Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 53 of 444
Found at i:12798747 original size:2 final size:2
Alignment explanation
Indices: 12798740--12798793 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
12798730 AGACCTTGTA
12798740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12798782 AT AT AT AT AT AT
1 AT AT AT AT AT AT
12798794 GATAAGATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12808099 original size:43 final size:43
Alignment explanation
Indices: 12808038--12808125 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
12808028 ATATCTTTTT
12808038 CAAGCTCTCCATTCAAGAAAGTTGATTTTACATCCAAATGAAA
1 CAAGCTCTCCATTCAAGAAAGTTGATTTTACATCCAAATGAAA
12808081 CAAGCTCTCCATTCAAGAAAGTTGATTTTACATCCAAATGAAA
1 CAAGCTCTCCATTCAAGAAAGTTGATTTTACATCCAAATGAAA
12808124 CA
1 CA
12808126 CACTCTAGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (43 bp):
CAAGCTCTCCATTCAAGAAAGTTGATTTTACATCCAAATGAAA
Found at i:12816044 original size:42 final size:42
Alignment explanation
Indices: 12815981--12816144 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
12815971 GTCCGTTTTC
**
12815981 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCTTCACAT-A
* * *
12816024 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATA
* *
12816065 TCGATGTCATAGCCCAACCATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT--C-T-TCACATA
*
12816114 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
12816145 GAATCACATA
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 60 0.60
43 1 0.01
45 2 0.02
48 1 0.01
49 34 0.34
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATCTTCACATA
Found at i:12816125 original size:49 final size:48
Alignment explanation
Indices: 12816051--12816156 Score: 158
Period size: 49 Copynumber: 2.2 Consensus size: 48
12816041 TATGGTCTTA
* *
12816051 CACATATTCATATATCGATGTCATAGCCCAACCATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACCATGGTCTTACACG-AAT
* *
12816101 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAACCATGGTCTTACACGAAT
12816149 CACATATC
1 CACATATC
12816157 TCACTGATGC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.67
50 6 0.12
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAACCATGGTCTTACACGAAT
Found at i:12816202 original size:46 final size:46
Alignment explanation
Indices: 12816066--12816237 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
12816056 ATTCATATAT
* * * * *
12816066 CGATGTCATAGCCCA-ACCATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGA-TATGGTCTTATACG-AAGCACATATCAC--AC
* * * *
12816115 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
12816161 TGATGCCATA-CCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
* *
12816207 CGATGCCATATCCCAAATATGGTCTTATACG
1 CGATGCCATAGCCCAGATATGGTCTTATACG
12816238 GAAATCACTT
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 17 0.16
46 32 0.30
47 18 0.17
48 12 0.11
49 27 0.25
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:12816290 original size:31 final size:31
Alignment explanation
Indices: 12816255--12816368 Score: 156
Period size: 31 Copynumber: 3.7 Consensus size: 31
12816245 CTTGTCACTT
* *
12816255 GTAGCCAAAGCTACCACTATTCACTGATTAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
* * * *
12816286 GTAGCCAGAGATACCATTTTTCACTAATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**
12816317 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
12816348 GTAGCCAAAGCTACCACTTTT
1 GTAGCCAAAGCTACCACTTTT
12816369 TATTTGTCAT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Found at i:12816446 original size:50 final size:50
Alignment explanation
Indices: 12816379--12816474 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
12816369 TATTTGTCAT
12816379 TTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
1 TTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
*
12816429 TTGTCTTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
1 TTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTT
12816475 GTTGCCATGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (50 bp):
TTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCAC
Found at i:12816615 original size:25 final size:24
Alignment explanation
Indices: 12816586--12816659 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 24
12816576 TCACGATTTT
12816586 ATCATCAATACATATGAAATAACAC
1 ATCAT-AATACATATGAAATAACAC
* *
12816611 ATCATGAAATTCATA--AAATTA-AC
1 ATCAT--AATACATATGAAATAACAC
12816634 A--A-AATACATATGAAATAACAC
1 ATCATAATACATATGAAATAACAC
12816655 ATCAT
1 ATCAT
12816660 GAAATTCATA
Statistics
Matches: 37, Mismatches: 5, Indels: 15
0.65 0.09 0.26
Matches are distributed among these distances:
18 7 0.19
20 5 0.14
21 4 0.11
23 4 0.11
24 5 0.14
25 5 0.14
26 7 0.19
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.26
Consensus pattern (24 bp):
ATCATAATACATATGAAATAACAC
Found at i:12816642 original size:44 final size:44
Alignment explanation
Indices: 12816592--12816680 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
12816582 TTTTATCATC
12816592 AATACATATGAAATAACACATCATGAAATTCATAAAATTAACAA
1 AATACATATGAAATAACACATCATGAAATTCATAAAATTAACAA
12816636 AATACATATGAAATAACACATCATGAAATTCATAAAATTAACAA
1 AATACATATGAAATAACACATCATGAAATTCATAAAATTAACAA
12816680 A
1 A
12816681 TAGTCACTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.25
Consensus pattern (44 bp):
AATACATATGAAATAACACATCATGAAATTCATAAAATTAACAA
Found at i:12818663 original size:2 final size:2
Alignment explanation
Indices: 12818656--12818684 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12818646 ATGAATTACA
12818656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12818685 GGTGTAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12818975 original size:18 final size:17
Alignment explanation
Indices: 12818927--12818991 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
12818917 CAACTTAAGT
12818927 TGAGCTC-CAACTTTGA
1 TGAGCTCACAACTTTGA
*** *
12818943 TGAGCTCATGTCTTTGGG
1 TGAGCTCACAACTTT-GA
*
12818961 TGAGCTCACAACTTTAA
1 TGAGCTCACAACTTTGA
*
12818978 TGAGCTCAAAACTT
1 TGAGCTCACAACTT
12818992 CAAATGAGCT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
16 7 0.19
17 17 0.46
18 13 0.35
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (17 bp):
TGAGCTCACAACTTTGA
Found at i:12818983 original size:17 final size:18
Alignment explanation
Indices: 12818961--12819002 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
12818951 TGTCTTTGGG
* *
12818961 TGAGCTCACAACTT-TAA
1 TGAGCTCAAAACTTCAAA
12818978 TGAGCTCAAAACTTCAAA
1 TGAGCTCAAAACTTCAAA
12818996 TGAGCTC
1 TGAGCTC
12819003 GCACATGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (18 bp):
TGAGCTCAAAACTTCAAA
Found at i:12829361 original size:46 final size:46
Alignment explanation
Indices: 12829196--12829370 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
12829186 ATAAGACCAT
* * * * * * *
12829196 ATCCATAAGTGAACTCGGACTCAACTCCACGAGCTCGGGCGTTCAT
1 ATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTAC
* * *
12829242 ATCCATAAGTGAACTCGGACTCAACTTAACGAGTTCGAATGCCTAGTTAC
1 ATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTAC
* * *
12829292 AT-C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGC
1 ATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTAC
*
12829335 ATCCATAAGTGAACTCGAACTCAACTCAACGAGTTC
1 ATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
12829371 GGATGCTCAA
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 58 0.56
47 25 0.24
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
ATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTAC
Found at i:12829366 original size:93 final size:93
Alignment explanation
Indices: 12829206--12829376 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
12829196 ATCCATAAGT
* * * * * * *
12829206 GAACTCGGACTCAACTCCACGAGCTCGGGCGTTCATATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
12829271 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* **
12829299 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
*
12829364 CGAGTTCGGATGC
66 CGAGTTCGAATGC
12829377 TCAACCATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:12831344 original size:30 final size:30
Alignment explanation
Indices: 12831300--12831388 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
12831290 CAAAGATAAC
*
12831300 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
12831329 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
12831359 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
12831389 TGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:12831348 original size:15 final size:14
Alignment explanation
Indices: 12831300--12831382 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
12831290 CAAAGATAAC
*
12831300 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
12831314 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
12831329 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
12831344 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
12831359 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
12831374 AAGAAACCC
1 AAGAAACCC
12831383 AAGATATGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:12831388 original size:15 final size:15
Alignment explanation
Indices: 12831311--12831388 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
12831301 AGAAAACCGA
12831311 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
12831326 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
12831340 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
12831355 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
12831371 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
12831386 ATA
1 ATA
12831389 TGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:12834488 original size:93 final size:93
Alignment explanation
Indices: 12834325--12834496 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
12834315 CGCCCATAAG
* * * *
12834325 CGAACTCGGACTCAACTCCACGAGCTCGGGCGTTCATATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
*
12834390 TCGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * ** **
12834418 CGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
12834483 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
12834497 TCAACCATCC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:12840135 original size:37 final size:37
Alignment explanation
Indices: 12840094--12840171 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
12840084 AAACATAGAG
12840094 TTTATTTCCAAACCATGTTTTGAAAGGAGTTTTTTCT
1 TTTATTTCCAAACCATGTTTTGAAAGGAGTTTTTTCT
* *
12840131 TTTATTTTCAAACCATGTTTTGAATGGAGTTTTTTCT
1 TTTATTTCCAAACCATGTTTTGAAAGGAGTTTTTTCT
12840168 TTTA
1 TTTA
12840172 CAGTTTTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.53
Consensus pattern (37 bp):
TTTATTTCCAAACCATGTTTTGAAAGGAGTTTTTTCT
Found at i:12844318 original size:5 final size:6
Alignment explanation
Indices: 12844302--12844326 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12844292 AATAACTTAA
12844302 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
12844327 GTGAAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:12845842 original size:38 final size:38
Alignment explanation
Indices: 12845771--12845903 Score: 133
Period size: 38 Copynumber: 3.4 Consensus size: 38
12845761 CCAGAATGGC
* * *
12845771 ACCCAGTGTCTCATCGG-ATAGTTCGAAGCAAAGTTGAT
1 ACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGTTGAT
* *
12845809 ACCCAGTGTCTCATCGGCCTAGCCAAAGTAAAGTTGGT
1 ACCCAGTGTCTCATCGGCCTAGCCGAAGTAAAGTTGAT
** * * *
12845847 ACCCAGTACCTCATCGAACCTATCCGAAGTAACAGTATGAC
1 ACCCAGTGTCTCATCG-GCCTAGCCGAAGTAA-AGT-TGAT
12845888 ACCCAGTGTCTCATCG
1 ACCCAGTGTCTCATCG
12845904 ACTCGAGGTC
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
38 43 0.56
39 15 0.19
40 3 0.04
41 16 0.21
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (38 bp):
ACCCAGTGTCTCATCGGCCTAGCCGAAGTAAAGTTGAT
Found at i:12846986 original size:2 final size:2
Alignment explanation
Indices: 12846979--12847010 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12846969 TTTTATACCT
12846979 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12847011 CTTTATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12848165 original size:3 final size:3
Alignment explanation
Indices: 12848159--12848337 Score: 50
Period size: 3 Copynumber: 59.0 Consensus size: 3
12848149 GTGGTAAAAC
* * * *
12848159 AAT AAT ATT ATT AAT AAT AAT AA- AAGT AGT AAT AAG AAT -AT CAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT
* * * * * *
12848204 ATT TAT ATT AAT AAT AAT AAT AGT AGT AGAA AAT AAT AA- AGA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT
* * * *
12848249 GAT AAT AGT AAT AGT AAT AA- AAGT GAA- AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T -AAT AAT AAT AAT AAT AAT AAT
** * *
12848294 GGT AAAT ACA- AAT AGT AAT AAC AAT AAT ACA- AAT AAT AAGT AAT
1 AAT -AAT A-AT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AA-T AAT
12848338 CTAAAATTTA
Statistics
Matches: 127, Mismatches: 32, Indels: 34
0.66 0.17 0.18
Matches are distributed among these distances:
2 12 0.09
3 103 0.81
4 10 0.08
5 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:12848271 original size:27 final size:25
Alignment explanation
Indices: 12848235--12848293 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
12848225 AGTAGTAGAA
12848235 AATAATAAA-GAAATGATAATAGTAAT
1 AATAATAAAGGAAA--ATAATAGTAAT
*
12848261 AGTAATAAAAGTGAAAATAATAGTAAT
1 AATAAT-AAAG-GAAAATAATAGTAAT
12848288 AATAAT
1 AATAAT
12848294 GGTAAATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 5 0.18
27 19 0.68
29 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (25 bp):
AATAATAAAGGAAAATAATAGTAAT
Found at i:12848569 original size:13 final size:14
Alignment explanation
Indices: 12848523--12848572 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
12848513 GTAAGAATAC
12848523 AATAATAATAATAGT
1 AATAATAATAA-AGT
*
12848538 GA-AATAAT-AAGT
1 AATAATAATAAAGT
*
12848550 AACAATAATAAAGT
1 AATAATAATAAAGT
12848564 -ATAATAATA
1 AATAATAATA
12848573 GTGATGAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 4 0.13
13 15 0.50
14 10 0.33
15 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (14 bp):
AATAATAATAAAGT
Found at i:12848596 original size:19 final size:18
Alignment explanation
Indices: 12848561--12848596 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12848551 ACAATAATAA
*
12848561 AGTATAATAATAGTGATG
1 AGTATAATAAAAGTGATG
12848579 AGTATAATAACAAGTGAT
1 AGTATAATAA-AAGTGAT
12848597 AATAATAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (18 bp):
AGTATAATAAAAGTGATG
Found at i:12850681 original size:25 final size:27
Alignment explanation
Indices: 12850644--12850696 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
12850634 TCAAACATGC
12850644 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
12850670 ATTTTGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
12850696 A
1 A
12850697 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:12852088 original size:43 final size:45
Alignment explanation
Indices: 12852035--12852303 Score: 128
Period size: 43 Copynumber: 6.1 Consensus size: 45
12852025 CACCAGCCTC
* **
12852035 ATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT-AAG-TCTT
1 ATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGATCTT
* *
12852078 ATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTT
1 ATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGATCTT
* * * * * * **
12852123 ATCTCCCTGAAGTTGCAATG-GAGCAGA-TAAAAAATGGTGATTCTT
1 ATCTCTCTGAGGTAGCAA-GAAAGCAGACTGAAGAATGAAGA-TCTT
** * * * ** ** ** * *
12852168 ATCTC-CATGTA--TCCCCAATAGAGCAGATTTTACCA-CCAG-CCTC
1 ATCTCTC-TG-AGGT-AGCAAGAAAGCAGACTGAAGAATGAAGATCTT
* * **
12852211 ATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAGAAT-AAG-TCTT
1 ATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGATCTT
* *
12852254 ATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGATCTT
1 ATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGATCTT
12852299 ATCTC
1 ATCTC
12852304 CCTAAAGTTA
Statistics
Matches: 165, Mismatches: 46, Indels: 28
0.69 0.19 0.12
Matches are distributed among these distances:
42 1 0.01
43 88 0.53
44 17 0.10
45 54 0.33
46 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (45 bp):
ATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGATCTT
Found at i:12852226 original size:176 final size:176
Alignment explanation
Indices: 12851932--12852844 Score: 1405
Period size: 176 Copynumber: 5.2 Consensus size: 176
12851922 GACATTGGTA
* * * * *
12851932 AAGATTGAAGATTTTATCTCCCTGAAGTTGTAGTGAAGTAGATCGAAAATGGTGAATCTTATCCC
1 AAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAATGGTGAATCTTATCTC
* *
12851997 CATGTATCGACAATGGAGCAAATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
66 CATGTATCAACAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
12852062 TTGAAGAATAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTG
131 TTGAAGAATAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTG
* ** *
12852108 AAGATTGAAGATCTTATCTCCCTGAAGTTGCAATGGAGCAGATAAAAAATGGTGATTCTTATCTC
1 AAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAATGGTGAATCTTATCTC
** * *
12852173 CATGTATCCCCAATAGAGCAGATTTTACCACCAGCCTCATCTCTTTGAGGTAGCAAGAGAGCAGG
66 CATGTATCAACAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
12852238 TTGAAGAATAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTG
131 TTGAAGAATAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTG
* * * *
12852284 AAGATTGAAGATCTTATCTCCCTAAAGTTACAGTGGAGTAGATCGAAAATGGTGAATCTTATCTT
1 AAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAATGGTGAATCTTATCTC
*
12852349 CATGTATCAGCAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
66 CATGTATCAACAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
* * *
12852414 TTGAAGAATAAGTCTTATCTTTTTGAGGTGGCAAGAAAGCAAACTG
131 TTGAAGAATAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTG
* * *
12852460 AAGATTGAAGATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCGAAAATGGTGAATCTCATCTC
1 AAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAATGGTGAATCTTATCTC
*
12852525 CATGTATCAACAATGGAGTAGATTTTACCACCCA-CCTCATCTCTCTGAGGTAGCAAGAGAGCAG
66 CATGTATCAACAATGGAGCAGATTTTACCA-CCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAG
* * *
12852589 GTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCCGATTG
130 GTTGAAGAATAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTG
* * *
12852636 AAGATTGAAGATTTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAAATGGTGAATCTTATCTC
1 AAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAATGGTGAATCTTATCTC
** * * * *
12852701 CATGTATCGGCAATGGAGCAGATTTTACCACTAGCCTTATCTTTCTGAGGTAGCAAGAGAACAGG
66 CATGTATCAACAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
* * * **
12852766 TTGAAGAATGAGTCTTATCTTCCTGAGGTAACAAGGGAGCAGACTG
131 TTGAAGAATAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTG
*
12852812 AAGATTGAAGATCTTATTTCCCTGAAGTTGCAG
1 AAGATTGAAGATCTTATCTCCCTGAAGTTGCAG
12852845 CAGATCGAAG
Statistics
Matches: 669, Mismatches: 66, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
175 2 0.00
176 664 0.99
177 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (176 bp):
AAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAATGGTGAATCTTATCTC
CATGTATCAACAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
TTGAAGAATAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTG
Found at i:12852814 original size:43 final size:45
Alignment explanation
Indices: 12852736--12852832 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 45
12852726 TACCACTAGC
* * **
12852736 CTTATCTTTCTGAGGTAGCAAGAGAACAGGTTGAAGAATG-AG-T
1 CTTATCTTCCTGAGGTAACAAGAGAACAGACTGAAGAATGAAGAT
* * *
12852779 CTTATCTTCCTGAGGTAACAAGGGAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCCTGAGGTAACAAGAGAACAGACTGAAGAATGAAGAT
12852824 CTTAT-TTCC
1 CTTATCTTCC
12852833 CTGAAGTTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 33 0.73
44 6 0.13
45 6 0.13
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (45 bp):
CTTATCTTCCTGAGGTAACAAGAGAACAGACTGAAGAATGAAGAT
Found at i:12854522 original size:18 final size:18
Alignment explanation
Indices: 12854474--12854523 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
12854464 ATTTTTATCA
*
12854474 TATCATTTATATTATTTG
1 TATCATTTATATTAATTG
*
12854492 TAAT-GTTTATATTAATTG
1 T-ATCATTTATATTAATTG
*
12854510 TATCATTTGTATTA
1 TATCATTTATATTA
12854524 TTGGTTTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (18 bp):
TATCATTTATATTAATTG
Found at i:12864256 original size:61 final size:60
Alignment explanation
Indices: 12864199--12864329 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
12864189 TATAAAATAT
* *** *
12864199 TCAACAAATTTAGCCCTCAGTGTTTACAAAA-TTTGTCATTTTAGTT-TGAATTCTAAAAAA
1 TCAACAAATTTAACCCTCAAAATTTACAAAAGTTT-TCAATTTAGTTCT-AATTCTAAAAAA
* *
12864259 TCAATAAATTTAACTCTCAAAATTTACAAAAGTTTTCAATTTAGTTCTAATTCTAAAAAA
1 TCAACAAATTTAACCCTCAAAATTTACAAAAGTTTTCAATTTAGTTCTAATTCTAAAAAA
*
12864319 GTCAATAAATT
1 -TCAACAAATT
12864330 AATTTTTGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
60 47 0.77
61 14 0.23
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (60 bp):
TCAACAAATTTAACCCTCAAAATTTACAAAAGTTTTCAATTTAGTTCTAATTCTAAAAAA
Found at i:12866102 original size:3 final size:3
Alignment explanation
Indices: 12866088--12866155 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
12866078 ATGTTAGTGT
* * *
12866088 TGG TGA TGG TGG TGG TTG TGG TGG TGG TGG TGG TTG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
12866136 TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TG
12866156 TTTGCTACCT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.01, C:0.00, G:0.62, T:0.37
Consensus pattern (3 bp):
TGG
Found at i:12872431 original size:27 final size:27
Alignment explanation
Indices: 12872401--12872456 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
12872391 TATGTTGTTG
12872401 GCCATTGCTTTTAATAAAGATAAAAGT
1 GCCATTGCTTTTAATAAAGATAAAAGT
12872428 GCCATTGCTTTTAATAAAGATAAAAGT
1 GCCATTGCTTTTAATAAAGATAAAAGT
12872455 GC
1 GC
12872457 AAGGGTTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (27 bp):
GCCATTGCTTTTAATAAAGATAAAAGT
Found at i:12877007 original size:14 final size:16
Alignment explanation
Indices: 12876988--12877022 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
12876978 ATATTAGAAT
12876988 AATAAAAAA-A-TAAA
1 AATAAAAAATAGTAAA
12877002 AATAAAAAATAGTAAA
1 AATAAAAAATAGTAAA
12877018 AATAA
1 AATAA
12877023 CATCAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 1 0.05
16 9 0.47
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AATAAAAAATAGTAAA
Found at i:12880992 original size:20 final size:20
Alignment explanation
Indices: 12880967--12881004 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12880957 TTAGAGGGCC
12880967 TTTTTATGCA-TTTTATAATT
1 TTTTTATG-ATTTTTATAATT
12880987 TTTTTATGATTTTTATAA
1 TTTTTATGATTTTTATAA
12881005 AATCTTACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTATGATTTTTATAATT
Found at i:12884485 original size:19 final size:19
Alignment explanation
Indices: 12884461--12884509 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
12884451 GCTTTTTTTT
12884461 TTTAAAGATATAA-AGATAA
1 TTTAAA-ATATAATAGATAA
12884480 TTTAAAATTATAATAGATAA
1 TTTAAAA-TATAATAGATAA
*
12884500 ATTAAAATAT
1 TTTAAAATAT
12884510 TTAAATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 12 0.44
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (19 bp):
TTTAAAATATAATAGATAA
Found at i:12884499 original size:20 final size:19
Alignment explanation
Indices: 12884469--12884507 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
12884459 TTTTTAAAGA
*
12884469 TATAAAGATAATTTAAAAT
1 TATAAAGATAAATTAAAAT
12884488 TATAATAGATAAATTAAAAT
1 TATAA-AGATAAATTAAAAT
12884508 ATTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TATAAAGATAAATTAAAAT
Found at i:12884503 original size:14 final size:14
Alignment explanation
Indices: 12884484--12884522 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
12884474 AGATAATTTA
12884484 AAATTATAATAGAT
1 AAATTATAATAGAT
* **
12884498 AAATTAAAATATTT
1 AAATTATAATAGAT
12884512 AAATTATAATA
1 AAATTATAATA
12884523 CACCCTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
AAATTATAATAGAT
Found at i:12886119 original size:101 final size:100
Alignment explanation
Indices: 12885992--12886195 Score: 372
Period size: 101 Copynumber: 2.0 Consensus size: 100
12885982 TCGACTTAGC
*
12885992 ATAATTTTACATTGATATATTGAATAAATAAATAATTATATTAATTTAATATAAAATTAAATATA
1 ATAATTTTACATTGATATATTGAATAAATAAATAATTATATTAATTTAATATAAAATTAAACATA
12886057 TGTATTTATTCCTTTAAATATGCAAGTTGAATCAAA
66 TGTATTTATTCCTTTAAATAT-CAAGTTGAATCAAA
*
12886093 ATAATTTTACATTGATATATTGAATAAATAAATAATTATATTAATTTAATATGAAATTAAACATA
1 ATAATTTTACATTGATATATTGAATAAATAAATAATTATATTAATTTAATATAAAATTAAACATA
*
12886158 TGTATTTATTCCTTTACATATCAAGTTGAATCAAA
66 TGTATTTATTCCTTTAAATATCAAGTTGAATCAAA
12886193 ATA
1 ATA
12886196 CTAACATTAT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
100 17 0.17
101 83 0.83
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (100 bp):
ATAATTTTACATTGATATATTGAATAAATAAATAATTATATTAATTTAATATAAAATTAAACATA
TGTATTTATTCCTTTAAATATCAAGTTGAATCAAA
Found at i:12888995 original size:50 final size:50
Alignment explanation
Indices: 12888920--12889143 Score: 283
Period size: 57 Copynumber: 4.4 Consensus size: 50
12888910 CCATGGCAAC
* *
12888920 AAGTGATAAGTGATAGCTTCAGCTACATTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
*
12888970 AAGTGATAAGTGATAGCTCCGGCTACACTTATCTGAT---GAACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
*
12889017 AAGTGATAAGTGATAGCTTCGGCTGCACTTATCTGATCAAGGACAAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-G----A--ACAAGTGA
* *
12889074 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
* *
12889124 CAAGTGAAAAGTGGTAGCTT
1 -AAGTGATAAGTGATAGCTT
12889144 TACCTGATTA
Statistics
Matches: 153, Mismatches: 10, Indels: 21
0.83 0.05 0.11
Matches are distributed among these distances:
47 45 0.29
50 41 0.27
51 18 0.12
55 1 0.01
56 1 0.01
57 47 0.31
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
Found at i:12889099 original size:104 final size:97
Alignment explanation
Indices: 12888920--12889110 Score: 283
Period size: 104 Copynumber: 1.9 Consensus size: 97
12888910 CCATGGCAAC
*
12888920 AAGTGATAAGTGATAGCTTCAGCTACATTTATCTGATCAAGAACAAGTGAAAGTGATAAGTGATA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAACAAGTGAAAGTGATAAGTGATA
12888985 GCTCCGGCTACACTTATCTGATGAACAAGTGA
66 GCTCCGGCTACACTTATCTGATGAACAAGTGA
* *
12889017 AAGTGATAAGTGATAGCTTCGGCTGCACTTATCTGATCAAGGACAAATGACAAGTGAAAGTGATA
1 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAA-G----A--ACAAGTGAAAGTGATA
*
12889082 AGTGATAGCTTCGGCTACACTTATCTGAT
59 AGTGATAGCTCCGGCTACACTTATCTGAT
12889111 CAAGGACAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
97 37 0.45
98 1 0.01
102 1 0.01
104 44 0.53
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (97 bp):
AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAACAAGTGAAAGTGATAAGTGATA
GCTCCGGCTACACTTATCTGATGAACAAGTGA
Found at i:12889182 original size:31 final size:31
Alignment explanation
Indices: 12889126--12889239 Score: 164
Period size: 31 Copynumber: 3.8 Consensus size: 31
12889116 ACAAATGACA
12889126 AGTGAAAAGTGGTAGCTT----TACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
12889153 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
* *
12889184 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
* *
12889215 AGTGAATAGTGGTAGCTTTGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
12889240 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
27 18 0.23
31 60 0.77
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
Found at i:12889341 original size:47 final size:48
Alignment explanation
Indices: 12889258--12889381 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 48
12889248 AGTGATTTCC
* * * * **
12889258 ATGTAAAATCATATCTGGGATATGGTATCGGAGTGATAAGTGCATTTG
1 ATGTAAGACCATATCTGGGATATGGCATTGGAGTGATAAGTGCATAAG
* * *
12889306 -TGTAAGACCATATCTGGGATATGGCATTGGTGTGATATGTGTATAAG
1 ATGTAAGACCATATCTGGGATATGGCATTGGAGTGATAAGTGCATAAG
* * *
12889353 ATGTAAGACTATAGCTGGGTTATGGCATT
1 ATGTAAGACCATATCTGGGATATGGCATT
12889382 TTAGTAAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
47 38 0.60
48 25 0.40
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (48 bp):
ATGTAAGACCATATCTGGGATATGGCATTGGAGTGATAAGTGCATAAG
Found at i:12890946 original size:19 final size:19
Alignment explanation
Indices: 12890922--12890974 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
12890912 TTTTAATGTC
*
12890922 TTTAAATAATTCTT-ATATT
1 TTTAAATAATT-TTAAAATT
12890941 TTTAAATAAATTTTAAAATT
1 TTTAAAT-AATTTTAAAATT
12890961 TTCTAAATAATTTT
1 TT-TAAATAATTTT
12890975 TTTTGTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.30
20 16 0.53
21 5 0.17
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAATAATTTTAAAATT
Found at i:12890998 original size:20 final size:20
Alignment explanation
Indices: 12890973--12891017 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
12890963 CTAAATAATT
*
12890973 TTTTTTGTTAA-TTTTCATAA
1 TTTTTTGTTAACTTTT-ACAA
*
12890993 TTTTTTTTTAACTTTTACAA
1 TTTTTTGTTAACTTTTACAA
12891013 TTTTT
1 TTTTT
12891018 AATGATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTTGTTAACTTTTACAA
Found at i:12892241 original size:3 final size:3
Alignment explanation
Indices: 12892233--12892650 Score: 154
Period size: 3 Copynumber: 135.7 Consensus size: 3
12892223 CAATTTAATC
* *
12892233 TAT TAT TAT TACT TAT TAT T-T TAC TAT TAT TAT CTAA TA- TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * * * * *
12892278 CAT TAT CAC TGT TAT TAC T-T TAC TAT TGT AACT TAAT GTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T T-AT -TAT TAT TAT
* *
12892325 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * * * * *
12892370 CTAGT AACT TAT TAC TAT TCT TGT TAGCG TAT CAT TATT TCT TAT T-T
1 -TA-T TA-T TAT TAT TAT TAT TAT TA--T TAT TAT TA-T TAT TAT TAT
* * ** * * *
12892417 TTT TA- TAT TAT CAT CGT TAT TAA CAT ATAT TAT TAT CAT TAAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T-AT -TAT
* * * *
12892464 TAT TAT TAT CAT TAT TAC GAT TAC TAT TAT TAT TAT T-T TAAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT
* * * * * * *
12892510 ATAT TAG CAT T-T ATAT TAT CAT TAT TAT TAC TAT TGT TAA TAT TCT
1 -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * * *
12892556 CGT TAC TAT TAT TTT TAT TCAT T-T TAT TATT TAT TAT CAA CA- TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT TAT TAT
* **
12892601 TAT TGT TGC 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
12892649 TA
1 TA
12892651 ACATTTTTAA
Statistics
Matches: 304, Mismatches: 83, Indels: 56
0.69 0.19 0.13
Matches are distributed among these distances:
2 15 0.05
3 248 0.82
4 34 0.11
5 7 0.02
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:12894836 original size:41 final size:41
Alignment explanation
Indices: 12894785--12894864 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
12894775 TATTTATATT
*
12894785 AAAAACACTACCATAAATATAATAAATGTTTTATTATATCA
1 AAAAACACTACCATAAATATAATAAATATTTTATTATATCA
12894826 AAAAACACTACCATAAATATAATAAATATTTTATTATAT
1 AAAAACACTACCATAAATATAATAAATATTTTATTATAT
12894865 TAAATATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (41 bp):
AAAAACACTACCATAAATATAATAAATATTTTATTATATCA
Found at i:12894971 original size:6 final size:6
Alignment explanation
Indices: 12894960--12894989 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
12894950 ATAGTGATTT
12894960 AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA
12894990 TATAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:12896127 original size:24 final size:24
Alignment explanation
Indices: 12896099--12896148 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
12896089 CTAAACCATC
12896099 CCACTAACTCCATCACCCCACTTG
1 CCACTAACTCCATCACCCCACTTG
12896123 CCACTAACTCCATCACCCCACTTG
1 CCACTAACTCCATCACCCCACTTG
12896147 CC
1 CC
12896149 TACAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.52, G:0.04, T:0.20
Consensus pattern (24 bp):
CCACTAACTCCATCACCCCACTTG
Found at i:12896512 original size:3 final size:3
Alignment explanation
Indices: 12896504--12896699 Score: 195
Period size: 3 Copynumber: 65.7 Consensus size: 3
12896494 GGGGAGAGTG
12896504 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
12896552 TTA TTA TTA TTA TTA TTA TCA TTA TTA TCA TTA TTGA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA
** ** * * * *
12896599 TTA TTA GAA ACA -TA TTT TTA TTT TTA TTA TTT TTA -TA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
12896645 TTA TTA ATA -TA TTA TTA TTA TTA TTG TCT- TCTA TT- TTA TTG TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA
12896689 TTA TTA TTA TT
1 TTA TTA TTA TT
12896700 TTAATCGTTA
Statistics
Matches: 164, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
2 7 0.04
3 151 0.92
4 4 0.02
5 2 0.01
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:12897488 original size:126 final size:126
Alignment explanation
Indices: 12897258--12897491 Score: 387
Period size: 126 Copynumber: 1.9 Consensus size: 126
12897248 TTCTCAATTG
* * * * * *
12897258 TTTTTAAAATAATGGCAATGTTTGGTATTTAAAGACTTTGAAGAATCGTGCCCTAACGTACTGGG
1 TTTTCAAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGG
*
12897323 TTTCGCTTTCTTTATTTGTCTTGAATATTCGGATATCCTCTTACCAGTTCACTCTAAAAAA
66 TTTCGCTTTCTTTATTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAA
12897384 TTTTCAAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGG
1 TTTTCAAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGG
* *
12897449 TTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 TTTCGCTTTCTTTATTTGTCTTGAATATTCGAATATCCTCTTA
12897492 AGGCTAAAAC
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 99 1.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.39
Consensus pattern (126 bp):
TTTTCAAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGG
TTTCGCTTTCTTTATTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAA
Found at i:12899922 original size:26 final size:26
Alignment explanation
Indices: 12899886--12900021 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
12899876 TGATACAAAT
12899886 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
12899912 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
12899938 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
12899964 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
12899990 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
12900016 TGATAA
1 TGATAA
12900022 GAATATCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:12901983 original size:19 final size:19
Alignment explanation
Indices: 12901959--12902002 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12901949 CCAAATGGGC
* *
12901959 TTGCATATGCTTACTGATG
1 TTGCATATACTTACTAATG
* *
12901978 TTGCATGTATTTACTAATG
1 TTGCATATACTTACTAATG
12901997 TTGCAT
1 TTGCAT
12902003 GTATTTTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCATATACTTACTAATG
Found at i:12902003 original size:19 final size:19
Alignment explanation
Indices: 12901969--12902008 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
12901959 TTGCATATGC
*
12901969 TTACTGATGTTGCATGTAT
1 TTACTAATGTTGCATGTAT
12901988 TTACTAATGTTGCATGTAT
1 TTACTAATGTTGCATGTAT
12902007 TT
1 TT
12902009 TGAAATGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (19 bp):
TTACTAATGTTGCATGTAT
Found at i:12902112 original size:156 final size:156
Alignment explanation
Indices: 12901822--12902116 Score: 536
Period size: 156 Copynumber: 1.9 Consensus size: 156
12901812 CCAAATGGGC
* *
12901822 TTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTATCTGAA
1 TTGCATATATTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTATCTGAA
*
12901887 TAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACCACTGTTACCCA
66 TAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTTACCCA
12901952 AATGGGCTTGCATATGCTTACTGATG
131 AATGGGCTTGCATATGCTTACTGATG
*
12901978 TTGCATGTATTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTATCTGAA
1 TTGCATATATTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTATCTGAA
**
12902043 TAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTTACCTG
66 TAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTTACCCA
12902108 AATGGGCTT
131 AATGGGCTT
12902117 AGGCCCAATA
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 133 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (156 bp):
TTGCATATATTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGTTATCTGAA
TAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCACTGTTACCCA
AATGGGCTTGCATATGCTTACTGATG
Found at i:12904474 original size:21 final size:20
Alignment explanation
Indices: 12904448--12904490 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
12904438 CATCAAATTC
12904448 AAAAAATAAAAATAAAAAGAA
1 AAAAAATAAAAA-AAAAAGAA
*
12904469 AAAAAATAAAAAAAGAAGAA
1 AAAAAATAAAAAAAAAAGAA
12904489 AA
1 AA
12904491 GATGCCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (20 bp):
AAAAAATAAAAAAAAAAGAA
Found at i:12906554 original size:85 final size:85
Alignment explanation
Indices: 12906414--12907293 Score: 1522
Period size: 85 Copynumber: 10.4 Consensus size: 85
12906404 ATCCACACGT
* *
12906414 CTTAACCCCCTAAGCAGTAGGGT-A-A-GCTAAAATTTACAGATTTGGGCTCACCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
12906476 GGAGCAGGTCGAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
*
12906496 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
12906561 GGAGCAGGTCGAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
12906581 CTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
*
12906645 GGAACAGGTCGAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
* *
12906665 CTTAACCTCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGTGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
12906730 GGAGCAGGTCGAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
* * * *
12906750 CTTAACCCCCTAAGCAGTAAGGTAATAGGTTAAAATTTACAGATCTGGGCTCACCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
12906815 GGAGCAGGTCGAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
* *
12906835 CTTAACCTCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCACCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
12906900 GGAGC-GGTCGAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
*
12906919 CTTAA-CCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
12906983 GGAGCAGGTCGAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
* *
12907003 CTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATCTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
*
12907068 GGAGCAGGTCAAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
*
12907088 CTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATCTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
12907152 GGAGCAGGTCGAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
* *
12907172 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATTTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
*
12907237 GGAGTAGGTCGAAGACTCGC
66 GGAGCAGGTCGAAGACTCGC
*
12907257 CTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAATT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATT
12907294 GCAAATCTCA
Statistics
Matches: 760, Mismatches: 31, Indels: 11
0.95 0.04 0.01
Matches are distributed among these distances:
82 22 0.03
83 62 0.08
84 203 0.27
85 473 0.62
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (85 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
GGAGCAGGTCGAAGACTCGC
Found at i:12906696 original size:169 final size:170
Alignment explanation
Indices: 12906414--12907293 Score: 1522
Period size: 169 Copynumber: 5.2 Consensus size: 170
12906404 ATCCACACGT
* *
12906414 CTTAACCCCCTAAGCAGTAGGGT-A-A-GCTAAAATTTACAGATTTGGGCTCACCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
*
12906476 GGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGATC
66 GGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
12906541 TGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACTCGC
131 TGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACTCGC
12906581 CTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
* *
12906645 GGAACAGGTCGAAGACTCGCCTTAACCTCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
66 GGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
*
12906710 TGTGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACTCGC
131 TGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACTCGC
* * * *
12906750 CTTAACCCCCTAAGCAGTAAGGTAATAGGTTAAAATTTACAGATCTGGGCTCACCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
*
12906815 GGAGCAGGTCGAAGACTCGCCTTAACCTCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
66 GGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
*
12906880 TGGGCTCACCGAGCAGTGGTGGAGC-GGTCGAAGACTCGC
131 TGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACTCGC
*
12906919 CTTAA-CCCCTAAGTAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
* *
12906983 GGAGCAGGTCGAAGACTCGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATC
66 GGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
*
12907048 TGGGCTCGCCGAGCAGTGGTGGAGCAGGTCAAAGACTCGC
131 TGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACTCGC
*
12907088 CTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATCTGGGCTCGCCGAGCAGTGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
* *
12907152 GGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGATT
66 GGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
*
12907217 TGGGCTCGCCGAGCAGTGGTGGAGTAGGTCGAAGACTCGC
131 TGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACTCGC
*
12907257 CTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAATT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATT
12907294 GCAAATCTCA
Statistics
Matches: 677, Mismatches: 30, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
166 17 0.03
167 6 0.01
168 141 0.21
169 341 0.50
170 172 0.25
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (170 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
GGAGCAGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC
TGGGCTCGCCGAGCAGTGGTGGAGCAGGTCGAAGACTCGC
Found at i:12906726 original size:44 final size:44
Alignment explanation
Indices: 12906592--12906726 Score: 104
Period size: 44 Copynumber: 3.1 Consensus size: 44
12906582 TTAACCCCTA
*
12906592 AGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCG
1 AGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGTGCTCGCCG
* * * * * * **
12906636 AGCAGT-GGTGGAACAGGTCGAAGA-CT-C-G-CCT-TAACCTC-CTA
1 AGCAGTAGG-GTAACAGG-CTAAAATTTACAGATCTGT--GCTCGCCG
12906677 AGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGTGCTCGCCG
1 AGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGTGCTCGCCG
12906721 AGCAGT
1 AGCAGT
12906727 GGTGGAGCAG
Statistics
Matches: 63, Mismatches: 17, Indels: 22
0.62 0.17 0.22
Matches are distributed among these distances:
40 4 0.06
41 17 0.27
42 7 0.11
43 7 0.11
44 23 0.37
45 5 0.08
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (44 bp):
AGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGTGCTCGCCG
Found at i:12907578 original size:133 final size:135
Alignment explanation
Indices: 12907340--12907649 Score: 380
Period size: 133 Copynumber: 2.3 Consensus size: 135
12907330 TAAATTTCGA
*
12907340 TAGATCTTATCTTTACTGAGCAGGAGTGAAGCAAATCAAATTTTGGCAAGTCTTATCTCCATGTA
1 TAGATCTTATCTTTACTGAGCAGGAGGGAAGCAAATCAAATTTTGGCAAGTCTTATCTCCATGTA
* ** * * * *
12907405 ACGGCAATGGAGTATATTTCAGCCACGAGCCTTATCTTCACTGAGAAGGAGTGGAGCAGGCT-AA
66 ACGACAATGGACCAGATTCCAACCACGAGCATTATCTTCACTGAGAAGGAGTGGAGCAGGCTAAA
12907469 -ATAC
131 CATAC
** *
12907473 TAGATCTTATCTTCGCTGAGCAGGAGCGGAA-CAGATCAAATTTTGATG-AA-TCTTATCTCCAT
1 TAGATCTTATCTTTACTGAGCAGGAG-GGAAGCAAATCAAATTTTG--GCAAGTCTTATCTCCAT
* * *
12907535 GTATCGACAATGGACCAGATTCCAATCATC-AGCATTATCTTCACTGAGCAGGAGTGGAGCAGGC
63 GTAACGACAATGGACCAGATTCCAACCA-CGAGCATTATCTTCACTGAGAAGGAGTGGAGCAGGC
12907599 TAAACATAC
127 TAAACATAC
* * **
12907608 CAGATCTTATTTTTACTGAGCAGGAGTAAAGCAAATCAAATT
1 TAGATCTTATCTTTACTGAGCAGGAGGGAAGCAAATCAAATT
12907650 ACAACAGATC
Statistics
Matches: 149, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
133 102 0.68
134 10 0.07
135 37 0.25
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (135 bp):
TAGATCTTATCTTTACTGAGCAGGAGGGAAGCAAATCAAATTTTGGCAAGTCTTATCTCCATGTA
ACGACAATGGACCAGATTCCAACCACGAGCATTATCTTCACTGAGAAGGAGTGGAGCAGGCTAAA
CATAC
Found at i:12907993 original size:24 final size:24
Alignment explanation
Indices: 12907965--12908014 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
12907955 CTAAACCATC
*
12907965 CCACTAACTCCATTACCCCACTTG
1 CCACTAACTCCATCACCCCACTTG
12907989 CCACTAACTCCATCACCCCACTTG
1 CCACTAACTCCATCACCCCACTTG
12908013 CC
1 CC
12908015 TACAAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.50, G:0.04, T:0.22
Consensus pattern (24 bp):
CCACTAACTCCATCACCCCACTTG
Found at i:12908383 original size:3 final size:3
Alignment explanation
Indices: 12908369--12908562 Score: 157
Period size: 3 Copynumber: 64.7 Consensus size: 3
12908359 GGGGAGAGTG
*
12908369 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
12908417 TTA TTA TTA -TA TTA -TA CTTA TT- TTA TTA CTG TTA CTA TTA TTT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** **
12908460 TGTA TATA TTTA TTA TCA TTA TTGA TTTA TTA TTA TTA TTA GAA ACA
1 T-TA T-TA -TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA
* * * * *
12908507 -TA TTT TTA TTT TTA TTA TTT TTA -TA TTA TTA TTT TTA TTA ATA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12908552 TTA TTA TTA TT
1 TTA TTA TTA TT
12908563 GTCTTCTATT
Statistics
Matches: 153, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
2 11 0.07
3 129 0.84
4 10 0.07
5 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:12908828 original size:2 final size:2
Alignment explanation
Indices: 12908779--12908817 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
12908769 TTTATCTATG
12908779 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12908818 TTTCATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12917585 original size:18 final size:18
Alignment explanation
Indices: 12917543--12917588 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
12917533 CTATAAGAAT
12917543 ATAGATAA--TAAAATAA
1 ATAGATAATTTAAAATAA
** *
12917559 ATATTTAATTTAAACTAA
1 ATAGATAATTTAAAATAA
12917577 ATAGATAATTTA
1 ATAGATAATTTA
12917589 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
16 6 0.26
18 17 0.74
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (18 bp):
ATAGATAATTTAAAATAA
Found at i:12917821 original size:2 final size:2
Alignment explanation
Indices: 12917814--12917845 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12917804 TCTTTGCATT
12917814 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12917846 CATGATCCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12924957 original size:4 final size:4
Alignment explanation
Indices: 12924948--12924992 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
12924938 TGAACGTGCA
12924948 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
12924993 CAGCATGATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:12936107 original size:18 final size:18
Alignment explanation
Indices: 12936079--12936114 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12936069 TTTCTGAACT
12936079 TTTTATATATTTATTTTTA
1 TTTTATATATTT-TTTTTA
12936098 TTTT-TATATTTTTTTTA
1 TTTTATATATTTTTTTTA
12936115 ACGTGCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATATATTTTTTTTA
Found at i:12944697 original size:29 final size:31
Alignment explanation
Indices: 12944664--12944723 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
12944654 ATTCATTTAC
*
12944664 TTAAT-TT-TCAAAAAATAATAAATTAATCA
1 TTAATATTATCAAAAAATAATAAATCAATCA
* *
12944693 TTAATATTATCAAAAAGTGATAAATCAATCA
1 TTAATATTATCAAAAAATAATAAATCAATCA
12944724 CCTATTAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 2 0.08
31 19 0.73
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.35
Consensus pattern (31 bp):
TTAATATTATCAAAAAATAATAAATCAATCA
Found at i:12946524 original size:40 final size:40
Alignment explanation
Indices: 12946479--12946646 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
12946469 CGGAATATAA
12946479 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
12946519 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
12946559 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
12946599 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
12946639 CCGGATAT
1 CCGGATAT
12946647 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:12950352 original size:32 final size:31
Alignment explanation
Indices: 12950307--12950379 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
12950297 ATATAACAAT
*
12950307 AATATATAC--ATAAATAAATTCAAAAGAAG
1 AATATATACATATAAATAAATTCAAAAGAAC
* *
12950336 ATATATATACATATAAATACATTTAAAAGAAC
1 A-ATATATACATATAAATAAATTCAAAAGAAC
*
12950368 AATATTTACATA
1 AATATATACATA
12950380 AAACAGTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 8 0.22
31 10 0.27
32 18 0.49
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (31 bp):
AATATATACATATAAATAAATTCAAAAGAAC
Found at i:12953491 original size:24 final size:24
Alignment explanation
Indices: 12953463--12953510 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
12953453 TAATTGAATT
12953463 TGAGTGTAATTACTTGTAATTATA
1 TGAGTGTAATTACTTGTAATTATA
12953487 TGAGTGTAATTACTTGTAATTATA
1 TGAGTGTAATTACTTGTAATTATA
12953511 CGTGTTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (24 bp):
TGAGTGTAATTACTTGTAATTATA
Found at i:12953845 original size:50 final size:50
Alignment explanation
Indices: 12953773--12953873 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
12953763 TAAACATAAC
* *
12953773 CCTTCAATCTCCAAAGTGGAAGATATCATATGCTTTAGCGTATTTAAACT
1 CCTTCAATCTCCAAAGTAGAAGATATCATATGCTTTAGCGAATTTAAACT
12953823 CCTTCAATCTCCAAAGTAGAAGATATCATATGCTTTAGCGAATTTAAACT
1 CCTTCAATCTCCAAAGTAGAAGATATCATATGCTTTAGCGAATTTAAACT
12953873 C
1 C
12953874 TTAAGTTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (50 bp):
CCTTCAATCTCCAAAGTAGAAGATATCATATGCTTTAGCGAATTTAAACT
Found at i:12954465 original size:3 final size:3
Alignment explanation
Indices: 12954459--12954490 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12954449 CATCATTTCA
12954459 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12954491 AGACTCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12970100 original size:21 final size:21
Alignment explanation
Indices: 12970076--12970138 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
12970066 TAGAAGCTCG
12970076 TAAGGGCTAAACGAAAACCCA
1 TAAGGGCTAAACGAAAACCCA
* * * **
12970097 TAAGGGTTAAACTAAAGCTTA
1 TAAGGGCTAAACGAAAACCCA
* *
12970118 AAAGAGCTAAACGAAAACCCA
1 TAAGGGCTAAACGAAAACCCA
12970139 ATATGGTTAA
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.14
Consensus pattern (21 bp):
TAAGGGCTAAACGAAAACCCA
Found at i:12970102 original size:42 final size:42
Alignment explanation
Indices: 12970055--12970159 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
12970045 CGAAAAACAG
* ** *
12970055 TAAGGGTTGAA-TAGAAGCTCGTAAGGGCTAAACGAAAACCCA
1 TAAGGGTTAAACTA-AAGCTCAAAAGAGCTAAACGAAAACCCA
*
12970097 TAAGGGTTAAACTAAAGCTTAAAAGAGCTAAACGAAAACCCA
1 TAAGGGTTAAACTAAAGCTCAAAAGAGCTAAACGAAAACCCA
*
12970139 -ATATGGTTAAACTGAAA-CTCA
1 TA-AGGGTTAAACT-AAAGCTCA
12970160 TATGAGTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.02
42 47 0.89
43 5 0.09
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (42 bp):
TAAGGGTTAAACTAAAGCTCAAAAGAGCTAAACGAAAACCCA
Found at i:12970194 original size:21 final size:20
Alignment explanation
Indices: 12970125--12970195 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
12970115 TTAAAAGAGC
*
12970125 TAAACGAAAACCCAATATG-GT
1 TAAACG-AAACTC-ATATGAGT
12970146 TAAACTGAAACTCATATGAGT
1 TAAAC-GAAACTCATATGAGT
12970167 T-AACGAAAGCTCATGA-GAGT
1 TAAACGAAA-CTCAT-ATGAGT
12970187 TAAACGAAA
1 TAAACGAAA
12970196 AGTAAACATG
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
19 4 0.09
20 18 0.41
21 21 0.48
22 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.21
Consensus pattern (20 bp):
TAAACGAAACTCATATGAGT
Found at i:12975591 original size:12 final size:12
Alignment explanation
Indices: 12975574--12975607 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12975564 CGGCCTGCCC
12975574 ATATTAATTTTT
1 ATATTAATTTTT
*
12975586 ATATTATTTTTT
1 ATATTAATTTTT
12975598 ATA-TAATTTT
1 ATATTAATTTT
12975608 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:12975775 original size:30 final size:30
Alignment explanation
Indices: 12975732--12975789 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
12975722 TTTAACAAGT
*
12975732 AAATGCCTCTAAAATAATAACAAAATTATC
1 AAATGCCTCTAAAATAATAAAAAAATTATC
* *
12975762 AAATGTCTTTAAAATAATAAAAAAATTA
1 AAATGCCTCTAAAATAATAAAAAAATTA
12975790 ACAATATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTATC
Found at i:12975829 original size:22 final size:22
Alignment explanation
Indices: 12975804--12975846 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12975794 TATCCAAATA
12975804 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
12975826 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
12975847 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:12975850 original size:11 final size:11
Alignment explanation
Indices: 12975811--12975851 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
12975801 ATAATAACAA
12975811 CAAAATAGTAG
1 CAAAATAGTAG
* *
12975822 CAACATAATAG
1 CAAAATAGTAG
*
12975833 TAAAATAGTAG
1 CAAAATAGTAG
12975844 CAAAATAG
1 CAAAATAG
12975852 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:12977977 original size:13 final size:13
Alignment explanation
Indices: 12977959--12977984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12977949 AATGCATTAA
12977959 AAACAACAAAAAC
1 AAACAACAAAAAC
12977972 AAACAACAAAAAC
1 AAACAACAAAAAC
12977985 CAAAGATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAACAAAAAC
Found at i:12980987 original size:32 final size:32
Alignment explanation
Indices: 12980951--12981012 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
12980941 GAAAAATATA
**
12980951 ATCAAAATTTATAATTTCAATTTCAATTAACC
1 ATCAAAACATATAATTTCAATTTCAATTAACC
* *
12980983 ATCAAAACATATAATTTCGATTTTAATTAA
1 ATCAAAACATATAATTTCAATTTCAATTAA
12981013 TGGCCTCTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (32 bp):
ATCAAAACATATAATTTCAATTTCAATTAACC
Found at i:12982852 original size:39 final size:39
Alignment explanation
Indices: 12982798--12982872 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
12982788 GGCAATTTTT
12982798 AGTATTATTATGGTTTCAAAGAATCTCACCTTTCTTCTA
1 AGTATTATTATGGTTTCAAAGAATCTCACCTTTCTTCTA
12982837 AGTATTATTATGGTTTCAAAGAATCTCACCTTTCTT
1 AGTATTATTATGGTTTCAAAGAATCTCACCTTTCTT
12982873 TTGAGTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (39 bp):
AGTATTATTATGGTTTCAAAGAATCTCACCTTTCTTCTA
Found at i:12985453 original size:4 final size:4
Alignment explanation
Indices: 12985444--12985476 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
12985434 CCTCAAAGAT
12985444 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG A
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG A
12985477 ATGTGTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
ATAG
Found at i:12987931 original size:26 final size:27
Alignment explanation
Indices: 12987888--12987942 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
12987878 TAAATACAAA
*
12987888 TTATAATTTAATTTATTAATTTTTAATAT
1 TTATAATTTAA--TATTAATTTTAAATAT
*
12987917 TTATAATTTAA-ATTAGTTTTAAATAT
1 TTATAATTTAATATTAATTTTAAATAT
12987943 AAAAATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.54
29 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TTATAATTTAATATTAATTTTAAATAT
Found at i:12991498 original size:13 final size:13
Alignment explanation
Indices: 12991480--12991504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12991470 AAAAATAAGT
12991480 ACATATTATTTTA
1 ACATATTATTTTA
12991493 ACATATTATTTT
1 ACATATTATTTT
12991505 GTATTATTTT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ACATATTATTTTA
Found at i:12996517 original size:133 final size:133
Alignment explanation
Indices: 12996273--12996593 Score: 473
Period size: 133 Copynumber: 2.4 Consensus size: 133
12996263 ATTCACAAGT
*
12996273 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAAATTACAAATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAAATCTTATCTCCCTAAGCAGTAG
* * * * *
12996338 TGGAGCAGGTCGAAGACGACGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGCCACC
66 TGAAGCAGATCGAAGACGACAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
12996403 AGC
131 AGC
* *
12996406 CTTATCTCCCTGAAGTTGCAGTGGAGCATACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAAATCTTATCTCCCTAAGCAGTAG
* * *
12996471 TGAAGTAGATCGAAGACGATAAATCTTATTTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
66 TGAAGCAGATCGAAGACGACAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
12996536 AGC
131 AGC
* * * * * * *
12996539 CTTATTTCCTTGAAGTTACAGTGGAGCAGGCTCAAGA-TACAAGTCTTATCTCCCT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAAATCTTATCTCCCT
12996594 GAAGTTACAG
Statistics
Matches: 168, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
132 16 0.10
133 152 0.90
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAAATCTTATCTCCCTAAGCAGTAG
TGAAGCAGATCGAAGACGACAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
AGC
Found at i:12996564 original size:44 final size:44
Alignment explanation
Indices: 12996516--12996614 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
12996506 GTATCGACAA
* * * * * *
12996516 TGGAGCAGATTTAAGCCACCAGCCTTATTTCCTTGAAGTTACAG
1 TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGTTACAG
* * *
12996560 TGGAGCAGGCTCAAGATACAAGTCTTATCTCCCTGAAGTTACAG
1 TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGTTACAG
12996604 TGGAGCAGACT
1 TGGAGCAGACT
12996615 GAAAATTACA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGTTACAG
Found at i:12996594 original size:177 final size:173
Alignment explanation
Indices: 12996406--12997357 Score: 930
Period size: 177 Copynumber: 5.5 Consensus size: 173
12996396 AGCCACCAGC
*
12996406 CTTATCTCCCTGAAGTTGCAGTGGAGCATACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* ** * * *
12996471 TGAAGTAGATCGAAGACGATAAATCTTATTTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
66 TGAAGCAGATCGAAGACGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACC
*
12996536 AGCCTTATTTC-CTTGAAGTTACAGTGGAGCAGGCTCAAGATACAAGT
131 AGCCTTATTTCTC-TGAAG-TA-A--GGAGCAGGTTCAAGATACAAGT
*
12996583 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * * * * *
12996648 TGGAGTAGATCGAAAACGGCGAATCTTATCTCCATATATCGGCAATGGAGCAGATTTTAGCCACT
66 TGAAGCAGATCGAAGACGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACC
* * * *
12996713 AGCCTTATCTCTCTGAGGTAGCAAGAGAG-ATGGTTAAATATACAAGT
131 AGCCTTATTTCTCTGA---AGTAAG-GAGCA-GGTTCAAGATACAAGT
* * * * * * *
12996760 CTTATCTTCCTGAGGTAGCAAG-GAAGTAGACTGAAAATTGCAGATATTATCTCCCTAAGCAGTA
1 CTTATCTCCCTGAAGTTGC-AGTGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTA
*
12996824 GT-AGAGCAGATCGAAGACGACGAATCTTATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCA
65 GTGA-AGCAGATCGAAGACGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCA
* * * * * * *
12996888 CCAGTCTTATCTTTTTTTAGGTAGTAAGAGAGTAGGTTGAAGATACAACT
129 CCAGCCTTA--TTTCTCT--GAAGTAAG-GAGCAGGTTCAAGATACAAGT
* * * * * * * *
12996938 CTTATCTTCCTAAAGTAGCAAG-GAAGTAGACTAAAAATTGCAGATCTTATCCCCCTAAGCAGT-
1 CTTATCTCCCTGAAGTTGC-AGTGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTA
* * * * * *
12997001 GTGGAGTAGATCGAAGACGGA-AAATCTTATCTCCATGTATTGGTAAAGGAGCAGATTTTAGCCA
65 GTGAAGCAGATCGAAGAC-GACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCA
* * * * *
12997065 CCAGCCTTATCTCTCTGAA--AA-GAGCAGGTTTAAAATTCGAGT
129 CCAGCCTTATTTCTCTGAAGTAAGGAGCAGGTTCAAGATACAAGT
* * ** *
12997107 CTTATTTACCTGAAGTTGCAGTGGAGCAGACTGAAAATTGTAGATCTTATCTCCCTAAACAGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * * * **
12997172 T-AGAGCAAATCGAAGACGACGGATCTTATCTCCATGTATTGGCAATTGAGCAGATTTTAATCAC
66 TGA-AGCAGATCGAAGACGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* **
12997236 TAGCCTTATTTCTCTGAAG--A-GAGCAGGTTCAAGATATGAGT
130 CAGCCTTATTTCTCTGAAGTAAGGAGCAGGTTCAAGATACAAGT
* * * * *
12997277 CTTATCTCCCTAAAGTTGCAGTGGAACAGGCT-AAAGATTGA-AGATCTTATCTCCTTAAGCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA-ATT-ACAGATCTTATCTCCCTAAGCAGT
12997340 AGTGGAA-CAGATCGAAGA
64 AGT-GAAGCAGATCGAAGA
12997358 TGGCAAATCC
Statistics
Matches: 653, Mismatches: 98, Indels: 55
0.81 0.12 0.07
Matches are distributed among these distances:
168 2 0.00
169 70 0.11
170 147 0.23
171 3 0.00
172 1 0.00
173 2 0.00
175 4 0.01
176 2 0.00
177 327 0.50
178 86 0.13
179 6 0.01
180 2 0.00
181 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (173 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
TGAAGCAGATCGAAGACGACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACC
AGCCTTATTTCTCTGAAGTAAGGAGCAGGTTCAAGATACAAGT
Found at i:12996630 original size:133 final size:133
Alignment explanation
Indices: 12996273--12996636 Score: 412
Period size: 133 Copynumber: 2.7 Consensus size: 133
12996263 ATTCACAAGT
* * * * *
12996273 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAAATTACAAATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAAATTACAGATCTTATCTCCCTAAGCAGCAG
* * * * * *
12996338 TGGAGCAGGTCGAAGACGACGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTAAGCCACC
66 TGAAGCAGATCGAAAACGACAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
12996403 AGC
131 AGC
* * * *
12996406 CTTATCTCCCTGAAGTTGCAGTGGAGCATACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAAATTACAGATCTTATCTCCCTAAGCAGCAG
* * * *
12996471 TGAAGTAGATCGAAGACGATAAATCTTATTTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
66 TGAAGCAGATCGAAAACGACAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
12996536 AGC
131 AGC
* * * * *
12996539 CTTATTTCCTTGAAGTTACAGTGGAGCAGGCTCAAGA-TACA-AGTCTTATCTCCCTGAAGTTA-
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAAATTACAGA-TCTTATCTCCCT-AAG-CAG
* ** *
12996601 CAGTGGAGCAGA-CTGAAAATTACAGATCTTATCTCC
63 CAGTGAAGCAGATC-GAAAACGACAAATCTTATCTCC
12996637 CTAAGCAGTA
Statistics
Matches: 199, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
131 1 0.01
132 17 0.09
133 180 0.90
134 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAAATTACAGATCTTATCTCCCTAAGCAGCAG
TGAAGCAGATCGAAAACGACAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACC
AGC
Found at i:12998841 original size:13 final size:13
Alignment explanation
Indices: 12998823--12998847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12998813 AAAAATAAGT
12998823 ACATATTATTTTA
1 ACATATTATTTTA
12998836 ACATATTATTTT
1 ACATATTATTTT
12998848 GTATTATTTT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ACATATTATTTTA
Found at i:12999007 original size:2 final size:2
Alignment explanation
Indices: 12999000--12999041 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
12998990 CTAGATTGAC
12999000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12999042 TACTTTGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13001910 original size:19 final size:20
Alignment explanation
Indices: 13001888--13001926 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
13001878 AAATGTAATT
13001888 GAAAACAAAAAT-AAAGAAA
1 GAAAACAAAAATAAAAGAAA
* *
13001907 GAAAATAATAATAAAAGAAA
1 GAAAACAAAAATAAAAGAAA
13001927 AAGAGAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (20 bp):
GAAAACAAAAATAAAAGAAA
Found at i:13005559 original size:41 final size:41
Alignment explanation
Indices: 13005498--13005578 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
13005488 TGAGATTCGA
*
13005498 CCAAAAATCTTAAACTTTAAATTGAAAAAAATTACAATAAC
1 CCAAAAATCTTAAACTTTAAATAGAAAAAAATTACAATAAC
* *
13005539 CCAAAAA-CTCTAAA-TCTTAAATAGAAAGATATTACAATAA
1 CCAAAAATCT-TAAACT-TTAAATAGAAAAAAATTACAATAA
13005579 ACTCCACATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 3 0.09
41 32 0.91
ACGTcount: A:0.56, C:0.15, G:0.04, T:0.26
Consensus pattern (41 bp):
CCAAAAATCTTAAACTTTAAATAGAAAAAAATTACAATAAC
Found at i:13006673 original size:25 final size:25
Alignment explanation
Indices: 13006644--13006696 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
13006634 ATTAGAATTT
*
13006644 TACTC-TTTTTTTTTTCTTAATTTGA
1 TACTCATTTTTTTTGTC-TAATTTGA
13006669 TACTCAATTTTTTTTGTCTAATTTGA
1 TACTC-ATTTTTTTTGTCTAATTTGA
13006695 TA
1 TA
13006697 TCTGAACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 5 0.20
26 10 0.40
27 10 0.40
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (25 bp):
TACTCATTTTTTTTGTCTAATTTGA
Found at i:13007119 original size:61 final size:57
Alignment explanation
Indices: 13007035--13007195 Score: 157
Period size: 61 Copynumber: 2.8 Consensus size: 57
13007025 AATTGAATCT
* * * * *
13007035 AAAAAAACTTAGGTACAAAATTAAGAAAGAGTGTCAAGTTCAA-GTA-TCAAATTGGACTCA
1 AAAAAAAATTAAGTACCAAATTAAGAAAAAGTGTCAAGTTCAACATACT-AAATT-GA---A
**
13007095 AAAAAAAATTTAAGTACCAAATTAAGAAAAAGCATCAAGTT-AACATACTAAATTGAA
1 AAAAAAAA-TTAAGTACCAAATTAAGAAAAAGTGTCAAGTTCAACATACTAAATTGAA
* *
13007152 AAAAAAAATTAAGATACCAAATTAAGAAAAATTGTGAAGTTCAA
1 AAAAAAAATTAAG-TACCAAATTAAGAAAAAGTGTCAAGTTCAA
13007196 TTACCAATGT
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
56 5 0.06
57 32 0.38
58 2 0.02
60 11 0.13
61 34 0.40
62 1 0.01
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (57 bp):
AAAAAAAATTAAGTACCAAATTAAGAAAAAGTGTCAAGTTCAACATACTAAATTGAA
Found at i:13007168 original size:26 final size:25
Alignment explanation
Indices: 13007094--13007182 Score: 63
Period size: 26 Copynumber: 3.3 Consensus size: 25
13007084 AATTGGACTC
* *
13007094 AAAAAAAAATTTAA-GTACCAAATT
1 AAAAAAAAAATTAACATACCAAATT
*
13007118 AAGAAAAAGCATCAAGTTAACATACTAAATT
1 AA-AAAAA--A--AA-TTAACATACCAAATT
*
13007149 GAAAAAAAAAATTAAGATACCAAATT
1 -AAAAAAAAAATTAACATACCAAATT
*
13007175 AAGAAAAA
1 AAAAAAAA
13007183 TTGTGAAGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
24 2 0.04
25 12 0.24
26 13 0.25
27 3 0.06
29 2 0.04
30 4 0.08
31 13 0.25
32 2 0.04
ACGTcount: A:0.63, C:0.09, G:0.08, T:0.20
Consensus pattern (25 bp):
AAAAAAAAAATTAACATACCAAATT
Found at i:13013760 original size:11 final size:11
Alignment explanation
Indices: 13013744--13013768 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13013734 AGTGAGCAAC
13013744 CAGTCAAACCT
1 CAGTCAAACCT
13013755 CAGTCAAACCT
1 CAGTCAAACCT
13013766 CAG
1 CAG
13013769 AAGCTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.36, G:0.12, T:0.16
Consensus pattern (11 bp):
CAGTCAAACCT
Found at i:13014861 original size:38 final size:37
Alignment explanation
Indices: 13014639--13015047 Score: 254
Period size: 38 Copynumber: 11.2 Consensus size: 37
13014629 TAAACCTGTA
* * *
13014639 TAAGGCAA-CTATAAAAAGGTTGGTATAGTTCTTGTC
1 TAAGGCAACCTTTAAAAAGGTTGGGATAGATCTTGTC
* * **
13014675 TAATGCAACTTTTAAGAATA-GTTGGGATAGATC-CATC
1 TAAGGCAACCTTTAA-AA-AGGTTGGGATAGATCTTGTC
* * *
13014712 TATGGCAACCTTT-AAAAGGTTGGGATTGACTCAT-T-
1 TAAGGCAACCTTTAAAAAGGTTGGGATAGA-TCTTGTC
* *
13014747 TAAGGCAACC-TTAAAAAGGTTGAGATATG-CCTTGTC
1 TAAGGCAACCTTTAAAAAGGTTGGGATA-GATCTTGTC
* * ** * * * *
13014783 TAAAGCAACCCTTAAAAAAAATTGGTATAAACCTTATC
1 TAAGGCAA-CCTTTAAAAAGGTTGGGATAGATCTTGTC
* * *
13014821 TAAAGCAACTTTTTAAAAAAGTTGGGATAGATCTTGTC
1 TAAGGCAAC-CTTTAAAAAGGTTGGGATAGATCTTGTC
* * * *
13014859 TAAGGCAACCTTTAGGAAAGGTTGGGATAG-GCATGTT
1 TAAGGCAACCTTTA-AAAAGGTTGGGATAGATCTTGTC
* * *
13014896 TAAGGCAACCTTTTAAAAATGTTAGAATAGA-CATTGTC
1 TAAGGCAACC-TTTAAAAAGGTTGGGATAGATC-TTGTC
* *
13014934 TAAGGCAACCTTAAAAAAAGGTTGGGATAGA-CTTGTT
1 TAAGGCAACCTT-TAAAAAGGTTGGGATAGATCTTGTC
* * *
13014971 TAAAGCAA-CGTTAAAAAGGTTGCGATAGAT-TCT-TC
1 TAAGGCAACCTTTAAAAAGGTTGGGATAGATCT-TGTC
* * * * *
13015006 TAAGGTAACC-TTAAAAACGTTGGTATATATCTTATC
1 TAAGGCAACCTTTAAAAAGGTTGGGATAGATCTTGTC
13015042 TAAGGC
1 TAAGGC
13015048 GACTTTTAGC
Statistics
Matches: 287, Mismatches: 62, Indels: 48
0.72 0.16 0.12
Matches are distributed among these distances:
34 5 0.02
35 75 0.26
36 31 0.11
37 62 0.22
38 113 0.39
39 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (37 bp):
TAAGGCAACCTTTAAAAAGGTTGGGATAGATCTTGTC
Found at i:13014933 original size:75 final size:75
Alignment explanation
Indices: 13014777--13014979 Score: 214
Period size: 75 Copynumber: 2.7 Consensus size: 75
13014767 TGAGATATGC
* * * * * *
13014777 CTTGTCTAAAGCAACCCTTAAAAAAA-ATTGGTATAAACCT-TATCTAAAGCAACTTTTTAAAAA
1 CTTGTCTAAGGCAA-CCTTAAAAAAAGGTTGGGATAGACATGT-T-TAAAGCAACCTTTTAAAAA
* *
13014840 AGTTGGGATAGAT
63 AGTTAGAATAGAT
* ** * * *
13014853 CTTGTCTAAGGCAACCTTTAGGAAAGGTTGGGATAGGCATGTTTAAGGCAACCTTTTAAAAATGT
1 CTTGTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACATGTTTAAAGCAACCTTTTAAAAAAGT
13014918 TAGAATAGA-
66 TAGAATAGAT
*
13014927 CATTGTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACTTGTTTAAAGCAAC
1 C-TTGTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACATGTTTAAAGCAAC
13014980 GTTAAAAAGG
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
74 1 0.01
75 79 0.76
76 23 0.22
77 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (75 bp):
CTTGTCTAAGGCAACCTTAAAAAAAGGTTGGGATAGACATGTTTAAAGCAACCTTTTAAAAAAGT
TAGAATAGAT
Found at i:13019318 original size:17 final size:17
Alignment explanation
Indices: 13019296--13019328 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13019286 TGCATATTTG
13019296 AATAAAAACAACCCAAA
1 AATAAAAACAACCCAAA
*
13019313 AATAAAAACAGCCCAA
1 AATAAAAACAACCCAA
13019329 GGAAATATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.24, G:0.03, T:0.06
Consensus pattern (17 bp):
AATAAAAACAACCCAAA
Found at i:13024610 original size:19 final size:19
Alignment explanation
Indices: 13024586--13024635 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
13024576 GGTATAGAGC
13024586 ACACGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
13024605 ACACGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
13024624 ACACGCCCGTGT
1 ACACGCCCGTGT
13024636 CCCAAACCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (19 bp):
ACACGCCCGTGTGCTAGGG
Found at i:13029392 original size:23 final size:23
Alignment explanation
Indices: 13029366--13029417 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
13029356 ATATAAAGAA
13029366 AAGGAAAAAGAAAAACCAAAAGG
1 AAGGAAAAAGAAAAACCAAAAGG
13029389 AAGGAAAAAGAAAAACCAAAAGG
1 AAGGAAAAAGAAAAACCAAAAGG
13029412 AAGGAA
1 AAGGAA
13029418 GAAATACCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (23 bp):
AAGGAAAAAGAAAAACCAAAAGG
Found at i:13030728 original size:7 final size:7
Alignment explanation
Indices: 13030718--13030775 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
13030708 AAAACAATAC
13030718 ACCCTAA
1 ACCCTAA
13030725 ACCCTAA
1 ACCCTAA
13030732 ACTCCTAA
1 AC-CCTAA
**
13030740 ACTATAA
1 ACCCTAA
* *
13030747 ATCTTAA
1 ACCCTAA
*
13030754 ATCCTAA
1 ACCCTAA
13030761 ACCCTAA
1 ACCCTAA
*
13030768 AACCTAA
1 ACCCTAA
13030775 A
1 A
13030776 TATAGAAGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 35 0.83
8 7 0.17
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:13030770 original size:29 final size:29
Alignment explanation
Indices: 13030694--13030770 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
13030684 CAAGACCATA
* *
13030694 AAATCCTAAACCTTAAAACAATACACCCT
1 AAATCCTAAACCCTAAAACAATAAACCCT
* * * *
13030723 AAACCCTAAACTCCT-AAACTATAAATCTT
1 AAATCCTAAAC-CCTAAAACAATAAACCCT
13030752 AAATCCTAAACCCTAAAAC
1 AAATCCTAAACCCTAAAAC
13030771 CTAAATATAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.08
29 34 0.87
30 2 0.05
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (29 bp):
AAATCCTAAACCCTAAAACAATAAACCCT
Found at i:13030943 original size:7 final size:7
Alignment explanation
Indices: 13030928--13030971 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
13030918 GGCCAACTCT
*
13030928 TAAATCC
1 TAAACCC
13030935 TAAACCC
1 TAAACCC
13030942 TAAACCC
1 TAAACCC
13030949 TAAACCC
1 TAAACCC
13030956 TAAACACCC
1 T-AA-ACCC
13030965 TAAACCC
1 TAAACCC
13030972 ATTAGGCATG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
7 25 0.74
8 4 0.12
9 5 0.15
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:13031267 original size:130 final size:130
Alignment explanation
Indices: 13031081--13031419 Score: 342
Period size: 130 Copynumber: 2.5 Consensus size: 130
13031071 GGCATAGTGT
** *
13031081 TGGACAAAGCTGACTCTTATTTAAGCGTTGCATTAAGCATGCATATCACAACCCTTATATAAAAA
1 TGGACAAAGCCAACTCTTATTTAAGCGTTGCATTAAGCATGCATATCACAACCCTTATACAAAAA
*
13031146 GTTAACCT-AAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAATATATATCGTCTTAGGA
66 GTT-ACCTAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAATATATATCGTCTTAGGA
13031210 C
130 C
* ** * *
13031211 TGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTTGGCATGCATATCCCAACCCTTATACAAAGA
1 TGGACAAAGCCAACTCTTATTTAAGCGTTGCATTAAGCATGCATATCACAACCCTTATACAAAAA
** * * * *
13031276 GTTGGCTAAAGCATATGTTGGCCAGTCTATCCCAACACTTCGAAAAGTGTCATACAA-AAACTGT
66 GTTACCTAAAGCATATGTCGGCAAGTCTATCCCAACACTT-----AG-G--A-A-AATATA-TAT
*
13031340 CGTCTTAGAAC
120 CGTCTTAGGAC
* * * *
13031351 -GAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAA
1 TG-GAC-AAAGCCAACTCTTATTTAAGCGTTGCATTAAGCATGCATATCACAACCCTTATACAAA
*
13031415 GAGTT
64 AAGTT
13031420 GGCCAAAGCA
Statistics
Matches: 175, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
129 2 0.01
130 89 0.51
135 2 0.01
136 1 0.01
138 1 0.01
139 4 0.02
140 17 0.10
141 59 0.34
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (130 bp):
TGGACAAAGCCAACTCTTATTTAAGCGTTGCATTAAGCATGCATATCACAACCCTTATACAAAAA
GTTACCTAAAGCATATGTCGGCAAGTCTATCCCAACACTTAGGAAAATATATATCGTCTTAGGAC
Found at i:13031650 original size:264 final size:266
Alignment explanation
Indices: 13031199--13031803 Score: 862
Period size: 264 Copynumber: 2.3 Consensus size: 266
13031189 AAAATATATA
* * * *
13031199 TCGTCTTAGGACTGGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTTGGCATGCATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * *
13031263 CCTTATACAAAGAGTTGGCTAAAGCATATGTTGGCCAGTCTATCCCAACACTTCGAAAAGTGTCA
66 CCTTATACAAAGAGTTGGCCAAAGCA-A--TT---CAGTCTATCCCAACACTTAGAAAAGTCTCA
*
13031328 TACAAAAACTGTCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATA
125 CACAAAAACTGTCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATA
*
13031393 CATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAAGTGT
190 CATATACCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAA-TGT
13031458 CACCAAAAAAGTG
254 CACCAAAAAAGTG
* * *
13031471 TCGTCTTAGGACTATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGACATACATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
*
13031536 CCTTATACAAAGAGTTGGCCAAAGC-A-T-AGTCTATCCCAACACTTAGTAAAA-TCTCGC-CAC
66 CCTTATACAAAGAGTTGGCCAAAGCAATTCAGTCTATCCCAACACTTAG-AAAAGTCTCACACA-
* * * * * *
13031596 AAAAGTGTCGTCTTAGGACTATACAAAAGCCAACTTTTATTCAAGCGTTGCCTTAGGCATACATA
129 AAAACTGTCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATA
**
13031661 TACCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAATGTTGCCA
194 TACCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAATGTCACCA
*
13031726 CAAAAGTG
259 AAAAAGTG
* * *
13031734 TCGTCTTAGGACTAGATAAAAACCAACTCTTATTCAAGCGTTGCTTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
13031799 CCTTA
66 CCTTA
13031804 GGAAAGTGTT
Statistics
Matches: 302, Mismatches: 28, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
263 79 0.26
264 136 0.45
265 4 0.01
268 1 0.00
271 1 0.00
272 15 0.05
273 66 0.22
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (266 bp):
TCGTCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCAATTCAGTCTATCCCAACACTTAGAAAAGTCTCACACAAA
AACTGTCGTCTTAGAACGAGACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATATA
CCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTCTATCCCAACACTTAGGAAATGTCACCAAA
AAAGTG
Found at i:13031804 original size:91 final size:91
Alignment explanation
Indices: 13031699--13031894 Score: 313
Period size: 91 Copynumber: 2.2 Consensus size: 91
13031689 AAGCATAGTC
*
13031699 TATCCCAACACTTAGGAAA-TGTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCAACTC
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGA-AAAAACCAACTC
13031763 TTATTCAAGCGTTGCTTTAGGCATACA
65 TTATTCAAGCGTTGCTTTAGGCATACA
* * *
13031790 TATCCCAACCCTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCT
1 TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGAAAAAACCAACTCT
* *
13031855 TATTTAAGCGTTGCTTTAGGCATGCA
66 TATTCAAGCGTTGCTTTAGGCATACA
*
13031881 TATACCAACCCTTA
1 TATCCCAACCCTTA
13031895 TACAAAGAGT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
91 66 0.68
92 31 0.32
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (91 bp):
TATCCCAACCCTTAGGAAAGTGTTGCCACAAAAGTGTCGTCTTAGGACTAGAAAAAACCAACTCT
TATTCAAGCGTTGCTTTAGGCATACA
Found at i:13031821 original size:131 final size:131
Alignment explanation
Indices: 13031299--13031803 Score: 769
Period size: 132 Copynumber: 3.8 Consensus size: 131
13031289 TATGTTGGCC
* * ** * * *
13031299 AGTCTATCCCAACACTTCGAAAAGTGTC-ATACAAAAACTGTCGTCTTAGAACGAGACAAAAGCC
1 AGTCTATCCCAACACTTAGGAAA-TGTCGCCAC-AAAAGTGTCGTCTTAGGACTAGACAAAAGCC
*
13031363 AACTCTTATTCAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAG
64 AACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAG
13031428 CAT
129 CAT
* * *
13031431 AGTCTATCCCAACACTTAGGAAAGTGTCACCAAAAAAGTGTCGTCTTAGGACTATACAAAAGCCA
1 AGTCTATCCCAACACTTAGGAAA-TGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
* *
13031496 ACTTTTATTCAAGCGTTGCCTTAGACATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
65 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
13031561 AT
130 AT
* * *
13031563 AGTCTATCCCAACACTTAGTAAAATCTCGCCACAAAAGTGTCGTCTTAGGACTATACAAAAGCCA
1 AGTCTATCCCAACACTTAG-GAAATGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCA
* *
13031628 ACTTTTATTCAAGCGTTGCCTTAGGCATACATATACCAACCCTTATACAAAGAGTTGGCCAAAGC
65 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGC
13031693 AT
130 AT
* * *
13031695 AGTCTATCCCAACACTTAGGAAATGTTGCCACAAAAGTGTCGTCTTAGGACTAGATAAAAACCAA
1 AGTCTATCCCAACACTTAGGAAATGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAA
*
13031760 CTCTTATTCAAGCGTTGCTTTAGGCATACATATCCCAACCCTTA
66 CTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTA
13031804 GGAAAGTGTT
Statistics
Matches: 344, Mismatches: 27, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
131 81 0.24
132 259 0.75
133 4 0.01
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (131 bp):
AGTCTATCCCAACACTTAGGAAATGTCGCCACAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAA
CTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCA
T
Found at i:13032031 original size:120 final size:119
Alignment explanation
Indices: 13031815--13032032 Score: 321
Period size: 120 Copynumber: 1.8 Consensus size: 119
13031805 GAAAGTGTTG
* **
13031815 CCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGCTTTAGGCATGC
1 CCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCCTATAAAAGCGTTGCTTTAGGCATGC
*
13031880 ATATACCAACCCTTATACAAAGAGTTGCTAAAGTCTAGTCTATACCAACACTTT
66 ATATACCAACACTTATACAAAGAGTTGCTAAAGTCTAGTCTATACCAACACTTT
*** *
13031934 CCCCAAAAGTGTCGTCTTAGGACTAGACTTTTGCCAACTCCTATAAAAGCGTTGCTTTAGGCTTG
1 CCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCCTATAAAAGCGTTGCTTTAGGCATG
* *
13031999 CATATCCCAACACTTAT-GAAAGAGTTGCCTAAAG
65 CATATACCAACACTTATACAAAGAGTTG-CTAAAG
13032033 CGTATTTTGG
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 37 0.43
120 50 0.57
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (119 bp):
CCCCAAAAGTGTCGTCTTAGGACTAGACAAAGCCAACTCCTATAAAAGCGTTGCTTTAGGCATGC
ATATACCAACACTTATACAAAGAGTTGCTAAAGTCTAGTCTATACCAACACTTT
Found at i:13033585 original size:21 final size:22
Alignment explanation
Indices: 13033551--13033592 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13033541 TTATAAATAA
*
13033551 TTTTTTCACTAATACTAATTAT
1 TTTTTTCACAAATACTAATTAT
*
13033573 TTTTTTCA-AAATATTAATTA
1 TTTTTTCACAAATACTAATTA
13033593 AACAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTTCACAAATACTAATTAT
Found at i:13035081 original size:129 final size:129
Alignment explanation
Indices: 13034851--13035108 Score: 507
Period size: 129 Copynumber: 2.0 Consensus size: 129
13034841 GAAGGATAAG
13034851 AGCATTTTTCTTGTGTGTAGTGAGAACATTTACGGCATCAAAATCTAAGTCTTCCCTGTTCATCC
1 AGCATTTTTCTTGTGTGTAGTGAGAACATTTACGGCATCAAAATCTAAGTCTTCCCTGTTCATCC
13034916 CATTCGGCATTTCCCAATCAAACTTGTACAAAAGATTAGCTAGGCCAAGCTCCACTTCTGCAAC
66 CATTCGGCATTTCCCAATCAAACTTGTACAAAAGATTAGCTAGGCCAAGCTCCACTTCTGCAAC
*
13034980 AGCATTTTTCTTGTGTGTAGTGAGACCATTTACGGCATCAAAATCTAAGTCTTCCCTGTTCATCC
1 AGCATTTTTCTTGTGTGTAGTGAGAACATTTACGGCATCAAAATCTAAGTCTTCCCTGTTCATCC
13035045 CATTCGGCATTTCCCAATCAAACTTGTACAAAAGATTAGCTAGGCCAAGCTCCACTTCTGCAAC
66 CATTCGGCATTTCCCAATCAAACTTGTACAAAAGATTAGCTAGGCCAAGCTCCACTTCTGCAAC
13035109 TCCCATGTGC
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 128 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (129 bp):
AGCATTTTTCTTGTGTGTAGTGAGAACATTTACGGCATCAAAATCTAAGTCTTCCCTGTTCATCC
CATTCGGCATTTCCCAATCAAACTTGTACAAAAGATTAGCTAGGCCAAGCTCCACTTCTGCAAC
Found at i:13036704 original size:19 final size:19
Alignment explanation
Indices: 13036680--13036717 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13036670 ATCTCATTAT
13036680 TAAATAAAATAATAAATAA
1 TAAATAAAATAATAAATAA
* *
13036699 TAAATAAATTTATAAATAA
1 TAAATAAAATAATAAATAA
13036718 ATATTATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAATAAAATAATAAATAA
Found at i:13036713 original size:12 final size:13
Alignment explanation
Indices: 13036690--13036726 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
13036680 TAAATAAAAT
13036690 AATAAATA--ATA
1 AATAAATATTATA
13036701 AATAAAT-TTATA
1 AATAAATATTATA
13036713 AATAAATATTATA
1 AATAAATATTATA
13036726 A
1 A
13036727 TTTAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.30
12 10 0.43
13 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAAATATTATA
Found at i:13036772 original size:16 final size:16
Alignment explanation
Indices: 13036711--13036773 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
13036701 AATAAATTTA
13036711 TAAATAAATATTATAATT
1 TAAATAAATA-T-TAATT
* *
13036729 TAATTTAAGTA-TAA-T
1 TAA-ATAAATATTAATT
13036744 TAAAT-AATGATTAATT
1 TAAATAAAT-ATTAATT
13036760 TAAATAAATATTAA
1 TAAATAAATATTAA
13036774 AATCTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
13 2 0.06
14 2 0.06
15 7 0.19
16 14 0.39
17 3 0.08
18 3 0.08
19 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAATAAATATTAATT
Found at i:13036810 original size:22 final size:21
Alignment explanation
Indices: 13036764--13036825 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
13036754 TTAATTTAAA
*
13036764 TAAATATTAAAATCTTAAATTT
1 TAAAT-TTAAAATCTTAAATCT
13036786 TAAATTTAAAAT-TCTAAACTCT
1 TAAATTTAAAATCT-TAAA-TCT
*
13036808 TAAA-TTCAAATCTTAAAT
1 TAAATTTAAAATCTTAAAT
13036826 TCGGGAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 2 0.06
21 21 0.60
22 12 0.34
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATTTAAAATCTTAAATCT
Found at i:13036823 original size:13 final size:13
Alignment explanation
Indices: 13036773--13036827 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 13
13036763 ATAAATATTA
*
13036773 AAATCTTAAATTTT
1 AAATCTTAAA-TTC
13036787 AAAT-TTAAAATTC
1 AAATCTT-AAATTC
13036800 TAAACTCTTAAATTC
1 -AAA-TCTTAAATTC
13036815 AAATCTTAAATTC
1 AAATCTTAAATTC
13036828 GGGAGTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 14 0.39
14 13 0.36
15 7 0.19
16 2 0.06
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATCTTAAATTC
Found at i:13043137 original size:41 final size:41
Alignment explanation
Indices: 13043080--13043170 Score: 182
Period size: 41 Copynumber: 2.2 Consensus size: 41
13043070 AAATACGGAG
13043080 TATAAATTTGAAAGATAAAATATACTCTAATCTTTGATCTC
1 TATAAATTTGAAAGATAAAATATACTCTAATCTTTGATCTC
13043121 TATAAATTTGAAAGATAAAATATACTCTAATCTTTGATCTC
1 TATAAATTTGAAAGATAAAATATACTCTAATCTTTGATCTC
13043162 TATAAATTT
1 TATAAATTT
13043171 TTCTACTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.41
Consensus pattern (41 bp):
TATAAATTTGAAAGATAAAATATACTCTAATCTTTGATCTC
Done.