAAAAT
1 TTAAAAAAT
88293115 AATTAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TTAAAAAATTCTAAAATT
Found at i:88294078 original size:30 final size:31
Alignment explanation
Indices: 88294034--88294093 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
88294024 AAATTAACAA
*
88294034 TTCAGTAACATAAAT-AAAAATTTTGAATAG
1 TTCAATAACATAAATGAAAAATTTTGAATAG
* *
88294064 TTCAATAACTTAAATGAAAACTTTTGAATA
1 TTCAATAACATAAATGAAAAATTTTGAATA
88294094 ACTAAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (31 bp):
TTCAATAACATAAATGAAAAATTTTGAATAG
Found at i:88294880 original size:26 final size:24
Alignment explanation
Indices: 88294839--88294887 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
88294829 TCAAAGCCTC
88294839 ATTTAAATTTTGTATA-AATTTTT
1 ATTTAAATTTTGTATATAATTTTT
88294862 ATTTAATATATTTGTTATATAATTTT
1 ATTTAA-AT-TTTG-TATATAATTTT
88294888 GTTTTCACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.27
24 2 0.09
25 4 0.18
26 4 0.18
27 6 0.27
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTTAAATTTTGTATATAATTTTT
Found at i:88300134 original size:27 final size:30
Alignment explanation
Indices: 88300079--88300137 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
88300069 GAGTTTGAAT
88300079 ACTGTAGTAGTGAATAAAATTTATGATGAG
1 ACTGTAGTAGTGAATAAAATTTATGATGAG
88300109 ACTGTAGTAGTGAATAAAATTTATGATGA
1 ACTGTAGTAGTGAATAAAATTTATGATGA
88300138 CATTTATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (30 bp):
ACTGTAGTAGTGAATAAAATTTATGATGAG
Found at i:88302164 original size:23 final size:23
Alignment explanation
Indices: 88302098--88302164 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
88302088 TATAAGAAAA
*
88302098 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
88302118 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
88302141 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
88302164 A
1 A
88302165 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:88302164 original size:29 final size:28
Alignment explanation
Indices: 88302079--88302194 Score: 78
Period size: 29 Copynumber: 4.0 Consensus size: 28
88302069 TAACAAAAGT
* *
88302079 AAAAATATATATAAGAAAAATAATAAT-G
1 AAAAATATAAAT-AGATAAATAATAATAG
* * *
88302107 AAAATAATATTAGTATATAAATAGA-AATA-
1 -AAA-AATATAAATAGATAAATA-ATAATAG
88302136 AAAATATAATAAATAGA-AATATAATAATAG
1 AAAA-AT-ATAAATAGATAA-ATAATAATAG
*
88302166 TAGAAATATAAATAGATAAATAATAATAG
1 -AAAAATATAAATAGATAAATAATAATAG
88302195 TATTAGAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
27 1 0.01
28 8 0.12
29 45 0.66
30 11 0.16
31 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.28
Consensus pattern (28 bp):
AAAAATATAAATAGATAAATAATAATAG
Found at i:88302171 original size:17 final size:15
Alignment explanation
Indices: 88302131--88302176 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
88302121 ATATAAATAG
*
88302131 AAATAAAAATATAAT
1 AAATAGAAATATAAT
88302146 AAATAGAAATATAAT
1 AAATAGAAATATAAT
88302161 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
88302177 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:88302176 original size:14 final size:15
Alignment explanation
Indices: 88302156--88302196 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
88302146 AAATAGAAAT
88302156 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
88302171 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
88302185 ATAATAATAGTA
1 ATAATAATAGTA
88302197 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:88302191 original size:15 final size:14
Alignment explanation
Indices: 88302131--88302191 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
88302121 ATATAAATAG
*
88302131 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
88302146 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
88302161 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
88302175 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
88302190 AA
1 AA
88302192 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:88302232 original size:20 final size:20
Alignment explanation
Indices: 88302169--88302233 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
88302159 ATAATAGTAG
*
88302169 AAATATAAATAGATAAATAAT
1 AAATATAAATAGA-ACATAAT
*
88302190 AATAGTATTAGAAT--AACAAAAT
1 AA-A-TA-TA-AATAGAACATAAT
88302212 AAATATAAATAGAACATAAT
1 AAATATAAATAGAACATAAT
88302232 AA
1 AA
88302234 TAATAACAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 11 0.31
21 3 0.09
22 8 0.23
23 3 0.09
24 2 0.06
25 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (20 bp):
AAATATAAATAGAACATAAT
Found at i:88314333 original size:12 final size:12
Alignment explanation
Indices: 88314312--88314345 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
88314302 TATATATATT
*
88314312 AAAATTATATAA
1 AAAATAATATAA
88314324 AAAATAATATAA
1 AAAATAATATAA
*
88314336 AAATTAATAT
1 AAAATAATAT
88314346 GGGCGGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:88315013 original size:27 final size:26
Alignment explanation
Indices: 88314977--88315031 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
88314967 CATTTGCTTG
*
88314977 TTAAGTTACAT-TTATTTTAGTGTTAT
1 TTAAGTTACATATTATTTTAAT-TTAT
*
88315003 TTAAGTATACATATTTTTTTAATTTAT
1 TTAAGT-TACATATTATTTTAATTTAT
88315030 TT
1 TT
88315032 TTAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 11 0.44
28 8 0.32
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (26 bp):
TTAAGTTACATATTATTTTAATTTAT
Found at i:88319357 original size:17 final size:16
Alignment explanation
Indices: 88319328--88319362 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
88319318 AATTTTCATT
*
88319328 ATTTTTTAGTAATTTA
1 ATTTTTTAATAATTTA
88319344 ATTTTTATAATAATTTA
1 ATTTTT-TAATAATTTA
88319361 AT
1 AT
88319363 GCAGCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
ATTTTTTAATAATTTA
Found at i:88319357 original size:63 final size:64
Alignment explanation
Indices: 88319273--88319395 Score: 212
Period size: 63 Copynumber: 1.9 Consensus size: 64
88319263 AAATAAAATA
* *
88319273 TAATTTAATTTTTTATAATAATTTAATGTAGTTTTAAATTAATTAAATTTTCATTATTTTTTAG
1 TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAATTTTCATTATTTTTTAG
*
88319337 TAATTTAA-TTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAGTTTTCATTATTTT
1 TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAATTTTCATTATTTT
88319396 GTAATTAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 48 0.86
64 8 0.14
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (64 bp):
TAATTTAATTTTTTATAATAATTTAATGCAGCTTTAAATTAATTAAATTTTCATTATTTTTTAG
Found at i:88326612 original size:27 final size:26
Alignment explanation
Indices: 88326548--88326628 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 26
88326538 TTTAAAAAAT
88326548 ATTATTTTAAATAATTAAAAAAAGATTAAA
1 ATTATTTT-AA-AATT-AAAAAAG-TTAAA
88326578 ATTATTTTAAAATTAAAAAAGTTAAA
1 ATTATTTTAAAATTAAAAAAGTTAAA
* * *
88326604 TCTTTTTTTAAACTTAAAAAA-TTAA
1 -ATTATTTTAAAATTAAAAAAGTTAA
88326629 TTAAAAGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
26 9 0.19
27 24 0.51
28 4 0.09
29 2 0.04
30 8 0.17
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
ATTATTTTAAAATTAAAAAAGTTAAA
Found at i:88327216 original size:6 final size:6
Alignment explanation
Indices: 88327205--88327246 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
88327195 AATTGATTAT
* *
88327205 ATTAAA ATTAAA ATTAAA ATTAAA A-TATA ATTAAA AATAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
88327247 AATATACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:88327228 original size:18 final size:17
Alignment explanation
Indices: 88327205--88327246 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
88327195 AATTGATTAT
88327205 ATTAAAATTAAAATTAAA
1 ATTAAAA-TAAAATTAAA
*
88327223 ATTAAAATATAATTAAA
1 ATTAAAATAAAATTAAA
*
88327240 AATAAAA
1 ATTAAAA
88327247 AATATACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTAAAATAAAATTAAA
Found at i:88327238 original size:11 final size:11
Alignment explanation
Indices: 88327182--88327266 Score: 52
Period size: 11 Copynumber: 8.0 Consensus size: 11
88327172 CACAATTTGA
*
88327182 AAAATATAATA
1 AAAATATAATT
*
88327193 AAAAT-TGATT
1 AAAATATAATT
* * *
88327203 ATATTAAAATT
1 AAAATATAATT
*
88327214 AAAATTAAAATT
1 AAAA-TATAATT
88327226 AAAATATAATT
1 AAAATATAATT
88327237 AAAA-ATAA--
1 AAAATATAATT
*
88327245 AAAATATACTT
1 AAAATATAATT
**
88327256 ATTATATAATT
1 AAAATATAATT
88327267 CGGGCCGGGC
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 10 0.18
11 28 0.50
12 11 0.20
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (11 bp):
AAAATATAATT
Found at i:88347286 original size:30 final size:30
Alignment explanation
Indices: 88347241--88347302 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
88347231 TTTAATAAGA
* * *
88347241 AAATTCCTCTAAAATAATAACAAAATTAAC
1 AAATACCTCTAAAATAACAACAAAAGTAAC
* *
88347271 AAATACCTTTAAAATAACAATAAAAGTAAC
1 AAATACCTCTAAAATAACAACAAAAGTAAC
88347301 AA
1 AA
88347303 TAAAATAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.24
Consensus pattern (30 bp):
AAATACCTCTAAAATAACAACAAAAGTAAC
Found at i:88347302 original size:12 final size:11
Alignment explanation
Indices: 88347280--88347310 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
88347270 CAAATACCTT
88347280 TAAAATAACAA
1 TAAAATAACAA
88347291 TAAAAGTAACAA
1 TAAAA-TAACAA
88347303 TAAAATAA
1 TAAAATAA
88347311 GTTTTATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.19
Consensus pattern (11 bp):
TAAAATAACAA
Found at i:88349045 original size:19 final size:21
Alignment explanation
Indices: 88348989--88349050 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
88348979 ATTGAGTGGA
* *
88348989 TCAGCACTTACGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
*
88349010 TCAGCTCTTAGGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
88349031 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
88349050 T
1 T
88349051 GGTGTATTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.30
20 2 0.05
21 24 0.65
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:88353465 original size:22 final size:23
Alignment explanation
Indices: 88353440--88353485 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
88353430 CAACCAAACC
88353440 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
88353462 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
88353485 A
1 A
88353486 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Done.