Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 50 of 89
Found at i:11172988 original size:32 final size:32
Alignment explanation
Indices: 11172887--11172987 Score: 123
Period size: 32 Copynumber: 3.2 Consensus size: 32
11172877 ATTCCCAAAG
* * *
11172887 ATGCCCCAATATTCGATGTTGAATC-TAAAAA
1 ATGCCCCAACATTTGATGTTAAATCTTAAAAA
*
11172918 ATGCCCCAACATTTGATGTTAAATCTAAAAAA
1 ATGCCCCAACATTTGATGTTAAATCTTAAAAA
* * * *
11172950 ATGCCCTAACATTTGATGTTCAATCTTCAAAG
1 ATGCCCCAACATTTGATGTTAAATCTTAAAAA
11172982 ATGCCC
1 ATGCCC
11172988 TCATTGTTCC
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
31 22 0.37
32 38 0.63
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTAAATCTTAAAAA
Found at i:11174022 original size:69 final size:69
Alignment explanation
Indices: 11173906--11174043 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 69
11173896 TGTCTCTCTC
* * * * * *
11173906 TTGATGCTCTATTATCTTTGAATGGAGTGATTCTGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAATGAAATGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
11173971 TCAT
66 TCAT
* *
11173975 TTGATGCTCTATGATCTTCGAGTGAAATGGTTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAATGAAATGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
11174040 TCAT
66 TCAT
11174044 AGTTTGAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAATGAAATGATTCAGTGATTCAAAAATGATTGTGCTTGATCAATC
TCAT
Found at i:11175762 original size:22 final size:22
Alignment explanation
Indices: 11175745--11175811 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
11175735 CTCGTATAAA
11175745 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
11175767 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
11175789 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
11175811 T
1 T
11175812 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:11176762 original size:18 final size:18
Alignment explanation
Indices: 11176741--11176775 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11176731 TCCCCTCTAG
11176741 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
11176759 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
11176776 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:11177406 original size:22 final size:21
Alignment explanation
Indices: 11177360--11177402 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11177350 TTCATATTCG
* *
11177360 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
11177381 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
11177402 C
1 C
11177403 CTTGCCCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:11180363 original size:18 final size:18
Alignment explanation
Indices: 11180342--11180389 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
11180332 TATTAATGGA
11180342 GTAAAAAAAATAAAAAAG
1 GTAAAAAAAATAAAAAAG
* *
11180360 GTAAAAGAAATTAAAAAG
1 GTAAAAAAAATAAAAAAG
*
11180378 G-AATAAAAATAA
1 GTAAAAAAAATAA
11180390 TGTGTACATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (18 bp):
GTAAAAAAAATAAAAAAG
Found at i:11180489 original size:34 final size:35
Alignment explanation
Indices: 11180412--11180495 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 35
11180402 AAGTAGTATT
*
11180412 TATTAAAACAAATAAAAATAATAAATATATAATAC
1 TATTAAAACAAATAAAAATAATAAAGATATAATAC
* *
11180447 TAAGTAAAAC-AATTAAAA-AATAAAGATATACATGA-
1 T-ATTAAAACAAATAAAAATAATAAAGATATA-AT-AC
11180482 TATTAAAA-AAATAA
1 TATTAAAACAAATAA
11180496 TAGAAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
34 21 0.52
35 11 0.28
36 8 0.20
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (35 bp):
TATTAAAACAAATAAAAATAATAAAGATATAATAC
Found at i:11180517 original size:22 final size:21
Alignment explanation
Indices: 11180489--11180572 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 21
11180479 TGATATTAAA
11180489 AAAATAATAGAAAAAATAAAAT
1 AAAATAA-AGAAAAAATAAAAT
11180511 AAAATAAAGTAAAAATATAATATAT
1 AAAATAAAG-AAAAA-ATAA-A-AT
*
11180536 ATAAATAAATAAAAACA-AAAAT
1 A-AAATAAAGAAAAA-ATAAAAT
*
11180558 AGAATATTAAGAAAA
1 A-AA-ATAAAGAAAA
11180573 TATATATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
21 2 0.04
22 17 0.33
23 13 0.25
24 3 0.06
25 9 0.18
26 7 0.14
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAATAAAGAAAAAATAAAAT
Found at i:11180526 original size:21 final size:22
Alignment explanation
Indices: 11180489--11180532 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
11180479 TGATATTAAA
11180489 AAAATAATAGAAAAAATAAAAT
1 AAAATAATAGAAAAAATAAAAT
* *
11180511 AAAATAA-AGTAAAAATATAAT
1 AAAATAATAGAAAAAATAAAAT
11180532 A
1 A
11180533 TATATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAATAATAGAAAAAATAAAAT
Found at i:11180690 original size:20 final size:20
Alignment explanation
Indices: 11180665--11180704 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11180655 ATATATATGT
11180665 ATATATATATATAATAAAAATA
1 ATATA-ATATA-AATAAAAATA
11180687 ATATAATATAAATAAAAA
1 ATATAATATAAATAAAAA
11180705 AAGGAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAATATAAATAAAAATA
Found at i:11180712 original size:23 final size:22
Alignment explanation
Indices: 11180664--11180730 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 22
11180654 CATATATATG
* *
11180664 TATATATATATATAATAAAAATAA
1 TATA-ATATAAATAA-AAAAAGAA
11180688 TATAATATAAATAAAAAAAGGAA
1 TATAATATAAATAAAAAAA-GAA
*
11180711 TATAGTGAATAAATAAAAAA
1 TATAAT--ATAAATAAAAAA
11180731 TATAATTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 4 0.11
25 12 0.32
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (22 bp):
TATAATATAAATAAAAAAAGAA
Found at i:11184239 original size:30 final size:32
Alignment explanation
Indices: 11184205--11184270 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
11184195 ATAAGCCTTA
* *
11184205 GAAAAATTTAAG-GACC-ATTTGGTAATTTTT
1 GAAAAAGTTAAGAGACCAATTTGGTAATTTTG
*
11184235 G-AAAAGTTGAGAGACCAATTTGGTAATTTTG
1 GAAAAAGTTAAGAGACCAATTTGGTAATTTTG
11184266 GAAAA
1 GAAAA
11184271 GTAGTGGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 8 0.27
30 5 0.17
31 14 0.47
32 3 0.10
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.33
Consensus pattern (32 bp):
GAAAAAGTTAAGAGACCAATTTGGTAATTTTG
Found at i:11185786 original size:24 final size:24
Alignment explanation
Indices: 11185753--11185804 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11185743 TCACTGTTTA
11185753 TTATAAATGATGTTTATCATGAAT
1 TTATAAATGATGTTTATCATGAAT
* **
11185777 TTATATATGATGTTTATTGTGAAT
1 TTATAAATGATGTTTATCATGAAT
11185801 TTAT
1 TTAT
11185805 TTTGGGTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (24 bp):
TTATAAATGATGTTTATCATGAAT
Found at i:11186664 original size:22 final size:22
Alignment explanation
Indices: 11186636--11186686 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
11186626 TTTTGAAAAA
11186636 TTACTCCCCCTTACTACAACAC
1 TTACTCCCCCTTACTACAACAC
11186658 TTACTCCCCCTTACTACAACAC
1 TTACTCCCCCTTACTACAACAC
11186680 TT-CTCCC
1 TTACTCCC
11186687 TTTTAACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (22 bp):
TTACTCCCCCTTACTACAACAC
Found at i:11186992 original size:17 final size:17
Alignment explanation
Indices: 11186970--11187010 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
11186960 ATCCAAACCA
11186970 GAACAAATTCAAACATT
1 GAACAAATTCAAACATT
11186987 GAACAAATTCAAACATT
1 GAACAAATTCAAACATT
*
11187004 TAACAAA
1 GAACAAA
11187011 CCAAAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.56, C:0.17, G:0.05, T:0.22
Consensus pattern (17 bp):
GAACAAATTCAAACATT
Found at i:11188972 original size:20 final size:20
Alignment explanation
Indices: 11188944--11188995 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
11188934 ACCCGATGGA
11188944 TGCATCGATGTATGGCCTTG
1 TGCATCGATGTATGGCCTTG
* *
11188964 TGTATCGATGCATGGCCTTG
1 TGCATCGATGTATGGCCTTG
11188984 TGCATCGATGTA
1 TGCATCGATGTA
11188996 CATTCAAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (20 bp):
TGCATCGATGTATGGCCTTG
Found at i:11189078 original size:20 final size:20
Alignment explanation
Indices: 11189026--11189101 Score: 100
Period size: 20 Copynumber: 3.7 Consensus size: 20
11189016 GCACCTTCAT
11189026 GGTGTATCGATGCA-TATTCAA
1 GGTGTATCGATGCACTATT--A
*
11189047 GGATGCATCGATGCACTATTA
1 GG-TGTATCGATGCACTATTA
*
11189068 GGTGTATCGATGCACTGTTA
1 GGTGTATCGATGCACTATTA
11189088 GGTGTATCGATGCA
1 GGTGTATCGATGCA
11189102 AGAAGCACAA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
20 30 0.60
21 5 0.10
22 11 0.22
23 4 0.08
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (20 bp):
GGTGTATCGATGCACTATTA
Found at i:11194439 original size:21 final size:21
Alignment explanation
Indices: 11194413--11194468 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
11194403 GGGAGCGTCA
11194413 GTGCATCGATGCATACCCATG
1 GTGCATCGATGCATACCCATG
11194434 GTGCATCGATGCATACCCATG
1 GTGCATCGATGCATACCCATG
*
11194455 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
11194469 CAGTGTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (21 bp):
GTGCATCGATGCATACCCATG
Found at i:11194724 original size:65 final size:64
Alignment explanation
Indices: 11194526--11194735 Score: 209
Period size: 65 Copynumber: 3.2 Consensus size: 64
11194516 TGCACTAAGA
* * * *
11194526 GTGCATTGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCAT-GAC
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGAT
11194588 TG
63 TG
*
11194590 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGG-TA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGAT-
11194654 T-
63 TG
* **
11194655 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGGAT
11194718 TG
63 TG
*
11194720 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
11194736 CTCTAAAAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 21
0.79 0.07 0.13
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 48 0.39
65 63 0.51
66 6 0.05
67 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGATTG
Found at i:11196037 original size:15 final size:16
Alignment explanation
Indices: 11196006--11196039 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
11195996 TCGGAGTAAC
11196006 AATCTGAGATGAAATCA
1 AATCTGAGA-GAAATCA
11196023 AATCTGAGA-AAATCA
1 AATCTGAGAGAAATCA
11196038 AA
1 AA
11196040 CAAAGAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.21
Consensus pattern (16 bp):
AATCTGAGAGAAATCA
Found at i:11198613 original size:49 final size:49
Alignment explanation
Indices: 11198538--11198680 Score: 180
Period size: 49 Copynumber: 2.9 Consensus size: 49
11198528 CGAAGGTGCT
** *
11198538 AAAGTTAAATCTATAAC-GATGAATTTCGGCATAAAAGGTGCCACTAATA
1 AAAGTTAAATGAATAACAG-TGCATTTCGGCATAAAAGGTGCCACTAATA
** * * *
11198587 AAAGTTAAATGAATAATGGTGCATTTCAGAATAAAAGGTGCCACTAATG
1 AAAGTTAAATGAATAACAGTGCATTTCGGCATAAAAGGTGCCACTAATA
* *
11198636 AAAGTTAAATGCATAACAGTGCATTTCGGCATTAAAGGTGCCACT
1 AAAGTTAAATGAATAACAGTGCATTTCGGCATAAAAGGTGCCACT
11198681 CATGGTATTC
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 79 0.99
50 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (49 bp):
AAAGTTAAATGAATAACAGTGCATTTCGGCATAAAAGGTGCCACTAATA
Found at i:11204949 original size:20 final size:22
Alignment explanation
Indices: 11204923--11204978 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
11204913 ATTGAGCATT
*
11204923 AGTATCGATACTA-AGAA-A-A
1 AGTATCGATACCATAGAATAGA
11204942 AGGTATCGATACCATAGAATAGA
1 A-GTATCGATACCATAGAATAGA
11204965 AGTATCGATACCAT
1 AGTATCGATACCAT
11204979 GGTAGGGGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 1 0.03
20 11 0.34
21 4 0.12
22 14 0.44
23 2 0.06
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (22 bp):
AGTATCGATACCATAGAATAGA
Found at i:11213999 original size:17 final size:16
Alignment explanation
Indices: 11213955--11213995 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
11213945 TATTCACATA
*
11213955 AATAGTGAATTTCATG
1 AATAGTAAATTTCATG
*
11213971 AATAGTAAATTTCGTG
1 AATAGTAAATTTCATG
11213987 AATAGTAAA
1 AATAGTAAA
11213996 ATTTTGTCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (16 bp):
AATAGTAAATTTCATG
Found at i:11218867 original size:27 final size:24
Alignment explanation
Indices: 11218829--11218895 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 24
11218819 AAAAAAAAAT
11218829 TCCAGATAAGTTTACCTCACCATCTTC
1 TCCAGATAAGTTTACCT--CCA-CTTC
11218856 TCCAGATAAGTTTA-CT-CACTTC
1 TCCAGATAAGTTTACCTCCACTTC
*
11218878 TCCGGATAAGTTTACCTC
1 TCCAGATAAGTTTACCTC
11218896 GTAATTTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 17 0.46
23 4 0.11
26 2 0.05
27 14 0.38
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.34
Consensus pattern (24 bp):
TCCAGATAAGTTTACCTCCACTTC
Found at i:11226289 original size:34 final size:36
Alignment explanation
Indices: 11226245--11226346 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
11226235 TTTCGTCCTA
11226245 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
11226280 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
11226315 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
11226347 GTTATACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:11226776 original size:18 final size:17
Alignment explanation
Indices: 11226737--11226779 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
11226727 ATTATATGGA
11226737 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
11226753 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
11226771 TATTATTAT
1 TATTATTAT
11226780 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:11227290 original size:2 final size:2
Alignment explanation
Indices: 11227283--11227318 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11227273 TAATACTTTG
11227283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11227319 TTATTTTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11234701 original size:60 final size:60
Alignment explanation
Indices: 11234608--11234722 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
11234598 ATACTCGGGT
* ** * *
11234608 GACCATTTTTTAACTTTTAATAGTTGAGGGACTCAACAAAACAACGTTCTATAATTGAAG
1 GACCATTTTATAACTTTTAATAGTCAAGAGACTCAACAAAACAACATTCTATAATTGAAG
* * * *
11234668 GACCATTTTATAACTTTTCATAGTCAAGAGACTCAATAAAATAATATTCTATAAT
1 GACCATTTTATAACTTTTAATAGTCAAGAGACTCAACAAAACAACATTCTATAAT
11234723 CGGGATCATT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAATAGTCAAGAGACTCAACAAAACAACATTCTATAATTGAAG
Found at i:11244938 original size:34 final size:32
Alignment explanation
Indices: 11244885--11244954 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
11244875 CCTTACAAAC
*
11244885 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
11244917 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
11244951 TCCC
1 TCCC
11244955 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:11245194 original size:20 final size:22
Alignment explanation
Indices: 11245169--11245208 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11245159 AGTCGTATAT
11245169 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
11245189 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
11245209 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:11245262 original size:21 final size:21
Alignment explanation
Indices: 11245237--11245278 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11245227 CCAGAATGGG
*
11245237 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
11245258 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
11245279 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:11245489 original size:29 final size:31
Alignment explanation
Indices: 11245457--11245516 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
11245447 AAATTTTGAA
*
11245457 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
11245486 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
11245517 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAATCATTTTG
Found at i:11259418 original size:23 final size:23
Alignment explanation
Indices: 11259392--11259436 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11259382 GACATTATAT
*
11259392 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTATACGC
* *
11259415 GGCACTTCGGTGTATTTATACG
1 GGCACTACGGTGCATTTATACG
11259437 AGCTGTTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (23 bp):
GGCACTACGGTGCATTTATACGC
Found at i:11264462 original size:23 final size:23
Alignment explanation
Indices: 11264436--11264526 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 23
11264426 GACATTATAT
*
11264436 GGCACTACGGTGCATTTCTATGC
1 GGCACTACGGTGCATTTCTACGC
* * *
11264459 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
*
11264482 GGCACTACGGTGCATTTCTACAC
1 GGCACTACGGTGCATTTCTACGC
* *
11264505 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
11264527 AGCTGTGGTG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:11268491 original size:35 final size:35
Alignment explanation
Indices: 11268445--11268518 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
11268435 CCGAAAAATC
*
11268445 TGATTTCTTCTCGTATATTTTCCAAAATTAATTGT
1 TGATTTCTTCTCGTATATTTTCCAAAATGAATTGT
* *
11268480 TGATTTCTTCTCGTATTTTTTCCAAAATGGATTGT
1 TGATTTCTTCTCGTATATTTTCCAAAATGAATTGT
11268515 TGAT
1 TGAT
11268519 CAACGGTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.51
Consensus pattern (35 bp):
TGATTTCTTCTCGTATATTTTCCAAAATGAATTGT
Found at i:11279986 original size:3 final size:3
Alignment explanation
Indices: 11279980--11280017 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11279970 TTCAGCCTTT
11279980 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
11280018 TTTTGGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:11291155 original size:19 final size:21
Alignment explanation
Indices: 11291127--11291180 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
11291117 GCAAAAATGA
*
11291127 TATCAATACCATA-ATAG-AG
1 TATCGATACCATACATAGTAG
*
11291146 TATCGGTACCATAACATAGTAG
1 TATCGATACCAT-ACATAGTAG
11291168 TATCGATACCATA
1 TATCGATACCATA
11291181 GTAAGGGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 10 0.34
20 1 0.03
21 5 0.17
22 13 0.45
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (21 bp):
TATCGATACCATACATAGTAG
Found at i:11291612 original size:55 final size:55
Alignment explanation
Indices: 11291528--11291807 Score: 349
Period size: 55 Copynumber: 5.2 Consensus size: 55
11291518 TACTACATGA
* * *
11291528 ACTATGTATATAAATCCAAGGAATTCATCATGAGTTGATGAATAACCGTATAGGC
1 ACTATGTGTGTAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGC
* *
11291583 ACTATATGTGTAAATCCACGGAATTCATCATGAGTTGATGAATAACCATATAGGC
1 ACTATGTGTGTAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGC
* * * *
11291638 ACAATGTGT-TCAAATCCAC-AAATTCATCATGAGTTGATGAATAATCGTACAGGC
1 ACTATGTGTGT-AAATCCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGC
* * * *
11291692 ACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGGTGAATAACCGTACAGGC
1 ACTATGTGTGTAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGC
* * *
11291747 ACTATGTGTG-CAACCCAAGGAATTCATC---AGTTGATGAACT-ACCGTATAGGC
1 ACTATGTGTGTAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTATAGGC
11291798 ACTATGTGTG
1 ACTATGTGTG
11291808 CATCTTAATA
Statistics
Matches: 199, Mismatches: 22, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
51 29 0.15
52 1 0.01
54 62 0.31
55 107 0.54
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (55 bp):
ACTATGTGTGTAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTATAGGC
Found at i:11291747 original size:109 final size:108
Alignment explanation
Indices: 11291543--11291809 Score: 355
Period size: 109 Copynumber: 2.5 Consensus size: 108
11291533 GTATATAAAT
* * *
11291543 CCAAGGAATTCATCATGAGTTGATGAATAACCGTATAGGCACTATATGTGTAAATCCACGGAATT
1 CCAA-GAATTCATCATGAGTTGATGAATAACCGTATAGGCACTATGTGTGCAAATCCACAGAATT
* * *
11291608 CATCATGAGTTGATGAATAACCATATAGGCACAATGTGTTCAAAT
65 CATCATGAGTTGATGAATAACCATACAGGCACAATGTGTGC-AAC
* *
11291653 CCACA-AATTCATCATGAGTTGATGAATAATCGTACAGGCACTATGTGTGCAAATCCACAGAATT
1 CCA-AGAATTCATCATGAGTTGATGAATAACCGTATAGGCACTATGTGTGCAAATCCACAGAATT
* * *
11291717 CATCATGAGTTGGTGAATAACCGTACAGGCACTATGTGTGCAAC
65 CATCATGAGTTGATGAATAACCATACAGGCACAATGTGTGCAAC
11291761 CCAAGGAATTCATC---AGTTGATGAACT-ACCGTATAGGCACTATGTGTGCA
1 CCAA-GAATTCATCATGAGTTGATGAA-TAACCGTATAGGCACTATGTGTGCA
11291810 TCTTAATAAA
Statistics
Matches: 140, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
106 31 0.22
107 2 0.01
108 5 0.04
109 98 0.70
110 3 0.02
111 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (108 bp):
CCAAGAATTCATCATGAGTTGATGAATAACCGTATAGGCACTATGTGTGCAAATCCACAGAATTC
ATCATGAGTTGATGAATAACCATACAGGCACAATGTGTGCAAC
Found at i:11295685 original size:22 final size:22
Alignment explanation
Indices: 11295660--11295705 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
11295650 CAGCTTTGCA
11295660 ACAACTTTTAGATTAAATTGAC
1 ACAACTTTTAGATTAAATTGAC
11295682 ACAACTTTTAGATTAAATTGAC
1 ACAACTTTTAGATTAAATTGAC
11295704 AC
1 AC
11295706 TTATCACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (22 bp):
ACAACTTTTAGATTAAATTGAC
Found at i:11296028 original size:5 final size:5
Alignment explanation
Indices: 11296018--11296107 Score: 73
Period size: 5 Copynumber: 18.2 Consensus size: 5
11296008 ATAATTAAAT
* * *
11296018 ATATA ATATA ATATA ATAATA GTTTA A-ATA CTATA ATA-A ATATA TATATA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA -ATATA
*
11296068 ATATA A-ATA ATATAA ATATA ATA-A ATA-A TATATT ATATA A
1 ATATA ATATA ATAT-A ATATA ATATA ATATA -ATATA ATATA A
11296108 AACGTAAGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
4 15 0.22
5 40 0.58
6 14 0.20
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:11296030 original size:20 final size:19
Alignment explanation
Indices: 11296005--11296107 Score: 72
Period size: 20 Copynumber: 5.2 Consensus size: 19
11295995 TACAAGATGA
11296005 ATAATAATTAAATATATAAT
1 ATAATAA-TAAATATATAAT
*
11296025 ATAAT-ATAATAATAGTTTAA-
1 ATAATAAT-A-AATA-TATAAT
11296045 ATACTATAATAAATATAT-AT
1 ATA--ATAATAAATATATAAT
11296065 ATAAT-ATAAATAATATAAAT
1 ATAATAATAAAT-ATAT-AAT
*
11296085 ATAATAA-ATAATATATTAT
1 ATAATAATA-AATATATAAT
11296104 ATAA
1 ATAA
11296108 AACGTAAGAT
Statistics
Matches: 68, Mismatches: 3, Indels: 25
0.71 0.03 0.26
Matches are distributed among these distances:
17 6 0.09
18 7 0.10
19 9 0.13
20 29 0.43
21 12 0.18
22 3 0.04
23 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (19 bp):
ATAATAATAAATATATAAT
Found at i:11296036 original size:25 final size:25
Alignment explanation
Indices: 11296005--11296107 Score: 79
Period size: 25 Copynumber: 4.0 Consensus size: 25
11295995 TACAAGATGA
11296005 ATAATAATTAAATATATAATATAAT
1 ATAATAATTAAATATATAATATAAT
11296030 ATAATAATAGTTTAAATACTATAATA-AAT
1 ATAAT-A-A--TTAAATA-TATAATATAAT
*
11296059 AT-AT-ATATAATATAAATAATATAAAT
1 ATAATAAT-TAA-ATATATAATAT-AAT
* *
11296085 ATAATAAAT-AATATATTATATAA
1 ATAATAATTAAATATATAATATAA
11296108 AACGTAAGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 23
0.70 0.04 0.26
Matches are distributed among these distances:
23 1 0.02
24 11 0.17
25 18 0.29
26 7 0.11
27 4 0.06
28 3 0.05
29 12 0.19
30 7 0.11
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (25 bp):
ATAATAATTAAATATATAATATAAT
Found at i:11296100 original size:29 final size:28
Alignment explanation
Indices: 11296004--11296100 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 28
11295994 CTACAAGATG
11296004 AATAATA-ATTAAAT-ATATAATATAATA
1 AATAATATA-TAAATAATATAATATAATA
* *
11296031 TAATAATAGTTTAAATACTATAATA-AATA
1 -AATAATA-TATAAATAATATAATATAATA
*
11296060 TATATATAATATAAATAATATAAATATAATA
1 AATA-AT-ATATAAATAATAT-AATATAATA
11296091 AATAATATAT
1 AATAATATAT
11296101 TATATAAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
28 10 0.18
29 25 0.45
30 14 0.25
31 7 0.12
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (28 bp):
AATAATATATAAATAATATAATATAATA
Found at i:11297435 original size:73 final size:73
Alignment explanation
Indices: 11297343--11297507 Score: 199
Period size: 73 Copynumber: 2.3 Consensus size: 73
11297333 CAAGTAGGAC
* * * * * ** *
11297343 AAAATTTTTCAAAGG-AAATATCTTAAGTGAGATGAAATTTTTGTTTCAAGAGAAACTGTCTCGA
1 AAAAGTTTTCAAGGGAAAATATCTCAAGGGAGATGAAAATTTCATTTCAAGAGAAACTATCTCGA
*
11297407 GTGAGATGG
66 GTGAGA-CG
* * *
11297416 AAAA-TTTTCAAGTGAAAATATCTCAAGGGAGATTAAAATTTCATTTCAAGAGAAATTATCTCGA
1 AAAAGTTTTCAAGGGAAAATATCTCAAGGGAGATGAAAATTTCATTTCAAGAGAAACTATCTCGA
11297480 GTGAGACG
66 GTGAGACG
11297488 AAAAGTTTTCAAGGGAAAAT
1 AAAAGTTTTCAAGGGAAAAT
11297508 GATGTGATCA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
72 13 0.17
73 65 0.83
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (73 bp):
AAAAGTTTTCAAGGGAAAATATCTCAAGGGAGATGAAAATTTCATTTCAAGAGAAACTATCTCGA
GTGAGACG
Found at i:11297448 original size:35 final size:34
Alignment explanation
Indices: 11297386--11297507 Score: 91
Period size: 35 Copynumber: 3.4 Consensus size: 34
11297376 GAAATTTTTG
* * * *
11297386 TTTCAAGAGAAACTGTCTCGAGTGAGATGGAAAAT
1 TTTCAAGAGAAAATATCTCAAGGGAGAT-GAAAAT
* *
11297421 TTTCAAGTGAAAATATCTCAAGGGAGATTAAAATTT
1 TTTCAAGAGAAAATATCTCAAGGGAGATGAAAA--T
* * * *
11297457 CATTTCAAGAGAAATTATCTCGAGTGAGACGAAAAGT
1 --TTTCAAGAGAAAATATCTCAAGGGAGATGAAAA-T
*
11297494 TTTCAAGGGAAAAT
1 TTTCAAGAGAAAAT
11297508 GATGTGATCA
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
34 4 0.06
35 35 0.51
36 1 0.01
37 1 0.01
38 27 0.40
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (34 bp):
TTTCAAGAGAAAATATCTCAAGGGAGATGAAAAT
Found at i:11298745 original size:18 final size:19
Alignment explanation
Indices: 11298711--11298759 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
11298701 CATCCAAGAG
*
11298711 CATGTATTTTCATTTAAAGT
1 CATGTATTTTCATTTAAA-A
11298731 CATGT-TTTTCA-TTAAAA
1 CATGTATTTTCATTTAAAA
11298748 CATGTATTTTCA
1 CATGTATTTTCA
11298760 AAGGGTTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 5 0.19
18 11 0.41
19 6 0.22
20 5 0.19
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (19 bp):
CATGTATTTTCATTTAAAA
Found at i:11299497 original size:73 final size:71
Alignment explanation
Indices: 11299342--11299556 Score: 254
Period size: 73 Copynumber: 3.0 Consensus size: 71
11299332 TTATATCAAA
* * * *
11299342 AAAACACCTCAA-ATGAGATGAAATTTTTGTTTCAAGATAATGACTAAAGTAAGATAGAAAATTT
1 AAAACACCTCAAGA-GAGATGAAATTTTTGTTTCAAGAAAATGTCTCAAGTAAGATGGAAAATTT
11299406 TCAAGGG
65 TCAAGGG
* * * * * * *
11299413 AAAATATCTCAAGAGAGATAAAATTTTCGTTTCAAGAGAAACTGTCTCGAGTGAGACGGAAAATT
1 AAAACACCTCAAGAGAGATGAAATTTTTGTTTCAAGA-AAA-TGTCTCAAGTAAGATGGAAAATT
11299478 TTCAAGGG
64 TTCAAGGG
* *
11299486 AAAACACCTCAAGATAGATGAAATTTTTGTTTCAAGATAAATTGTCTCAACTAAGATGG-AAATT
1 AAAACACCTCAAGAGAGATGAAATTTTTGTTTCAAGA-AAA-TGTCTCAAGTAAGATGGAAAATT
11299550 TTCAAGG
64 TTCAAGG
11299557 AGAACCATCT
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
71 31 0.26
72 15 0.13
73 73 0.61
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (71 bp):
AAAACACCTCAAGAGAGATGAAATTTTTGTTTCAAGAAAATGTCTCAAGTAAGATGGAAAATTTT
CAAGGG
Found at i:11299610 original size:144 final size:141
Alignment explanation
Indices: 11299342--11299620 Score: 325
Period size: 144 Copynumber: 2.0 Consensus size: 141
11299332 TTATATCAAA
*
11299342 AAAACACCTCAAATGAGATGAAATTTTTGTTTCAAGATAATGACTAAAGTAAGATAGAAAATTTT
1 AAAACACCTCAAATGAGATGAAATTTTTGTTTCAAGATAATGACTAAACTAAGATAGAAAATTTT
* * * *
11299407 CAAGGGAAAATATCTCAAGAGAGATAAAATTTTCGTTTCAAGAGAAACTGTCTCGAGTGAGACGG
66 CAAGGGAAAACATCTCAAGAGAGATAAAATCTTC-TTTCAAGAGAAACTATCTCAAGTGAGAC--
11299472 AAAATTTTCAAGGG
128 AAAATTTTCAAGGG
* * *
11299486 AAAACACCTCAAGAT-AGATGAAATTTTTGTTTCAAGATAAATTGTCTCAACTAAGAT-GGAAAT
1 AAAACACCTCAA-ATGAGATGAAATTTTTGTTTCAAGAT-AA-TGACTAAACTAAGATAGAAAAT
* * * * *
11299549 TTTCAA-GGAGAACCATCTCAAGTGAGATATAACCTCTT-TTTCAAG-GAGATTATCTCAAGTGA
63 TTTCAAGGGA-AAACATCTCAAGAGAGATA-AA-ATCTTCTTTCAAGAGAAACTATCTCAAGTGA
11299611 GACAAAATTT
125 GACAAAATTT
11299621 GTTCTTGAGA
Statistics
Matches: 116, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
142 7 0.06
144 54 0.47
145 38 0.33
146 14 0.12
147 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.29
Consensus pattern (141 bp):
AAAACACCTCAAATGAGATGAAATTTTTGTTTCAAGATAATGACTAAACTAAGATAGAAAATTTT
CAAGGGAAAACATCTCAAGAGAGATAAAATCTTCTTTCAAGAGAAACTATCTCAAGTGAGACAAA
ATTTTCAAGGG
Found at i:11300143 original size:31 final size:31
Alignment explanation
Indices: 11300108--11300179 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
11300098 GCAAATATGT
11300108 TAATGATGCAAGTGCATGCTTTCATGAATGA
1 TAATGATGCAAGTGCATGCTTTCATGAATGA
11300139 TAATGATGCAAGTGCATGCTTTCATGAATGA
1 TAATGATGCAAGTGCATGCTTTCATGAATGA
11300170 TAATGATGCA
1 TAATGATGCA
11300180 GAGGTGTGCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (31 bp):
TAATGATGCAAGTGCATGCTTTCATGAATGA
Found at i:11304124 original size:15 final size:14
Alignment explanation
Indices: 11304104--11304145 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
11304094 AAAGTTAAGA
*
11304104 AAAAATAAATAATT
1 AAAAATAAATAAAT
11304118 AATAAATAAATAAAT
1 AA-AAATAAATAAAT
*
11304133 AAAAATATATAAA
1 AAAAATAAATAAA
11304146 ATTAGAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATAAATAAAT
Found at i:11304534 original size:13 final size:13
Alignment explanation
Indices: 11304516--11304540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11304506 AATAATAAAA
11304516 ATCAAAACTAAGT
1 ATCAAAACTAAGT
11304529 ATCAAAACTAAG
1 ATCAAAACTAAG
11304541 ATAAAATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (13 bp):
ATCAAAACTAAGT
Found at i:11304762 original size:7 final size:7
Alignment explanation
Indices: 11304750--11304793 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
11304740 TTAAGTTCCG
11304750 TCTGCCT
1 TCTGCCT
11304757 TCTGCCT
1 TCTGCCT
11304764 TCTGCCT
1 TCTGCCT
11304771 TCTGCCT
1 TCTGCCT
*
11304778 TCTTCCT
1 TCTGCCT
*
11304785 TCTTCCT
1 TCTGCCT
11304792 TC
1 TC
11304794 CACACAGTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.00, C:0.43, G:0.09, T:0.48
Consensus pattern (7 bp):
TCTGCCT
Found at i:11305674 original size:14 final size:15
Alignment explanation
Indices: 11305649--11305682 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
11305639 ATAGACGCAA
11305649 AAATACTAATAATAT
1 AAATACTAATAATAT
11305664 AAATA-TAATAATAT
1 AAATACTAATAATAT
11305678 AAATA
1 AAATA
11305683 GCATATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATACTAATAATAT
Found at i:11316312 original size:2 final size:2
Alignment explanation
Indices: 11316305--11316332 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11316295 TTTAATAAAT
11316305 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11316333 GAACTATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11319001 original size:3 final size:3
Alignment explanation
Indices: 11318995--11319064 Score: 99
Period size: 3 Copynumber: 23.0 Consensus size: 3
11318985 ATTTGTTTTT
11318995 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11319041 TTTA TTA TTAA TT- TTA TTA -TA TTA
1 -TTA TTA TT-A TTA TTA TTA TTA TTA
11319065 CAAGTCCAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.06
3 49 0.79
4 9 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11320786 original size:135 final size:135
Alignment explanation
Indices: 11320563--11320838 Score: 459
Period size: 135 Copynumber: 2.0 Consensus size: 135
11320553 ATTTTCATTA
*
11320563 TTATTATATTAAAATAAATTATTTTTATTTTTAAAGAAAATGTTTTGGTTATTTATTTATTTTTT
1 TTATTATATTAAAATAAA-TATTTTTATTTTTAAAGAAAATGTTTTAGTTATTTATTTATTTTTT
* *
11320628 AATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCTC-TTTTCTGATATTTTTAAATAAAT
65 AATATCGAAGAAAAGAGCTGTCTTAAAGCACCTAGAAG-TCATTTTCTGATATTTCTAAATAAAT
11320692 AAATATC
129 AAATATC
*
11320699 TTATTATATTAAAAT-AA-ATTTTTATTTTTTAAGAAAATGTTTTTAGTTATTTATTTTATTTTT
1 TTATTATATTAAAATAAATATTTTTATTTTTAAAGAAAATG-TTTTAGTTATTTA-TTTATTTTT
11320762 TAATATCGAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAAT
64 TAATATCGAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAAT
11320827 AAATATC
129 AAATATC
11320834 TTATT
1 TTATT
11320839 TATACATATT
Statistics
Matches: 133, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
133 21 0.16
134 14 0.11
135 83 0.62
136 15 0.11
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.46
Consensus pattern (135 bp):
TTATTATATTAAAATAAATATTTTTATTTTTAAAGAAAATGTTTTAGTTATTTATTTATTTTTTA
ATATCGAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAA
ATATC
Found at i:11321318 original size:6 final size:7
Alignment explanation
Indices: 11321297--11321321 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11321287 TGTCTCTATT
11321297 AATTAAA
1 AATTAAA
11321304 AATTAAA
1 AATTAAA
11321311 AATTAAA
1 AATTAAA
11321318 AATT
1 AATT
11321322 CATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:11321399 original size:26 final size:27
Alignment explanation
Indices: 11321347--11321404 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
11321337 TAATTCTTTT
*
11321347 TTTTCAAAATTTTTATATATACCTATTA
1 TTTTCAAAATATTTATATATA-CTATTA
* *
11321375 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
11321401 TTTT
1 TTTT
11321405 ATTAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:11327441 original size:114 final size:114
Alignment explanation
Indices: 11327240--11327803 Score: 966
Period size: 114 Copynumber: 4.9 Consensus size: 114
11327230 CACGTTCTCG
* *
11327240 TAGTATAAATAAGGAGACCCAATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
* *
11327305 AGTATGAACCCCAAAACTAATCATTGGATTTGAAAGATGAATTTGTTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
* *
11327354 TAGTAGAAATAAGGAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTTATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
*
11327419 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
*
11327468 TAGTAGAAATAAGGAGACCCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
* *
11327533 GGTATGAACCCCAAAACCAATCATTAGATTTAAAAGATGAATTTGTTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
*
11327582 TAGTAGAAATAAGGAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
11327647 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
* * * *
11327696 TAGTAGAAATAAGGAGACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATATGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
* * *
11327761 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAATT
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
11327804 GCATGATTGT
Statistics
Matches: 426, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 426 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
Found at i:11330372 original size:22 final size:22
Alignment explanation
Indices: 11330346--11330397 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
11330336 TACACTCTTC
*
11330346 AAAGATGATAGGTTCTCTTTTA
1 AAAGATGATAGATTCTCTTTTA
*
11330368 AAAGATGATAGATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTA
11330390 AAAGATGA
1 AAAGATGA
11330398 AAACTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
AAAGATGATAGATTCTCTTTTA
Found at i:11331202 original size:37 final size:37
Alignment explanation
Indices: 11331105--11331446 Score: 321
Period size: 37 Copynumber: 9.3 Consensus size: 37
11331095 GGATGTTTTC
* * * **
11331105 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTA
1 AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
* * * * *
11331142 AAAC-AAATTTTGTCTCGCTTGAGACAGTTTCACTTG
1 AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
* **
11331178 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTA
1 AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
* * * * *
11331215 AAAC-AAATTTTGTCTCGCTTGAGACAGTTTCACTTG
1 AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
* **
11331251 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTA
1 AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
* * *
11331288 AAACAAAAATTTGTCTCACTTGAGACAGTTTCACTCA
1 AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
* * * **
11331325 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTA
1 AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
* * * *
11331362 AAAC-AAATTTTGTCTCGCTTGAGACTGTTTCACTTG
1 AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
* **
11331398 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTA
1 AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
* *
11331435 AAATAAAGATTT
1 AAACAAAAATTT
11331447 GTTTCGCTTA
Statistics
Matches: 238, Mismatches: 64, Indels: 6
0.77 0.21 0.02
Matches are distributed among these distances:
36 83 0.35
37 155 0.65
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (37 bp):
AAACAAAAATTTATCTCACTTGAGACTGTTTCACTTA
Found at i:11331224 original size:73 final size:73
Alignment explanation
Indices: 11331105--11331464 Score: 585
Period size: 73 Copynumber: 4.9 Consensus size: 73
11331095 GGATGTTTTC
* *
11331105 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGT
1 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGT
11331170 TTCACTTG
66 TTCACTTG
11331178 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGT
1 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGT
11331243 TTCACTTG
66 TTCACTTG
* *
11331251 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAAATTTGTCTCACTTGAGACAG
1 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AAATTTTGTCTCGCTTGAGACAG
**
11331316 TTTCACTCA
65 TTTCACTTG
* * *
11331325 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACTGT
1 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGT
11331390 TTCACTTG
66 TTCACTTG
* * * *
11331398 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAATAAAGATTTGTTTCGCTTAAGACAG
1 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-TTTTGTCTCGCTTGAGACAG
11331463 TT
65 TT
11331465 ATTTCGAGAT
Statistics
Matches: 265, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
73 180 0.68
74 85 0.32
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (73 bp):
AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGT
TTCACTTG
Found at i:11331371 original size:147 final size:147
Alignment explanation
Indices: 11331105--11331464 Score: 596
Period size: 147 Copynumber: 2.5 Consensus size: 147
11331095 GGATGTTTTC
* * *
11331105 AAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AAATTTTGTCTCGCTTGAGACAG
1 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAAATTTGTCTCGCTTGAGACAG
**
11331169 TTTCACTTGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCT
66 TTTCACTCAAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCT
11331234 TGAGACAGTTTCACTTG
131 TGAGACAGTTTCACTTG
*
11331251 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAAATTTGTCTCACTTGAGACAG
1 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAAATTTGTCTCGCTTGAGACAG
* *
11331316 TTTCACTCAAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCT
66 TTTCACTCAAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCT
*
11331381 TGAGACTGTTTCACTTG
131 TGAGACAGTTTCACTTG
* * * *
11331398 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAATAAAGATTTGTTTCGCTTAAGACAG
1 AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAAATTTGTCTCGCTTGAGACAG
11331463 TT
66 TT
11331465 ATTTCGAGAT
Statistics
Matches: 199, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
146 39 0.20
147 160 0.80
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (147 bp):
AAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAAATTTGTCTCGCTTGAGACAG
TTTCACTCAAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCT
TGAGACAGTTTCACTTG
Found at i:11331752 original size:76 final size:76
Alignment explanation
Indices: 11331624--11331930 Score: 533
Period size: 76 Copynumber: 4.0 Consensus size: 76
11331614 TATTTCCCAT
* * *
11331624 ATCTGTAAGTCCTGCAGTGCCTGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
11331689 GCCTTAGGGTC
66 GCCTTAGGGTC
* *
11331700 ATCTGTAAGTCCTGCAGTGCCTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
11331765 GCCTTAGGGTC
66 GCCTTAGGGTC
11331776 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
11331841 GCCTTAGGGTC
66 GCCTTAGGGTC
* *
11331852 ATCTGTAAGTCCTACAGTGCATGATATTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
* *
11331917 ACCTTCGGGTC
66 GCCTTAGGGTC
11331928 ATC
1 ATC
11331931 AGCATTACCA
Statistics
Matches: 224, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 224 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTAGGGTC
Found at i:11332142 original size:113 final size:113
Alignment explanation
Indices: 11331944--11332561 Score: 765
Period size: 113 Copynumber: 5.3 Consensus size: 113
11331934 ATTACCAGGT
* *
11331944 AAGTTCATAATGAGAAGAATTTATTCAACTTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
*
11332009 GCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAG
66 GCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
11332057 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
*
11332122 GCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAG
66 GCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * *
11332170 AAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGCTTAAATTCATCATTCGATGGATCAGCATT
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
*
11332235 GCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAT
66 GCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
** * *
11332283 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTCATCATTCAATGGATCAACATA
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGAT---CA-G
* **
11332348 CACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
62 CA--TTGCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * * * * *** *
11332402 AAGTTCATAATGAGAAAAACTTATTCAACCTTTTGCATG-ACTCTATCACAGAAGGAGATAGATC
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTC-AT--C---ATTCGATGGAT-
* * ** *
11332466 AACATACACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAG
59 --CA-GCA--TTGCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
11332526 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
1 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
11332562 ATGACTCTAT
Statistics
Matches: 461, Mismatches: 31, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
113 273 0.59
116 2 0.00
117 2 0.00
118 3 0.01
119 79 0.17
120 1 0.00
121 1 0.00
124 100 0.22
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
GCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
Found at i:11332519 original size:124 final size:123
Alignment explanation
Indices: 11332244--11332630 Score: 572
Period size: 124 Copynumber: 3.2 Consensus size: 123
11332234 TGCCAGGTCG
*
11332244 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *** *
11332309 AA-CTTTT-CACTTGA--AT-TCATC--ATTCAATGGATCAACATACACTTTTCCAGAGAA
66 AACCTTTTGCA--TGACTCTATCA-CAGAAGGAATAGATCAACATACACTTTTCCAGAGAA
* *
11332363 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAAAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
11332428 AACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCAACATACACTTTTCCAGAGAA
66 AACCTTTTGCATGACTCTATCACAGAAGGA-ATAGATCAACATACACTTTTCCAGAGAA
*
11332487 AGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
11332552 AACCTTTTGCATGACTCTATCACAGAAGGAAATAGATTAGCATACACTTTTCCAGAAAA
66 AACCTTTTGCATGACTCTATCACAGAAGG-AATAGATCAACATACACTTTTCCAGAGAA
11332611 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
11332631 TGTTCAACCT
Statistics
Matches: 244, Mismatches: 15, Indels: 13
0.90 0.06 0.05
Matches are distributed among these distances:
119 67 0.27
120 5 0.02
121 4 0.02
122 3 0.01
123 2 0.01
124 162 0.66
125 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (123 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCATGACTCTATCACAGAAGGAATAGATCAACATACACTTTTCCAGAGAA
Found at i:11332625 original size:84 final size:84
Alignment explanation
Indices: 11332521--11332678 Score: 246
Period size: 84 Copynumber: 1.9 Consensus size: 84
11332511 TGAAGAAGGA
* *
11332521 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAA-AT
1 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGACTCTATCACAGAA-GAAGAT
*
11332585 AGATTAGCATACACTTTTCC
65 AGATCAGCATACACTTTTCC
* * *
11332605 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGATTCTATTACATAAGAAGATA
1 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGACTCTATCACAGAAGAAGATA
11332670 GATCAGCAT
66 GATCAGCAT
11332679 CAACATCGCC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 3 0.04
84 64 0.96
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (84 bp):
AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAAGACTCTATCACAGAAGAAGATA
GATCAGCATACACTTTTCC
Found at i:11332969 original size:3 final size:3
Alignment explanation
Indices: 11332963--11333011 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
11332953 TTTGGTTTTT
11332963 TTA TTA TTTA TTA TTA TTA TTA TTA TTTA TTA TTAA TT- TTA TTA -TA
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA TTA
11333009 TTA
1 TTA
11333012 CAAGCCCAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 4 0.10
3 28 0.68
4 9 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11332982 original size:16 final size:16
Alignment explanation
Indices: 11332963--11333011 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
11332953 TTTGGTTTTT
11332963 TTATTATTTATTATTA
1 TTATTATTTATTATTA
11332979 TTATTA-TTATTTATTA
1 TTATTATTTA-TTATTA
*
11332995 TTAAT-TTTATTA-TA
1 TTATTATTTATTATTA
11333009 TTA
1 TTA
11333012 CAAGCCCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.17
15 6 0.20
16 19 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTTATTATTA
Found at i:11332987 original size:19 final size:19
Alignment explanation
Indices: 11332961--11333007 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
11332951 CATTTGGTTT
11332961 TTTTATTATTTATTATT-A
1 TTTTATTATTTATTATTAA
11332979 TTATTATTATTTATTATTAA
1 TT-TTATTATTTATTATTAA
11332999 TTTTATTAT
1 TTTTATTAT
11333008 ATTACAAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.07
19 22 0.81
20 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTATTTATTATTAA
Found at i:11337864 original size:2 final size:2
Alignment explanation
Indices: 11337859--11337905 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
11337849 ATTCATGATA
11337859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11337901 AT AT A
1 AT AT A
11337906 AGTAAAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11337950 original size:17 final size:16
Alignment explanation
Indices: 11337924--11337955 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11337914 TAATTTCATA
11337924 ATTTTTAAATTTTATT
1 ATTTTTAAATTTTATT
11337940 ATTTTTGAAATTTTAT
1 ATTTTT-AAATTTTAT
11337956 AATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTTTAAATTTTATT
Found at i:11358491 original size:74 final size:74
Alignment explanation
Indices: 11358369--11358518 Score: 273
Period size: 74 Copynumber: 2.0 Consensus size: 74
11358359 AACAATTGGT
*
11358369 ATCAGAGCTAGATTAGAGTGTGTAATATCTGCTTATTGTCTTTATGGTTGCCACCAAAAGGTGGA
1 ATCAGAGCTAGATTAGAGTGTGTAATATATGCTTATTGTCTTTATGGTTGCCACCAAAAGGTGGA
11358434 CCTTCCAAC
66 CCTTCCAAC
*
11358443 ATCAGAGCTAGATTAGAGTGTGTAATATATGCTTATTGTCTTTGTGGTTGCCACCAAAAGGTGGA
1 ATCAGAGCTAGATTAGAGTGTGTAATATATGCTTATTGTCTTTATGGTTGCCACCAAAAGGTGGA
*
11358508 TCTTCCAAC
66 CCTTCCAAC
11358517 AT
1 AT
11358519 AAGAAAGTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (74 bp):
ATCAGAGCTAGATTAGAGTGTGTAATATATGCTTATTGTCTTTATGGTTGCCACCAAAAGGTGGA
CCTTCCAAC
Found at i:11362640 original size:23 final size:24
Alignment explanation
Indices: 11362587--11362645 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 24
11362577 GAGATTGTTG
11362587 AAAATCCACCG-AAAGATGGAATT
1 AAAATCCACCGAAAAGATGGAATT
*
11362610 --AATCCACCGAAAAG-TGGATTT
1 AAAATCCACCGAAAAGATGGAATT
11362631 AAAATCCACCGAAAA
1 AAAATCCACCGAAAA
11362646 ATAAAATGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 15 0.47
22 4 0.12
23 13 0.41
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.17
Consensus pattern (24 bp):
AAAATCCACCGAAAAGATGGAATT
Found at i:11372924 original size:60 final size:58
Alignment explanation
Indices: 11372805--11372924 Score: 134
Period size: 60 Copynumber: 2.0 Consensus size: 58
11372795 CAAAAAAAAC
* * * * **
11372805 TTTTACAAATTACATAATGGCCCAAACTTTTACAAATTACAACAATATCTCAATTTTT
1 TTTTACAAATTAAAAAAAGGCCCAAACTTTTACAAATTACAACAATAGCTCAAACTTT
* *
11372863 TTTTACAAATTATAAAAAAGGCCCAAAACTTTTATAAATTACAACAATGGCT-ATAACTTT
1 TTTTACAAATTA-AAAAAAGGCCC-AAACTTTTACAAATTACAACAATAGCTCA-AACTTT
11372923 TT
1 TT
11372925 CAAATTACAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
58 12 0.24
59 9 0.18
60 30 0.59
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.37
Consensus pattern (58 bp):
TTTTACAAATTAAAAAAAGGCCCAAACTTTTACAAATTACAACAATAGCTCAAACTTT
Found at i:11372969 original size:88 final size:86
Alignment explanation
Indices: 11372800--11372969 Score: 209
Period size: 88 Copynumber: 1.9 Consensus size: 86
11372790 GTTACCAAAA
* * * *
11372800 AAAACTTTTACAAATTACATAATGGCCCAAACTTTTACAAATTACAACAATATCTCAATTTTTTT
1 AAAACTTTTACAAATTACACAATGGCCCAAACTTTTACAAATTACAACAATATCCCAA-TATGTT
*
11372865 TTACAAATTATAAAAAAGGCCC
65 TTACAAATTAAAAAAAAGGCCC
* * *
11372887 AAAACTTTTATAAATTACAACAATGG-CTATAACTTTTTCAAATTACAACAATATCCCAA-ATGT
1 AAAACTTTTACAAATTAC-ACAATGGCCCA-AACTTTTACAAATTACAACAATATCCCAATATGT
11372950 TTTACAAATTACAATAAAAA
64 TTTACAAATTA-AA-AAAAA
11372970 CCTATGCATT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
86 13 0.18
87 20 0.28
88 38 0.54
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (86 bp):
AAAACTTTTACAAATTACACAATGGCCCAAACTTTTACAAATTACAACAATATCCCAATATGTTT
TACAAATTAAAAAAAAGGCCC
Found at i:11373323 original size:26 final size:26
Alignment explanation
Indices: 11373294--11373367 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
11373284 AATATTTACT
* *
11373294 TCATATCAGTCATAAAAGATGATACA
1 TCATATCAATTATAAAAGATGATACA
*
11373320 TCATATCATTTATAAAAGATGATACA
1 TCATATCAATTATAAAAGATGATACA
* *
11373346 TTACATCAATTATAAAAGATGA
1 TCATATCAATTATAAAAGATGA
11373368 AAATTAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (26 bp):
TCATATCAATTATAAAAGATGATACA
Found at i:11374750 original size:31 final size:28
Alignment explanation
Indices: 11374674--11374751 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 28
11374664 TCCTCATTTC
*
11374674 AAATTAGTCCTTAAACTTTTGAACATTCT
1 AAATTAGTCCCTAAAC-TTTGAACATTCT
* *
11374703 AATTTCA-TCCCCAAACTTTGAATATCATTCT
1 AAATT-AGTCCCTAAACTTTG-A-A-CATTCT
11374734 AAATTAGTCCCTAAACTT
1 AAATTAGTCCCTAAACTT
11374752 GTGCATATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
28 4 0.10
29 12 0.31
30 3 0.08
31 20 0.51
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (28 bp):
AAATTAGTCCCTAAACTTTGAACATTCT
Found at i:11398193 original size:16 final size:15
Alignment explanation
Indices: 11398168--11398197 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11398158 GTATCCAAAC
11398168 TATTAATATAATTAG
1 TATTAATATAATTAG
11398183 TATTAAATATAATTA
1 TATT-AATATAATTA
11398198 ATAATATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TATTAATATAATTAG
Found at i:11403213 original size:16 final size:15
Alignment explanation
Indices: 11403188--11403217 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11403178 GTATCCAAAC
11403188 TATTAATATAATTAG
1 TATTAATATAATTAG
11403203 TATTAAATATAATTA
1 TATT-AATATAATTA
11403218 ATAGTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TATTAATATAATTAG
Found at i:11407307 original size:59 final size:58
Alignment explanation
Indices: 11407238--11407429 Score: 194
Period size: 59 Copynumber: 3.3 Consensus size: 58
11407228 GAACGACAAC
* * * * *
11407238 ATGTGCCATATACGATTCAATACTAAAGGA-TACCTAGTATTGATGGTAGGCACAACCTC
1 ATGTGTCATAT-CGATTCAGTACTAAAGGATTACCTAGTA-TGATGGTGGGCAAAACCTT
* * * **
11407297 AAGTGTCATATCGATTTAGCACTAAA-GATTACCTAGTGCAT-ATGGTGGGCATGACCTT
1 ATGTGTCATATCGATTCAGTACTAAAGGATTACCTAGT--ATGATGGTGGGCAAAACCTT
* *
11407355 ATGTGTCATATACAAGTCAGTACTAAAGGATTA-CTAGTACTGATGGTGGGCAAAACCTT
1 ATGTGTCATAT-CGATTCAGTACTAAAGGATTACCTAGTA-TGATGGTGGGCAAAACCTT
11407414 ATGTGTCATATCGATT
1 ATGTGTCATATCGATT
11407430 TATCACTTCG
Statistics
Matches: 108, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
57 3 0.03
58 47 0.44
59 52 0.48
60 6 0.06
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (58 bp):
ATGTGTCATATCGATTCAGTACTAAAGGATTACCTAGTATGATGGTGGGCAAAACCTT
Found at i:11407342 original size:58 final size:58
Alignment explanation
Indices: 11407259--11407436 Score: 182
Period size: 58 Copynumber: 3.1 Consensus size: 58
11407249 ACGATTCAAT
* * * * *
11407259 ACTAAAGGA-TACCTAGTATTGATGGTAGGCACAACCTCAAGTGTCATATCGATTTAGC
1 ACTAAAGGATTA-CTAGTACTGATGGTGGGCAAAACCTTATGTGTCATATCGATTTAGC
* ** * * * *
11407317 ACTAAA-GATTACCTAGTGCAT-ATGGTGGGCATGACCTTATGTGTCATATACAAGTCAGT
1 ACTAAAGGATTA-CTAGTAC-TGATGGTGGGCAAAACCTTATGTGTCATAT-CGATTTAGC
*
11407376 ACTAAAGGATTACTAGTACTGATGGTGGGCAAAACCTTATGTGTCATATCGATTTATC
1 ACTAAAGGATTACTAGTACTGATGGTGGGCAAAACCTTATGTGTCATATCGATTTAGC
11407434 ACT
1 ACT
11407437 TCGGTGTATA
Statistics
Matches: 96, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
57 2 0.02
58 45 0.47
59 44 0.46
60 5 0.05
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (58 bp):
ACTAAAGGATTACTAGTACTGATGGTGGGCAAAACCTTATGTGTCATATCGATTTAGC
Found at i:11407392 original size:117 final size:117
Alignment explanation
Indices: 11407186--11407436 Score: 317
Period size: 117 Copynumber: 2.1 Consensus size: 117
11407176 GTAGCTGCTG
* *
11407186 CATATCGATTTTTCATTAAAGGATACCTAGTGCATATGGTGGGAACGACAACATGTGCCATATAC
1 CATATCGATTTATCACTAAAGGATACCTAGTGCATATGGTGGGAACGACAACATGTGCCATATAC
* * * *
11407251 GATTCAATACTAAAGGATACCTAGTATTGATGGTAGGCACAACCTCAAGTGT
66 AAGTCAATACTAAAGGATACCTAGTACTGATGGTAGGCAAAACCTCAAGTGT
* * * *** *
11407303 CATATCGATTTAGCACTAAA-GATTACCTAGTGCATATGGTGGGCATGACCTTATGTGTCATATA
1 CATATCGATTTATCACTAAAGGA-TACCTAGTGCATATGGTGGGAACGACAACATGTGCCATATA
* * * *
11407367 CAAGTCAGTACTAAAGGATTA-CTAGTACTGATGGTGGGCAAAACCTTATGTGT
65 CAAGTCAATACTAAAGGA-TACCTAGTACTGATGGTAGGCAAAACCTCAAGTGT
11407420 CATATCGATTTATCACT
1 CATATCGATTTATCACT
11407437 TCGGTGTATA
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
116 2 0.02
117 110 0.96
118 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (117 bp):
CATATCGATTTATCACTAAAGGATACCTAGTGCATATGGTGGGAACGACAACATGTGCCATATAC
AAGTCAATACTAAAGGATACCTAGTACTGATGGTAGGCAAAACCTCAAGTGT
Found at i:11411053 original size:19 final size:20
Alignment explanation
Indices: 11411009--11411055 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11410999 TACTATACTG
* * *
11411009 GAAATTAATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTC
11411029 GAAATTGATGTTAGAATG-C
1 GAAATTGATGTTAGAATGTC
11411048 GAAATTGA
1 GAAATTGA
11411056 GTTTTTTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTC
Found at i:11412551 original size:59 final size:59
Alignment explanation
Indices: 11412484--11412670 Score: 209
Period size: 59 Copynumber: 3.2 Consensus size: 59
11412474 TCAGTTTAAC
* *
11412484 ACTAAAGGATACCTAGTGCATATGATGGG-AGCGACCTTATGTGTCATATACGGGTTAGT
1 ACTAAAGGATACCTAGTGCATATGGTGGGCA-CGACCTTATGTGTCATATATGGGTTAGT
* * * * * * * *
11412543 ACTAAAGGATACCTAGTAC-TGATGGTGGGTACAATCTCATGTGTCATGT-TGGTTTAGC
1 ACTAAAGGATACCTAGTGCAT-ATGGTGGGCACGACCTTATGTGTCATATATGGGTTAGT
* * * *
11412601 ACTAAAAGATACCTAGTGCATTTGGTGGGCATGACCTTATGTGTCATATATAGGTTAGT
1 ACTAAAGGATACCTAGTGCATATGGTGGGCACGACCTTATGTGTCATATATGGGTTAGT
11412660 ACTAAAGGATA
1 ACTAAAGGATA
11412671 TTAATTACTG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
58 45 0.44
59 56 0.55
60 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (59 bp):
ACTAAAGGATACCTAGTGCATATGGTGGGCACGACCTTATGTGTCATATATGGGTTAGT
Found at i:11412683 original size:117 final size:117
Alignment explanation
Indices: 11412470--11412720 Score: 319
Period size: 117 Copynumber: 2.1 Consensus size: 117
11412460 GAAGCAGCTA
* * *
11412470 CATATCAGTTTAACACTAAAGGATACCTAGTGCATATGATGGGAGCGACCTTATGTGTCATATAC
1 CATATCGGTTTAGCACTAAAAGATACCTAGTGCATATGATGGGAGCGACCTTATGTGTCATATAC
* *
11412535 GGGTTAGTACTAAAGGATACCTAGTACTGATGGTGGGTACAA-TCTCATGTGT
66 AGGTTAGTACTAAAGGATACCTAGTACTGATGGTGGGCACAACT-TCATGTGT
* * * * *
11412587 CATGTTGGTTTAGCACTAAAAGATACCTAGTGCATTTGGTGGGCA-TGACCTTATGTGTCATATA
1 CATATCGGTTTAGCACTAAAAGATACCTAGTGCATATGATGGG-AGCGACCTTATGTGTCATATA
* * * *
11412651 TAGGTTAGTACTAAAGGATA-TTAATTACTGATGGTGGGCACTACTTCATGTGT
65 CAGGTTAGTACTAAAGGATACCT-AGTACTGATGGTGGGCACAACTTCATGTGT
*
11412704 CATATCGATTTAGCACT
1 CATATCGGTTTAGCACT
11412721 TCGGAGCATA
Statistics
Matches: 114, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
116 1 0.01
117 111 0.97
118 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (117 bp):
CATATCGGTTTAGCACTAAAAGATACCTAGTGCATATGATGGGAGCGACCTTATGTGTCATATAC
AGGTTAGTACTAAAGGATACCTAGTACTGATGGTGGGCACAACTTCATGTGT
Found at i:11413192 original size:16 final size:15
Alignment explanation
Indices: 11413167--11413196 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11413157 ATATCCAATC
11413167 TATTAATATAATTAG
1 TATTAATATAATTAG
11413182 TATTAAATATAATTA
1 TATT-AATATAATTA
11413197 ATAGTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TATTAATATAATTAG
Found at i:11421323 original size:17 final size:17
Alignment explanation
Indices: 11421303--11421335 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11421293 CATGTTGTGC
11421303 CCTATTACTAAGTATGT
1 CCTATTACTAAGTATGT
11421320 CCTATTACTAAGTATG
1 CCTATTACTAAGTATG
11421336 CCAATGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (17 bp):
CCTATTACTAAGTATGT
Found at i:11430571 original size:16 final size:16
Alignment explanation
Indices: 11430546--11430583 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
11430536 AAAACATTTG
*
11430546 ATGTTGTTGGATTGAT
1 ATGTTTTTGGATTGAT
*
11430562 ATGTTTTTGGATTGTT
1 ATGTTTTTGGATTGAT
11430578 ATGTTT
1 ATGTTT
11430584 GAATTTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (16 bp):
ATGTTTTTGGATTGAT
Found at i:11431355 original size:65 final size:66
Alignment explanation
Indices: 11431279--11431434 Score: 190
Period size: 65 Copynumber: 2.4 Consensus size: 66
11431269 CACACCCATT
* * *
11431279 TCGAATTCATTTTGTGTACCGATGCAAAAG-CCATGCATCGATGCACTCTTGAATATTTTGAAAC
1 TCGAATACATTTTGTGTACCGATGCAAAAGACCATACATCGATGCACTCCTGAATATTTTGAAAC
11431343 A
66 A
* * * ** *
11431344 TCGAATGCATTTTGTGTATCGATGC-ACAGACCATACATCGATGCACTCCTGGGTCTTTTGAAAC
1 TCGAATACATTTTGTGTACCGATGCAAAAGACCATACATCGATGCACTCCTGAATATTTTGAAAC
11431408 A
66 A
* * *
11431409 TCGAATATAATTAGTGTACCGATGCA
1 TCGAATACATTTTGTGTACCGATGCA
11431435 CTAAGACTTA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 3 0.04
65 73 0.96
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (66 bp):
TCGAATACATTTTGTGTACCGATGCAAAAGACCATACATCGATGCACTCCTGAATATTTTGAAAC
A
Found at i:11440798 original size:26 final size:26
Alignment explanation
Indices: 11440762--11440841 Score: 151
Period size: 26 Copynumber: 3.1 Consensus size: 26
11440752 ATCGAAGTGC
11440762 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
*
11440788 TAATACACATATGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
11440814 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
11440840 TA
1 TA
11440842 GGTACTTAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCCCACCA
Found at i:11444809 original size:96 final size:96
Alignment explanation
Indices: 11444700--11444876 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
11444690 TACCATGAGA
* * * * *
11444700 AAGGTATCGATACCATTGATTTACAGAATGCATAAATGGTATCGATAAAGTAATAGAGTATCTGT
1 AAGGTATCGATACCATTAATTTACAGAATGCAGAAATGGTATCGATAAAGAAAGAGAGTATCAGT
11444765 ACCATAATATAGAAGTATCAGTACTGAGAGG
66 ACCATAATATAGAAGTATCAGTACTGAGAGG
* * ** *
11444796 AAGGTATCTATACCATTAATTTACAGAATGCCGAAATGGTATCGATACTGAAAGGGAGTATCAGT
1 AAGGTATCGATACCATTAATTTACAGAATGCAGAAATGGTATCGATAAAGAAAGAGAGTATCAGT
11444861 ACCATAATATAGAAGT
66 ACCATAATATAGAAGT
11444877 TTCGATACCA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (96 bp):
AAGGTATCGATACCATTAATTTACAGAATGCAGAAATGGTATCGATAAAGAAAGAGAGTATCAGT
ACCATAATATAGAAGTATCAGTACTGAGAGG
Found at i:11445313 original size:45 final size:45
Alignment explanation
Indices: 11445252--11445464 Score: 218
Period size: 45 Copynumber: 4.7 Consensus size: 45
11445242 ATAAATAGGA
*
11445252 CATTA-AAGGCATGAAAGGATGCCATAAATGAAATGCATAATTGTG
1 CATTACAA-GCATGAAAGGATGCCATAAATGAAATGCATAACTGTG
* *
11445297 TATTACAAGAATGAAAGGATGCCATAAAT-AAAGTGCATAA-TGTTG
1 CATTACAAGCATGAAAGGATGCCATAAATGAAA-TGCATAACTG-TG
* * * * * *
11445342 CATTACAGGCATGAAAGGTTGCCACAAATAAAAAGCATAACAGTG
1 CATTACAAGCATGAAAGGATGCCATAAATGAAATGCATAACTGTG
* * * *
11445387 TATTA-AAGGCATGAAAGGATGTCATAAATGAAATGTATAACGGTG
1 CATTACAA-GCATGAAAGGATGCCATAAATGAAATGCATAACTGTG
* * *
11445432 CATTACAGGCATGGAAGAATGCCATAAATGAAA
1 CATTACAAGCATGAAAGGATGCCATAAATGAAA
11445465 ATAATGAATA
Statistics
Matches: 138, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
44 6 0.04
45 125 0.91
46 7 0.05
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.23
Consensus pattern (45 bp):
CATTACAAGCATGAAAGGATGCCATAAATGAAATGCATAACTGTG
Found at i:11445355 original size:90 final size:90
Alignment explanation
Indices: 11445252--11445465 Score: 270
Period size: 90 Copynumber: 2.4 Consensus size: 90
11445242 ATAAATAGGA
* * **
11445252 CATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAATTGTGTATTACAA-GAATGAAAGGA
1 CATTACAGGCATGAAAGGATGCCATAAATGAAAAGCATAACAGTGTATTA-AAGGAATGAAAGGA
* *
11445316 TGCCATAAAT-AAAGTGCATAATGTTG
65 TGCCATAAATGAAA-TGCATAACGGTG
* * * *
11445342 CATTACAGGCATGAAAGGTTGCCACAAATAAAAAGCATAACAGTGTATTAAAGGCATGAAAGGAT
1 CATTACAGGCATGAAAGGATGCCATAAATGAAAAGCATAACAGTGTATTAAAGGAATGAAAGGAT
* *
11445407 GTCATAAATGAAATGTATAACGGTG
66 GCCATAAATGAAATGCATAACGGTG
* *
11445432 CATTACAGGCATGGAAGAATGCCATAAATGAAAA
1 CATTACAGGCATGAAAGGATGCCATAAATGAAAA
11445466 TAATGAATAA
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
89 2 0.02
90 100 0.95
91 3 0.03
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (90 bp):
CATTACAGGCATGAAAGGATGCCATAAATGAAAAGCATAACAGTGTATTAAAGGAATGAAAGGAT
GCCATAAATGAAATGCATAACGGTG
Found at i:11445484 original size:90 final size:90
Alignment explanation
Indices: 11445307--11445484 Score: 198
Period size: 90 Copynumber: 2.0 Consensus size: 90
11445297 TATTACAAGA
* * **
11445307 ATGAAAGGATGCCATAAATAAAGTGCATAATGTTGCATTACAGGCATGAAAGGTTGCCACAAATA
1 ATGAAAGGATGCCATAAATAAAGTGCATAACGGTGCATTACAGGCATGAAAGAATGCCACAAATA
* * *
11445372 AAAAGCATAACAGTGTATTAAAGGC
66 AAAAGAATAACAATGTACTAAAGGC
* * * *
11445397 ATGAAAGGATGTCATAAATGAAA-TGTATAACGGTGCATTACAGGCATGGAAGAATGCCATAAAT
1 ATGAAAGGATGCCATAAAT-AAAGTGCATAACGGTGCATTACAGGCATGAAAGAATGCCACAAAT
* * *
11445461 GAAAATAATGAATAAT-TACTAAAG
65 AAAAAGAAT-AACAATGTACTAAAG
11445485 AATAATGGGA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
90 65 0.90
91 7 0.10
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (90 bp):
ATGAAAGGATGCCATAAATAAAGTGCATAACGGTGCATTACAGGCATGAAAGAATGCCACAAATA
AAAAGAATAACAATGTACTAAAGGC
Found at i:11451766 original size:15 final size:15
Alignment explanation
Indices: 11451746--11451776 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11451736 CGATACTGAA
11451746 AGGGAGTATCGATAG
1 AGGGAGTATCGATAG
11451761 AGGGAGTATCGATAG
1 AGGGAGTATCGATAG
11451776 A
1 A
11451777 ATAGTATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.39, T:0.19
Consensus pattern (15 bp):
AGGGAGTATCGATAG
Found at i:11452243 original size:45 final size:45
Alignment explanation
Indices: 11452182--11452431 Score: 315
Period size: 45 Copynumber: 5.5 Consensus size: 45
11452172 TATTAAAGGA
* * *
11452182 ATGAAATGATGACATAAATGAAATGCATAACGGTGCATTACAAGC
1 ATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATTACAAGC
* * **
11452227 ATGAAAGGATGCCATAAATAAGATGCATAACAGTGCATTACAATA
1 ATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATTACAAGC
* *
11452272 ATCAAAGGATGCCATAAATAAAAAGCATAACGGTGCATTA-AAGGC
1 ATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATTACAA-GC
* * *
11452317 ATGAAAGGATTCCATAAATAAAATGCATAATGGTGCATTACAGGC
1 ATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATTACAAGC
* * * *
11452362 TTGAAAGGATGCAATAAATAAAATGCATAATGGTGAATTA-AAGGC
1 ATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATTACAA-GC
11452407 ATGAAAGGATGCCATAAATGAAAAT
1 ATGAAAGGATGCCATAAAT-AAAAT
11452432 AATGAATAAC
Statistics
Matches: 176, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
44 3 0.02
45 167 0.95
46 6 0.03
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (45 bp):
ATGAAAGGATGCCATAAATAAAATGCATAACGGTGCATTACAAGC
Found at i:11452415 original size:135 final size:135
Alignment explanation
Indices: 11452173--11452430 Score: 347
Period size: 135 Copynumber: 1.9 Consensus size: 135
11452163 TAAATAGGAT
* *
11452173 ATTAAAGGAATGAAATGATGACATAAATGAAATGCATAACGGTGCATTACAAGCATGAAAGGATG
1 ATTAAAGGAATGAAAGGATGACATAAATAAAATGCATAACGGTGCATTACAAGCATGAAAGGATG
* * * *
11452238 CCATAAATAAGATGCATAACAGTGCATTACAATAATCAAAGGATGCCATAAATAAAAAGCATAAC
66 CAATAAATAAAATGCATAACAGTGAATTACAAGAATCAAAGGATGCCATAAATAAAAAGCATAAC
11452303 GGTGC
131 GGTGC
* ** * * *
11452308 ATTAAAGGCATGAAAGGATTCCATAAATAAAATGCATAATGGTGCATTACAGGCTTGAAAGGATG
1 ATTAAAGGAATGAAAGGATGACATAAATAAAATGCATAACGGTGCATTACAAGCATGAAAGGATG
** * * *
11452373 CAATAAATAAAATGCATAATGGTGAATTA-AAGGCATGAAAGGATGCCATAAATGAAAA
66 CAATAAATAAAATGCATAACAGTGAATTACAA-GAATCAAAGGATGCCATAAATAAAAA
11452431 TAATGAATAA
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
134 2 0.02
135 103 0.98
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.22
Consensus pattern (135 bp):
ATTAAAGGAATGAAAGGATGACATAAATAAAATGCATAACGGTGCATTACAAGCATGAAAGGATG
CAATAAATAAAATGCATAACAGTGAATTACAAGAATCAAAGGATGCCATAAATAAAAAGCATAAC
GGTGC
Found at i:11460123 original size:9 final size:9
Alignment explanation
Indices: 11460098--11460131 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
11460088 CGGGATATAA
11460098 TAATAATTAT
1 TAAT-ATTAT
11460108 T-ATATTAT
1 TAATATTAT
11460116 TAATATTAT
1 TAATATTAT
11460125 TAATATT
1 TAATATT
11460132 GTTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 16 0.70
10 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATATTAT
Found at i:11464958 original size:9 final size:8
Alignment explanation
Indices: 11464935--11464985 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
11464925 ATGGCTGAGG
*
11464935 AAGAGAAA
1 AAGAGATA
11464943 AAGGAGATA
1 AA-GAGATA
11464952 AGAGAGATA
1 A-AGAGATA
11464961 AA-A-ATA
1 AAGAGATA
11464967 AAGAGATA
1 AAGAGATA
11464975 AGAGAGATA
1 A-AGAGATA
11464984 AA
1 AA
11464986 AGAGTAGATG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
6 5 0.14
7 2 0.05
8 8 0.22
9 21 0.57
10 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (8 bp):
AAGAGATA
Found at i:11470739 original size:36 final size:37
Alignment explanation
Indices: 11470645--11470797 Score: 195
Period size: 37 Copynumber: 4.1 Consensus size: 37
11470635 ATGAGATTGG
11470645 AGCAAAGTCAATCTTAAGCCTTCACCAAAAAGGAGTGA
1 AGCAAA-TCAATCTTAAGCCTTCACCAAAAAGGAGTGA
* *
11470683 ATCAAATCAATCTTAAGCCTTCACCAAAGAGGAGTGA
1 AGCAAATCAATCTTAAGCCTTCACCAAAAAGGAGTGA
*
11470720 AGCAAATC-ATCTTAAGCCTTCA-CAAAAAGGGAGGGA
1 AGCAAATCAATCTTAAGCCTTCACCAAAAA-GGAGTGA
* * *
11470756 AGCAAATCAAT-TGGTAAGCCTTCACCGAAGAGTAGTGA
1 AGCAAATCAATCT--TAAGCCTTCACCAAAAAGGAGTGA
11470794 AGCA
1 AGCA
11470798 CCACCTTGAG
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
35 5 0.05
36 29 0.29
37 39 0.39
38 24 0.24
39 4 0.04
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (37 bp):
AGCAAATCAATCTTAAGCCTTCACCAAAAAGGAGTGA
Found at i:11470741 original size:73 final size:75
Alignment explanation
Indices: 11470645--11470797 Score: 215
Period size: 73 Copynumber: 2.1 Consensus size: 75
11470635 ATGAGATTGG
* *
11470645 AGCAAAGTCAATCTTAAGCCTTCACCAAAAA-GGAGTGAATCAAATCAATCT-TAAGCCTTCACC
1 AGCAAAGTCAATCTTAAGCCTTCA-CAAAAAGGGAGGGAAGCAAATCAAT-TGTAAGCCTTCACC
11470708 AAAGAGGAGTGA
64 AAAGAGGAGTGA
*
11470720 AGCAAA-TC-ATCTTAAGCCTTCACAAAAAGGGAGGGAAGCAAATCAATTGGTAAGCCTTCACCG
1 AGCAAAGTCAATCTTAAGCCTTCACAAAAAGGGAGGGAAGCAAATCAATT-GTAAGCCTTCACCA
*
11470783 AAGAGTAGTGA
65 AAGAGGAGTGA
11470794 AGCA
1 AGCA
11470798 CCACCTTGAG
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
72 7 0.10
73 30 0.42
74 28 0.39
75 6 0.08
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (75 bp):
AGCAAAGTCAATCTTAAGCCTTCACAAAAAGGGAGGGAAGCAAATCAATTGTAAGCCTTCACCAA
AGAGGAGTGA
Found at i:11471298 original size:214 final size:215
Alignment explanation
Indices: 11470835--11471352 Score: 849
Period size: 214 Copynumber: 2.4 Consensus size: 215
11470825 TGAAGCAAAC
* * *
11470835 CCATCAGTAAGTCTTTTGAGCATGATGCTTAAATTCTTCGGGTCATCTATAAGCCTTTAGAGCAA
1 CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAA
* * * *
11470900 GATAATCAGTCCTTCGGGCCATTCATAAAACCTTCGGGGAGGATGTTTTCACATGAATTTGAAAA
66 GATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGAGGAGGATGTTTTCACATGAATTTGAAAA
*
11470965 TGAAAAAAATAATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAAATTC
131 TG-AAAAAATAATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCAATTTTCAAAAATTC
* *
11471030 ACAATTTATAAGTCCTTCGGG
195 ACAATTTATAAGTCCTTCAGA
* *
11471051 CCATCAGTAAGTCATTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTATAGCAA
1 CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAA
* * *
11471116 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTCTAGTAGGATGTTTTCACATGAATTTGAAAA
66 GATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGAGGAGGATGTTTTCACATGAATTTGAAAA
* *
11471181 TG-AAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCAATTTTCAAAATTTCA
131 TGAAAAAATAATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCAATTTTCAAAAATTCA
11471245 CAATTTATAAGTCCTTCAGA
196 CAATTTATAAGTCCTTCAGA
* *
11471265 CCATCAGTAAGTCTTTCAAGCATGATTCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAA
1 CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAA
11471330 GATGATAAGTCCTTCGGGCCATC
66 GATGATAAGTCCTTCGGGCCATC
11471353 AGTAAGTCTT
Statistics
Matches: 281, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
214 161 0.57
216 120 0.43
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (215 bp):
CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAA
GATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGAGGAGGATGTTTTCACATGAATTTGAAAA
TGAAAAAATAATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCAATTTTCAAAAATTCA
CAATTTATAAGTCCTTCAGA
Found at i:11471303 original size:42 final size:42
Alignment explanation
Indices: 11471256--11471435 Score: 143
Period size: 42 Copynumber: 4.3 Consensus size: 42
11471246 AATTTATAAG
* *
11471256 TCCTTCAGACCATCAGTAAGTCTTTCAAGCATGATTCTTAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATTCTTAAA
* * * * ** *
11471298 TCCTTCGGGTCATCTGTAAGCCTTT-AGAGCAAGA-TGATAAG
1 TCCTTCGGGCCATCAGTAAGTCTTTCA-AGCATGATTCTTAAA
* *
11471339 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATTCTTAAA
* * * * * ** *
11471381 TCCTTCGAGTCATCTGTAAGCCTTT-AGAGCAAGA-TGATAAG
1 TCCTTCGGGCCATCAGTAAGTCTTTCA-AGCATGATTCTTAAA
11471422 TCCTTCGGGCCATC
1 TCCTTCGGGCCATC
11471436 CATAAGACCT
Statistics
Matches: 104, Mismatches: 30, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
41 48 0.46
42 56 0.54
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (42 bp):
TCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATTCTTAAA
Found at i:11471345 original size:41 final size:41
Alignment explanation
Indices: 11471298--11471435 Score: 186
Period size: 41 Copynumber: 3.3 Consensus size: 41
11471288 GATTCTTAAA
*
11471298 TCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAG
1 TCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGATAAG
* * * * * *
11471339 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATG-ATAAG
* *
11471381 TCCTTCGAGTCATCTGTAAGCCTTTAGAGCAAGATGATAAG
1 TCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGATAAG
11471422 TCCTTCGGGCCATC
1 TCCTTCGGGCCATC
11471436 CATAAGACCT
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 46 0.58
42 33 0.42
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (41 bp):
TCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGATAAG
Found at i:11471393 original size:83 final size:83
Alignment explanation
Indices: 11471251--11471435 Score: 325
Period size: 83 Copynumber: 2.2 Consensus size: 83
11471241 TTCACAATTT
* * * *
11471251 ATAAGTCCTTCAGACCATCAGTAAGTCTTTCAAGCATGATTCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
11471316 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
*
11471334 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
11471399 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
11471417 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
11471436 CATAAGACCT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 97 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (83 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
AGCCTTTAGAGCAAGATG
Found at i:11471627 original size:298 final size:298
Alignment explanation
Indices: 11471037--11471917 Score: 1381
Period size: 298 Copynumber: 3.0 Consensus size: 298
11471027 TTCACAATTT
*
11471037 ATAAGTCCTTCGGGCCATCAGTAAGTCATTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
* *
11471102 AGCCTTTATAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCT-AGTAGGATGTTTTC
66 AGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTT-TGGGTAGGATGTTTTC
*
11471166 ACATGAATTTGAAAATG-AAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCA
130 ACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCG
* * *
11471230 ATTTTCAAAATTTCACAATTTATAAGTCCTTCAGACCATCAGTAAGTCTTTCAAGCATGATTCTT
195 ATTTTCAAAATTTCACAATTTATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTT
*
11471295 AAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
260 AAATCCTTCGGGTCATCTGTAAGCCTTCAGAGCAAGATG
*
11471334 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
* *
11471399 AGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGAATGTCTTCA
66 AGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTTCA
* *
11471464 AATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTTAGAATGCGA
131 CATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCGA
* * *
11471529 TTTTCAAAATTTCACAATTTATAAGTCATTCCGGCCATCAGTAAGTCTTTTGAGCATGATGCTTA
196 TTTTCAAAATTTCACAATTTATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
11471594 AATCCTTCGGGTCATCTGTAAGCCTTCAGAGCAAGATG
261 AATCCTTCGGGTCATCTGTAAGCCTTCAGAGCAAGATG
* *
11471632 ATAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
* * *
11471697 AGCCTTTAGAGCAGGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGGTGTTTTCA
66 AGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTTCA
* * * *
11471762 CATGAATTTGAAAATGAAAAAAATGATGCTTTAAGAAGATGAAATTTTTGAGAAGTAAGAAGGCG
131 CATGAATTTGAAAATG-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCG
* * * * * ** * *
11471827 A-TTTCTAATACTTCGCACTATATAAGTCCTTTGGGCCATCAGTAAATCTTTCGAGCATGATGAT
195 ATTTTC-AAAATTTCACAATTTATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCT
* * *
11471891 TAAATCCTTTGGGTAATTTGTAAGCCT
259 TAAATCCTTCGGGTCATCTGTAAGCCT
11471918 ACCGAAGAGT
Statistics
Matches: 536, Mismatches: 44, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
296 1 0.00
297 137 0.26
298 283 0.53
299 115 0.21
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (298 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
AGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTTCA
CATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAGAATGCGA
TTTTCAAAATTTCACAATTTATAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
AATCCTTCGGGTCATCTGTAAGCCTTCAGAGCAAGATG
Found at i:11471656 original size:41 final size:42
Alignment explanation
Indices: 11471549--11471733 Score: 159
Period size: 42 Copynumber: 4.5 Consensus size: 42
11471539 TTCACAATTT
* * * **
11471549 ATAAGTCATTCCGGC-CATCAGTAAGTCTTTTGAGCATGATG
1 ATAAGTCCTTCGGGCTCATCAGTAAGCCTTCAGAGCATGATG
* * * *
11471590 CTTAAATCCTTCGGG-TCATCTGTAAGCCTTCAGAGCAAGATG
1 -ATAAGTCCTTCGGGCTCATCAGTAAGCCTTCAGAGCATGATG
*
11471632 ATAAGTCCTTCGGGCT-ATCAGTAAGTCTTTC-GAGCATGAT-
1 ATAAGTCCTTCGGGCTCATCAGTAAG-CCTTCAGAGCATGATG
* * * *
11471672 ACTTAAATCCTTCGGG-TCATCTGTAAGCCTTTAGAGCAGGATG
1 A--TAAGTCCTTCGGGCTCATCAGTAAGCCTTCAGAGCATGATG
11471715 ATAAGTCCTTCGGGC-CATC
1 ATAAGTCCTTCGGGCTCATC
11471734 CATAAGACCT
Statistics
Matches: 114, Mismatches: 20, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
40 1 0.01
41 48 0.42
42 64 0.56
43 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCTCATCAGTAAGCCTTCAGAGCATGATG
Found at i:11471688 original size:83 final size:83
Alignment explanation
Indices: 11471549--11471733 Score: 307
Period size: 83 Copynumber: 2.2 Consensus size: 83
11471539 TTCACAATTT
* * * *
11471549 ATAAGTCATTCCGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCGGGTCATCTGTA
11471614 AGCCTTCAGAGCAAGATG
66 AGCCTTCAGAGCAAGATG
*
11471632 ATAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCGGGTCATCTGTA
* *
11471697 AGCCTTTAGAGCAGGATG
66 AGCCTTCAGAGCAAGATG
11471715 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
11471734 CATAAGACCT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (83 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCGGGTCATCTGTA
AGCCTTCAGAGCAAGATG
Found at i:11472279 original size:9 final size:9
Alignment explanation
Indices: 11472250--11472289 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
11472240 TTTATTCGGG
*
11472250 ATATAATTA
1 ATATTATTA
*
11472259 TTATTATT-
1 ATATTATTA
11472267 ATATTATTA
1 ATATTATTA
11472276 ATATTATTA
1 ATATTATTA
11472285 ATATT
1 ATATT
11472290 GTTTATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATTATTA
Found at i:11478927 original size:55 final size:55
Alignment explanation
Indices: 11478802--11479233 Score: 363
Period size: 54 Copynumber: 8.0 Consensus size: 55
11478792 TGTTTTTTTA
** **
11478802 AAACTAAGTCTGATTTTC-GAAAGTTTCTAAATTATTTT-AAATGAGTTTTTAAAG
1 AAACTAAGTCTGATTTTCAG-AAGTTTCTTGACGATTTTCAAATGAGTTTTTAAAG
*
11478856 AAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAGTGAGTTTTTAAAG
1 AAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAAG
* * * *
11478911 AAACTAAGTTTGATTTTAAGAAGTTTCTTGATGA-TTTCAAATGAGTTTTCAAAG
1 AAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAAG
*
11478965 AAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAAT-A-TGTTTTAAAT
1 AAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGT-TTTTAAAG
** * ** *
11479019 AAACTAAGTCCAATTTTCAGAAGTTTCTTGA--TTTTTCTTAAATGAAATTTCAAAG
1 AAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTC--AAATGAGTTTTTAAAG
* * * * ** * * *
11479074 AAATTAAGCCTAATTTTTAGGGGTTTCTTGA--TTTTTCAAATGA-ATTTCAAAG
1 AAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAAG
* ** * * * *
11479126 AAATTAAACCTAATTTTTAGGTA-TTTCTTGATG-TTTTCAAATGAGTTTTT--AG
1 AAACTAAGTCTGATTTTCA-GAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAAG
* ** *
11479178 AAACTAAGTATGATTTTCAGGGGTTTCTTAATGATGATTTTC-AATGAGTTTTTAAA
1 AAACTAAGTCTGATTTTCAGAAGTTTC-T--TGACGATTTTCAAATGAGTTTTTAAA
11479234 AGGAAACGAA
Statistics
Matches: 319, Mismatches: 40, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
51 1 0.00
52 59 0.18
53 20 0.06
54 124 0.39
55 109 0.34
56 5 0.02
57 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (55 bp):
AAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGAGTTTTTAAAG
Found at i:11478993 original size:109 final size:108
Alignment explanation
Indices: 11478802--11479267 Score: 392
Period size: 109 Copynumber: 4.3 Consensus size: 108
11478792 TGTTTTTTTA
* * ** * * *
11478802 AAACTAAGTCTGATTTT-CGAAAGTTTCTAAATTATTTTAAATGAGTTTTTAAAGAAACTAAGTC
1 AAACTAAGTCTAATTTTAAG-AAGTTTCTTGATGATTTCAAATGAGTTTTCAAAGAAACTAAGTC
*
11478866 TGATTTTCAGAAGTTTCTTGACGATTTTCAAGTGAGTTTTTAAAG
65 TGATTTTCAGAAGTTTCTTGACGATTTTCAAATGA-TTTTTAAAG
* *
11478911 AAACTAAGTTTGATTTTAAGAAGTTTCTTGATGATTTCAAATGAGTTTTCAAAGAAACTAAGTCT
1 AAACTAAGTCTAATTTTAAGAAGTTTCTTGATGATTTCAAATGAGTTTTCAAAGAAACTAAGTCT
*
11478976 GATTTTCAGAAGTTTCTTGACGATTTTCAAAT-ATGTTTTAAAT
66 GATTTTCAGAAGTTTCTTGACGATTTTCAAATGAT-TTTTAAAG
* * * ** * *
11479019 AAACTAAGTCCAATTTTCAGAAGTTTCTTGAT-TTTTCTTAAATGAAATTTCAAAGAAATTAAGC
1 AAACTAAGTCTAATTTTAAGAAGTTTCTTGATGATTTC--AAATGAGTTTTCAAAGAAACTAAGT
* * ** * * *
11479083 CTAATTTTTAGGGGTTTCTTGA--TTTTTCAAATGAATTTCAAAG
64 CTGATTTTCAGAAGTTTCTTGACGATTTTCAAATGATTTTTAAAG
* ** * * * * *
11479126 AAATTAAACCTAATTTTTAGGTA-TTTCTTGATGTTTTCAAATGAGTTTT--TAGAAACTAAGTA
1 AAACTAAGTCTAA-TTTTAAGAAGTTTCTTGATGATTTCAAATGAGTTTTCAAAGAAACTAAGTC
** *
11479188 TGATTTTCAGGGGTTTCTTAATGATGATTTTC-AATGAGTTTTTAAAAGG
65 TGATTTTCAGAAGTTTC-T--TGACGATTTTCAAATGA-TTTTT-AAA-G
* * * * *
11479237 AAACGAAGCCTAATTTTTAGAGGTTCCTTGA
1 AAACTAAGTCTAATTTTAAGAAGTTTCTTGA
11479268 CAACTAAGAA
Statistics
Matches: 289, Mismatches: 52, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
104 24 0.08
105 1 0.00
106 9 0.03
107 41 0.14
108 53 0.18
109 134 0.46
110 9 0.03
111 18 0.06
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (108 bp):
AAACTAAGTCTAATTTTAAGAAGTTTCTTGATGATTTCAAATGAGTTTTCAAAGAAACTAAGTCT
GATTTTCAGAAGTTTCTTGACGATTTTCAAATGATTTTTAAAG
Found at i:11479138 original size:52 final size:52
Alignment explanation
Indices: 11479041--11479169 Score: 195
Period size: 52 Copynumber: 2.4 Consensus size: 52
11479031 ATTTTCAGAA
*
11479041 GTTTCTTGATTTTTCTTAAATGAAATTTCAAAGAAATTAAGCCTAATTTTTAGGG
1 GTTTCTTGATTTTTC--AAATG-AATTTCAAAGAAATTAAACCTAATTTTTAGGG
*
11479096 GTTTCTTGATTTTTCAAATGAATTTCAAAGAAATTAAACCTAATTTTTAGGT
1 GTTTCTTGATTTTTCAAATGAATTTCAAAGAAATTAAACCTAATTTTTAGGG
*
11479148 ATTTCTTGATGTTTTCAAATGA
1 GTTTCTTGAT-TTTTCAAATGA
11479170 GTTTTTAGAA
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
52 39 0.56
53 16 0.23
55 15 0.21
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (52 bp):
GTTTCTTGATTTTTCAAATGAATTTCAAAGAAATTAAACCTAATTTTTAGGG
Found at i:11479422 original size:42 final size:42
Alignment explanation
Indices: 11479331--11479423 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
11479321 GGGCCATCAG
* * *
11479331 TAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATTTG
1 TAAGTCTTTCGAACATGATGCTTAAATCATTCGGGTCATCTA
* *
11479373 TATGTCTTTCGAACATGATGCTTAAATCCTTCGGGTCATCTA
1 TAAGTCTTTCGAACATGATGCTTAAATCATTCGGGTCATCTA
11479415 TAAGTCTTT
1 TAAGTCTTT
11479424 GGAGCAAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (42 bp):
TAAGTCTTTCGAACATGATGCTTAAATCATTCGGGTCATCTA
Found at i:11481367 original size:2 final size:2
Alignment explanation
Indices: 11481360--11481401 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11481350 AGTCCCATGA
11481360 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11481402 GCATGTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11482428 original size:23 final size:23
Alignment explanation
Indices: 11482381--11482430 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
11482371 AATAACATAT
* **
11482381 TAGGTATCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
11482404 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
11482427 TAGG
1 TAGG
11482431 CATTTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:11482490 original size:87 final size:87
Alignment explanation
Indices: 11482344--11482506 Score: 292
Period size: 87 Copynumber: 1.9 Consensus size: 87
11482334 TATGTTGTAT
*
11482344 CATTTAATCGAAAATATTATCAAGTACAATAACATATTAGGTATCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTATCGCTTATATAATGTAATAGGT
*
11482409 AGCGCTTATATAATAAAATAGG
66 AGCACTTATATAATAAAATAGG
11482431 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAAT-GCTTATATAATGTAATAGG
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGT-ATCGCTTATATAATGTAATAGG
11482495 TAGCACTTATAT
65 TAGCACTTATAT
11482507 TGACCTATTG
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
87 71 0.97
88 2 0.03
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTATCGCTTATATAATGTAATAGGT
AGCACTTATATAATAAAATAGG
Found at i:11482868 original size:198 final size:198
Alignment explanation
Indices: 11482501--11483203 Score: 923
Period size: 198 Copynumber: 3.5 Consensus size: 198
11482491 TAGGTAGCAC
* * * * * *
11482501 TTATATTGACCTATTGTCTAACT-AAACCAGTATATTTATATCGATAACATTGCAAATTTACCTA
1 TTATGTTGACCTATTCTCTCA-TAAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTA
* * * * *
11482565 TTACATTATAATTAGCGGTTTTGATATTTTTTGGATCGATACAATTTTAAATGTATCGACACTTT
65 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAACACTTT
* *
11482630 ATGCGTGCACATCGTTGGGCATTCATTTTGGAAAAAAGTATCAACACAAATTTAAAAAGTGTTGA
130 ATGCGTGCACCTCGTTGGGCATTCATTTTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTTGA
11482695 TACA
195 TACA
* * *
11482699 TTATGTTGACATATTCTCTCATAAAACCGGTATATTTATACCGGTATCATTGCAAATTTACATAT
1 TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTAT
* *
11482764 TACATTATAATTGTCGATTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAACACTTTA
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAACACTTTA
11482829 TGCGTGCACCTCGTTGGGCATTCATTTTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTTGAT
131 TGCGTGCACCTCGTTGGGCATTCATTTTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTTGAT
11482894 ACA
196 ACA
*
11482897 TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTAACATTGCAAACTTACCTAT
1 TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTAT
* *
11482962 TACATTATAATTATCGGTTTCGAT-TTTTTGGGATCGATAC-TTTTAATAAATGTAT-AGGCACT
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCA-ACACT
* * ** *
11483024 TTATGCGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTG
128 TTATGCGTGCACCTCG-TTGGGCATTCATTTTGGA-AAAAAGTATCGACACAAATTTAAAAAGTG
11483089 TCT-ATACA
191 T-TGATACA
* * * ** * * * * **
11483097 TTCTGTTGACCTGTTGGT-AGATATATACTGGTATATTTATACTGGTTACATTGTTAATTTACCT
1 TTATGTTGACCTATT-CTCTCATA-AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCT
* * *
11483161 ATTACATTATAATTATTGGTTTTGATGTTTTTGGGGTCGATAC
64 ATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC
11483204 TTTTAGAAAA
Statistics
Matches: 449, Mismatches: 46, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
196 3 0.01
197 18 0.04
198 290 0.65
199 17 0.04
200 47 0.10
201 59 0.13
202 15 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (198 bp):
TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTTTAAATGTATCAACACTTTA
TGCGTGCACCTCGTTGGGCATTCATTTTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTTGAT
ACA
Found at i:11485968 original size:19 final size:19
Alignment explanation
Indices: 11485944--11486049 Score: 167
Period size: 19 Copynumber: 5.6 Consensus size: 19
11485934 TTACATTCAC
11485944 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
11485963 ATACAAAATTATGAATCAT
1 ATACAAAATTATAAATCGT
*
11485982 ATACAAAATTATAAACCGT
1 ATACAAAATTATAAATCGT
*
11486001 ATACAAAATTATAAACCGT
1 ATACAAAATTATAAATCGT
*
11486020 ATACAAAATTATTAATCGT
1 ATACAAAATTATAAATCGT
11486039 ATACAAAATTA
1 ATACAAAATTA
11486050 AATACTTTAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Done.