Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 351 of 433
Found at i:110404697 original size:27 final size:27
Alignment explanation
Indices: 110404617--110404709 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
110404607 TACCCCTATT
** *
110404617 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAGTGACCGTAAAGCCCATGTA
* * *
110404644 AGGTAAAGTGATCATAAAGCCCTTGTA
1 AGGTAAAGTGACCGTAAAGCCCATGTA
*
110404671 GGGTAAAGTGACCGTAATA-CCCATGTA
1 AGGTAAAGTGACCGTAA-AGCCCATGTA
* *
110404698 TGGTAAAATGAC
1 AGGTAAAGTGAC
110404710 GAATATGCCC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (27 bp):
AGGTAAAGTGACCGTAAAGCCCATGTA
Found at i:110405541 original size:26 final size:26
Alignment explanation
Indices: 110405512--110405662 Score: 196
Period size: 26 Copynumber: 5.8 Consensus size: 26
110405502 GAGGAAGTGC
* **
110405512 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
110405538 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
110405564 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
110405590 AAAAAGGGCTTATGCCACAGTTTACCG
1 -AAAAGGGCTTATGCCCCAGTTTACCG
* *
110405617 AGAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
110405643 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
110405663 ATTAAAGAGG
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
25 10 0.09
26 77 0.70
27 23 0.21
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:110405623 original size:53 final size:52
Alignment explanation
Indices: 110405512--110405656 Score: 211
Period size: 53 Copynumber: 2.8 Consensus size: 52
110405502 GAGGAAGTGC
* *
110405512 AAAAGGGCTTATGCCCCAATTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCACAGTTTACCA
*
110405564 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCACAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG-AAAAGGGCTTATGCCACAGTTTACCA
* * **
110405617 AGAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTT-TGCC
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCC
110405657 CTAGTTATTA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
51 4 0.05
52 35 0.41
53 46 0.54
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCACAGTTTACCA
Found at i:110405647 original size:79 final size:78
Alignment explanation
Indices: 110405512--110405662 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 78
110405502 GAGGAAGTGC
* **
110405512 AAAAGGGCTTATGCCCCAATTTATTGAAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATG
1 AAAAGGGCTTATGCCACAATTTACCGAAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTT-TG
110405577 CCCCAGTTTATTGA
65 CCCCAGTTTATTGA
* * * *
110405591 AAAAGGGCTTATGCCACAGTTTACCGAGAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTTGC
1 AAAAGGGCTTATGCCACAATTTACCGAAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTTGC
*
110405656 CCTAGTT
66 CCCAGTT
110405663 ATTAAAGAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 9 0.14
79 55 0.86
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (78 bp):
AAAAGGGCTTATGCCACAATTTACCGAAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTTGC
CCCAGTTTATTGA
Found at i:110405866 original size:42 final size:42
Alignment explanation
Indices: 110405807--110405898 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
110405797 TAGTCTCCCC
** ** *
110405807 AAATGGGCTTGGTTACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
110405849 AAATGGGCTTGCATACATTTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
110405891 AAATGGGC
1 AAATGGGC
110405899 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:110420423 original size:18 final size:18
Alignment explanation
Indices: 110420402--110420443 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
110420392 GTTGTTGAGA
110420402 AGGAAGTTGCTGCAGAAG
1 AGGAAGTTGCTGCAGAAG
* *
110420420 AGGAAGTTGTTGCTGAAG
1 AGGAAGTTGCTGCAGAAG
*
110420438 AAGAAG
1 AGGAAG
110420444 AAGAAGTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.38, T:0.19
Consensus pattern (18 bp):
AGGAAGTTGCTGCAGAAG
Found at i:110420433 original size:21 final size:21
Alignment explanation
Indices: 110420399--110420462 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
110420389 ATTGTTGTTG
*
110420399 AGAAGGAAGTTGCTGCAGAAGA
1 AGAA-GAAGTTGCTGAAGAAGA
* **
110420421 GGAAGTTGTTGCTGAAGAAGA
1 AGAAGAAGTTGCTGAAGAAGA
*
110420442 AGAAGAAGTTGCTGAAAAAGA
1 AGAAGAAGTTGCTGAAGAAGA
110420463 GAAAAAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 31 0.91
22 3 0.09
ACGTcount: A:0.42, C:0.06, G:0.34, T:0.17
Consensus pattern (21 bp):
AGAAGAAGTTGCTGAAGAAGA
Found at i:110431836 original size:29 final size:29
Alignment explanation
Indices: 110431804--110431914 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 29
110431794 ATACCCTCCG
** *
110431804 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
110431833 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
110431862 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
110431891 AGCACGCACACTTAGTGCCA-ATTT
1 AGCTCGCACACATAGTGCCATATTT
110431915 CGTCACCATA
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 3 0.04
29 64 0.94
30 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:110439586 original size:29 final size:29
Alignment explanation
Indices: 110439554--110439660 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
110439544 ATACCCTCCG
** *
110439554 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
110439583 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
110439612 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
110439641 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
110439661 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:110447270 original size:17 final size:19
Alignment explanation
Indices: 110447248--110447282 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
110447238 TAATTCAAAG
110447248 TCAATTT-CA-TATTTTCA
1 TCAATTTACACTATTTTCA
110447265 TCAATTTACACTATTTTC
1 TCAATTTACACTATTTTC
110447283 TATTCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (19 bp):
TCAATTTACACTATTTTCA
Found at i:110449144 original size:22 final size:22
Alignment explanation
Indices: 110449116--110449159 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
110449106 AAGTTAAACA
*
110449116 AGATGCAATTACGATTATTCAT
1 AGATGCAATTAAGATTATTCAT
110449138 AGATGCAATTAAGATTATTCAT
1 AGATGCAATTAAGATTATTCAT
110449160 TAATTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (22 bp):
AGATGCAATTAAGATTATTCAT
Found at i:110452737 original size:2 final size:2
Alignment explanation
Indices: 110452732--110452765 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
110452722 AATCAACATC
110452732 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
110452766 TATTTTCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110453118 original size:16 final size:16
Alignment explanation
Indices: 110453081--110453118 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
110453071 TTTTAAATGA
110453081 ATTTTTTAAAATTTAT
1 ATTTTTTAAAATTTAT
*
110453097 AATTTTTGAAAATTT-T
1 -ATTTTTTAAAATTTAT
110453113 ATTTTT
1 ATTTTT
110453119 AATTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 1 0.05
17 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
ATTTTTTAAAATTTAT
Found at i:110453184 original size:20 final size:21
Alignment explanation
Indices: 110453161--110453199 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
110453151 AACTTTTGAA
*
110453161 AATTTTGG-ATTTTTTTTATT
1 AATTTTGGAATTATTTTTATT
110453181 AATTTTGGAATTATTTTTA
1 AATTTTGGAATTATTTTTA
110453200 ATTTTTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (21 bp):
AATTTTGGAATTATTTTTATT
Found at i:110454149 original size:18 final size:18
Alignment explanation
Indices: 110454126--110454163 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
110454116 GGGTCAAACC
110454126 ATTAAATAGAATTAA-TTA
1 ATTAAATAG-ATTAAGTTA
*
110454144 ATTAAATCGATTAAGTTA
1 ATTAAATAGATTAAGTTA
110454162 AT
1 AT
110454164 ATGTATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (18 bp):
ATTAAATAGATTAAGTTA
Found at i:110454748 original size:44 final size:44
Alignment explanation
Indices: 110454685--110454771 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
110454675 AAGTCATGCA
110454685 TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAAT
1 TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAAT
110454729 TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAA
1 TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAA
110454772 GTTGTAGATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (44 bp):
TTGGTGTTGTTAGTTAGTTAATATGGGAATATCATGTTAGAAAT
Found at i:110455252 original size:8 final size:8
Alignment explanation
Indices: 110455239--110455266 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
110455229 CGTAAGATAA
110455239 GTGAATAT
1 GTGAATAT
110455247 GTGAATAT
1 GTGAATAT
110455255 GTGAATAT
1 GTGAATAT
110455263 GTGA
1 GTGA
110455267 CTACTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (8 bp):
GTGAATAT
Found at i:110457106 original size:23 final size:23
Alignment explanation
Indices: 110457076--110457131 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
110457066 AATAAGACAC
*
110457076 AAGGCATT-CTGAAATATACCACA
1 AAGGCATTACTG-AATACACCACA
*
110457099 AAGGCATTACTGAATACACCAGA
1 AAGGCATTACTGAATACACCACA
*
110457122 AAAGCATTAC
1 AAGGCATTAC
110457132 AAAACTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (23 bp):
AAGGCATTACTGAATACACCACA
Found at i:110462085 original size:21 final size:20
Alignment explanation
Indices: 110462052--110462091 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
110462042 TATGGTTAGA
110462052 AATTTTTGAAAAATAAAAAAT
1 AATTTTTGAAAAA-AAAAAAT
*
110462073 AATTTTTTTAAAAAAAAAA
1 AA-TTTTTGAAAAAAAAAA
110462092 CCTCAAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AATTTTTGAAAAAAAAAAAT
Found at i:110462582 original size:20 final size:20
Alignment explanation
Indices: 110462557--110462612 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
110462547 CTAGTGGGAA
*
110462557 TTTATTTTTTAAGAATAAAT
1 TTTATTTTTTGAGAATAAAT
110462577 TTTATTTTTTGAGAATAAAT
1 TTTATTTTTTGAGAATAAAT
110462597 TTTATTTTTTGAGAAT
1 TTTATTTTTTGAGAAT
110462613 TACAATTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (20 bp):
TTTATTTTTTGAGAATAAAT
Found at i:110467888 original size:43 final size:43
Alignment explanation
Indices: 110467807--110467930 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
110467797 TCTGAACTCA
* **
110467807 TTCACCGGCATT-TCGCCTGCTAGGCTTGAA-GCCTGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGGCC-GATATCAT
* *
110467849 TTCACCGGCATTATAGCCTACTAGGCCCGAAGGCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGGCCGATATCAT
* * *
110467892 CTCACCGGCATTACAGCCTGCTAGGCCCGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGGCCGATA
110467931 ATATTATTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
42 12 0.17
43 56 0.79
44 3 0.04
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGGCCGATATCAT
Found at i:110469882 original size:14 final size:15
Alignment explanation
Indices: 110469853--110469882 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110469843 CAAAATTTAG
110469853 ACATGATACTTTCAC
1 ACATGATACTTTCAC
110469868 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
110469882 A
1 A
110469883 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:110481123 original size:32 final size:32
Alignment explanation
Indices: 110481087--110481156 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
110481077 TTCTCGTACC
110481087 ACGAACTACTTCAAATTCGAGTGTGGGCTAGA
1 ACGAACTACTTCAAATTCGAGTGTGGGCTAGA
* *
110481119 ACGAACTACTTCAAGTTCTAGTGTGGGCTAGA
1 ACGAACTACTTCAAATTCGAGTGTGGGCTAGA
110481151 ACGAAC
1 ACGAAC
110481157 CGAATCAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (32 bp):
ACGAACTACTTCAAATTCGAGTGTGGGCTAGA
Found at i:110488396 original size:28 final size:28
Alignment explanation
Indices: 110488351--110488412 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
110488341 GAGCAACCCA
* *
110488351 AAATATCACAATTTGTGTGAGA-AAATTC
1 AAATATCACAACTCGTGTGA-ACAAATTC
*
110488379 AAATATCACAGCTCGTGTGAACAAATTC
1 AAATATCACAACTCGTGTGAACAAATTC
*
110488407 GAATAT
1 AAATAT
110488413 TACTTGTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (28 bp):
AAATATCACAACTCGTGTGAACAAATTC
Found at i:110490060 original size:17 final size:17
Alignment explanation
Indices: 110490040--110490102 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
110490030 ATAAGAAATA
110490040 ATATATAATAAAATATT
1 ATATATAATAAAATATT
* *
110490057 ATATGTAATAAAATATA
1 ATATATAATAAAATATT
* *
110490074 AAATATAATGAAATA-T
1 ATATATAATAAAATATT
110490090 A-A-ATAATAAAATA
1 ATATATAATAAAATA
110490103 ACATATAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 1 0.03
17 27 0.69
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATATAATAAAATATT
Found at i:110490060 original size:48 final size:47
Alignment explanation
Indices: 110489983--110490126 Score: 136
Period size: 48 Copynumber: 3.0 Consensus size: 47
110489973 TTTTATATAC
**
110489983 TAAT-AAATAATAAATAATGTAATAATATATAATAAAAGGA-AGATAATA
1 TAATGAAATAATAAATAATAAAATAATATATAATAAAA-GATA-A-AATA
* * *
110490031 TAA-GAAATAATATATAATAAAATATTATATGTAATAAAATATAAAATA
1 TAATGAAATAATAAATAATAAAATA--ATATATAATAAAAGATAAAATA
* *
110490079 TAATGAAAT-ATAAATAATAAAATAACATATAATTAAAA-ATAATATA
1 TAATGAAATAATAAATAATAAAATAATATATAA-TAAAAGATAAAATA
110490125 TA
1 TA
110490127 TTGTTTTTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
46 15 0.19
47 5 0.06
48 41 0.51
49 7 0.09
50 13 0.16
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (47 bp):
TAATGAAATAATAAATAATAAAATAATATATAATAAAAGATAAAATA
Found at i:110490065 original size:24 final size:22
Alignment explanation
Indices: 110490038--110490102 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 22
110490028 ATATAAGAAA
110490038 TAATATATAATAAAATATTATATG
1 TAATATATAATAAAATA-TA-ATG
*
110490062 TAATA-AAATATAAAATATAATG
1 TAATATATA-ATAAAATATAATG
*
110490084 AAATATAAATAATAAAATA
1 TAATAT--ATAATAAAATA
110490103 ACATATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 7 0.21
23 4 0.12
24 21 0.62
25 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (22 bp):
TAATATATAATAAAATATAATG
Found at i:110490120 original size:29 final size:28
Alignment explanation
Indices: 110490063--110490120 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
110490053 TATTATATGT
* *
110490063 AATAAAATATAAAATATAATGAAATATA
1 AATAAAAAATAAAATATAATGAAAAATA
* *
110490091 AATAATAAAATAACATATAATTAAAAATA
1 AATAA-AAAATAAAATATAATGAAAAATA
110490120 A
1 A
110490121 TATATATTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (28 bp):
AATAAAAAATAAAATATAATGAAAAATA
Found at i:110496841 original size:39 final size:39
Alignment explanation
Indices: 110496757--110496909 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
110496747 TATGGTAACC
** * *
110496757 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
110496797 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
110496836 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
110496875 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
110496910 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:110496883 original size:78 final size:79
Alignment explanation
Indices: 110496726--110496908 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
110496716 TCGTTCAAAC
* * **
110496726 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
110496791 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
110496806 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
110496870 CAATTTGCACAATT
66 CAATTTGCACAATT
110496884 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
110496909 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:110505088 original size:24 final size:24
Alignment explanation
Indices: 110505043--110505088 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
110505033 TGCATTATGG
**
110505043 AAGGAAAATAAAGAAATGAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAAA
* *
110505067 AAGGAAAATGATGAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAA
110505089 GAGTGTGGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (24 bp):
AAGGAAAATAAAGAAAAAAAAAAA
Found at i:110506409 original size:29 final size:29
Alignment explanation
Indices: 110506376--110506506 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
110506366 GTGACGAGAT
110506376 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
110506405 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
110506434 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
110506463 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
110506492 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
110506507 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:110508015 original size:39 final size:39
Alignment explanation
Indices: 110507955--110508044 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 39
110507945 TGTTACATAA
* *
110507955 CCCGGATATCACAATTTGCACAATTGCCTTCGGGCTTAG
1 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
*
110507994 CCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAG
1 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
110508033 CCCGGATATCAC
1 CCCGGATATCAC
110508045 TCGAACATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (39 bp):
CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
Found at i:110517094 original size:17 final size:17
Alignment explanation
Indices: 110517072--110517115 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
110517062 TTGTTATCAC
*
110517072 TATTATTTTTATATTAT
1 TATTATTATTATATTAT
110517089 TATTATTATTATATTAT
1 TATTATTATTATATTAT
*
110517106 AATTAGTTAT
1 TATTA-TTAT
110517116 ATTTTAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTATTATTATATTAT
Found at i:110517103 original size:14 final size:14
Alignment explanation
Indices: 110517072--110517118 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
110517062 TTGTTATCAC
*
110517072 TATTATTTTTA-TA
1 TATTATTATTATTA
110517085 TTATTATTATTATTA
1 -TATTATTATTATTA
*
110517100 TATTATAATTAGTTA
1 TATTATTATTA-TTA
110517115 TATT
1 TATT
110517119 TTAAATGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 20 0.69
15 9 0.31
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:110517171 original size:15 final size:15
Alignment explanation
Indices: 110517153--110517181 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
110517143 TATATGCATA
110517153 TATATTTATTATTAT
1 TATATTTATTATTAT
110517168 TATATTTATTATTA
1 TATATTTATTATTA
110517182 ATATTATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTATTATTAT
Found at i:110517321 original size:23 final size:24
Alignment explanation
Indices: 110517293--110517496 Score: 140
Period size: 25 Copynumber: 8.4 Consensus size: 24
110517283 TCATTTCTAA
*
110517293 TATATATATATATTGTATATGTTTT
1 TATATATATATA-TGTATATATTTT
110517318 TATATATAT-TATGTATATATTTT
1 TATATATATATATGTATATATTTT
110517341 TA-ATAT-TAT-TAGTTATATATTTT
1 TATATATATATAT-G-TATATATTTT
*
110517364 T-TATACTATTTCATGTATATATTTT
1 TATATA-TATAT-ATGTATATATTTT
*
110517389 TATAT-TATCTTATGTATATATTTT
1 TATATATAT-ATATGTATATATTTT
*
110517413 T-TAATAATTATATTATGTATGTATTTT
1 TAT-AT-A-TATA-TATGTATATATTTT
* * *
110517440 TA-ACACTATATTATGTACATACTTT
1 TATATA-TATA-TATGTATATATTTT
*
110517465 TA-ATAT-TATTATGTATTTATTTT
1 TATATATATA-TATGTATATATTTT
*
110517488 AATATATAT
1 TATATATAT
110517497 GTACATATTT
Statistics
Matches: 147, Mismatches: 14, Indels: 36
0.75 0.07 0.18
Matches are distributed among these distances:
21 2 0.01
22 6 0.04
23 43 0.29
24 27 0.18
25 46 0.31
26 5 0.03
27 18 0.12
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (24 bp):
TATATATATATATGTATATATTTT
Found at i:110517321 original size:25 final size:22
Alignment explanation
Indices: 110517295--110517506 Score: 128
Period size: 23 Copynumber: 9.0 Consensus size: 22
110517285 ATTTCTAATA
* *
110517295 TATATATATATTGTATATGTTTT
1 TATATATTTA-TGTATATATTTT
110517318 TATATATATTATGTATATATTTT
1 TATATAT-TTATGTATATATTTT
110517341 TA-ATA-TTATTAGTTATATATTTTT
1 TATATATTTA-T-G-TATATA-TTTT
110517365 TATACTATTTCATGTATATATTTT
1 TATA-TATTT-ATGTATATATTTT
110517389 TATATTATCTTATGTATATATTTTT
1 TATA-TAT-TTATGTATATA-TTTT
*
110517414 TAATAATTATATTATGTATGTATTTT
1 T-AT-A-TAT-TTATGTATATATTTT
* * *
110517440 TAACACTATATTATGTACATACTTT
1 T-ATA-TAT-TTATGTATATATTTT
*
110517465 TA-ATATTATTATGTATTTA-TTT
1 TATATA-T-TTATGTATATATTTT
* *
110517487 TA-ATATATATGTACATATTT
1 TATATATTTATGTATATATTT
110517507 ATGTAGTATC
Statistics
Matches: 159, Mismatches: 15, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
20 11 0.07
21 4 0.03
22 14 0.09
23 38 0.24
24 29 0.18
25 32 0.20
26 12 0.08
27 18 0.11
28 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (22 bp):
TATATATTTATGTATATATTTT
Found at i:110517487 original size:48 final size:48
Alignment explanation
Indices: 110517294--110517496 Score: 195
Period size: 48 Copynumber: 4.2 Consensus size: 48
110517284 CATTTCTAAT
*
110517294 ATATATATATATTGTATATGTTTTT-ATATATATTATGTATATATTTTTA
1 ATATATAT-TA-TGTATATATTTTTAATATATATTATGTATATATTTTTA
*
110517343 ATAT-TATTA-GTTATATATTTTTTATACTAT-TTCATGTATATATTTTT-
1 ATATATATTATG-TATATATTTTTAATA-TATATT-ATGTATATATTTTTA
* *
110517390 ATATTATCTTATGTATATATTTTTTAATAATTATATTATGTATGTATTTTTA
1 ATA-TATATTATGTATATA-TTTTTAAT-A-TATATTATGTATATATTTTTA
* * * *
110517442 ACACTATATTATGTACATACTTTTAATAT-TATTATGTATTTA-TTTTA
1 ATA-TATATTATGTATATATTTTTAATATATATTATGTATATATTTTTA
110517489 ATATATAT
1 ATATATAT
110517497 GTACATATTT
Statistics
Matches: 131, Mismatches: 12, Indels: 25
0.78 0.07 0.15
Matches are distributed among these distances:
45 1 0.01
46 15 0.11
47 17 0.13
48 33 0.25
49 15 0.11
50 9 0.07
51 24 0.18
52 17 0.13
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (48 bp):
ATATATATTATGTATATATTTTTAATATATATTATGTATATATTTTTA
Found at i:110517505 original size:20 final size:21
Alignment explanation
Indices: 110517446--110517506 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
110517436 TTTTTAACAC
110517446 TATATTATGTACATACTTTTAA
1 TATATTATGTACATA-TTTTAA
**
110517468 TATTATTATGTATTTATTTTAA
1 TA-TATTATGTACATATTTTAA
110517490 TATA-TATGTACATATTT
1 TATATTATGTACATATTT
110517507 ATGTAGTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.32
21 2 0.06
22 10 0.29
23 11 0.32
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TATATTATGTACATATTTTAA
Found at i:110517505 original size:24 final size:22
Alignment explanation
Indices: 110517462--110517508 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
110517452 ATGTACATAC
**
110517462 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
110517484 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
110517508 T
1 T
110517509 GTAGTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 3 0.14
24 9 0.43
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:110517572 original size:50 final size:54
Alignment explanation
Indices: 110517446--110517573 Score: 133
Period size: 50 Copynumber: 2.4 Consensus size: 54
110517436 TTTTTAACAC
*
110517446 TATATTATGTACATACTTTTAATATTATTATGTATTTATTTTAATATATATGTA
1 TATATTATGTACATATTTTTAATATTATTATGTATTTATTTTAATATATATGTA
* * ** * *
110517500 CATATTTATGTA-GTATCATTAATAGTTATT-TTTA-TTA-TTT-CTA-ATATGTA
1 TATA-TTATGTACATATTTTTAATA-TTATTATGTATTTATTTTAATATATATGTA
110517550 TATATTATGTACATATTTTTAATA
1 TATATTATGTACATATTTTTAATA
110517574 CTACGTATAT
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
49 7 0.12
50 19 0.32
51 2 0.03
52 3 0.05
53 3 0.05
54 14 0.23
55 12 0.20
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (54 bp):
TATATTATGTACATATTTTTAATATTATTATGTATTTATTTTAATATATATGTA
Found at i:110517684 original size:18 final size:18
Alignment explanation
Indices: 110517646--110517680 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
110517636 TGTACATCGT
*
110517646 TATTATTAGTTATTTTTA
1 TATTATTAGCTATTTTTA
110517664 TATTATTA-CTATTTTTA
1 TATTATTAGCTATTTTTA
110517681 ATATATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTATTAGCTATTTTTA
Found at i:110517716 original size:2 final size:2
Alignment explanation
Indices: 110517709--110517735 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
110517699 TTATATGTTT
110517709 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
110517736 GTTCACTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:110520668 original size:18 final size:19
Alignment explanation
Indices: 110520635--110520673 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
110520625 TCAATTCATG
*
110520635 ATTTCATATTTCATTTCTC
1 ATTTCATATATCATTTCTC
110520654 ATTTCATA-ATCATTTCTC
1 ATTTCATATATCATTTCTC
110520672 AT
1 AT
110520674 ATTTGCCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTCATATATCATTTCTC
Found at i:110520727 original size:16 final size:16
Alignment explanation
Indices: 110520706--110520771 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
110520696 CATCTCATAA
110520706 TCATTTCTCATATTTT
1 TCATTTCTCATATTTT
*
110520722 TCATTTC-AATATTTT
1 TCATTTCTCATATTTT
110520737 CTCA--TCTCATA---T
1 -TCATTTCTCATATTTT
*
110520749 TCATTTCTCATCTTTT
1 TCATTTCTCATATTTT
110520765 TCATTTC
1 TCATTTC
110520772 AATATCAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 3 0.08
12 1 0.03
13 6 0.15
14 2 0.05
15 10 0.25
16 18 0.45
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.58
Consensus pattern (16 bp):
TCATTTCTCATATTTT
Found at i:110520765 original size:43 final size:43
Alignment explanation
Indices: 110520648--110520776 Score: 204
Period size: 43 Copynumber: 3.0 Consensus size: 43
110520638 TCATATTTCA
* ** *
110520648 TTTCTCATTTCATAATCATTTCTCATATTTGCCACTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTTTCATTTCAATAT
110520691 TTTCTCATCTCATAATCATTTCTCATATTTTTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTTTCATTTCAATAT
* *
110520734 TTTCTCATCTCATATTCATTTCTCATCTTTTTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTTTCATTTCAATAT
110520777 CAATCACATA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.24, C:0.22, G:0.01, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTTTCATTTCAATAT
Found at i:110521667 original size:22 final size:22
Alignment explanation
Indices: 110521639--110521682 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
110521629 CAATTTAGTC
110521639 CTTTTCCATTTCTAACTTAAAA
1 CTTTTCCATTTCTAACTTAAAA
110521661 CTTTTCCATTTCTAACTTAAAA
1 CTTTTCCATTTCTAACTTAAAA
110521683 ATCTATCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (22 bp):
CTTTTCCATTTCTAACTTAAAA
Found at i:110521694 original size:23 final size:22
Alignment explanation
Indices: 110521643--110521694 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
110521633 TTAGTCCTTT
* *
110521643 TCCATTTCTAACTTAAAACTTT
1 TCCATTTCTAACTTAAAAATTA
110521665 TCCATTTCTAACTTAAAAATCTA
1 TCCATTTCTAACTTAAAAAT-TA
*
110521688 TCTATTT
1 TCCATTT
110521695 AATCCTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (22 bp):
TCCATTTCTAACTTAAAAATTA
Found at i:110525227 original size:86 final size:87
Alignment explanation
Indices: 110525081--110525385 Score: 291
Period size: 86 Copynumber: 3.6 Consensus size: 87
110525071 TTTTTTTGTA
* * * * ** * * *
110525081 AAAAATGCCTCTATAGAACATGACCTTTAGCGGCGC-TTCTCATAAAAATGTTGCTGAAGAACAT
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTC-CCCAAAAACGCTGCTAAAGAACAT
110525145 GACCTTTAGCGACGC-TTCTCAT
65 GACCTTTAGCGACGCTTTCTCAT
* *
110525167 AAAAACGTCGCTAAAGAACATGACCTTTAGC-AGCGCTTTCCCCAAAAACGCTGCTAAAGAATAT
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGA-CGCTTTCCCCAAAAACGCTGCTAAAGAACAT
* * *
110525231 GACCTTTAGCGGCACTTTCCCA-
65 GACCTTTAGCGACGCTTTCTCAT
* * * * * ** *
110525253 AAAAACACCGCTAAAGAAAATAACCTTTCGCGACACTTTCCCCAAAAACGCCACTAAA-TACATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCCAAAAACGCTGCTAAAGAACATG
** * *
110525317 ATTTTTAACGACGCTTTCTCCT
66 ACCTTTAGCGACGCTTTCTCAT
* *
110525339 -CAAACGCCGCTAAAG-ACATGACCTTTAGCGATGCTTTCCCCAAAAAC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCCAAAAAC
110525386 TCCACTAAAA
Statistics
Matches: 176, Mismatches: 38, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
84 27 0.15
85 31 0.18
86 109 0.62
87 9 0.05
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (87 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCCAAAAACGCTGCTAAAGAACATG
ACCTTTAGCGACGCTTTCTCAT
Found at i:110525375 original size:42 final size:43
Alignment explanation
Indices: 110525081--110525394 Score: 260
Period size: 43 Copynumber: 7.3 Consensus size: 43
110525071 TTTTTTTGTA
* * * * **
110525081 AAAAATGCCTCTATAGAACATGACCTTTAGCGGCGC-TTCTCAT
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTC-CCC
* ** * **
110525124 AAAAATGTTGCTGAAGAACATGACCTTTAGCGACGC-TTCTCAT
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTC-CCC
*
110525167 AAAAACGTCGCTAAAGAACATGACCTTTAGC-AGCGCTTTCCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGA-CGCTTTCCCC
* * * * *
110525210 AAAAACGCTGCTAAAGAATATGACCTTTAGCGGCACTTTCCCA
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCC
* * * * *
110525253 AAAAACACCGCTAAAGAAAATAACCTTTCGCGACACTTTCCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCC
* * ** * *
110525296 AAAAACGCCACTAAA-TACATGATTTTTAACGACGCTTTCTCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCC
** *
110525338 TCAAACGCCGCTAAAG-ACATGACCTTTAGCGATGCTTTCCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCC
* *
110525380 AAAAACTCCACTAAA
1 AAAAACGCCGCTAAA
110525395 AACCATATCA
Statistics
Matches: 220, Mismatches: 47, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
42 63 0.29
43 154 0.70
44 3 0.01
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTCCCC
Found at i:110525905 original size:23 final size:23
Alignment explanation
Indices: 110525877--110525980 Score: 172
Period size: 23 Copynumber: 4.5 Consensus size: 23
110525867 CTACACAAAG
110525877 AACATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
* * *
110525900 AGCATTTAAATACTTTAATTTAC
1 AACATTTAAACACTTCAATTTAC
110525923 AACATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
110525946 AACATTTAAACACTTCAATTTAC
1 AACATTTAAACACTTCAATTTAC
*
110525969 AGCATTTAAACA
1 AACATTTAAACA
110525981 TCAGCAACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 74 1.00
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (23 bp):
AACATTTAAACACTTCAATTTAC
Found at i:110527215 original size:26 final size:26
Alignment explanation
Indices: 110527180--110527233 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
110527170 CAAAGGCTTG
110527180 TATTATCTTATACAAATATTTAGTTT
1 TATTATCTTATACAAATATTTAGTTT
110527206 TATTATCTTATACAAATATTTAGTTT
1 TATTATCTTATACAAATATTTAGTTT
110527232 TA
1 TA
110527234 ATGGATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (26 bp):
TATTATCTTATACAAATATTTAGTTT
Found at i:110529307 original size:21 final size:21
Alignment explanation
Indices: 110529283--110529326 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
110529273 GTCAATATAT
110529283 ATGACAATCTGTTGGAACAAG
1 ATGACAATCTGTTGGAACAAG
*
110529304 ATGACAATCTGTTGGAAGAAG
1 ATGACAATCTGTTGGAACAAG
110529325 AT
1 AT
110529327 AAAAGCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (21 bp):
ATGACAATCTGTTGGAACAAG
Found at i:110530059 original size:18 final size:17
Alignment explanation
Indices: 110530032--110530065 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
110530022 GAAAGGATGA
110530032 GAAAAAAAGGAAATTGG
1 GAAAAAAAGGAAATTGG
*
110530049 GAAAGAAAAGGGAATTG
1 GAAA-AAAAGGAAATTG
110530066 AGGGAGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.32, T:0.12
Consensus pattern (17 bp):
GAAAAAAAGGAAATTGG
Found at i:110530126 original size:18 final size:18
Alignment explanation
Indices: 110530103--110530139 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
110530093 TAATGGCTAA
110530103 GAAAGAAAAGGAAATTGG
1 GAAAGAAAAGGAAATTGG
* *
110530121 GAAAGAAGAGGACATTGG
1 GAAAGAAAAGGAAATTGG
110530139 G
1 G
110530140 GGAAAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.38, T:0.11
Consensus pattern (18 bp):
GAAAGAAAAGGAAATTGG
Found at i:110530308 original size:40 final size:40
Alignment explanation
Indices: 110530232--110530315 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
110530222 TAAATTGATT
* * *
110530232 TTTTGTGGCATTTTTATCATAAACGCTATTATTGCTTGCC
1 TTTTGCGGCATTTTTATCATAAACGCTATTAATGCTTGAC
*
110530272 TTTTGCGGCATTTTTATCATAAACG-TCGTTAATGCTTGAC
1 TTTTGCGGCATTTTTATCATAAACGCT-ATTAATGCTTGAC
110530312 TTTT
1 TTTT
110530316 TTATAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (40 bp):
TTTTGCGGCATTTTTATCATAAACGCTATTAATGCTTGAC
Found at i:110530682 original size:17 final size:18
Alignment explanation
Indices: 110530649--110530682 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110530639 TATCTCTTAA
110530649 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
110530667 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
110530683 AAAATTAATA
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:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:110530780 original size:7 final size:7
Alignment explanation
Indices: 110530754--110530908 Score: 84
Period size: 7 Copynumber: 21.7 Consensus size: 7
110530744 GCTAATTAAT
110530754 CTAAACC
1 CTAAACC
*
110530761 CTTAACC
1 CTAAACC
110530768 CATAAACC
1 C-TAAACC
110530776 CTAAACC
1 CTAAACC
110530783 CTAAACC
1 CTAAACC
*
110530790 CTAAAAC
1 CTAAACC
* *
110530797 TTTAACC
1 CTAAACC
*
110530804 TTAAACC
1 CTAAACC
110530811 C-ATAACC
1 CTA-AACC
*
110530818 CTTAACC
1 CTAAACC
110530825 C-ATAACC
1 CTA-AACC
*
110530832 CATAACCC
1 C-TAAACC
110530840 CTAAACC
1 CTAAACC
*
110530847 TTAAATCC
1 CTAAA-CC
110530855 C--AACC
1 CTAAACC
110530860 CTTAAACC
1 C-TAAACC
* *
110530868 ATAAACT
1 CTAAACC
* *
110530875 ATAATCC
1 CTAAACC
110530882 CTAAACC
1 CTAAACC
*
110530889 CATAATCC
1 C-TAAACC
*
110530897 ATAAACC
1 CTAAACC
*
110530904 TTAAA
1 CTAAA
110530909 ATAGTAACTC
Statistics
Matches: 113, Mismatches: 24, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
5 3 0.03
6 3 0.03
7 85 0.75
8 21 0.19
9 1 0.01
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:110530863 original size:57 final size:57
Alignment explanation
Indices: 110530757--110530909 Score: 163
Period size: 57 Copynumber: 2.7 Consensus size: 57
110530747 AATTAATCTA
* **
110530757 AACCCTTAACCCATAAACCC-TAAACCCTAAACCCTAAAACTTTAACCTTAAACCCAT
1 AACCCTTAACCCATAAACCCATAAACCCTAAACCTTAAAACTCCAACCTTAAA-CCAT
* *
110530814 AACCCTTAACCCAT-AACCCATAACCCCTAAACCTTAAATC-CCAACCCTTAAACCAT
1 AACCCTTAACCCATAAACCCATAAACCCTAAACCTTAAAACTCCAA-CCTTAAACCAT
* * *
110530870 AA-ACTATAATCCC-TAAACCCATAATCCATAAACCTTAAAA
1 AACCCT-TAA-CCCATAAACCCATAAACCCTAAACCTTAAAA
110530910 TAGTAACTCT
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
55 2 0.02
56 17 0.21
57 63 0.77
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (57 bp):
AACCCTTAACCCATAAACCCATAAACCCTAAACCTTAAAACTCCAACCTTAAACCAT
Found at i:110530944 original size:14 final size:14
Alignment explanation
Indices: 110530927--110530957 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
110530917 TCTTAAAGTT
110530927 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
110530941 TAAACCCTAAACTA
1 TAAACCCTAAACCA
110530955 TAA
1 TAA
110530958 TGATAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:110531567 original size:74 final size:74
Alignment explanation
Indices: 110531482--110531732 Score: 193
Period size: 74 Copynumber: 3.3 Consensus size: 74
110531472 TATAGCGATG
* *
110531482 TTTTTCTAAAAGCACCGCTAATGCCACTAAAGCTCAACATAAAACAACGGCGTGTGCTTGATTTT
1 TTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACAACGGCGTGTGCTTGATTTT
110531547 TTTGCGGCA
66 TTTGCGGCA
* * * * *** * * * *
110531556 TTTTTCAAAAAGCGCCACTAATGGTCGACCTATAG-TGGAGTTTTTAAAA-AGCGCCGCTAATGG
1 TTTTTCAAAAAGCGCCGCTAAT-G-CCA-CTAAAGCT-CA--ACATAAAACAACGGCG-T-GTGC
* * * * *
110531619 TCGA-TCTATAGCGGCG
58 TTGATTTTTTTGCGGCA
* * * * *
110531635 TTTTTCTAAAAGCGCCGCTAATGCCACTAAAGCTCAACACAAAACGAGGGCGTGTGCTTAATTTT
1 TTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACAACGGCGTGTGCTTGATTTT
110531700 TTTGCGGCA
66 TTTGCGGCA
*
110531709 TTTTTTAAAAAGCGCCGCTAATGC
1 TTTTTCAAAAAGCGCCGCTAATGC
110531733 TCGGTCTATA
Statistics
Matches: 125, Mismatches: 41, Indels: 22
0.66 0.22 0.12
Matches are distributed among these distances:
73 4 0.03
74 54 0.43
75 4 0.03
76 9 0.07
77 9 0.07
78 6 0.05
79 34 0.27
80 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (74 bp):
TTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACAACGGCGTGTGCTTGATTTT
TTTGCGGCA
Found at i:110531578 original size:153 final size:153
Alignment explanation
Indices: 110531397--110531794 Score: 582
Period size: 153 Copynumber: 2.6 Consensus size: 153
110531387 TAGACCTATA
* * *
110531397 GCGGCGTTTTTCAGAAAGCGCCGCTAATGGTCGACTTATAGCGGCGTTTCTAAAAAGCGCCGCTA
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGGTCGACTTATAGCGGCGTTTTTAAAAAGCGCCGCTA
* *
110531462 ATGGTCAATCTATAGCGATGTTTTTCTAAAAGCACCGCTAATGCCACTAAAGCTCAACATAAAAC
66 ATGGTCAATCTATAGCGACGTTTTTCTAAAAGCACCGCTAATGCCACTAAAGCTCAACACAAAAC
*
110531527 AACGGCGTGTGCTTGATTTTTTT
131 AACGGCGTGTGCTTAATTTTTTT
* * * *
110531550 GCGGCATTTTTCAAAAAGCGCCACTAATGGTCGACCTATAGTGGAGTTTTTAAAAAGCGCCGCTA
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGGTCGACTTATAGCGGCGTTTTTAAAAAGCGCCGCTA
* * *
110531615 ATGGTCGATCTATAGCGGCGTTTTTCTAAAAGCGCCGCTAATGCCACTAAAGCTCAACACAAAAC
66 ATGGTCAATCTATAGCGACGTTTTTCTAAAAGCACCGCTAATGCCACTAAAGCTCAACACAAAAC
* *
110531680 GAGGGCGTGTGCTTAATTTTTTT
131 AACGGCGTGTGCTTAATTTTTTT
* * *
110531703 GCGGCATTTTTTAAAAAGCGCCGCTAATGCTCG-GTCTATAGCGGCGTTTTTCAAAAAGCGCCGC
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGGTCGACT-TATAGCGGCGTTTTT-AAAAAGCGCCGC
* *
110531767 TAATGCTCAATCTATAGCGGCGCTTTTT
64 TAATGGTCAATCTATAGCGACG-TTTTT
110531795 GAAAAATGTC
Statistics
Matches: 218, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
153 181 0.83
154 32 0.15
155 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (153 bp):
GCGGCATTTTTCAAAAAGCGCCGCTAATGGTCGACTTATAGCGGCGTTTTTAAAAAGCGCCGCTA
ATGGTCAATCTATAGCGACGTTTTTCTAAAAGCACCGCTAATGCCACTAAAGCTCAACACAAAAC
AACGGCGTGTGCTTAATTTTTTT
Found at i:110531588 original size:193 final size:194
Alignment explanation
Indices: 110531255--110531658 Score: 550
Period size: 193 Copynumber: 2.1 Consensus size: 194
110531245 CCTTTTTGGT
* * * *
110531255 AAAGCGCCGCTAAAGCTCGATCTATACTGGCGTTTTTCAAAAAGCGCCGCTAAATGCCACTAAAG
1 AAAGCGCCGCTAATGCTCAATCTATACTGACGTTTTTCAAAAAGCACCGCTAAATGCCACTAAAG
* * * *
110531320 TTTAACATAAAACGAAGACCTTGTGCTTAATTTTTTTGCGGAATTTTTCAAACAGCGCCACTAAT
66 CTCAACATAAAACGAAGACCGTGTGCTTAATTTTTTTGCGGAATTTTTCAAAAAGCGCCACTAAT
* *
110531385 GGTAGACCTATAGCGGCGTTTTTCAGAAAGCGCCGCTAATGGTCGA-CTTATAGCGGCG-TTTCT
131 GGTAGACCTATAGCGGAGTTTTT-AAAAAGCGCCGCTAATGGTCGATC-TATAGCGGCGTTTTCT
110531448 AA
194 -A
* * *
110531450 AAAGCGCCGCTAATGGTCAATCTATAGC-GATGTTTTTCTAAAAGCACCGCT-AATGCCACTAAA
1 AAAGCGCCGCTAATGCTCAATCTATA-CTGACGTTTTTCAAAAAGCACCGCTAAATGCCACTAAA
* * *
110531513 GCTCAACATAAAAC-AACG-GCGTGTGCTTGATTTTTTTGCGGCATTTTTCAAAAAGCGCCACTA
65 GCTCAACATAAAACGAA-GACCGTGTGCTTAATTTTTTTGCGGAATTTTTCAAAAAGCGCCACTA
* *
110531576 ATGGTCGACCTATAGTGGAGTTTTTAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCGTTTTTC
129 ATGGTAGACCTATAGCGGAGTTTTTAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG-TTTTC
110531641 TA
193 TA
110531643 AAAGCGCCGCTAATGC
1 AAAGCGCCGCTAATGC
110531659 CACTAAAGCT
Statistics
Matches: 185, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
192 31 0.17
193 81 0.44
194 30 0.16
195 42 0.23
196 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (194 bp):
AAAGCGCCGCTAATGCTCAATCTATACTGACGTTTTTCAAAAAGCACCGCTAAATGCCACTAAAG
CTCAACATAAAACGAAGACCGTGTGCTTAATTTTTTTGCGGAATTTTTCAAAAAGCGCCACTAAT
GGTAGACCTATAGCGGAGTTTTTAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCGTTTTCTA
Found at i:110531656 original size:40 final size:40
Alignment explanation
Indices: 110531363--110531873 Score: 220
Period size: 40 Copynumber: 13.1 Consensus size: 40
110531353 TTTTGCGGAA
* * * *
110531363 TTTTTCAAACAGCGCCACTAATGGTAGACCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
*
110531403 TTTTTCAGAAAGCGCCGCTAATGGTCGA-CTTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGGTCGATC-TATAGCGGCG
* * **
110531443 TTTCT-AAAAAGCGCCGCTAATGGTCAATCTATAGCGATG
1 TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
* * * * *
110531482 TTTTTCTAAAAGCACCGCTAAT-G-CCA-CTAAAGC-TC-
1 TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
**** * * * * * * * * *
110531517 AACAT-AAAACAACGGCG-T-GTGCTTGATTTTTTTGCGGCA
1 TTTTTCAAAA-AGCGCCGCTAATGGTCGA-TCTATAGCGGCG
* * * *
110531556 TTTTTCAAAAAGCGCCACTAATGGTCGACCTATAGTGGAG
1 TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
110531596 TTTTT-AAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
* * * *
110531635 TTTTTCTAAAAGCGCCGCTAAT-G-CCA-CTAAAGC-TC-
1 TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
**** * * * ** * * * *
110531670 -AACACAAAACGAG-GGCG-T-GTGCTTAATTTTTTTGCGGCA
1 TTTTTCAAAA--AGCGCCGCTAATGGTCGA-TCTATAGCGGCG
* * *
110531709 TTTTTTAAAAAGCGCCGCTAATGCTCGGTCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
* *
110531749 TTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
* * * * *
110531789 CTTTTTGAAAAA-TGTCGCTAATGCTCGATCTGTAGCGGCG
1 -TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
* * * * * *
110531829 CTTTTTGAAAAA-TGCCGCTAATGCTCGATCTGTAGCAGCA
1 -TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
110531869 TTTTT
1 TTTTT
110531874 TATCCAAATG
Statistics
Matches: 346, Mismatches: 98, Indels: 55
0.69 0.20 0.11
Matches are distributed among these distances:
33 2 0.01
34 9 0.03
35 10 0.03
36 3 0.01
37 18 0.05
38 8 0.02
39 83 0.24
40 194 0.56
41 19 0.05
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGGTCGATCTATAGCGGCG
Found at i:110531957 original size:21 final size:24
Alignment explanation
Indices: 110531930--110531986 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 24
110531920 TTCCAACTTA
110531930 ATAGCCCAAAAATATTA-AA-CCC
1 ATAGCCCAAAAATATTACAAGCCC
110531952 -TAGCCC-AAAATATTACAAGCCC
1 ATAGCCCAAAAATATTACAAGCCC
*
110531974 ATAACCCAAAAAT
1 ATAGCCCAAAAAT
110531987 GTTTAGCAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 9 0.30
21 8 0.27
22 3 0.10
23 5 0.17
24 5 0.17
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.18
Consensus pattern (24 bp):
ATAGCCCAAAAATATTACAAGCCC
Found at i:110535936 original size:26 final size:26
Alignment explanation
Indices: 110535905--110536012 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
110535895 TGAAATGCCC
*
110535905 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
110535931 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
110535957 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
110535983 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
110536009 ATCA
1 ATCA
110536013 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:110543638 original size:37 final size:37
Alignment explanation
Indices: 110543579--110543716 Score: 222
Period size: 37 Copynumber: 3.7 Consensus size: 37
110543569 AGCTCAGACG
* *
110543579 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
110543616 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
110543653 TACTATCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
110543690 TAATCTCCACACGTAGTCATCGGGTCT
1 AAATCTCCACACGTAGTCATCGGGTCT
110543717 CACCTGGAAT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:110543938 original size:47 final size:47
Alignment explanation
Indices: 110543887--110544072 Score: 300
Period size: 47 Copynumber: 4.0 Consensus size: 47
110543877 TTTCACACTA
* * *
110543887 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
110543934 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
110543981 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
110544028 GCCATTCGGCCTTATCACATATATACATATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
110544073 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:110543951 original size:22 final size:22
Alignment explanation
Indices: 110543925--110544047 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
110543915 GTTCATATTC
110543925 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
110543947 ATCACACATAT-G-CATGCTC-ACGTT
1 AT--CACAT-TGGCCAT--TCGGCCTT
110543971 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
110543994 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
110544018 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
110544041 ATCACAT
1 ATCACAT
110544048 ATATACATAT
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
22 22 0.29
23 19 0.25
24 19 0.25
25 15 0.20
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:110547007 original size:26 final size:26
Alignment explanation
Indices: 110546976--110547083 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
110546966 TGAAATGCCC
110546976 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
110547002 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
110547028 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
110547054 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
110547080 ATCA
1 ATCA
110547084 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 74 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:110551140 original size:93 final size:93
Alignment explanation
Indices: 110551028--110551199 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
110551018 CGCCCATAAG
* * *
110551028 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
110551093 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
110551121 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
110551186 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
110551200 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:110551196 original size:46 final size:46
Alignment explanation
Indices: 110551021--110551196 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
110551011 TGTAACCCGC
* * *
110551021 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
110551067 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
110551117 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
110551160 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
110551197 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:110552770 original size:21 final size:21
Alignment explanation
Indices: 110552745--110552787 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
110552735 CAACTAGTTA
*
110552745 TTTTTA-TTTAGTTTTATGTTT
1 TTTTTATTTTACTTTTAT-TTT
110552766 TTTTTATTTTACTTTTATTTT
1 TTTTTATTTTACTTTTATTTT
110552787 T
1 T
110552788 ATTGTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTACTTTTATTTT
Found at i:110556714 original size:22 final size:24
Alignment explanation
Indices: 110556689--110556736 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
110556679 TTAGACCTTT
*
110556689 TAAAAA-TT-TAAATTAATAAAAA
1 TAAAAACTTCTAAAATAATAAAAA
110556711 TAAAAACTTCCTAAAATAATAAAAA
1 TAAAAACTT-CTAAAATAATAAAAA
110556736 T
1 T
110556737 TTAATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 2 0.09
25 14 0.64
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TAAAAACTTCTAAAATAATAAAAA
Found at i:110556745 original size:17 final size:18
Alignment explanation
Indices: 110556701--110556751 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
110556691 AAAATTTAAA
*
110556701 TTAATAAAAATAAAAACT
1 TTAATAATAATAAAAACT
110556719 TCCTAA-AATAATAAAAA-T
1 T--TAATAATAATAAAAACT
110556737 TTAATAATAATAAAA
1 TTAATAATAATAAAA
110556752 TTACCATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 3 0.10
19 10 0.34
20 3 0.10
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAATAATAATAAAAACT
Found at i:110557252 original size:6 final size:6
Alignment explanation
Indices: 110557241--110557267 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
110557231 TGAGACATTG
110557241 GGATTT GGATTT GGATTT GGATTT GGA
1 GGATTT GGATTT GGATTT GGATTT GGA
110557268 AGACTTGCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (6 bp):
GGATTT
Found at i:110564312 original size:20 final size:23
Alignment explanation
Indices: 110564261--110564312 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 23
110564251 ATTCATATTA
*
110564261 TGATCGTTTAGGTAAAATATTTC
1 TGATCATTTAGGTAAAATATTTC
* *
110564284 TTATTATTTA-GT-AAAT-TTTC
1 TGATCATTTAGGTAAAATATTTC
110564304 TGATCATTT
1 TGATCATTT
110564313 TTTTTCCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 11 0.46
21 4 0.17
22 2 0.08
23 7 0.29
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.52
Consensus pattern (23 bp):
TGATCATTTAGGTAAAATATTTC
Found at i:110566818 original size:6 final size:6
Alignment explanation
Indices: 110566788--110566881 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
110566778 AAGAAACATT
* * *
110566788 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
110566837 ATCAGA ATCAGA ATCAGA ATCAG- GTGACATA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA AT
110566882 GTGAATACAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 3 0.04
6 59 0.84
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:110566846 original size:31 final size:31
Alignment explanation
Indices: 110566809--110566881 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
110566799 AATCAAAATG
110566809 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
110566840 AGAATCAGAATCAGAATCAGGTGACATAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
110566871 AGAATCAGAAT
1 AGAATCAGAAT
110566882 GTGAATACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:110567042 original size:27 final size:26
Alignment explanation
Indices: 110567003--110567106 Score: 100
Period size: 27 Copynumber: 3.9 Consensus size: 26
110566993 TGGCTGCCAT
*
110567003 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGACAGAGCCACCAG
*
110567029 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAG
* * * *
110567056 AATAGATATTTGTGGCATAACCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAG
* * *
110567083 AAACAGATAATGTGGCAAAGCCAC
1 -AACAGATATTGTGACAGAGCCAC
110567107 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
26 7 0.11
27 52 0.79
28 7 0.11
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAG
Found at i:110567293 original size:22 final size:22
Alignment explanation
Indices: 110567265--110567329 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
110567255 GCAAATACGT
*
110567265 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
110567287 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
110567309 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
110567330 AATAATTGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:110567746 original size:27 final size:26
Alignment explanation
Indices: 110567717--110567992 Score: 338
Period size: 27 Copynumber: 10.3 Consensus size: 26
110567707 AGTGCAAAAT
* *
110567717 GGTAATTTTACCCCACGAGGGTATCTT-
1 GGTAATTCTACCCTAC-AGGGTAT-TTC
110567744 GGTAATTCTACCCTACAGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTC
* *
110567770 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGTATTTC
110567797 GGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAG-GGTATTTC
* *
110567824 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
** *
110567851 AATAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
*
110567878 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
110567905 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGG-TATTTC
*
110567932 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTC
*
110567959 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGTATTTC
*
110567986 AGTAATT
1 GGTAATT
110567993 TTGTAAATCG
Statistics
Matches: 225, Mismatches: 17, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
25 2 0.01
26 26 0.12
27 192 0.85
28 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (26 bp):
GGTAATTCTACCCTACAGGGTATTTC
Found at i:110576358 original size:33 final size:32
Alignment explanation
Indices: 110576299--110576437 Score: 111
Period size: 33 Copynumber: 4.2 Consensus size: 32
110576289 ATTTAATAGG
* * *
110576299 GAGGATGATGTTAAATGGGTAAAAGCTGCTA-A
1 GAGGGTGATGTTGAA-GGGTAGAAGCTGCTAGA
*
110576331 GAAGGGTGATGTTGAAGGTGTAGAAGCTGCTGGA
1 G-AGGGTGATGTTGAAGG-GTAGAAGCTGCTAGA
*
110576365 GAGGGTGATGTTGAAGGGGTAGAAGCTGTTAGA
1 GAGGGTGATGTTGAA-GGGTAGAAGCTGCTAGA
* * * * * *
110576398 AAAGGTAATGTTTAAATGGTAGAAGCT-CATGGA
1 GAGGGTGATG-TTGAAGGGTAGAAGCTGC-TAGA
110576431 GAGGGTG
1 GAGGGTG
110576438 TAACTGTTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
32 3 0.04
33 74 0.87
34 8 0.09
ACGTcount: A:0.32, C:0.05, G:0.39, T:0.24
Consensus pattern (32 bp):
GAGGGTGATGTTGAAGGGTAGAAGCTGCTAGA
Found at i:110576480 original size:12 final size:12
Alignment explanation
Indices: 110576463--110576493 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
110576453 TTGAGGCAAA
*
110576463 TGAGTATGGTGG
1 TGAGTAAGGTGG
110576475 TGAGTAAGGTGG
1 TGAGTAAGGTGG
110576487 TGAGTAA
1 TGAGTAA
110576494 AGTAATGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.45, T:0.29
Consensus pattern (12 bp):
TGAGTAAGGTGG
Found at i:110580360 original size:22 final size:22
Alignment explanation
Indices: 110580320--110580361 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
110580310 AGGACCTATT
*
110580320 TGTAAAAATGTTATAAAATGTG
1 TGTAAAAATGTGATAAAATGTG
* *
110580342 TGTAAAAGTGTGATTAAATG
1 TGTAAAAATGTGATAAAATG
110580362 AAAAATGTGG
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:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
TGTAAAAATGTGATAAAATGTG
Found at i:110580932 original size:42 final size:42
Alignment explanation
Indices: 110580821--110580947 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
110580811 CTAGGGTTAC
* * *
110580821 TAAGACTTTGTGTAAGACCATAATTGAGATATGACATCTATA
1 TAAGACTTTGTGTAAGACCATAACTGGGATATGACATCGATA
* * *
110580863 TAAGACTTCGCGTAAGACCATATCTGGGATATGACATCGATA
1 TAAGACTTTGTGTAAGACCATAACTGGGATATGACATCGATA
* * *
110580905 TAAGACTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TAAGACTTTGTGTAAGACCATAACTGGGATA-TGACATCGATA
110580948 CGGTATCCCA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 63 0.86
43 10 0.14
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (42 bp):
TAAGACTTTGTGTAAGACCATAACTGGGATATGACATCGATA
Found at i:110583025 original size:27 final size:27
Alignment explanation
Indices: 110582987--110583040 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
110582977 CTTCTTGCAG
*
110582987 TAACATTTTATTGATTCCCTATCGTAT
1 TAACATTTTATTGATTCCCCATCGTAT
110583014 TAACATTTTATTGATTCCCCATCGTAT
1 TAACATTTTATTGATTCCCCATCGTAT
110583041 ACATACTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.46
Consensus pattern (27 bp):
TAACATTTTATTGATTCCCCATCGTAT
Found at i:110589438 original size:9 final size:9
Alignment explanation
Indices: 110589424--110589469 Score: 92
Period size: 9 Copynumber: 5.1 Consensus size: 9
110589414 GTACATGAAG
110589424 ATGAAAATA
1 ATGAAAATA
110589433 ATGAAAATA
1 ATGAAAATA
110589442 ATGAAAATA
1 ATGAAAATA
110589451 ATGAAAATA
1 ATGAAAATA
110589460 ATGAAAATA
1 ATGAAAATA
110589469 A
1 A
110589470 AGAGATCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (9 bp):
ATGAAAATA
Found at i:110591350 original size:21 final size:21
Alignment explanation
Indices: 110591320--110591417 Score: 117
Period size: 21 Copynumber: 4.7 Consensus size: 21
110591310 GGTGGATCAA
110591320 CTCTTTTGAGCTTCTGTTAAG
1 CTCTTTTGAGCTTCTGTTAAG
* * * *
110591341 TTCTTATGAGCTTTTGTTCAG
1 CTCTTTTGAGCTTCTGTTAAG
*
110591362 CTCTTTTGAGCTTCTGTTCAG
1 CTCTTTTGAGCTTCTGTTAAG
*
110591383 TTCTTTTGAGCTTCTGTTCAA-
1 CTCTTTTGAGCTTCTGTT-AAG
*
110591404 CTCTTGTGAGCTTC
1 CTCTTTTGAGCTTC
110591418 GTTGGAGTGT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 64 0.98
22 1 0.02
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.49
Consensus pattern (21 bp):
CTCTTTTGAGCTTCTGTTAAG
Found at i:110591368 original size:42 final size:42
Alignment explanation
Indices: 110591316--110591417 Score: 159
Period size: 42 Copynumber: 2.4 Consensus size: 42
110591306 TTCGGGTGGA
*
110591316 TCAACTCTTTTGAGCTTCTGTTAAGTTCTTATGAGCTTTTGT
1 TCAACTCTTTTGAGCTTCTGTTAAGTTCTTATGAGCTTCTGT
* * *
110591358 TCAGCTCTTTTGAGCTTCTGTTCAGTTCTTTTGAGCTTCTGT
1 TCAACTCTTTTGAGCTTCTGTTAAGTTCTTATGAGCTTCTGT
*
110591400 TCAACTCTTGTGAGCTTC
1 TCAACTCTTTTGAGCTTC
110591418 GTTGGAGTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.48
Consensus pattern (42 bp):
TCAACTCTTTTGAGCTTCTGTTAAGTTCTTATGAGCTTCTGT
Found at i:110594262 original size:4 final size:4
Alignment explanation
Indices: 110594250--110594293 Score: 54
Period size: 4 Copynumber: 10.5 Consensus size: 4
110594240 TTTATATGAT
110594250 TAAA TTAAA TAAA TAAA TAAA -AATCA TAAA TAAA TAAA TAAA TA
1 TAAA -TAAA TAAA TAAA TAAA TAA--A TAAA TAAA TAAA TAAA TA
110594294 TTGATGATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.06
4 27 0.75
5 5 0.14
6 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:110596191 original size:52 final size:52
Alignment explanation
Indices: 110596130--110596236 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
110596120 TCTGAATTCA
110596130 AAGTTCATTTTGCATTGATCAGGGAGAGCAGTCAAGCACAAGGGTCAAGGGG
1 AAGTTCATTTTGCATTGATCAGGGAGAGCAGTCAAGCACAAGGGTCAAGGGG
*
110596182 AAGTTCATTTTGCATTGATCAGGGAGAGCAGTCAAGCACAATGGTCAAGGGG
1 AAGTTCATTTTGCATTGATCAGGGAGAGCAGTCAAGCACAAGGGTCAAGGGG
110596234 AAG
1 AAG
110596237 AAGATAGCAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (52 bp):
AAGTTCATTTTGCATTGATCAGGGAGAGCAGTCAAGCACAAGGGTCAAGGGG
Found at i:110597642 original size:1 final size:1
Alignment explanation
Indices: 110597636--110597672 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
110597626 ATCAGTATAT
* *
110597636 AAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
110597673 TTCACCTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:110607081 original size:40 final size:40
Alignment explanation
Indices: 110607032--110607126 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
110607022 AAGTATGTTG
*
110607032 GCACTTAGTGTGC-ATTTCGAGATAGCTTCGGCTATATGTA
1 GCACTTAGTGTGCGAATTCGA-ATAGCTTCGGCTATATGTA
* *
110607072 GCACTTAGTGTGCGAATTGGAATAGCTTCGGCTATATGTG
1 GCACTTAGTGTGCGAATTCGAATAGCTTCGGCTATATGTA
110607112 GCAC-TACGTGTGCGA
1 GCACTTA-GTGTGCGA
110607127 TACTCAGATA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
39 2 0.04
40 43 0.86
41 5 0.10
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATTCGAATAGCTTCGGCTATATGTA
Found at i:110615976 original size:15 final size:15
Alignment explanation
Indices: 110615956--110615986 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
110615946 CTAATTAGTC
110615956 ATATAGTCAAGTTTA
1 ATATAGTCAAGTTTA
110615971 ATATAGTCAAGTTTA
1 ATATAGTCAAGTTTA
110615986 A
1 A
110615987 GTGTTTATTT
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:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (15 bp):
ATATAGTCAAGTTTA
Found at i:110619851 original size:17 final size:18
Alignment explanation
Indices: 110619831--110619870 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
110619821 GAATGTAGGT
*
110619831 ATTTTGT-GAAAATCTTA
1 ATTTTGTCGAAAATCTAA
110619848 ATTTT-TCGAAAATCTAA
1 ATTTTGTCGAAAATCTAA
110619865 ATTTTG
1 ATTTTG
110619871 CAGGGGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (18 bp):
ATTTTGTCGAAAATCTAA
Found at i:110622713 original size:46 final size:45
Alignment explanation
Indices: 110622663--110622834 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
110622653 TGGTTGAGCA
110622663 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
110622709 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
110622755 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
110622801 CCCTAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
110622835 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:110622817 original size:92 final size:92
Alignment explanation
Indices: 110622660--110622829 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
110622650 GGATGGTTGA
* *
110622660 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110622725 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
* *
110622752 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCTAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110622817 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
110622830 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:110630252 original size:46 final size:46
Alignment explanation
Indices: 110630202--110630373 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
110630192 TGGTTGAGCA
110630202 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
110630248 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
110630292 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
110630340 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
110630374 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 7 0.07
46 74 0.70
47 7 0.07
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:110630356 original size:92 final size:93
Alignment explanation
Indices: 110630199--110630368 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
110630189 GGATGGTTGA
* *
110630199 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110630264 TGAGT-CGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
110630291 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110630356 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
110630369 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 67 0.91
93 7 0.09
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:110634001 original size:43 final size:43
Alignment explanation
Indices: 110633920--110634042 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 43
110633910 TGATTACATC
* * *
110633920 TAAGACCATGTCTGGGACATTGGCATTGTAGTGTGATTTTGTG
1 TAAGACCATGTCTAGGACATTGGCATCGTAGTGTGATTTCGTG
*
110633963 TAAGACCATGTTTAGGACATTGGCATCGTTA-T-TCGATTTCGTG
1 TAAGACCATGTCTAGGACATTGGCATCG-TAGTGT-GATTTCGTG
* * *
110634006 TAAGACCTTATCT-GAGACAGTGGCATCGATA-TGTGAT
1 TAAGACCATGTCTAG-GACATTGGCATCG-TAGTGTGAT
110634043 AACATGTAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 2 0.03
43 62 0.93
44 3 0.04
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
TAAGACCATGTCTAGGACATTGGCATCGTAGTGTGATTTCGTG
Found at i:110635430 original size:48 final size:48
Alignment explanation
Indices: 110635344--110635591 Score: 370
Period size: 48 Copynumber: 5.2 Consensus size: 48
110635334 CATTACGGTT
* * *
110635344 ATATTAGATCCAATGTAAGACCATGTCTAGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * *
110635392 ATATGAGATTCCATTTAAGACTATGTTTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
110635440 ATATGAGATCCCATGTAAGACCATGTCTAGGACATGGGATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
110635488 ATATGAGATTCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * *
110635536 ATATGAGATCCCATGTAAGACCATATCTGGGATATGACATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
110635584 ATATGAGA
1 ATATGAGA
110635592 CATTGTGTAA
Statistics
Matches: 178, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:110642203 original size:194 final size:194
Alignment explanation
Indices: 110641870--110642261 Score: 678
Period size: 194 Copynumber: 2.0 Consensus size: 194
110641860 GAGAATTGTA
110641870 CTACAGACTCTGCGAGATAAGCAGTTGTATGCAAAATTTAGCAAATGTGAATTTTGGCTGCACGA
1 CTACAGACTCTGCGAGATAAGCAGTTGTATGCAAAATTTAGCAAATGTGAATTTTGGCTGCACGA
110641935 GGTTGGTTTTCTGGGGCATATAGTTTCAGCTGCGGGTATTCAAGTTGACCCGAGTAAGATTTCTG
66 GGTTGGTTTTCTGGGGCATATAGTTTCAGCTGCGGGTATTCAAGTTGACCCGAGTAAGATTTCTG
* * * *
110642000 CAGTAATAGATTGGAAGCCTCCGACAAATGTATCCGAAGTCTGTAGTTTTCTAGGACTGGCTGG
131 CAATAATAGATTGGAAGCCTCCGACAAATGTATCCGAAGTCTGCAATTTTCTAGGACTAGCTGG
*
110642064 CTACAGACTCTGCGAGATAAGTAGTTGTATGCAAAATTTAGCAAATGTGAATTTTGGCTGC-CTG
1 CTACAGACTCTGCGAGATAAGCAGTTGTATGCAAAATTTAGCAAATGTGAATTTTGGCTGCAC-G
**
110642128 AGGTTGGTTTTCTGGGGCATATAGTTTCAGCTGCGGGTATTCGTGTTGACCCGAGTAAGATTTCT
65 AGGTTGGTTTTCTGGGGCATATAGTTTCAGCTGCGGGTATTCAAGTTGACCCGAGTAAGATTTCT
* * *
110642193 GCAATAATAGATTGGAAGCCTCTGAGAAATGTATTCGAAGTCTGCAATTTTCTAGGACTAGCTGG
130 GCAATAATAGATTGGAAGCCTCCGACAAATGTATCCGAAGTCTGCAATTTTCTAGGACTAGCTGG
110642258 CTAC
1 CTAC
110642262 TATAAACGTT
Statistics
Matches: 187, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
193 1 0.01
194 186 0.99
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (194 bp):
CTACAGACTCTGCGAGATAAGCAGTTGTATGCAAAATTTAGCAAATGTGAATTTTGGCTGCACGA
GGTTGGTTTTCTGGGGCATATAGTTTCAGCTGCGGGTATTCAAGTTGACCCGAGTAAGATTTCTG
CAATAATAGATTGGAAGCCTCCGACAAATGTATCCGAAGTCTGCAATTTTCTAGGACTAGCTGG
Found at i:110643006 original size:42 final size:42
Alignment explanation
Indices: 110642942--110643030 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
110642932 TCAGAGTTGA
*
110642942 TTCAGATGATTTTGAATGAAGCACATAGTAGTCATTTATCTG
1 TTCATATGATTTTGAATGAAGCACATAGTAGTCATTTATCTG
110642984 TTCATATGATTTTGAATGAAGCACATAGTAGTCATTTATCTG
1 TTCATATGATTTTGAATGAAGCACATAGTAGTCATTTATCTG
110643026 TTCAT
1 TTCAT
110643031 CATGGAAGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (42 bp):
TTCATATGATTTTGAATGAAGCACATAGTAGTCATTTATCTG
Found at i:110644643 original size:42 final size:42
Alignment explanation
Indices: 110644611--110644732 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
110644601 CTTACATTGG
* * *
110644611 ATCTCACATCGATGCCATATCCCAGATATGGTCTTATACGAA
1 ATCTCATATCAATGCCATATCCCAGATATGGTCTTACACGAA
* * * *
110644653 ATCTCATTTCAATGCCATGTCCTAGATGTGGTCTTACACGAA
1 ATCTCATATCAATGCCATATCCCAGATATGGTCTTACACGAA
* *
110644695 ATCTCATATCAACGCCATATCCCTGATATGGTCTTACA
1 ATCTCATATCAATGCCATATCCCAGATATGGTCTTACA
110644733 TTATAACACA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
ATCTCATATCAATGCCATATCCCAGATATGGTCTTACACGAA
Found at i:110648375 original size:43 final size:42
Alignment explanation
Indices: 110648326--110648551 Score: 190
Period size: 43 Copynumber: 5.3 Consensus size: 42
110648316 GGTTACCGAG
* *
110648326 ATGTGATTACATCTAAGACCATGTCTGGGACATTGGCATTGT
1 ATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATTGT
** *
110648368 AGTGTGATTTTGTATAAGACCATGTCTGGGACATTGGCATTGT
1 A-TGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATTGT
* * *
110648411 ATTGTGATTTCTTGTAAGACCAAT-TCTGGGACATTAGCATCGT
1 A-TGTGATTTCATGTAAGACC-ATGTCTGGGACATTGGCATTGT
* * * * * * *
110648454 -TGTTTGATTTCGTGTAAGACCCTGTCTAGGATAGTGGCGTCGAT
1 ATG--TGATTTCATGTAAGACCATGTCTGGGACATTGGCATTG-T
** * *
110648498 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 ATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATTGT
*
110648539 ATGTGCTTT-ATGT
1 ATGTGATTTCATGT
110648552 GATTCCGAGT
Statistics
Matches: 149, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
40 4 0.03
41 9 0.06
42 8 0.05
43 123 0.83
44 3 0.02
45 2 0.01
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (42 bp):
ATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATTGT
Found at i:110653846 original size:43 final size:43
Alignment explanation
Indices: 110653745--110653847 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 43
110653735 ACAGTGCTAT
*
110653745 TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGATGATTTAATA
1 TCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGATGAGTTAATA
** *
110653789 TCGGGCTTTAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGATGAGTTAATA
110653832 TCGGGCTTCGAGCCTA
1 TCGGGCTTCGAGCCTA
110653848 ATAGGCGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 48 0.91
44 5 0.09
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGATGAGTTAATA
Found at i:110658420 original size:28 final size:27
Alignment explanation
Indices: 110658357--110658426 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
110658347 ATAGTGAGTC
110658357 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
110658384 CACACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
110658412 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
110658427 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:110660358 original size:42 final size:43
Alignment explanation
Indices: 110660264--110660394 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
110660254 AAATGCTAAC
* * **
110660264 GTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCTCT
1 GTCCCAGACATGGTCTTACATGAAATTAAATATAGATGCCAAT
* * * *
110660307 ATCCTAGACAGGGTCTTACATGAAATTGAATAT-GATGCCAAT
1 GTCCCAGACATGGTCTTACATGAAATTAAATATAGATGCCAAT
* * *
110660349 GTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAT
1 GTCCCAGACATGGTCTTACATG-AAAT-TAAATATAGATGCCAAT
110660393 GT
1 GT
110660395 TCCATGTAAC
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 25 0.35
43 33 0.46
44 14 0.19
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAATTAAATATAGATGCCAAT
Found at i:110663120 original size:30 final size:30
Alignment explanation
Indices: 110663086--110663146 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
110663076 TCCTTAACTC
110663086 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
110663116 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
110663146 A
1 A
110663147 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:110669526 original size:10 final size:10
Alignment explanation
Indices: 110669511--110669552 Score: 57
Period size: 10 Copynumber: 3.9 Consensus size: 10
110669501 TGCTTATATC
110669511 CATACCAAAT
1 CATACCAAAT
110669521 CATACCAAAT
1 CATACCAAAT
110669531 CATAAGCCAAAGT
1 CAT-A-CCAAA-T
110669544 CATACCAAA
1 CATACCAAA
110669553 AAAAATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.45
11 6 0.21
12 6 0.21
13 4 0.14
ACGTcount: A:0.50, C:0.29, G:0.05, T:0.17
Consensus pattern (10 bp):
CATACCAAAT
Found at i:110670331 original size:42 final size:43
Alignment explanation
Indices: 110670235--110670404 Score: 130
Period size: 43 Copynumber: 4.0 Consensus size: 43
110670225 AGCTCATACA
* * * *
110670235 ATGCCAACGTCCTAGACATGGTCTTACATGTAATCAAATATAG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATAG
* * * *
110670278 ATG-CATCTGTCCCAGATAGGGTCTTACACGAAATCGAATA-AG
1 ATGCCA-ATGTCCCAGACATGGTCTTACACGAAATCAAATATAG
* * *
110670320 ATGCCAATGTCCCAGACATGGTGTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATC-AAATATAG
* * * ** * *
110670364 ATTCCAACGTCCCATATGTGGTCTTACACGATATCACATAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAT
110670405 CGAAATCCTA
Statistics
Matches: 98, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
42 28 0.29
43 43 0.44
44 27 0.28
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATAG
Found at i:110670873 original size:37 final size:37
Alignment explanation
Indices: 110670832--110670915 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
110670822 AAAATTTCCT
110670832 TATACCCATACTTGGTCAAATATTCATGAAGTTCATA
1 TATACCCATACTTGGTCAAATATTCATGAAGTTCATA
110670869 TATACCCATACTTGGTCAAATATTCATGAAGTTCATA
1 TATACCCATACTTGGTCAAATATTCATGAAGTTCATA
110670906 TA-AGCCCATA
1 TATA-CCCATA
110670916 TCTTTCATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 1 0.02
37 45 0.98
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (37 bp):
TATACCCATACTTGGTCAAATATTCATGAAGTTCATA
Found at i:110671824 original size:22 final size:20
Alignment explanation
Indices: 110671798--110671838 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
110671788 TTATCAAAGT
110671798 ATTTAAGTTTATTTTCTTTTTC
1 ATTTAAG-TTA-TTTCTTTTTC
*
110671820 ATTTATGTTATTTCTTTTT
1 ATTTAAGTTATTTCTTTTT
110671839 TACAATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (20 bp):
ATTTAAGTTATTTCTTTTTC
Found at i:110673309 original size:14 final size:15
Alignment explanation
Indices: 110673287--110673316 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
110673277 GAATATTAAA
110673287 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
110673302 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
110673316 A
1 A
110673317 AATCAAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:110675640 original size:6 final size:6
Alignment explanation
Indices: 110675631--110675669 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
110675621 CTTCAAGAAT
* *
110675631 AAATAT AAATAA AAGTAAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA AA
110675670 CAAGTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:110675659 original size:19 final size:19
Alignment explanation
Indices: 110675631--110675669 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
110675621 CTTCAAGAAT
* *
110675631 AAATATAAATAAAAGTAAA
1 AAATAAAAATAAAAATAAA
110675650 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAATAAA
110675669 A
1 A
110675670 CAAGTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAATAAAAATAAAAATAAA
Found at i:110678671 original size:22 final size:22
Alignment explanation
Indices: 110678596--110678718 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
110678586 ACATGCACAT
*
110678596 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
* * * *
110678618 ATGTGATAAATGTAAACAT-GCATA
1 ATGTGAT-AAGGCAGA-ATGGC-CA
110678642 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
*
110678665 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
110678689 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
110678712 ATGTGAT
1 ATGTGAT
110678719 GAACGTGGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
22 22 0.29
23 19 0.25
24 20 0.26
25 15 0.20
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:110678751 original size:141 final size:141
Alignment explanation
Indices: 110678404--110678764 Score: 472
Period size: 141 Copynumber: 2.6 Consensus size: 141
110678394 GTGAATGTGT
* * * * * * *
110678404 ATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAGAAAGCCG
* * * * *
110678469 AATGGCCAATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCAATATGATGAA
66 AATGGCCAATGTGATAAATGTAAACATGCACATATGTGATAAGGCAGAATGGCCAATATGATAAA
110678534 TGTGAACATGC
131 TGTGAACATGC
* * * * *
110678545 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCACATATGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAGAAAGCCG
* *
110678610 AATGGCCAATGTGATAAATGTAAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAA
66 AATGGCCAATGTGATAAATGTAAACATGCACATATGTGATAAGGCAGAATGGCCAATATGATAAA
110678675 TGTGAACATGC
131 TGTGAACATGC
* * * * *
110678686 ATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGCATATATGTGAGAAAGCC
**
110678750 GAATGGTTAATGTGA
65 GAATGGCCAATGTGA
110678765 AATGTGTATG
Statistics
Matches: 192, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
141 189 0.98
142 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (141 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAGAAAGCCG
AATGGCCAATGTGATAAATGTAAACATGCACATATGTGATAAGGCAGAATGGCCAATATGATAAA
TGTGAACATGC
Done.