Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 36 of 163
Found at i:11783156 original size:44 final size:45
Alignment explanation
Indices: 11783055--11783168 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 45
11783045 TTTAATCTGT
* * ** *
11783055 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGCTAACTTCAACCTCC
* *
11783100 TCCACTGTAACTTCAGGGAGATAATACTT-G-TAACTTCAACCTCC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTCGCTAACTTCAACCTCC
*
11783144 TCCACTGCAACTTCGGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
11783169 GTTTGCTATG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 32 0.55
45 24 0.41
46 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGATTCGCTAACTTCAACCTCC
Found at i:11795034 original size:8 final size:8
Alignment explanation
Indices: 11795013--11795043 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
11795003 TAAAAATTTA
11795013 ATAAAAAT
1 ATAAAAAT
11795021 AGTAAAAAT
1 A-TAAAAAT
11795030 ATAAAAAT
1 ATAAAAAT
11795038 ATAAAA
1 ATAAAA
11795044 TAAAACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (8 bp):
ATAAAAAT
Found at i:11795644 original size:22 final size:22
Alignment explanation
Indices: 11795616--11795665 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
11795606 AGGATTGCCA
11795616 GCCGTCAGTCACCAGTGACGGC
1 GCCGTCAGTCACCAGTGACGGC
11795638 GCCGTCAGTCACCAGTGACGGC
1 GCCGTCAGTCACCAGTGACGGC
11795660 GCCGTC
1 GCCGTC
11795666 GTCCGCGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.16, C:0.38, G:0.32, T:0.14
Consensus pattern (22 bp):
GCCGTCAGTCACCAGTGACGGC
Found at i:11796507 original size:21 final size:20
Alignment explanation
Indices: 11796483--11796541 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
11796473 GACTTAATTC
*
11796483 TAAAAATATATATATTAAAAA
1 TAAAAAAATAT-TATTAAAAA
*
11796504 TAAAAAAATATTTTTAAAAA
1 TAAAAAAATATTATTAAAAA
**
11796524 T-TCAAAA-ATTATTAAAAA
1 TAAAAAAATATTATTAAAAA
11796542 ATGATTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 10 0.30
19 4 0.12
20 9 0.27
21 10 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAAAATATTATTAAAAA
Found at i:11796530 original size:20 final size:23
Alignment explanation
Indices: 11796478--11796532 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
11796468 ATTTAGACTT
11796478 AATTCTAAAAATATATATATTAAA
1 AATTC-AAAAATATATATATTAAA
* *
11796502 AA-T-AAAAAAATAT-TTTTAAA
1 AATTCAAAAATATATATATTAAA
11796522 AATTCAAAAAT
1 AATTCAAAAAT
11796533 TATTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 5 0.19
23 1 0.04
24 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AATTCAAAAATATATATATTAAA
Found at i:11807619 original size:15 final size:15
Alignment explanation
Indices: 11807599--11807628 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11807589 CACCCTAGTC
11807599 ACAGATACAGAAATA
1 ACAGATACAGAAATA
*
11807614 ACAGATACAGTAATA
1 ACAGATACAGAAATA
11807629 TCATGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (15 bp):
ACAGATACAGAAATA
Found at i:11811282 original size:15 final size:15
Alignment explanation
Indices: 11811262--11811291 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11811252 CACCTTAATC
11811262 ACAGATACAGAAATA
1 ACAGATACAGAAATA
*
11811277 ACAGATACAGTAATA
1 ACAGATACAGAAATA
11811292 TCATGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (15 bp):
ACAGATACAGAAATA
Found at i:11815544 original size:18 final size:18
Alignment explanation
Indices: 11815521--11815562 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
11815511 GTTAGGTGCA
*
11815521 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
11815539 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
11815557 TTTCCT
1 TATCCT
11815563 TTTACCAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:11816072 original size:62 final size:60
Alignment explanation
Indices: 11815958--11816072 Score: 140
Period size: 62 Copynumber: 1.9 Consensus size: 60
11815948 ATACAGACTA
* ****
11815958 TTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTAAATATTTTAATAGTAAAATT
1 TTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTAAATAAGGCAATAGTAAAATT
* * *
11816018 TTTTTATATTTTTTCCTATTTAATAAAATAGAAGTTCTTTTGAATAAGGCAATAG
1 TTTTTATATTGTTT-C-ATTTAATAAAATAAAAGTTCTTTTAAATAAGGCAATAG
11816073 AAATAATGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
60 13 0.29
61 1 0.02
62 31 0.69
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (60 bp):
TTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTAAATAAGGCAATAGTAAAATT
Found at i:11819368 original size:126 final size:126
Alignment explanation
Indices: 11819078--11819722 Score: 875
Period size: 126 Copynumber: 5.1 Consensus size: 126
11819068 GGCCAAGCAA
*
11819078 GAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTTC-GTAATTTTGTTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTTCAGTAATTTTGTTGACAGTGCAT
* * *
11819142 CCTACTTGGAGCGTTTTTGACACTA-TTTTTCAGAACCATATTCTCAAAATCA-TTTTTCAG
65 CCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
* * * * *
11819202 TAACTACCGTAGAAAAAGAGCTTCCACATGGGAGCTTTTTTCAGTAATTTTGTTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGCATC
* * * * * *
11819267 TTGCTTGAAGCGTTTTTAACACTATTTTTTTAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
* * * *
11819328 GAACTACTGTAGAAAAAAAGCGCCCACGTGGGAGCTTTTTTCAGTAATTTTATTAACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGCATC
* *
11819393 CTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTTAG
66 CTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
* * * * *
11819454 GAACTACTGTAGAAAGAGAGCGTCTACGTGGGAGCTTTTTTTAGTAATTTTGCTAACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGCATC
* * * *
11819519 CTACTTGAAGCGTTTTTGACACTATATTTTCAGAACCTTCTTCTCAAAATGTGTTTTTT-AT
66 CTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAAT-TATTTTTTCAG
* *
11819580 GAACTACTGTAGAAAGAGAGCGTCCACGTGGGAGCTTTTTTTAGTAATTTTGTTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGCATC
** * * * * * *
11819645 CTGTTTGTAGTGTTTTTGACATTATCTTTTCAGAACCATCTTCTCAAAATTAATTTTTCTG
66 CTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
*
11819706 AAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
11819723 AAATAAAATC
Statistics
Matches: 459, Mismatches: 57, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
123 7 0.02
124 71 0.15
125 28 0.06
126 346 0.75
127 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGCATC
CTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
Found at i:11819860 original size:34 final size:33
Alignment explanation
Indices: 11819822--11819937 Score: 160
Period size: 34 Copynumber: 3.4 Consensus size: 33
11819812 TTAAAAAAAT
11819822 TAAACCCTAATTTAATTAATTTTCTTAAAAACTC
1 TAAACCCTAATTTAATTAATTTT-TTAAAAACTC
* *
11819856 TAAACCCTAATTTAATTAATTTATTTAAAATCCC
1 TAAACCCTAATTTAATTAATTT-TTTAAAAACTC
* *
11819890 TAAAACCTAATTTAATTAATTTTTTAAAAAACTG
1 TAAACCCTAATTTAATTAATTTTTT-AAAAACTC
*
11819924 TAAACCCTGATTTA
1 TAAACCCTAATTTA
11819938 TTTTTTAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
33 3 0.04
34 68 0.94
35 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.41
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTTTTAAAAACTC
Found at i:11819885 original size:68 final size:68
Alignment explanation
Indices: 11819808--11819937 Score: 181
Period size: 68 Copynumber: 1.9 Consensus size: 68
11819798 AACACAAAAA
* *
11819808 TTATTTAAAAAAATTAAACCCTAATTTAATTAATTTTCTT-AAAAACTCTAAACCCTAATTTAAT
1 TTATTTAAAAAAACTAAAACCTAATTTAATTAATTTT-TTAAAAAACTCTAAACCCTAATTTAAT
11819872 TAAT
65 TAAT
*** * *
11819876 TTATTTAAAATCCCTAAAACCTAATTTAATTAATTTTTTAAAAAACTGTAAACCCTGATTTA
1 TTATTTAAAAAAACTAAAACCTAATTTAATTAATTTTTTAAAAAACTCTAAACCCTAATTTA
11819938 TTTTTTAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 2 0.04
68 52 0.96
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (68 bp):
TTATTTAAAAAAACTAAAACCTAATTTAATTAATTTTTTAAAAAACTCTAAACCCTAATTTAATT
AAT
Found at i:11821391 original size:30 final size:31
Alignment explanation
Indices: 11821351--11821409 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
11821341 ATATTTAAGT
11821351 AATTAGTTATTTATTTTAATACATGATTTAA
1 AATTAGTTATTTATTTTAATACATGATTTAA
* *
11821382 AATT-GTTATTTCTTTTAATATATGATTT
1 AATTAGTTATTTATTTTAATACATGATTT
11821410 CTTTTAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (31 bp):
AATTAGTTATTTATTTTAATACATGATTTAA
Found at i:11821770 original size:29 final size:30
Alignment explanation
Indices: 11821736--11821793 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
11821726 TTGGTTTAAC
11821736 GTGTAATATTATACATAA-ATTTTAATTTT
1 GTGTAATATTATACATAATATTTTAATTTT
* *
11821765 GTGTAATTTTATACATAATATTTTGATTT
1 GTGTAATATTATACATAATATTTTAATTT
11821794 GATTCAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (30 bp):
GTGTAATATTATACATAATATTTTAATTTT
Found at i:11822346 original size:159 final size:156
Alignment explanation
Indices: 11822023--11822339 Score: 411
Period size: 165 Copynumber: 2.0 Consensus size: 156
11822013 ATCCCTATAT
* * *
11822023 TATTTGATTAAAAATAGGATTTTAACCATTTTTTAATTGAATTGTTACTCGATTAACTTGTGACA
1 TATTTGATTAAAAATAAGATTTTAACCATTTTTCAATTAAATTGTTACTCGATTAACTTGTGACA
* *
11822088 CTCATTTAAATTTATTATAACATAGATAAAACAATAATTTTAAAAGGATGGACAACAAAAGGATA
66 CTCACTTAAATTTATTATAACAGAGATAAAACAATAATTTTAAAAGGATGGACAACAAAAGGATA
*
11822153 AAATATTTATGGAAAGAATATAAATTTGAA
131 AAATATTTATAGAAAGAATAT-AA--T-AA
11822183 TATTTGATT-AAAATAAGATTTTAACCATTTTTCAATTAAATTGTTACTCGATTAACTTGTGACA
1 TATTTGATTAAAAATAAGATTTTAACCATTTTTCAATTAAATTGTTACTCGATTAACTTGTGACA
* * * * *
11822247 CTAATTCACTTGAATGATTATTATAATAGAGATAAAACAATAATTTTAAAAGGTTGGATAGCAAA
66 C----TCACTTAAAT--TTATTATAACAGAGATAAAACAATAATTTTAAAAGGATGGACAACAAA
* * *
11822312 AGGATCAAATCTTTATAGAAGGAATATA
125 AGGATAAAATATTTATAGAAAGAATATA
11822340 CATATTTTTC
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
159 53 0.39
160 9 0.07
163 8 0.06
164 1 0.01
165 66 0.48
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.36
Consensus pattern (156 bp):
TATTTGATTAAAAATAAGATTTTAACCATTTTTCAATTAAATTGTTACTCGATTAACTTGTGACA
CTCACTTAAATTTATTATAACAGAGATAAAACAATAATTTTAAAAGGATGGACAACAAAAGGATA
AAATATTTATAGAAAGAATATAATAA
Found at i:11831276 original size:20 final size:20
Alignment explanation
Indices: 11831250--11831312 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
11831240 AGTACACCAT
11831250 AAAGGCTAACAGAATGCCAC
1 AAAGGCTAACAGAATGCCAC
*
11831270 GAAGGCTAATC-GCAATGCCAC
1 AAAGGCTAA-CAG-AATGCCAC
* *
11831291 AAAGGCCAAATAGAATGCCAC
1 AAAGG-CTAACAGAATGCCAC
11831312 A
1 A
11831313 TAAGCCATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 9 0.26
21 22 0.63
22 4 0.11
ACGTcount: A:0.43, C:0.25, G:0.21, T:0.11
Consensus pattern (20 bp):
AAAGGCTAACAGAATGCCAC
Found at i:11831342 original size:23 final size:23
Alignment explanation
Indices: 11831316--11831362 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
11831306 TGCCACATAA
* * *
11831316 GCCATACAGATTATGCCATAAAT
1 GCCAGACAGAATACGCCATAAAT
11831339 GCCAGACAGAATACGCCATAAAT
1 GCCAGACAGAATACGCCATAAAT
11831362 G
1 G
11831363 TATTATTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (23 bp):
GCCAGACAGAATACGCCATAAAT
Found at i:11834926 original size:22 final size:22
Alignment explanation
Indices: 11834901--11834945 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
11834891 AAAATTTTCC
11834901 ATTATCCCTAAAGAAATTAGCA
1 ATTATCCCTAAAGAAATTAGCA
11834923 ATTATCCCTAAAGAAATTAGCA
1 ATTATCCCTAAAGAAATTAGCA
11834945 A
1 A
11834946 ACCACCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.27
Consensus pattern (22 bp):
ATTATCCCTAAAGAAATTAGCA
Found at i:11835602 original size:25 final size:26
Alignment explanation
Indices: 11835574--11835627 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
11835564 TACTTACACA
*
11835574 TTAAAA-AAATA-AATAAATACATGTT
1 TTAAAATAAATACAA-AAACACATGTT
11835599 TTAAAATTAAATACAAAAACACATGTT
1 TTAAAA-TAAATACAAAAACACATGTT
11835626 TT
1 TT
11835628 TGTTTAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 6 0.24
27 17 0.68
28 2 0.08
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (26 bp):
TTAAAATAAATACAAAAACACATGTT
Found at i:11838548 original size:8 final size:8
Alignment explanation
Indices: 11838535--11838559 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11838525 TTTTGGGCAA
11838535 TTATTCTT
1 TTATTCTT
11838543 TTATTCTT
1 TTATTCTT
11838551 TTATTCTT
1 TTATTCTT
11838559 T
1 T
11838560 CCATGCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTCTT
Found at i:11843670 original size:129 final size:127
Alignment explanation
Indices: 11843357--11844318 Score: 442
Period size: 129 Copynumber: 7.5 Consensus size: 127
11843347 CACCAAGTCC
* * * *
11843357 TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAAGTTGCAGCA
* **
11843422 GAGTAGATCACATCAGGTCTTATCTCCCTGAGGTT--GC-AGTAGAGCAAATGGAAGCTGATAAT
66 GAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTCAGCGAGTAGATCAAA--GAAGC--A-GGT
*
11843484 CC
126 CT
* * * * * * *
11843486 TATCTCCCTGAAGTTGCAGTGGAACGGATTGAAATAATAGATCGTATATCTCTGAAGTTGTAGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAAGTTGCAGCA
11843551 GAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGATCAAAGAAGCAGGTCT
66 GAGTAGATCACATCAGGTCTTATCTCCCTGAGGTT-CAGC-GAGTAGATCAAAGAAGCAGGTCT
* * * *
11843615 TATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATA-ATCCTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAA-ATAATAGATCCTATCTCCCTGAAGTTGCAGC
* * * * * * * * * *
11843679 GGAGTGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATC--A-CATCAGG
65 AGAGTAGA-TCACAT--CAGGTCTTATCTCCCTGAGGTT-CAGC-GAGTAGATCAAAGAAGCAGG
11843741 TCT
125 TCT
* * * * * *
11843744 TATCTCTCTGAGGTTGCAGTGGAGCATATGGAAGCTGATA-ATCCTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAA-ATAATAGATCCTATCTCCCTGAAGTTGCAGC
* * * * * * * * * **
11843808 GGAGTGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATC--A-CATTAGG
65 AGAGTAGA-TCACAT--CAGGTCTTATCTCCCTGAGGTT-CAGC-GAGTAGATCAAAGAAGCAGG
11843870 TCT
125 TCT
* * * * ** * * ** *
11843873 TATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGA-AGCAGGTCTTATCTCATTGAGGTTGCAG-
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAA-ATAATAGATCCTATCTCCCTGAAGTTGCAGC
* * * * * * * * * * *
11843936 TGAAGCAGATGGAAGCTGAT-A-ATCCTATCTCCCTGAAGTTGCAGTGCG--GATTGAAATAA-T
65 AG-AGTAGAT--CA-C--ATCAGGTCTTATCTCCCTGAGGTT-CAGCGAGTAGA-TCAAAGAAGC
*
11843996 AGATCT
122 AGGTCT
* *** * * * * * ** * *
11844002 TATCTCTCTGAAGTTGCAGCAAAGTAGAT-CACAT--CAGGTTTTATCTCCCTGAGGTTGCAGCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAAGTTGCAGCA
* * * * ** ** **
11844064 GAGTAGATCGAAGAAGCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTG-ATAA
66 GAGTAGATC--A-CATCAGGTCTTATCTCCCTGAGGTT-CAG-CGAGTAGATCAAAGAAGCA-GG
*
11844128 TCC
125 TCT
** * * *
11844131 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATAGATCTTATCTCTCT-AAGGTTGCAGC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAA-GTTGCAGC
* * * * *
11844195 AGAGAATATCACATCAGGTGTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAAGTCT
65 AGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTT-CAGC-GAGTAGATCAAAGAAGCAGGTCT
* * ** *
11844260 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATA-ATCCTATCTCCCTGGAGTT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAA-ATAATAGATCCTATCTCCCTGAAGTT
11844319 ACAGTGGAGT
Statistics
Matches: 676, Mismatches: 118, Indels: 78
0.78 0.14 0.09
Matches are distributed among these distances:
124 1 0.00
125 1 0.00
126 53 0.08
127 5 0.01
128 11 0.02
129 504 0.75
130 23 0.03
131 1 0.00
132 65 0.10
133 2 0.00
134 10 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAAGTTGCAGCA
GAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTCAGCGAGTAGATCAAAGAAGCAGGTCT
Found at i:11843794 original size:173 final size:172
Alignment explanation
Indices: 11843442--11844397 Score: 874
Period size: 173 Copynumber: 5.5 Consensus size: 172
11843432 CATCAGGTCT
* * * * * *
11843442 TATCTCCCTGAGGTTGCAGTAGAGCAAATGGAAGCTGATA-ATCCTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAA-ATAATAGATCCTATCTCCCTGAAGTTGCAGC
* *** * * * * * * *
11843506 GGAACGGATTGAAATAATAGATCGTATATCTCTGAAGTTGTAGCAGAGTAGATC-A-CATCAGGT
65 AGAGTAGA-TCAAAT--TAGATCTTATCTCCCTGAAGTTGCAGCAGAGTAGATCAAGAAGCAGGT
* * * ** ** ** *
11843569 CTTATCTCCCTGAGGTTACAGCGGAGTAGATCAAAGAAGCA-GGTCT
127 CTTATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTG-ATAATCC
* * * *
11843615 TATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATA-ATCCTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAA-ATAATAGATCCTATCTCCCTGAAGTTGCAGC
* * * * * *
11843679 GGAGTGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATC-A-CATCAGGT
65 AGAGTAGA-TCAAAT--TAGATCTTATCTCCCTGAAGTTGCAGCAGAGTAGATCAAGAAGCAGGT
* *
11843742 CTTATCTCTCTGAGGTTGCAGTGGAGCATATGGAAGCTGATAATCC
127 CTTATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATAATCC
** * * *
11843788 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAAGTTGCAGCA
* * * *
11843853 GAGTAGATCACATTAGGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTCTT
66 GAGTAGATCAAATTAGATCTTATCTCCCTGAAGTTGCAGCAGAGTAGATC-AAGAAGCAGGTCTT
** *
11843918 ATCTCATTGAGGTTGCAGTGAAGCAGATGGAAGCTGATAATCC
130 ATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATAATCC
* * * *
11843961 TATCTCCCTGAAGTTGCAGT---GCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAAGTTGCAGCA
* * * * * * *
11844023 AAGTAGATCACATCAGGTTTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTCTT
66 GAGTAGATCAAATTAGATCTTATCTCCCTGAAGTTGCAGCAGAGTAGATC-AAGAAGCAGGTCTT
11844088 ATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATAATCC
130 ATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATAATCC
** * * *
11844131 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATAGATCTTATCTCTCT-AAGGTTGCAGC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAA-GTTGCAGC
* * * * * * * * *
11844195 AGAGAATATCACATCAGGTGTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAAGTCT
65 AGAGTAGATCAAATTAGATCTTATCTCCCTGAAGTTGCAGCAGAGTAGATC-AAGAAGCAGGTCT
*
11844260 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAC-GATAATCC
129 TATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAG-CTGATAATCC
* * ** ** * * * * * *
11844304 TATCTCCCTGGAGTTACAGTGGAGTGGATTAAAACAATAGATCTTATCTCTCTAAACTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAAGTTGCAGCA
* * *
11844369 GAGTAGATCACATCAGGTCTTATCTCCCT
66 GAGTAGATCAAATTAGATCTTATCTCCCT
11844398 AAGGTTTCAG
Statistics
Matches: 707, Mismatches: 65, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
170 196 0.28
172 12 0.02
173 496 0.70
174 3 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (172 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATGGAAATAATAGATCCTATCTCCCTGAAGTTGCAGCA
GAGTAGATCAAATTAGATCTTATCTCCCTGAAGTTGCAGCAGAGTAGATCAAGAAGCAGGTCTTA
TCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATAATCC
Found at i:11843900 original size:302 final size:302
Alignment explanation
Indices: 11843354--11844066 Score: 1243
Period size: 302 Copynumber: 2.4 Consensus size: 302
11843344 TCGCACCAAG
11843354 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
*
11843419 GCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTAGAGCAAATGGAAGCTGATAAT
66 GCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAATGGAAGCTGATAAT
*
11843484 CCTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAATAATAGATCGTATATCTCTGAAGTTGTAG
131 CCTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAATAATAGATCGTATATCTCTGAAGTTGCAG
11843549 CAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGATCAAAGAAGCAGGTC
196 CAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGATCAAAGAAGCAGGTC
* *
11843614 TTATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATAA
261 TTATCTCACTGAGGTTGCAGTGAAGCAGATGGAAGCTGATAA
*
11843656 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
* *
11843721 GCAGAGTAGATCACATCAGGTCTTATCTCTCTGAGGTTGCAGTGGAGCATATGGAAGCTGATAAT
66 GCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAATGGAAGCTGATAAT
** * *
11843786 CCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAG
131 CCTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAATAATAGATCGTATATCTCTGAAGTTGCAG
* * *
11843851 CAGAGTAGATCACATTAGGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTC
196 CAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGATCAAAGAAGCAGGTC
*
11843916 TTATCTCATTGAGGTTGCAGTGAAGCAGATGGAAGCTGATAA
261 TTATCTCACTGAGGTTGCAGTGAAGCAGATGGAAGCTGATAA
11843958 TCCTATCTCCCTGAAGTTGCAGT---GCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
* * *
11844020 GCAAAGTAGATCACATCAGGTTTTATCTCCCTGAGGTTGCAGCGGAG
66 GCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAG
11844067 TAGATCGAAG
Statistics
Matches: 391, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
299 81 0.21
302 310 0.79
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (302 bp):
TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
GCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAATGGAAGCTGATAAT
CCTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAATAATAGATCGTATATCTCTGAAGTTGCAG
CAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGATCAAAGAAGCAGGTC
TTATCTCACTGAGGTTGCAGTGAAGCAGATGGAAGCTGATAA
Found at i:11844194 original size:302 final size:300
Alignment explanation
Indices: 11843354--11844149 Score: 1220
Period size: 302 Copynumber: 2.6 Consensus size: 300
11843344 TCGCACCAAG
11843354 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGT-G-GCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
*
11843419 GCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTAGAGCAAATGGAAGCTGATAAT
64 GCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAATGGAAGCTGATAAT
* * * *
11843484 CCTATCTCCCTGAAGTTGCAGTGGAACGGATTGAAATAATAGATCGTATATCTCTGAAGTTGTAG
129 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCCTATCTCTCTGAAGTTGCAG
* *
11843549 CAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGATCAAAGAAGCAGGTC
194 CAGAGTAGATCACATTAGGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCAAAGAAGCAGGTC
* *
11843614 TTATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATAA
259 TTATCTCACTGAGGTTGCAGTGAAGCAGATGGAAGCTGATAA
*
11843656 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
1 TCCTATCTCCCTGAAGTTGCAGT-G-GCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCA
* *
11843721 GCAGAGTAGATCACATCAGGTCTTATCTCTCTGAGGTTGCAGTGGAGCATATGGAAGCTGATAAT
64 GCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAATGGAAGCTGATAAT
* *
11843786 CCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAG
129 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCCTATCTCTCTGAAGTTGCAG
*
11843851 CAGAGTAGATCACATTAGGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTC
194 CAGAGTAGATCACATTAGGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCAAAGAAGCAGGTC
*
11843916 TTATCTCATTGAGGTTGCAGTGAAGCAGATGGAAGCTGATAA
259 TTATCTCACTGAGGTTGCAGTGAAGCAGATGGAAGCTGATAA
11843958 TCCTATCTCCCTGAAGTTGCAGT-GCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGC
1 TCCTATCTCCCTGAAGTTGCAGTGGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGC
* * * * * * ** **
11844022 AAAGTAGATCACATCAGGTTTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCA-GGTC
66 AGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAATGGAAGCTG-ATAATC
* * * * * * *
11844086 TTATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAGCTGATA-ATCCTATCTCCCTGAAGTTGCAG
130 CTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAA-ATAATAGATCCTATCTCTCTGAAGTTGCAG
11844150 TGGAGTGGAT
Statistics
Matches: 456, Mismatches: 36, Indels: 7
0.91 0.07 0.01
Matches are distributed among these distances:
299 141 0.31
300 5 0.01
302 310 0.68
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (300 bp):
TCCTATCTCCCTGAAGTTGCAGTGGCGGATTGAAATAATAGATCTTATCTCTCTGAAGTTGCAGC
AGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAAATGGAAGCTGATAATCC
TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAATAATAGATCCTATCTCTCTGAAGTTGCAGCA
GAGTAGATCACATTAGGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCAAAGAAGCAGGTCTT
ATCTCACTGAGGTTGCAGTGAAGCAGATGGAAGCTGATAA
Found at i:11844308 original size:44 final size:45
Alignment explanation
Indices: 11843357--11844353 Score: 373
Period size: 44 Copynumber: 23.1 Consensus size: 45
11843347 CACCAAGTCC
* * **
11843357 TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAA-ATAATAGATCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
* * * * ** *
11843401 TATCTCTCTGAAGTTGCA--GCAG-AG-TAGATCAC-ATCAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGAT-AGATCT
* * * *
11843442 TATCTCCCTGAGGTTGCAGTAGAGCAAATGGAAG-CTGATA-ATCC
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAC-GATAGATCT
* * * ** *
11843486 TATCTCCCTGAAGTTGCAGTGGAACGGATTGAA-ATAATAGATCG
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
* * * * ** *
11843530 TATATCTCTGAAGTT---GT--AGCAGAGTAGATCAC-ATCAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGA-TTGAAGACGAT-AGATCT
* * * ** * * *
11843571 TATCTCCCTGAGGTTACAGCGGAGTAGATCAAAGAAG-CAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
* *
11843615 TATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAG-CTGATA-ATCC
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAC-GATAGATCT
* ** **
11843659 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAA-ATAATAGATCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
* * * * ** *
11843703 TATCTCTCTGAAGTTGCA--GCAG-AG-TAGATCAC-ATCAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGAT-AGATCT
* * * *
11843744 TATCTCTCTGAGGTTGCAGTGGAGCATATGGAAG-CTGATA-ATCC
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAC-GATAGATCT
* ** **
11843788 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAA-ATAATAGATCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
* * * * ** *
11843832 TATCTCTCTGAAGTTGCA--GCAG-AG-TAGATCAC-ATTAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGA-TAGATCT
* * * * * *
11843873 TATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAG-CAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
** * * *
11843917 TATCTCATTGAGGTTGCAGTGAAGCAGATGGAAG-CTGATA-ATCC
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAC-GATAGATCT
* * **
11843961 TATCTCCCTGAAGTTGCAGT---GCGGATTGAA-ATAATAGATCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
* * * * * ** * *
11844002 TATCTCTCTGAAGTTGCA--GCA-AAG-TAGATCAC-ATCAGGTTT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGAT-AGATCT
* * * * * *
11844043 TATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAG-CAGGTCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
* *
11844087 TATCTCCCTGAGGTTGCAGTGGAGCAGATGGAAG-CTGATA-ATCC
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAC-GATAGATCT
* ** **
11844131 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAA-ATAATAGATCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
* * * * ** * *
11844175 TATCTCTCTAAGGTTGCA--GCAG-AGAAT-ATCAC-ATCAGGTGT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGAT-AGATCT
* * * *
11844216 TATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCA-AG-TCT
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACG-ATAGATCT
*
11844260 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATA-ATCC
1 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
* ** * *
11844304 TATCTCCCTG-GAGTTACAGTGGAGTGGATT-AAAACAATAGATCT
1 TATCTCCCTGAG-GTTGCAGTGGAGCAGATTGAAGACGATAGATCT
11844348 TATCTC
1 TATCTC
11844354 TCTAAACTTG
Statistics
Matches: 702, Mismatches: 181, Indels: 140
0.69 0.18 0.14
Matches are distributed among these distances:
39 4 0.01
40 30 0.04
41 164 0.23
42 12 0.02
43 34 0.05
44 422 0.60
45 26 0.04
46 9 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAGATCT
Found at i:11844415 original size:173 final size:173
Alignment explanation
Indices: 11843700--11844416 Score: 1097
Period size: 173 Copynumber: 4.2 Consensus size: 173
11843690 AAATAATAGA
* * * * * *
11843700 TCTTATCTCTCTGAAGTTGCAGCAGAGTAGATC--A-CATCAGGTCTTATCTCTCTGAGGTTGCA
1 TCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTCTTATCTCCCTGAGGTTGCA
*
11843762 GTGGAGCATATGGAAGCTGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATA
66 GTGGAGCAGATGGAAGCTGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATA
* *
11843827 GATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATCACATTAGG
131 GATCTTATCTCTCTAAAGTTGCAGCAGAGTAGATCACATCAGG
**
11843870 TCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTCTTATCTCATTGAGGTTGCA
1 TCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTCTTATCTCCCTGAGGTTGCA
* *
11843935 GTGAAGCAGATGGAAGCTGATAATCCTATCTCCCTGAAGTTGCAGT---GCGGATTGAAATAATA
66 GTGGAGCAGATGGAAGCTGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATA
* *
11843997 GATCTTATCTCTCTGAAGTTGCAGCAAAGTAGATCACATCAGG
131 GATCTTATCTCTCTAAAGTTGCAGCAGAGTAGATCACATCAGG
*
11844040 TTTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTCTTATCTCCCTGAGGTTGCA
1 TCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTCTTATCTCCCTGAGGTTGCA
11844105 GTGGAGCAGATGGAAGCTGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATA
66 GTGGAGCAGATGGAAGCTGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATA
* * *
11844170 GATCTTATCTCTCTAAGGTTGCAGCAGAGAATATCACATCAGG
131 GATCTTATCTCTCTAAAGTTGCAGCAGAGTAGATCACATCAGG
* *
11844213 TGTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAAGTCTTATCTCCCTGAGGTTGCA
1 TCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTCTTATCTCCCTGAGGTTGCA
* * * * *
11844278 GTGGAGCAGATTGAAGAC-GATAATCCTATCTCCCTGGAGTTACAGTGGAGTGGATTAAAACAAT
66 GTGGAGCAGATGGAAG-CTGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAAT
* *
11844342 AGATCTTATCTCTCTAAACTTGCAGTAGAGTAGATCACATCAGG
130 AGATCTTATCTCTCTAAAGTTGCAGCAGAGTAGATCACATCAGG
* * *
11844386 TCTTATCTCCCTAAGGTTTCAGAGGAGTAGA
1 TCTTATCTCCCTGAGGTTGCAGCGGAGTAGA
11844417 CTGAGAATGG
Statistics
Matches: 502, Mismatches: 38, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
170 193 0.38
172 1 0.00
173 307 0.61
174 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (173 bp):
TCTTATCTCCCTGAGGTTGCAGCGGAGTAGATCGAAGAAGCAGGTCTTATCTCCCTGAGGTTGCA
GTGGAGCAGATGGAAGCTGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAATAATA
GATCTTATCTCTCTAAAGTTGCAGCAGAGTAGATCACATCAGG
Found at i:11855048 original size:43 final size:42
Alignment explanation
Indices: 11854942--11855267 Score: 384
Period size: 43 Copynumber: 7.6 Consensus size: 42
11854932 ATGTTCTAAT
* * * * * * *
11854942 ATCGACTTGAGATCCCGTATAAGTCCATATCTGGGATA-TGAC
1 ATCGATTTGAGAT-TCGTGTAAGACCATAGCTGGGCTATTGGC
*
11854984 ATCGATTTGATATTCGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGC
** *
11855026 ATATATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
1 ATCGATTTGAGA-TTCGTGTAAGACCATAGCTGGGCTATTGGC
* * *
11855069 ATTGATTTGAGATTCTTGTAAGACCATAGCTGGGATATTGGC
1 ATCGATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGC
* *
11855111 ATCGATTTGAGATTCTTGTAAGACCATAGTTGGGCTATTGGC
1 ATCGATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGC
11855153 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGA-TTCGTGTAAGACCATAGCTGGGCTATTGGC
* * * *
11855196 ATCGATTTGAGATTTCGTGTATGACTATAGCTGGGATATTGGA
1 ATCGATTTGAGA-TTCGTGTAAGACCATAGCTGGGCTATTGGC
** *
11855239 ATCGATACGAGATTTCCATGTAAGACCAT
1 ATCGATTTGAGA-TT-CGTGTAAGACCAT
11855268 GTTTGGGACA
Statistics
Matches: 249, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
41 19 0.08
42 101 0.41
43 119 0.48
44 10 0.04
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (42 bp):
ATCGATTTGAGATTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:11855091 original size:85 final size:85
Alignment explanation
Indices: 11854942--11855267 Score: 395
Period size: 85 Copynumber: 3.8 Consensus size: 85
11854932 ATGTTCTAAT
* ** * * * * * *
11854942 ATCGACTTGAGATCCCGTATAAGTCCATATCTGGGATA-TGACATCGATTTGATATTCGTGTAAG
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGATTCGTGTAAG
11855006 ACCATAGCTGGGCTATTGGC
66 ACCATAGCTGGGCTATTGGC
** * * *
11855026 ATATATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGCATTGATTTGAGATTCTTGTAAG
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGATTCGTGTAAG
*
11855091 ACCATAGCTGGGATATTGGC
66 ACCATAGCTGGGCTATTGGC
* *
11855111 ATCGATTTGAGA-TTCTTGTAAGACCATAGTTGGGCTATTGGCATCGATTTGAGATTTCGTGTAA
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGA-TTCGTGTAA
11855175 GACCATAGCTGGGCTATTGGC
65 GACCATAGCTGGGCTATTGGC
* * * * ** *
11855196 ATCGATTTGAGATTTCGTGTATGACTATAGCTGGGATATTGGAATCGATACGAGATTTCCATGTA
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGA-TT-CGTGTA
11855261 AGACCAT
64 AGACCAT
11855268 GTTTGGGACA
Statistics
Matches: 206, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
84 66 0.32
85 91 0.44
86 37 0.18
87 12 0.06
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (85 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGAGATTCGTGTAAG
ACCATAGCTGGGCTATTGGC
Found at i:11855174 original size:127 final size:128
Alignment explanation
Indices: 11854942--11855267 Score: 431
Period size: 127 Copynumber: 2.5 Consensus size: 128
11854932 ATGTTCTAAT
* ** * * * * * *
11854942 ATCGACTTGAGATCCCGTATAAGTCCATATCTGGGATA-TGACATCGATTTGATATTCGTGTAAG
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGATATTGGCATCGATTTGAGATTCATGTAAG
*
11855006 ACCATAGCTGGGCTATTGGCATATATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
66 ACCATAGCTGGGCTATTGGCATAGATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
* * *
11855069 ATTGATTTGAGA-TTCTTGTAAGACCATAGCTGGGATATTGGCATCGATTTGAGATTCTTGTAAG
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGATATTGGCATCGATTTGAGATTCATGTAAG
* * *
11855133 ACCATAGTTGGGCTATTGGCATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
66 ACCATAGCTGGGCTATTGGCATAGATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
* * * **
11855196 ATCGATTTGAGATTTCGTGTATGACTATAGCTGGGATATTGGAATCGATACGAGATTTCCATGTA
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGATATTGGCATCGATTTGAGA-TT-CATGTA
11855261 AGACCAT
64 AGACCAT
11855268 GTTTGGGACA
Statistics
Matches: 172, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
126 19 0.11
127 103 0.60
128 36 0.21
129 2 0.01
130 12 0.07
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (128 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGATATTGGCATCGATTTGAGATTCATGTAAG
ACCATAGCTGGGCTATTGGCATAGATTTGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGC
Found at i:11861389 original size:44 final size:43
Alignment explanation
Indices: 11861312--11861433 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 43
11861302 TTCCGATATG
* * * * *
11861312 TGATATCGTATAAGACCATGTCTGGGACGTTGGCATTGGTTTGA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTCGTAT-A
11861356 -GATTTACGTGTAAGACCATGTCTGGGACATTGGCA-TCGTATA
1 TGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATTCGTATA
*
11861398 TGATTTCGTGTAAGACTC-TGTCTGGGACAGTGGCAT
1 TGATTTCGTGTAAGAC-CATGTCTGGGACATTGGCAT
11861434 AATTATTTGA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
42 27 0.40
43 14 0.21
44 27 0.40
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTCGTATA
Found at i:11869404 original size:42 final size:42
Alignment explanation
Indices: 11869295--11869459 Score: 145
Period size: 43 Copynumber: 3.9 Consensus size: 42
11869285 TTTCGATATG
* * * *
11869295 TGATATCGTATAAGACCACGTCTGGGACTTTGGCATTG-ATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
* * *
11869336 TGAGATTTACGTGTAAGATCATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
* *
11869381 TGATTTCGTGTAAGACC-CTGTCTGGGAAAGTGGCATCGTTATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATT
* * * * *
11869424 TGAATACATGTAAGACCACGTCTGGAACGTTGGCAT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
11869460 TGTACGAGTT
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 39 0.40
44 28 0.29
45 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
Found at i:11877648 original size:15 final size:16
Alignment explanation
Indices: 11877620--11877649 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11877610 CTGAGACTAA
11877620 ATTGAATATGAGTTAT
1 ATTGAATATGAGTTAT
11877636 ATTGAAT-TGAGTTA
1 ATTGAATATGAGTTA
11877650 AATCCATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (16 bp):
ATTGAATATGAGTTAT
Found at i:11877913 original size:25 final size:25
Alignment explanation
Indices: 11877898--11877958 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
11877888 AACTCTTATT
*
11877898 AGCTTACCGTTATTCATCTCAAAGG
1 AGCTTACCGTTATTCAACTCAAAGG
* *
11877923 AGCTTACCGTTATTCAGCTCAGAGG
1 AGCTTACCGTTATTCAACTCAAAGG
*
11877948 AGCTTAACGTT
1 AGCTTACCGTT
11877959 TACAGCTCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (25 bp):
AGCTTACCGTTATTCAACTCAAAGG
Found at i:11905219 original size:42 final size:42
Alignment explanation
Indices: 11905149--11905234 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
11905139 CCTAGCACAG
* *
11905149 GGCCTAGCACACGGGCGTGCGTGGCAACTCA-AAGAGTTACAC
1 GGCCTAGCACACGGGCGTGCGAGACAACTCAGAA-AGTTACAC
* * *
11905191 GGCCTGGCACACGGGCGTGTGAGACAACTCAGTAAGTTACAC
1 GGCCTAGCACACGGGCGTGCGAGACAACTCAGAAAGTTACAC
11905233 GG
1 GG
11905235 GTGAGGAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.26, C:0.27, G:0.33, T:0.15
Consensus pattern (42 bp):
GGCCTAGCACACGGGCGTGCGAGACAACTCAGAAAGTTACAC
Found at i:11908342 original size:68 final size:67
Alignment explanation
Indices: 11908217--11908394 Score: 221
Period size: 68 Copynumber: 2.6 Consensus size: 67
11908207 CAACATGTTG
* ** * **
11908217 CCATAGTTGAGCTATGGTCTTACACATGTAACCCCATGTTTAATGTCCTGGTGGACTCTATAGGT
1 CCATAGTCGAGCTATGGTCTTACACATGTAACCCCATGTTTAACATCCTGGTAGACTCTATACAT
11908282 TA
66 TA
* * * * * *
11908284 TCATAGTCGAGCTACGGGCTTACACCTTGTAACCCCATGTTTAACATCTTGGTAGACTCTATTCA
1 CCATAGTCGAGCTATGGTCTTACA-CATGTAACCCCATGTTTAACATCCTGGTAGACTCTATACA
*
11908349 TTG
65 TTA
*
11908352 CCATAGTCAAGCTATGGTCTTACACATGTAACCCCATGTTTAA
1 CCATAGTCGAGCTATGGTCTTACACATGTAACCCCATGTTTAA
11908395 TGCCCTAGCA
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
67 38 0.41
68 54 0.59
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (67 bp):
CCATAGTCGAGCTATGGTCTTACACATGTAACCCCATGTTTAACATCCTGGTAGACTCTATACAT
TA
Found at i:11908429 original size:67 final size:68
Alignment explanation
Indices: 11908226--11908452 Score: 251
Period size: 67 Copynumber: 3.4 Consensus size: 68
11908216 GCCATAGTTG
* *
11908226 AGCTATGGTCTTACA-CATGTAACCCCATGTTTAATGTCCTGGTGGACTCTATAGGTTATCATAG
1 AGCTATGGTCTTACACCATGTAACCCCATGTTTAATGTCCTGGTAGACTCTATAGGTTGTCATAG
*
11908290 TCG
66 TCA
* * * ** * *** *
11908293 AGCTACGGGCTTACACCTTGTAACCCCATGTTTAACATCTTGGTAGACTCTATTCATTGCCATAG
1 AGCTATGGTCTTACACCATGTAACCCCATGTTTAATGTCCTGGTAGACTCTATAGGTTGTCATAG
11908358 TCA
66 TCA
* * * * *
11908361 AGCTATGGTCTTACA-CATGTAACCCCATGTTTAATGCCCTAGCAGACACTATAGGTTGTCATAC
1 AGCTATGGTCTTACACCATGTAACCCCATGTTTAATGTCCTGGTAGACTCTATAGGTTGTCATAG
11908425 TCA
66 TCA
* * *
11908428 AGCTATGCTATTACACCTTGTAACC
1 AGCTATGGTCTTACACCATGTAACC
11908453 TCTTTTAAGG
Statistics
Matches: 127, Mismatches: 31, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
67 65 0.51
68 62 0.49
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (68 bp):
AGCTATGGTCTTACACCATGTAACCCCATGTTTAATGTCCTGGTAGACTCTATAGGTTGTCATAG
TCA
Found at i:11909838 original size:22 final size:24
Alignment explanation
Indices: 11909812--11909856 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
11909802 TAAAAGTTAT
*
11909812 ATCTAAAAT-TAACAATA-ATCTA
1 ATCTAAAATATAAAAATATATCTA
11909834 ATCTAAAATATAAAAATATATCT
1 ATCTAAAATATAAAAATATATCT
11909857 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 7 0.35
24 4 0.20
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (24 bp):
ATCTAAAATATAAAAATATATCTA
Found at i:11911409 original size:26 final size:24
Alignment explanation
Indices: 11911349--11911409 Score: 61
Period size: 26 Copynumber: 2.5 Consensus size: 24
11911339 AATAATAGAT
*
11911349 GTACCAACTTGAAAAAAAAATTCA
1 GTACCAATTTGAAAAAAAAATTCA
* *
11911373 GTAACACTTTGACAAAAAAAAGTT-A
1 GTACCAATTTGA-AAAAAAAA-TTCA
11911398 GGTACCAATTTG
1 -GTACCAATTTG
11911410 TATATTAAGC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 9 0.31
25 9 0.31
26 11 0.38
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.25
Consensus pattern (24 bp):
GTACCAATTTGAAAAAAAAATTCA
Found at i:11914633 original size:7 final size:7
Alignment explanation
Indices: 11914608--11914680 Score: 74
Period size: 7 Copynumber: 10.4 Consensus size: 7
11914598 TTAAAAAATT
*
11914608 AATTGAG
1 AATTGAA
*
11914615 AATTGAG
1 AATTGAA
11914622 AATTGAA
1 AATTGAA
*
11914629 GATTGAA
1 AATTGAA
*
11914636 AATCGAA
1 AATTGAA
11914643 AATTGAA
1 AATTGAA
*
11914650 AATCGAA
1 AATTGAA
*
11914657 AATCGAA
1 AATTGAA
**
11914664 AATCAAA
1 AATTGAA
11914671 AATTGAA
1 AATTGAA
11914678 AAT
1 AAT
11914681 CAAAAATCGA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.23
Consensus pattern (7 bp):
AATTGAA
Found at i:11914633 original size:14 final size:14
Alignment explanation
Indices: 11914615--11914687 Score: 92
Period size: 14 Copynumber: 5.2 Consensus size: 14
11914605 ATTAATTGAG
* *
11914615 AATTGAGAATTGAA
1 AATTGAAAATCGAA
*
11914629 GATTGAAAATCGAA
1 AATTGAAAATCGAA
11914643 AATTGAAAATCGAA
1 AATTGAAAATCGAA
* *
11914657 AATCGAAAATCAAA
1 AATTGAAAATCGAA
*
11914671 AATTGAAAATCAAA
1 AATTGAAAATCGAA
11914685 AAT
1 AAT
11914688 CGAGAATTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 52 1.00
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.22
Consensus pattern (14 bp):
AATTGAAAATCGAA
Found at i:11914633 original size:21 final size:21
Alignment explanation
Indices: 11914622--11914687 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
11914612 GAGAATTGAG
11914622 AATTGAAGATTGAAAATCGAA
1 AATTGAAGATTGAAAATCGAA
* *
11914643 AATTGAAAATCGAAAATCGAA
1 AATTGAAGATTGAAAATCGAA
** * *
11914664 AATCAAAAATTGAAAATCAAA
1 AATTGAAGATTGAAAATCGAA
11914685 AAT
1 AAT
11914688 CGAGAATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.21
Consensus pattern (21 bp):
AATTGAAGATTGAAAATCGAA
Found at i:11914686 original size:7 final size:7
Alignment explanation
Indices: 11914633--11914690 Score: 80
Period size: 7 Copynumber: 8.3 Consensus size: 7
11914623 ATTGAAGATT
11914633 GAAAATC
1 GAAAATC
*
11914640 GAAAATT
1 GAAAATC
11914647 GAAAATC
1 GAAAATC
11914654 GAAAATC
1 GAAAATC
11914661 GAAAATC
1 GAAAATC
* *
11914668 AAAAATT
1 GAAAATC
11914675 GAAAATC
1 GAAAATC
*
11914682 AAAAATC
1 GAAAATC
11914689 GA
1 GA
11914691 GAATTTAGGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.17
Consensus pattern (7 bp):
GAAAATC
Found at i:11921510 original size:19 final size:20
Alignment explanation
Indices: 11921478--11921519 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
11921468 TTTTAAATGT
* *
11921478 ATTTTTATTTTATTTTTGAA
1 ATTTTTATTGTATTTTTAAA
11921498 ATTTTTA-TGTATTTTTAAA
1 ATTTTTATTGTATTTTTAAA
11921517 ATT
1 ATT
11921520 AGGATCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
ATTTTTATTGTATTTTTAAA
Found at i:11923575 original size:34 final size:34
Alignment explanation
Indices: 11923532--11923599 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
11923522 AATATATTAA
11923532 ATATTCAATATCTTGTAAAGATTCGCTAATCTAT
1 ATATTCAATATCTTGTAAAGATTCGCTAATCTAT
*
11923566 ATATTCAATATCTTGTAAAGATTTGCTAATCTAT
1 ATATTCAATATCTTGTAAAGATTCGCTAATCTAT
11923600 CCCATATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (34 bp):
ATATTCAATATCTTGTAAAGATTCGCTAATCTAT
Found at i:11925461 original size:23 final size:23
Alignment explanation
Indices: 11925428--11925503 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
11925418 NNNNNNNNNA
11925428 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11925451 CACTGAAATGTAGCCGAGGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
11925474 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11925497 CACTGAT
1 CACTGAT
11925504 CAATAACACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11935679 original size:21 final size:21
Alignment explanation
Indices: 11935654--11935694 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11935644 AATTTTCTGT
11935654 CAAATATC-TTTAACCCTTTTC
1 CAAATATCTTTTAA-CCTTTTC
11935675 CAAATATCTTTTAACCTTTT
1 CAAATATCTTTTAACCTTTT
11935695 GCCATAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (21 bp):
CAAATATCTTTTAACCTTTTC
Found at i:11940233 original size:35 final size:35
Alignment explanation
Indices: 11940194--11940264 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
11940184 TCTATGATCA
*
11940194 CATATATTTGAAGATCACCTTCCATATTTGCCAAG
1 CATATATTTGAAGATCACCTTCCATATTTACCAAG
* *
11940229 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATATTTGAAGATCACCTTCCATATTTACCAAG
11940264 C
1 C
11940265 TCCAGAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (35 bp):
CATATATTTGAAGATCACCTTCCATATTTACCAAG
Found at i:11943721 original size:133 final size:132
Alignment explanation
Indices: 11943561--11943993 Score: 458
Period size: 133 Copynumber: 3.3 Consensus size: 132
11943551 TGTTCATGAT
* * * * * * * *
11943561 AGCGAGTTTTTATAATAGCAGTCGCGATCGTAAATCAACAAATTGTTAAGAGGAATCGTGATCGT
1 AGCGAGCTTTAATTATATCAGTTGCGATCGTAAATCAACAAACTGTTAAAAGGAGTCGTGATCGT
* * * * *
11943626 AAATCAACGAACTCTAAATGAAGTGTTTATGATCGTAAATCAATTAACTGAAATCGTGATCGTAA
66 AAATCAGCGAACTCTAAATGAATTGTTCATGATCGTAAATCAATAAACT-AAACCGTGATCGTAA
11943691 A-C
130 ATC
* * * * *
11943693 TAGCGAGCTTTGATTATATCAGTTGCGATCGTAAATCAACGAACTATCAAAAGGAGTCGTGATTG
1 -AGCGAGCTTTAATTATATCAGTTGCGATCGTAAATCAACAAACTGTTAAAAGGAGTCGTGATCG
* * * * * *
11943758 TAAATTAGCGAACTCTAGATGAATTGTTCATGATCGTAAATCAATGAGCTTAAGCTGTGATCGTA
65 TAAATCAGCGAACTCTAAATGAATTGTTCATGATCGTAAATCAATAAAC-TAAACCGTGATCGTA
11943823 AATC
129 AATC
* * * **
11943827 AGCGAGCTTTAATGT-TATCAATAGCGATTGTAAATCAGTAAACTGTTAAAAGGAGTCGTGATCG
1 AGCGAGCTTTAAT-TATATCAGTTGCGATCGTAAATCAACAAACTGTTAAAAGGAGTCGTGATCG
* * * * * *
11943891 TAAATCAGTGAACTTTAAATGAATTGTTCATGATCATAAATCAATAAAATTAAGCCATGATCGTA
65 TAAATCAGCGAACTCTAAATGAATTGTTCATGATCGTAAATCAAT-AAACTAAACCGTGATCGTA
11943956 AATC
129 AATC
** *
11943960 AATGA-CTTTAATGATATCAGTTGCGATCGTAAAT
1 AGCGAGCTTTAATTATATCAGTTGCGATCGTAAAT
11943994 TTGTGAACTC
Statistics
Matches: 247, Mismatches: 48, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
132 24 0.10
133 219 0.89
134 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (132 bp):
AGCGAGCTTTAATTATATCAGTTGCGATCGTAAATCAACAAACTGTTAAAAGGAGTCGTGATCGT
AAATCAGCGAACTCTAAATGAATTGTTCATGATCGTAAATCAATAAACTAAACCGTGATCGTAAA
TC
Found at i:11944012 original size:231 final size:237
Alignment explanation
Indices: 11943757--11944235 Score: 578
Period size: 231 Copynumber: 2.0 Consensus size: 237
11943747 AGTCGTGATT
* * * * *
11943757 GTAAATTAGCGAACTCTAGATGAATTGTTCATGATCGTAAATCAATGAGCTTAAGCTGTGATCGT
1 GTAAATTAGCGAACTCTAGATGAATTGTTCATGATCGTAAATCAATGAACTCAAACCGTGATCAT
* * * ** *
11943822 AAATCAGCGAGCTTTAATGTTATCA-ATAGCGATTGTAAATCAGTAAACTG-T-TA-A-A-AGGA
66 AAATCAGCGAGCTTTAATGATATCAGAT-GAGATCGTAAATCAACAAACTGCTAAAGAGAGAGGA
* * *** *
11943881 GTCGTGATCGTAAATCAGTGAACTTTAA-ATGAATTGTTCATGATCATAAATCAATAAAATTAAG
130 GTCATGATCGTAAATAAAAAAAC-TCAAGATGAATTGTTCATGATCATAAATCAATAAAATTAAG
*
11943945 CCATGATCGTAAATCAATGA-CTTTAATGATATCAGTTGCGATC
194 CCATGATCGTAAATCAACGAGCTTTAATGATATCAGTTGCGATC
* * * * *
11943988 GTAAATTTGTGAACTCTAGATGAATTGTTTATTATCGTAAATTAATGAACTCAAACCGTGATCAT
1 GTAAATTAGCGAACTCTAGATGAATTGTTCATGATCGTAAATCAATGAACTCAAACCGTGATCAT
*
11944053 AAATCAGCGAGCTTTAATGATATCAGCTGAGATCGTAAATCAACAAACTGCTAAGAAGAGTCGAG
66 AAATCAGCGAGCTTTAATGATATCAGATGAGATCGTAAATCAACAAACTGCT-A-AAGA---GAG
* * *
11944118 AGGAGTCATGATCGTAAATAAAAAAACTCAAGATGAATTGTTCATGATCGTAAATCAATGAACTT
126 AGGAGTCATGATCGTAAATAAAAAAACTCAAGATGAATTGTTCATGATCATAAATCAATAAAATT
**
11944183 AAGCTGTGATCGTAAATCAACGAGCTTTAATGATATCAGTTGCGATC
191 AAGCCATGATCGTAAATCAACGAGCTTTAATGATATCAGTTGCGATC
11944230 GTAAAT
1 GTAAAT
11944236 CAAAAAACTG
Statistics
Matches: 206, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
231 97 0.47
232 2 0.01
235 1 0.00
236 1 0.00
240 4 0.02
241 72 0.35
242 29 0.14
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (237 bp):
GTAAATTAGCGAACTCTAGATGAATTGTTCATGATCGTAAATCAATGAACTCAAACCGTGATCAT
AAATCAGCGAGCTTTAATGATATCAGATGAGATCGTAAATCAACAAACTGCTAAAGAGAGAGGAG
TCATGATCGTAAATAAAAAAACTCAAGATGAATTGTTCATGATCATAAATCAATAAAATTAAGCC
ATGATCGTAAATCAACGAGCTTTAATGATATCAGTTGCGATC
Found at i:11944056 original size:98 final size:99
Alignment explanation
Indices: 11943886--11944094 Score: 249
Period size: 98 Copynumber: 2.1 Consensus size: 99
11943876 AAGGAGTCGT
* * *
11943886 GATCGTAAATCAGTGAACTTTAAATGAATTGTTCATGATCATAAATCAATAAAATTAAGCCATGA
1 GATCGTAAATCAGTGAACTCTAAATGAATTGTTCATGATCATAAATCAATAAAATCAAACCATGA
* * * *
11943951 TCGTAAATCAATGA-CTTTAATGATATCAGTTGC
66 TCATAAATCAACGAGCTTTAATGATATCAGCTGA
** * * * * * * * *
11943984 GATCGTAAATTTGTGAACTCTAGATGAATTGTTTATTATCGTAAATTAATGAACTCAAACCGTGA
1 GATCGTAAATCAGTGAACTCTAAATGAATTGTTCATGATCATAAATCAATAAAATCAAACCATGA
*
11944049 TCATAAATCAGCGAGCTTTAATGATATCAGCTGA
66 TCATAAATCAACGAGCTTTAATGATATCAGCTGA
11944083 GATCGTAAATCA
1 GATCGTAAATCA
11944095 ACAAACTGCT
Statistics
Matches: 90, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
98 63 0.70
99 27 0.30
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (99 bp):
GATCGTAAATCAGTGAACTCTAAATGAATTGTTCATGATCATAAATCAATAAAATCAAACCATGA
TCATAAATCAACGAGCTTTAATGATATCAGCTGA
Found at i:11944235 original size:63 final size:63
Alignment explanation
Indices: 11944163--11944370 Score: 190
Period size: 63 Copynumber: 3.2 Consensus size: 63
11944153 AATTGTTCAT
11944163 GATCGTAAATCAATGAACTTAAGCTGTGATCGTAAATCAACGAGCTTTAATGATATCAGTTGC
1 GATCGTAAATCAATGAACTTAAGCTGTGATCGTAAATCAACGAGCTTTAATGATATCAGTTGC
** * * *
11944226 GATCGTAAATCAAAAAACTGTTAAGAGGAGTCATGATCGTAAATCAACGA-ATTCTAGATGA-AT
1 GATCGTAAATCAATGAAC--TT-A-A-G-CT-GTGATCGTAAATCAACGAGCTT-TA-ATGATAT
*
11944289 -TGTT-C
57 CAGTTGC
* * **
11944294 ATGATCGTAAATCAATGAACTTAAGCCGTGATCATAAATCAGTGAGCTTTAATGATATCAGTTGC
1 --GATCGTAAATCAATGAACTTAAGCTGTGATCGTAAATCAACGAGCTTTAATGATATCAGTTGC
*
11944359 GATCATAAATCA
1 GATCGTAAATCA
11944371 GCAAACTGTT
Statistics
Matches: 113, Mismatches: 17, Indels: 30
0.71 0.11 0.19
Matches are distributed among these distances:
62 4 0.04
63 45 0.40
64 5 0.04
65 4 0.04
66 2 0.02
67 2 0.02
68 4 0.04
69 6 0.05
70 37 0.33
71 4 0.04
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (63 bp):
GATCGTAAATCAATGAACTTAAGCTGTGATCGTAAATCAACGAGCTTTAATGATATCAGTTGC
Found at i:11944354 original size:133 final size:133
Alignment explanation
Indices: 11944116--11944385 Score: 423
Period size: 133 Copynumber: 2.0 Consensus size: 133
11944106 AGAAGAGTCG
11944116 AGAGGAGTCATGATCGTAAATAAAAAAACTCAAGATGAATTGTTCATGATCGTAAATCAATGAAC
1 AGAGGAGTCATGATCGTAAATAAAAAAACTCAAGATGAATTGTTCATGATCGTAAATCAATGAAC
* * *
11944181 TTAAGCTGTGATCGTAAATCAACGAGCTTTAATGATATCAGTTGCGATCGTAAATCAAAAAACTG
66 TTAAGCCGTGATCATAAATCAACGAGCTTTAATGATATCAGTTGCGATCATAAATCAAAAAACTG
11944246 TTA
131 TTA
* ** * *
11944249 AGAGGAGTCATGATCGTAAATCAACGAATTCTAGATGAATTGTTCATGATCGTAAATCAATGAAC
1 AGAGGAGTCATGATCGTAAATAAAAAAACTCAAGATGAATTGTTCATGATCGTAAATCAATGAAC
** **
11944314 TTAAGCCGTGATCATAAATCAGTGAGCTTTAATGATATCAGTTGCGATCATAAATCAGCAAACTG
66 TTAAGCCGTGATCATAAATCAACGAGCTTTAATGATATCAGTTGCGATCATAAATCAAAAAACTG
*
11944379 TTG
131 TTA
11944382 AGAG
1 AGAG
11944386 TAGTGTAATG
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 124 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (133 bp):
AGAGGAGTCATGATCGTAAATAAAAAAACTCAAGATGAATTGTTCATGATCGTAAATCAATGAAC
TTAAGCCGTGATCATAAATCAACGAGCTTTAATGATATCAGTTGCGATCATAAATCAAAAAACTG
TTA
Found at i:11953891 original size:22 final size:21
Alignment explanation
Indices: 11953856--11953951 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
11953846 AAAGGGTATC
* *
11953856 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
11953877 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
11953900 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
11953919 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
11953938 TGCATATCATATCT
1 TACAAATCATATCT
11953952 AATATTATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 34 0.54
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11953899 original size:23 final size:22
Alignment explanation
Indices: 11953856--11953913 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11953846 AAAGGGTATC
* *
11953856 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11953877 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11953900 TGCATATCATATCT
1 TACAAATCATATCT
11953914 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11953916 original size:19 final size:19
Alignment explanation
Indices: 11953892--11953983 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
11953882 AATCATATCT
11953892 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
11953911 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
11953930 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* ** *
11953949 TCTAATATTATATATTATA
1 TCTAAGATTGCATATCATA
11953968 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
11953984 CCTGAATATT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 61 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11953939 original size:38 final size:38
Alignment explanation
Indices: 11953892--11953983 Score: 166
Period size: 38 Copynumber: 2.4 Consensus size: 38
11953882 AATCATATCT
11953892 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
* *
11953930 TCTAAGATTGCATATCATATCTAATATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
11953968 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
11953984 CCTGAATATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:11964096 original size:39 final size:39
Alignment explanation
Indices: 11964032--11964305 Score: 358
Period size: 39 Copynumber: 7.1 Consensus size: 39
11964022 GGGTATTACA
*
11964032 CAGTATATTCAGTAAGTTTTTCTCGATTGAGCAACAATT
1 CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATT
*
11964071 CAGTATATTCAGTAAATTTTGCTCGATTGAGCAACAATT
1 CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATT
* *
11964110 CCGTATATTCAGTAAGTTTTGCTTGATTGAGCAACAATT
1 CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATT
** * *
11964149 CAGTACGTTTAGT-AGATTTTGCTCGATTGAGCAGC-ATT
1 CAGTATATTCAGTAAG-TTTTGCTCGATTGAGCAACAATT
*
11964187 TAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATT
1 CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATT
* * *
11964226 CAGTATGTTCAGT-AGATTTTGCTCAATTGAGCAGC-ATT
1 CAGTATATTCAGTAAG-TTTTGCTCGATTGAGCAACAATT
* * * *
11964264 CAGTATATTTAGTAAGTCTTGCTTGATTGAGCAATAATT
1 CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATT
11964303 CAG
1 CAG
11964306 AATACTCGAT
Statistics
Matches: 202, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
38 62 0.31
39 140 0.69
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (39 bp):
CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATT
Found at i:11964227 original size:77 final size:77
Alignment explanation
Indices: 11964032--11964305 Score: 413
Period size: 77 Copynumber: 3.5 Consensus size: 77
11964022 GGGTATTACA
* * *
11964032 CAGTATATTCAGTAAGTTTTTCTCGATTGAGCAACAATTCAGTATATTCAGTAAATTTTGCTCGA
1 CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATTCAGTATGTTCAGTAGATTTTGCTCGA
*
11964097 TTGAGCAACAATT
66 TTGAGCAGC-ATT
* * * *
11964110 CCGTATATTCAGTAAGTTTTGCTTGATTGAGCAACAATTCAGTACGTTTAGTAGATTTTGCTCGA
1 CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATTCAGTATGTTCAGTAGATTTTGCTCGA
11964175 TTGAGCAGCATT
66 TTGAGCAGCATT
* *
11964187 TAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATTCAGTATGTTCAGTAGATTTTGCTCAA
1 CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATTCAGTATGTTCAGTAGATTTTGCTCGA
11964252 TTGAGCAGCATT
66 TTGAGCAGCATT
* * * *
11964264 CAGTATATTTAGTAAGTCTTGCTTGATTGAGCAATAATTCAG
1 CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATTCAG
11964306 AATACTCGAT
Statistics
Matches: 177, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
77 111 0.63
78 66 0.37
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (77 bp):
CAGTATATTCAGTAAGTTTTGCTCGATTGAGCAACAATTCAGTATGTTCAGTAGATTTTGCTCGA
TTGAGCAGCATT
Found at i:11964237 original size:116 final size:116
Alignment explanation
Indices: 11964032--11964305 Score: 356
Period size: 116 Copynumber: 2.4 Consensus size: 116
11964022 GGGTATTACA
* * *
11964032 CAGTATATTCAGTAAGTTTTTCTCGATTGAGCAACAATTCAGTATATTCAGTAAATTTTGCTCGA
1 CAGTACATTTAGTAAGTTTTGCTCGATTGAGCAACAATTCAGTATATTCAGTAAATTTTGCTCGA
* **
11964097 TTGAGCAACAATTCCGTATATTCAGTA-AGTTTTGCTTGATTGAGCAACAATT
66 TTGAGCAACAATTCAGTATATTCAGTAGA-TTTTGCTCAATTGAGCAAC-ATT
* * * *
11964149 CAGTACGTTTAGT-AGATTTTGCTCGATTGAGCAGC-ATTTAGTATATTCAGTAAGTTTTGCTCG
1 CAGTACATTTAGTAAG-TTTTGCTCGATTGAGCAACAATTCAGTATATTCAGTAAATTTTGCTCG
* *
11964212 ATTGAGCAACAATTCAGTATGTTCAGTAGATTTTGCTCAATTGAGCAGCATT
65 ATTGAGCAACAATTCAGTATATTCAGTAGATTTTGCTCAATTGAGCAACATT
* * * *
11964264 CAGTATATTTAGTAAGTCTTGCTTGATTGAGCAATAATTCAG
1 CAGTACATTTAGTAAGTTTTGCTCGATTGAGCAACAATTCAG
11964306 AATACTCGAT
Statistics
Matches: 134, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
115 29 0.22
116 77 0.57
117 28 0.21
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (116 bp):
CAGTACATTTAGTAAGTTTTGCTCGATTGAGCAACAATTCAGTATATTCAGTAAATTTTGCTCGA
TTGAGCAACAATTCAGTATATTCAGTAGATTTTGCTCAATTGAGCAACATT
Found at i:11967308 original size:22 final size:23
Alignment explanation
Indices: 11967283--11967336 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
11967273 TGCACTTCAG
11967283 TGCCTACTGACTTT-CACTATGA
1 TGCCTACTGACTTTGCACTATGA
* *
11967305 TGCCTACTG-TTTTGCACTATGG
1 TGCCTACTGACTTTGCACTATGA
11967327 TGCCTACTGA
1 TGCCTACTGA
11967337 TTCGTACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (23 bp):
TGCCTACTGACTTTGCACTATGA
Found at i:11969555 original size:23 final size:23
Alignment explanation
Indices: 11969527--11969577 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
11969517 TGGGTTATGT
*
11969527 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
11969550 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
11969573 AGTAA
1 TGTAA
11969578 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:11972696 original size:50 final size:50
Alignment explanation
Indices: 11972620--11973000 Score: 496
Period size: 50 Copynumber: 7.6 Consensus size: 50
11972610 GCATCATTGA
11972620 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
* *
11972670 ATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
*
11972720 GTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
* * *
11972770 GTAAGACCATGTTTGGGACATAGCGTTGGCATCGAGATGAGAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
* * *
11972820 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGGGATAAGAGGTCCCCT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
* * * **
11972870 GTAAGACCATGTCTGGGACATGGCATAGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
* * * * * * * * ** *
11972920 GTAAGACCATATATGGGATATGGCAATTGGTA--GTACAGGAAACATCTCAT
1 GTAAGACCATGTCTGGGACATGGC-GTTGGCACCG-AGATGAGAGGTCCCAT
*
11972970 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCGTTGGCA
11973001 TGTTATTATC
Statistics
Matches: 290, Mismatches: 39, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
49 6 0.02
50 279 0.96
51 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAT
Found at i:11974571 original size:23 final size:23
Alignment explanation
Indices: 11974545--11974595 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
11974535 GCAAAAGATG
11974545 TGTAATATCACGAAAATTACTAC
1 TGTAATATCACGAAAATTACTAC
**
11974568 TGTAATATCTTGAAAATTACTAC
1 TGTAATATCACGAAAATTACTAC
*
11974591 AGTAA
1 TGTAA
11974596 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (23 bp):
TGTAATATCACGAAAATTACTAC
Found at i:11977340 original size:22 final size:22
Alignment explanation
Indices: 11977308--11977364 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
11977298 CTATCTTGAG
*
11977308 TGTCGCAACACCACACCCTGGA
1 TGTCGCAACACCACACCCTAGA
*
11977330 TGTCGCGACACCACACCCTAGA
1 TGTCGCAACACCACACCCTAGA
*
11977352 TGTTGCAACACCA
1 TGTCGCAACACCA
11977365 ATTTGATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.39, G:0.18, T:0.16
Consensus pattern (22 bp):
TGTCGCAACACCACACCCTAGA
Found at i:11978719 original size:44 final size:42
Alignment explanation
Indices: 11978642--11978736 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 42
11978632 ACCGAGATTA
*
11978642 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGAGTT
1 CGTGTAAGACCATATCTGGGACATGGCATCGATATGAGAGTT
* * *
11978684 CGTGTAAGACCCATGTCTGGGACATTGGCATCGATATGTGATTT
1 CGTGTAAGA-CCATATCTGGGACA-TGGCATCGATATGAGAGTT
11978728 CGTGTAAGA
1 CGTGTAAGA
11978737 TCATGGCTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 9 0.19
43 12 0.26
44 26 0.55
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGACATGGCATCGATATGAGAGTT
Found at i:11984800 original size:43 final size:43
Alignment explanation
Indices: 11984730--11984852 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
11984720 TTTTCAAAAA
11984730 GTGTTTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCAA-CTT
1 GTGTTTTCGTGTAAGACC-CTGTCTGGGACGTTGGCATCAATC-T
* * *
11984773 GTGTTTTCGTGTAAGACCCTGTTTGGGATAG-TGGCATCGATCT
1 GTGTTTTCGTGTAAGACCCTGTCTGGGA-CGTTGGCATCAATCT
* * * *
11984816 GTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 GTGTTTTCGTGTAAGACCCTGTCTGGGACGTTGGCAT
11984853 TGTACGAGCC
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 2 0.03
43 63 0.94
44 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCCTGTCTGGGACGTTGGCATCAATCT
Found at i:11987627 original size:21 final size:20
Alignment explanation
Indices: 11987594--11987633 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
11987584 CATTCAAACT
11987594 ATAATATACATTGATTTATC
1 ATAATATACATTGATTTATC
*
11987614 ATAATTATATATTGATTTAT
1 ATAA-TATACATTGATTTAT
11987634 TGAACTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
ATAATATACATTGATTTATC
Found at i:11989218 original size:24 final size:24
Alignment explanation
Indices: 11989190--11989241 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11989180 TTAGTAGGTC
*
11989190 AAATAAACTATGCTAATAAATACT
1 AAATAAACTATACTAATAAATACT
* *
11989214 AAATACATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11989238 AAAT
1 AAAT
11989242 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11991146 original size:24 final size:24
Alignment explanation
Indices: 11991119--11991170 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11991109 TTAGTAGGTC
11991119 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATGCT
* * *
11991143 AAATATATTATACTTATAAATGCT
1 AAATAAACTATACTAATAAATGCT
11991167 AAAT
1 AAAT
11991171 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATGCT
Found at i:11993637 original size:27 final size:27
Alignment explanation
Indices: 11993593--11993651 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
11993583 CAAAACTAAT
11993593 TTTTATTTAATTCCAATATATT-T-AAA
1 TTTTATTTAATTCCAATAT-TTATAAAA
* *
11993619 TTTTATTTTATTCATAATATTTATAAAA
1 TTTTATTTAATTC-CAATATTTATAAAA
11993647 TTTTA
1 TTTTA
11993652 CAAATCTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 14 0.50
27 6 0.21
28 8 0.29
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTATTTAATTCCAATATTTATAAAA
Found at i:11993707 original size:17 final size:17
Alignment explanation
Indices: 11993685--11993718 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11993675 TATATTTTTA
11993685 TATAATGATTCTTATTT
1 TATAATGATTCTTATTT
* *
11993702 TATAATTATTTTTATTT
1 TATAATGATTCTTATTT
11993719 GTAGAACTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (17 bp):
TATAATGATTCTTATTT
Found at i:11995020 original size:85 final size:84
Alignment explanation
Indices: 11994871--11995032 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 84
11994861 TTTTCTTTTC
* * * *
11994871 TTTTTGCACTCAATTGAGCACTTAAACTTTTAAAATACATCAAAAGGGCTCTCAAACTTCTTCAA
1 TTTTTGCACTCAATTGAGCACTTAAACTTTTAAAATACATCAAAAAGACCCTCAAAATTCTTC-A
11994936 AAAAAGCAATTAAGCAACTG
65 AAAAAGCAATTAAGCAACTG
* * * * * * *
11994956 TTTTTTCACTCAATTGGGTACTT-GAGTTTTCAAAATGCATCAAAAAGACCCTCAAAATTTTTCA
1 TTTTTGCACTCAATTGAGCACTTAAACTTTT-AAAATACATCAAAAAGACCCTCAAAATTCTTCA
11995020 AAAAAGCAATTAA
65 AAAAAGCAATTAA
11995033 TCCCCTGCTC
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 19 0.29
85 46 0.71
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (84 bp):
TTTTTGCACTCAATTGAGCACTTAAACTTTTAAAATACATCAAAAAGACCCTCAAAATTCTTCAA
AAAAGCAATTAAGCAACTG
Found at i:11995437 original size:28 final size:27
Alignment explanation
Indices: 11995349--11995453 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 27
11995339 TGTATTTCTT
*
11995349 TATATTTTATATAATTTTCTTACAACTTTA
1 TATATTTTATAT--TTTT-TTACAATTTTA
* *
11995379 TAAAATTTTATAATTTTTTTA-TATTTCTA
1 T-ATATTTTAT-ATTTTTTTACAATTT-TA
*
11995408 TATATTTTATATTTTTTTACGATTCTTA
1 TATATTTTATATTTTTTTACAATT-TTA
* *
11995436 TATTTTTTTCTATTTTTT
1 TA-TATTTTATATTTTTT
11995454 AATAAATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
27 9 0.15
28 18 0.29
29 20 0.32
30 5 0.08
31 8 0.13
32 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.65
Consensus pattern (27 bp):
TATATTTTATATTTTTTTACAATTTTA
Found at i:11995483 original size:13 final size:13
Alignment explanation
Indices: 11995448--11995490 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11995438 TTTTTTTCTA
*
11995448 TTTTTTAATAAAT
1 TTTTTTATTAAAT
*
11995461 TTTTAATATTAAAT
1 TTTT-TTATTAAAT
*
11995475 TTTTTTATTGAAT
1 TTTTTTATTAAAT
11995488 TTT
1 TTT
11995491 AATAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
TTTTTTATTAAAT
Found at i:11995665 original size:89 final size:90
Alignment explanation
Indices: 11995561--11995777 Score: 253
Period size: 89 Copynumber: 2.4 Consensus size: 90
11995551 AAGCAAGGGT
* *
11995561 TTAATTGCTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAT
1 TTAATTGCTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAAA
* * *
11995626 TGAGTGCAAA-AGAA-AGTG-GGGGG
66 TGAGTGCAAATA-AAGAGAGCGAGGC
* * * * * * *
11995649 TTAATTACTTCTTTTGAAAAGGTTTCAGGCTTTTTTTTATGCATTTTAAAAGTTTAAGTACCCAA
1 TTAATTGCTT-TTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAA
11995714 ATGAGTGCAAATAAAGAGAGCTGAGGC
65 ATGAGTGCAAATAAAGAGAGC-GAGGC
*
11995741 TTAATTGCTTTTTTTGAAAAAGTTTGAAGG-CTTTTTG
1 TTAATTGC-TTTTTTGAAAAAGTTTGAGGGTCTTTTTG
11995778 CTTCCTTAAG
Statistics
Matches: 104, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
88 9 0.09
89 59 0.57
90 4 0.04
91 5 0.05
92 25 0.24
93 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (90 bp):
TTAATTGCTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAAA
TGAGTGCAAATAAAGAGAGCGAGGC
Found at i:12000603 original size:21 final size:21
Alignment explanation
Indices: 12000564--12000603 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12000554 ATTCAAACTG
*
12000564 TAATTATACATTGACTTATCA
1 TAATTATACATTAACTTATCA
* *
12000585 TAATTATATATTAATTTAT
1 TAATTATACATTAACTTAT
12000604 TAAATTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (21 bp):
TAATTATACATTAACTTATCA
Found at i:12000903 original size:58 final size:59
Alignment explanation
Indices: 12000826--12000988 Score: 186
Period size: 58 Copynumber: 2.8 Consensus size: 59
12000816 ACCTAATAAC
* * * * *
12000826 AAATTTAGCCATTCCATGTTTACACAATTTATCAATTTGATCCTAATCTAAAAACTCAAT
1 AAATTTAGCC-CTCAATGTTTACAAAATTTATCAATTTAATTCTAATCTAAAAACTCAAT
* * *
12000886 -AATTTAGCCCTCAATGTTTACAAAATTTGTC-ATCTAATTCTAATCTAAAAATTCAAT
1 AAATTTAGCCCTCAATGTTTACAAAATTTATCAATTTAATTCTAATCTAAAAACTCAAT
* * ** *
12000943 AAATTTAGCTCTGAACATTTACAAAACTTATCAATTTAATTCTAAT
1 AAATTTAGCCCTCAATGTTTACAAAATTTATCAATTTAATTCTAAT
12000989 TTTAAAAGTT
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
57 22 0.26
58 43 0.50
59 21 0.24
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (59 bp):
AAATTTAGCCCTCAATGTTTACAAAATTTATCAATTTAATTCTAATCTAAAAACTCAAT
Found at i:12002941 original size:32 final size:32
Alignment explanation
Indices: 12002895--12002984 Score: 153
Period size: 32 Copynumber: 2.8 Consensus size: 32
12002885 CAATCATTTT
*
12002895 AATATCCAACAAGCTTAAAACATAATAAATTC
1 AATATCCAACAAGCTTAAAACATAATAAATTA
*
12002927 AATAACCAACAAGCTTAAAACATAATAAATTA
1 AATATCCAACAAGCTTAAAACATAATAAATTA
*
12002959 AATATCTAACAAGCTTAAAACATAAT
1 AATATCCAACAAGCTTAAAACATAAT
12002985 CAATATCTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.24
Consensus pattern (32 bp):
AATATCCAACAAGCTTAAAACATAATAAATTA
Found at i:12003008 original size:27 final size:27
Alignment explanation
Indices: 12002959--12003011 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
12002949 TAATAAATTA
*
12002959 AATATCTAACAAGCTTAAAACATAATC
1 AATATCTAACAAGATTAAAACATAATC
*
12002986 AATATCTAACAA-ATTCAAGACATAAT
1 AATATCTAACAAGATT-AAAACATAAT
12003012 AATTTCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (27 bp):
AATATCTAACAAGATTAAAACATAATC
Found at i:12005213 original size:40 final size:40
Alignment explanation
Indices: 12005158--12005240 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
12005148 AAATTGATTC
12005158 CTTACTCTGTTGATTCCTTT-TCGATATTCTCTATATATTT
1 CTTACTCTGTTGATTCCTTTCT-GATATTCTCTATATATTT
*
12005198 CTTACTCTGTTGATTCCTTTCTGATGTTCTCTATATATTT
1 CTTACTCTGTTGATTCCTTTCTGATATTCTCTATATATTT
12005238 CTT
1 CTT
12005241 TTGTTTCCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.16, C:0.20, G:0.08, T:0.55
Consensus pattern (40 bp):
CTTACTCTGTTGATTCCTTTCTGATATTCTCTATATATTT
Found at i:12005697 original size:205 final size:201
Alignment explanation
Indices: 12005322--12005927 Score: 735
Period size: 205 Copynumber: 3.0 Consensus size: 201
12005312 TCTCTTGCAT
* * * **
12005322 TTTATATGGTACAATTATCCAAAAGAAATCAAGGCAGAGCAGTGGAACAAT-AAAATCAGCAGTT
1 TTTATATGGTAAAATTATCCAAATGAAAACAAGGCAGAGCAGCAGAAC-ATGAAAATCAGCAGTT
* *
12005386 CAATTACAGAAATATTAG-TAAGTTTTGAAACATAAAACACAAATGCAATTATACTTTCATCCAC
65 -AATGACAGAAATATT-GCTAA-TTTTG-TACA-AAAACACAAATGCAATTATACTTTCATCCAC
*
12005450 TCTGGTTTATATACAGTTTTCAAGCATTATAAGATGAAAACACTATATCATGCATCCATATTAAG
125 TCTGG-TT-TATACAGTTTTCAAGCATTACAAGATGAAAACACTATATCATGCATCCATATTAAG
*
12005515 GAATTCAACTTACA
188 GCATTCAACTTACA
* * * **
12005529 TCTTATATGGTATAATTATCCAAATGAAAACAAGGGAGAGCAACAGAACATGAAAATTTGCAGTT
1 T-TTATATGGTAAAATTATCCAAATGAAAACAAGGCAGAGCAGCAGAACATGAAAATCAGCAGTT
* *
12005594 AATGATAGAAATATTGCTAATTTTGGTACACAAAACACAATATGCAATAATAC-TTCAATCCACT
65 AATGACAGAAATATTGCTAATTTT-GTACA-AAAACACAA-ATGCAATTATACTTTC-ATCCACT
*
12005658 CTGGTTTATACAGTTTTCAAGCATTACAAGATGAAAACACTATATCATGAATCCATATTAAGGCA
126 CTGGTTTATACAGTTTTCAAGCATTACAAGATGAAAACACTATATCATGCATCCATATTAAGGCA
12005723 TTCAACTTACA
191 TTCAACTTACA
* * * *
12005734 TTATATATGGTAAAATCATCTAAATGAAAACAAGGCAGAGCAGCAGAACATGCAAATCAACAGTT
1 TT-TATATGGTAAAATTATCCAAATGAAAACAAGGCAGAGCAGCAGAACATGAAAATCAGCAGTT
* * *
12005799 AATGACAGAAATATTACTAA-TTT-T---AAAACACAAGATGCAATTATACTTTCATCCATTTTG
65 AATGACAGAAATATTGCTAATTTTGTACAAAAACACAA-ATGCAATTATACTTTCATCCACTCTG
* * * *
12005859 GTTTATACACATTTTTCAAGCATTACAAGAT-AGAAACACCATACCATGCATCCTTATTAAGGCA
129 GTTTAT--ACAGTTTTCAAGCATTACAAGATGA-AAACACTATATCATGCATCCATATTAAGGCA
12005923 TTCAA
191 TTCAA
12005928 TTTTCTAATT
Statistics
Matches: 351, Mismatches: 37, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
198 34 0.10
199 4 0.01
200 54 0.15
202 1 0.00
204 4 0.01
205 139 0.40
206 22 0.06
207 42 0.12
208 51 0.15
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.29
Consensus pattern (201 bp):
TTTATATGGTAAAATTATCCAAATGAAAACAAGGCAGAGCAGCAGAACATGAAAATCAGCAGTTA
ATGACAGAAATATTGCTAATTTTGTACAAAAACACAAATGCAATTATACTTTCATCCACTCTGGT
TTATACAGTTTTCAAGCATTACAAGATGAAAACACTATATCATGCATCCATATTAAGGCATTCAA
CTTACA
Found at i:12010277 original size:5 final size:6
Alignment explanation
Indices: 12010254--12010284 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
12010244 TATTAACCAA
12010254 ATTTATT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT
12010285 TCTCAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:12013792 original size:17 final size:18
Alignment explanation
Indices: 12013753--12013792 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12013743 TAAGAATAAA
*
12013753 TAAAAATTATACAAGTAT
1 TAAAAATTATACAAATAT
*
12013771 GAAAAATTATA-AAATAT
1 TAAAAATTATACAAATAT
12013788 TAAAA
1 TAAAA
12013793 TAAAGTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
TAAAAATTATACAAATAT
Found at i:12014261 original size:35 final size:35
Alignment explanation
Indices: 12014222--12014292 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
12014212 GAGCCCAATG
12014222 GCTCTACGACCTCCGGTGGTGGAGCCATCGTGTAC
1 GCTCTACGACCTCCGGTGGTGGAGCCATCGTGTAC
* *
12014257 GCTCTGCGCCCTCCGGTGGTGGAGCCATCGTGTAC
1 GCTCTACGACCTCCGGTGGTGGAGCCATCGTGTAC
12014292 G
1 G
12014293 GTGGCTGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.23
Consensus pattern (35 bp):
GCTCTACGACCTCCGGTGGTGGAGCCATCGTGTAC
Found at i:12014428 original size:19 final size:20
Alignment explanation
Indices: 12014388--12014428 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12014378 TTCGAAATGG
12014388 TTGAAAAAAATCAAAACTTT
1 TTGAAAAAAATCAAAACTTT
**
12014408 TTGAAAAAAATTTAAACTTT
1 TTGAAAAAAATCAAAACTTT
12014428 T
1 T
12014429 CCTTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (20 bp):
TTGAAAAAAATCAAAACTTT
Found at i:12014472 original size:51 final size:53
Alignment explanation
Indices: 12014413--12014641 Score: 167
Period size: 51 Copynumber: 4.5 Consensus size: 53
12014403 ACTTTTTGAA
*
12014413 AAAAATTTAAACTTT-TCCTTTAAAATGACTAAAAAAA-CAAATTTTTATTTT
1 AAAAATTTAAACTTTATCTTTTAAAATGACTAAAAAAATCAAATTTTTATTTT
* **** * * * *
12014464 AAAAATTTAAACTTTCTCTTTTTTTTTTA-AAAAAAAATC-ACTATTTT-TCTT
1 AAAAATTTAAACTTTATCTTTTAAAATGACTAAAAAAATCAAAT-TTTTATTTT
** * * *
12014515 AAAAATCAAAACTTTA--TTTCAAAAT-AGTTAAAAAAGATCAAAATTTTATTTT
1 AAAAATTTAAACTTTATCTTTTAAAATGA-CTAAAAAA-ATCAAATTTTTATTTT
* * **
12014567 AAGAATTTAAACTTT-TCTTTTAATATGACTACGAAAA--AAATTTTTATTTT
1 AAAAATTTAAACTTTATCTTTTAAAATGACTAAAAAAATCAAATTTTTATTTT
*
12014617 AAAAATCTAAACTTTAT-TTTTAAAA
1 AAAAATTTAAACTTTATCTTTTAAAA
12014642 AAAAATCAAA
Statistics
Matches: 133, Mismatches: 33, Indels: 25
0.70 0.17 0.13
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 38 0.29
51 48 0.36
52 29 0.22
53 12 0.09
54 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (53 bp):
AAAAATTTAAACTTTATCTTTTAAAATGACTAAAAAAATCAAATTTTTATTTT
Found at i:12014581 original size:154 final size:153
Alignment explanation
Indices: 12014354--12014631 Score: 407
Period size: 154 Copynumber: 1.8 Consensus size: 153
12014344 AAGTCATTAC
* * *
12014354 TTTTCTTAAAAATTAAAACTTTATTTCGAAATGGTTGAAAAAAATCAAAACTTTTTGAAAAAAAT
1 TTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAAATCAAAACTTTTTGAAAAAAAT
*
12014419 TTAAACTTTTCCTTTAAAATGACTAAAAAAACAAATTTTTATTTTAAAAATTTAAACTTTCTCTT
66 TTAAACTTTTCCTTTAAAATGACTAAAAAAA-AAATTTTTATTTTAAAAATCTAAACTTTCTCTT
12014484 TTTTTTTTAAAAAAAAATCACTAT
130 TTTTTTTTAAAAAAAAATCACTAT
*** *
12014508 TTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTT-AAAAAAGATCAAAA-TTTTATTTTAAGA
1 TTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAA-ATCAAAACTTTT-TGAAAAAA
* * **
12014571 ATTTAAACTTTTCTTTTAATATGACTACGAAAAAAATTTTTATTTTAAAAATCTAAACTTT
64 ATTTAAACTTTTCCTTTAAAATGACTAAAAAAAAAATTTTTATTTTAAAAATCTAAACTTT
12014632 ATTTTTAAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
153 37 0.34
154 73 0.66
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (153 bp):
TTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAAATCAAAACTTTTTGAAAAAAAT
TTAAACTTTTCCTTTAAAATGACTAAAAAAAAAATTTTTATTTTAAAAATCTAAACTTTCTCTTT
TTTTTTTAAAAAAAAATCACTAT
Found at i:12018441 original size:30 final size:30
Alignment explanation
Indices: 12018401--12018462 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
12018391 TCACTGTTCA
12018401 CTTGAATCACTGTTACTAAATTATTTATAT
1 CTTGAATCACTGTTACTAAATTATTTATAT
* *
12018431 CTTGAGTCACTGTTCCTAAATTATTTATAT
1 CTTGAATCACTGTTACTAAATTATTTATAT
12018461 CT
1 CT
12018463 GGAGCTACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (30 bp):
CTTGAATCACTGTTACTAAATTATTTATAT
Found at i:12024121 original size:17 final size:18
Alignment explanation
Indices: 12024082--12024121 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12024072 TAAGAATAAA
*
12024082 TAAAAATTATACAAGTAT
1 TAAAAATTATACAAATAT
*
12024100 GAAAAATTATA-AAATAT
1 TAAAAATTATACAAATAT
12024117 TAAAA
1 TAAAA
12024122 TAAAGTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
TAAAAATTATACAAATAT
Found at i:12024722 original size:19 final size:20
Alignment explanation
Indices: 12024682--12024722 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12024672 TTCGAAATGG
12024682 TTGAAAAAAATCAAAACTTT
1 TTGAAAAAAATCAAAACTTT
**
12024702 TTGAAAAAAATTTAAACTTT
1 TTGAAAAAAATCAAAACTTT
12024722 T
1 T
12024723 CCTTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (20 bp):
TTGAAAAAAATCAAAACTTT
Found at i:12024766 original size:51 final size:53
Alignment explanation
Indices: 12024707--12024935 Score: 167
Period size: 51 Copynumber: 4.5 Consensus size: 53
12024697 ACTTTTTGAA
*
12024707 AAAAATTTAAACTTT-TCCTTTAAAATGACTAAAAAAA-CAAATTTTTATTTT
1 AAAAATTTAAACTTTATCTTTTAAAATGACTAAAAAAATCAAATTTTTATTTT
* **** * * * *
12024758 AAAAATTTAAACTTTCTCTTTTTTTTTTA-AAAAAAAATC-ACTATTTT-TCTT
1 AAAAATTTAAACTTTATCTTTTAAAATGACTAAAAAAATCAAAT-TTTTATTTT
** * * *
12024809 AAAAATCAAAACTTTA--TTTCAAAAT-AGTTAAAAAAGATCAAAATTTTATTTT
1 AAAAATTTAAACTTTATCTTTTAAAATGA-CTAAAAAA-ATCAAATTTTTATTTT
* * **
12024861 AAGAATTTAAACTTT-TCTTTTAATATGACTACGAAAA--AAATTTTTATTTT
1 AAAAATTTAAACTTTATCTTTTAAAATGACTAAAAAAATCAAATTTTTATTTT
*
12024911 AAAAATCTAAACTTTAT-TTTTAAAA
1 AAAAATTTAAACTTTATCTTTTAAAA
12024936 AAAAATCAAA
Statistics
Matches: 133, Mismatches: 33, Indels: 25
0.70 0.17 0.13
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 38 0.29
51 48 0.36
52 29 0.22
53 12 0.09
54 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (53 bp):
AAAAATTTAAACTTTATCTTTTAAAATGACTAAAAAAATCAAATTTTTATTTT
Found at i:12024875 original size:154 final size:153
Alignment explanation
Indices: 12024648--12024925 Score: 407
Period size: 154 Copynumber: 1.8 Consensus size: 153
12024638 AAGTCATTAC
* * *
12024648 TTTTCTTAAAAATTAAAACTTTATTTCGAAATGGTTGAAAAAAATCAAAACTTTTTGAAAAAAAT
1 TTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAAATCAAAACTTTTTGAAAAAAAT
*
12024713 TTAAACTTTTCCTTTAAAATGACTAAAAAAACAAATTTTTATTTTAAAAATTTAAACTTTCTCTT
66 TTAAACTTTTCCTTTAAAATGACTAAAAAAA-AAATTTTTATTTTAAAAATCTAAACTTTCTCTT
12024778 TTTTTTTTAAAAAAAAATCACTAT
130 TTTTTTTTAAAAAAAAATCACTAT
*** *
12024802 TTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTT-AAAAAAGATCAAAA-TTTTATTTTAAGA
1 TTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAA-ATCAAAACTTTT-TGAAAAAA
* * **
12024865 ATTTAAACTTTTCTTTTAATATGACTACGAAAAAAATTTTTATTTTAAAAATCTAAACTTT
64 ATTTAAACTTTTCCTTTAAAATGACTAAAAAAAAAATTTTTATTTTAAAAATCTAAACTTT
12024926 ATTTTTAAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
153 37 0.34
154 73 0.66
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (153 bp):
TTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAAATCAAAACTTTTTGAAAAAAAT
TTAAACTTTTCCTTTAAAATGACTAAAAAAAAAATTTTTATTTTAAAAATCTAAACTTTCTCTTT
TTTTTTTAAAAAAAAATCACTAT
Found at i:12025157 original size:39 final size:40
Alignment explanation
Indices: 12025091--12025168 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 40
12025081 CCCTCAAGAT
*
12025091 ATGTATATGGCAAAAAAAAAAAAAAAAACTAGAAAGCTTA
1 ATGTATAGGGCAAAAAAAAAAAAAAAAACTAGAAAGCTTA
12025131 ATGTATAGGGC-AAAAAAAAAAAAAAAACTAGAAAGCTT
1 ATGTATAGGGCAAAAAAAAAAAAAAAAACTAGAAAGCTT
12025169 TTTGTTGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 27 0.73
40 10 0.27
ACGTcount: A:0.62, C:0.08, G:0.14, T:0.17
Consensus pattern (40 bp):
ATGTATAGGGCAAAAAAAAAAAAAAAAACTAGAAAGCTTA
Found at i:12028017 original size:29 final size:29
Alignment explanation
Indices: 12027950--12028017 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
12027940 CGCAAATTTG
*
12027950 TTATTTATTTATTTATTTTAAACATTTTTC
1 TTATTTA-TTATTTATTTTAAACATTTTTA
* * *
12027980 TCATATATTATTTATTTTAAA-TTGTTTTA
1 TTATTTATTATTTATTTTAAACAT-TTTTA
12028009 TTATTTATT
1 TTATTTATT
12028018 TTAAGTTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 1 0.03
29 25 0.81
30 5 0.16
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (29 bp):
TTATTTATTATTTATTTTAAACATTTTTA
Found at i:12028222 original size:22 final size:21
Alignment explanation
Indices: 12028176--12028224 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
12028166 TGTATATCAT
12028176 TTATTTTAAACTTTTTATATA
1 TTATTTTAAACTTTTTATATA
*
12028197 TTATTTTAAA-TTGTCTTATATG
1 TTATTTTAAACTT-T-TTATATA
12028219 TTATTT
1 TTATTT
12028225 ATTTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 12 0.48
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
TTATTTTAAACTTTTTATATA
Found at i:12028226 original size:26 final size:26
Alignment explanation
Indices: 12028148--12028326 Score: 137
Period size: 26 Copynumber: 7.2 Consensus size: 26
12028138 TATATATCAT
* *
12028148 TTATTT-TTTT-AATTGTTTTGTATA
1 TTATTTATTTTAAATTGTCTTATATA
* *
12028172 TCATTTATTTTAAACT-T-TT-TATA
1 TTATTTATTTTAAATTGTCTTATATA
*
12028195 -TA-TTATTTTAAATTGTCTTATATG
1 TTATTTATTTTAAATTGTCTTATATA
*
12028219 TTATTTATTTTAAATT-TCTTTGTATA
1 TTATTTATTTTAAATTGTC-TTATATA
* * * *
12028245 TTATTTATTTTAACTTGTTTTACACA
1 TTATTTATTTTAAATTGTCTTATATA
*
12028271 TTATTTACTTTAAATTGT-TT-TATA
1 TTATTTATTTTAAATTGTCTTATATA
* * *
12028295 CTATTTACTTCAAATTGT-TCTATATA
1 TTATTTATTTTAAATTGTCT-TATATA
12028321 TTATTT
1 TTATTT
12028327 TGTTTCGTTT
Statistics
Matches: 125, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
21 11 0.09
22 2 0.02
23 6 0.05
24 29 0.23
25 12 0.10
26 64 0.51
27 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTCTTATATA
Found at i:12028277 original size:52 final size:50
Alignment explanation
Indices: 12028148--12028326 Score: 163
Period size: 50 Copynumber: 3.6 Consensus size: 50
12028138 TATATATCAT
* * *
12028148 TTATTT-TTTTAATTGTTTTGTATATCATTTATTTTAAA--CTTTTTATA
1 TTATTTATTTTAATTGTTTTATATATTATTTATTTTAAATTCTTTGTATA
* *
12028195 -TA-TTATTTTAAATTGTCTTATATGTTATTTATTTTAAATTTCTTTGTATA
1 TTATTTATTTT-AATTGTTTTATATATTATTTATTTTAAA-TTCTTTGTATA
* * * *
12028245 TTATTTATTTTAACTTGTTTTACACATTATTTACTTTAAATTGTTT-TATA
1 TTATTTATTTTAA-TTGTTTTATATATTATTTATTTTAAATTCTTTGTATA
* ** *
12028295 CTATTTACTTCAAATTGTTCTATATATTATTT
1 TTATTTA-TTTTAATTGTTTTATATATTATTT
12028327 TGTTTCGTTT
Statistics
Matches: 106, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.02
46 6 0.06
47 24 0.23
50 33 0.31
51 13 0.12
52 28 0.26
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (50 bp):
TTATTTATTTTAATTGTTTTATATATTATTTATTTTAAATTCTTTGTATA
Found at i:12034600 original size:2 final size:2
Alignment explanation
Indices: 12034593--12034618 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12034583 CTATTATAAA
12034593 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
12034619 CGAACCACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12041362 original size:18 final size:17
Alignment explanation
Indices: 12041334--12041368 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12041324 ATTATTAAGA
*
12041334 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12041351 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12041369 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12041587 original size:44 final size:45
Alignment explanation
Indices: 12041524--12041621 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 45
12041514 GTTATTACAC
*
12041524 TTCCATTCCATTCAACCAAACACA-AGAA-T-ACTATTACGCCTCTA
1 TTCCATTACATTCAACCAAACA-ATAGAATTGA-TATTACGCCTCTA
*
12041568 TTCCATTACATTCAACCAAACAATTGAATTGATATTACGCCTCTA
1 TTCCATTACATTCAACCAAACAATAGAATTGATATTACGCCTCTA
*
12041613 ATCCATTAC
1 TTCCATTAC
12041622 GCCTCTATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 22 0.46
46 1 0.02
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.31
Consensus pattern (45 bp):
TTCCATTACATTCAACCAAACAATAGAATTGATATTACGCCTCTA
Found at i:12041622 original size:16 final size:16
Alignment explanation
Indices: 12041601--12041637 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
12041591 TTGAATTGAT
12041601 ATTACGCCTCTAATCC
1 ATTACGCCTCTAATCC
*
12041617 ATTACGCCTCTATTCC
1 ATTACGCCTCTAATCC
12041633 ATTAC
1 ATTAC
12041638 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.35, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTAATCC
Found at i:12044152 original size:243 final size:244
Alignment explanation
Indices: 12043723--12044198 Score: 801
Period size: 243 Copynumber: 2.0 Consensus size: 244
12043713 AATATTATTT
*
12043723 AAATTAAATGTTTACTACGTTGTTTTTAATGTAAATGAATCAATATATATGAGAATGTATCCACA
1 AAATTAAATGTTTACTACGTTGTTTTTAATGTAAATGAATCAATATATATGAAAATGTATCCACA
* *
12043788 TTGTGACGAATCGACGGATATCAAGTCCCGGTTGAACCTTAAGAATTCTTAGGATACAAATGACA
66 TTGTGACGAATCGACAGATATCAAGTCCCGGTTGAACCTTAAGAATTCTTAAGATACAAATGACA
* ** * *
12043853 TGTCATTAAGGATTTCATGTTTCGGGTGCTGGTCTTGAATGTGCTACTGATGGCTGAGGTCCTAC
131 TGTCATTAAGGATTTCATGTTCCAAGTGCTGGTCTTGAATGTCCTACCGATGGCTGAGGTCCTAC
*
12043918 ATTTTTTGAGGATTCTCCACAGCTCGTATGACCAGCATACGAACTTACC
196 ATTTGTTGAGGATTCTCCACAGCTCGTATGACCAGCATACGAACTTACC
*
12043967 AAATTAAATGTTTACTATGTTGTTTTTAATGTAAATGAATC-ATATATATGAAAATGTATCCACA
1 AAATTAAATGTTTACTACGTTGTTTTTAATGTAAATGAATCAATATATATGAAAATGTATCCACA
* *
12044031 TTGTGATGAATTGACAGATATCAAGTCCCGGTTGAACCTTAAGAATTCTTAAGATACAAATGACA
66 TTGTGACGAATCGACAGATATCAAGTCCCGGTTGAACCTTAAGAATTCTTAAGATACAAATGACA
* *
12044096 TGTCATTAGGGATTTCATGTTCCAAGTGCTGGTCTTGAATTTCCTACCGATGGCTGAGGTCCTAC
131 TGTCATTAAGGATTTCATGTTCCAAGTGCTGGTCTTGAATGTCCTACCGATGGCTGAGGTCCTAC
* *
12044161 ATTTGTTGAGGATTCTCCATAGCTCGTGTGACCAGCAT
196 ATTTGTTGAGGATTCTCCACAGCTCGTATGACCAGCAT
12044199 CGTGTAGCTT
Statistics
Matches: 216, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
243 176 0.81
244 40 0.19
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (244 bp):
AAATTAAATGTTTACTACGTTGTTTTTAATGTAAATGAATCAATATATATGAAAATGTATCCACA
TTGTGACGAATCGACAGATATCAAGTCCCGGTTGAACCTTAAGAATTCTTAAGATACAAATGACA
TGTCATTAAGGATTTCATGTTCCAAGTGCTGGTCTTGAATGTCCTACCGATGGCTGAGGTCCTAC
ATTTGTTGAGGATTCTCCACAGCTCGTATGACCAGCATACGAACTTACC
Found at i:12046286 original size:23 final size:23
Alignment explanation
Indices: 12046260--12046321 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
12046250 TATTCCCGGC
*
12046260 CCAAAATGGGCTCTATAATCAGA
1 CCAAAATGGGCTCTACAATCAGA
* *
12046283 CCAAAATGGGCACTACAATTAGA
1 CCAAAATGGGCTCTACAATCAGA
12046306 CCAAAATGGG-TCTACA
1 CCAAAATGGGCTCTACA
12046322 CGACCTAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 5 0.14
23 30 0.86
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (23 bp):
CCAAAATGGGCTCTACAATCAGA
Found at i:12048182 original size:19 final size:19
Alignment explanation
Indices: 12048140--12048180 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
12048130 TTCTACATTT
*
12048140 AAAATAATTAGAAATATAG
1 AAAATAATTAAAAATATAG
12048159 AAAATAA-TAAAAATATAG
1 AAAATAATTAAAAATATAG
12048177 AAAA
1 AAAA
12048181 ATGAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAATAATTAAAAATATAG
Found at i:12048910 original size:23 final size:22
Alignment explanation
Indices: 12048863--12048910 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
12048853 TAATATTTAA
*
12048863 TTTTTTTCATAATTTTTACAAT
1 TTTTTTTCATAATTTATACAAT
*
12048885 TTTTTCTTCATAA-TTATATAAT
1 TTTTT-TTCATAATTTATACAAT
12048907 TTTT
1 TTTT
12048911 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTTTCATAATTTATACAAT
Found at i:12048971 original size:24 final size:25
Alignment explanation
Indices: 12048927--12048974 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
12048917 ATTTTTACTT
12048927 TTTAAATGATTTTTATAAATTTTCA
1 TTTAAATGATTTTTATAAATTTTCA
* *
12048952 TTTATATGATTTTTGT-AATTTTC
1 TTTAAATGATTTTTATAAATTTTC
12048975 TATCTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.60
Consensus pattern (25 bp):
TTTAAATGATTTTTATAAATTTTCA
Found at i:12052655 original size:20 final size:20
Alignment explanation
Indices: 12052630--12052701 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 20
12052620 AGATTTATTT
*
12052630 AAAATT-ATAATTTTTTGAAA
1 AAAATTAATAAATTTTT-AAA
12052650 AAAATTAATAAATTTTT-AA
1 AAAATTAATAAATTTTTAAA
* * * *
12052669 AACATTATTAAAATTATAAA
1 AAAATTAATAAATTTTTAAA
*
12052689 AATATTAAATAAA
1 AAAATT-AATAAA
12052702 ATGAAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
19 15 0.36
20 13 0.31
21 14 0.33
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (20 bp):
AAAATTAATAAATTTTTAAA
Found at i:12052665 original size:21 final size:19
Alignment explanation
Indices: 12052630--12052670 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
12052620 AGATTTATTT
*
12052630 AAAATTATAATTTTTTGAAA
1 AAAATTATAAATTTTT-AAA
12052650 AAAATTAATAAATTTTTAAA
1 AAAATT-ATAAATTTTTAAA
12052670 A
1 A
12052671 CATTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATTATAAATTTTTAAA
Found at i:12060278 original size:67 final size:67
Alignment explanation
Indices: 12060189--12060324 Score: 218
Period size: 67 Copynumber: 2.0 Consensus size: 67
12060179 GTTCACACAG
* * **
12060189 CAAGCCACACGCCCGTGTGCCAGGCTGTGTAACTTTCGAAATGTAACCTATAAAAACTTACAAGG
1 CAAGCCACACGCCCATGTGCCAGGCCGTGTAACACTCGAAATGTAACCTATAAAAACTTACAAGG
12060254 GA
66 GA
* *
12060256 CAAGCCACATGCCCATGTGCCAGGCCGTGTAACACTCGAAATGTAACCTATAAAAATTTACAAGG
1 CAAGCCACACGCCCATGTGCCAGGCCGTGTAACACTCGAAATGTAACCTATAAAAACTTACAAGG
12060321 GA
66 GA
12060323 CA
1 CA
12060325 CATGGCCGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (67 bp):
CAAGCCACACGCCCATGTGCCAGGCCGTGTAACACTCGAAATGTAACCTATAAAAACTTACAAGG
GA
Found at i:12061201 original size:15 final size:16
Alignment explanation
Indices: 12061172--12061201 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12061162 CAAACATACT
12061172 TTAACACATTATCAAA
1 TTAACACATTATCAAA
12061188 TTAACACA-TATCAA
1 TTAACACATTATCAA
12061202 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:12066546 original size:17 final size:16
Alignment explanation
Indices: 12066515--12066545 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12066505 AATTTTGAAA
12066515 ATTTCCAAAAAAAAAT
1 ATTTCCAAAAAAAAAT
12066531 ATTTCCAAAAAAAAA
1 ATTTCCAAAAAAAAA
12066546 AACCTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.23
Consensus pattern (16 bp):
ATTTCCAAAAAAAAAT
Found at i:12077191 original size:12 final size:12
Alignment explanation
Indices: 12077172--12077205 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12077162 ACACGACCAG
*
12077172 CCACACGGTCTA
1 CCACACGGCCTA
*
12077184 CCATACGGCCTA
1 CCACACGGCCTA
12077196 CCACACGGCC
1 CCACACGGCC
12077206 GTGTGACGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.47, G:0.18, T:0.12
Consensus pattern (12 bp):
CCACACGGCCTA
Found at i:12083380 original size:25 final size:24
Alignment explanation
Indices: 12083321--12083385 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
12083311 CCCGTTACTA
* *
12083321 GCTCTCATAAGCATCCTGATATTG
1 GCTCTCATGAGCTTCCTGATATTG
* *
12083345 GCTCTCTTGAGTTTCCTGATATATG
1 GCTCTCATGAGCTTCCTGATAT-TG
12083370 GCTCTCATGAGCTTCC
1 GCTCTCATGAGCTTCC
12083386 CATTAATAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.37
Consensus pattern (24 bp):
GCTCTCATGAGCTTCCTGATATTG
Found at i:12084679 original size:73 final size:73
Alignment explanation
Indices: 12084590--12084761 Score: 317
Period size: 73 Copynumber: 2.4 Consensus size: 73
12084580 TACGCCATAG
*
12084590 CACACGGGCGTGTGGCTTGGCCGTGTGACCCCCGCACCTATTTAATGCAATGCAGTATGCATATA
1 CACATGGGCGTGTGGCTTGGCCGTGTGACCCCCGCACCTATTTAATGCAATGCAGTATGCATATA
12084655 CGGCCTAT
66 CGGCCTAT
* *
12084663 CACATGGGCGTGTGGCTTGGCCGTGTGACCCCTGCACCTATTTAATGCAATTCAGTATGCATATA
1 CACATGGGCGTGTGGCTTGGCCGTGTGACCCCCGCACCTATTTAATGCAATGCAGTATGCATATA
12084728 CGGCCTAT
66 CGGCCTAT
12084736 CACATGGGCGTGTGGCTTGGCCGTGT
1 CACATGGGCGTGTGGCTTGGCCGTGT
12084762 AACCTAAGTC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 96 1.00
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.27
Consensus pattern (73 bp):
CACATGGGCGTGTGGCTTGGCCGTGTGACCCCCGCACCTATTTAATGCAATGCAGTATGCATATA
CGGCCTAT
Found at i:12091224 original size:20 final size:20
Alignment explanation
Indices: 12091199--12091238 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12091189 TACTATACTC
12091199 ATATTTGATATTTAATTTTT
1 ATATTTGATATTTAATTTTT
* *
12091219 ATATTTTATATTTTATTTTT
1 ATATTTGATATTTAATTTTT
12091239 GCATAATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
ATATTTGATATTTAATTTTT
Found at i:12093916 original size:127 final size:129
Alignment explanation
Indices: 12093746--12093987 Score: 305
Period size: 127 Copynumber: 1.9 Consensus size: 129
12093736 AATTCGTAAC
* * * * * *
12093746 AAATCTCAATAAATAAGGCAATATTTTGTATTTTGGAAATTCGAG-AAATTATACTCTAACTTAC
1 AAATCTCAATAAATAAGGCAATATTCTATATTTAGAAAATTCGAGAAAATCATACCCTAACTTAC
12093810 TGGG-TCTCGA-TTTTCTCGTTAAACCTAAAT-AGCAAAATATCCTTTTAAATTTCAAAACACAT
66 TGGGCT-TCGATTTTTCTCGTTAAACCTAAATAAGC-AAATATCCTTTTAAATTTCAAAACACAT
12093872 A
129 A
* * * *
12093873 AAATTTCAA-AAATAAAGGTAATATTCTATATTTAGAAAATTCGAGAAAATCGTGCCCTAACTTA
1 AAATCTCAATAAAT-AAGGCAATATTCTATATTTAGAAAATTCGAGAAAATCATACCCTAACTTA
* * *
12093937 CTGGGCTTCGATTTTTCTCGTTGAACCTAAATAATCGAATATCCTTTTAAA
65 CTGGGCTTCGATTTTTCTCGTTAAACCTAAATAAGCAAATATCCTTTTAAA
12093988 ATTAAAATAA
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
126 4 0.04
127 34 0.35
128 23 0.24
129 34 0.35
130 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (129 bp):
AAATCTCAATAAATAAGGCAATATTCTATATTTAGAAAATTCGAGAAAATCATACCCTAACTTAC
TGGGCTTCGATTTTTCTCGTTAAACCTAAATAAGCAAATATCCTTTTAAATTTCAAAACACATA
Found at i:12100048 original size:24 final size:24
Alignment explanation
Indices: 12100020--12100071 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12100010 TTTGTAAGTC
* *
12100020 AAATAAATTATGCTAATAAATGCT
1 AAATAAATGATACTAATAAATGCT
*
12100044 AAATATATGATACTAATAAATGCT
1 AAATAAATGATACTAATAAATGCT
12100068 AAAT
1 AAAT
12100072 TTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (24 bp):
AAATAAATGATACTAATAAATGCT
Found at i:12102101 original size:50 final size:51
Alignment explanation
Indices: 12102005--12102105 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 51
12101995 TTGTAATAGT
* **
12102005 ATTGCCAAAATCAAGGGATTTTGGGGTGGACCAGGGCATTCAACTAAAGAC
1 ATTGCCAAAATCAAGCGATTTTGGGGTGGACCAGGGCAGCCAACTAAAGAC
* *
12102056 ATTGCCAAAATCGAGCGA-TTTGGGGTGGACCAGGGCAGCCCACTAAAGAC
1 ATTGCCAAAATCAAGCGATTTTGGGGTGGACCAGGGCAGCCAACTAAAGAC
12102106 TCCAATGTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 29 0.64
51 16 0.36
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.19
Consensus pattern (51 bp):
ATTGCCAAAATCAAGCGATTTTGGGGTGGACCAGGGCAGCCAACTAAAGAC
Found at i:12108808 original size:19 final size:20
Alignment explanation
Indices: 12108781--12108838 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 20
12108771 GTTAGCGGAC
*
12108781 AAAATATATAAATAT-AAAT
1 AAAAAATATAAATATGAAAT
**
12108800 AAAAAATATTTATATGAAAT
1 AAAAAATATAAATATGAAAT
12108820 --AAAATATAAAT-TG-AAT
1 AAAAAATATAAATATGAAAT
12108836 AAA
1 AAA
12108839 TTATATTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
16 3 0.10
17 2 0.06
18 10 0.32
19 12 0.39
20 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAAAATATAAATATGAAAT
Found at i:12109262 original size:20 final size:20
Alignment explanation
Indices: 12109237--12109280 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
12109227 ATCTGCCATT
*
12109237 AAATCAATTTGATTAAAATC
1 AAATCAATTGGATTAAAATC
*
12109257 AAATCAATTGGATTAGAATC
1 AAATCAATTGGATTAAAATC
12109277 AAAT
1 AAAT
12109281 AAAACAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (20 bp):
AAATCAATTGGATTAAAATC
Done.