Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 95 of 295
Found at i:30327709 original size:202 final size:200
Alignment explanation
Indices: 30327355--30327744 Score: 717
Period size: 202 Copynumber: 1.9 Consensus size: 200
30327345 CTTTCACATT
*
30327355 CATCGCATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
1 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
30327420 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
66 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
30327485 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
131 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
30327550 TCGGC
196 TCGGC
*
30327555 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAG
1 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
* *
30327620 GCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
66 GCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
30327685 ACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACTTTCACATT
129 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
30327745 TATTCAATAT
Statistics
Matches: 183, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
200 73 0.40
202 110 0.60
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (200 bp):
CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGC
Found at i:30332338 original size:39 final size:39
Alignment explanation
Indices: 30332275--30332550 Score: 426
Period size: 39 Copynumber: 7.1 Consensus size: 39
30332265 AATTTTATTA
*
30332275 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* *
30332314 CCAACACAAAGCCTGGGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * * * *
30332353 CCAGCACGAAGCCTGCGAGTCTTTGGCCCGTATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
30332392 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
30332431 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * * *
30332470 CCAGCACGAAGCCTGTGGGTCTTTGGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
30332509 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
30332548 CCA
1 CCA
30332551 TACACATTTC
Statistics
Matches: 213, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 213 1.00
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
Found at i:30332481 original size:117 final size:117
Alignment explanation
Indices: 30332270--30332556 Score: 493
Period size: 117 Copynumber: 2.4 Consensus size: 117
30332260 CCCGAAATTT
* *
30332270 TATTACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACAAAGCCTGGGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACAAAGCCTGCGGGTC
*
30332335 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGTATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
*
30332387 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACAAAGCCTGCGGGTC
* *
30332452 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGTGGGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
* *
30332504 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATATATTTCCATACACA
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA-ACACA
30332557 TTTCGTCTTC
Statistics
Matches: 160, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
117 156 0.98
118 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (117 bp):
TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACAAAGCCTGCGGGTC
TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGAGTCTTTGGCCCGGATA
Found at i:30350867 original size:20 final size:20
Alignment explanation
Indices: 30350830--30350867 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30350820 AGCCCAGCAT
30350830 AGTATCAACAACAGAAATAC
1 AGTATCAACAACAGAAATAC
*
30350850 AGTATTCAATAACA-AAAT
1 AGTA-TCAACAACAGAAAT
30350868 CCTACCCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.55, C:0.16, G:0.08, T:0.21
Consensus pattern (20 bp):
AGTATCAACAACAGAAATAC
Found at i:30355183 original size:20 final size:20
Alignment explanation
Indices: 30355155--30355224 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
30355145 TACAATTTGG
*
30355155 TATCAATACCATTTAAAAAA
1 TATCGATACCATTTAAAAAA
*
30355175 TATCGATA-CTTTTATAAAAA
1 TATCGATACCATTTA-AAAAA
*
30355195 TATTGATACTCA--TAACAAAA
1 TATCGATAC-CATTTAA-AAAA
*
30355215 TATTGATACC
1 TATCGATACC
30355225 TCTGGGTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
19 7 0.17
20 34 0.81
22 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.34
Consensus pattern (20 bp):
TATCGATACCATTTAAAAAA
Found at i:30360564 original size:25 final size:23
Alignment explanation
Indices: 30360534--30360598 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
30360524 AATAAAAAAT
*
30360534 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
30360559 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
30360580 -TTAAAACA-AGAAACAAATA
1 TTTAAAACATAAAAACAAATA
30360599 AAAAATGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:30360595 original size:19 final size:20
Alignment explanation
Indices: 30360560--30360598 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
30360550 TCAAATACAT
30360560 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
30360580 TTAAAACA-AGAAACAAATA
1 TTAAAACATAAAAACAAATA
30360599 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:30366411 original size:5 final size:5
Alignment explanation
Indices: 30366401--30366431 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
30366391 TAAAGTATTA
30366401 AAAAT AAAAT AAAAT AAAAT AAAAT CAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
30366432 CAATCCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:30367014 original size:20 final size:22
Alignment explanation
Indices: 30366978--30367017 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
30366968 TTTTGAAACA
30366978 ATTTTAAAATCAAGTTAAAATG
1 ATTTTAAAATCAAGTTAAAATG
30367000 ATTTT-AAAT-AAGTTAAAA
1 ATTTTAAAATCAAGTTAAAA
30367018 GTCTTTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (22 bp):
ATTTTAAAATCAAGTTAAAATG
Found at i:30368312 original size:24 final size:23
Alignment explanation
Indices: 30368269--30368325 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
30368259 TAACAAATAA
30368269 TTAAATTAAAAATTTTATTTAAG
1 TTAAATTAAAAATTTTATTTAAG
*
30368292 TTAAATCTATAAAA-TTTATTTAAT
1 TTAAAT-TA-AAAATTTTATTTAAG
30368316 TTAAATTAAA
1 TTAAATTAAA
30368326 TAGGAAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 2 0.06
23 8 0.26
24 17 0.55
25 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAAATTAAAAATTTTATTTAAG
Found at i:30369392 original size:131 final size:131
Alignment explanation
Indices: 30369157--30369393 Score: 334
Period size: 131 Copynumber: 1.8 Consensus size: 131
30369147 AAAATAAATT
* * **
30369157 TTAATATTACCAGTATATTTAAAATTTCTATCTTCATCTTCTACTTCAACCCATCATTCTTGTTA
1 TTAATATTACAAGTATATTTAAAATTTCTATCTTCATCTTCTACTTCAACCCATCATTCTCGACA
*
30369222 TCATCTTCCATATTGGATCTTCTTCTTCAATCTATATCATCATCTAAAATCTATATTTTTTGAAT
66 TCATCTTCCATATTGGATCTTCTTCTACAATCTATATCATCATCTAAAATCTATATTTTTTGAAT
30369287 A
131 A
* * * * *
30369288 TTAATATTACAAGTATATTT-AAATTCTCTATTTTGATCTTTTGCTTTAACCCATCATTCTCGAC
1 TTAATATTACAAGTATATTTAAAATT-TCTATCTTCATCTTCTACTTCAACCCATCATTCTCGAC
* *
30369352 ATCATCTTTCATCTT-GATCTTCTTCTACAATCTATCATCATC
65 ATCATCTTCCATATTGGATCTTCTTCTACAATCTAT-ATCATC
30369394 TAGATCTACT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
130 24 0.26
131 68 0.74
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (131 bp):
TTAATATTACAAGTATATTTAAAATTTCTATCTTCATCTTCTACTTCAACCCATCATTCTCGACA
TCATCTTCCATATTGGATCTTCTTCTACAATCTATATCATCATCTAAAATCTATATTTTTTGAAT
A
Found at i:30375977 original size:20 final size:20
Alignment explanation
Indices: 30375940--30375977 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30375930 TGTGGATTCC
**
30375940 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTCCCTTGGG
30375960 ACACGCCCGTGTCCCTTG
1 ACACGCCCGTGTCCCTTG
30375978 TCCGCGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTCCCTTGGG
Found at i:30386388 original size:43 final size:43
Alignment explanation
Indices: 30386340--30386438 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
30386330 AAAGCTCGTA
* ** *
30386340 CAATGCCAATGTCCCAGACGTGGTCTAACATGTAATCAAATAT
1 CAATGCCAATGTCCCAAACAAGGTCTAACATGAAATCAAATAT
* * *
30386383 CAATGCCACTGTCCCAAACAAGGTCTTACATGAAATCAAGTAT
1 CAATGCCAATGTCCCAAACAAGGTCTAACATGAAATCAAATAT
*
30386426 -GATGCCAATGTCC
1 CAATGCCAATGTCC
30386439 TAGATGTAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 11 0.23
43 36 0.77
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
CAATGCCAATGTCCCAAACAAGGTCTAACATGAAATCAAATAT
Found at i:30400136 original size:43 final size:42
Alignment explanation
Indices: 30400070--30400166 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 42
30400060 AGCTCGTACA
**
30400070 ATGCCAATGTCCCAAACGTGGTCTAACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACGTGGTCTAACATAAAATCAAATA-CG
* * * *
30400113 ATGCCACTGTCCCAGACAG-GGTCTTACATAAAATCAAGTACG
1 ATGCCAATGTCCCAAAC-GTGGTCTAACATAAAATCAAATACG
30400155 ATGCCAATGTCC
1 ATGCCAATGTCC
30400167 TAGATGTAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 13 0.28
43 32 0.70
44 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACGTGGTCTAACATAAAATCAAATACG
Found at i:30410082 original size:43 final size:42
Alignment explanation
Indices: 30409934--30410101 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 42
30409924 ATATCATACA
* * *
30409934 ATGCCAACGTCCCAGACGTGGTCCTTACATGCAATCACATATCG
1 ATGCC-ACATCCCAGACGTGGT-CTTACACGTAATCACATATCG
* * * *
30409978 ATGCCACTGTCTCAAACAG-GGTCTTACACG-AATCAAATA-CG
1 ATGCCAC-ATCCCAGAC-GTGGTCTTACACGTAATCACATATCG
** * *
30410019 ATGCCA-AT--GGGACATGGTCTTACACGTAATCACATATCC
1 ATGCCACATCCCAGACGTGGTCTTACACGTAATCACATATCG
30410058 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCC-ACATCCCAGACGTGGTCTTACACGTAATCACATATCG
30410101 A
1 A
30410102 AAATCCTATG
Statistics
Matches: 100, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
37 13 0.13
38 8 0.08
39 7 0.07
40 1 0.01
41 10 0.10
42 8 0.08
43 37 0.37
44 15 0.15
45 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCACATCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:30418722 original size:13 final size:13
Alignment explanation
Indices: 30418704--30418731 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30418694 ACAAAATAAG
30418704 AACCTTCATCACT
1 AACCTTCATCACT
30418717 AACCTTCATCACT
1 AACCTTCATCACT
30418730 AA
1 AA
30418732 TAATAGGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (13 bp):
AACCTTCATCACT
Found at i:30444610 original size:27 final size:27
Alignment explanation
Indices: 30444575--30444686 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
30444565 TATTGAAATG
30444575 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
* *
30444602 CCCTAGTTTATAAAATTACCGAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
*** * * *
30444629 AATTGGTTTGTGAAATTACCGAAATA-
1 CCCTAGTTTGTAAAATTACCAAAATAC
* *
30444655 CCCTCAATTAGTAAAATTACCAAAATAC
1 CCCT-AGTTTGTAAAATTACCAAAATAC
30444683 CCCT
1 CCCT
30444687 TATTTACAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
26 1 0.01
27 62 0.93
28 4 0.06
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTACCAAAATAC
Found at i:30444645 original size:54 final size:54
Alignment explanation
Indices: 30444580--30444682 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
30444570 AAATGCCCTA
* *
30444580 GTTTGTAAAATTACCAAAATACCC-CTAGTTTA-TAAAATTACCGAAATACAATTG
1 GTTTGTAAAATTACCAAAATACCCTC-A-ATTAGTAAAATTACCAAAATACAATTG
* *
30444634 GTTTGTGAAATTACCGAAATACCCTCAATTAGTAAAATTACCAAAATAC
1 GTTTGTAAAATTACCAAAATACCCTCAATTAGTAAAATTACCAAAATAC
30444683 CCCTTATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.07
54 39 0.91
55 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (54 bp):
GTTTGTAAAATTACCAAAATACCCTCAATTAGTAAAATTACCAAAATACAATTG
Found at i:30444697 original size:27 final size:27
Alignment explanation
Indices: 30444585--30444710 Score: 98
Period size: 27 Copynumber: 4.7 Consensus size: 27
30444575 CCCTAGTTTG
30444585 TAAAATTACCAAAATACCCC-TAGTTTA
1 TAAAATTACCAAAATACCCCTTA-TTTA
* ** * *
30444612 TAAAATTACCGAAATA-CAATTGGTTTG
1 TAAAATTACCAAAATACCCCTT-ATTTA
* * * *
30444639 TGAAATTACCGAAATA-CCCTCAATTA
1 TAAAATTACCAAAATACCCCTTATTTA
30444665 GTAAAATTACCAAAATACCCCTTATTTA
1 -TAAAATTACCAAAATACCCCTTATTTA
*
30444693 CAAAATTA-CAGAAATACC
1 TAAAATTACCA-AAATACC
30444711 TTTGACTTTT
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
26 5 0.06
27 64 0.83
28 8 0.10
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTTATTTA
Found at i:30444762 original size:27 final size:26
Alignment explanation
Indices: 30444719--30444773 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
30444709 CCTTTGACTT
*
30444719 TTTAAAAATTATAGAAATTCCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
* *
30444745 TTTACAAAATTATTGAAATACCCTTGG
1 TTTA-AAAATTATAGAAATACCATTGG
30444772 TT
1 TT
30444774 CGTAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:30445745 original size:25 final size:25
Alignment explanation
Indices: 30445717--30445774 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
30445707 AAGGGTTCTA
*
30445717 CCCCAGTTT-TCTGAAAAGGGCTTTG
1 CCCCAGTTTATCAG-AAAGGGCTTTG
*
30445742 CCCCAGTTTATCAGAAAGGGGTTTG
1 CCCCAGTTTATCAGAAAGGGCTTTG
*
30445767 CCCTAGTT
1 CCCCAGTT
30445775 ATTAAAAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (25 bp):
CCCCAGTTTATCAGAAAGGGCTTTG
Found at i:30445981 original size:42 final size:42
Alignment explanation
Indices: 30445922--30446013 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
30445912 TAGTCTCCCC
*
30445922 AAATGGGCTTCCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTCCATACATCCATTGACATTACATGTGATATTG
*
30445964 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTCCATACATCCATTGACATTACATGTGATATTG
30446006 AAATGGGC
1 AAATGGGC
30446014 CTAAGGGCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTCCATACATCCATTGACATTACATGTGATATTG
Found at i:30446075 original size:31 final size:31
Alignment explanation
Indices: 30446037--30446120 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
30446027 TGTTTACAGT
30446037 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30446068 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
30446099 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
30446121 TCAAGACTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:30448402 original size:27 final size:27
Alignment explanation
Indices: 30448368--30448449 Score: 146
Period size: 27 Copynumber: 3.0 Consensus size: 27
30448358 TATTGAAATG
*
30448368 CCCTAGTTTGTAATATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
30448395 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
*
30448422 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTAGTTTGTAAAATTACCAAAATAC
30448449 C
1 C
30448450 ATTGATTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTACCAAAATAC
Found at i:30449452 original size:25 final size:25
Alignment explanation
Indices: 30449424--30449481 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
30449414 AAAGGCTCTG
30449424 CCCCAGTTTAAC-GAAAAGGGCTTTA
1 CCCCAGTTTAACAG-AAAGGGCTTTA
* * *
30449449 CCCCAGTTTATCAGGAAGGGCTTTG
1 CCCCAGTTTAACAGAAAGGGCTTTA
30449474 CCCCAGTT
1 CCCCAGTT
30449482 ATTAAAAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (25 bp):
CCCCAGTTTAACAGAAAGGGCTTTA
Found at i:30449494 original size:24 final size:24
Alignment explanation
Indices: 30449411--30449494 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
30449401 GAGGAAGTGC
* * *
30449411 TAAAAAGGCTCTGCCCCAGTTTAAC
1 TAAAAGGGCTTTGCCCCAGTTT-AT
* *
30449436 GAAAAGGGCTTTACCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
* *
30449460 CAGGAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
30449484 TAAAAGAGGCT
1 TAAAAG-GGCT
30449495 AGGCCTCCAG
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
23 3 0.06
24 11 0.23
25 33 0.70
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:30449694 original size:42 final size:42
Alignment explanation
Indices: 30449629--30449720 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
30449619 TAGTCTCCCC
* *
30449629 AAATGGGCTTGCATACATTCATTGACATTACATGTTATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
30449671 AAATGGGCTTGCATAGATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
30449713 AAATGGGC
1 AAATGGGC
30449721 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:30449779 original size:31 final size:31
Alignment explanation
Indices: 30449744--30449858 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
30449734 TGTTTACAGT
30449744 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30449775 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30449806 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30449837 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
30449859 TCAAGAATAA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:30452142 original size:27 final size:26
Alignment explanation
Indices: 30452095--30452264 Score: 162
Period size: 27 Copynumber: 6.3 Consensus size: 26
30452085 CCAATTATTG
* * *
30452095 AAATGCCCTAGTTTCTGAAATTACCA
1 AAATACCCTAGTTTGTAAAATTACCA
30452121 AAATACGCCTAGTTTGTAAAATTACCA
1 AAATAC-CCTAGTTTGTAAAATTACCA
*
30452148 AAATACCCCTAGTTTGTAAAATTACCG
1 AAATA-CCCTAGTTTGTAAAATTACCA
* * * *
30452175 AAATACCATTGGTTTGTGAAATTACCG
1 AAATACC-CTAGTTTGTAAAATTACCA
* *
30452202 AAATACCCTCAATTTGTAAAGTTACCA
1 AAATACCCT-AGTTTGTAAAATTACCA
* **
30452229 AAATACCCCTAATTTACAAAATTA-CA
1 AAATA-CCCTAGTTTGTAAAATTACCA
30452255 GAAATACCCT
1 -AAATACCCT
30452265 TGACTTTTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 14 0.11
27 103 0.84
28 5 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (26 bp):
AAATACCCTAGTTTGTAAAATTACCA
Found at i:30452206 original size:81 final size:81
Alignment explanation
Indices: 30452105--30452262 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
30452095 AAATGCCCTA
* * **
30452105 GTTTCTGAAATTACCAAAATACGCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAA
1 GTTTCTGAAATTACCAAAATAC-CCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAA
*
30452169 TTACCGAAATACCATTG
65 TTACAGAAATACCATTG
* * *
30452186 GTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAGTTACCAAAATACCCCTAATTTACAAAAT
1 GTTTCTGAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAAT
30452251 TACAGAAATACC
66 TACAGAAATACC
30452263 CTTGACTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 3 0.04
81 65 0.96
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
GTTTCTGAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAAT
TACAGAAATACCATTG
Found at i:30452323 original size:27 final size:27
Alignment explanation
Indices: 30452241--30452326 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
30452231 ATACCCCTAA
* *
30452241 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
** *
30452269 TTTTTAAAATTTA-TAGAAATACCATTGG
1 TTTACAAAA-TTACT-GAAATACCCTTGG
30452297 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
30452324 TTT
1 TTT
30452327 GTAGATTTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
27 18 0.38
28 15 0.32
29 14 0.30
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:30453292 original size:25 final size:24
Alignment explanation
Indices: 30453254--30453323 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
30453244 AGGAAGTGCT
* *
30453254 AAAAAGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
30453278 GAAAAGGGCTTTGCCCCATTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
30453303 AGAAAGGGCTTTGCCCTAGTT
1 A-AAAGGGCTTTGCCCCAGTT
30453324 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:30453336 original size:24 final size:24
Alignment explanation
Indices: 30453279--30453336 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
30453269 CAGTTTACCG
*
30453279 AAAAGGGCTTTGCCCCATTTTATC
1 AAAAGGGCTTTGCCCCATGTTATC
* *
30453303 AGAAAGGGCTTTGCCCTA-GTTATT
1 A-AAAGGGCTTTGCCCCATGTTATC
30453327 AAAAGAGGCT
1 AAAAG-GGCT
30453337 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 15 0.52
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCATGTTATC
Found at i:30453525 original size:39 final size:41
Alignment explanation
Indices: 30453471--30453559 Score: 139
Period size: 39 Copynumber: 2.2 Consensus size: 41
30453461 TAGTCTCCCC
30453471 AAATGGGCTTGCATACAGT-CATTGACATT-A-GTGATATTG
1 AAATGGGCTTGCATACA-TCCATTGACATTAATGTGATATTG
30453510 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTA-ATGTGATATTG
30453552 AAATGGGC
1 AAATGGGC
30453560 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
38 1 0.02
39 27 0.59
41 1 0.02
42 17 0.37
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (41 bp):
AAATGGGCTTGCATACATCCATTGACATTAATGTGATATTG
Found at i:30453618 original size:31 final size:31
Alignment explanation
Indices: 30453583--30453697 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
30453573 CGTTTACAGT
30453583 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30453614 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
30453645 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
30453676 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
30453698 TCAAGACTAA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:30463162 original size:20 final size:21
Alignment explanation
Indices: 30463126--30463167 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
30463116 ATTGAAGACC
30463126 AAGTCAACCCAAAATTCAGCT
1 AAGTCAACCCAAAATTCAGCT
*
30463147 AAGTCAACCC-AAATTCGGCT
1 AAGTCAACCCAAAATTCAGCT
30463167 A
1 A
30463168 CACATGGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (21 bp):
AAGTCAACCCAAAATTCAGCT
Found at i:30475608 original size:28 final size:28
Alignment explanation
Indices: 30475571--30475661 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 28
30475561 TACATACATG
* *
30475571 CATATAGCCCACTAGGCCCAATCTCATT
1 CATATGGCCCATTAGGCCCAATCTCATT
*
30475599 CATATGGCCCATTAGGCCCAAATCAT-GTT
1 CATATGGCCCATTAGGCCC-AATC-TCATT
* * *
30475628 CGTATGGCCCATTAGGCCTAAATCACATT
1 CATATGGCCCATTAGGCC-CAATCTCATT
30475657 CATAT
1 CATAT
30475662 ACATGCTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
28 17 0.33
29 33 0.65
30 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATCTCATT
Found at i:30488412 original size:107 final size:107
Alignment explanation
Indices: 30488285--30488498 Score: 419
Period size: 107 Copynumber: 2.0 Consensus size: 107
30488275 ATCGTGAATT
30488285 CTTAGTACTCTACGTGATCAGGTGTGCAACCGTATGCTATTTTTGATGATTGGCTGAAAAGCCTA
1 CTTAGTACTCTACGTGATCAGGTGTGCAACCGTATGCTATTTTTGATGATTGGCTGAAAAGCCTA
*
30488350 AAGCGTGTGTATTTGTATGCAGTATTCGATAATCGTTTGAAA
66 AAGCGTGTGTATTTGTATGCAGTATTCAATAATCGTTTGAAA
30488392 CTTAGTACTCTACGTGATCAGGTGTGCAACCGTATGCTATTTTTGATGATTGGCTGAAAAGCCTA
1 CTTAGTACTCTACGTGATCAGGTGTGCAACCGTATGCTATTTTTGATGATTGGCTGAAAAGCCTA
30488457 AAGCGTGTGTATTTGTATGCAGTATTCAATAATCGTTTGAAA
66 AAGCGTGTGTATTTGTATGCAGTATTCAATAATCGTTTGAAA
30488499 GTCGAAAGTA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (107 bp):
CTTAGTACTCTACGTGATCAGGTGTGCAACCGTATGCTATTTTTGATGATTGGCTGAAAAGCCTA
AAGCGTGTGTATTTGTATGCAGTATTCAATAATCGTTTGAAA
Found at i:30488977 original size:27 final size:27
Alignment explanation
Indices: 30488895--30488967 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
30488885 GTCGTTAAGA
30488895 CCCTAGTTTGTAAAATTACTGAAATAC
1 CCCTAGTTTGTAAAATTACTGAAATAC
* *
30488922 CCCTAATTTGTAAAATTATTGAAATAC
1 CCCTAGTTTGTAAAATTACTGAAATAC
*
30488949 CCCTGGTTTGTAAAATTAC
1 CCCTAGTTTGTAAAATTAC
30488968 CTAATTACCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTACTGAAATAC
Found at i:30489003 original size:27 final size:29
Alignment explanation
Indices: 30488898--30489010 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 29
30488888 GTTAAGACCC
30488898 TAGTTTGTAAAATTA-CTGAAATACCCC--
1 TAGTTTGTAAAATTATC-GAAATACCCCTG
* *
30488925 TAATTTGTAAAATTATTGAAATACCCCTG
1 TAGTTTGTAAAATTATCGAAATACCCCTG
* * * *
30488954 --GTTTGTAAAATTACCTAATTACCCTTG
1 TAGTTTGTAAAATTATCGAAATACCCCTG
30488981 TAG-TT-TAAAATTATCGAAATACCCCTG
1 TAGTTTGTAAAATTATCGAAATACCCCTG
30489008 TAG
1 TAG
30489011 GGTAAAATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
27 66 0.96
28 2 0.03
29 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (29 bp):
TAGTTTGTAAAATTATCGAAATACCCCTG
Found at i:30493342 original size:30 final size:31
Alignment explanation
Indices: 30493282--30493342 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
30493272 TTTTACGAGC
* **
30493282 CTAGGGGCAAAATTATAATTTTTGTGAAAGT
1 CTAGGGGCAAAATGATAATTTTTGCCAAAGT
*
30493313 CTAGGGGCAAAATGGTAA-TTTTGCCAAAGT
1 CTAGGGGCAAAATGATAATTTTTGCCAAAGT
30493343 TTGAATTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (31 bp):
CTAGGGGCAAAATGATAATTTTTGCCAAAGT
Found at i:30500254 original size:15 final size:15
Alignment explanation
Indices: 30500234--30500298 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
30500224 GTATCTTGGG
30500234 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
30500249 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
30500264 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
30500279 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
30500293 TTTCTT
1 TTTCTT
30500299 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:30500264 original size:30 final size:31
Alignment explanation
Indices: 30500230--30500298 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
30500220 TATCGTATCT
30500230 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
30500260 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
30500290 -GGTTTTCTT
1 TGGGTTTCTT
30500299 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:30502047 original size:26 final size:26
Alignment explanation
Indices: 30502018--30502098 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
30502008 GTGATCATGT
30502018 GTGTAGTACTAAGTGCGGGCTACTAC
1 GTGTAGTACTAAGTGCGGGCTACTAC
* * * * *
30502044 GTGTATTA-GATGGTGAGGTC-ACGT--
1 GTGTAGTACTA-AGTGCGGGCTAC-TAC
*
30502068 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCGGGCTACTAC
30502094 GTGTA
1 GTGTA
30502099 CCAGACTGTT
Statistics
Matches: 38, Mismatches: 11, Indels: 12
0.62 0.18 0.20
Matches are distributed among these distances:
24 13 0.34
25 6 0.16
26 19 0.50
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCGGGCTACTAC
Found at i:30502089 original size:50 final size:49
Alignment explanation
Indices: 30501958--30502152 Score: 196
Period size: 50 Copynumber: 3.9 Consensus size: 49
30501948 ATCTATTGTG
* * * * *
30501958 AGGTCACATCTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGT
* * * **
30502010 -GATCATGTGTGTAGTACTAAGTGCGGGCTACTACGTGTATTAGA-TGGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT
30502058 GAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGT
1 -AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGT
* * * * *
30502108 TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
30502153 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 41 0.34
51 33 0.28
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGT
Found at i:30507864 original size:30 final size:30
Alignment explanation
Indices: 30507828--30507926 Score: 105
Period size: 30 Copynumber: 3.4 Consensus size: 30
30507818 TACATGTATT
** *
30507828 AGTTATGTAAGTTGTTATGTACGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTA
30507858 AGTTATGTAAGTTGTTATGTAAATTATGTA
1 AGTTATGTAAGTTGTTATGTAAATTATGTA
* * *
30507888 AGTTA--TATG-AGTTATGTAAGTTATGTA
1 AGTTATGTAAGTTGTTATGTAAATTATGTA
* *
30507915 ATTTATTTAAGT
1 AGTTATGTAAGT
30507927 AATGATCAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 20 0.34
28 3 0.05
29 3 0.05
30 32 0.55
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.47
Consensus pattern (30 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTA
Found at i:30507874 original size:21 final size:21
Alignment explanation
Indices: 30507850--30507909 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
30507840 TGTTATGTAC
30507850 GTTATGTGAGTTATGTAAGTT
1 GTTATGTGAGTTATGTAAGTT
* *
30507871 GTTATGTAAATTATGTAA---
1 GTTATGTGAGTTATGTAAGTT
*
30507889 GTTATATGAGTTATGTAAGTT
1 GTTATGTGAGTTATGTAAGTT
30507910 ATGTAATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 15 0.48
21 16 0.52
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (21 bp):
GTTATGTGAGTTATGTAAGTT
Found at i:30507915 original size:9 final size:9
Alignment explanation
Indices: 30507841--30507926 Score: 82
Period size: 9 Copynumber: 9.2 Consensus size: 9
30507831 TATGTAAGTT
*
30507841 GTTATGTAC
1 GTTATGTAA
*
30507850 GTTATGTGA
1 GTTATGTAA
30507859 GTTATGTAA
1 GTTATGTAA
30507868 GTTGTTATGTAA
1 ---GTTATGTAA
*
30507880 ATTATGTAA
1 GTTATGTAA
* *
30507889 GTTATATGA
1 GTTATGTAA
30507898 GTTATGTAA
1 GTTATGTAA
30507907 GTTATGTAA
1 GTTATGTAA
* *
30507916 TTTATTTAA
1 GTTATGTAA
30507925 GT
1 GT
30507927 AATGATCAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
9 53 0.85
12 9 0.15
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (9 bp):
GTTATGTAA
Found at i:30508770 original size:23 final size:23
Alignment explanation
Indices: 30508744--30508793 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
30508734 GTTCAAGTTT
30508744 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
30508767 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
30508790 ATTT
1 ATTT
30508794 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:30512210 original size:13 final size:13
Alignment explanation
Indices: 30512192--30512216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30512182 ATTGCTAAAA
30512192 TTTTAGGGGAAAG
1 TTTTAGGGGAAAG
30512205 TTTTAGGGGAAA
1 TTTTAGGGGAAA
30512217 AACACTTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (13 bp):
TTTTAGGGGAAAG
Found at i:30512760 original size:18 final size:18
Alignment explanation
Indices: 30512726--30512760 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
30512716 TTGATTTATT
*
30512726 TAATATATAATTTAAAAA
1 TAATATATAATTAAAAAA
30512744 TAATATA-AATTAAAAAA
1 TAATATATAATTAAAAAA
30512761 CAATCAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATATATAATTAAAAAA
Found at i:30512903 original size:26 final size:26
Alignment explanation
Indices: 30512865--30512938 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
30512855 ATTATTTAAA
**
30512865 AAAATTAGATAAAATTTGAAATATTG
1 AAAATTATTTAAAATTTGAAATATTG
*
30512891 AAAATTATTTAAAATTTGAAATCTTG
1 AAAATTATTTAAAATTTGAAATATTG
*
30512917 AAATTTATTCT-AAATTTGAAAT
1 AAAATTATT-TAAAATTTGAAAT
30512939 CTTTAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 42 0.98
27 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (26 bp):
AAAATTATTTAAAATTTGAAATATTG
Found at i:30512939 original size:26 final size:26
Alignment explanation
Indices: 30512874--30512948 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
30512864 AAAAATTAGA
* *
30512874 TAAAATTTGAAATATTGAAAATTATT
1 TAAAATTTGAAATCTTGAAATTTATT
30512900 TAAAATTTGAAATCTTGAAATTTATT
1 TAAAATTTGAAATCTTGAAATTTATT
*
30512926 CT-AAATTTGAAATCTTTAAATTT
1 -TAAAATTTGAAATCTTGAAATTT
30512949 TTAAATTGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 44 0.98
27 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAATTTATT
Found at i:30513405 original size:14 final size:14
Alignment explanation
Indices: 30513382--30513429 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
30513372 TTAACCATTA
30513382 AACCCATAATCCAT
1 AACCCATAATCCAT
* * *
30513396 GACCCTTAATCCTT
1 AACCCATAATCCAT
30513410 AAACCCATAATCCAT
1 -AACCCATAATCCAT
30513425 AACCC
1 AACCC
30513430 TTAACCTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.23
Consensus pattern (14 bp):
AACCCATAATCCAT
Found at i:30513413 original size:29 final size:28
Alignment explanation
Indices: 30513372--30513450 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
30513362 CCCTATCCCT
*
30513372 TTAACCATTAAACCCATAATCCATGACCC
1 TTAACC-TTAAACCCATAATCCATAACCC
30513401 TTAATCCTTAAACCCATAATCCATAACCC
1 TTAA-CCTTAAACCCATAATCCATAACCC
*
30513430 TTAACCTT-TACCCACTAATCC
1 TTAACCTTAAACCCA-TAATCC
30513451 CTAAACTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
27 5 0.11
28 10 0.22
29 29 0.63
30 2 0.04
ACGTcount: A:0.35, C:0.35, G:0.01, T:0.28
Consensus pattern (28 bp):
TTAACCTTAAACCCATAATCCATAACCC
Found at i:30513844 original size:28 final size:29
Alignment explanation
Indices: 30513804--30513858 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
30513794 AATAAATTGT
*
30513804 ATTTTAATCAATATAA-ATATAAATAAACC
1 ATTTAAATCAATA-AATATATAAATAAACC
*
30513833 ATTTAAAT-AATAAATATATACATAAA
1 ATTTAAATCAATAAATATATAAATAAA
30513859 ATACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAAATCAATAAATATATAAATAAACC
Found at i:30514063 original size:39 final size:40
Alignment explanation
Indices: 30513981--30514064 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
30513971 CGGCGTTTTT
*
30513981 CTAATGCTCAACCTATAGCGGCGTTTGTTATAAAACGCCG
1 CTAATACTCAACCTATAGCGGCGTTTGTTATAAAACGCCG
* * *
30514021 CTAATACTCAACCTTTAGTGGTGTTT-TT-TGAAAACGCCG
1 CTAATACTCAACCTATAGCGGCGTTTGTTAT-AAAACGCCG
30514060 CTAAT
1 CTAAT
30514065 GAAACTAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 1 0.03
39 16 0.41
40 22 0.56
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (40 bp):
CTAATACTCAACCTATAGCGGCGTTTGTTATAAAACGCCG
Found at i:30514280 original size:39 final size:39
Alignment explanation
Indices: 30514152--30514283 Score: 110
Period size: 40 Copynumber: 3.3 Consensus size: 39
30514142 TTGAGCAGTT
* * *
30514152 GCGGTGTTTTTTATAAAAGTGCCGCTAATGCTCGATA-TATA
1 GCGGCGTTTTTTAGAAAA-CGCCGCTAATGCT-GA-ACTATA
* * *
30514193 GCGGCG-CTTTTAGAAAAACGCTGCTAATGTCCT-ATCTATA
1 GCGGCGTTTTTTAG-AAAACGCCGCTAATG--CTGAACTATA
*
30514233 GTGGCGTTTGTTTAG-AAACGCCGCTAATGCTGAACTATA
1 GCGGCGTTT-TTTAGAAAACGCCGCTAATGCTGAACTATA
30514272 GCGGCGTTTTTT
1 GCGGCGTTTTTT
30514284 GTTCAAACGA
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
38 5 0.07
39 14 0.19
40 37 0.51
41 10 0.14
42 7 0.10
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (39 bp):
GCGGCGTTTTTTAGAAAACGCCGCTAATGCTGAACTATA
Found at i:30523466 original size:30 final size:29
Alignment explanation
Indices: 30523423--30523486 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
30523413 CAAGTAACCG
30523423 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
30523452 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
30523482 AAGCT
1 AAGCT
30523487 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:30524894 original size:45 final size:46
Alignment explanation
Indices: 30524843--30524951 Score: 139
Period size: 45 Copynumber: 2.3 Consensus size: 46
30524833 AGATCCTGTT
* *
30524843 TGTTGGACATGGCATCGACGTTGAT-CGAAAGCCAGCGTAAGACCA
1 TGTTGGACATGGCATCGACATGGATACGAAAGCCAGCGTAAGACCA
* * * *
30524888 TGTTGGACATGGCATCGACATGGATACGAGAGCTAGTGTAATACCA
1 TGTTGGACATGGCATCGACATGGATACGAAAGCCAGCGTAAGACCA
30524934 TGTCTAGGACATGGCATC
1 TGT-T-GGACATGGCATC
30524952 AGCCTCGACA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 23 0.42
46 19 0.35
47 1 0.02
48 12 0.22
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTTGGACATGGCATCGACATGGATACGAAAGCCAGCGTAAGACCA
Found at i:30532979 original size:40 final size:40
Alignment explanation
Indices: 30532905--30533086 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
30532895 AACCCAAGTA
* *
30532905 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
30532944 CCTTCGGGTCTTAGACCGGATACAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
30532984 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
30533024 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
30533064 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30533087 CATCCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 116 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:30540848 original size:40 final size:40
Alignment explanation
Indices: 30540774--30540954 Score: 242
Period size: 40 Copynumber: 4.5 Consensus size: 40
30540764 AACCCAAGTA
* * *
30540774 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACAGTC-ACTAGCACAAATG
*
30540813 CCTTCGGGTCTTAGCCCGGATACAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACAGTCACTAGCACAAATG
** *
30540853 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATACAGTCACTAGCACAAATG
*
30540893 CCTTCGGGACTTAGCCCGGAT-CTAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATAC-AGTCACTAGCACAAATG
*
30540933 CCTTTGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATA
30540955 TCATCCGAAT
Statistics
Matches: 126, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 12 0.10
40 113 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATACAGTCACTAGCACAAATG
Found at i:30552983 original size:46 final size:46
Alignment explanation
Indices: 30552916--30553088 Score: 255
Period size: 46 Copynumber: 3.8 Consensus size: 46
30552906 TGTAACCCGC
* *
30552916 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
30552962 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
30553008 CCATAAGCT-AACTCGGACTCAACTCAACGAGTTCGGATGCATT--CAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGTTCGG--GCGTTCGCAT
*
30553054 CC-TACGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
30553089 ATGCTCAACC
Statistics
Matches: 119, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
44 1 0.01
45 30 0.25
46 83 0.70
47 1 0.01
48 4 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:30561765 original size:16 final size:16
Alignment explanation
Indices: 30561744--30561775 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30561734 AGCAAATCCT
30561744 GAAATGCCGAAAAGCC
1 GAAATGCCGAAAAGCC
*
30561760 GAAATGCTGAAAAGCC
1 GAAATGCCGAAAAGCC
30561776 AAAAATTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.09
Consensus pattern (16 bp):
GAAATGCCGAAAAGCC
Found at i:30562069 original size:28 final size:28
Alignment explanation
Indices: 30561991--30562093 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 28
30561981 ATTGCATGAC
* **
30561991 TATGAAAGTGATTGGGCCTGACAGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
30562019 TATGAAAGTGATAGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
30562047 TATGCATGTGATTGGG-CTCGATGGGCCA
1 TATGAATGTGATTGGGCCT-GATGGGCCA
* *
30562075 TATGGATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
30562094 AAAATGGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
27 2 0.03
28 61 0.94
29 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:30564211 original size:40 final size:40
Alignment explanation
Indices: 30564157--30564312 Score: 242
Period size: 40 Copynumber: 3.9 Consensus size: 40
30564147 GGGTTTAGCT
*
30564157 GGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
30564197 GGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
30564237 GGATATAGTAACTCACACAAATGCCCTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
30564277 GGATATAGTAACTCGCACAAATGCCTTCGGAACTTA
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
30564313 ACCTGGTTAT
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:30566525 original size:17 final size:18
Alignment explanation
Indices: 30566492--30566525 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30566482 TTTAAAGAAG
30566492 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
30566510 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
30566526 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:30568935 original size:40 final size:40
Alignment explanation
Indices: 30568831--30569046 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 40
30568821 GGATGATAAT
* *
30568831 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
* *
30568871 TGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
30568910 CGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
30568950 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
30568990 CGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
30569030 C-GGCTAAATTCCGAAGG
1 CGGGCTAAGTCCCGAAGG
30569047 TACTTGATTT
Statistics
Matches: 157, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 49 0.31
40 108 0.69
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:30571660 original size:165 final size:161
Alignment explanation
Indices: 30571367--30571708 Score: 456
Period size: 165 Copynumber: 2.1 Consensus size: 161
30571357 TAATTTCATC
* * *
30571367 AAAAATCCATTTAAAAAACTTGTTTATTTAACAACACTCATAATCGTTCATTTAATTTCAAGAAT
1 AAAAAT-CATTTAAAAAACTTGTTTATTTAACAACACTCATAATAGTTCATTAAATTTCAAAAAT
* *
30571432 CAAGAAAATATGCTCAAGGAAAAACCCTAAACCTTTATAAATTTTGCAAATTAGTCCCTAGGCTA
65 CAAGAAAATATGCTCAAGGAAAAACCCTAAAACTTTATAAATTTTGCAAAATAGTCCCTAGGCTA
** * *
30571497 GCTAGATTAAGCTATAGCGACTTCAAAAACAT
130 GCTAGAAAAAGCTACAACGACTTCAAAAACAT
* *
30571529 AAAAATCATTTACAAAACTTGTTTATTTAACAACAATGACTCATAATATTTCATTAAATTTCAAA
1 AAAAATCATTTAAAAAACTTGTTTATTTAACAAC----ACTCATAATAGTTCATTAAATTTCAAA
* * * * *
30571594 AATCATGCAAAA-ATTCTCATGGAAAAACCCTAAAACTTTA-ATATTTTTGCAAAATAGTCTCTA
62 AATCAAG-AAAATATGCTCAAGGAAAAACCCTAAAACTTTATA-AATTTTGCAAAATAGTCCCTA
30571657 GGCTAGCTAGAAAAAGCTACAACGACTTCAAAAACAT
125 GGCTAGCTAGAAAAAGCTACAACGACTTCAAAAACAT
30571694 AAAAATCA-TTAAAAA
1 AAAAATCATTTAAAAA
30571709 CGGGATGAAA
Statistics
Matches: 157, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
161 27 0.17
162 6 0.04
164 7 0.04
165 113 0.72
166 4 0.03
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (161 bp):
AAAAATCATTTAAAAAACTTGTTTATTTAACAACACTCATAATAGTTCATTAAATTTCAAAAATC
AAGAAAATATGCTCAAGGAAAAACCCTAAAACTTTATAAATTTTGCAAAATAGTCCCTAGGCTAG
CTAGAAAAAGCTACAACGACTTCAAAAACAT
Found at i:30572963 original size:21 final size:21
Alignment explanation
Indices: 30572939--30572985 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
30572929 CCACACGGTT
30572939 GTGTACCTCAGCCACACGAG-C
1 GTGTACCTCAGCCACAC-AGCC
**
30572960 GTGTGTCTCAGCCACACAGCC
1 GTGTACCTCAGCCACACAGCC
30572981 GTGTA
1 GTGTA
30572986 TCTTGCTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (21 bp):
GTGTACCTCAGCCACACAGCC
Found at i:30573204 original size:4 final size:4
Alignment explanation
Indices: 30573195--30573298 Score: 118
Period size: 4 Copynumber: 26.0 Consensus size: 4
30573185 TACAGCTTGG
* * *
30573195 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT TTGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * *
30573243 ATGC ATGC ATGG ATGC ATGC ATGC ATGT ATGC ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
30573291 ATGT ATGT
1 ATGT ATGT
30573299 GTACTTTTAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 88 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (4 bp):
ATGT
Found at i:30588225 original size:38 final size:38
Alignment explanation
Indices: 30588127--30588338 Score: 190
Period size: 38 Copynumber: 5.3 Consensus size: 38
30588117 CGAGGTATAA
* * * *
30588127 AACCCGAAAATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT
* * * * *
30588166 AAACTCAGATATAATATCAGCACTAGGCCTGCGGGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
*
30588205 AACCCGGATATAATACCAGCACAAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
30588243 AACCCGGAATCCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCC-G-------GATATAATACCAGCACGAAGCCTGCGGGATTT
* ** *
30588289 AACCCGGATATAATTCCAGCATAAAGCCTGCGGGTCTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTT
30588328 AAGCCCGGATA
1 AA-CCCGGATA
30588339 CACATCAAAT
Statistics
Matches: 143, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
38 63 0.44
39 9 0.06
40 34 0.24
45 1 0.01
46 36 0.25
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:30588283 original size:84 final size:86
Alignment explanation
Indices: 30588171--30588336 Score: 264
Period size: 84 Copynumber: 2.0 Consensus size: 86
30588161 ACTTTAAACT
* * *
30588171 CAGATATAATATCAGCACTAGGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTGC
1 CAGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTGC
30588236 GGG-ATTTAA-CCCGGAATCC
66 GGGTATTTAAGCCCGGAATCC
* *
30588255 CAGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATAAAGCCTGC
1 CAGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTGC
*
30588320 GGGTCTTTAAGCCCGGA
66 GGGTATTTAAGCCCGGA
30588337 TACACATCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
84 63 0.85
85 5 0.07
86 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (86 bp):
CAGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACAAAGCCTGC
GGGTATTTAAGCCCGGAATCC
Found at i:30591728 original size:19 final size:19
Alignment explanation
Indices: 30591704--30591741 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30591694 TTCTCCTTTT
30591704 ACTTTTCTAAAATTGTTAA
1 ACTTTTCTAAAATTGTTAA
*
30591723 ACTTTTCTTAAATTGTTAA
1 ACTTTTCTAAAATTGTTAA
30591742 TAAATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (19 bp):
ACTTTTCTAAAATTGTTAA
Found at i:30593074 original size:8 final size:8
Alignment explanation
Indices: 30593061--30593086 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
30593051 ACTTTAAACC
30593061 TTATTATT
1 TTATTATT
30593069 TTATTATT
1 TTATTATT
30593077 TTATTATT
1 TTATTATT
30593085 TT
1 TT
30593087 GGACTGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:30595706 original size:15 final size:15
Alignment explanation
Indices: 30595670--30595710 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
30595660 GATTCTAAAA
30595670 AATTCAAAAAAT-AT
1 AATTCAAAAAATAAT
30595684 -A-T-AAAAAATAAT
1 AATTCAAAAAATAAT
30595696 AATTCAAAAAATAAT
1 AATTCAAAAAATAAT
30595711 TTTAAACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 7 0.30
12 3 0.13
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (15 bp):
AATTCAAAAAATAAT
Found at i:30599902 original size:14 final size:14
Alignment explanation
Indices: 30599883--30599916 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30599873 TATAAGATCA
30599883 AATTAAATATTCAG
1 AATTAAATATTCAG
* *
30599897 AATTAAATTTTTAG
1 AATTAAATATTCAG
30599911 AATTAA
1 AATTAA
30599917 GATCAAACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (14 bp):
AATTAAATATTCAG
Found at i:30603250 original size:22 final size:22
Alignment explanation
Indices: 30603224--30603268 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
30603214 TTTTAATAAA
30603224 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
30603246 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
30603268 A
1 A
30603269 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:30607019 original size:22 final size:22
Alignment explanation
Indices: 30606993--30607037 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
30606983 TTTTAATAAA
30606993 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
30607015 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
30607037 A
1 A
30607038 CATCCATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:30609440 original size:22 final size:22
Alignment explanation
Indices: 30609380--30609425 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
30609370 AAAGCTAGAA
30609380 CTTAAAGCACACAAAATCAGAC
1 CTTAAAGCACACAAAATCAGAC
30609402 CTTAAAGCACACAAAATCAGAC
1 CTTAAAGCACACAAAATCAGAC
30609424 CT
1 CT
30609426 AAGAGTACAA
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:0.48, C:0.28, G:0.09, T:0.15
Consensus pattern (22 bp):
CTTAAAGCACACAAAATCAGAC
Found at i:30611954 original size:21 final size:21
Alignment explanation
Indices: 30611930--30611974 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
30611920 AGTTAACTGA
*
30611930 AATGAAATATTTCTGTAATTG
1 AATGAAATATTTCTATAATTG
30611951 AATGAAATATTTCTATAATTG
1 AATGAAATATTTCTATAATTG
30611972 AAT
1 AAT
30611975 AATTTAACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (21 bp):
AATGAAATATTTCTATAATTG
Found at i:30612544 original size:15 final size:15
Alignment explanation
Indices: 30612509--30612579 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
30612499 ATATCTTGGG
* *
30612509 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
*
30612524 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
30612539 ATTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
30612554 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
30612569 TTTCTTTATTC
1 TTTCTTTATTC
30612580 GGTTTCCTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
14 2 0.04
15 42 0.91
16 2 0.04
ACGTcount: A:0.15, C:0.18, G:0.10, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:30612574 original size:30 final size:30
Alignment explanation
Indices: 30612500--30612579 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
30612490 CATAGTATCA
* * *
30612500 TATCTTGGGTTTCTTTATCCTAGATCTCTT
1 TATCTTGGATTTCTTTATTCTAGATCTCTC
* * *
30612530 TAT-TCTGGAATTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATTCTAGATCTCTC
30612560 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
30612580 GGTTTCCTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.02
30 39 0.95
31 1 0.02
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.55
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTAGATCTCTC
Found at i:30615093 original size:47 final size:47
Alignment explanation
Indices: 30614974--30615146 Score: 248
Period size: 47 Copynumber: 3.7 Consensus size: 47
30614964 AGGATGTTTG
* * *
30614974 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTA
30615023 -G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
30615067 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
30615114 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
30615147 ACTCATGGAT
Statistics
Matches: 116, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 29 0.25
47 76 0.66
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30618919 original size:41 final size:41
Alignment explanation
Indices: 30618874--30618956 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
30618864 TTTACTTACG
30618874 AGCATATAATCCAAACTCTACATTAAACCCATTTATCAACC
1 AGCATATAATCCAAACTCTACATTAAACCCATTTATCAACC
30618915 AGCATATAATCCAAACTCTACATTAAACCCATTTATCAACC
1 AGCATATAATCCAAACTCTACATTAAACCCATTTATCAACC
30618956 A
1 A
30618957 TACCTATTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (41 bp):
AGCATATAATCCAAACTCTACATTAAACCCATTTATCAACC
Found at i:30620840 original size:64 final size:65
Alignment explanation
Indices: 30620735--30620921 Score: 191
Period size: 67 Copynumber: 2.8 Consensus size: 65
30620725 CATCAAGTGT
* *
30620735 ACAAGAGAGCTACGAGACATTATCATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC-AGAGA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
30620800 TAG
63 TAG
* * * * * *
30620803 ACAAGAGAGCTACAG-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACATCATG
1 ACAAGAGAGCTACAGAGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATG
30620867 TAG
63 TAG
* * * *
30620870 ACAAGAGAGCTAC-GAGATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTGT
1 ACAAGAGAGCTACAGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGT
30620922 TCGCAATGTG
Statistics
Matches: 98, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
63 1 0.01
64 25 0.26
65 3 0.03
66 24 0.24
67 32 0.33
68 13 0.13
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (65 bp):
ACAAGAGAGCTACAGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:30646061 original size:26 final size:25
Alignment explanation
Indices: 30646007--30646075 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 25
30645997 TTCTCACCCT
* *
30646007 AATTTTACCCCAGTTAAATTTTGAC
1 AATTTTACCCCTGGTAAATTTTGAC
*
30646032 AATTTTACCCCTGGTAAGTTTTTGAC
1 AATTTTACCCCTGGTAA-ATTTTGAC
*
30646058 AATTTTACCCCTAGTAAA
1 AATTTTACCCCTGGTAAA
30646076 ATTTCGAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 15 0.39
26 23 0.61
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.39
Consensus pattern (25 bp):
AATTTTACCCCTGGTAAATTTTGAC
Found at i:30648200 original size:19 final size:19
Alignment explanation
Indices: 30648176--30648215 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30648166 AGCTCCCATG
30648176 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
30648195 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
30648214 TA
1 TA
30648216 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:30649478 original size:14 final size:14
Alignment explanation
Indices: 30649456--30649503 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
30649446 ACCTAAACCG
* *
30649456 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
30649470 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
30649484 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
30649498 ACCATT
1 ACCATT
30649504 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:30655926 original size:49 final size:49
Alignment explanation
Indices: 30655822--30655949 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
30655812 GCACATTAAA
* * * * *
30655822 GTCGATGTCGTGTCTGAGACAAGTCTTACACTAACTTTCATATACCGAT
1 GTCGATGCCATGTCTCAGACAGGTCTTACACTAACTCTCATATACCGAT
* ** * * *
30655871 GCCGATGCCATGTCTCAGACAGGTCTTACACTGGCTCTCATCTATCGGT
1 GTCGATGCCATGTCTCAGACAGGTCTTACACTAACTCTCATATACCGAT
* *
30655920 GTCGATGCCATGTCCCAGATAGGTCTTACA
1 GTCGATGCCATGTCTCAGACAGGTCTTACA
30655950 TTGACAAACA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
GTCGATGCCATGTCTCAGACAGGTCTTACACTAACTCTCATATACCGAT
Found at i:30656032 original size:48 final size:46
Alignment explanation
Indices: 30655972--30656133 Score: 162
Period size: 46 Copynumber: 3.5 Consensus size: 46
30655962 AAGCTGCTAC
* * * * *
30655972 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGC-TCT-CATCCCAAGGCCGATG
* * *
30656020 CATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTCTCATCCCAAGGCCGATG
* * *****
30656066 CATGTCCTAGACATGTCTTACACTGGCACTCATGATGTGGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTCTCATCCCAAGGCCGATG
*
30656112 CATGTCCCAGACATGTCTTACA
1 CATGTCCTAGACATGTCTTACA
30656134 TTGGCTCACA
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
46 69 0.72
47 2 0.02
48 25 0.26
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTAGCTCTCATCCCAAGGCCGATG
Found at i:30661213 original size:12 final size:12
Alignment explanation
Indices: 30661198--30661231 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30661188 CTTTTCTCTT
*
30661198 TTCTTTGGCCAA
1 TTCTTCGGCCAA
*
30661210 TTCTTCAGCCAA
1 TTCTTCGGCCAA
30661222 TTCTTCGGCC
1 TTCTTCGGCC
30661232 TTACATTCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.32, G:0.15, T:0.38
Consensus pattern (12 bp):
TTCTTCGGCCAA
Found at i:30662373 original size:19 final size:21
Alignment explanation
Indices: 30662349--30662387 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
30662339 ATTTTGAAAT
30662349 AGGGC-ACACGCCC-TGTGGA
1 AGGGCAACACGCCCGTGTGGA
30662368 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
30662388 CTACTATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:30663880 original size:46 final size:46
Alignment explanation
Indices: 30663830--30663941 Score: 154
Period size: 46 Copynumber: 2.4 Consensus size: 46
30663820 CCGATGCGTG
*
30663830 TCCCAAACATGTCTTACACTGACACTCATGATGTAGCCT-ATTCATA
1 TCCCAAACATGTCTTACACTGACACTCATGATGT-GCCTGATGCATA
* * * *
30663876 TCCCAGACATGTCTTACACTGGCACTCATGATGTGGCTGATGCATG
1 TCCCAAACATGTCTTACACTGACACTCATGATGTGCCTGATGCATA
*
30663922 TCCCAAACATATCTTACACT
1 TCCCAAACATGTCTTACACT
30663942 AGCTCACATA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 3 0.05
46 55 0.95
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (46 bp):
TCCCAAACATGTCTTACACTGACACTCATGATGTGCCTGATGCATA
Found at i:30671373 original size:46 final size:46
Alignment explanation
Indices: 30671323--30671498 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
30671313 TGATTGAGCA
30671323 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30671369 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30671414 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30671462 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30671499 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30671479 original size:93 final size:93
Alignment explanation
Indices: 30671320--30671491 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
30671310 GGATGATTGA
*
30671320 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
30671385 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30671413 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
30671477 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
30671492 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30674479 original size:21 final size:20
Alignment explanation
Indices: 30674453--30674497 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
30674443 GGGAATCCTA
*
30674453 ATGTGGCTAGTTAACTAGCT
1 ATGTGGCCAGTTAACTAGCT
*
30674473 GATGTGGCCAGTTAACTTGCT
1 -ATGTGGCCAGTTAACTAGCT
30674494 ATGT
1 ATGT
30674498 TGGACGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (20 bp):
ATGTGGCCAGTTAACTAGCT
Found at i:30675757 original size:27 final size:27
Alignment explanation
Indices: 30675705--30675774 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
30675695 AAACATGCAA
*
30675705 TATTACATACTAGTTAATATTATTTAT
1 TATTACATACTAGTTAATAATATTTAT
30675732 TATTAC-TACTAG-TAATTAATA-TT-T
1 TATTACATACTAGTTAA-TAATATTTAT
30675756 TATTA-A-ACTAG-TAATAATA
1 TATTACATACTAGTTAATAATA
30675775 GGAAAACAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 5 0.12
23 8 0.20
24 6 0.15
25 5 0.12
26 10 0.25
27 6 0.15
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.47
Consensus pattern (27 bp):
TATTACATACTAGTTAATAATATTTAT
Found at i:30676092 original size:6 final size:6
Alignment explanation
Indices: 30676078--30676152 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
30676068 TTCCATTTTC
* * * *
30676078 TCTTAT TCTTCT TCTCCT TC-TCT TCTTTT TCTTCT TCTTTT TCTTC-
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * *
30676124 TCTTAT TCTTCT TTTTC- TCTTAT TCTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
30676153 ACTGCCCAGG
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
5 11 0.21
6 42 0.79
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTCT
Found at i:30676097 original size:9 final size:9
Alignment explanation
Indices: 30676078--30676152 Score: 66
Period size: 9 Copynumber: 8.7 Consensus size: 9
30676068 TTCCATTTTC
*
30676078 TCTTATTCT
1 TCTTCTTCT
*
30676087 TCTTCTCCT
1 TCTTCTTCT
30676096 TC-TCTTCT
1 TCTTCTTCT
*
30676104 TTTTCTTCT
1 TCTTCTTCT
*
30676113 TCTTTTTCT
1 TCTTCTTCT
*
30676122 TC-TCTTAT
1 TCTTCTTCT
*
30676130 TCTTCTTTT
1 TCTTCTTCT
*
30676139 TC-TCTTAT
1 TCTTCTTCT
30676147 TCTTCT
1 TCTTCT
30676153 ACTGCCCAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
8 19 0.36
9 34 0.64
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (9 bp):
TCTTCTTCT
Found at i:30676100 original size:20 final size:19
Alignment explanation
Indices: 30676084--30676152 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
30676074 TTTCTCTTAT
* *
30676084 TCTTCTTCTCCTTCTCTTC
1 TCTTATTCTTCTTCTCTTC
* * *
30676103 TTTTTCTTCTTCTTTTTCTTC
1 -TCTTATTCTTC-TTCTCTTC
30676124 TCTTATTCTTCTT-T-TTC
1 TCTTATTCTTCTTCTCTTC
30676141 TCTTATTCTTCT
1 TCTTATTCTTCT
30676153 ACTGCCCAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.35
18 1 0.02
19 2 0.05
20 18 0.42
21 7 0.16
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTATTCTTCTTCTCTTC
Found at i:30676109 original size:23 final size:21
Alignment explanation
Indices: 30676074--30676144 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 21
30676064 CTCCTTCCAT
* *
30676074 TTTCTCTTATTCTTCTTC-TC
1 TTTCTCTTCTTTTTCTTCTTC
*
30676094 CTTCTCTTCTTTTTCTTCTTC
1 TTTCTCTTCTTTTTCTTCTTC
*
30676115 TTTTTCTTCTCTTATTCTTCTT-
1 TTTCTCTTCT-TT-TTCTTCTTC
30676137 TTTCTCTT
1 TTTCTCTT
30676145 ATTCTTCTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 15 0.36
21 10 0.24
22 9 0.21
23 8 0.19
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTCTCTTCTTTTTCTTCTTC
Found at i:30676134 original size:32 final size:32
Alignment explanation
Indices: 30676073--30676152 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
30676063 TCTCCTTCCA
30676073 TTTTC-TCTTATTCTTCTTCTCCTTCTCTTCT
1 TTTTCTTCTTATTCTTCTTCTCCTTCTCTTCT
* * *
30676104 TTTTCTTCTTCTTTTTCTTCT-CTTATTCTTCT
1 TTTTCTTCTTATTCTTCTTCTCCTT-CTCTTCT
30676136 TTTTC-TCTTATTCTTCT
1 TTTTCTTCTTATTCTTCT
30676153 ACTGCCCAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 18 0.43
32 24 0.57
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.69
Consensus pattern (32 bp):
TTTTCTTCTTATTCTTCTTCTCCTTCTCTTCT
Found at i:30676150 original size:23 final size:22
Alignment explanation
Indices: 30676078--30676150 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
30676068 TTCCATTTTC
* * *
30676078 TCTTATTCTTCTTCTCCTTCTCT
1 TCTTATTCTTCTTTTTC-TCTTT
* * *
30676101 TCTTTTTCTTCTTCTTTTTCTTC
1 TCTTATTCTTCTT-TTTCTCTTT
30676124 TCTTATTCTTCTTTTTCTCTTAT
1 TCTTATTCTTCTTTTTCTCTT-T
30676147 TCTT
1 TCTT
30676151 CTACTGCCCA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 7 0.18
23 31 0.79
24 1 0.03
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.68
Consensus pattern (22 bp):
TCTTATTCTTCTTTTTCTCTTT
Found at i:30676151 original size:17 final size:17
Alignment explanation
Indices: 30676073--30676152 Score: 82
Period size: 17 Copynumber: 5.0 Consensus size: 17
30676063 TCTCCTTCCA
30676073 TTTTCTCTTATTCTTC-
1 TTTTCTCTTATTCTTCT
* *
30676089 TTCTC-CTT-CTCTTC-
1 TTTTCTCTTATTCTTCT
*
30676103 TTTT-TCTTCTTCTT-T
1 TTTTCTCTTATTCTTCT
30676118 TTCTTCTCTTATTCTTCT
1 TT-TTCTCTTATTCTTCT
30676136 TTTTCTCTTATTCTTCT
1 TTTTCTCTTATTCTTCT
30676153 ACTGCCCAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
14 11 0.21
15 9 0.17
16 6 0.11
17 24 0.45
18 3 0.06
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTCTCTTATTCTTCT
Found at i:30678128 original size:20 final size:20
Alignment explanation
Indices: 30678103--30678140 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
30678093 TAAAATATTC
*
30678103 CTTAAATATTTTGATAAATT
1 CTTAAATATTTTAATAAATT
30678123 CTTAAATATTTTAATAAA
1 CTTAAATATTTTAATAAA
30678141 AAAATTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
CTTAAATATTTTAATAAATT
Found at i:30678224 original size:22 final size:22
Alignment explanation
Indices: 30678183--30678224 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30678173 CTGTTTTATC
* **
30678183 TATTTTATGATTTGGGTGTAGT
1 TATTATATGATTTGAATGTAGT
30678205 TATTATATGATTTGAATGTA
1 TATTATATGATTTGAATGTA
30678225 ATTTTATTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (22 bp):
TATTATATGATTTGAATGTAGT
Found at i:30678809 original size:21 final size:19
Alignment explanation
Indices: 30678776--30678816 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
30678766 AATTGAATAG
30678776 TAAAATAATTAAAAATGAA
1 TAAAATAATTAAAAATGAA
*
30678795 TAAAATATTATTAAAATTGAA
1 TAAAATA--ATTAAAAATGAA
30678816 T
1 T
30678817 TGAATGACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
TAAAATAATTAAAAATGAA
Found at i:30680995 original size:42 final size:42
Alignment explanation
Indices: 30680884--30680997 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 42
30680874 TACTATACCA
* * *
30680884 ATGCCATATCCCAGATATGGCCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCG
* **
30680926 ATGCCAATAGCCCAGATATTTTCTTACACGA-AGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAGA-TCTCATATCG
30680969 ATGCCATATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
30680998 TAATCCCAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCG
Found at i:30685569 original size:53 final size:54
Alignment explanation
Indices: 30685440--30685694 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
30685430 ACGCAGGCAC
* * * *
30685440 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
30685489 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * * *
30685542 CTCACCAATGCCATGCCTTGGCGTGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
30685597 CTTATCAATGCCATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
30685650 CGTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 C-TTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30685695 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 9 0.05
55 69 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:30685631 original size:108 final size:110
Alignment explanation
Indices: 30685487--30685687 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
30685477 ATCCTTTTGA
* * *
30685487 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AAC-TCACCAA
1 AACTTACCAATGCCATGTCTTAACATGGTCTTACATGATATCCTTGCCTTA-GAAACGTCACCAA
*
30685550 -TGCCATGCCTTGGCGTGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
30685595 AACTTATCAATGCCATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTAGAAACGTTACCAAT
1 AACTTACCAATGCCATGTCTTAACATGGTCTTACATGATATCCTTGCCTTAGAAACGTCACCAAT
30685660 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
30685688 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 6 0.07
110 27 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTAACATGGTCTTACATGATATCCTTGCCTTAGAAACGTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:30692773 original size:16 final size:16
Alignment explanation
Indices: 30692754--30692784 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30692744 CTTCTTCACT
30692754 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
30692770 TACTTACTTACTTAA
1 TACTCACTTACTTAA
30692785 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:30692790 original size:20 final size:20
Alignment explanation
Indices: 30692751--30692790 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30692741 AAACTTCTTC
* *
30692751 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
30692771 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
30692791 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:30693166 original size:55 final size:53
Alignment explanation
Indices: 30692976--30693230 Score: 218
Period size: 55 Copynumber: 4.8 Consensus size: 53
30692966 ACGCGAGCAC
* * * * *
30692976 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * *
30693025 CTTACCATTGCCTTGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
30693078 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* *** *
30693133 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
30693186 CGTCACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 C-TTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
30693231 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 8 0.05
55 71 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:30693167 original size:108 final size:110
Alignment explanation
Indices: 30693023--30693223 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
30693013 ATCCTTTTGA
* * *
30693023 AACTTACCATTGCCTTGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AAC-TCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACGTCACCAA
30693086 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
30693131 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTAGAAACGTCACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACGTCACCAAT
30693196 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
30693224 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACGTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:30698798 original size:42 final size:42
Alignment explanation
Indices: 30698687--30698800 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 42
30698677 TACTATACCA
* * *
30698687 ATGCCATATCCCAGATATGGCCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCG
* **
30698729 ATGCCAATAGCCCAGATATTTTCTTACACGA-AGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAGA-TCTCATATCG
30698772 ATGCCATATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
30698801 TAATCCCAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCG
Found at i:30710641 original size:24 final size:24
Alignment explanation
Indices: 30710609--30710693 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
30710599 TTACTCATTT
30710609 GCACACATAGTGCCGCATTTCCTC
1 GCACACATAGTGCCGCATTTCCTC
*** *
30710633 GCACACATAGTGCTATATAATT--TT
1 GCACACATAGTGCCGCAT--TTCCTC
**
30710657 GCACACATAGTGCCGCATAACCTC
1 GCACACATAGTGCCGCATTTCCTC
30710681 GCACACATAGTGC
1 GCACACATAGTGC
30710694 TGAAATTTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
24 45 0.96
26 2 0.04
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (24 bp):
GCACACATAGTGCCGCATTTCCTC
Found at i:30727720 original size:21 final size:21
Alignment explanation
Indices: 30727688--30727764 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 21
30727678 CGTATGTACA
30727688 AATTATTATGTTTAAGTTGTTT
1 AATTA-TATGTTTAAGTTGTTT
30727710 AATTATATG-TTAA-TATGTATTT
1 AATTATATGTTTAAGT-TG--TTT
* *
30727732 AAAATGTATGTTTAAGTTGTTT
1 -AATTATATGTTTAAGTTGTTT
*
30727754 AATTACATGTT
1 AATTATATGTT
30727765 AATATGTACT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 1 0.02
20 6 0.14
21 12 0.27
22 11 0.25
23 7 0.16
24 6 0.14
25 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (21 bp):
AATTATATGTTTAAGTTGTTT
Found at i:30727743 original size:44 final size:44
Alignment explanation
Indices: 30727694--30727781 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
30727684 TACAAATTAT
* *
30727694 TATGTTTAAGTTGTTTAATTATATGTTAATATGTATTTAAAATG
1 TATGTTTAAGTTGTTTAATTACATGTTAATATGTACTTAAAATG
30727738 TATGTTTAAGTTGTTTAATTACATGTTAATATGTACTTAAAATG
1 TATGTTTAAGTTGTTTAATTACATGTTAATATGTACTTAAAATG
30727782 CTATTGAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.14, T:0.50
Consensus pattern (44 bp):
TATGTTTAAGTTGTTTAATTACATGTTAATATGTACTTAAAATG
Found at i:30740708 original size:22 final size:22
Alignment explanation
Indices: 30740683--30740725 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
30740673 ATTATTAACC
*
30740683 TAATGAATTTTAATTAATTTTA
1 TAATAAATTTTAATTAATTTTA
*
30740705 TAATAAATTTTTATTAATTTT
1 TAATAAATTTTAATTAATTTT
30740726 GATTGGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TAATAAATTTTAATTAATTTTA
Done.