Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 43 of 311
Found at i:12182168 original size:94 final size:93
Alignment explanation
Indices: 12181882--12182240 Score: 296
Period size: 94 Copynumber: 3.8 Consensus size: 93
12181872 TTGCCGCTGC
* * * * *
12181882 CATGTCCCAGACATGGTCTTACGCTGGCTATCTC-CATCGAGGCCGATCCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-A-CTCACCTCTA-GCCGATGCCATGTCCCAGACATG
* * * * *
12181946 GTCTTACACTAGCTCTCGTGTATACGTGCTGGTG
62 GTCTTACACTGGCTATCATG-ATGCG-GCTGATG
* * * * * *
12181980 CATATCCCAGACATGTCTTACACTAGCA-TGAAACT-TAGCTGATG-CATGTCCCAGACA-CGTT
1 CATGTCCCAGACATGTCTTACACTAGCACT-CACCTCTAGCCGATGCCATGTCCCAGACATGGTC
* * * *
12182041 TTACACTGGCTAACATCATCGAGGCCGATG
65 TTACACTGGCTATCATGAT-GCGGCTGATG
* *
12182071 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCCGATGCCATGTCCCAGACGTGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTA-GCCGATGCCATGTCCCAGACATGGTC
* *
12182136 TTATACGGGCTATCATGATGCGGCTGATG
65 TTACACTGGCTATCATGATGCGGCTGATG
* * * * * * * *
12182165 CATGTCCCAAACACGTCTTAGACTAGCCCTCGCCTCAATGTCGATGCCATGCCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTA-GCCGATGCCATGTCCCAGACATGGTC
*
12182230 TTATACTGGCT
65 TTACACTGGCT
12182241 CTCACATAAC
Statistics
Matches: 207, Mismatches: 46, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
91 36 0.17
92 18 0.09
93 19 0.09
94 90 0.43
95 18 0.09
96 2 0.01
97 11 0.05
98 13 0.06
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTAGCCGATGCCATGTCCCAGACATGGTCT
TACACTGGCTATCATGATGCGGCTGATG
Found at i:12194723 original size:46 final size:46
Alignment explanation
Indices: 12194526--12194748 Score: 215
Period size: 46 Copynumber: 4.8 Consensus size: 46
12194516 AGGGTATAAT
* *
12194526 GTCGATGCCATGTCCCGGACATGGTCTTACACTGGCT-CATCCATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT-C-TCGA
* * * *
12194573 GTCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-ACATCT-CGA
* * * *
12194623 GTTGAAGCCATGTCCTAGACATGGTCTTACACTGAC-ACATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCG-A
* *
12194669 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGA
12194714 GGTCGATG-CATGTCCCAGACAT-GTCTTACACTGGC
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGC
12194749 ACACAAATAA
Statistics
Matches: 148, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.08
45 17 0.11
46 49 0.33
47 31 0.21
48 2 0.01
49 4 0.03
50 30 0.20
51 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGA
Found at i:12205708 original size:19 final size:19
Alignment explanation
Indices: 12205684--12205723 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
12205674 ATTAATTTTG
12205684 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
12205703 ATCAAATCAATTAAAATTA
1 ATCAAATAAATTAAAATTA
12205722 AT
1 AT
12205724 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:12208770 original size:48 final size:45
Alignment explanation
Indices: 12208660--12208874 Score: 175
Period size: 46 Copynumber: 4.6 Consensus size: 45
12208650 TCATTTGTGT
*
12208660 GCTAGTGTAAGACATGTCT-AGAACATGCATCAGCCAC-AGTATAAGA
1 GCTAGTGTAAGACATGTCTGAG-ACATGCATCAGCCCCGAG-ATAA-A
* *
12208706 GCCAGTGTAAGACATGTCTGAGACATGCATCGGCCCCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCCCCGAGATA---AA
* *** ** *
12208754 GCTAGTGTAAGACATGTCT-AGGACATGCATCAACATTGAAGCGAGA
1 GCTAGTGTAAGACATGTCTGA-GACATGCATCAGCCCCG-AGATAAA
* *
12208800 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACGAGATACAA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCAGCC-C-CGAGATA-AA
* * *
12208848 GCTAGTGTAAGACCTGCCTGGGACATG
1 GCTAGTGTAAGACATGTCTGAGACATG
12208875 GCGTCAGCTT
Statistics
Matches: 135, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
46 65 0.48
47 8 0.06
48 58 0.43
49 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGAGACATGCATCAGCCCCGAGATAAA
Found at i:12208825 original size:94 final size:94
Alignment explanation
Indices: 12208660--12208874 Score: 265
Period size: 94 Copynumber: 2.3 Consensus size: 94
12208650 TCATTTGTGT
* * * *
12208660 GCTAGTGTAAGACATGTCTAGAACATGCATCAGCCACAGTATAAGAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGACACAGAACAAGAGCCAGTGTAAGACATGTCT
*
12208725 GAGACATGCATCGGCC-C-CGAGATATTTAA
66 GAGACATGCATCGGCCTCACGAGATA--CAA
** * *
12208754 GCTAGTGTAAGACATGTCTAGGACATGCATCA-ACATTGAAGCGAGAGCTAGTGTAAGACATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGACACAGAA-CAAGAGCCAGTGTAAGACATGTC
*
12208818 TGGGACATGCATCGGCCTCACGAGATACAA
65 TGAGACATGCATCGGCCTCACGAGATACAA
* * *
12208848 GCTAGTGTAAGACCTGCCTGGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
12208875 GCGTCAGCTT
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
93 4 0.04
94 93 0.89
95 1 0.01
96 7 0.07
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGACACAGAACAAGAGCCAGTGTAAGACATGTCT
GAGACATGCATCGGCCTCACGAGATACAA
Found at i:12222798 original size:11 final size:11
Alignment explanation
Indices: 12222782--12222806 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12222772 TTATTTGTAT
12222782 ATAAAAATTAA
1 ATAAAAATTAA
12222793 ATAAAAATTAA
1 ATAAAAATTAA
12222804 ATA
1 ATA
12222807 TGATATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAAATTAA
Found at i:12231444 original size:43 final size:43
Alignment explanation
Indices: 12231396--12231481 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
12231386 TATGTGATTG
*
12231396 ATATTGAAATGGAAAATATGATAAATGAGTATGAGATGAGAAA
1 ATATTGAAATGGAAAATATGAGAAATGAGTATGAGATGAGAAA
*
12231439 ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAATATGAGAAATGAGTATGAGATGAGAAA
12231482 TGAGATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (43 bp):
ATATTGAAATGGAAAATATGAGAAATGAGTATGAGATGAGAAA
Found at i:12231465 original size:16 final size:16
Alignment explanation
Indices: 12231401--12231465 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
12231391 GATTGATATT
12231401 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
* *
12231417 TAAAT-G--AGTATGA
1 GAAATGGAAAATATGA
*
12231430 G--ATGAGAAAATAT-T
1 GAAATG-GAAAATATGA
12231444 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
12231460 GAAATG
1 GAAATG
12231466 ATTATGAGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
11 2 0.06
13 7 0.19
14 1 0.03
15 13 0.36
16 13 0.36
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (16 bp):
GAAATGGAAAATATGA
Found at i:12242521 original size:15 final size:15
Alignment explanation
Indices: 12242501--12242530 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12242491 ACTAATGTAT
12242501 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
12242516 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
12242531 ACAAGTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.13, G:0.33, T:0.47
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:12256944 original size:6 final size:6
Alignment explanation
Indices: 12256933--12256975 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
12256923 AAAGCAACAT
* *
12256933 AATAAA AATAAA AGTAAAA AATAGA AATAAAA AATAAA AATAA
1 AATAAA AATAAA AAT-AAA AATAAA AAT-AAA AATAAA AATAA
12256976 CATAAGTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:12256973 original size:13 final size:13
Alignment explanation
Indices: 12256936--12256975 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
12256926 GCAACATAAT
*
12256936 AAAAATAAAAGTA
1 AAAAATAAAAATA
*
12256949 AAAAATAGAAATA
1 AAAAATAAAAATA
12256962 AAAAATAAAAATA
1 AAAAATAAAAATA
12256975 A
1 A
12256976 CATAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:12258540 original size:3 final size:3
Alignment explanation
Indices: 12258522--12258569 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
12258512 AATCACTAAT
*
12258522 TAA TAA TGAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12258567 TAA
1 TAA
12258570 ACTAAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:12265123 original size:22 final size:23
Alignment explanation
Indices: 12265080--12265129 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
12265070 AAATAAAAGA
*
12265080 AAAATTAGTAATTGAAATAAAAAC
1 AAAATTAG-AATTGAAACAAAAAC
* *
12265104 AAAATTA-AATTGCAACAAAAAT
1 AAAATTAGAATTGAAACAAAAAC
12265126 AAAA
1 AAAA
12265130 ATGGCTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 16 0.70
24 7 0.30
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (23 bp):
AAAATTAGAATTGAAACAAAAAC
Found at i:12266927 original size:17 final size:18
Alignment explanation
Indices: 12266907--12266940 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12266897 AAGTGAATTG
12266907 AAATTG-AGAAATTAAAT
1 AAATTGTAGAAATTAAAT
12266924 AAATTGTAGAAATTAAA
1 AAATTGTAGAAATTAAA
12266941 AAGGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGTAGAAATTAAAT
Found at i:12267652 original size:10 final size:10
Alignment explanation
Indices: 12267633--12267682 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
12267623 TGAAATTCTA
12267633 AAAGATAAAT
1 AAAGATAAAT
12267643 ACAA-ATAAAT
1 A-AAGATAAAT
12267653 AAAGATAAAT
1 AAAGATAAAT
12267663 AAAGATAAAT
1 AAAGATAAAT
12267673 GAAA-ATAAAT
1 -AAAGATAAAT
12267683 CCTAGAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:12274023 original size:26 final size:26
Alignment explanation
Indices: 12273994--12274074 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
12273984 GTGAGAACAC
12273994 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* *
12274020 ATGTGT-TTA-TGATGGTTGTAGG-TCAC-
1 ATGTGTAGTACT-AT-G-TGCAGGCT-ACT
*
12274046 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
12274072 ATG
1 ATG
12274075 CGTACCCGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
24 1 0.02
25 11 0.26
26 19 0.45
27 10 0.24
28 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.36
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:12274181 original size:101 final size:103
Alignment explanation
Indices: 12273995--12274224 Score: 240
Period size: 101 Copynumber: 2.3 Consensus size: 103
12273985 TGAGAACACA
* * * *
12273995 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTATGATGGTTGTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGACTACTATGTGTTCATGATGGTTGTAGGTCACATGTGTAGCACTAA
* *
12274060 GTGCAGGCTACTATGCGTACCCGACAACTTTGATCACG
66 CTGCAGGCTACTACGCGTACCCGACAACTTTGATCACG
**
12274098 TGTGTAGTACTAAGTGCAGACTACTACT-TGTATCA-GATGG-T-TAGGTCATGTGTGTAGCACT
1 TGTGTAGTACTAAGTGCAGACTACTA-TGTGT-TCATGATGGTTGTAGGTCACATGTGTAGCACT
* * * * * * *
12274159 AACTGTAGGCTACTACGTGTACCTG---ATTGTTGGTCGCA
64 AACTGCAGGCTACTACGCGTACCCGACAACT-TTGATCACG
*
12274197 TGTGTAGTACTAAGTGCAGGCTACTATG
1 TGTGTAGTACTAAGTGCAGACTACTATG
12274225 CGTAACAGAT
Statistics
Matches: 107, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
98 3 0.03
99 31 0.29
101 37 0.35
102 1 0.01
103 32 0.30
104 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (103 bp):
TGTGTAGTACTAAGTGCAGACTACTATGTGTTCATGATGGTTGTAGGTCACATGTGTAGCACTAA
CTGCAGGCTACTACGCGTACCCGACAACTTTGATCACG
Found at i:12274209 original size:49 final size:50
Alignment explanation
Indices: 12273991--12274222 Score: 198
Period size: 50 Copynumber: 4.6 Consensus size: 50
12273981 ATTGTGAGAA
* * **
12273991 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTATGATGGTTGTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATGG-T-TAGGT
* * * *** * *
12274043 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTTAGGT
* * * *
12274094 CACGTGTGTAGTACTAAGTGCAGACTACTACTTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
** * * * * *
12274144 CATGTGTGTAGCACTAACTGTAGGCTACTACGTGTACCTGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
*
12274193 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
12274223 TGCGTAACAG
Statistics
Matches: 141, Mismatches: 37, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
49 27 0.19
50 41 0.29
51 37 0.26
52 36 0.26
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:12274455 original size:16 final size:15
Alignment explanation
Indices: 12274434--12274463 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12274424 GAAAGGAGTA
12274434 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
12274450 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
12274464 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:12277582 original size:3 final size:3
Alignment explanation
Indices: 12277574--12277601 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12277564 AAGCAAGATG
12277574 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12277602 ACTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:12278215 original size:18 final size:18
Alignment explanation
Indices: 12278180--12278215 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12278170 TCACCTAAGT
*
12278180 AAAAACTAAGAATGAAAA
1 AAAAACTAAGAATCAAAA
*
12278198 AAAAACTAAGAGTCAAAA
1 AAAAACTAAGAATCAAAA
12278216 CCCTTCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.08, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAACTAAGAATCAAAA
Found at i:12283086 original size:26 final size:26
Alignment explanation
Indices: 12283022--12283098 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
12283012 ACCAACCTAC
*
12283022 CAATATCGCAGCAAAGCTACCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* *
12283048 TAATATCGTAGCAAAGCTGCCAGTAA
1 CAATATCGCAGCAAAGCTGCCAGTAA
* *
12283074 CAGTAAT-GCAGCAGAGCTGCCAGTA
1 CAAT-ATCGCAGCAAAGCTGCCAGTA
12283099 TCAGAATATG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 41 0.95
27 2 0.05
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
CAATATCGCAGCAAAGCTGCCAGTAA
Found at i:12292298 original size:28 final size:28
Alignment explanation
Indices: 12292266--12292321 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
12292256 ACTACAACAC
*
12292266 CCTATTCAAACTCTTTTCAGACTCTCAT
1 CCTATTCAAACTCTATTCAGACTCTCAT
12292294 CCTATTCAAACTCTATTCAGACTCTCAT
1 CCTATTCAAACTCTATTCAGACTCTCAT
12292322 GACCAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.32, G:0.04, T:0.38
Consensus pattern (28 bp):
CCTATTCAAACTCTATTCAGACTCTCAT
Found at i:12292630 original size:58 final size:58
Alignment explanation
Indices: 12292540--12292659 Score: 213
Period size: 58 Copynumber: 2.1 Consensus size: 58
12292530 TTAAGAACAA
* *
12292540 CACTAAAAATTTTGCAAAAGCCATGACTTGAACCAAGCTTCTCAAACACTCCCAAACC
1 CACTAAAAATTTTGCAAAAGCCAAGACTTGAACCAAGATTCTCAAACACTCCCAAACC
*
12292598 CACTAAAAATTTTGCAAAAGCCAAGACTTGAACCAGGATTCTCAAACACTCCCAAACC
1 CACTAAAAATTTTGCAAAAGCCAAGACTTGAACCAAGATTCTCAAACACTCCCAAACC
12292656 CACT
1 CACT
12292660 CAAATCACCA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.20
Consensus pattern (58 bp):
CACTAAAAATTTTGCAAAAGCCAAGACTTGAACCAAGATTCTCAAACACTCCCAAACC
Found at i:12296418 original size:29 final size:27
Alignment explanation
Indices: 12296343--12296424 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
12296333 GCGAGGCTGC
* *
12296343 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
12296370 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
12296396 CAGATATATATGTGGCGAAGCCACCAGAT
1 CAG--ATAT-TGTGGCGAAGCCACCAGAT
12296425 TGCAATGAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.09
27 21 0.47
28 4 0.09
29 16 0.36
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:12303859 original size:27 final size:26
Alignment explanation
Indices: 12303811--12303870 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
12303801 GTGAGGCTGC
*
12303811 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
12303838 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
12303864 CAGATAT
1 CAGATAT
12303871 ATATATGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:12322911 original size:6 final size:6
Alignment explanation
Indices: 12322900--12322991 Score: 98
Period size: 6 Copynumber: 15.3 Consensus size: 6
12322890 AATTCTCCTA
*
12322900 TTTTAT TTTTAT TTTTA- -TTTAT TCTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * * *
12322946 TTTATTT ATTTTAT TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 TTT-TAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
12322992 CAAATTTCTT
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
4 4 0.06
6 60 0.85
7 4 0.06
8 3 0.04
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:12322933 original size:28 final size:26
Alignment explanation
Indices: 12322901--12322979 Score: 97
Period size: 26 Copynumber: 2.9 Consensus size: 26
12322891 ATTCTCCTAT
12322901 TTTATTTTTATTTTTA-TTTATTCTTATT
1 TTTATTTTTATTTTTATTTTA-T-TTA-T
12322929 TTTATTTTTATTTTTATTTTATTTAT
1 TTTATTTTTATTTTTATTTTATTTAT
* *
12322955 TTTATTCTTATTTTTCTTTTGATTT
1 TTTATTTTTATTTTTATTTT-ATTT
12322980 TTATTTTCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
26 19 0.40
27 7 0.15
28 17 0.36
29 4 0.09
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTATTTTTATTTTTATTTTATTTAT
Found at i:12322968 original size:38 final size:39
Alignment explanation
Indices: 12322900--12322991 Score: 132
Period size: 38 Copynumber: 2.3 Consensus size: 39
12322890 AATTCTCCTA
* *
12322900 TTTTATTTTTATTTTTATTTATTCTTATTTTTATTTTTAT
1 TTTTA-TTTTATTTATATTTATTCTTATTTTTATTTTGAT
*
12322940 TTTTATTTTATTTAT-TTTATTCTTATTTTTCTTTTGAT
1 TTTTATTTTATTTATATTTATTCTTATTTTTATTTTGAT
12322978 TTTTATTTTCATTT
1 TTTTATTTT-ATTT
12322992 CAAATTTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
38 30 0.62
39 13 0.27
40 5 0.10
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (39 bp):
TTTTATTTTATTTATATTTATTCTTATTTTTATTTTGAT
Found at i:12323001 original size:38 final size:38
Alignment explanation
Indices: 12322900--12323006 Score: 110
Period size: 38 Copynumber: 2.8 Consensus size: 38
12322890 AATTCTCCTA
* * *
12322900 TTTTATTTTTATTTTTATTTATTCTTATTTTTATTTTTAT
1 TTTTA-TTTTATTTATA-ATATTCTTATTTTTATTTTGAT
** *
12322940 TTTTATTTTATTTATTTTATTCTTATTTTTCTTTTGAT
1 TTTTATTTTATTTATAATATTCTTATTTTTATTTTGAT
12322978 TTTTATTTTCATTTCA-AAT-TTCTTATTTT
1 TTTTATTTT-ATTT-ATAATATTCTTATTTT
12323007 GAAAGACATA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
38 39 0.66
39 14 0.24
40 6 0.10
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.76
Consensus pattern (38 bp):
TTTTATTTTATTTATAATATTCTTATTTTTATTTTGAT
Found at i:12330033 original size:31 final size:31
Alignment explanation
Indices: 12329998--12330068 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
12329988 ATATTGGGCC
*
12329998 GAAGCCTTTACATTATTCATGTCACTAGGCA
1 GAAGCCTTTACATTATTCATATCACTAGGCA
* * *
12330029 GAAGCCTTTTCATTATTCATATCACTGGGCC
1 GAAGCCTTTACATTATTCATATCACTAGGCA
12330060 GAAGCCTTT
1 GAAGCCTTT
12330069 GCTGTAAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (31 bp):
GAAGCCTTTACATTATTCATATCACTAGGCA
Found at i:12330303 original size:25 final size:25
Alignment explanation
Indices: 12330275--12330359 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
12330265 CTAGAGGCCT
*
12330275 AGCCTCTTTTAAT-AACTGGGGTAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
12330300 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
**
12330326 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
12330351 AGCCCTTTT
1 AGCCCTTTT
12330360 CGGTAACTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.46
26 28 0.52
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:12330360 original size:25 final size:25
Alignment explanation
Indices: 12330288--12330383 Score: 122
Period size: 26 Copynumber: 3.8 Consensus size: 25
12330278 CTCTTTTAAT
* * *
12330288 AACTGGGGTAAAAGCCCTTTTTGATA
1 AACTGGGG-CAAAGCCCTTTTCGGTA
12330314 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
12330340 AACTGGGGCAAAGCCCTTTTCGGT-
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
12330364 AACTGGAGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
12330384 GCACTTCCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
24 18 0.28
25 15 0.23
26 31 0.48
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:12349406 original size:22 final size:21
Alignment explanation
Indices: 12349362--12349406 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
12349352 ATGTGATGAC
*
12349362 TTTATTTGTTTTATCTTATAT
1 TTTATTTGTTTTATATTATAT
12349383 TTTATCTTGTTTTATTATTA-AT
1 TTTAT-TTGTTTTA-TATTATAT
12349405 TT
1 TT
12349407 AATATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTATTTGTTTTATATTATAT
Found at i:12361986 original size:13 final size:13
Alignment explanation
Indices: 12361968--12361994 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12361958 AAAGTAATCG
12361968 CACACGGGTGTGT
1 CACACGGGTGTGT
12361981 CACACGGGTGTGT
1 CACACGGGTGTGT
12361994 C
1 C
12361995 CCTACCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (13 bp):
CACACGGGTGTGT
Found at i:12363893 original size:37 final size:37
Alignment explanation
Indices: 12363843--12363916 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
12363833 AATTGGGAAA
12363843 AAGCTTTTGGGAAAACTCGATTGATTAAGACAATACC
1 AAGCTTTTGGGAAAACTCGATTGATTAAGACAATACC
12363880 AAGCTTTTGGGAAAACTCGATTGATTAAGACAATACC
1 AAGCTTTTGGGAAAACTCGATTGATTAAGACAATACC
12363917 TAAGGAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (37 bp):
AAGCTTTTGGGAAAACTCGATTGATTAAGACAATACC
Found at i:12385803 original size:93 final size:93
Alignment explanation
Indices: 12385653--12385827 Score: 305
Period size: 93 Copynumber: 1.9 Consensus size: 93
12385643 TATTTGTAAT
* *
12385653 AGGTTTTAAATATTTATAATGAATCGTTCTTGAAACTAACAATTATCACGATGAAGGCAAGTGTA
1 AGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACAATTATCACGATAAAGGCAAGTGTA
12385718 CCTATCAAACAATAGTAATATTCGTGAC
66 CCTATCAAACAATAGTAATATTCGTGAC
*
12385746 AGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACTATTATCACGATAAAGGCAAGTGTA
1 AGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACAATTATCACGATAAAGGCAAGTGTA
* *
12385811 CCTATCGAACAGTAGTA
66 CCTATCAAACAATAGTA
12385828 TAACTTTAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (93 bp):
AGGTTTTAAATATTTATAATGAATCATTCTTGAAACTAACAATTATCACGATAAAGGCAAGTGTA
CCTATCAAACAATAGTAATATTCGTGAC
Found at i:12386773 original size:13 final size:13
Alignment explanation
Indices: 12386755--12386791 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
12386745 GCTCGATAGG
12386755 GACACACCCGTAT
1 GACACACCCGTAT
12386768 GACACACCCGTAT
1 GACACACCCGTAT
*
12386781 GACACGCCCGT
1 GACACACCCGT
12386792 GTGCGATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.27, C:0.41, G:0.19, T:0.14
Consensus pattern (13 bp):
GACACACCCGTAT
Found at i:12389913 original size:27 final size:27
Alignment explanation
Indices: 12389883--12389940 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
12389873 GTGAATAAAA
12389883 TGTAAGATGATATATTCGAATGATGCT
1 TGTAAGATGATATATTCGAATGATGCT
* *
12389910 TGTAGGATGATATGTTCGAATGATGCT
1 TGTAAGATGATATATTCGAATGATGCT
12389937 TGTA
1 TGTA
12389941 CCTAATTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (27 bp):
TGTAAGATGATATATTCGAATGATGCT
Found at i:12390059 original size:45 final size:45
Alignment explanation
Indices: 12389995--12390214 Score: 295
Period size: 45 Copynumber: 5.0 Consensus size: 45
12389985 TATCGTACAG
* *
12389995 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
**
12390040 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
12390085 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
12390130 TACTATTCGGGCCTTCGAGCCTAGCAAGCTATAATGTCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * **
12390175 TGA-TA-TCGAG-CTTCGAGCCTAGCAGGAGA-AATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
12390215 ATGAATTCGG
Statistics
Matches: 159, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
42 10 0.06
43 16 0.10
44 4 0.03
45 128 0.81
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:12393662 original size:63 final size:64
Alignment explanation
Indices: 12393528--12393677 Score: 160
Period size: 63 Copynumber: 2.4 Consensus size: 64
12393518 TAACACGCGG
** * * *
12393528 TCATGTCCTCCGCCCATGTGATCATTATTTTGTAATCAGAGAGTTACATGGTCTGGACATACGC
1 TCATGTCCTTGGCCCATGTGATCATTATTTTGTAATCAGAGAGTTACATGGTCTAGACACACAC
* * * * * *
12393592 CCGTGTCCTTGGCCCATGTGATC-TTATTTTGTTATTAGTGAGTTACAT-GTCCTAGACACACAT
1 TCATGTCCTTGGCCCATGTGATCATTATTTTGTAATCAGAGAGTTACATGGT-CTAGACACACAC
* *
12393655 TCATGTCCTTGACCCGTGTGATC
1 TCATGTCCTTGGCCCATGTGATC
12393678 CTACACTAAC
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
62 2 0.03
63 49 0.70
64 19 0.27
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (64 bp):
TCATGTCCTTGGCCCATGTGATCATTATTTTGTAATCAGAGAGTTACATGGTCTAGACACACAC
Found at i:12393979 original size:12 final size:12
Alignment explanation
Indices: 12393964--12393988 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12393954 ATGTCAAAAC
12393964 TTTTATCAATAA
1 TTTTATCAATAA
12393976 TTTTATCAATAA
1 TTTTATCAATAA
12393988 T
1 T
12393989 CGGATTCTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATCAATAA
Found at i:12395596 original size:19 final size:18
Alignment explanation
Indices: 12395563--12395604 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
12395553 ATATATAATT
*
12395563 TAAAATAACATTAAAATG
1 TAAAATAAAATTAAAATG
*
12395581 TAAAACTAAAATTAAAATT
1 TAAAA-TAAAATTAAAATG
12395600 TAAAA
1 TAAAA
12395605 ACAAACTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAATAAAATTAAAATG
Found at i:12396317 original size:10 final size:9
Alignment explanation
Indices: 12396304--12396366 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 9
12396294 TTCGAAAAAA
12396304 TAAAAATTAT
1 TAAAAATT-T
* *
12396314 TAAAACTTA
1 TAAAAATTT
12396323 TAAAAATTGT
1 TAAAAATT-T
*
12396333 GAAAATATTT
1 TAAAA-ATTT
12396343 TAAAATATTT
1 TAAAA-ATTT
12396353 T-AAAATTT
1 TAAAAATTT
12396361 TAAAAA
1 TAAAAA
12396367 ATTAATTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
8 5 0.11
9 14 0.32
10 22 0.50
11 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (9 bp):
TAAAAATTT
Found at i:12396366 original size:19 final size:18
Alignment explanation
Indices: 12396304--12396366 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
12396294 TTCGAAAAAA
*
12396304 TAAAAATTATTAAAACTTA
1 TAAAAATTATTAAAA-TTT
* *
12396323 TAAAAATTGTGAAAATATTT
1 TAAAAATTAT-TAAA-ATTT
12396343 TAAAATATT-TTAAAATTT
1 TAAAA-ATTATTAAAATTT
12396361 TAAAAA
1 TAAAAA
12396367 ATTAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.03
18 9 0.24
19 12 0.32
20 11 0.30
21 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAAAATTATTAAAATTT
Found at i:12397095 original size:18 final size:18
Alignment explanation
Indices: 12397069--12397111 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
12397059 AAAAGCTGTT
*
12397069 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
12397087 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
12397105 TTTATAT
1 TTTATAT
12397112 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:12397572 original size:9 final size:9
Alignment explanation
Indices: 12397560--12397593 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
12397550 TAAAATTAAT
12397560 CGAATTACC
1 CGAATTACC
*
12397569 CGAATTGCC
1 CGAATTACC
*
12397578 CGAATTAAC
1 CGAATTACC
12397587 CGAATTA
1 CGAATTA
12397594 TTTGTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (9 bp):
CGAATTACC
Found at i:12397627 original size:5 final size:6
Alignment explanation
Indices: 12397612--12397652 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
12397602 AAATTATATT
*
12397612 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
12397653 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:12401912 original size:9 final size:9
Alignment explanation
Indices: 12401889--12401936 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
12401879 AACTAAATAT
12401889 ATATTATAA
1 ATATTATAA
* *
12401898 AAATTATGA
1 ATATTATAA
12401907 ATATTATAAA
1 ATATTAT-AA
12401917 TATATTATAA
1 -ATATTATAA
*
12401927 AAATTATAA
1 ATATTATAA
12401936 A
1 A
12401937 AAGATTATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 22 0.69
10 3 0.09
11 7 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
ATATTATAA
Found at i:12401937 original size:9 final size:9
Alignment explanation
Indices: 12401891--12402042 Score: 78
Period size: 10 Copynumber: 16.0 Consensus size: 9
12401881 CTAAATATAT
12401891 ATTATAAAA
1 ATTATAAAA
* *
12401900 ATTATGAAT
1 ATTATAAAA
12401909 ATTATAAATA
1 ATTATAAA-A
12401919 TATTATAAAA
1 -ATTATAAAA
12401929 ATTATAAAAA
1 ATTAT-AAAA
12401939 GATTATAGAAA
1 -ATTATA-AAA
* * *
12401950 GTTTTAAAT
1 ATTATAAAA
*
12401959 ATAATTAAAA
1 ATTA-TAAAA
12401969 AGTTATTAAAA
1 A-TTA-TAAAA
*
12401980 ATAATTAAAA
1 ATTA-TAAAA
12401990 ATTA-AAAA
1 ATTATAAAA
*
12401998 A-T-T-GAA
1 ATTATAAAA
12402004 ATTATAAAAA
1 ATTAT-AAAA
12402014 ATTATTAAAA
1 ATTA-TAAAA
*
12402024 TATTGTAAAA
1 -ATTATAAAA
*
12402034 ATTAGAAAA
1 ATTATAAAA
12402043 TAAAAATTAT
Statistics
Matches: 110, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
6 3 0.03
7 2 0.02
8 6 0.05
9 29 0.26
10 41 0.37
11 29 0.26
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (9 bp):
ATTATAAAA
Found at i:12401977 original size:21 final size:20
Alignment explanation
Indices: 12401947--12401990 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
12401937 AAGATTATAG
*
12401947 AAAGTTTTAAATATAATTAA
1 AAAGTTTTAAAAATAATTAA
12401967 AAAGTTATTAAAAATAATTAA
1 AAAGTT-TTAAAAATAATTAA
12401988 AAA
1 AAA
12401991 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAGTTTTAAAAATAATTAA
Found at i:12401995 original size:17 final size:17
Alignment explanation
Indices: 12401973--12402071 Score: 62
Period size: 17 Copynumber: 5.8 Consensus size: 17
12401963 TTAAAAAGTT
12401973 ATTAAAAATAATTAAAA
1 ATTAAAAATAATTAAAA
*
12401990 ATT-AAAA-AATTGAAATT
1 ATTAAAAATAATT-AAA-A
* *
12402007 ATAAAAAATTATTAAAA
1 ATTAAAAATAATTAAAA
**
12402024 TATTGTAAA-AATTAGAAA
1 -ATTAAAAATAATTA-AAA
*
12402042 A-TAAAAATTATTAAAA
1 ATTAAAAATAATTAAAA
* *
12402058 AATAAAAAAAATTA
1 ATTAAAAATAATTA
12402072 CTAGTTCTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
15 4 0.07
16 15 0.25
17 24 0.39
18 15 0.25
19 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
ATTAAAAATAATTAAAA
Found at i:12402019 original size:44 final size:45
Alignment explanation
Indices: 12401962--12402060 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 45
12401952 TTTAAATATA
* **
12401962 ATTAAAAAGTTATTAAAAATAAT-TAAAAATTAAAAAATTGAAATT
1 ATTAAAAAATTATT-AAAATAATGTAAAAATTAAAAAATAAAAATT
* *
12402007 A-TAAAAAATTATTAAAATATTGTAAAAATTAGAAAATAAAAATT
1 ATTAAAAAATTATTAAAATAATGTAAAAATTAAAAAATAAAAATT
12402051 ATTAAAAAAT
1 ATTAAAAAAT
12402061 AAAAAAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 7 0.15
44 31 0.66
45 9 0.19
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (45 bp):
ATTAAAAAATTATTAAAATAATGTAAAAATTAAAAAATAAAAATT
Found at i:12402071 original size:34 final size:34
Alignment explanation
Indices: 12401975--12402067 Score: 93
Period size: 34 Copynumber: 2.7 Consensus size: 34
12401965 AAAAAGTTAT
* *
12401975 TAAAAATAATT-AAAAATTAAAAAATT-GAAATTA
1 TAAAAATTATTAAAAAATAAAAAAATTAGAAA-TA
* **
12402008 TAAAAAATTATTAAAATATTGTAAAAATTAGAAA-A
1 T-AAAAATTATTAAAA-AATAAAAAAATTAGAAATA
12402043 TAAAAATTATTAAAAAATAAAAAAA
1 TAAAAATTATTAAAAAATAAAAAAA
12402068 ATTACTAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
33 8 0.16
34 23 0.47
35 5 0.10
36 9 0.18
37 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (34 bp):
TAAAAATTATTAAAAAATAAAAAAATTAGAAATA
Found at i:12402329 original size:9 final size:9
Alignment explanation
Indices: 12402315--12402446 Score: 54
Period size: 9 Copynumber: 13.8 Consensus size: 9
12402305 ATATATACTT
12402315 TTTTTAATA
1 TTTTTAATA
*
12402324 TTTTTAAAA
1 TTTTTAATA
12402333 GTTTTATAAT-
1 -TTTT-TAATA
*
12402343 TTTTTTATAA
1 TTTTTAAT-A
**
12402353 ACTTTAATA
1 TTTTTAATA
*
12402362 CTTTTTAAAA
1 -TTTTTAATA
* *
12402372 TTTTAAACA
1 TTTTTAATA
*
12402381 TTTTAAATAA
1 TTTTTAAT-A
12402391 TTTTTATATGA
1 TTTTTA-AT-A
12402402 TTTTCTTGAA-A
1 -TTT-TT-AATA
12402413 TTTTTAA-A
1 TTTTTAATA
12402421 TTTTTAATTA
1 TTTTTAA-TA
*
12402431 TTTTTTATA
1 TTTTTAATA
*
12402440 ATTTTAA
1 TTTTTAA
12402447 ACGGTTTCTA
Statistics
Matches: 94, Mismatches: 17, Indels: 24
0.70 0.13 0.18
Matches are distributed among these distances:
8 13 0.14
9 36 0.38
10 31 0.33
11 7 0.07
12 3 0.03
13 3 0.03
14 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTTAATA
Found at i:12402337 original size:18 final size:17
Alignment explanation
Indices: 12402316--12402502 Score: 62
Period size: 19 Copynumber: 10.5 Consensus size: 17
12402306 TATATACTTT
12402316 TTTTAATATTTTTAAAA
1 TTTTAATATTTTTAAAA
*
12402333 GTTTTATAATTTTTTTATAAA
1 --TTT-TAATATTTTTA-AAA
*
12402354 CTTTAATACTTTTTAAAA
1 TTTTAATA-TTTTTAAAA
* *
12402372 TTTTAAACATTTTAAATAA
1 TTTT-AATATTTTTAA-AA
*
12402391 TTTTTATATGATTTT----
1 TTTTAATAT--TTTTAAAA
* * *
12402406 CTTGAA-ATTTTTAAAT
1 TTTTAATATTTTTAAAA
*
12402422 TTTTAATTATTTTTTATAA
1 TTTTAA-TA-TTTTTAAAA
*
12402441 TTTTAA-ACGGTTTCTAAAA
1 TTTTAATA---TTTTTAAAA
* **
12402460 TTTTAATATTTTTCATT
1 TTTTAATATTTTTAAAA
* *
12402477 TTTTTATTTTTTATAAAA
1 TTTTAATATTTT-TAAAA
12402495 TTTTAATA
1 TTTTAATA
12402503 CTATTCTACA
Statistics
Matches: 120, Mismatches: 30, Indels: 37
0.64 0.16 0.20
Matches are distributed among these distances:
12 4 0.03
14 2 0.02
15 3 0.03
16 4 0.03
17 16 0.13
18 28 0.23
19 46 0.38
20 14 0.12
21 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTAATATTTTTAAAA
Found at i:12402366 original size:21 final size:20
Alignment explanation
Indices: 12402319--12402367 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
12402309 ATACTTTTTT
* * *
12402319 TAATATTTTTAAAAGTTTTA
1 TAATTTTTTTAAAACTTTAA
12402339 TAATTTTTTTATAAACTTTAA
1 TAATTTTTTTA-AAACTTTAA
*
12402360 TACTTTTT
1 TAATTTTT
12402368 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTTTTTTAAAACTTTAA
Found at i:12402384 original size:17 final size:18
Alignment explanation
Indices: 12402345--12402387 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
12402335 TTTATAATTT
*
12402345 TTTTATAAACTTTAATACT
1 TTTTA-AAACTTTAATACA
*
12402364 TTTTAAAATTTTAA-ACA
1 TTTTAAAACTTTAATACA
12402381 TTTTAAA
1 TTTTAAA
12402388 TAATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 8 0.36
19 5 0.23
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAAACTTTAATACA
Found at i:12406613 original size:16 final size:17
Alignment explanation
Indices: 12406592--12406630 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
12406582 AATAATCATT
* *
12406592 TTAAAAATAACT-ATAC
1 TTAAAAAAAACTAAAAC
12406608 TTAAAAAAAACTAAAAC
1 TTAAAAAAAACTAAAAC
12406625 TTAAAA
1 TTAAAA
12406631 GTATAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (17 bp):
TTAAAAAAAACTAAAAC
Found at i:12416597 original size:37 final size:37
Alignment explanation
Indices: 12416537--12416611 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
12416527 AGCTATTCGA
*
12416537 AGCAATTGGCATGTTATCAGGTGGATTGGCTCTTATG
1 AGCAATTGGCATGTTATCAGGTGGATTAGCTCTTATG
* *
12416574 AGCATTTGGCATGTTATCGGGTGGATTAGCTCTTATG
1 AGCAATTGGCATGTTATCAGGTGGATTAGCTCTTATG
12416611 A
1 A
12416612 TTGTCTGACG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.36
Consensus pattern (37 bp):
AGCAATTGGCATGTTATCAGGTGGATTAGCTCTTATG
Found at i:12425529 original size:43 final size:43
Alignment explanation
Indices: 12425364--12425529 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 43
12425354 ATAAGCTCGT
* * * * * *
12425364 ACAATGCC-ATATCCCAAATATGGTCTTACATGTTATCACACA
1 ACAATGCCAATATCCCAAACAGGGTCTTACACGTAATCTCAAA
* * * * *
12425406 TCGATGCCACTATCCCAGACAGGGTCTTACACG-AA-ATCAATTA
1 ACAATGCCAATATCCCAAACAGGGTCTTACACGTAATCTCAA--A
* * *
12425449 ACAATGCCAATGTCCCAAACATGGTCTTACACATAATCTCAAA
1 ACAATGCCAATATCCCAAACAGGGTCTTACACGTAATCTCAAA
* * *
12425492 GCAATGCCAATGTCCCAAACAGGGTCTTACATGTAATC
1 ACAATGCCAATATCCCAAACAGGGTCTTACACGTAATC
12425530 ACATCACGAT
Statistics
Matches: 96, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 81 0.84
44 2 0.02
45 4 0.04
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.25
Consensus pattern (43 bp):
ACAATGCCAATATCCCAAACAGGGTCTTACACGTAATCTCAAA
Found at i:12425530 original size:86 final size:85
Alignment explanation
Indices: 12425364--12425522 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 85
12425354 ATAAGCTCGT
* ** * * * * * *
12425364 ACAATGCCATATCCCAAATATGGTCTTACATGTTATCACACATCGATGCCACTATCCCAGACAGG
1 ACAATGCCATATCCCAAACATGGTCTTACACATAATCACAAAGCAATGCCAATATCCCAAACAGG
12425429 GTCTTACACGAAATCAATTA
66 GTCTTACACGAAATCAATTA
* * *
12425449 ACAATGCCAATGTCCCAAACATGGTCTTACACATAATCTCAAAGCAATGCCAATGTCCCAAACAG
1 ACAATGCC-ATATCCCAAACATGGTCTTACACATAATCACAAAGCAATGCCAATATCCCAAACAG
12425514 GGTCTTACA
65 GGTCTTACA
12425523 TGTAATCACA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
85 8 0.13
86 53 0.87
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (85 bp):
ACAATGCCATATCCCAAACATGGTCTTACACATAATCACAAAGCAATGCCAATATCCCAAACAGG
GTCTTACACGAAATCAATTA
Found at i:12427357 original size:21 final size:22
Alignment explanation
Indices: 12427310--12427357 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
12427300 CTAAAAAAAG
**
12427310 TACTTACCTTGAATAATTTTCA
1 TACTTACCTTGAATAATTTAAA
*
12427332 TACTTACCTTG-ATACTTTAAA
1 TACTTACCTTGAATAATTTAAA
12427353 TACTT
1 TACTT
12427358 GTATTACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (22 bp):
TACTTACCTTGAATAATTTAAA
Found at i:12427496 original size:22 final size:22
Alignment explanation
Indices: 12427471--12427520 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
12427461 GAGCACCAAG
12427471 GTGCTATA-CAGAGAACACAAAC
1 GTGCTA-ACCAGAGAACACAAAC
*
12427493 GTGCTAACCAGAGAGCACAAAC
1 GTGCTAACCAGAGAACACAAAC
*
12427515 ATGCTA
1 GTGCTA
12427521 GAAAATAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.14
Consensus pattern (22 bp):
GTGCTAACCAGAGAACACAAAC
Found at i:12429876 original size:19 final size:19
Alignment explanation
Indices: 12429852--12429894 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
12429842 TTATATCATT
12429852 CTTCATCACCAAACCACTA
1 CTTCATCACCAAACCACTA
12429871 CTTCATCACCAAACCACTA
1 CTTCATCACCAAACCACTA
12429890 CTTCA
1 CTTCA
12429895 CCATCCCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (19 bp):
CTTCATCACCAAACCACTA
Found at i:12431023 original size:24 final size:24
Alignment explanation
Indices: 12430944--12431029 Score: 100
Period size: 24 Copynumber: 3.6 Consensus size: 24
12430934 TTTACTAAAA
* *
12430944 TATTGAATGACTTGGCCACAACGT
1 TATTGAGTGGCTTGGCCACAACGT
** * *
12430968 TATTGAGCAGCTTGGCCACAATGC
1 TATTGAGTGGCTTGGCCACAACGT
* *
12430992 TATTGAGTGGCTTGTCTACAACGT
1 TATTGAGTGGCTTGGCCACAACGT
12431016 TATTGAGTGGCTTG
1 TATTGAGTGGCTTG
12431030 ACCATAATGA
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (24 bp):
TATTGAGTGGCTTGGCCACAACGT
Found at i:12431095 original size:65 final size:63
Alignment explanation
Indices: 12430992--12431134 Score: 196
Period size: 65 Copynumber: 2.2 Consensus size: 63
12430982 GCCACAATGC
* * * *
12430992 TATTGAGTGGCTTGTCTACAACGTTATTGAGTGGCTTGACCATAATGATGCAACTTGACTGCGA
1 TATTGAGTGGCTTG-CCACAACGTTATTGAGTGACTTGACCACAACGATGCAACTTGACTGCGA
* *
12431056 TATTGAGTGGCTTAGCCACAAACGTTATTGAGTGACTTGACCACAACGATGTAGCTTGACTGCGA
1 TATTGAGTGGCTT-GCCAC-AACGTTATTGAGTGACTTGACCACAACGATGCAACTTGACTGCGA
*
12431121 TATTAAGTGGCTTG
1 TATTGAGTGGCTTG
12431135 GCCATAATGT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
64 17 0.24
65 53 0.76
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (63 bp):
TATTGAGTGGCTTGCCACAACGTTATTGAGTGACTTGACCACAACGATGCAACTTGACTGCGA
Found at i:12440420 original size:21 final size:21
Alignment explanation
Indices: 12440378--12440426 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
12440368 TAAGTACTTT
*
12440378 TTATTTTATTTTCCTTTATTA
1 TTATTTTATTTTACTTTATTA
*
12440399 TTATTTTAATTTTAGTTT-TTA
1 TTATTTT-ATTTTACTTTATTA
*
12440420 TAATTTT
1 TTATTTT
12440427 TATTGAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TTATTTTATTTTACTTTATTA
Found at i:12447535 original size:32 final size:32
Alignment explanation
Indices: 12447499--12447562 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
12447489 CCTGGACTAA
*
12447499 AACGTGAGGTGACTGGATTTGTAGCTAAGTGT
1 AACGTGAGGTGACTAGATTTGTAGCTAAGTGT
12447531 AACGTGAGGTGACTAGATTTGTAGCTAAGTGT
1 AACGTGAGGTGACTAGATTTGTAGCTAAGTGT
12447563 CTAACGTGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.33, T:0.31
Consensus pattern (32 bp):
AACGTGAGGTGACTAGATTTGTAGCTAAGTGT
Found at i:12454688 original size:30 final size:30
Alignment explanation
Indices: 12454653--12454714 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
12454643 GTAAATAAGT
12454653 TATAATTGATTGTAATTTGTATATGTAGAC
1 TATAATTGATTGTAATTTGTATATGTAGAC
12454683 TATAATTGATTGTAATTTGTATATGTAGAC
1 TATAATTGATTGTAATTTGTATATGTAGAC
12454713 TA
1 TA
12454715 AGTCTGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (30 bp):
TATAATTGATTGTAATTTGTATATGTAGAC
Found at i:12455070 original size:13 final size:13
Alignment explanation
Indices: 12455045--12455086 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 13
12455035 TACTTAAGTG
12455045 TATAATATAATAATA
1 TATAATATAAT-A-A
12455060 TATTAATATAATAA
1 TA-TAATATAATAA
12455074 TATAATATAATAA
1 TATAATATAATAA
12455087 AATTTAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.42
14 3 0.12
15 3 0.12
16 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:12455086 original size:8 final size:8
Alignment explanation
Indices: 12455046--12455080 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
12455036 ACTTAAGTGT
12455046 ATAATATA
1 ATAATATA
12455054 ATAATATA
1 ATAATATA
*
12455062 TTAATATA
1 ATAATATA
12455070 ATAATATA
1 ATAATATA
12455078 ATA
1 ATA
12455081 TAATAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:12455119 original size:8 final size:9
Alignment explanation
Indices: 12455091--12455133 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
12455081 TAATAAAATT
12455091 TAAAAGAAA
1 TAAAAGAAA
12455100 TAAAAGAAA
1 TAAAAGAAA
12455109 TAAAA-AAA
1 TAAAAGAAA
12455117 T-AAAGAAA
1 TAAAAGAAA
*
12455125 CAAAAGAAA
1 TAAAAGAAA
12455134 GAGAATAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 3 0.10
8 7 0.23
9 21 0.68
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (9 bp):
TAAAAGAAA
Found at i:12457669 original size:31 final size:31
Alignment explanation
Indices: 12457598--12457676 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
12457588 CATGTTTACA
* *
12457598 CTTTCATTTGGGTCACCCAACTTCTAGATCT
1 CTTTCATTTTGGTCACCCAACTTCTAGATCG
*
12457629 CTTTCATTTTGGTCATCCAACTTCTA-AGTCG
1 CTTTCATTTTGGTCACCCAACTTCTAGA-TCG
*
12457660 CTTTCATTTTAGTCACC
1 CTTTCATTTTGGTCACC
12457677 TAAAAACTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 41 0.98
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (31 bp):
CTTTCATTTTGGTCACCCAACTTCTAGATCG
Found at i:12461761 original size:21 final size:20
Alignment explanation
Indices: 12461715--12461762 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
12461705 CTAGACTTTG
* *
12461715 GACCTTGGACCTTAAAACCTA
1 GACCTTGGACCCT-AAACCTT
*
12461736 GACCTTGGACCCTAAACGTT
1 GACCTTGGACCCTAAACCTT
12461756 GTACCTT
1 G-ACCTT
12461763 AAAACCTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (20 bp):
GACCTTGGACCCTAAACCTT
Found at i:12461862 original size:21 final size:22
Alignment explanation
Indices: 12461838--12461888 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
12461828 GTTAAGGGTC
*
12461838 TAGGGTTTA-GTGTCTAAGATT
1 TAGGGTTTAGGAGTCTAAGATT
12461859 TAGGG-TTAGGAGTCTAAGATT
1 TAGGGTTTAGGAGTCTAAGATT
12461880 TAGGGTTTA
1 TAGGGTTTA
12461889 TAATCAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.25, C:0.04, G:0.31, T:0.39
Consensus pattern (22 bp):
TAGGGTTTAGGAGTCTAAGATT
Found at i:12469038 original size:18 final size:18
Alignment explanation
Indices: 12469015--12469049 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12469005 TTATCAGAAA
12469015 AGAAAACTGAACAGATGG
1 AGAAAACTGAACAGATGG
* *
12469033 AGAAAATTGAACTGATG
1 AGAAAACTGAACAGATG
12469050 AATATTATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.09, G:0.26, T:0.17
Consensus pattern (18 bp):
AGAAAACTGAACAGATGG
Found at i:12469207 original size:15 final size:16
Alignment explanation
Indices: 12469156--12469200 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
12469146 AACAGAACTC
*
12469156 CTAAAAATAGCAAACG
1 CTAAAAATAGCAAACA
* *
12469172 TTAAAAATAACAAACA
1 CTAAAAATAGCAAACA
12469188 CTAAAAATAGCAA
1 CTAAAAATAGCAA
12469201 TCCTAAACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.62, C:0.16, G:0.07, T:0.16
Consensus pattern (16 bp):
CTAAAAATAGCAAACA
Found at i:12473377 original size:16 final size:16
Alignment explanation
Indices: 12473335--12473379 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
12473325 AATAAAACTC
*
12473335 CTAAAAATAGAAAACA
1 CTAAAAATAGCAAACA
*
12473351 TTAAAAATAGCAAACA
1 CTAAAAATAGCAAACA
*
12473367 CTAGAAATAGCAA
1 CTAAAAATAGCAA
12473380 TCCTAAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.62, C:0.13, G:0.09, T:0.16
Consensus pattern (16 bp):
CTAAAAATAGCAAACA
Found at i:12473536 original size:17 final size:18
Alignment explanation
Indices: 12473511--12473560 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
12473501 ACTCAAACCT
*
12473511 AAAAGTGATTTGAACTC-
1 AAAATTGATTTGAACTCG
*
12473528 AAAATTGATATGAA-TCG
1 AAAATTGATTTGAACTCG
*
12473545 AAAATTGATTCGAACT
1 AAAATTGATTTGAACT
12473561 AAGAATGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.07
17 24 0.89
18 1 0.04
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (18 bp):
AAAATTGATTTGAACTCG
Found at i:12473902 original size:15 final size:16
Alignment explanation
Indices: 12473882--12473914 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
12473872 ATATATATTT
12473882 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
12473897 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
12473914 T
1 T
12473915 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:12474802 original size:27 final size:27
Alignment explanation
Indices: 12474771--12474826 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
12474761 TTTAATCGAA
12474771 CAACTTTTTTGAAAACACAACGATTTT
1 CAACTTTTTTGAAAACACAACGATTTT
12474798 CAACTTTTTTGAAAACACAACGATTTT
1 CAACTTTTTTGAAAACACAACGATTTT
12474825 CA
1 CA
12474827 CAATTTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (27 bp):
CAACTTTTTTGAAAACACAACGATTTT
Found at i:12477769 original size:16 final size:18
Alignment explanation
Indices: 12477743--12477776 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12477733 TTAAATTAAC
12477743 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
12477760 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
12477777 ACAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:12500600 original size:3 final size:3
Alignment explanation
Indices: 12500594--12500636 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
12500584 GTTTACTTTC
*
12500594 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12500637 GTCTTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12502207 original size:6 final size:6
Alignment explanation
Indices: 12502196--12502236 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
12502186 TCCACTTATG
* *
12502196 TTATTT TTATTT TTATTT TCATTT TTATCT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
12502237 ATGTTGCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:12503123 original size:15 final size:15
Alignment explanation
Indices: 12503100--12503129 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12503090 TTAATAATTT
12503100 CTCCATTTTTATTGA
1 CTCCATTTTTATTGA
*
12503115 CTCCCTTTTTATTGA
1 CTCCATTTTTATTGA
12503130 GATTTGATTT
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:0.17, C:0.23, G:0.07, T:0.53
Consensus pattern (15 bp):
CTCCATTTTTATTGA
Found at i:12507015 original size:39 final size:40
Alignment explanation
Indices: 12506898--12507082 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
12506888 GCTACTCGTT
* *
12506898 CAAATGCCTTCGGGACATATCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
12506938 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
12506978 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
12507017 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
12507058 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
12507083 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.27
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:12507015 original size:79 final size:82
Alignment explanation
Indices: 12506898--12507082 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
12506888 GCTACTCGTT
* * * * *
12506898 CAAATGCCTTCGGGACATATCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GAATCTTAACCC
* *
12506961 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
12506978 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGAATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAATCTTAACCCG
* *
12507041 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
12507058 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
12507083 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 53 0.60
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:12515013 original size:79 final size:81
Alignment explanation
Indices: 12514870--12515053 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
12514860 ACTACTCGTT
* * *
12514870 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTCGGGACTTAACCCGG
* *
12514934 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* * **
12514949 CAAATGCCTTCGGG-CTTAGCTCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCC-TCGGGA-CTTAACCC
* *
12515011 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
12515029 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
12515054 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 29 0.33
79 41 0.47
80 18 0.20
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:12515053 original size:40 final size:40
Alignment explanation
Indices: 12514870--12515053 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
12514860 ACTACTCGTT
* *
12514870 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
12514910 CAATTGCC-TCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
12514949 CAAATGCCTTCGGG-CTTAGCTCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
12514988 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
12515029 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
12515054 CATCATTCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 65 0.54
40 41 0.34
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:12520788 original size:29 final size:29
Alignment explanation
Indices: 12520730--12520788 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
12520720 CATTTGGAAG
**
12520730 TTAATCACTCTACTTTTATTTTTAAGAAA
1 TTAATCACTCTACTTTTAAATTTAAGAAA
*
12520759 TTAATCAGTCTACTTTTGAAATTTAA-AAA
1 TTAATCACTCTACTTTT-AAATTTAAGAAA
12520788 T
1 T
12520789 CTAGGTCACG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (29 bp):
TTAATCACTCTACTTTTAAATTTAAGAAA
Found at i:12531852 original size:19 final size:19
Alignment explanation
Indices: 12531828--12531872 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
12531818 CGTCTCTTTT
*
12531828 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCAT-CATA
12531847 TGCATTGCATTTCATCATA
1 TGCATTGCATTTCATCATA
12531866 TGCATTG
1 TGCATTG
12531873 AATATCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:12535695 original size:53 final size:53
Alignment explanation
Indices: 12535615--12535771 Score: 233
Period size: 53 Copynumber: 3.0 Consensus size: 53
12535605 GCTCCCAATC
* *
12535615 AATTTTATTCTTATTACATTTGCTATCTTTGCTTAACTTATTCATTTCGAGTT
1 AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
*
12535668 AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTTGAGTT
1 AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
* ** * * *
12535721 AATTTCCTTCTTATTGTATTTGTTATCTTTGATTAATTTATTTATTTCGAG
1 AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAG
12535772 CTATACTCCC
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 94 1.00
ACGTcount: A:0.22, C:0.13, G:0.08, T:0.57
Consensus pattern (53 bp):
AATTTTCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:12535707 original size:27 final size:26
Alignment explanation
Indices: 12535624--12535714 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 26
12535614 CAATTTTATT
12535624 CTTATTACATTTGCTATCTTTGCTTAA
1 CTTATT-CATTTGCTATCTTTGCTTAA
*
12535651 CTTATTCATTTCGAGTTAAT-TTT-CTT--
1 CTTATTCATTT---GCT-ATCTTTGCTTAA
*
12535677 CTTATTACATTTGCTATCTTTGATTAA
1 CTTATT-CATTTGCTATCTTTGCTTAA
12535704 CTTATTCATTT
1 CTTATTCATTT
12535715 TGAGTTAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
23 2 0.04
24 5 0.10
25 2 0.04
26 16 0.31
27 17 0.33
28 3 0.06
29 5 0.10
30 2 0.04
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.55
Consensus pattern (26 bp):
CTTATTCATTTGCTATCTTTGCTTAA
Found at i:12536317 original size:46 final size:45
Alignment explanation
Indices: 12536208--12536387 Score: 218
Period size: 46 Copynumber: 3.9 Consensus size: 45
12536198 TGAAGAAGCC
* * *
12536208 ACAAATCCTATAACCCTGAGCTGCA-TGGGATGGATTGAAAAAGAT
1 ACAAATCCTATACCCCTGAGTTGCAGTGGGATGGATT-AAAATGAT
*
12536253 ACAAATCCTATACCCCCTGAGTTGCAGTGGGATGGATTAAATATGGT
1 ACAAATCCTATA-CCCCTGAGTTGCAGTGGGATGGATTAAA-ATGAT
**
12536300 ACAAATCCTATACCCCTGAGTTATAGTGGGATGGATTAAAGATGAT
1 ACAAATCCTATACCCCTGAGTTGCAGTGGGATGGATTAAA-ATGAT
* * * * *
12536346 ACAAATCCTATACCCTTGAGTTGTAGTAGGAAGGATAAAAAT
1 ACAAATCCTATACCCCTGAGTTGCAGTGGGATGGATTAAAAT
12536388 ACACAAACCT
Statistics
Matches: 119, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
45 14 0.12
46 79 0.66
47 26 0.22
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (45 bp):
ACAAATCCTATACCCCTGAGTTGCAGTGGGATGGATTAAAATGAT
Found at i:12536692 original size:46 final size:46
Alignment explanation
Indices: 12536611--12536730 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 46
12536601 AGATCAAAGC
* *
12536611 CACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATA
1 CACAATCCTTATCTCCCTGAAGTTACAGTAGAGCAGGATAAAAATA
* * * * *
12536657 CACAAACCTTATCTCCCTGAAGTTATAGT-GAAGCAGGTTGAAATTA
1 CACAATCCTTATCTCCCTGAAGTTACAGTAG-AGCAGGATAAAAATA
* * *
12536703 C-CAATTCTTATCTCCTTGAAGTTCCAGT
1 CACAATCCTTATCTCCCTGAAGTTACAGT
12536731 GGAGTAGATT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
45 23 0.38
46 38 0.62
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (46 bp):
CACAATCCTTATCTCCCTGAAGTTACAGTAGAGCAGGATAAAAATA
Found at i:12536723 original size:45 final size:45
Alignment explanation
Indices: 12536396--12537002 Score: 202
Period size: 44 Copynumber: 13.6 Consensus size: 45
12536386 ATACACAAAC
* ** *
12536396 CTTATCTCCCTTAAGTTGTAGTGGAGCAGGTTGAAATTACTAATT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * * * * ** *
12536441 CTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTA-CAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * **
12536485 CTCT-TCTCCCTGAAATTACATTGGAG-TGGATT-AAAGCCACCAATT
1 CT-TATCTCCCTGAAGTTACAGTGGAGCAGG-TTGAAA-TTACCAATT
* * * * * * ** *
12536530 CTTATCTCCTTTAAGTT-CTAGCGGAGTAGATCGAAGCTA-CAAAT
1 CTTATCTCCCTGAAGTTAC-AGTGGAGCAGGTTGAAATTACCAATT
* * * * * ** *
12536574 C-TATTCTCCCTAAAATTACATTGGAGCA-GATCAAA-GCCACAATC
1 CTTA-TCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTAC-CAATT
* * * * * * **
12536618 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTAC-CAATT
* *
12536664 CTTATCTCCCTGAAGTTATAGTGAAGCAGGTTGAAATTACCAATT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * * ** *
12536709 CTTATCTCCTTGAAGTTCCAGTGGAGTAGATTGAAGCTA-CAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* *
12536753 CTCT-TCTCCCTGAAATTACATTGGAGC-GGATTGAAATTACCAATT
1 CT-TATCTCCCTGAAGTTACAGTGGAGCAGG-TTGAAATTACCAATT
** * * ** * * * ** *
12536798 CTTATCTCTTTAAAGTTCCAACGGAGTAGATCGAAGCTA-CAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * * *** * *
12536842 CTCT-TCTCCTTGAAATTACATTGGAGCAGATTGAAGCCA-TAATC
1 CT-TATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * * * * * *
12536886 CTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAAATACACGAA-C
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTAC-C-AATT
*
12536932 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
* * * *
12536977 ATTATCTCCTTGAAGTTCCAGCGGAG
1 CTTATCTCCCTGAAGTTACAGTGGAG
12537003 TAGATCGAAG
Statistics
Matches: 399, Mismatches: 137, Indels: 52
0.68 0.23 0.09
Matches are distributed among these distances:
43 9 0.02
44 162 0.41
45 149 0.37
46 77 0.19
47 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACCAATT
Found at i:12536776 original size:268 final size:268
Alignment explanation
Indices: 12536364--12537580 Score: 1241
Period size: 268 Copynumber: 4.5 Consensus size: 268
12536354 TATACCCTTG
* * *
12536364 AGTTGTAGTAG-GAAGGATAAAAATACACAAACCTTATCTCCCTTAAGTTGTAGTGGAGCAGGTT
1 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTT
*
12536428 GAAATTACTAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
12536493 CCTGAAATTACATTGGAGTGGATT-AAAGCCACCAATTCTTATCTCCTTT-AAGTTCTAGCGGAG
131 CCTGAAATTACATTGGAGTGGATTGAAA-CCACCAATTCTTATCT-CTTTAAAGTTCTAGCGGAG
* *
12536556 TAGATCGAAGCTACAAATCTATTCTCCCTAAAATTACATTGGAGCAGATCAAAGCCACAATCCTT
194 TAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAGCCACAATCCTT
12536621 ATCTCTCTGA
259 ATCTCTCTGA
* *
12536631 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTATAGTGAAGCAGGTT
1 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTT
* *
12536696 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGTGGAGTAGATTGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
* ** * *
12536761 CCTGAAATTACATTGGAGCGGATTGAAATTACCAATTCTTATCTCTTTAAAGTTCCAACGGAGTA
131 CCTGAAATTACATTGGAGTGGATTGAAACCACCAATTCTTATCTCTTTAAAGTTCTAGCGGAGTA
* ** *
12536826 GATCGAAGCTACAAATCTCTTCTCCTTGAAATTACATTGGAGCAGATTGAAGCCATAATCCTTAT
196 GATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAGCCACAATCCTTAT
12536891 CTCTCTGA
261 CTCTCTGA
* * *
12536899 AGTTGCAGTAGAGTAGGATAAAAATACACGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
1 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTT
* *
12536964 GAAATTACCAATTATTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTGCAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
** * * * * * ** ** *
12537029 TTTGAAATTATATTGGAGTAGATCGAAGCCA-CAATCCTTATCT-TTCTAAAGTTGAAGTAGAGC
131 CCTGAAATTACATTGGAGTGGATTGAAACCACCAATTCTTATCTCTT-TAAAGTTCTAGCGGAGT
* *** * * * * * **
12537092 AGGAT-AAATAAACAAACCT-TATCTCCCTG-AAGTAGCAGTGGAGCAGGTTGAAA-TTACCAAT
195 A-GATCGAAGCTACAAATCTCT-TCTCCCTGAAATTA-CATTGGAGCA-GATCAAAGCCA-CAAT
* *
12537153 TCTTATCTCAT-TAA
255 CCTTATCTC-TCTGA
** * * ** * * * * * * * * *
12537167 AGTTTTAGTGGAGTA-GAT-CGAA-GCTGCAAATCTCT-TCTCTCTGAAATTATATTGGAGTAGA
1 AGTTGCAGTAGAGCAGGATAAAAATAC-ACAAACCT-TATCTCCCTGAAGTTGTAGTGGAGCAGG
* *** * * ** ** * * ** *
12537228 TCGAAGCCA-CAATCCTTATCT-CTCTAAAGTTGAAGTAGAGCAGGAT-AAAAATAAACAAACCT
64 TTGAAATTACCAATTCTTATCTCCT-TGAAGTTCCAGCGGAGTA-GATCGAAGCT--ACAAATCT
* * ** ** * *
12537290 -TATCTCCCTG-AAGTAGCAGTGGAACAGG-TTGAAATTACCAATTCTTATCTCCTTAAAGTTTT
125 CT-TCTCCCTGAAATTA-CATTGG-AGTGGATTGAAACCACCAATTCTTATCTCTTTAAAGTTCT
* * * *
12537352 AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTAGAGTATATCGAAGCCAC
187 AGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAGCCAC
12537417 AATCCTTATCTCTCTGA
252 AATCCTTATCTCTCTGA
* * * * * *
12537434 AGTTGCAGTAAAGCAGGATAAAAGTACACAAACCTTATCTCCTTGAAGTTGCAGTAGAGTAGGTT
1 AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTT
* *
12537499 GAAATTACCAATTTTTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
12537564 CCTGAAATTACATTGGA
131 CCTGAAATTACATTGGA
12537581 ACAGATTGAA
Statistics
Matches: 748, Mismatches: 167, Indels: 70
0.76 0.17 0.07
Matches are distributed among these distances:
264 2 0.00
265 26 0.03
266 47 0.06
267 119 0.16
268 479 0.64
269 48 0.06
270 25 0.03
271 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (268 bp):
AGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTT
GAAATTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
CCTGAAATTACATTGGAGTGGATTGAAACCACCAATTCTTATCTCTTTAAAGTTCTAGCGGAGTA
GATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCAAAGCCACAATCCTTAT
CTCTCTGA
Found at i:12537059 original size:179 final size:179
Alignment explanation
Indices: 12536364--12537580 Score: 1230
Period size: 179 Copynumber: 6.8 Consensus size: 179
12536354 TATACCCTTG
* * * *
12536364 AGTTGTAGTAG-GAAGGATAAAAATACACAAACCTTATCTCCCTTAAGTTGTAGTGGAGCAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* *
12536428 GAAATTACTAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
* ** * *
12536493 CCTGAAATTACATTGGAGTGGATTAAAGCCACCAATTCTTATCTC-CTTTA
131 CCTGAAATTACATTGGAGTAGATCGAAGCCA-CAATCCTTATCTCTC-TAA
** ** * ** * * * * * *
12536543 AGTTCTAGCGGAGTA-GAT-CGAA-GCTACAAATC-TATTCTCCCTAAAATTACATTGGAGCA-G
1 AGTTGAAGTAGAGCAGGATAAAAATAC-ACAAACCTTA-TCTCCCTGAAGTTGCAGTGGAGCAGG
* * ** * * * ** * * ** *
12536603 ATCAAA-GCCACAATCCTTATCT-CTCTGAAGTTGCAGTAGAGCAGGAT-AAAAATACACAAAC-
64 TTGAAATTAC-CAATTCTTATCTCCT-TAAAGTTCCAGCGGAGTA-GATCGAAGCTACA-AATCT
* * * * * * * *** * *
12536664 CTTATCTCCCTGAAGTTATAGTGAAGCAGGTTGAAATTACCAATTCTTATCTC-CTTGA
125 C-T-TCTCCCTGAAATTACATTGGAGTAGATCGAAGCCA-CAATCCTTATCTCTC-TAA
** * * ** * * * * *
12536722 AGTTCCAGTGGAGTA-GAT-TGAA-GCTACAAATCTCT-TCTCCCTGAAATTACATTGGAGC-GG
1 AGTTGAAGTAGAGCAGGATAAAAATAC-ACAAACCT-TATCTCCCTGAAGTTGCAGTGGAGCAGG
* *
12536782 ATTGAAATTACCAATTCTTATCTCTTTAAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTT
64 -TTGAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTT
* * * * *
12536847 CTCCTTGAAATTACATTGGAGCAGATTGAAGCCATAATCCTTATCTCTCTGA
128 CTCCCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
* * *
12536899 AGTTGCAGTAGAGTAGGATAAAAATACACGAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* * *
12536964 GAAATTACCAATTATTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTGCAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
** * *
12537029 TTTGAAATTATATTGGAGTAGATCGAAGCCACAATCCTTATCTTTCTAA
131 CCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
* *
12537078 AGTTGAAGTAGAGCAGGAT--AAATAAACAAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* ** * *
12537141 GAAATTACCAATTCTTATCTCATTAAAGTTTTAGTGGAGTAGATCGAAGCTGCAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
* *
12537206 TCTGAAATTATATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
131 CCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
* * *
12537255 AGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTAGCAGTGGAACAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
**
12537320 GAAATTACCAATTCTTATCTCCTTAAAGTTTTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
* * *
12537385 CCTGAAATTACATTAGAGTATATCGAAGCCACAATCCTTATCTCTCTGA
131 CCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
* * * * * *
12537434 AGTTGCAGTAAAGCAGGATAAAAGTACACAAACCTTATCTCCTTGAAGTTGCAGTAGAGTAGGTT
1 AGTTGAAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
* * *
12537499 GAAATTACCAATTTTTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCTC
66 GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
12537564 CCTGAAATTACATTGGA
131 CCTGAAATTACATTGGA
12537581 ACAGATTGAA
Statistics
Matches: 884, Mismatches: 129, Indels: 50
0.83 0.12 0.05
Matches are distributed among these distances:
176 3 0.00
177 232 0.26
178 65 0.07
179 542 0.61
180 39 0.04
181 3 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (179 bp):
AGTTGAAGTAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT
GAAATTACCAATTCTTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTC
CCTGAAATTACATTGGAGTAGATCGAAGCCACAATCCTTATCTCTCTAA
Found at i:12537170 original size:356 final size:358
Alignment explanation
Indices: 12536757--12537592 Score: 1223
Period size: 356 Copynumber: 2.3 Consensus size: 358
12536747 ACAAATCTCT
* * *
12536757 TCTCCCTGAAATTA-CATTGGAGC-GGATTGAAATTACCAATTCTTATCTCTTTAAAGTTCCAAC
1 TCTCCCTG-AAGTAGCAGTGGAGCAGG-TTGAAATTACCAATTCTTATCTCATTAAAGTTCCAAC
*
12536820 GGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATTACATTGGAGCAGATTGAAGCCATAAT
64 GGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATTACATTGGAGCAGATTGAAGCCACAAT
* * * * * *
12536885 CCTTATCTCTCTGAAGTTGCAGTAGAGTAGGATAAAAATACACGAACCTTATCTCCCTGAAGTTG
129 CCTTATCTCTCTAAAGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTAG
* *
12536950 CAGTGGAGCAGGTTGAAATTACCAATTATTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCT
194 CAGTGGAACAGGTTGAAATTACCAATTATTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCT
* ** * * *
12537015 GCAAATCTCTTCTCTTTGAAATTATATTGGAGTAGATCGAAGCCACAATCCTTATCTTTCTAAAG
259 ACAAATCTCTTCTCCCTGAAATTACATTAGAGTAGATCGAAGCCACAATCCTTATCTCTCTAAAG
*
12537080 TTGAAGTAGAGCAGGAT-AAA-TAAACAAACCTTA
324 TTGAAGTAAAGCAGGATAAAAGTAAACAAACCTTA
** **
12537113 TCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCATTAAAGTTTTAGTGG
1 TCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCATTAAAGTTCCAACGG
* * * *
12537178 AGTAGATCGAAGCTGCAAATCTCTTCT-CTCTGAAATTATATTGGAGTAGATCGAAGCCACAATC
66 AGTAGATCGAAGCTACAAATCTCTTCTCCT-TGAAATTACATTGGAGCAGATTGAAGCCACAATC
12537242 CTTATCTCTCTAAAGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTAGC
130 CTTATCTCTCTAAAGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTAGC
* **
12537307 AGTGGAACAGGTTGAAATTACCAATTCTTATCTCCTTAAAGTTTTAGCGGAGTAGATCGAAGCTA
195 AGTGGAACAGGTTGAAATTACCAATTATTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTA
* *
12537372 CAAATCTCTTCTCCCTGAAATTACATTAGAGTATATCGAAGCCACAATCCTTATCTCTCTGAAGT
260 CAAATCTCTTCTCCCTGAAATTACATTAGAGTAGATCGAAGCCACAATCCTTATCTCTCTAAAGT
* *
12537437 TGCAGTAAAGCAGGATAAAAGTACACAAACCTTA
325 TGAAGTAAAGCAGGATAAAAGTAAACAAACCTTA
* * * * * * *
12537471 TCTCCTTGAAGTTGCAGTAGAGTAGGTTGAAATTACCAATTTTTATCTCCTTGAAGTTCCAACGG
1 TCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCATTAAAGTTCCAACGG
* *
12537536 AGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAACAGATTGAAGC
66 AGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATTACATTGGAGCAGATTGAAGC
12537593 ACCAATTCCT
Statistics
Matches: 423, Mismatches: 51, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
355 6 0.01
356 296 0.70
357 5 0.01
358 115 0.27
359 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (358 bp):
TCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCATTAAAGTTCCAACGG
AGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATTACATTGGAGCAGATTGAAGCCACAATCC
TTATCTCTCTAAAGTTGAAGTAGAGCAGGATAAAAATAAACAAACCTTATCTCCCTGAAGTAGCA
GTGGAACAGGTTGAAATTACCAATTATTATCTCCTTAAAGTTCCAGCGGAGTAGATCGAAGCTAC
AAATCTCTTCTCCCTGAAATTACATTAGAGTAGATCGAAGCCACAATCCTTATCTCTCTAAAGTT
GAAGTAAAGCAGGATAAAAGTAAACAAACCTTA
Found at i:12539278 original size:13 final size:14
Alignment explanation
Indices: 12539248--12539279 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
12539238 TATTAATATC
12539248 ATTATTTTTTTACT
1 ATTATTTTTTTACT
12539262 -TTATTTTTTTA-T
1 ATTATTTTTTTACT
12539274 ATTATT
1 ATTATT
12539280 ATTATTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.06
13 16 0.94
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (14 bp):
ATTATTTTTTTACT
Found at i:12544914 original size:48 final size:48
Alignment explanation
Indices: 12544850--12544974 Score: 205
Period size: 48 Copynumber: 2.6 Consensus size: 48
12544840 CGGGCATCCT
*
12544850 CCACCTCCACCAGACCCTTTTGCACCCCCACCGCCAGGGCATCCGGCA
1 CCACCTCCACCAGACCCTTTTGCACCACCACCGCCAGGGCATCCGGCA
* *
12544898 CCACCTCCACCTGACCCTTTTGCTCCACCACCGCCAGGGCATCCGGCA
1 CCACCTCCACCAGACCCTTTTGCACCACCACCGCCAGGGCATCCGGCA
* *
12544946 CCACCTCCACCAGACCCCTTCGCACCACC
1 CCACCTCCACCAGACCCTTTTGCACCACC
12544975 TATGTTCGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.18, C:0.54, G:0.14, T:0.14
Consensus pattern (48 bp):
CCACCTCCACCAGACCCTTTTGCACCACCACCGCCAGGGCATCCGGCA
Found at i:12544949 original size:24 final size:24
Alignment explanation
Indices: 12544871--12544950 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 24
12544861 AGACCCTTTT
*
12544871 GCACCCCCACCGCCAGGGCATCCG
1 GCACCACCACCGCCAGGGCATCCG
* * * ** * ***
12544895 GCACCACCTCCACCTGACCCTTTT
1 GCACCACCACCGCCAGGGCATCCG
*
12544919 GCTCCACCACCGCCAGGGCATCCG
1 GCACCACCACCGCCAGGGCATCCG
12544943 GCACCACC
1 GCACCACC
12544951 TCCACCAGAC
Statistics
Matches: 35, Mismatches: 21, Indels: 0
0.62 0.38 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.17, C:0.53, G:0.19, T:0.11
Consensus pattern (24 bp):
GCACCACCACCGCCAGGGCATCCG
Found at i:12544958 original size:24 final size:24
Alignment explanation
Indices: 12544883--12544958 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
12544873 ACCCCCACCG
12544883 CCAGGGCATCCGGCACCACCTCCA
1 CCAGGGCATCCGGCACCACCTCCA
* ** * *** * * *
12544907 CCTGACCCTTTTGCTCCACCACCG
1 CCAGGGCATCCGGCACCACCTCCA
12544931 CCAGGGCATCCGGCACCACCTCCA
1 CCAGGGCATCCGGCACCACCTCCA
12544955 CCAG
1 CCAG
12544959 ACCCCTTCGC
Statistics
Matches: 32, Mismatches: 20, Indels: 0
0.62 0.38 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.18, C:0.50, G:0.18, T:0.13
Consensus pattern (24 bp):
CCAGGGCATCCGGCACCACCTCCA
Found at i:12549724 original size:128 final size:130
Alignment explanation
Indices: 12549555--12549790 Score: 341
Period size: 130 Copynumber: 1.8 Consensus size: 130
12549545 TTTAAATATT
* * *
12549555 TTTTAGAAGATATGAATGAAAACTTGAAGGGATATTTGATTATTTTAAAC-AAT-CGAAATTGCA
1 TTTTAAAAGACATGAATGAAAACTTGAAGGGATATTCGATTATTTTAAACAAATGCGAAATTGCA
12549618 ACCCAACACATTAGGGCACGATTCCACAAATTGCCAAATATCACGTATCGCATTCGTTTAAGGGA
66 ACCCAACACATTAGGGCACGATTCCACAAATTGCCAAATATCACGTATCGCATTCGTTTAAGGGA
* ** * * *
12549683 TTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTCGATTATTTTGAGCAAATGCGAAATTGCA
1 TTTTAAAAGACATGAATGAAAACTTGAAGGGATATTCGATTATTTTAAACAAATGCGAAATTGCA
* * * *
12549748 ACCCAACACGTTAGGGCACGATTCCGCGAATTGTCAAATATCA
66 ACCCAACACATTAGGGCACGATTCCACAAATTGCCAAATATCA
12549791 AATCTCGTCT
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 41 0.44
129 3 0.03
130 49 0.53
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (130 bp):
TTTTAAAAGACATGAATGAAAACTTGAAGGGATATTCGATTATTTTAAACAAATGCGAAATTGCA
ACCCAACACATTAGGGCACGATTCCACAAATTGCCAAATATCACGTATCGCATTCGTTTAAGGGA
Found at i:12551455 original size:18 final size:19
Alignment explanation
Indices: 12551421--12551461 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
12551411 AAATAAGTAA
12551421 ATAGATATATAGTTACATAT
1 ATAGATATATAG-TACATAT
12551441 ATAGATATATA-TACATAT
1 ATAGATATATAGTACATAT
12551459 ATA
1 ATA
12551462 CGAATGAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (19 bp):
ATAGATATATAGTACATAT
Found at i:12553093 original size:31 final size:32
Alignment explanation
Indices: 12553009--12553093 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 32
12552999 ATATTACATG
* *
12553009 TACTGTCCTAGTGGACTATCTCTATTTTGTGTT
1 TACTGTCCCAATGGACTATCTC-ATTTTGTGTT
* * * *
12553042 GATTGTCCCAACGGATTATCTC-TTTTGTGTT
1 TACTGTCCCAATGGACTATCTCATTTTGTGTT
*
12553073 TACTGTCCCATTGGACTATCT
1 TACTGTCCCAATGGACTATCT
12553094 TTGTTTTGTG
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 25 0.61
33 16 0.39
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (32 bp):
TACTGTCCCAATGGACTATCTCATTTTGTGTT
Found at i:12556692 original size:11 final size:11
Alignment explanation
Indices: 12556678--12556717 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
12556668 AAAATATCTT
12556678 AAAAATTAT-A
1 AAAAATTATAA
12556688 AAAAA-TATAA
1 AAAAATTATAA
12556698 AAAAATTCA-AA
1 AAAAATT-ATAA
12556709 AAAAATTAT
1 AAAAATTAT
12556718 TTACTCCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.12
10 12 0.46
11 10 0.38
12 1 0.04
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:12557577 original size:30 final size:30
Alignment explanation
Indices: 12557543--12557601 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
12557533 TCCTTTTGCA
*
12557543 CCACCACCACCGCACTTA-TATGGTGCACCC
1 CCACCACCACCGC-CTTACTATGCTGCACCC
*
12557573 CCACCACCTCCGCCTTACTATGCTGCACC
1 CCACCACCACCGCCTTACTATGCTGCACC
12557602 TCCTCCTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.20, C:0.49, G:0.12, T:0.19
Consensus pattern (30 bp):
CCACCACCACCGCCTTACTATGCTGCACCC
Found at i:12559955 original size:17 final size:17
Alignment explanation
Indices: 12559933--12559968 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12559923 GTAGTATGTA
12559933 GTGTCATTCACAACATT
1 GTGTCATTCACAACATT
12559950 GTGTCATTCACAACATT
1 GTGTCATTCACAACATT
12559967 GT
1 GT
12559969 AAGTCATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (17 bp):
GTGTCATTCACAACATT
Found at i:12562616 original size:22 final size:22
Alignment explanation
Indices: 12562574--12562616 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12562564 ATTGAAAAAA
*
12562574 ATATATTTATAATTGATATTTT
1 ATATATTTATAATTGAAATTTT
12562596 ATATATTTTATAATT-AAATTT
1 ATATA-TTTATAATTGAAATTT
12562617 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATATTTATAATTGAAATTTT
Found at i:12563047 original size:7 final size:7
Alignment explanation
Indices: 12563007--12563056 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
12562997 ATTTTTTTTA
12563007 TTATATT
1 TTATATT
*
12563014 TTAGATT
1 TTATATT
*
12563021 TTATAAT
1 TTATATT
12563028 TT-T-TT
1 TTATATT
**
12563033 GAATATT
1 TTATATT
12563040 TTATATT
1 TTATATT
12563047 TTATATT
1 TTATATT
12563054 TTA
1 TTA
12563057 AATGTAAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
5 1 0.03
6 2 0.06
7 30 0.91
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (7 bp):
TTATATT
Found at i:12567640 original size:179 final size:179
Alignment explanation
Indices: 12567308--12567666 Score: 497
Period size: 179 Copynumber: 2.0 Consensus size: 179
12567298 AAATAATTAT
*
12567308 AGTACATTTAGTATACTTAATTATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTTAATC
1 AGTACATTTAGTATACTTAATTATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTAAATC
* * ** * *
12567373 TAATTTTTTTTAATAAAATATCGTACATATTGTATGTGTTATTATTAATTAATTTTAAACCTCAC
66 TAAATTTTTTTAACAAAATATCGTACATATTACACGTGTTATTATTAATTAATTTCAAACCTCAC
* * * *
12567438 GTTTTTATTGTTTATCATATGTTATATTCAAATGCACACATGTATTCTA
131 ATTTTAATTATTTATCATATGTTATATTCAAATGCACACAAGTATTCTA
** *
12567487 AGTACATTTAGTATTTTTAATATAATGTATTTGCGTGTTT-AATTT-TTTTTACTAACAATTAAA
1 AGTACATTTAGTATACTTAAT-T-ATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTAAA
* * * *
12567550 TCTAAATTTTTTTAACAAAATATTGTACATATTACACGTGTTGTTATTAATTTATTTCAAACCTT
64 TCTAAATTTTTTTAACAAAATATCGTACATATTACACGTGTTATTATTAATTAATTTCAAACCTC
** *
12567615 ACATTTTAATTATTTATTGTATGTTATATTCAAATGTACACAAGTATTCTA
129 ACATTTTAATTATTTATCATATGTTATATTCAAATGCACACAAGTATTCTA
12567666 A
1 A
12567667 ATATATGATT
Statistics
Matches: 157, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
179 136 0.87
180 6 0.04
181 15 0.10
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (179 bp):
AGTACATTTAGTATACTTAATTATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTAAATC
TAAATTTTTTTAACAAAATATCGTACATATTACACGTGTTATTATTAATTAATTTCAAACCTCAC
ATTTTAATTATTTATCATATGTTATATTCAAATGCACACAAGTATTCTA
Found at i:12572225 original size:21 final size:19
Alignment explanation
Indices: 12572201--12572241 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
12572191 AAAAAAACTT
12572201 AATATAAATAAAATATATGAA
1 AATATAAAT--AATATATGAA
*
12572222 AATATTAATAATATATGAA
1 AATATAAATAATATATGAA
12572241 A
1 A
12572242 GTGTTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATATAAATAATATATGAA
Found at i:12573923 original size:44 final size:44
Alignment explanation
Indices: 12573787--12574202 Score: 221
Period size: 44 Copynumber: 9.5 Consensus size: 44
12573777 GCCTGTTTCC
* * *
12573787 CTACTGCTTAGGGGGATAAGGCTCACCGTCTTTGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTTACCGTCTTCGATCTGCTCCA
** * ** * * * **
12573831 CTGTTGCTTAGGGAGATAAGATCTATA-ATTTTTGGCT-TATTTCC-
1 CTACTGCTTAGGGAGATAAG-GCT-TACCGTCTTCGATCT-GCTCCA
*
12573875 CTACTGCTTAGGGGGATAAGGCTTACCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTTACCGTCTTCGATCTGCTCCA
* * * * * *
12573919 CTACTGCTTAGGGAGATAAGATCTGTA--ATTTTC-AGCCTGTTTTC-
1 CTACTGCTTAGGGAGATAAG-GCT-TACCGTCTTCGA-TCTG-CTCCA
*
12573963 CTACTGCTTTAGGG-GATAAGGCTCACCGTCTTCGATCTGCTCCA
1 CTACTGC-TTAGGGAGATAAGGCTTACCGTCTTCGATCTGCTCCA
* ** **** * * *
12574007 CTATTGCTTAGGGAGATAAGATTTGTAAT-TTCCAGCTTGTTTCC-
1 CTACTGCTTAGGGAGATAAGGCTTACCGTCTTCGATC-TG-CTCCA
* * *
12574051 CTACTGCTTAGGGGGATAAGGCTCACTGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTTACCGTCTTCGATCTGCTCCA
* * * * *
12574095 CTACTGCTTAGGGAGATAAGATCTGTA--AT-TTCTAGCCTGTTTCC-
1 CTACTGCTTAGGGAGATAAG-GCT-TACCGTCTTCGA-TCTG-CTCCA
* * * *
12574139 CTATTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTACTCCA
1 CTACTGCTTAGGGAGATAAGGCTTACCGTCTTCGATCTGCTCCA
12574183 CTACTGCTTAGGGAGATAAG
1 CTACTGCTTAGGGAGATAAG
12574203 ATCTGTAATC
Statistics
Matches: 266, Mismatches: 78, Indels: 56
0.67 0.19 0.14
Matches are distributed among these distances:
42 4 0.02
43 38 0.14
44 182 0.68
45 38 0.14
46 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGGCTTACCGTCTTCGATCTGCTCCA
Found at i:12573931 original size:88 final size:88
Alignment explanation
Indices: 12573766--12574688 Score: 1190
Period size: 88 Copynumber: 10.5 Consensus size: 88
12573756 GCTTATGATT
* * *
12573766 TGTAATCTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTTGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
**
12573831 CTGTTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* ** * * * *
12573854 TATAATTTTTGGCTTATTTCCCTACTGCTTAGGGGGATAAGGCTTACCGTCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
12573919 CTACTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* *
12573942 TGTAATTTTCAGCCTGTTTTCCTACTGCTTTA-GGGGATAAGGCTCACCGTCTTCGATCTGCTCC
1 TGTAATTTTCAGCCTGTTTCCCTACTGC-TTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCC
* *
12574006 ACTATTGCTTAGGGAGATAAGATT
65 ACTACTGCTTAGGGAGATAAGATC
* * * *
12574030 TGTAATTTCCAGCTTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACTGTCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
12574095 CTACTGCTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * *
12574118 TGTAA-TTTCTAGCCTGTTTCCCTATTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTACTCC
1 TGTAATTTTC-AGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCC
12574182 ACTACTGCTTAGGGAGATAAGATC
65 ACTACTGCTTAGGGAGATAAGATC
* * * * * *
12574206 TGTAATCTTCAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACTGTTTTCGAT-TCGCTTC
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCT-GCTCC
* *
12574270 ACTACTGCTCAGGGAGATAAGATA
65 ACTACTGCTTAGGGAGATAAGATC
* * * * * * *
12574294 TGTAATCTTCAGCCTGTTTCCCTACTGTTTAGGAGGTTAAGGCTCACCGTTTTTGATCCGCTTCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
*
12574359 CTACTGCTTAGGGAAATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * * * * *
12574382 TGTAATTTTCAGCCTGTTTCCCTACTACTTA-GGGGTTAAAGCTTATCGCCTTCGAT-TCACTCC
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCT-GCTCC
* * *
12574445 ATTACTGCTCAGAGAGATAAGATC
65 ACTACTGCTTAGGGAGATAAGATC
* * * * ** *
12574469 TGTAATCTTCAGCCTGTTTCCCTACTACTTAGGGGGTTAAGGCTCACCGTTTTCAATCCACTTCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
* **
12574534 CTACTACTTATAGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * * *
12574557 TGTAATTTCCAGCCTGTTTCCCTACTACTTAGGGGGTTAAGGCTCACCATCTTCGATCTACTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
*
12574622 CTACTGCTTATGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* *
12574645 TGTAATTTCCAGCCTGTTTCCCTACTGCTTAGGTGGTTAAGGCT
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCT
12574689 AGTGGAGGTT
Statistics
Matches: 734, Mismatches: 92, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
87 78 0.11
88 650 0.89
89 6 0.01
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (88 bp):
TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
CTACTGCTTAGGGAGATAAGATC
Found at i:12574231 original size:44 final size:44
Alignment explanation
Indices: 12573835--12574677 Score: 229
Period size: 44 Copynumber: 19.2 Consensus size: 44
12573825 GCTCCACTGT
* * ** * *
12573835 TGCTTAGGGAGATAAGATCTATAATTTTTGGCTTATTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTTCCCTAC
* * * * *
12573879 TGCTTAGGGGGATAAG-GCT-TACCGTCTTC-GATCTG-CTCCACTAC
1 TGCTTAGGGAGATAAGATCTGTA--ATCTTCAG-CCTGTTTCC-CTAC
* *
12573923 TGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTTCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTTCCCTAC
* * * * * *
12573967 TGCTTTAGGG-GATAAG-GCT-CACCGTCTTC-GATCTG-CTCCACTAT
1 TGC-TTAGGGAGATAAGATCTGTA--ATCTTCAG-CCTGTTTCC-CTAC
* *
12574011 TGCTTAGGGAGATAAGATTTGTAAT-TTCCAGCTTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTT-CAGCCTGTTTCCCTAC
* * ** * * *
12574055 TGCTTAGGGGGATAAGGCTCACT-GTCTTC-GATCTG-CTCCACTAC
1 TGCTTAGGGAGATAA-GATCTGTAATCTTCAG-CCTGTTTCC-CTAC
*
12574099 TGCTTAGGGAGATAAGATCTGTAAT-TTCTAGCCTGTTTCCCTAT
1 TGCTTAGGGAGATAAGATCTGTAATCTTC-AGCCTGTTTCCCTAC
* * * * * **
12574143 TGCTTAGGGGGATAAG-GCT-CACCGTCTTC-GATCT-ACTCCACTAC
1 TGCTTAGGGAGATAAGATCTGTA--ATCTTCAG-CCTGTTTCC-CTAC
* *
12574187 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTATTTTCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTTCCCTAC
* * * ** * *
12574231 TGCTTAGGGGGTTAAGGCTCACTGT--T-TTC-GATTCGCTTCACTAC
1 TGCTTAGGGAGATAA-GAT--CTGTAATCTTCAGCCT-GTTTCCCTAC
* *
12574275 TGCTCAGGGAGATAAGATATGTAATCTTCAGCCTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTTCCCTAC
* * * * * * * * *
12574319 TGTTTA-GGAGGTTAAGGCTCACCGT--TTTTGATCC-GCTTCACTAC
1 TGCTTAGGGA-GATAA-GAT--CTGTAATCTTCAGCCTGTTTCCCTAC
* *
12574363 TGCTTAGGGAAATAAGATCTGTAATTTTCAGCCTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTTCCCTAC
* * * ** *** *
12574407 TACTTAGGG-GTTAA-AGCT-T-ATCGCCTTC-GATTCACTCCATTAC
1 TGCTTAGGGAGATAAGATCTGTAAT---CTTCAGCCTGTTTCC-CTAC
* *
12574450 TGCTCAGAGAGATAAGATCTGTAATCTTCAGCCTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTTCCCTAC
* * * * * * ** *
12574494 TACTTAGGGGGTTAAGGCTCACCGT--T-TTCAATCC-ACTTCACTAC
1 TGCTTAGGGAGATAA-GAT--CTGTAATCTTC-AGCCTGTTTCCCTAC
* **
12574538 TACTTATAGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTT-CAGCCTGTTTCCCTAC
* * * * * * **
12574582 TACTTAGGGGGTTAAG-GCT-CACCATCTTC-GATCT-ACTCCACTAC
1 TGCTTAGGGAGATAAGATCTGTA--ATCTTCAG-CCTGTTTCC-CTAC
*
12574626 TGCTTATGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTCCCTAC
1 TGCTTAGGGAGATAAGATCTGTAATCTT-CAGCCTGTTTCCCTAC
12574670 TGCTTAGG
1 TGCTTAGG
12574678 TGGTTAAGGC
Statistics
Matches: 555, Mismatches: 165, Indels: 158
0.63 0.19 0.18
Matches are distributed among these distances:
40 2 0.00
41 10 0.02
42 13 0.02
43 84 0.15
44 358 0.65
45 71 0.13
46 6 0.01
47 11 0.02
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (44 bp):
TGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTTCCCTAC
Found at i:12586733 original size:21 final size:19
Alignment explanation
Indices: 12586709--12586749 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
12586699 AAAAAAGCTT
12586709 AATATAAATAAAATATATGAA
1 AATATAAAT--AATATATGAA
*
12586730 AATATTAATAATATATGAA
1 AATATAAATAATATATGAA
12586749 A
1 A
12586750 GTGTTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATATAAATAATATATGAA
Found at i:12596229 original size:45 final size:45
Alignment explanation
Indices: 12595755--12596354 Score: 232
Period size: 45 Copynumber: 13.6 Consensus size: 45
12595745 TGATGGCTTA
* *
12595755 AATCTGCTTCACTGCAACTTCA-AGAAGCTAAGATTCGTCGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAA-CTAAGATTCGTCGTCTTC
* ** ** *
12595800 GATCTGCTCCACTATAACTTCAGGGAAAC-AAGA-TC-TAAAAT-TTT
1 AATCTGCTCCACTGCAACTTCAGGG-AACTAAGATTCGT--CGTCTTC
* * * * * * * * * *
12595844 AACCTACTCCACTACAACTTTAGAGAGCT-AGGTTAGT-GACTTA
1 AATCTGCTCCACTGCAACTTCAGGGAACTAAGATTCGTCGTCTTC
*
12595887 AATCTGCTTCACTGCAACTTCA-GGAAGCTAAGATTCGTCGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAA-CTAAGATTCGTCGTCTTC
* **
12595932 GATCTGCTCCACTGCAACTTCAGGGAAAC-AAGA-TC-TAAAAT-TTC
1 AATCTGCTCCACTGCAACTTCAGGG-AACTAAGATTCGT--CGTCTTC
* * * ** * * * *
12595976 AACCTACTCCACTACAACTTTTGGGAGCT-AGGTTAGT--TACTTA
1 AATCTGCTCCACTGCAACTTCAGGGAACTAAGATTCGTCGT-CTTC
* * *
12596019 AATCTGCTTCACTGCAACTTC-CGGAAGCCAAGATTCGTCGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAA-CTAAGATTCGTCGTCTTC
* **
12596064 AATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TC-TAAAAT-TTC
1 AATCTGCTCCACTGCAACTTCAGGGAACTAAGATTCGT--CGTCTTC
* * * * * * * *
12596108 AACCTACTCCACTACAACTTTAGGGAGCT-AGGTTGGT-GGCTT-
1 AATCTGCTCCACTGCAACTTCAGGGAACTAAGATTCGTCGTCTTC
* * *
12596150 AAGTCTGCTTCACTACAACTTCA-GGAAGCCAAGATTCGTCGTCTTC
1 AA-TCTGCTCCACTGCAACTTCAGGGAA-CTAAGATTCGTCGTCTTC
* * **
12596196 GATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TC-TAAAAT-TTC
1 AATCTGCTCCACTGCAACTTCAGGGAACTAAGATTCGT--CGTCTTC
* * * * * * * * *
12596240 AACCTACTCCACTACAACTTTAGGGAGCT-AGGTTGGT-GGCTTA
1 AATCTGCTCCACTGCAACTTCAGGGAACTAAGATTCGTCGTCTTC
* ** * *
12596283 AATCTACTTTACTGCAACTTCA-GGAAGCTCAGATTCGCCGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAA-CTAAGATTCGTCGTCTTC
* *
12596328 GATCTGCTTCACTGCAACTTCAGGGAA
1 AATCTGCTCCACTGCAACTTCAGGGAA
12596355 ACAAGATCTA
Statistics
Matches: 396, Mismatches: 114, Indels: 89
0.66 0.19 0.15
Matches are distributed among these distances:
41 1 0.00
42 13 0.03
43 96 0.24
44 129 0.33
45 134 0.34
46 19 0.05
47 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAACTAAGATTCGTCGTCTTC
Found at i:12596519 original size:132 final size:132
Alignment explanation
Indices: 12595718--12596495 Score: 1209
Period size: 132 Copynumber: 5.9 Consensus size: 132
12595708 TTTGATTTTG
* * * *
12595718 CTCCACTACAACTTTAGGGAACTAGGGT-GATGGCTTAAATCTGCTTCACTGCAACTTCAAGAAG
1 CTCCACTACAACTTTAGGGAGCTAGGTTAG-TGACTTAAATCTGCTTCACTGCAACTTCAGGAAG
* ** *
12595782 CTAAGATTCGTCGTCTTCGATCTGCTCCACTATAACTTCAGGGAAACAAGATCTAAAATTTTAAC
65 CCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAAC
12595847 CTA
130 CTA
*
12595850 CTCCACTACAACTTTAGAGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGC
1 CTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGC
*
12595915 TAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACC
66 CAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACC
12595980 TA
131 TA
* * *
12595982 CTCCACTACAACTTTTGGGAGCTAGGTTAGTTACTTAAATCTGCTTCACTGCAACTTCCGGAAGC
1 CTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGC
* *
12596047 CAAGATTCGTCGTCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATCTAAAATTTCAACC
66 CAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACC
12596112 TA
131 TA
* * * *
12596114 CTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAGTCTGCTTCACTACAACTTCAGGAAGC
1 CTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGC
*
12596179 CAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAATAAGATCTAAAATTTCAACC
66 CAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACC
12596244 TA
131 TA
* * * *
12596246 CTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTTACTGCAACTTCAGGAAGC
1 CTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGC
* * * *
12596311 TC-AGATTCGCCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAGATCTAAAATTTTAGC
66 -CAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAAC
12596375 CTA
130 CTA
*
12596378 CTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTACTTCACTGCAACTTCAGGAAGC
1 CTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGC
* * * * * *
12596443 CAAGATTCATCGCCTTTGATCTGCTCCACTGTAACTTTAGGGAAACAGGATCT
66 CAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCT
12596496 GTGGGATTCA
Statistics
Matches: 600, Mismatches: 43, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 597 1.00
133 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (132 bp):
CTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGGAAGC
CAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTCAACC
TA
Done.