Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 160 of 228
Found at i:48111400 original size:46 final size:46
Alignment explanation
Indices: 48111333--48111423 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
48111323 CAATCTCTTG
48111333 TCATTTATTGAGGACAATGTATTGATTAAGTGGGGGATATAACTAC
1 TCATTTATTGAGGACAATGTATTGATTAAGTGGGGGATATAACTAC
48111379 TCATTTATTGAGGACAATGTATTGATTAAGTGGGGGATATAACTA
1 TCATTTATTGAGGACAATGTATTGATTAAGTGGGGGATATAACTA
48111424 GCCTGGTCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (46 bp):
TCATTTATTGAGGACAATGTATTGATTAAGTGGGGGATATAACTAC
Found at i:48141502 original size:114 final size:113
Alignment explanation
Indices: 48141321--48141538 Score: 244
Period size: 114 Copynumber: 1.9 Consensus size: 113
48141311 ACTTCACAAA
** * *
48141321 TTTATCGATACATTTTTCGGTATCAATACGAAAATGGCATTCTACTTTTCAAAATGTTTACCAAG
1 TTTATCGATACATTTTTCAATATCAATACGAAAATGACATTCTAC-TTTCAAAAGGTTTACCAAG
* * * *
48141386 TATCAAT-CTGGTATTGATACCTCTTGTTAGGTATCGATAATGGTATACT
65 TATCAATAC-GGTATCGATAACTCATATTAGGTATCGATAATGGTATACT
* * * *
48141435 TTTATCGATATATTTTTCAATATCAATATGAAATTGACATTCTAAC-TTCCAAAGGATTT-CTCA
1 TTTATCGATACATTTTTCAATATCAATACGAAAATGACATTCT-ACTTTCAAAAGG-TTTAC-CA
**
48141498 AGTATTGATACGGTATCGATAACTCATATTAGGTATCGATA
63 AGTATCAATACGGTATCGATAACTCATATTAGGTATCGATA
48141539 GAATTTTCTA
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
113 8 0.09
114 75 0.87
115 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (113 bp):
TTTATCGATACATTTTTCAATATCAATACGAAAATGACATTCTACTTTCAAAAGGTTTACCAAGT
ATCAATACGGTATCGATAACTCATATTAGGTATCGATAATGGTATACT
Found at i:48143760 original size:18 final size:18
Alignment explanation
Indices: 48143737--48143798 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
48143727 GATGATGTCA
48143737 ATATTGATGCTAGTGACG
1 ATATTGATGCTAGTGACG
48143755 ATATTGATGCTAGTGACG
1 ATATTGATGCTAGTGACG
* * * *
48143773 CTATTGGTGATAGTGGCG
1 ATATTGATGCTAGTGACG
*
48143791 CTATTGAT
1 ATATTGAT
48143799 CGTGACCTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.35
Consensus pattern (18 bp):
ATATTGATGCTAGTGACG
Found at i:48144042 original size:18 final size:18
Alignment explanation
Indices: 48144002--48144044 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
48143992 GTTCAAGGTG
48144002 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
48144020 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
48144038 TAATTAA
1 TAATTAA
48144045 AAACTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:48145772 original size:21 final size:22
Alignment explanation
Indices: 48145745--48145808 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
48145735 CAGAAGCAGT
*
48145745 ATACGACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
** *
48145767 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
48145787 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
48145809 TCGGCAAAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:48146682 original size:12 final size:12
Alignment explanation
Indices: 48146665--48146698 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
48146655 TAAACCCTAA
48146665 TTTTTCCTTTTC
1 TTTTTCCTTTTC
48146677 TTTTT-CTTTTC
1 TTTTTCCTTTTC
48146688 TTCTTTCCTTT
1 TT-TTTCCTTT
48146699 CTCCCTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:48146977 original size:13 final size:13
Alignment explanation
Indices: 48146961--48147003 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
48146951 ATAGAAAGCC
48146961 ATAATAATAATTA
1 ATAATAATAATTA
*
48146974 ATAATTATAATT-
1 ATAATAATAATTA
48146986 ATAATAATAAATTA
1 ATAATAAT-AATTA
48147000 ATAA
1 ATAA
48147004 CAAAATCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 7 0.27
13 15 0.58
14 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:48147871 original size:40 final size:41
Alignment explanation
Indices: 48147816--48147911 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 41
48147806 ATCCACTAGC
* * *
48147816 ACCTCCCA-TAGTACCACCCACACCATGATTCCTAATGGTA
1 ACCTCCCACGAGTACCACCCACACCATGATTCCTAACGATA
***
48147856 ACCTCCCACGA-TACCACCCATGGCATGATTCCTAACGATA
1 ACCTCCCACGAGTACCACCCACACCATGATTCCTAACGATA
*
48147896 ACCTTCCACGAGTACC
1 ACCTCCCACGAGTACC
48147912 TTTCGCAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
40 42 0.89
41 5 0.11
ACGTcount: A:0.29, C:0.39, G:0.11, T:0.21
Consensus pattern (41 bp):
ACCTCCCACGAGTACCACCCACACCATGATTCCTAACGATA
Found at i:48147943 original size:39 final size:39
Alignment explanation
Indices: 48147894--48148061 Score: 110
Period size: 39 Copynumber: 4.3 Consensus size: 39
48147884 TTCCTAACGA
*
48147894 TAACCTTCCACGAGTACCTTTCGCAATACCCTCCCACGG
1 TAACCATCCACGAGTACCTTTCGCAATACCCTCCCACGG
* * * ***
48147933 TAACCATCCACAAATACCTCTT-GCGATACCCTCCCATAA
1 TAACCATCCACGAGTACCT-TTCGCAATACCCTCCCACGG
* * *** * * * *
48147972 TAACAATCCAGGAGTACCACCCGCGATACCTTCCAATGG
1 TAACCATCCACGAGTACCTTTCGCAATACCCTCCCACGG
* * *
48148011 TAACCATCCACGAGTA-C-TACCCACAGTACCCTCCCACTG
1 TAACCATCCACGAGTACCTTTCGCA-A-TACCCTCCCACGG
48148050 -AACCATCCACGA
1 TAACCATCCACGA
48148062 TATAACTCAT
Statistics
Matches: 97, Mismatches: 28, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
37 2 0.02
38 14 0.14
39 79 0.81
40 2 0.02
ACGTcount: A:0.30, C:0.39, G:0.11, T:0.20
Consensus pattern (39 bp):
TAACCATCCACGAGTACCTTTCGCAATACCCTCCCACGG
Found at i:48155286 original size:14 final size:14
Alignment explanation
Indices: 48155265--48155298 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
48155255 TGGTATGGGT
48155265 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
48155278 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
48155292 TTATAGG
1 TTATAGG
48155299 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:48157425 original size:16 final size:17
Alignment explanation
Indices: 48157404--48157437 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
48157394 ACATAATTAT
*
48157404 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
48157420 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
48157437 T
1 T
48157438 TAACTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:48158363 original size:42 final size:42
Alignment explanation
Indices: 48158307--48158404 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
48158297 CTATATGAAC
*
48158307 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
* *
48158349 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
48158391 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
48158405 AATACCGAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
Found at i:48164422 original size:23 final size:21
Alignment explanation
Indices: 48164372--48164422 Score: 50
Period size: 23 Copynumber: 2.3 Consensus size: 21
48164362 ATTTATAATG
48164372 ATAA-TAATTAAAAACAATTT
1 ATAATTAATTAAAAACAATTT
*
48164392 ATTAAATTAATTTAAAACTATATTT
1 A-T-AATTAATTAAAAAC-A-ATTT
48164417 ATAATT
1 ATAATT
48164423 TTAAAAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 2 0.08
23 14 0.56
24 2 0.08
25 5 0.20
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATTAATTAAAAACAATTT
Found at i:48183984 original size:12 final size:13
Alignment explanation
Indices: 48183969--48183997 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
48183959 TATATGAATC
48183969 AGCAACATTTA-A
1 AGCAACATTTAGA
48183981 AGCAACATTTAGA
1 AGCAACATTTAGA
48183994 AGCA
1 AGCA
48183998 GTCCAAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (13 bp):
AGCAACATTTAGA
Found at i:48184574 original size:96 final size:96
Alignment explanation
Indices: 48184410--48184601 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
48184400 ATGGGTTGAG
48184410 GAGATTGGAAATTCAGATGCATTTTAGGAAGTCTCCAAGCTCAGTCAATTCTTATTCACCATAAC
1 GAGATTGGAAATTCAGATGCATTTTAGGAAGTCTCCAAGCTCAGTCAATTCTTATTCACCATAAC
48184475 TCTATAGGTATTAGTTAGTCACCATCAAGAA
66 TCTATAGGTATTAGTTAGTCACCATCAAGAA
*
48184506 GAGATTGGAAATTCAGATGCATTTTAGGAAGTCTCCAAGCTCAGTCAATTCTTATTCATCATAAC
1 GAGATTGGAAATTCAGATGCATTTTAGGAAGTCTCCAAGCTCAGTCAATTCTTATTCACCATAAC
48184571 TCTATAGGTATTAGTTAGTCACCATCAAGAA
66 TCTATAGGTATTAGTTAGTCACCATCAAGAA
48184602 AATGAGTCAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (96 bp):
GAGATTGGAAATTCAGATGCATTTTAGGAAGTCTCCAAGCTCAGTCAATTCTTATTCACCATAAC
TCTATAGGTATTAGTTAGTCACCATCAAGAA
Found at i:48187723 original size:18 final size:20
Alignment explanation
Indices: 48187687--48187724 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48187677 CTATTTTACA
*
48187687 TTTAAATATTAATTAATAAT
1 TTTAAATATAAATTAATAAT
48187707 TTTAAAT-TAAATT-ATAAT
1 TTTAAATATAAATTAATAAT
48187725 ATATTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTAAATATAAATTAATAAT
Found at i:48188464 original size:14 final size:14
Alignment explanation
Indices: 48188445--48188483 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
48188435 CAAAAATTTA
48188445 TTTAAATTAAAATT
1 TTTAAATTAAAATT
* *
48188459 TTTAAAATAATATT
1 TTTAAATTAAAATT
*
48188473 TATAAATTAAA
1 TTTAAATTAAA
48188484 CTATGATTAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTAAATTAAAATT
Found at i:48191491 original size:27 final size:27
Alignment explanation
Indices: 48191451--48191546 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
48191441 TTTCACCCGA
** *
48191451 TGTCCCGATTGACTA-CCTCGTGTTTAT
1 TGTCCCGACGGACTACCCT-GTGTTCAT
* *
48191478 TGTCCCGACGGACTACCCTATGTTCAC
1 TGTCCCGACGGACTACCCTGTGTTCAT
** *
48191505 TGTCTTGTCGGACTACCCTGTGTTCAT
1 TGTCCCGACGGACTACCCTGTGTTCAT
*
48191532 TGTCCTGACGGACTA
1 TGTCCCGACGGACTA
48191547 TTCAATGTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 53 0.95
28 3 0.05
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.34
Consensus pattern (27 bp):
TGTCCCGACGGACTACCCTGTGTTCAT
Found at i:48191555 original size:27 final size:27
Alignment explanation
Indices: 48191471--48191546 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
48191461 GACTACCTCG
* *
48191471 TGTTTATTGTCCCGACGGACTACCCTA
1 TGTTCATTGTCCTGACGGACTACCCTA
* * * *
48191498 TGTTCACTGTCTTGTCGGACTACCCTG
1 TGTTCATTGTCCTGACGGACTACCCTA
48191525 TGTTCATTGTCCTGACGGACTA
1 TGTTCATTGTCCTGACGGACTA
48191547 TTCAATGTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.36
Consensus pattern (27 bp):
TGTTCATTGTCCTGACGGACTACCCTA
Found at i:48200619 original size:7 final size:7
Alignment explanation
Indices: 48200607--48200634 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
48200597 TGTACATCTT
48200607 TGATATC
1 TGATATC
48200614 TGATATC
1 TGATATC
48200621 TGATATC
1 TGATATC
48200628 TGATATC
1 TGATATC
48200635 CATTTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (7 bp):
TGATATC
Found at i:48201309 original size:21 final size:21
Alignment explanation
Indices: 48201272--48201311 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48201262 TGAGTGCTTT
*
48201272 TTATATTTATTTGTTTTTATG
1 TTATATTTATTTATTTTTATG
48201293 TTAT-TTTATTTTATTTTTA
1 TTATATTTA-TTTATTTTTA
48201312 AAAGGGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (21 bp):
TTATATTTATTTATTTTTATG
Found at i:48222042 original size:16 final size:16
Alignment explanation
Indices: 48222021--48222057 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
48222011 TTGGTTCGCT
48222021 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
48222037 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
48222053 GTAAT
1 GTAAT
48222058 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:48222126 original size:44 final size:46
Alignment explanation
Indices: 48222037--48222127 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
48222027 GAATAGAGGC
*
48222037 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
48222083 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
48222127 G
1 G
48222128 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:48222306 original size:15 final size:15
Alignment explanation
Indices: 48222286--48222324 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
48222276 CATAATTGTT
48222286 ATAAAATATAATTTA
1 ATAAAATATAATTTA
48222301 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
48222318 ATAAAAT
1 ATAAAAT
48222325 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:48222331 original size:17 final size:17
Alignment explanation
Indices: 48222291--48222324 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48222281 TTGTTATAAA
48222291 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48222308 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48222325 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48222396 original size:20 final size:21
Alignment explanation
Indices: 48222357--48222396 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
48222347 AATTTACTAA
*
48222357 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
48222378 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
48222397 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:48222440 original size:25 final size:25
Alignment explanation
Indices: 48222380--48222441 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
48222370 TATAATACTA
*
48222380 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAA-TATAATT
48222406 AAATATAATTTAATAATAA-ATAATT
1 AAATATAATTTAA-AATAATATAATT
*
48222431 AAATAAAATTT
1 AAATATAATTT
48222442 TTATTCTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 15 0.45
26 13 0.39
27 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATATAATTTAAAATAATATAATT
Found at i:48222519 original size:32 final size:32
Alignment explanation
Indices: 48222483--48222546 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
48222473 TATATAATAC
*
48222483 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
** ** *
48222515 TATAATTTATAATATACTTTATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
48222547 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATATAAATAATTATTATTAAA
Found at i:48222527 original size:105 final size:106
Alignment explanation
Indices: 48222335--48222528 Score: 322
Period size: 105 Copynumber: 1.8 Consensus size: 106
48222325 TGTTAATAAA
48222335 TATTCTTATATAAATTTACTAATAAAATCATAATATATAATACTAAAATATAATTTAAAATAATT
1 TATTCTTATATAAATTTAC--ATAAAATCATAATATATAATACTAAAATATAATTTAAAATAATT
48222400 ATTATTAAATATAATTTAATAATAAATAATTAAATAAAATTTT
64 ATTATTAAATATAATTTAATAATAAATAATTAAATAAAATTTT
*
48222443 TATTCTTATATGAATTTAC-TAAAATCATAATATATAATACTATAAAATATAATTT-AAATAATT
1 TATTCTTATATAAATTTACATAAAATCATAATATATAATAC--TAAAATATAATTTAAAATAATT
48222506 ATTATTAAATATAATTT-ATAATA
64 ATTATTAAATATAATTTAATAATA
48222529 TACTTTATTA
Statistics
Matches: 83, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
105 27 0.33
106 25 0.30
107 13 0.16
108 18 0.22
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (106 bp):
TATTCTTATATAAATTTACATAAAATCATAATATATAATACTAAAATATAATTTAAAATAATTAT
TATTAAATATAATTTAATAATAAATAATTAAATAAAATTTT
Found at i:48223934 original size:49 final size:49
Alignment explanation
Indices: 48223862--48223965 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
48223852 AGAAAAAAAC
* * ** * *
48223862 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
48223911 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
48223960 AAATTA
1 AAATTA
48223966 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:48225615 original size:12 final size:12
Alignment explanation
Indices: 48225591--48225624 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48225581 CCGCATTTTA
48225591 AGCAAAAGAACG
1 AGCAAAAGAACG
* *
48225603 AGCCAAAGCACG
1 AGCAAAAGAACG
48225615 AGCAAAAGAA
1 AGCAAAAGAA
48225625 AATAAATAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.56, C:0.21, G:0.24, T:0.00
Consensus pattern (12 bp):
AGCAAAAGAACG
Found at i:48226735 original size:23 final size:22
Alignment explanation
Indices: 48226691--48226735 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
48226681 ATAAAAAATC
*
48226691 TATTTAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAGGTAAAATTT
48226713 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAA-AAAGGTAAA-ATTT
48226736 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTTAAAAAAAGGTAAAATTT
Found at i:48227569 original size:13 final size:13
Alignment explanation
Indices: 48227551--48227575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48227541 AACATTCGGC
48227551 CGGTGGGAATAAT
1 CGGTGGGAATAAT
48227564 CGGTGGGAATAA
1 CGGTGGGAATAA
48227576 ACAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:48228780 original size:21 final size:20
Alignment explanation
Indices: 48228756--48228804 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
48228746 TTTTCTACTG
48228756 TATTAAATTGACATTTAAAAA
1 TATTAAATTGA-ATTTAAAAA
* *
48228777 TATTTATAATTTAATTTAAAAT
1 TA-TTA-AATTGAATTTAAAAA
48228799 TATTAA
1 TATTAA
48228805 TTATAATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 5 0.21
22 13 0.54
23 5 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
TATTAAATTGAATTTAAAAA
Found at i:48228794 original size:22 final size:22
Alignment explanation
Indices: 48228768--48228826 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 22
48228758 TTAAATTGAC
*
48228768 ATTTAAAAATATTTATAATT-T
1 ATTTAAAAATAATTATAATTCT
48228789 AATTTAAAATTATTAATTATAATTCT
1 -ATTTAAAA--A-TAATTATAATTCT
48228815 ATTTAAAAATAA
1 ATTTAAAAATAA
48228827 ATTGTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
22 11 0.34
23 1 0.03
24 1 0.03
25 18 0.56
26 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTAAAAATAATTATAATTCT
Found at i:48229359 original size:22 final size:21
Alignment explanation
Indices: 48229331--48229372 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
48229321 CACCACTATC
48229331 ATCATCATTTTCTTTTATCATT
1 ATCATCATTTTC-TTTATCATT
48229353 ATCATCATTTTCTTTATCAT
1 ATCATCATTTTCTTTATCAT
48229373 GCATATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.24, C:0.19, G:0.00, T:0.57
Consensus pattern (21 bp):
ATCATCATTTTCTTTATCATT
Found at i:48229966 original size:13 final size:13
Alignment explanation
Indices: 48229950--48229986 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
48229940 AGTGATTTTA
48229950 AAAAGTGTGATGG
1 AAAAGTGTGATGG
48229963 AAAAGTGTTG-TGG
1 AAAAGTG-TGATGG
48229976 AAAAGTGTGAT
1 AAAAGTGTGAT
48229987 TTATTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (13 bp):
AAAAGTGTGATGG
Found at i:48231785 original size:17 final size:17
Alignment explanation
Indices: 48231759--48231801 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
48231749 TAAGCCATCC
*
48231759 ATACAAAGCTAACAATG
1 ATACATAGCTAACAATG
48231776 ATACATAGCTAACAATG
1 ATACATAGCTAACAATG
48231793 ATACATAGC
1 ATACATAGC
48231802 AAATCATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (17 bp):
ATACATAGCTAACAATG
Found at i:48237311 original size:19 final size:19
Alignment explanation
Indices: 48237268--48237304 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
48237258 ATCATAGATT
48237268 TATTATTCTATTTTAATTA
1 TATTATTCTATTTTAATTA
48237287 TATTATT-TATTATTAATT
1 TATTATTCTATT-TTAATT
48237305 GTTTTATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATTCTATTTTAATTA
Found at i:48237682 original size:18 final size:17
Alignment explanation
Indices: 48237659--48237709 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
48237649 AAAAGTGAAG
48237659 GAAAAAATATATAAAAAT
1 GAAAAAATATA-AAAAAT
*
48237677 GAAAAAATGAAAAAAAAT
1 GAAAAAAT-ATAAAAAAT
*
48237695 -AAAAAAGATAAAAAA
1 GAAAAAATATAAAAAA
48237710 ACTTTGTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 7 0.24
17 6 0.21
18 14 0.48
19 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (17 bp):
GAAAAAATATAAAAAAT
Found at i:48237691 original size:10 final size:9
Alignment explanation
Indices: 48237660--48237710 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
48237650 AAAGTGAAGG
48237660 AAAAAATATA
1 AAAAAATA-A
* *
48237670 TAAAAAT-G
1 AAAAAATAA
48237678 AAAAAATGAA
1 AAAAAAT-AA
48237688 AAAAAATAA
1 AAAAAATAA
*
48237697 AAAAGATAA
1 AAAAAATAA
48237706 AAAAA
1 AAAAA
48237711 CTTTGTGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
8 6 0.18
9 14 0.42
10 13 0.39
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (9 bp):
AAAAAATAA
Found at i:48239094 original size:13 final size:14
Alignment explanation
Indices: 48239076--48239104 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48239066 ATATTTTTTA
48239076 TTTTTTTGTA-TTT
1 TTTTTTTGTACTTT
48239089 TTTTTTTGTACTTT
1 TTTTTTTGTACTTT
48239103 TT
1 TT
48239105 CGATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTTTTTGTACTTT
Found at i:48257093 original size:42 final size:40
Alignment explanation
Indices: 48257021--48257177 Score: 163
Period size: 42 Copynumber: 3.7 Consensus size: 40
48257011 CGGACGAACT
* *
48257021 GAAGCAATTATACTGGCGCGCAT-AGTGCATCATCAGATAAATC
1 GAAGCAA-TATACT-G-GCACATAAGTGCATCATC-GATATATC
* * *
48257064 GAAACAATCATGCTGGCACATAAGTGCATCATCGAATGTATC
1 GAAGCAAT-ATACTGGCACATAAGTGCATCATCG-ATATATC
*
48257106 GAAGCAAATATACTGGCACGTAAGTGCATCATCGGATATATC
1 GAAGC-AATATACTGGCACATAAGTGCATCATC-GATATATC
*
48257148 GAAGCAATTATACTAGCACATAAGTGCATC
1 GAAGCAA-TATACTGGCACATAAGTGCATC
48257178 GTTGGCTAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
41 8 0.08
42 75 0.77
43 14 0.14
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (40 bp):
GAAGCAATATACTGGCACATAAGTGCATCATCGATATATC
Found at i:48257149 original size:84 final size:85
Alignment explanation
Indices: 48257021--48257177 Score: 226
Period size: 84 Copynumber: 1.9 Consensus size: 85
48257011 CGGACGAACT
* * * *
48257021 GAAGCAATTATACTGGCGCGCATAGTGCATCATCAGATAAATCGAAACAATCATGCTGGCACATA
1 GAAGCAAATATACTGGCACGCATAGTGCATCATCAGATAAATCGAAACAATCATACTAGCACATA
48257086 AGTGCATCATCGAATGTATC
66 AGTGCATCATCGAATGTATC
* * * * *
48257106 GAAGCAAATATACTGGCACGTA-AGTGCATCATCGGATATATCGAAGCAATTATACTAGCACATA
1 GAAGCAAATATACTGGCACGCATAGTGCATCATCAGATAAATCGAAACAATCATACTAGCACATA
48257170 AGTGCATC
66 AGTGCATC
48257178 GTTGGCTAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
84 44 0.70
85 19 0.30
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (85 bp):
GAAGCAAATATACTGGCACGCATAGTGCATCATCAGATAAATCGAAACAATCATACTAGCACATA
AGTGCATCATCGAATGTATC
Found at i:48261209 original size:22 final size:22
Alignment explanation
Indices: 48261184--48261248 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
48261174 ATTACTGTAC
*
48261184 TTATGGCTTGTAGCTATTCTGT
1 TTATGGCTTATAGCTATTCTGT
* *
48261206 TTATAGCTTATAGATATTCTGT
1 TTATGGCTTATAGCTATTCTGT
* * * *
48261228 TTACGACTTTTAGCCATTCTG
1 TTATGGCTTATAGCTATTCTG
48261249 ACTATTGGCA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (22 bp):
TTATGGCTTATAGCTATTCTGT
Found at i:48263780 original size:27 final size:27
Alignment explanation
Indices: 48263720--48263810 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 27
48263710 CCCAATATTT
*
48263720 GTAAAAT-ATCCGTAATACCCCTGTAGG
1 GTAAAATGA-CCGTAATACCCCTCTAGG
48263747 GTAAAATGACCGTAATACCCCTACTA-G
1 GTAAAATGACCGTAATACCCCT-CTAGG
* *
48263774 GTGAAATGACCG-ATATA-CCCTCAAAGG
1 GTAAAATGACCGTA-ATACCCCTC-TAGG
48263801 GTAAAATGAC
1 GTAAAATGAC
48263811 TATTCTGCCC
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.02
26 6 0.11
27 45 0.82
28 3 0.05
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTCTAGG
Found at i:48264023 original size:26 final size:26
Alignment explanation
Indices: 48263976--48264045 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
48263966 ATGGAAGAAG
*
48263976 TACTG-TACTGGTGGCTCTGCCACA-A
1 TACTGTTACTGGTAGCT-TGCCACATA
48264001 TCACTGTTACTGGT-GCTTGGCCACATA
1 T-ACTGTTACTGGTAGCTT-GCCACATA
*
48264028 TACTTTTACTGGTAGCTT
1 TACTGTTACTGGTAGCTT
48264046 TGCTGCGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
25 2 0.05
26 24 0.62
27 13 0.33
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGTAGCTTGCCACATA
Found at i:48264092 original size:26 final size:26
Alignment explanation
Indices: 48264041--48264092 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
48264031 TTTTACTGGT
* *
48264041 AGCTTTGCTGCGATACTGCTGCTGGC
1 AGCTTTGCTGCGATACTACTGATGGC
* *
48264067 AGCTTTGCTGCTATGCTACTGATGGC
1 AGCTTTGCTGCGATACTACTGATGGC
48264093 TTTGTGCCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.13, C:0.25, G:0.29, T:0.33
Consensus pattern (26 bp):
AGCTTTGCTGCGATACTACTGATGGC
Found at i:48264124 original size:32 final size:32
Alignment explanation
Indices: 48264083--48264285 Score: 239
Period size: 32 Copynumber: 6.4 Consensus size: 32
48264073 GCTGCTATGC
* *
48264083 TACTGATGGCTTTGTGCCGATCATGTTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
48264115 TACTGATGGCTATGTGCCGTTCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
48264147 TACTGATGGCTTTGTGTCAAACATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
48264179 TACTGATGGCTTTGTGCTGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
48264211 TACTAATGG-TTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATATTACCGT
* *
48264243 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
48264274 TACTTATGGCTT
1 TACTGATGGCTT
48264286 GTAGCCATTC
Statistics
Matches: 147, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
31 13 0.09
32 132 0.90
33 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:48264302 original size:22 final size:22
Alignment explanation
Indices: 48264277--48264341 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
48264267 ATTACTGTAC
*
48264277 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTTATAGCCATTCTGT
* * *
48264299 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTTATAGCCATTCTGT
* * *
48264321 TTACGGGTTTTAGCCATTCTG
1 TTATGGCTTATAGCCATTCTG
48264342 ACTACTGGCA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (22 bp):
TTATGGCTTATAGCCATTCTGT
Found at i:48264499 original size:28 final size:28
Alignment explanation
Indices: 48264455--48264508 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
48264445 CATATTGATA
*
48264455 CTGTATCGGGCTTAGGCCCACACTGTTT
1 CTGTATCGGGCTAAGGCCCACACTGTTT
*
48264483 CTGTATTGGGCTAAGGCCCACACTGT
1 CTGTATCGGGCTAAGGCCCACACTGT
48264509 ACTGTTACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.30
Consensus pattern (28 bp):
CTGTATCGGGCTAAGGCCCACACTGTTT
Found at i:48266814 original size:23 final size:21
Alignment explanation
Indices: 48266747--48266832 Score: 95
Period size: 21 Copynumber: 4.0 Consensus size: 21
48266737 CCTGATCAGT
*
48266747 ATACGACACATAAGTGCCTGA
1 ATACGACACAGAAGTGCCTGA
*
48266768 A-ACGACACACGAGGTGCCTG-
1 ATACGACACA-GAAGTGCCTGA
*
48266788 ATACGACACACGAAGTGCTTGAA
1 ATACGACACA-GAAGTGCCTG-A
48266811 ATACGACACAGAAAGTGCCTGA
1 ATACGACACAG-AAGTGCCTGA
48266833 TCGGCAGAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.16
21 26 0.47
22 2 0.04
23 18 0.33
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.15
Consensus pattern (21 bp):
ATACGACACAGAAGTGCCTGA
Found at i:48266829 original size:44 final size:41
Alignment explanation
Indices: 48266747--48266833 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 41
48266737 CCTGATCAGT
* *
48266747 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACAGAAGTGCCTGAAACGACACACGAAGTGCCTG
*
48266788 ATACGACACACGAAGTGCTTGAAATACGACACA-GAAAGTGCCTG
1 ATACGACACA-GAAGTGCCTG-AA-ACGACACACG-AAGTGCCTG
48266832 AT
1 AT
48266834 CGGCAGAGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
41 10 0.26
42 8 0.21
43 3 0.08
44 18 0.46
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (41 bp):
ATACGACACAGAAGTGCCTGAAACGACACACGAAGTGCCTG
Found at i:48267380 original size:22 final size:22
Alignment explanation
Indices: 48267302--48267385 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
48267292 AATCAAGTTT
*
48267302 AATATTAT-TATATTGATAATAA
1 AATATTATATATATTAAT-ATAA
* * *
48267324 AAT-TTATTTTTATTTATA-AA
1 AATATTATATATATTAATATAA
*
48267344 AATATT-TAAAATATTAATATAA
1 AATATTAT-ATATATTAATATAA
*
48267366 AATATTATATTTATTAATAT
1 AATATTATATATATTAATAT
48267386 TATTAAACAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
20 6 0.12
21 14 0.29
22 28 0.57
23 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (22 bp):
AATATTATATATATTAATATAA
Found at i:48267484 original size:19 final size:19
Alignment explanation
Indices: 48267413--48267485 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
48267403 TAATTATTTA
*
48267413 TATTTAATCATATAATAAAT
1 TATTTAAT-ATTTAATAAAT
48267433 TA-TTAATATAATTAATATAAT
1 TATTTAATAT--TTAATA-AAT
*
48267454 T-TATT-ATTTTTAATAAAT
1 TAT-TTAATATTTAATAAAT
48267472 TATTTAATATTTAA
1 TATTTAATATTTAA
48267486 ATTTTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
18 8 0.19
19 19 0.44
20 7 0.16
21 7 0.16
22 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTTAATATTTAATAAAT
Found at i:48267523 original size:15 final size:16
Alignment explanation
Indices: 48267503--48267536 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
48267493 TTTAATAGTA
48267503 AATTTTAAA-AATAAT
1 AATTTTAAATAATAAT
*
48267518 AATTTTAAATAATATT
1 AATTTTAAATAATAAT
48267534 AAT
1 AAT
48267537 CACATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTTAAATAATAAT
Found at i:48267581 original size:15 final size:15
Alignment explanation
Indices: 48267563--48267619 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
48267553 TATCAATATT
48267563 AATATTTTAATAATA
1 AATATTTTAATAATA
*
48267578 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
48267597 AATATATTAATAATA
1 AATATTTTAATAATA
*
48267612 AATGTTTT
1 AATATTTT
48267620 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:48269293 original size:23 final size:23
Alignment explanation
Indices: 48269263--48269309 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
48269253 AATAAGTATG
48269263 TACATATATTAATTACAAATGTA
1 TACATATATTAATTACAAATGTA
* *
48269286 TACATATATTTATTACACATGTA
1 TACATATATTAATTACAAATGTA
48269309 T
1 T
48269310 TTATAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (23 bp):
TACATATATTAATTACAAATGTA
Found at i:48270060 original size:108 final size:108
Alignment explanation
Indices: 48269871--48270085 Score: 367
Period size: 108 Copynumber: 2.0 Consensus size: 108
48269861 TCACATTTGC
*
48269871 AATTCACTATAATTTTGTAATTATGATGAGTATTATTTTTATGCGCGCTCAACGTTTATTTCATT
1 AATTCACTATAATTTTGTAATTATGATGAGTATTATTTGTATGCGCGCTCAACGTTTATTTCATT
**
48269936 AAAATTTACATTTTACCTTATTGGGTCAAGTGGGAGAATGTGT
66 AAAATTTACATTTTACCACATTGGGTCAAGTGGGAGAATGTGT
* * *
48269979 AATTCACTATAATTTTGTAATTGTGATGAGTGTTATTTGTATGCGCGCTCAATGTTTATTTCATT
1 AATTCACTATAATTTTGTAATTATGATGAGTATTATTTGTATGCGCGCTCAACGTTTATTTCATT
*
48270044 AAATTTTACATTTTACCACATTGGGTCAAGTGGGAGAATGTG
66 AAAATTTACATTTTACCACATTGGGTCAAGTGGGAGAATGTG
48270086 AGATTTTAGC
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (108 bp):
AATTCACTATAATTTTGTAATTATGATGAGTATTATTTGTATGCGCGCTCAACGTTTATTTCATT
AAAATTTACATTTTACCACATTGGGTCAAGTGGGAGAATGTGT
Found at i:48274053 original size:40 final size:40
Alignment explanation
Indices: 48274008--48274085 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
48273998 CCACAAAAAA
* *
48274008 TAGAGCATTAGCGGCGATTTA-GCCAAAGCGCCGCTAAAGG
1 TAGAGCATCAGCGGCG-TTTATACCAAAGCGCCGCTAAAGG
**
48274048 TAGAGCATCAGCGGCGTTTATACGGAAGCGCCGCTAAA
1 TAGAGCATCAGCGGCGTTTATACCAAAGCGCCGCTAAA
48274086 AATAGGAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.18
Consensus pattern (40 bp):
TAGAGCATCAGCGGCGTTTATACCAAAGCGCCGCTAAAGG
Found at i:48274313 original size:42 final size:42
Alignment explanation
Indices: 48274167--48274452 Score: 380
Period size: 42 Copynumber: 6.9 Consensus size: 42
48274157 TTTTTAAACA
*
48274167 TTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * *
48274208 TATAGAGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * *
48274249 TATAGCGGCGTTTTCGTTTAAGCGCCGCTAATGCTCCGAGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * *
48274291 TTTAGCGGCATTTTCGTCTAAGCGCCGATAATGCTCCGAGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
*
48274333 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCTGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
* * *
48274375 TATAGCGGCGTTTTCGCCTATGCGCCGCTAATGCT-CGGGTC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
** * * *
48274416 TTTAGCGGCGTTTTTATATATGCGCCGCTAATTCTCC
1 TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCC
48274453 TATATTCAGC
Statistics
Matches: 219, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
41 105 0.48
42 114 0.52
ACGTcount: A:0.15, C:0.26, G:0.27, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTTCGTCTAAGCGCCGCTAATGCTCCGGGTC
Found at i:48276633 original size:25 final size:22
Alignment explanation
Indices: 48276579--48276635 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
48276569 CACGATTTCA
*
48276579 TTTCCCCAATTTCCCAACTTCT
1 TTTCCCCAATTTCCCAACTTAT
*
48276601 TTTCCCCCAATTTCCCCCAAGTTAT
1 TTT-CCCCAATTT--CCCAACTTAT
48276626 TCTTCCCCAA
1 T-TTCCCCAA
48276636 AGTATTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 3 0.10
23 9 0.31
25 15 0.52
26 2 0.07
ACGTcount: A:0.19, C:0.42, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTCCCCAATTTCCCAACTTAT
Found at i:48276647 original size:14 final size:15
Alignment explanation
Indices: 48276611--48276649 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
48276601 TTTCCCCCAA
*
48276611 TTTCCCCCAAGTTAT
1 TTTCCCCAAAGTTAT
48276626 TCTTCCCCAAAG-TAT
1 T-TTCCCCAAAGTTAT
48276641 TTTCCCCAA
1 TTTCCCCAA
48276650 TTTCCCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (15 bp):
TTTCCCCAAAGTTAT
Found at i:48276908 original size:33 final size:33
Alignment explanation
Indices: 48276865--48276938 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
48276855 ATTTGCCATC
*
48276865 TATGATATTCGAGTTAAATGAGATGAGTGTTGGG
1 TATGA-ATTCGAGTTAAATGAGATGAGTGTTAGG
*
48276899 TATGAATTCGAGTTAAATGAGATTAGTGTTAGG
1 TATGAATTCGAGTTAAATGAGATGAGTGTTAGG
48276932 TATGAAT
1 TATGAAT
48276939 ATATGTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 33 0.87
34 5 0.13
ACGTcount: A:0.32, C:0.03, G:0.28, T:0.36
Consensus pattern (33 bp):
TATGAATTCGAGTTAAATGAGATGAGTGTTAGG
Found at i:48277201 original size:17 final size:17
Alignment explanation
Indices: 48277179--48277216 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
48277169 ATCCCAGGAA
48277179 CTTGCAGCCTCTACTTC
1 CTTGCAGCCTCTACTTC
*
48277196 CTTGCAGCCTTTACTTC
1 CTTGCAGCCTCTACTTC
48277213 CTTG
1 CTTG
48277217 TGAACTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.37, G:0.13, T:0.39
Consensus pattern (17 bp):
CTTGCAGCCTCTACTTC
Found at i:48278267 original size:36 final size:36
Alignment explanation
Indices: 48278227--48278295 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
48278217 CAATTTATGC
48278227 TTTTATGTCTATTTGATTATCCATGAAAATTAATTA
1 TTTTATGTCTATTTGATTATCCATGAAAATTAATTA
*
48278263 TTTTATGTCTATTTGATTATCCATGAACATTAA
1 TTTTATGTCTATTTGATTATCCATGAAAATTAA
48278296 AAATAATGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (36 bp):
TTTTATGTCTATTTGATTATCCATGAAAATTAATTA
Found at i:48278720 original size:24 final size:24
Alignment explanation
Indices: 48278693--48278745 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
48278683 TATTTGTATA
48278693 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
*
48278717 ATATTTGTATCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
48278741 ATATT
1 ATATT
48278746 ATAAAATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:48278896 original size:22 final size:22
Alignment explanation
Indices: 48278851--48278896 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
48278841 AACTTAATTA
*
48278851 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTGAC
48278873 ATTAATATTATACATAGA-TGAC
1 ATTAATATTATACATA-ACTGAC
48278895 AT
1 AT
48278897 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAACTGAC
Found at i:48278899 original size:56 final size:56
Alignment explanation
Indices: 48278836--48279210 Score: 732
Period size: 56 Copynumber: 6.7 Consensus size: 56
48278826 TATTGTAAGG
48278836 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
48278892 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
48278948 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
*
48279004 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
48279060 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
*
48279116 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
48279172 GACATAACTTAATTAATTAATATTATACATAACTTACAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACAT
48279211 AAATTAATTA
Statistics
Matches: 316, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 316 1.00
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (56 bp):
GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
Found at i:48278952 original size:22 final size:22
Alignment explanation
Indices: 48278907--48278952 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
48278897 AACTTAATTA
*
48278907 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTGAC
48278929 ATTAATATTATACATAGA-TGAC
1 ATTAATATTATACATA-ACTGAC
48278951 AT
1 AT
48278953 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAACTGAC
Found at i:48279008 original size:22 final size:22
Alignment explanation
Indices: 48278963--48279008 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
48278953 AACTTAATTA
*
48278963 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTGAC
48278985 ATTAATATTATACATAGA-TGAC
1 ATTAATATTATACATA-ACTGAC
48279007 AT
1 AT
48279009 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAACTGAC
Found at i:48279064 original size:22 final size:22
Alignment explanation
Indices: 48279019--48279064 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
48279009 AACTTAATTA
* *
48279019 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATGAC
48279041 ATTAATATTATACATAAATGAC
1 ATTAATATTATACATAAATGAC
48279063 AT
1 AT
48279065 AACTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAAATGAC
Found at i:48279120 original size:22 final size:22
Alignment explanation
Indices: 48279075--48279120 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
48279065 AACTTAATTA
*
48279075 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTGAC
48279097 ATTAATATTATACATAGA-TGAC
1 ATTAATATTATACATA-ACTGAC
48279119 AT
1 AT
48279121 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAACTGAC
Found at i:48279176 original size:22 final size:22
Alignment explanation
Indices: 48279131--48279176 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
48279121 AACTTAATTA
* *
48279131 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATGAC
48279153 ATTAATATTATACATAAATGAC
1 ATTAATATTATACATAAATGAC
48279175 AT
1 AT
48279177 AACTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAAATGAC
Found at i:48279196 original size:34 final size:34
Alignment explanation
Indices: 48279153--48279299 Score: 180
Period size: 34 Copynumber: 4.5 Consensus size: 34
48279143 CATAACTTAC
48279153 ATTAATATTATACATAAATGACATAACTTAATTA
1 ATTAATATTATACATAAATGACATAACTTAATTA
* * *
48279187 ATTAATATTATACATAACTTACATAAATTAATTA
1 ATTAATATTATACATAAATGACATAACTTAATTA
* * *
48279221 GTT-A-A-TATACATAAATTACATAACTT-A--C
1 ATTAATATTATACATAAATGACATAACTTAATTA
* *
48279249 ATTAATATGATACATAAATGACATAACTTAGTTA
1 ATTAATATTATACATAAATGACATAACTTAATTA
48279283 ATTAATATTATACATAA
1 ATTAATATTATACATAA
48279300 CTTACAACTT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
28 2 0.02
29 1 0.01
30 2 0.02
31 38 0.40
32 1 0.01
33 1 0.01
34 49 0.52
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (34 bp):
ATTAATATTATACATAAATGACATAACTTAATTA
Found at i:48279211 original size:9 final size:9
Alignment explanation
Indices: 48279197--48279424 Score: 67
Period size: 9 Copynumber: 26.7 Consensus size: 9
48279187 ATTAATATTA
48279197 TACATAACT
1 TACATAACT
*
48279206 TACATAAAT
1 TACATAACT
* *
48279215 TA-ATTAGT
1 TACATAACT
48279223 TA-AT-A-T
1 TACATAACT
*
48279229 -ACATAAAT
1 TACATAACT
48279237 TACATAACT
1 TACATAACT
*
48279246 TACATTAATAT
1 TACA-TAA-CT
*
48279257 GATACATAAAT
1 --TACATAACT
*
48279268 GACATAACT
1 TACATAACT
**
48279277 TAGTTAA-T
1 TACATAACT
*
48279285 TA-AT-ATT
1 TACATAACT
48279292 ATACATAACT
1 -TACATAACT
48279302 TAC--AACT
1 TACATAACT
48279309 TACATAACT
1 TACATAACT
**
48279318 TACATATTT
1 TACATAACT
*
48279327 TA-ATTA-T
1 TACATAACT
* *
48279334 T-CGTAAAT
1 TACATAACT
48279342 TACATAACT
1 TACATAACT
* *
48279351 TACTTAATT
1 TACATAACT
*
48279360 TTCATAA--
1 TACATAACT
*
48279367 TAAATAACT
1 TACATAACT
*
48279376 TACATAAAT
1 TACATAACT
* *
48279385 AAC-T-TCT
1 TACATAACT
48279392 TACATAACT
1 TACATAACT
** *
48279401 TATGTGACT
1 TACATAACT
48279410 TACATAACT
1 TACATAACT
48279419 TACATA
1 TACATA
48279425 GCATAATTTT
Statistics
Matches: 159, Mismatches: 39, Indels: 42
0.66 0.16 0.17
Matches are distributed among these distances:
5 1 0.01
6 4 0.03
7 23 0.14
8 20 0.13
9 96 0.60
10 5 0.03
11 3 0.02
12 3 0.02
13 4 0.03
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:48279273 original size:96 final size:90
Alignment explanation
Indices: 48279097--48279305 Score: 303
Period size: 96 Copynumber: 2.3 Consensus size: 90
48279087 CATAACTTAC
* *
48279097 ATTAATATTATACATAGA-TGACATAACTTAATTAATTAATATTATACATAACTTACATTAATAT
1 ATTAATATTATACATA-ACTTACATAAATTAATTAATTAATATTATACATAACTTACATTAATAT
*
48279161 TATACATAAATGACATAACTTAATTA
65 GATACATAAATGACATAACTTAATTA
*
48279187 ATTAATATTATACATAACTTACATAAATTAATTAGTTAATATACATAAATTACATAACTTACATT
1 ATTAATATTATACATAACTTACATAAATTAATTAATTAATAT---T--A-TACATAACTTACATT
*
48279252 AATATGATACATAAATGACATAACTTAGTTA
60 AATATGATACATAAATGACATAACTTAATTA
48279283 ATTAATATTATACATAACTTACA
1 ATTAATATTATACATAACTTACA
48279306 ACTTACATAA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
89 1 0.01
90 37 0.35
93 1 0.01
95 1 0.01
96 67 0.63
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (90 bp):
ATTAATATTATACATAACTTACATAAATTAATTAATTAATATTATACATAACTTACATTAATATG
ATACATAAATGACATAACTTAATTA
Found at i:48279346 original size:96 final size:95
Alignment explanation
Indices: 48279141--48279324 Score: 271
Period size: 96 Copynumber: 1.9 Consensus size: 95
48279131 ATTAATATTA
* *
48279141 TACATAACTTACATTAATATTATACATAAATGACATAACTTAATTAATTAATATTATACATAACT
1 TACATAAATTACATTAATATGATACATAAATGACATAACTTAATTAATTAATATTATACATAACT
* *
48279206 TACATAAATTAATTAGTTAATATACATAAAT
66 TACA-AAATTAATAACTTAATATACATAAAT
* *
48279237 TACATAACTTACATTAATATGATACATAAATGACATAACTTAGTTAATTAATATTATACATAACT
1 TACATAAATTACATTAATATGATACATAAATGACATAACTTAATTAATTAATATTATACATAACT
*
48279302 TAC-AACTTACATAACTTACATAT
66 TACAAAATTA-ATAACTTA-ATAT
48279325 TTTAATTATT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
94 5 0.06
95 6 0.07
96 70 0.86
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (95 bp):
TACATAAATTACATTAATATGATACATAAATGACATAACTTAATTAATTAATATTATACATAACT
TACAAAATTAATAACTTAATATACATAAAT
Found at i:48279379 original size:34 final size:33
Alignment explanation
Indices: 48279305--48279382 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 33
48279295 CATAACTTAC
* ***
48279305 AACTTACATAACTTACATATTTTAATTATTCGT
1 AACTTACATAACTTACATATTTTAATAATAAAT
* * *
48279338 AAATTACATAACTTACTTAATTTTCATAATAAAT
1 AACTTACATAACTTACAT-ATTTTAATAATAAAT
48279372 AACTTACATAA
1 AACTTACATAA
48279383 ATAACTTCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 16 0.44
34 20 0.56
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (33 bp):
AACTTACATAACTTACATATTTTAATAATAAAT
Found at i:48279455 original size:25 final size:25
Alignment explanation
Indices: 48279426--48279481 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
48279416 ACTTACATAG
* *
48279426 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
48279451 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
48279476 CATAAT
1 CATAAT
48279482 ACATAACTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:48279481 original size:16 final size:16
Alignment explanation
Indices: 48279462--48279495 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48279452 ATAATTTGGG
48279462 TAATAAATAACTTACA
1 TAATAAATAACTTACA
*
48279478 TAATACATAACTTACA
1 TAATAAATAACTTACA
48279494 TA
1 TA
48279496 GCTTAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAATAACTTACA
Found at i:48284991 original size:66 final size:65
Alignment explanation
Indices: 48284897--48285067 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
48284887 GAGCAAATTA
* * * * *
48284897 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
48284961 G
65 G
*
48284962 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
48285027 G
65 G
* * * * *
48285028 CAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
48285068 CGGCAGTGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:48285065 original size:21 final size:21
Alignment explanation
Indices: 48285039--48285150 Score: 73
Period size: 21 Copynumber: 5.3 Consensus size: 21
48285029 AGCAGCTTAG
*
48285039 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
**
48285060 AGCAGAGGCGGCAGTGAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
* * **
48285081 AGAACAGGCTACAGCAA-AGGA
1 AGCAGAGGCGGCAGCAAGA-GA
*** * *
48285102 AGCAGAGGCTAAAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
* * *
48285123 AGCAGAGGCTGCAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
48285144 AGCAGAG
1 AGCAGAG
48285151 CAGCGTCAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
20 1 0.01
21 72 0.99
ACGTcount: A:0.38, C:0.17, G:0.41, T:0.04
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCAAGAGA
Found at i:48285502 original size:43 final size:42
Alignment explanation
Indices: 48285454--48285616 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 42
48285444 ATCTGCCAAA
*
48285454 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTC
1 TTTAGCGGCGTTTTTGG-AAAAGCGCCGCTATAGATAAGGGTC
** * * *
48285497 TTTAGCGGCGTTTTTGCGCGAGGCGCCGCTATATAGACAAAGGGTA
1 TTTAGCGGCGTTTTTG-GAAAAGCGCCGC--TATAGA-TAAGGGTC
* *
48285543 TTTAGCGGCGTTTTCTGGATAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTT-TGGAAAAGCGCCGCTATAGATAAGGGTC
48285586 TATT-GCGGCGTTTTTGGGAAAAGCGCCGCTA
1 T-TTAGCGGCGTTTTT-GGAAAAGCGCCGCTA
48285617 AAGGCCATGA
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
42 1 0.01
43 54 0.54
44 9 0.09
45 6 0.06
46 28 0.28
47 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTATAGATAAGGGTC
Found at i:48285612 original size:89 final size:89
Alignment explanation
Indices: 48285453--48285616 Score: 242
Period size: 89 Copynumber: 1.8 Consensus size: 89
48285443 AATCTGCCAA
* **
48285453 ATTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTCTTTAGCGGCGTTTTTGCGCGA
1 ATTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTGCGAAA
*
48285518 GGCGCCGCTATATAGACAAAGGGT
66 AGCGCCGCTATATAGACAAAGGGT
* *
48285542 ATTTAGCGGCGTTTTCTGG-ATAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTTTGGGA
1 ATTTAGCGGCGTTTT-TGGTAAAAGCGCCGCTATAGATCAGGGTCT-TTAGCGGCGTTTTTGCGA
48285605 AAAGCGCCGCTA
64 AAAGCGCCGCTA
48285617 AAGGCCATGA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 62 0.93
90 5 0.07
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (89 bp):
ATTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTGCGAAA
AGCGCCGCTATATAGACAAAGGGT
Found at i:48285631 original size:43 final size:43
Alignment explanation
Indices: 48285456--48285724 Score: 136
Period size: 43 Copynumber: 6.2 Consensus size: 43
48285446 CTGCCAAATT
* ** * *
48285456 TAGCGGCGTTTT-TGGTAAAAGCGCCGCTATAGATTAGGGTCTT
1 TAGCGGCGTTTTCTGG-AAAAGCGCCGCTAAAGACCAGGATCTA
** * * * * *
48285499 TAGCGGCGTTTT-TGCGCGAGGCGCCGCTATATAGACAAAGGGTATT
1 TAGCGGCGTTTTCTG-GAAAAGCGCCGCTA-A-AGAC-CAGGATCTA
* * * *
48285545 TAGCGGCGTTTTCTGGATAAGCGCCGCTATAGATCAGGGTCTA
1 TAGCGGCGTTTTCTGGAAAAGCGCCGCTAAAGACCAGGATCTA
* * *
48285588 TTGCGGCGTTTT-TGGGAAAAGCGCCGCTAAAGGCCATGATCTA
1 TAGCGGCGTTTTCT-GGAAAAGCGCCGCTAAAGACCAGGATCTA
* * * ** **
48285631 TAGCGGCGCTTATAT-AAAAAATGCCGCTAAAGACCCTGATCTA
1 TAGCGGCG-TTTTCTGGAAAAGCGCCGCTAAAGACCAGGATCTA
* *** *
48285674 TAGCGGCGCTTTCAACAAAAACGCCGCTAAAGACACCA--ATCTA
1 TAGCGGCGTTTTCTGGAAAAGCGCCGCTAAAG--ACCAGGATCTA
48285717 TAGCGGCG
1 TAGCGGCG
48285725 GTTATATTAA
Statistics
Matches: 179, Mismatches: 36, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
42 3 0.02
43 130 0.73
44 7 0.04
45 7 0.04
46 30 0.17
47 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTTCTGGAAAAGCGCCGCTAAAGACCAGGATCTA
Found at i:48285737 original size:43 final size:43
Alignment explanation
Indices: 48285604--48285748 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
48285594 CGTTTTTGGG
* * * *
48285604 AAAAGCGCCGCTAAAGGCCATGATCTATAGCGGCGCTTATATA
1 AAAAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTATATA
* *
48285647 AAAAATGCCGCTAAAGACCCTGATCTATAGCGGCGCTT-TCA-A
1 AAAAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTAT-ATA
* *
48285689 CAAAAACGCCGCTAAAGACACC-AATCTATAGCGGCGGTTATATT
1 -AAAAACGCCGCTAAAGAC-CCTAATCTATAGCGGCGCTTATATA
*
48285733 AAAAACGCTGCTAAAG
1 AAAAACGCCGCTAAAG
48285749 CTCTTAGTCT
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
42 2 0.02
43 83 0.94
44 3 0.03
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTATATA
Found at i:48287054 original size:24 final size:23
Alignment explanation
Indices: 48287025--48287073 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
48287015 ATATGTTAAC
48287025 AAACAAAAATATATAAATATAAAT
1 AAACAAAAATATATAAATA-AAAT
* * *
48287049 AAACAAATATTTATATATAAAAT
1 AAACAAAAATATATAAATAAAAT
48287072 AA
1 AA
48287074 GATAAATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (23 bp):
AAACAAAAATATATAAATAAAAT
Found at i:48287513 original size:20 final size:21
Alignment explanation
Indices: 48287484--48287527 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
48287474 CAATTAAATC
*
48287484 AATTTGATTAAAATCAAATTA
1 AATTTGATTAAAATCAAATAA
*
48287505 AATTT-ATTAGAATCAAATAA
1 AATTTGATTAAAATCAAATAA
48287525 AAT
1 AAT
48287528 CAGGATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (21 bp):
AATTTGATTAAAATCAAATAA
Found at i:48297971 original size:44 final size:44
Alignment explanation
Indices: 48297870--48297971 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
48297860 CTCCACTGTA
*
48297870 ACTTTAGGGAGATAAGACTGGTAGCTTAAATCTGCTTCCCTACT
1 ACTTTAGGGAGATAAGACTCGTAGCTTAAATCTGCTTCCCTACT
* * * * **
48297914 ACCTCAGGAAGATAAGACTCGTCGTCTTTGATCTGC-TCCACTACT
1 ACTTTAGGGAGATAAGACTCGTAG-CTTAAATCTGCTTCC-CTACT
48297959 A-TTTAGGGAGATA
1 ACTTTAGGGAGATA
48297972 GGATATACAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
44 31 0.67
45 15 0.33
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
ACTTTAGGGAGATAAGACTCGTAGCTTAAATCTGCTTCCCTACT
Found at i:48298260 original size:44 final size:44
Alignment explanation
Indices: 48298080--48298262 Score: 111
Period size: 44 Copynumber: 4.2 Consensus size: 44
48298070 CTTTGATCTG
*
48298080 CTCCACTACTGCTTAGGGAGACAGGATCTACAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
* * * * **** * * *
48298124 CTCCACTGCTGCTGAAGGAGATAGGA-CTAGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
* * * * * * ** * *
48298167 CTTCC-CTACTATCTT-GGGAAGATAAGATTTGCCATCTTTGATCTG
1 C-TCCACTACT-GCTTAGGG-AGACAGGATCTACAATCTTCAACCTA
*
48298212 CTCCACTACTGCTTAGGGAGACAGGATCTATAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
48298256 CTCCACT
1 CTCCACT
48298263 GCAAACTCAG
Statistics
Matches: 97, Mismatches: 36, Indels: 12
0.67 0.25 0.08
Matches are distributed among these distances:
43 16 0.16
44 63 0.65
45 18 0.19
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
Found at i:48298263 original size:132 final size:132
Alignment explanation
Indices: 48297877--48298264 Score: 571
Period size: 132 Copynumber: 2.9 Consensus size: 132
48297867 GTAACTTTAG
* * * ** * *
48297877 GGAGATAAGACTGGTAGCTTAAATCTGCTTCCCTACTACCTCAGGAAGATAAGACTCGTCGTCTT
1 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTATCTTGGGAAGATAAGATTTGTCGTCTT
** * * * *
48297942 TGATCTGCTCCACTACTATTTAGGGAGATAGGATATACAATCTTCAACCTACTCTACTACTGCTC
66 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTC
*
48298007 AG
131 AA
* *
48298009 GGAGATAGGACTGGTGGCTTAAATCTGCTT-CTTACTATCTTGGGAATATAAGATTTGTCGTCTT
1 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTATCTTGGGAAGATAAGATTTGTCGTCTT
* *
48298073 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATTTTCAACCTACTCCACTGCTGCTG
66 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTC
48298138 AA
131 AA
* * *
48298140 GGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTATCTTGGGAAGATAAGATTTGCCATCTT
1 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTATCTTGGGAAGATAAGATTTGTCGTCTT
*
48298205 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTATAATCTTCAACCTACTCCACTGC
66 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGC
48298265 AAACTCAGAG
Statistics
Matches: 230, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 114 0.50
132 116 0.50
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (132 bp):
GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTATCTTGGGAAGATAAGATTTGTCGTCTT
TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTC
AA
Found at i:48298366 original size:89 final size:89
Alignment explanation
Indices: 48298256--48298551 Score: 376
Period size: 89 Copynumber: 3.3 Consensus size: 89
48298246 CTTCAACCTA
* * * ** * *
48298256 CTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTTTTCAATCTGCTTTACTACCAGTACAGGAAG
1 CTCCGCTGCAAACTCAAAGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGCCAATACAGGAAG
* * *
48298321 ATAAGATCTGCTGTTTTCAGTTTG
66 ACAAGATCTGCTATCTTCAGTTTG
* * *
48298345 CTCCGCTGCAAACTCAAAGAGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGCCAATATAGGAAG
1 CTCCGCTGCAAACTCAAAGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGCCAATACAGGAAG
*
48298410 ACAAGATCTGCTATCTTCAGTCTG
66 ACAAGATCTGCTATCTTCAGTTTG
* * * * *
48298434 ATTCGCTGCAAACTCAAGGAGGCAAAGCTAGTGTCTTCAATCTGCTTCGCTGCCAATACAGGAAG
1 CTCCGCTGCAAACTCAAAGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGCCAATACAGGAAG
* *
48298499 ACAAGATTTGCTATCGTCAGTTTG
66 ACAAGATCTGCTATCTTCAGTTTG
* * *
48298523 CTCCGCTGTAAGCTCAAGGAGGCAAGGCT
1 CTCCGCTGCAAACTCAAAGAGGCAAGGCT
48298552 TCACTTCAAT
Statistics
Matches: 177, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 177 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (89 bp):
CTCCGCTGCAAACTCAAAGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGCCAATACAGGAAG
ACAAGATCTGCTATCTTCAGTTTG
Found at i:48298439 original size:45 final size:44
Alignment explanation
Indices: 48298390--48298519 Score: 122
Period size: 44 Copynumber: 2.9 Consensus size: 44
48298380 TTCGATCTAC
48298390 TTCGCTGCCAATATAGGAAGACAAGATCTGCTATCTTCAGTCTGA
1 TTCGCTGCCAATA-AGGAAGACAAGATCTGCTATCTTCAGTCTGA
* * * * * *
48298435 TTCGCTGCAAACTCAAGG-AGGCAA-AGCTAG-TGTCTTCAATCTGC
1 TTCGCTGCCAA-T-AAGGAAGACAAGATCT-GCTATCTTCAGTCTGA
* *
48298479 TTCGCTGCCAATACAGGAAGACAAGATTTGCTATCGTCAGT
1 TTCGCTGCCAATA-AGGAAGACAAGATCTGCTATCTTCAGT
48298520 TTGCTCCGCT
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
42 1 0.02
43 4 0.06
44 30 0.46
45 25 0.38
46 4 0.06
47 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (44 bp):
TTCGCTGCCAATAAGGAAGACAAGATCTGCTATCTTCAGTCTGA
Found at i:48298483 original size:44 final size:43
Alignment explanation
Indices: 48298343--48298486 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 43
48298333 GTTTTCAGTT
* * * *
48298343 TGCTCCGCTGCAAACTCAAAGAGGCAAGGCTGGTGTCTTCGATC
1 TGCTTCGCTGCAAACTCAAGGAGGCAAAGCT-GTGTCTTCAATC
* * * * * *
48298387 TACTTCGCTGCCAA-T-ATAGGAAGACAAGATCTGCTATCTTCAGTC
1 TGCTTCGCTGCAAACTCA-AGG-AGGCAA-AGCTG-TGTCTTCAATC
*
48298432 TGATTCGCTGCAAACTCAAGGAGGCAAAGCTAGTGTCTTCAATC
1 TGCTTCGCTGCAAACTCAAGGAGGCAAAGCT-GTGTCTTCAATC
48298476 TGCTTCGCTGC
1 TGCTTCGCTGC
48298487 CAATACAGGA
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.04
44 39 0.52
45 27 0.36
46 4 0.05
47 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (43 bp):
TGCTTCGCTGCAAACTCAAGGAGGCAAAGCTGTGTCTTCAATC
Found at i:48299151 original size:45 final size:44
Alignment explanation
Indices: 48299102--48299342 Score: 107
Period size: 45 Copynumber: 5.4 Consensus size: 44
48299092 GTCTACTCTG
* ** * *
48299102 CTGCAAACTCAGGGAGGCAAGACTTGCTTTCTTCAGTCTGTTCCA
1 CTGCAAACTCAGGGAGACAAGACTTG-TAACTTCAATCTGCTCCA
* * *
48299147 CTGC-AACTTCAGGGATATAAGACTTGTAACTTTAATCTGCTCCA
1 CTGCAAAC-TCAGGGAGACAAGACTTGTAACTTCAATCTGCTCCA
* * * * *
48299191 CTGCAACCTCAGGGAGATAAGA-TTCGTCATCTTCAGTCTGCCCCA
1 CTGCAAACTCAGGGAGACAAGACTT-GT-AACTTCAATCTGCTCCA
* * * * ** * *
48299236 TTGC-AACTTTAGAGG-GATAAAACTTGCTTTCTTTAGTCTGCTCCA
1 CTGCAAAC-TCAG-GGAGACAAGACTTG-TAACTTCAATCTGCTCCA
* * * * *
48299281 CTAC-AACTTAAGGGAGATAAGACTTGTAACTTTAATCCGCTCCTA
1 CTGCAAAC-TCAGGGAGACAAGACTTGTAACTTCAATCTGCTCC-A
*
48299326 CTG-TAACTTCAGGGAGA
1 CTGCAAAC-TCAGGGAGA
48299343 TAGGTTTATT
Statistics
Matches: 154, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
43 2 0.01
44 52 0.34
45 95 0.62
46 5 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGCAAACTCAGGGAGACAAGACTTGTAACTTCAATCTGCTCCA
Found at i:48299343 original size:45 final size:44
Alignment explanation
Indices: 48299138--48299391 Score: 217
Period size: 45 Copynumber: 5.7 Consensus size: 44
48299128 CTTTCTTCAG
* *
48299138 TCTGTTCCACTGCAACTTCAGGGATATAAGACTTGTAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAA
* * * *
48299182 TCTGCTCCACTGCAACCTCAGGGAGATAAGA-TTCGTCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GT-AACTTTAA
* * * * ** *
48299227 TCTGCCCCATTGCAACTTTAGAGG-GATAAAACTTGCTTTCTTTAG
1 TCTGCTCCACTGCAACTTCAG-GGAGATAAGACTTG-TAACTTTAA
* *
48299272 TCTGCTCCACTACAACTTAAGGGAGATAAGACTTGTAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAA
* * ** * **
48299316 TCCGCTCCTACTGTAACTTCAGGGAGAT-AGGTTTATTGGCTTTAA
1 TCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAA
* *
48299361 TCTGCCCCACTACAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
48299392 TTCACCATCT
Statistics
Matches: 166, Mismatches: 35, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
43 2 0.01
44 66 0.40
45 93 0.56
46 5 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAA
Found at i:48299365 original size:134 final size:134
Alignment explanation
Indices: 48299123--48299423 Score: 338
Period size: 134 Copynumber: 2.2 Consensus size: 134
48299113 GGGAGGCAAG
* * * * *
48299123 ACTTGCTTTCTTCAGTCTGTTCCACTGCAACTTCAGGGATATAAGACTTGTAACTTTAATCTGCT
1 ACTTGCTTTCTTCAGTCTGCTCCACTACAACTTAAGGGAGATAAGACTTGTAACTTTAATCCGCT
* * * * *
48299188 CCACTGCAACCTCAGGGAGATAAGATTCGTCATCTTCAGTCTGCCCCATTGCAACTTTAGAGGGA
66 CCACTGCAACCTCAGGGAGATAAGATTCATCAGCTTCAATCTGCCCCACTACAACTTTAGAGGGA
48299253 TAAA
131 TAAA
*
48299257 ACTTGCTTTCTTTAGTCTGCTCCACTACAACTTAAGGGAGATAAGACTTGTAACTTTAATCCGCT
1 ACTTGCTTTCTTCAGTCTGCTCCACTACAACTTAAGGGAGATAAGACTTGTAACTTTAATCCGCT
* * * * ** * *
48299322 CCTACTGTAACTTCAGGGAGAT-AGGTTTATTGGCTTTAATCTGCCCCACTACAACTTCAG-GGA
66 CC-ACTGCAACCTCAGGGAGATAAGATTCATCAGCTTCAATCTGCCCCACTACAACTTTAGAGG-
*
48299385 GATAAG
129 GATAAA
* ** *
48299391 A-TTCACCATCTTCAGTCTGCTCCACTGCAACTT
1 ACTT-GCTTTCTTCAGTCTGCTCCACTACAACTT
48299424 TATTGGATAA
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
133 4 0.03
134 118 0.85
135 17 0.12
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (134 bp):
ACTTGCTTTCTTCAGTCTGCTCCACTACAACTTAAGGGAGATAAGACTTGTAACTTTAATCCGCT
CCACTGCAACCTCAGGGAGATAAGATTCATCAGCTTCAATCTGCCCCACTACAACTTTAGAGGGA
TAAA
Found at i:48299422 original size:45 final size:44
Alignment explanation
Indices: 48299131--48299423 Score: 206
Period size: 45 Copynumber: 6.6 Consensus size: 44
48299121 AGACTTGCTT
* * *
48299131 TCTTCAGTCTGTTCCACTGCAACTTCAGGGATATAAGACTTGTAA
1 TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-TAA
* * *
48299176 -CTTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGA-TTCGTCA
1 TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT--TAA
* * * * * *
48299220 TCTTCAGTCTGCCCCATTGCAACTTTAGAGG-GATAAAACTTGCT-T
1 TCTTTAGTCTGCTCCACTGCAACTTCAG-GGAGATAAGACTT--TAA
* *
48299265 TCTTTAGTCTGCTCCACTACAACTTAAGGGAGATAAGACTTGTAA
1 TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-TAA
* * * * *
48299310 -CTTTAATCCGCTCCTACTGTAACTTCAGGGAGAT-AG-GTTTAT
1 TCTTTAGTCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTTTAA
* * * *
48299352 TGGCTTTAATCTGCCCCACTACAACTTCAGGGAGATAAGA-TTCACCA
1 T--CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTA--A
*
48299399 TCTTCAGTCTGCTCCACTGCAACTT
1 TCTTTAGTCTGCTCCACTGCAACTT
48299424 TATTGGATAA
Statistics
Matches: 193, Mismatches: 41, Indels: 28
0.74 0.16 0.11
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 69 0.36
45 112 0.58
46 5 0.03
47 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTAA
Found at i:48304398 original size:22 final size:22
Alignment explanation
Indices: 48304368--48304436 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
48304358 TATGCACTAT
*
48304368 TAAATAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAAAGTGC
*
48304390 TATACAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAA-GTGC
*
48304412 TAAACAGAGAGCACTAATGTGC
1 TAAACAGAGAGCACTAAAGTGC
48304434 TAA
1 TAA
48304437 TAATCAGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.07
22 36 0.88
23 2 0.05
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:48304454 original size:19 final size:19
Alignment explanation
Indices: 48304430--48304492 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 19
48304420 GAGCACTAAT
48304430 GTGCTAATAATCAGAGAGC
1 GTGCTAATAATCAGAGAGC
*
48304449 GTGCTAGTAATCGAAGAGCACTGAC
1 GTGCTAATAATC--AGAG-A--G-C
48304474 GTGCTAATAATCAGAGAGC
1 GTGCTAATAATCAGAGAGC
48304493 ACTGATGTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
19 12 0.33
20 1 0.03
21 4 0.11
22 2 0.06
23 4 0.11
24 1 0.03
25 12 0.33
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (19 bp):
GTGCTAATAATCAGAGAGC
Found at i:48304476 original size:25 final size:25
Alignment explanation
Indices: 48304449--48304593 Score: 215
Period size: 25 Copynumber: 5.8 Consensus size: 25
48304439 ATCAGAGAGC
* *
48304449 GTGCTAGTAATC-GAAGAGCACTGAC
1 GTGCTAATAATCAG-AGAGCACTGAT
48304474 GTGCTAATAATCAGAGAGCACTGAT
1 GTGCTAATAATCAGAGAGCACTGAT
48304499 GTGCTAATAATCAGAGAGCACTGGAAT
1 GTGCTAATAATCAGAGAGCACT-G-AT
*
48304526 GT--TAATAATCAGAGAGCACTGTT
1 GTGCTAATAATCAGAGAGCACTGAT
48304549 GTGCTAATAATCAGAGAGCACTGAT
1 GTGCTAATAATCAGAGAGCACTGAT
48304574 GTGCTAATAATCAGAGAGCA
1 GTGCTAATAATCAGAGAGCA
48304594 TGCTAAACTC
Statistics
Matches: 111, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
23 3 0.03
24 1 0.01
25 101 0.91
26 2 0.02
27 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (25 bp):
GTGCTAATAATCAGAGAGCACTGAT
Found at i:48304510 original size:50 final size:49
Alignment explanation
Indices: 48304416--48304593 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 49
48304406 ATGTGCTAAA
* *
48304416 CAGAGAGCACTAATGTGCTAATAATCAGAGAG--C---GTGCTAGTAAT
1 CAGAGAGCACTGATGTGCTAATAATCAGAGAGCACTGTGTGCTAATAAT
*
48304460 C-GAAGAGCACTGACGTGCTAATAATCAGAGAGCACTGATGTGCTAATAAT
1 CAG-AGAGCACTGATGTGCTAATAATCAGAGAGCACTG-TGTGCTAATAAT
48304510 CAGAGAGCACTGGAATGT--TAATAATCAGAGAGCACTGTTGTGCTAATAAT
1 CAGAGAGCACT-G-ATGTGCTAATAATCAGAGAGCACTG-TGTGCTAATAAT
48304560 CAGAGAGCACTGATGTGCTAATAATCAGAGAGCA
1 CAGAGAGCACTGATGTGCTAATAATCAGAGAGCA
48304594 TGCTAAACTC
Statistics
Matches: 117, Mismatches: 5, Indels: 18
0.84 0.04 0.13
Matches are distributed among these distances:
43 1 0.01
44 28 0.24
46 1 0.01
48 4 0.03
49 1 0.01
50 77 0.66
51 2 0.02
52 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (49 bp):
CAGAGAGCACTGATGTGCTAATAATCAGAGAGCACTGTGTGCTAATAAT
Found at i:48304564 original size:75 final size:71
Alignment explanation
Indices: 48304416--48304593 Score: 245
Period size: 75 Copynumber: 2.5 Consensus size: 71
48304406 ATGTGCTAAA
* *
48304416 CAGAGAGCACTAATGTGCTAATAATCAGAGAG--CGTGCTAGTAATCGAAGAGCACTGACGTGCT
1 CAGAGAGCACTGATGTGCTAATAATCAGAGAGCACGTGCTAATAATCGAAGAGCACTGACGTGCT
48304479 AATAAT
66 AATAAT
* **
48304485 CAGAGAGCACTGATGTGCTAATAATCAGAGAGCACTGGAATGTTAATAATC-AGAGAGCACTGTT
1 CAGAGAGCACTGATGTGCTAATAATCAGAGAGCAC--G--TGCTAATAATCGA-AGAGCACTGAC
48304549 GTGCTAATAAT
61 GTGCTAATAAT
48304560 CAGAGAGCACTGATGTGCTAATAATCAGAGAGCA
1 CAGAGAGCACTGATGTGCTAATAATCAGAGAGCA
48304594 TGCTAAACTC
Statistics
Matches: 97, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
69 31 0.32
71 1 0.01
73 1 0.01
74 1 0.01
75 63 0.65
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (71 bp):
CAGAGAGCACTGATGTGCTAATAATCAGAGAGCACGTGCTAATAATCGAAGAGCACTGACGTGCT
AATAAT
Found at i:48311074 original size:25 final size:25
Alignment explanation
Indices: 48311041--48311089 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
48311031 AAATGAAAGA
48311041 AAAAAATGCTACCGAAGAGCATACG
1 AAAAAATGCTACCGAAGAGCATACG
48311066 AAAAAATGCTACCGAAGAGCATAC
1 AAAAAATGCTACCGAAGAGCATAC
48311090 TCATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.12
Consensus pattern (25 bp):
AAAAAATGCTACCGAAGAGCATACG
Found at i:48311421 original size:16 final size:16
Alignment explanation
Indices: 48311400--48311451 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
48311390 AATCGTCTCA
48311400 ATTTTTTGTGATTGAG
1 ATTTTTTGTGATTGAG
* * *
48311416 ATTTTTAGT-TTTCA-
1 ATTTTTTGTGATTGAG
48311430 ATTTTTTGTGATTGAG
1 ATTTTTTGTGATTGAG
48311446 ATTTTT
1 ATTTTT
48311452 AGTTTTTCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 14 0.50
ACGTcount: A:0.19, C:0.02, G:0.17, T:0.62
Consensus pattern (16 bp):
ATTTTTTGTGATTGAG
Found at i:48311433 original size:30 final size:30
Alignment explanation
Indices: 48311397--48311457 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
48311387 TTAAATCGTC
48311397 TCAATTTTTTGTGATTGAGATTTTTAGTTT
1 TCAATTTTTTGTGATTGAGATTTTTAGTTT
48311427 TCAATTTTTTGTGATTGAGATTTTTAGTTT
1 TCAATTTTTTGTGATTGAGATTTTTAGTTT
48311457 T
1 T
48311458 TCTAATTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.03, G:0.16, T:0.61
Consensus pattern (30 bp):
TCAATTTTTTGTGATTGAGATTTTTAGTTT
Found at i:48311450 original size:15 final size:15
Alignment explanation
Indices: 48311402--48311451 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
48311392 TCGTCTCAAT
48311402 TTTTTGTGATTGAGA
1 TTTTTGTGATTGAGA
* *
48311417 TTTTTAGT-TTTCA-A
1 TTTTT-GTGATTGAGA
48311431 TTTTTTGTGATTGAGA
1 -TTTTTGTGATTGAGA
48311447 TTTTT
1 TTTTT
48311452 AGTTTTTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.62
Consensus pattern (15 bp):
TTTTTGTGATTGAGA
Found at i:48311637 original size:3 final size:3
Alignment explanation
Indices: 48311631--48311682 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
48311621 CTACTACTAC
48311631 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48311679 TAT T
1 TAT T
48311683 TAACTATGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:48313128 original size:11 final size:11
Alignment explanation
Indices: 48313112--48313137 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48313102 TATTTTTTAA
48313112 TTTTAAAATAC
1 TTTTAAAATAC
48313123 TTTTAAAATAC
1 TTTTAAAATAC
48313134 TTTT
1 TTTT
48313138 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:48313205 original size:21 final size:21
Alignment explanation
Indices: 48313185--48313231 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
48313175 CATTTTTAAT
48313185 TTTTTTTAA-TTTTAAAATAA
1 TTTTTTTAATTTTTAAAATAA
48313205 TTTTTTTAATTTTTAAAATAA
1 TTTTTTTAATTTTTAAAATAA
*
48313226 ATTTTT
1 TTTTTT
48313232 GGTATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTTAATTTTTAAAATAA
Found at i:48313210 original size:42 final size:42
Alignment explanation
Indices: 48313104--48313209 Score: 171
Period size: 42 Copynumber: 2.5 Consensus size: 42
48313094 TATTTTTTTA
* *
48313104 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAATT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTATTTTTAAATT
48313146 TTTTTTAATTTTAAAATATTTTTAAAATAC-ATTTTT-AATT
1 TTTTTTAATTTTAAAATATTTTTAAAATACTATTTTTAAATT
48313186 TTTTTTAATTTTAAAATAATTTTT
1 TTTTTTAATTTTAAAAT-ATTTTT
48313210 TTAATTTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
40 21 0.34
41 11 0.18
42 29 0.48
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (42 bp):
TTTTTTAATTTTAAAATATTTTTAAAATACTATTTTTAAATT
Found at i:48313230 original size:20 final size:20
Alignment explanation
Indices: 48313187--48313231 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
48313177 TTTTTAATTT
*
48313187 TTTTTAATTTTAAAATAATT
1 TTTTTAATTTTAAAATAATA
48313207 TTTTTAATTTTTAAAATAA-A
1 TTTTTAA-TTTTAAAATAATA
48313227 TTTTT
1 TTTTT
48313232 GGTATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAATTTTAAAATAATA
Found at i:48313238 original size:22 final size:21
Alignment explanation
Indices: 48313185--48313246 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
48313175 CATTTTTAAT
*
48313185 TTTTTTTAA-TTTTAAAATAA
1 TTTTTGTAATTTTTAAAATAA
*
48313205 TTTTTTTAATTTTTAAAATAAA
1 TTTTTGTAATTTTTAAAAT-AA
*
48313227 TTTTTGGTATTTATTTAAAA
1 TTTTT-GTAATT-TTTAAAA
48313247 AACGGGCCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.25
21 9 0.25
22 7 0.19
23 4 0.11
24 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTTGTAATTTTTAAAATAA
Found at i:48316313 original size:29 final size:29
Alignment explanation
Indices: 48316275--48316401 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 29
48316265 GGACTATATA
48316275 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
48316304 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
* * * *
48316333 ACATC-AAAATGAAATTAAAATA-TTAAAATTTATAT
1 A-ATCGATAATG--ATTGAAATACAT-CAA---A-AT
48316368 AAATCGATAATGATTGAAATACATCAAAAT
1 -AATCGATAATGATTGAAATACATCAAAAT
48316398 AATC
1 AATC
48316402 TAAAAATATT
Statistics
Matches: 79, Mismatches: 8, Indels: 22
0.72 0.07 0.20
Matches are distributed among these distances:
29 39 0.49
30 6 0.08
31 11 0.14
34 11 0.14
35 6 0.08
36 6 0.08
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (29 bp):
AATCGATAATGATTGAAATACATCAAAAT
Found at i:48318882 original size:100 final size:100
Alignment explanation
Indices: 48318778--48319104 Score: 429
Period size: 100 Copynumber: 3.1 Consensus size: 100
48318768 AAGTAGATTA
48318778 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
48318843 TAAATTCATATAAGAATATTTATTAACAATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTAT
* * *
48318878 TAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
48318943 TAAATTCATATAAGAATATTTATTAACAATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTAT
* ** *
48318978 TAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATCATA
1 TAAA-T-TATA-TTTAAT-AA-TA-A-TT-AT--T--TTAAATT--A-T--ATTTTAGTATTATA
*
48319043 TATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAAAAATTTTAT
49 TATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTAT
48319095 TAAATTATAT
1 TAAATTATAT
48319105 ATTTTATTAA
Statistics
Matches: 199, Mismatches: 11, Indels: 20
0.87 0.05 0.09
Matches are distributed among these distances:
100 101 0.51
101 1 0.01
102 4 0.02
103 4 0.02
104 2 0.01
105 1 0.01
106 1 0.01
107 2 0.01
108 2 0.01
112 5 0.03
114 2 0.01
115 5 0.03
116 1 0.01
117 68 0.34
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (100 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
TAAATTCATATAAGAATATTTATTAACAATTTTAT
Found at i:48318887 original size:26 final size:26
Alignment explanation
Indices: 48318861--48318917 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
48318851 TATAAGAATA
*
48318861 TTTATTAACAATTTTATTAAATTATAT
1 TTTA-TAACAATTATATTAAATTATAT
*
48318888 TTTATAACAATTATGTTAAATTATAT
1 TTTATAACAATTATATTAAATTATAT
48318914 TTTA
1 TTTA
48318918 GTATTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTATAACAATTATATTAAATTATAT
Found at i:48318991 original size:17 final size:17
Alignment explanation
Indices: 48318971--48319004 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48318961 TTTATTAACA
48318971 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
48318988 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
48319005 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:48319002 original size:117 final size:117
Alignment explanation
Indices: 48318871--48319141 Score: 497
Period size: 117 Copynumber: 2.3 Consensus size: 117
48318861 TTTATTAACA
*
48318871 ATTTTATTAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATT
1 ATTTTATTAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTATCATATATTATGATT
*
48318936 TTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATAT
66 TTATTAGTAAATTCATATAAGAATATTTATTAAAAATTTTATTAAATTATAT
* * *
48318988 ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATCATATATTATGATT
1 ATTTTATTAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTATCATATATTATGATT
48319053 TTATTAGTAAATTCATATAAGAATATTTATTAAAAATTTTATTAAATTATAT
66 TTATTAGTAAATTCATATAAGAATATTTATTAAAAATTTTATTAAATTATAT
48319105 ATTTTATTAAATTATATTTTATAACAATTATGTTAAA
1 ATTTTATTAAATTATATTTTATAACAATTATGTTAAA
48319142 ATATGATTAA
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 146 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (117 bp):
ATTTTATTAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTATCATATATTATGATT
TTATTAGTAAATTCATATAAGAATATTTATTAAAAATTTTATTAAATTATAT
Found at i:48319108 original size:17 final size:17
Alignment explanation
Indices: 48319088--48319121 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48319078 TTTATTAAAA
48319088 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
48319105 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
48319122 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Done.