Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 111 of 349
Found at i:34888000 original size:81 final size:80
Alignment explanation
Indices: 34887830--34888016 Score: 225
Period size: 81 Copynumber: 2.3 Consensus size: 80
34887820 TTTAGAAAGT
* * ** * *
34887830 CAAGAGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTT
34887895 CGGTAATTTCACAAA
66 CGGTAATTTCACAAA
*
34887910 CCAGTGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTAT
1 CAAG-GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTAT
* **
34887974 TTTGGTAA-TTCTATCCTA
64 TTCGGTAATTTC-A-CAAA
*
34887992 CAAGGGTATTTCAGTAATTTCACAA
1 CAAGGGTATTTCAGTAATTTTACAA
34888017 TCAAGGGTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
80 6 0.07
81 78 0.86
82 7 0.08
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (80 bp):
CAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTT
CGGTAATTTCACAAA
Found at i:34888053 original size:27 final size:27
Alignment explanation
Indices: 34888015--34888207 Score: 235
Period size: 27 Copynumber: 7.1 Consensus size: 27
34888005 GTAATTTCAC
* * *
34888015 AATCAAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
34888042 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
*
34888069 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
34888096 AATCAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
34888123 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
34888150 AATCGAGAGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
34888177 AATCGATGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
34888204 AATC
1 AATC
34888208 AACGGCATTT
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 139 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:34888131 original size:81 final size:82
Alignment explanation
Indices: 34888015--34888207 Score: 300
Period size: 81 Copynumber: 2.4 Consensus size: 82
34888005 GTAATTTCAC
* * *
34888015 AATCAAGGGTAAAACGGTAATTTTATAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCAAGGGTAAAATGGTAATTCTATAAATCTGAGGGTAAAATGGTAATTTTGTAAATCGAGAGT
34888079 AAAACGGTAATTCTATA
66 AAAACGGTAATTCTATA
*
34888096 AATCAAGGGTAAAATAGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTTGTAAATCGAGAGT
1 AATCAAGGGTAAAATGGTAATTCTATAAATCTGAGGGTAAAATGGTAATTTTGTAAATCGAGAGT
*
34888160 GAAACGGTAATTCTATA
66 AAAACGGTAATTCTATA
* * *
34888177 AATCGATGGTAAAATGGTAATTCTACAAATC
1 AATCAAGGGTAAAATGGTAATTCTATAAATC
34888208 AACGGCATTT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 101 0.99
82 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (82 bp):
AATCAAGGGTAAAATGGTAATTCTATAAATCTGAGGGTAAAATGGTAATTTTGTAAATCGAGAGT
AAAACGGTAATTCTATA
Found at i:34900292 original size:37 final size:37
Alignment explanation
Indices: 34900233--34900334 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
34900223 AGCTCAGACG
*
34900233 AAATCTCCACACGA-AGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACAC-ATAGTAATCGGGTCTTACCCGGACA
*
34900270 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTAATCGGGTCTTACCCGGACA
* *
34900307 TAATCTCCACACGTAGTAATCGGGTCTT
1 AAATCTCCACACATAGTAATCGGGTCTT
34900335 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 1 0.02
37 59 0.98
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACATAGTAATCGGGTCTTACCCGGACA
Found at i:34900606 original size:47 final size:47
Alignment explanation
Indices: 34900453--34900998 Score: 943
Period size: 47 Copynumber: 11.6 Consensus size: 47
34900443 CCCTTCGGGA
* * * * * *
34900453 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34900500 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34900545 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34900594 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34900641 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34900688 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34900735 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34900782 CTTATCACATATATTTACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATA--TACACTTTCACATTCATCACATCGGCCATTAGGC
34900831 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34900878 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34900925 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34900972 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
34900999 TATTCAAATA
Statistics
Matches: 477, Mismatches: 16, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
45 34 0.07
47 360 0.75
49 83 0.17
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34900866 original size:237 final size:237
Alignment explanation
Indices: 34900453--34900998 Score: 988
Period size: 237 Copynumber: 2.3 Consensus size: 237
34900443 CCCTTCGGGA
* * * * * *
34900453 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTATCACATATAT--AC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
34900516 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
34900581 TCGGCTATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCTATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
34900646 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34900688 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
34900753 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTTACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
34900818 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCTATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
34900883 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34900925 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
34900990 TTTCACATT
66 TTTCACATT
34900999 TATTCAAATA
Statistics
Matches: 298, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
235 54 0.18
237 244 0.82
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (237 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCTATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34902930 original size:13 final size:13
Alignment explanation
Indices: 34902912--34902936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34902902 TACTAAATTT
34902912 TCATGGATTCAAA
1 TCATGGATTCAAA
34902925 TCATGGATTCAA
1 TCATGGATTCAA
34902937 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:34907098 original size:122 final size:120
Alignment explanation
Indices: 34906883--34907106 Score: 335
Period size: 122 Copynumber: 1.9 Consensus size: 120
34906873 CACAATAACA
* *
34906883 ATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTTAATTTAACACAGAATGT
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTTAATTTAACACAGAATGT
34906948 ATGATAACTAACCTAGAAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
66 ATGATAACTAACCTAGAAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
* * * * *
34907003 ATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACGC-GAAA
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAAT--CTTAATTTAACACAG-AA
34907067 TGTATGATAACTAACCTA-AGAATGCAAATTAAATGATAGA
63 TGTATGATAACTAACCTAGA-AATGCAAATTAAATGATAGA
34907107 AAAATGAAAA
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
120 40 0.43
121 2 0.02
122 51 0.55
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTTAATTTAACACAGAATGT
ATGATAACTAACCTAGAAATGCAAATTAAATGATAGATATTGGCATGGTAATAGC
Found at i:34910693 original size:27 final size:27
Alignment explanation
Indices: 34910636--34910812 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34910626 ATATTGAGTC
* * *
34910636 CGCACACTCAGTGCTATATA-TCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34910662 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34910689 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34910717 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34910744 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34910771 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34910798 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34910813 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
26 17 0.13
27 88 0.68
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34910727 original size:55 final size:53
Alignment explanation
Indices: 34910636--34910812 Score: 212
Period size: 55 Copynumber: 3.3 Consensus size: 53
34910626 ATATTGAGTC
* * * * *
34910636 CGCACACTCAGTGCTATATATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
34910689 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TC-AACTCGCACACTTAGTGCAACATAGTCAAAT
**
34910744 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATA-TCAACTCGCACACTTAGTGCAACATAGTCAAAT
34910798 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34910813 GTACAATTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 18 0.17
54 42 0.40
55 45 0.43
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:34910755 original size:82 final size:81
Alignment explanation
Indices: 34910656--34910811 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34910646 GTGCTATATA
* *
34910656 TCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
34910720 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
34910738 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
34910803 ACTTAGTGC
66 ACTTAGTGC
34910812 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34912372 original size:23 final size:24
Alignment explanation
Indices: 34912341--34912387 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34912331 TTCCTCCTTA
34912341 TTTTATTCA-TCCTTTT-TTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
34912363 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCACTCCTTTTATTTTCT
34912388 AATCTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 6 0.29
25 6 0.29
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Found at i:34918858 original size:27 final size:27
Alignment explanation
Indices: 34918828--34919005 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34918818 ATATTGAGTC
* * * *
34918828 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34918855 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34918882 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34918910 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34918937 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34918964 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34918991 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34919006 GTACAATTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34918967 original size:82 final size:81
Alignment explanation
Indices: 34918849--34919004 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34918839 TGCTATATAA
* *
34918849 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34918914 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34918931 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34918995 CACTTAGTGC
65 CACTTAGTGC
34919005 TGTACAATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34920547 original size:23 final size:23
Alignment explanation
Indices: 34920516--34920562 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
34920506 TCCTCCCTTA
*
34920516 TTTTATTCA-TCTTTTTTTTTCT
1 TTTTATTCACTCTTTTATTTTCT
34920538 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCAC-TCTTTTATTTTCT
34920563 AATCTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
25 12 0.57
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTATTCACTCTTTTATTTTCT
Found at i:34926853 original size:27 final size:27
Alignment explanation
Indices: 34926822--34926873 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
34926812 GAAAGTTGAA
34926822 AGAGATATTGTTCAAACTTCAAAGCCG
1 AGAGATATTGTTCAAACTTCAAAGCCG
*
34926849 AGAGATATTGTTCAACCTTCAAAGC
1 AGAGATATTGTTCAAACTTCAAAGC
34926874 TAAGCAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
AGAGATATTGTTCAAACTTCAAAGCCG
Found at i:34930176 original size:42 final size:42
Alignment explanation
Indices: 34930070--34930176 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
34930060 ATACTAGTGT
* * *
34930070 CATATCCCAGATATGGTCTTACATGAAATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATATCGTACCGATGC
* * * * *
34930112 CAAAGCCTAGCTATGGAT-TTACACGAAGTATCGTACCGATGC
1 CATATCCCAGATATGG-TCTTACACGAAATATCGTACCGATGC
* *
34930154 TATATCCCATATATGGTCTTACA
1 CATATCCCAGATATGGTCTTACA
34930177 TGTAATCTCA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
41 1 0.02
42 47 0.96
43 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATATCGTACCGATGC
Found at i:34936760 original size:40 final size:40
Alignment explanation
Indices: 34936700--34936931 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
34936690 ATTTGAATGA
* *
34936700 GATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
34936740 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
34936780 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
34936820 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
34936861 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
34936901 G-CCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCT
34936932 TGTGGTAATA
Statistics
Matches: 179, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 174 0.97
41 5 0.03
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.27
Consensus pattern (40 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:34936943 original size:80 final size:80
Alignment explanation
Indices: 34936705--34936959 Score: 311
Period size: 80 Copynumber: 3.2 Consensus size: 80
34936695 AATGAGATCT
*
34936705 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATTTGTG
* *
34936770 CTAGTGAT-TTGATCC
66 CTAGTGGTAAT-ATCC
34936785 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATTTGTG
* *
34936850 CGAGTTG-ATATATCC
66 CTAGTGGTA-ATATCC
* * * * * * * *
34936865 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATG-CCCGGGTTAAGACCCGAAGGCAATTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTTGATCCGGGCTAAGACCCGAAGGCATTTGT
*
34936929 GCTTGTGGTAATATCC
65 GCTAGTGGTAATATCC
* *
34936945 -GGCTAAATTCCGAAG
1 GGGCTAAGTCCCGAAG
34936960 AAACTTGGGT
Statistics
Matches: 152, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
79 12 0.08
80 133 0.88
81 7 0.05
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATTTGTG
CTAGTGGTAATATCC
Found at i:34940065 original size:24 final size:24
Alignment explanation
Indices: 34940038--34940093 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
34940028 TTCGGAGCTA
*
34940038 CCCATTATTGGCTCGCATGAATTT
1 CCCATTATTGGCTCGCATGAACTT
**
34940062 CCCAATTA-TGGCTCTTATGAACTT
1 CCC-ATTATTGGCTCGCATGAACTT
*
34940086 CCCGTTAT
1 CCCATTAT
34940094 ACAGCCCAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.12
24 19 0.73
25 4 0.15
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (24 bp):
CCCATTATTGGCTCGCATGAACTT
Found at i:34943142 original size:49 final size:49
Alignment explanation
Indices: 34943089--34943337 Score: 143
Period size: 49 Copynumber: 5.3 Consensus size: 49
34943079 TGTACCAATA
*
34943089 AGGTCTTACACTCACTT-TCATATATCGAG-G-CAGATGCCGTGTCCCAGAC
1 AGGTCTTACACT-ACTTCTCATATATC-AGTGTC-GATGCCATGTCCCAGAC
** *
34943138 AGGTCTTACACTGGTTCTCATCTATCAGTGTCGATGCCATGTCCCAGAC
1 AGGTCTTACACTACTTCTCATATATCAGTGTCGATGCCATGTCCCAGAC
* * * * * *
34943187 AGGTCTTACACTGAC-ACACA-ACA--AG-CT-AACGCCATGTCCCAGAC
1 AGGTCTTACACT-ACTTCTCATATATCAGTGTCGATGCCATGTCCCAGAC
* * * *
34943231 AGGTCTTACATTAGCTTGT-ATATCTCGAG-GCCGATG-CATGTCCCAGAC
1 AGGTCTTACACTA-CTTCTCATATATC-AGTGTCGATGCCATGTCCCAGAC
* * * * *
34943279 ATGTCTTACACTAGC-CCTC--GTCTCAATGTCGATG-CATGTCCCAGAC
1 AGGTCTTACACTA-CTTCTCATATATCAGTGTCGATGCCATGTCCCAGAC
*
34943325 ATGTCTTACACTA
1 AGGTCTTACACTA
34943338 GCACACATAT
Statistics
Matches: 157, Mismatches: 30, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.01
44 28 0.18
45 3 0.02
46 37 0.24
47 1 0.01
48 32 0.20
49 54 0.34
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
AGGTCTTACACTACTTCTCATATATCAGTGTCGATGCCATGTCCCAGAC
Found at i:34944028 original size:20 final size:18
Alignment explanation
Indices: 34943991--34944041 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
34943981 CTATAGCAAC
34943991 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
34944008 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
34944028 TTACAACTTTACAA
1 TCACAA-TTTACAA
34944042 AATAGCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:34951258 original size:25 final size:26
Alignment explanation
Indices: 34951217--34951266 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
34951207 GGCAGGTCAG
*
34951217 TAATCAATGTTCCTATTA-CATTATA
1 TAATCAATGTTCATATTATCATTATA
34951242 TAATCAAT-TTGCATATTATCATTAT
1 TAATCAATGTT-CATATTATCATTAT
34951267 TAACTCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 2 0.09
25 14 0.64
26 6 0.27
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (26 bp):
TAATCAATGTTCATATTATCATTATA
Found at i:34954906 original size:20 final size:20
Alignment explanation
Indices: 34954881--34954918 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34954871 TACGGGCCCA
* *
34954881 TTGGCCCTACATGGCCCAGT
1 TTGGCCCAAAATGGCCCAGT
34954901 TTGGCCCAAAATGGCCCA
1 TTGGCCCAAAATGGCCCA
34954919 ATACCAATTC
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:0.21, C:0.34, G:0.24, T:0.21
Consensus pattern (20 bp):
TTGGCCCAAAATGGCCCAGT
Found at i:34956224 original size:10 final size:10
Alignment explanation
Indices: 34956209--34956234 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34956199 CGGCTAGTAA
34956209 CAAACTTATT
1 CAAACTTATT
34956219 CAAACTTATT
1 CAAACTTATT
34956229 CAAACT
1 CAAACT
34956235 CTTGGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAACTTATT
Found at i:34959442 original size:21 final size:21
Alignment explanation
Indices: 34959418--34959489 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 21
34959408 TATGAGTACG
34959418 AAATGAACGTGTTGAATGGAA
1 AAATGAACGTGTTGAATGGAA
* * * *
34959439 AAATAAAGGTGTGATAATATGAGTACG
1 AAATGAACGTGT--TGA-ATG-G-A-A
34959466 AAATGAACGTGTTGAATGGAA
1 AAATGAACGTGTTGAATGGAA
34959487 AAA
1 AAA
34959490 CAAAGGTGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
21 13 0.35
22 1 0.03
23 3 0.08
24 6 0.16
25 3 0.08
26 1 0.03
27 10 0.27
ACGTcount: A:0.46, C:0.04, G:0.26, T:0.24
Consensus pattern (21 bp):
AAATGAACGTGTTGAATGGAA
Found at i:34959477 original size:48 final size:48
Alignment explanation
Indices: 34959406--34959501 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
34959396 TTGAATAAAA
*
34959406 AATATGAGTACGAAATGAACGTGTTGAATGGAAAAATAAAGGTGTGAT
1 AATATGAGTACGAAATGAACGTGTTGAATGGAAAAACAAAGGTGTGAT
34959454 AATATGAGTACGAAATGAACGTGTTGAATGGAAAAACAAAGGTGTGAT
1 AATATGAGTACGAAATGAACGTGTTGAATGGAAAAACAAAGGTGTGAT
34959502 TCAATTTGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (48 bp):
AATATGAGTACGAAATGAACGTGTTGAATGGAAAAACAAAGGTGTGAT
Found at i:34960408 original size:140 final size:141
Alignment explanation
Indices: 34960143--34960428 Score: 421
Period size: 140 Copynumber: 2.0 Consensus size: 141
34960133 ATACAAACTA
* *
34960143 AATGAATAACTTAAAACTTTGAAGAGACTTTATCACCATATGGTTTGATGGAGCTATTAAAATCA
1 AATGAATAACTTAAAACTTTGAAGAGACTTTATCACCATACGGTCTGATGGAGCTATTAAAATCA
* * * * * * *
34960208 ACATAGGTTCCACTTCGGCTGTAGGAGTTTTGAGAGACTAAAATGGTGAATAGATCATTGGGTTC
66 ACACAAGTGCCACTTCGGCGGGAGGAGTTTTGAGAGACCAAAATGGTGAACAGATCATTGGGTTC
*
34960273 AATTGTAAAAT
131 AATTGCAAAAT
* *
34960284 AATGAATAACTT-AAACTTTGAAGAGACTTTATCACCATACGGTCTGATGGAGCTGTTAAGATCA
1 AATGAATAACTTAAAACTTTGAAGAGACTTTATCACCATACGGTCTGATGGAGCTATTAAAATCA
* * * *
34960348 ACACAAGTGCCGCTTCGGCGGGAGGAGTTTTGATAGACCAAAATGGTGAACGGATCATTGGTTTC
66 ACACAAGTGCCACTTCGGCGGGAGGAGTTTTGAGAGACCAAAATGGTGAACAGATCATTGGGTTC
34960413 AATTGCAAAAT
131 AATTGCAAAAT
34960424 AATGA
1 AATGA
34960429 TATGTTATGT
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
140 117 0.91
141 12 0.09
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (141 bp):
AATGAATAACTTAAAACTTTGAAGAGACTTTATCACCATACGGTCTGATGGAGCTATTAAAATCA
ACACAAGTGCCACTTCGGCGGGAGGAGTTTTGAGAGACCAAAATGGTGAACAGATCATTGGGTTC
AATTGCAAAAT
Found at i:34963652 original size:22 final size:22
Alignment explanation
Indices: 34963624--34963669 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34963614 AGAGTCTTGG
34963624 CCTAGGATAACATATACTTTGA
1 CCTAGGATAACATATACTTTGA
34963646 CCTAGGATAACATATACTTTGA
1 CCTAGGATAACATATACTTTGA
34963668 CC
1 CC
34963670 ATCATATGGT
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:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (22 bp):
CCTAGGATAACATATACTTTGA
Found at i:34964462 original size:54 final size:54
Alignment explanation
Indices: 34964398--34964508 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
34964388 CATTTTAATT
34964398 ATTTTATACTTGTGTATGTTTCTATTCTTAATGCTCAAGTTTGGAACATAAGAA
1 ATTTTATACTTGTGTATGTTTCTATTCTTAATGCTCAAGTTTGGAACATAAGAA
34964452 ATTTTATACTTGTGTATGTTTCTATTCTTAATGCTCAAGTTTGGAACATAAGAA
1 ATTTTATACTTGTGTATGTTTCTATTCTTAATGCTCAAGTTTGGAACATAAGAA
34964506 ATT
1 ATT
34964509 CTAGGGTTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (54 bp):
ATTTTATACTTGTGTATGTTTCTATTCTTAATGCTCAAGTTTGGAACATAAGAA
Found at i:34965621 original size:25 final size:26
Alignment explanation
Indices: 34965578--34965629 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
34965568 AACTTATTTA
*
34965578 TACTAGACTTTTCCTGCAAGTAAAGT
1 TACTAGACTTTTCCTGCAAATAAAGT
* *
34965604 TACTAGGC-TTTCTTGCAAATAAAGT
1 TACTAGACTTTTCCTGCAAATAAAGT
34965629 T
1 T
34965630 TTATTCCTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (26 bp):
TACTAGACTTTTCCTGCAAATAAAGT
Found at i:34970517 original size:12 final size:11
Alignment explanation
Indices: 34970491--34970542 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
34970481 TGTACTTCTT
*
34970491 TTTTTCTTTTTC
1 TTTTT-TTTTCC
34970503 TTTTTTCTTTCC
1 TTTTTT-TTTCC
*
34970515 -TTTTTTTCCC
1 TTTTTTTTTCC
34970525 TTATTTTTTTCC
1 TT-TTTTTTTCC
34970537 TTTTTT
1 TTTTTT
34970543 ATTCTTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 4 0.12
11 11 0.32
12 19 0.56
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTTTCC
Found at i:34970549 original size:22 final size:21
Alignment explanation
Indices: 34970497--34970554 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
34970487 TCTTTTTTTC
34970497 TTTTTCTT-TTTTCTTTCCTTT
1 TTTTTCTTATTTT-TTTCCTTT
*
34970518 TTTTCCCTTATTTTTTTCCTTT
1 TTTT-TCTTATTTTTTTCCTTT
34970540 TTTATTCTTATTTTT
1 TTT-TTCTTATTTTT
34970555 CTTTTTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.12
22 23 0.72
23 5 0.16
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTCTTATTTTTTTCCTTT
Found at i:34971050 original size:60 final size:60
Alignment explanation
Indices: 34970922--34971047 Score: 184
Period size: 60 Copynumber: 2.1 Consensus size: 60
34970912 ATCTCTTAAA
* * *
34970922 CCCCTCTCGTTTTTCTCCCCATTTCCTAACTACCATCAACCAACCTCCACCACTTCCCCT
1 CCCCTTTCATTTTTCTCCCCATTTCCTAACCACCATCAACCAACCTCCACCACTTCCCCT
*
34970982 CCCCTTTCATTTTTCTCCCCATTTTCC-AACCACCATCAACCAACCTCCGCC-CTTCCCCT
1 CCCCTTTCATTTTTCTCCCCA-TTTCCTAACCACCATCAACCAACCTCCACCACTTCCCCT
*
34971041 TCCCTTT
1 CCCCTTT
34971048 TCAACCTAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
59 14 0.23
60 41 0.68
61 5 0.08
ACGTcount: A:0.17, C:0.50, G:0.02, T:0.32
Consensus pattern (60 bp):
CCCCTTTCATTTTTCTCCCCATTTCCTAACCACCATCAACCAACCTCCACCACTTCCCCT
Found at i:34972202 original size:15 final size:15
Alignment explanation
Indices: 34972182--34972213 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34972172 TAAGTTCAAG
34972182 TACCAATTTTATATT
1 TACCAATTTTATATT
34972197 TACCAATTTTATATT
1 TACCAATTTTATATT
34972212 TA
1 TA
34972214 ACTCTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
TACCAATTTTATATT
Found at i:34981211 original size:28 final size:28
Alignment explanation
Indices: 34981150--34981211 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
34981140 AGTGCTCGGA
*
34981150 GTGTGGATTAACTCCAGTCTCCTATCAG
1 GTGTGTATTAACTCCAGTCTCCTATCAG
34981178 GTGTGTATTAACTCCAGTCTCCTATCAG
1 GTGTGTATTAACTCCAGTCTCCTATCAG
34981206 GTGTGT
1 GTGTGT
34981212 GTTTCTTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (28 bp):
GTGTGTATTAACTCCAGTCTCCTATCAG
Found at i:34981517 original size:27 final size:27
Alignment explanation
Indices: 34981487--34981683 Score: 261
Period size: 27 Copynumber: 7.3 Consensus size: 27
34981477 TACTGAAATG
*
34981487 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
34981514 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * **
34981541 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
34981568 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
34981595 -CCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
34981621 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
34981648 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
34981675 CCCTCGATT
1 CCCTCGATT
34981684 GTGAAATTAT
Statistics
Matches: 150, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 24 0.16
27 126 0.84
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:34981632 original size:80 final size:81
Alignment explanation
Indices: 34981487--34981683 Score: 324
Period size: 80 Copynumber: 2.4 Consensus size: 81
34981477 TACTGAAATG
* *
34981487 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
**
34981552 CAAAATTACTGTTTTA
66 CAAAATTACCATTTTA
*
34981568 CCCTCAATTTATAGAATTACCATTTTA-CCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
34981632 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* *
34981648 CCCTCAATTTACAAAATTACCATTTTACCCTCGATT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATT
34981684 GTGAAATTAT
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 75 0.69
81 33 0.31
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.39
Consensus pattern (81 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:34981745 original size:27 final size:27
Alignment explanation
Indices: 34981715--34981892 Score: 218
Period size: 27 Copynumber: 6.6 Consensus size: 27
34981705 TGTAGGATAG
34981715 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
34981742 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
34981769 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
34981796 AATTACCGAAATACCACT-GTTTTGTGA
1 AATTACCAAAATACCCCTAG-TTTGTAA
** * *
34981823 AATTACTGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
34981850 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
34981877 AATTACAAAAATACCC
1 AATTACCAAAATACCC
34981893 TTGACTTTCT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.02
27 125 0.95
28 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:34981755 original size:54 final size:53
Alignment explanation
Indices: 34981695--34981864 Score: 164
Period size: 54 Copynumber: 3.2 Consensus size: 53
34981685 TGAAATTATT
* *
34981695 AAAATACCATTGTAGGATAGAATTACCAAAATACCCCTAGTTTGTAAAATTACC
1 AAAATACCATAGTAGG-TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
* **
34981749 AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCATAGTAGGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
* ** * ** * *
34981803 GAAATACCACT-GTTTTGTGAAATTACTGAAATA-CCTTCAATTTGTAAAATTACC
1 AAAATACCA-TAG-TAGGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACC
34981857 AAAATACC
1 AAAATACC
34981865 CCTGATTTAC
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.06
54 87 0.88
55 6 0.06
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.30
Consensus pattern (53 bp):
AAAATACCATAGTAGGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACC
Found at i:34981880 original size:54 final size:54
Alignment explanation
Indices: 34981735--34981947 Score: 171
Period size: 54 Copynumber: 3.9 Consensus size: 54
34981725 ATACCCCTAG
* ** * * *
34981735 TTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACC-CCTAG
1 TTTGTAAAATTACCAAAATACCACTGA-TTTACAAAATTACTAAAATACCTTC-AA
* * *** *
34981789 TTTGTAAAATTACCGAAATACCACTGTTTTGTGAAATTACTGAAATACCTTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACTAAAATACCTTCAA
* * * *
34981843 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACTAAAATA-CCTTCAA
* * * * *
34981898 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACC
1 TTTGT-AAAATTACCA-AAATACCACTGATTTACAAAATTACTAAAATACC
34981948 CTTGGTTTGT
Statistics
Matches: 129, Mismatches: 25, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
54 82 0.64
55 13 0.10
56 34 0.26
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACTAAAATACCTTCAA
Found at i:34981943 original size:27 final size:27
Alignment explanation
Indices: 34981904--34981955 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
34981894 TGACTTTCTA
34981904 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
34981931 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
34981956 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:34982030 original size:27 final size:27
Alignment explanation
Indices: 34982000--34982051 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
34981990 GACTAAAATA
34982000 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
34982027 CCCCTATAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
34982052 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:34982423 original size:19 final size:19
Alignment explanation
Indices: 34982399--34982444 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
34982389 AGTTGGGCCT
34982399 CAATGGGCAGGAATTGGGC
1 CAATGGGCAGGAATTGGGC
***
34982418 CAATGGGCTTTAATTGGGC
1 CAATGGGCAGGAATTGGGC
34982437 CAATGGGC
1 CAATGGGC
34982445 TTTTGGGCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (19 bp):
CAATGGGCAGGAATTGGGC
Found at i:34982445 original size:19 final size:19
Alignment explanation
Indices: 34982410--34982447 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34982400 AATGGGCAGG
34982410 AATTGGGCCAATGGGCTTT
1 AATTGGGCCAATGGGCTTT
34982429 AATTGGGCCAATGGGCTTT
1 AATTGGGCCAATGGGCTTT
34982448 TGGGCCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (19 bp):
AATTGGGCCAATGGGCTTT
Found at i:34982935 original size:25 final size:24
Alignment explanation
Indices: 34982901--34982970 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
34982891 AGGAAGTGCT
34982901 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTCTGCCCCAGTTTACC
*
34982925 GAAAAGGGCTCTGCCCCAGTTTATC
1 -AAAAGGGCTCTGCCCCAGTTTACC
*
34982950 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTCTGCCCCAGTT
34982971 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTCTGCCCCAGTTTACC
Found at i:34982983 original size:24 final size:24
Alignment explanation
Indices: 34982900--34982983 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
34982890 GAGGAAGTGC
*
34982900 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTCTGCCCCAGTTTA-T
*
34982925 GAAAAGGGCTCTGCCCCAGTTTAT
1 TAAAAGGGCTCTGCCCCAGTTTAT
* *
34982949 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTCTGCCCCAGTTTAT
34982973 TAAAAGAGGCT
1 TAAAAG-GGCT
34982984 AGGCCCCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (24 bp):
TAAAAGGGCTCTGCCCCAGTTTAT
Found at i:34983165 original size:42 final size:42
Alignment explanation
Indices: 34983118--34983209 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
34983108 TAGTCACCCC
*
34983118 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34983160 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
34983202 AAATGGGC
1 AAATGGGC
34983210 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:34983268 original size:31 final size:31
Alignment explanation
Indices: 34983233--34983316 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
34983223 CATTTACAGT
*
34983233 AAAGGTTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34983264 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34983295 AAAGGCTTCGGCACAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
34983317 TCAAGACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:34991083 original size:23 final size:23
Alignment explanation
Indices: 34991057--34991103 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34991047 AGTTTGAGAC
34991057 TAAGCATACTCATATTAGTATAG
1 TAAGCATACTCATATTAGTATAG
34991080 TAAGCATACTCATATTAGTATAG
1 TAAGCATACTCATATTAGTATAG
34991103 T
1 T
34991104 TCGGTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (23 bp):
TAAGCATACTCATATTAGTATAG
Found at i:34999738 original size:15 final size:16
Alignment explanation
Indices: 34999703--34999750 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
34999693 TAACGCTCCA
34999703 AAAAATCCTGAAATCC
1 AAAAATCCTGAAATCC
*
34999719 AAAAATCTTGAAATCC
1 AAAAATCCTGAAATCC
* *
34999735 AAAAAGCCCGAAATCC
1 AAAAATCCTGAAATCC
34999751 TGAATTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.08, T:0.17
Consensus pattern (16 bp):
AAAAATCCTGAAATCC
Found at i:35000876 original size:8 final size:8
Alignment explanation
Indices: 35000851--35000893 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
35000841 ATGTATCGGC
35000851 AAAAGCCG
1 AAAAGCCG
35000859 AAATA-CCG
1 AAA-AGCCG
*
35000867 AAAAGTCG
1 AAAAGCCG
*
35000875 AAATGCCG
1 AAAAGCCG
35000883 AAAAGCCG
1 AAAAGCCG
35000891 AAA
1 AAA
35000894 GTTTGGCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:35000876 original size:16 final size:16
Alignment explanation
Indices: 35000851--35000893 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
35000841 ATGTATCGGC
35000851 AAAAGCCGAAATACCG
1 AAAAGCCGAAATACCG
* *
35000867 AAAAGTCGAAATGCCG
1 AAAAGCCGAAATACCG
35000883 AAAAGCCGAAA
1 AAAAGCCGAAA
35000894 GTTTGGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATACCG
Found at i:35001143 original size:28 final size:29
Alignment explanation
Indices: 35001103--35001213 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
35001093 GTGAGCATGA
* * *
35001103 ATATGAATGTGA-TTGGGCCTAACGGACC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
35001131 ATATAAATGTGATTTGGGCCTAATGGGCT
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
35001160 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
35001189 ATATGAATATGA-TTGGGCTTAATGG
1 ATATAAATGTGATTTGGGCCTAATGG
35001214 TCCAGATACA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
28 23 0.33
29 47 0.67
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:35001223 original size:57 final size:57
Alignment explanation
Indices: 35001111--35001226 Score: 144
Period size: 57 Copynumber: 2.0 Consensus size: 57
35001101 GAATATGAAT
* * *
35001111 GTGATTGGGCCTAACGGACCATATAAATGTGATTTGGGCCTAATGGGCTATATACAG
1 GTGATTGGGCCTAACGGACCATATAAATATGATTTGGGCCTAATGGGCCAGATACAG
* * * * *
35001168 GTGATTTGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGTCCAGATACAG
1 GTGA-TTGGGCCTAACGGACCATATAAATATGATTTGGGCCTAATGGGCCAGATACAG
35001225 GT
1 GT
35001227 ATGTGAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
57 26 0.52
58 24 0.48
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (57 bp):
GTGATTGGGCCTAACGGACCATATAAATATGATTTGGGCCTAATGGGCCAGATACAG
Found at i:35004799 original size:27 final size:27
Alignment explanation
Indices: 35004768--35004823 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
35004758 TATTTATTTG
35004768 ATTCATGCTTATAATGTTTGTGCCTCT
1 ATTCATGCTTATAATGTTTGTGCCTCT
35004795 ATTCATGCTTATAATGTTTGTGCCTCT
1 ATTCATGCTTATAATGTTTGTGCCTCT
35004822 AT
1 AT
35004824 CGATCATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (27 bp):
ATTCATGCTTATAATGTTTGTGCCTCT
Found at i:35007734 original size:93 final size:93
Alignment explanation
Indices: 35007625--35007796 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
35007615 GCCCATAAGT
* * * *
35007625 GAACTCGGACTCAACTCAAGGAGCTCAGG-CGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35007689 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
35007718 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
35007783 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
35007797 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:35007792 original size:46 final size:45
Alignment explanation
Indices: 35007617--35007791 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
35007607 TGTAACCCGC
* *
35007617 CCATAAGTGAACTCGGACTCAACTCAAGGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
* *
35007663 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
35007709 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
35007756 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
35007792 ATGCCCAAAC
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 64 0.61
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:35010210 original size:30 final size:30
Alignment explanation
Indices: 35010175--35010234 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
35010165 CAAGAAAATC
*
35010175 GAATAAAGAAATCCA-AGATAGAGAAACCCA
1 GAATAAAGAAATCCAGA-ATAAAGAAACCCA
35010205 GAATAAAGAAATCCAGAATAAAGAAACCCA
1 GAATAAAGAAATCCAGAATAAAGAAACCCA
35010235 ATATACGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAGAAACCCA
Found at i:35010214 original size:15 final size:15
Alignment explanation
Indices: 35010175--35010234 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
35010165 CAAGAAAATC
*
35010175 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
35010190 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
*
35010205 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
35010220 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
35010235 ATATACGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 1 0.03
15 36 0.95
16 1 0.03
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:35024558 original size:48 final size:47
Alignment explanation
Indices: 35024384--35024603 Score: 200
Period size: 48 Copynumber: 4.7 Consensus size: 47
35024374 ACAGGGATAA
* * * * * * *
35024384 TGTCGATGCCATATCCCAAACATGGTCTTACGCTGGCTCATCCATCA-
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-AG
* ***
35024431 AGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTACCGAAATTGAG
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTA-T-AG
* * * *
35024481 -GCCGACGCCATGTCCCAGACATGGTCTTACATTAACACCTCTATACG
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATA-G
*
35024528 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-T-G
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATAG
35024573 TAGTCGATG-CATGTCCCAGACAT-GTCTTACA
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACA
35024604 TTGGCTTACA
Statistics
Matches: 144, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
44 8 0.06
45 16 0.11
46 8 0.06
47 35 0.24
48 43 0.30
49 34 0.24
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATAG
Found at i:35024615 original size:46 final size:44
Alignment explanation
Indices: 35024385--35024655 Score: 170
Period size: 46 Copynumber: 5.8 Consensus size: 44
35024375 CAGGGATAAT
* * * *
35024385 GTCGATGCCATATCCCAAACATGGTCTTACGCTGGCT-CATCCATCAA
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACAT-C-TCGA
* ** *
35024432 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTACCGAAATTGA
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTA-C-ATCTCGA
* * * ** * *
35024480 GGCCGACGCCATGTCCCAGACATGGTCTTACATTAAC-ACCTCTATACGT
1 -GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACATC--T-CGA
* *
35024529 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTTGTA
1 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACATCTCG-A
*
35024575 GTCGATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTCGA
1 GTCGATGCATGTCCCAGACATGTCTTACACTGGC-TACATCTCGA
* *
35024620 GCCCGATGCATGTCCCAGACATATCTTACACTGGCT
1 G-TCGATGCATGTCCCAGACATGTCTTACACTGGCT
35024656 CTCGTCTCAA
Statistics
Matches: 183, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.06
45 18 0.10
46 45 0.25
47 34 0.19
48 40 0.22
49 34 0.19
50 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCGA
Found at i:35031242 original size:16 final size:16
Alignment explanation
Indices: 35031220--35031274 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
35031210 ATTGTAACGC
*
35031220 CCCAAAAATTTCGAAA
1 CCCAAAAATCTCGAAA
*
35031236 TCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
35031252 CCCAAAAATC-CTGAAA
1 CCCAAAAATCTC-GAAA
35031268 TCCCAAA
1 -CCCAAA
35031275 CTTTCTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 1 0.03
16 27 0.79
17 6 0.18
ACGTcount: A:0.49, C:0.29, G:0.05, T:0.16
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:35032627 original size:29 final size:28
Alignment explanation
Indices: 35032571--35032683 Score: 127
Period size: 29 Copynumber: 4.0 Consensus size: 28
35032561 GTGAGCATGA
* *
35032571 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
35032599 ATATAAATGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
35032628 ATATACAGGTGATTTAGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
35032657 ATATGAATATGATTGGGCTTAATGGGC
1 ATATAAATGTGATTGGGCCTAATGGGC
35032684 TAGATACAGG
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 24 0.34
29 47 0.66
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:35032654 original size:58 final size:57
Alignment explanation
Indices: 35032586--35032694 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
35032576 AATGTGACTG
* *
35032586 GGCCTAATGGGCCATATAAATGTGATTTGGGCCTAATAGGCCATATACAGGTGATTTA
1 GGCCTAATGGGCCATATAAATATGA-TTGGGCCTAATAGGCCAGATACAGGTGATTTA
* * * *
35032644 GGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCTAGATACAGGT
1 GGCCTAATGGGCCATATAAATATGATTGGGCCTAATAGGCCAGATACAGGT
35032695 ATGTGAAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 22 0.49
58 23 0.51
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (57 bp):
GGCCTAATGGGCCATATAAATATGATTGGGCCTAATAGGCCAGATACAGGTGATTTA
Found at i:35036369 original size:8 final size:8
Alignment explanation
Indices: 35036356--35036391 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
35036346 CGAAATTCCA
35036356 AAAAGCTG
1 AAAAGCTG
35036364 AAAAGCTG
1 AAAAGCTG
*
35036372 AAATGCTG
1 AAAAGCTG
35036380 AAAAGCT-
1 AAAAGCTG
35036387 AAAAG
1 AAAAG
35036392 TTTGGCTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.53, C:0.11, G:0.22, T:0.14
Consensus pattern (8 bp):
AAAAGCTG
Found at i:35039639 original size:79 final size:80
Alignment explanation
Indices: 35039538--35039720 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
35039528 TACTCGTTCA
* * * *
35039538 AATGCCTTTGGGACATATCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTTGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAACCCGG
*
35039601 ATTTAGTAACTT-GCACC
64 ATATAGTAACTTAGCA-C
**
35039618 AATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCAGATCTTAGTCCGGAT
1 AATGCCTTTGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGAT
*
35039682 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
* *
35039697 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTTGGGACTTAGCCCGGA
35039721 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 60 0.67
80 27 0.30
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
AATGCCTTTGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCAGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:35039714 original size:40 final size:40
Alignment explanation
Indices: 35039536--35039720 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
35039526 GCTACTCGTT
* * * * *
35039536 CAAATGCCTTTGGGACATATCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* *
35039576 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
35039616 CCAATGCCTTTGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTGCA
* * *
35039655 CAAATGCCTTC-AGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
35039696 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35039721 CATCATTCGA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 1 0.01
39 30 0.25
40 79 0.66
41 10 0.08
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:35046876 original size:79 final size:81
Alignment explanation
Indices: 35046767--35046949 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
35046757 TACTCGTTCA
* *
35046767 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
35046830 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
35046847 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
*
35046910 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
* *
35046926 AAAGCCTTAGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
35046950 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:35046949 original size:40 final size:40
Alignment explanation
Indices: 35046765--35046949 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
35046755 GCTACTCGTT
* *
35046765 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* * *
35046805 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
35046845 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* *
35046884 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
*
35046925 CAAA-GCCTTAGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35046950 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:35055501 original size:13 final size:13
Alignment explanation
Indices: 35055479--35055511 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35055469 AAGGGTTTGT
35055479 TTAT-TAAACTAA
1 TTATCTAAACTAA
35055491 TTATCTAAACTAA
1 TTATCTAAACTAA
*
35055504 TTAACTAA
1 TTATCTAA
35055512 TTATGGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:35056455 original size:29 final size:29
Alignment explanation
Indices: 35056420--35056519 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
35056410 AATGTGAGTA
*
35056420 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
35056449 GGCCTAATAGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
35056478 GGCCTAATGGGCCATATGAATATGA-TTA
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
35056506 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
35056520 GATACAGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
28 15 0.25
29 45 0.75
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:35056490 original size:58 final size:57
Alignment explanation
Indices: 35056420--35056528 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 57
35056410 AATGTGAGTA
* * *
35056420 GGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATAGGCCATATACAGGTGATTTG
1 GGCCTAACGGGCCATATAAATATGA-TTAGGCCTAATAGGCCAGATACAGGTGATTTG
* * * *
35056478 GGCCTAATGGGCCATATGAATATGATTAGGCTTAATGGGCCAGATACAGGT
1 GGCCTAACGGGCCATATAAATATGATTAGGCCTAATAGGCCAGATACAGGT
35056529 ATGTGAAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.50
58 22 0.50
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (57 bp):
GGCCTAACGGGCCATATAAATATGATTAGGCCTAATAGGCCAGATACAGGTGATTTG
Found at i:35059524 original size:43 final size:42
Alignment explanation
Indices: 35059436--35059533 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 42
35059426 AGAACATATT
**** * *
35059436 TGGGATATGGCATCAATATGAGATTTTGTGTAAGACTATAGC
1 TGGGATATGGCATCAATATGAGATCCCATGTAAGACCACAGC
* *
35059478 TGGGCTAATGGCATCAATATGAGATCCCATGTAAGACCACATC
1 TGGGAT-ATGGCATCAATATGAGATCCCATGTAAGACCACAGC
35059521 TGGGATATGGCAT
1 TGGGATATGGCAT
35059534 TGGTATGATA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
42 12 0.26
43 34 0.74
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
TGGGATATGGCATCAATATGAGATCCCATGTAAGACCACAGC
Found at i:35066485 original size:24 final size:25
Alignment explanation
Indices: 35066439--35066485 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
35066429 ATAAGTGAGT
* **
35066439 TAAAAACTAAAAATTAACTAATTAA
1 TAAAAACTAAAAAGTAAAAAATTAA
35066464 TAAAAA-TAAAAAGTAAAAAATT
1 TAAAAACTAAAAAGTAAAAAATT
35066486 CCAATGCACG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (25 bp):
TAAAAACTAAAAAGTAAAAAATTAA
Found at i:35073463 original size:48 final size:49
Alignment explanation
Indices: 35073392--35073564 Score: 228
Period size: 48 Copynumber: 3.6 Consensus size: 49
35073382 TAAAGTACCA
* * *
35073392 ATGCCATGTCCCGGACATGGTCTTACATGAATC-CATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGCACATATATCATCGCCG
* *
35073440 ATGCCATGTCCCAGACATGGTCTTACACTG--GCACATATGTCACCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGAAGCACATATATCATCGCCG
* *
35073488 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGCACATATATCATCGCCG
* *
35073536 ATGCCATGTCCCAAACATGGACTTACATG
1 ATGCCATGTCCCAGACATGGTCTTACATG
35073565 GAATCTCATT
Statistics
Matches: 109, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 106 0.97
49 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAGCACATATATCATCGCCG
Found at i:35080986 original size:48 final size:47
Alignment explanation
Indices: 35080912--35081237 Score: 155
Period size: 48 Copynumber: 6.8 Consensus size: 47
35080902 AAATAAAGTA
* * *
35080912 CCAATGCCACGTCCTAGACATAGTCTTACATGAATCCACATATTATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAAT-CACATATTATCG
* * * *
35080960 CCAATGCTAGGTCCCAGACATGGTCTTACA--AAGGCACATATATCATTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAA-TCACATAT-T-ATCG
* * * * * * *
35081008 CCGATGTCATGTCCCAAACATGCTCTTACACTGGCAT-ATATATTATCA
1 CCAATGCCATGTCCCAGACATGGTCTTACA-T-GAATCACATATTATCG
* *
35081056 CCAATGCCATGTCCCAGACATGGTCTTACACTG--GCACATATATCATTG
1 CCAATGCCATGTCCCAGACATGGTCTTACA-TGAATCACATAT-T-ATCG
* * * * * * * *
35081104 CCGATTCCATGTCCCAAACATGGTCTTATACAGGCA-CATATATCATTG
1 CCAATGCCATGTCCCAGACATGGTC-T-TACATGAATCACATATTATCG
* * * * * * *
35081152 TCGATGCCATGTCCCAGACATAGACTTACACTGGCA-CACTTCTTAGAT-G
1 CCAATGCCATGTCCCAGACATGGTCTTACA-T-GAATCACATATT--ATCG
* *
35081201 CCGATGCCATGTCCCAGACATGGACTTACATGGAATC
1 CCAATGCCATGTCCCAGACATGGTCTTACAT-GAATC
35081238 TCATTTAGCA
Statistics
Matches: 215, Mismatches: 44, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
46 18 0.08
47 4 0.02
48 142 0.66
49 33 0.15
50 17 0.08
52 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (47 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGAATCACATATTATCG
Found at i:35081099 original size:96 final size:96
Alignment explanation
Indices: 35080951--35081189 Score: 327
Period size: 96 Copynumber: 2.5 Consensus size: 96
35080941 ATGAATCCAC
* * **
35080951 ATATTATCGCCAATGCTAGGTCCCAGACATGGTCTTACAAAGGCACATATATCATTGCCGATGT-
1 ATATTATCGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGAT-TC
* *
35081015 CATGTCCCAAACATGCTCTTACACTGGCATAT
65 CATGTCCCAAACATGCTCTTACACAGGCACAT
*
35081047 ATATTATCACCAATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGATTCC
1 ATATTATCGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGATTCC
* *
35081112 ATGTCCCAAACATGGTCTTATACAGGCACAT
66 ATGTCCCAAACATGCTCTTACACAGGCACAT
* * * * * *
35081143 ATATCATTGTCGATGCCATGTCCCAGACATAGACTTACACTGGCACA
1 ATATTATCGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACA
35081190 CTTCTTAGAT
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
95 1 0.01
96 125 0.99
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (96 bp):
ATATTATCGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCGATTCC
ATGTCCCAAACATGCTCTTACACAGGCACAT
Found at i:35081180 original size:144 final size:144
Alignment explanation
Indices: 35080970--35081230 Score: 357
Period size: 144 Copynumber: 1.8 Consensus size: 144
35080960 CCAATGCTAG
* * *
35080970 GTCCCAGACATGGTCTTACAAAGGCACATATATCATTGCCGATGTCATGTCCCAAACATGCTCTT
1 GTCCCAAACATGGTCTTACAAAGGCACATATATCATTGCCGATGCCATGTCCCAAACATGCACTT
* *
35081035 ACACTGGCATA-TATATT-ATCACCAATGCCATGTCCCAGACATGGTCTTACACTGGCACATATA
66 ACACTGGCACACT-TATTAAT-ACCAATGCCATGTCCCAGACATGGACTTACACTGGCACATATA
35081098 TCATTGCCGATTCCAT
129 TCATTGCCGATTCCAT
* * * *
35081114 GTCCCAAACATGGTCTTATACAGGCACATATATCATTGTCGATGCCATGTCCCAGACATAG-ACT
1 GTCCCAAACATGGTCTTACAAAGGCACATATATCATTGCCGATGCCATGTCCCAAACAT-GCACT
* * *
35081178 TACACTGGCACACTTCTTAGATGCCGATGCCATGTCCCAGACATGGACTTACA
65 TACACTGGCACACTTATTA-ATACCAATGCCATGTCCCAGACATGGACTTACA
35081231 TGGAATCTCA
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
144 69 0.68
145 30 0.30
146 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (144 bp):
GTCCCAAACATGGTCTTACAAAGGCACATATATCATTGCCGATGCCATGTCCCAAACATGCACTT
ACACTGGCACACTTATTAATACCAATGCCATGTCCCAGACATGGACTTACACTGGCACATATATC
ATTGCCGATTCCAT
Found at i:35085264 original size:18 final size:18
Alignment explanation
Indices: 35085241--35085285 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
35085231 GGCCTATTGT
35085241 AGTAACAATAAATAGTAC
1 AGTAACAATAAATAGTAC
* * *
35085259 AGTAACAGTAATTAGTGC
1 AGTAACAATAAATAGTAC
35085277 AGTAACAAT
1 AGTAACAAT
35085286 TTAAACAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (18 bp):
AGTAACAATAAATAGTAC
Found at i:35085651 original size:27 final size:27
Alignment explanation
Indices: 35085610--35085715 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
35085600 ATATACCTCA
*
35085610 CATATG-GGG-AAAATAGTCATCTTAC
1 CATATGAGGGCAAAATAGTCATTTTAC
*
35085635 CATATGAGGGCAAAATAGTCATTTTAT
1 CATATGAGGGCAAAATAGTCATTTTAC
* * * *
35085662 CATATATAAGGAAAAACAGTCATTTTAC
1 CATAT-GAGGGCAAAATAGTCATTTTAC
* *
35085690 CATATAAGGGCAAAATAGTAATTTTA
1 CATATGAGGGCAAAATAGTCATTTTA
35085716 TCAATTAGGG
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
25 6 0.09
26 3 0.05
27 35 0.53
28 22 0.33
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (27 bp):
CATATGAGGGCAAAATAGTCATTTTAC
Found at i:35101572 original size:40 final size:40
Alignment explanation
Indices: 35101474--35101736 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
35101464 TCCTCGTTCA
* * * * *
35101474 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35101513 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
35101553 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35101593 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
35101633 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
35101673 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
35101713 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35101737 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35108868 original size:40 final size:40
Alignment explanation
Indices: 35108770--35109032 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
35108760 TCCTCGTTCA
* * * * *
35108770 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35108809 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
35108849 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35108889 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
35108929 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
35108969 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
35109009 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35109033 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35112507 original size:41 final size:40
Alignment explanation
Indices: 35112424--35112584 Score: 154
Period size: 41 Copynumber: 4.0 Consensus size: 40
35112414 TACTAATAAT
35112424 CGGGTTAAGTCCCAGAAGGCATTCGT-GCGA--TATTAAATC
1 CGGGTTAAGTCCC-GAAGGCATT-GTCGCGAGTTATTAAATC
35112463 CGGGTTAAGTCCCGAAGGCATTGTCCGCGAGTTATTAAATC
1 CGGGTTAAGTCCCGAAGGCATTGT-CGCGAGTTATTAAATC
* *
35112504 CGGGTTAAGTCCCGAAGCGCAGTCGT-GCGACGTTTGTTAAATC
1 CGGGTTAAGTCCCGAAG-GCA-TTGTCGCGA-G-TTATTAAATC
* * *
35112547 CGGAGTTACTGT-CCGAAGGCATTGT-GTGAGTTACTAAA
1 CGG-GTTA-AGTCCCGAAGGCATTGTCGCGAGTTATTAAA
35112585 ACCAGGGCTA
Statistics
Matches: 105, Mismatches: 7, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
37 2 0.02
38 9 0.09
39 17 0.16
40 6 0.06
41 31 0.30
42 10 0.10
43 18 0.17
44 10 0.10
45 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTGTCGCGAGTTATTAAATC
Found at i:35124393 original size:39 final size:41
Alignment explanation
Indices: 35124292--35124475 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
35124282 TTGAATGATG
* *
35124292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
35124332 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
35124372 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
35124411 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
35124450 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35124476 AACGAGAGCT
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:35124428 original size:79 final size:80
Alignment explanation
Indices: 35124292--35124475 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
35124282 TTGAATGATG
*
35124292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
35124356 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
35124371 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35124433 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
35124450 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35124476 AACGAGAGCT
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:35124493 original size:78 final size:77
Alignment explanation
Indices: 35124345--35124507 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 77
35124335 GGACTAAGAT
* **
35124345 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TACTAA
*
35124410 ATCCGGGTTAAGTC
65 ATCC-GGTTAAATC
* *
35124424 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-AGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTA-CT
* *
35124486 ATATCCGGTTAAATT
63 AAATCCGGTTAAATC
35124501 CCGAAGG
1 CCGAAGG
35124508 TACGTGATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
77 17 0.23
78 29 0.40
79 27 0.37
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTACTAAA
TCCGGTTAAATC
Found at i:35127365 original size:53 final size:54
Alignment explanation
Indices: 35127297--35127503 Score: 184
Period size: 53 Copynumber: 3.8 Consensus size: 54
35127287 TTCCTTTTTA
*
35127297 AACTTACCATTGCCATGTCCTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCCTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
35127350 AACTCACCATTGCCATG-CCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGTCC-TGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * * * *
35127404 TAGTTTATCAATGCTATGTCTTGACATGGTTTTCCATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCCTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
35127459 AACTTACCAATGCCATGTCTTGGCGTGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCCTGACATGGTCTTACATGGTATCCTT
35127504 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
52 2 0.02
53 45 0.38
54 35 0.30
55 35 0.30
56 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCCTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:35134269 original size:6 final size:6
Alignment explanation
Indices: 35134251--35134340 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
35134241 AAGAAACATT
* * *
35134251 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGT ATCAGGT ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-GA ATCAGA
* * * * *
35134300 ATCAAA ATCAAA ATTAGT ATCAGGTA A-CAGA ATCAAA ATCA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCA
35134341 AAATGTGAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
5 3 0.04
6 53 0.79
7 10 0.15
8 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:35134301 original size:31 final size:31
Alignment explanation
Indices: 35134263--35134344 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
35134253 CAGAACTAGA
* *
35134263 ATCAGAATCAGAATCAGAATTAGTATCAGGT
1 ATCAGAATCAAAATCAAAATTAGTATCAGGT
35134294 ATCAGAATCAAAATCAAAATTAGTATCAGGT
1 ATCAGAATCAAAATCAAAATTAGTATCAGGT
*
35134325 AACAGAATCAAAATCAAAAT
1 ATCAGAATCAAAATCAAAAT
35134345 GTGAATGCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (31 bp):
ATCAGAATCAAAATCAAAATTAGTATCAGGT
Found at i:35134518 original size:27 final size:26
Alignment explanation
Indices: 35134476--35134577 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
35134466 GTTCAGTTAT
* *
35134476 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
35134503 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
35134529 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
35134557 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
35134578 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:35134771 original size:22 final size:22
Alignment explanation
Indices: 35134746--35134799 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
35134736 TGGCACACAA
* **
35134746 CCATAATCAGGTTGGCACAGTG
1 CCATAATCAGGTTGACACAAAG
*
35134768 CCAT-ATGTAGGTTGACACAAAG
1 CCATAAT-CAGGTTGACACAAAG
35134790 CCATAATCAG
1 CCATAATCAG
35134800 AAGGCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
CCATAATCAGGTTGACACAAAG
Found at i:35135282 original size:27 final size:27
Alignment explanation
Indices: 35135244--35135537 Score: 408
Period size: 27 Copynumber: 10.6 Consensus size: 27
35135234 TACCCCGCAA
35135244 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
35135271 GGTATTTCGGTAGAATCGGTAATTCTACCCTACAGG
1 GGTA--T---T----TCGGTAATTCTACCCTACAGG
35135307 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
35135334 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
35135361 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
35135388 GGTATTCCGGTAATTCTACCTTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
35135415 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
35135442 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
35135469 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
35135496 GGTATTTCAATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
35135523 GGTATTTCGATAATT
1 GGTATTTCGGTAATT
35135538 TCACAAATCA
Statistics
Matches: 240, Mismatches: 18, Indels: 18
0.87 0.07 0.07
Matches are distributed among these distances:
27 211 0.88
29 1 0.00
31 1 0.00
32 1 0.00
34 1 0.00
36 25 0.10
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:35135297 original size:36 final size:36
Alignment explanation
Indices: 35135250--35135318 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
35135240 GCAAGGTATT
35135250 TCGGTAATTCTACCCTACAGGGGTATTTCGGTAGAA
1 TCGGTAATTCTACCCTACAGGGGTATTTCGGTAGAA
35135286 TCGGTAATTCTACCCTACAGGGGTATTTCGGTA
1 TCGGTAATTCTACCCTACAGGGGTATTTCGGTA
35135319 ATTCTACCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (36 bp):
TCGGTAATTCTACCCTACAGGGGTATTTCGGTAGAA
Found at i:35135634 original size:54 final size:54
Alignment explanation
Indices: 35135519--35135661 Score: 155
Period size: 54 Copynumber: 2.6 Consensus size: 54
35135509 TTCTACCCTA
* * *
35135519 CAAGGGTA-TTTCGATAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAG-TAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAAC
* * ** **
35135573 CAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
* *
35135627 TAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTAGTAATTTTATAAATCGAGGGTA
35135662 AAATGTTAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
54 68 0.93
55 5 0.07
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
Found at i:35135671 original size:27 final size:27
Alignment explanation
Indices: 35135640--35135849 Score: 217
Period size: 27 Copynumber: 7.8 Consensus size: 27
35135630 GGGTATTTTA
* *
35135640 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* ** * *
35135667 TTAATTCTATAAATTTAGGGTAAGACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
35135694 ATAATTCTATAAATCAAGGGTAAAATT
1 GTAATTCTATAAATCGAGGGTAAAATG
35135721 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
35135748 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * **
35135775 GTAATTTTATAAATCGAGAGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
35135802 ATAATTCTGTAAATCAAGGTTAAACA--
1 GTAATTCTATAAATCGAGGGTAAA-ATG
*
35135828 GTAATTCTATAAATCGATGGTA
1 GTAATTCTATAAATCGAGGGTA
35135850 CTTTGGAAAT
Statistics
Matches: 151, Mismatches: 31, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
26 17 0.11
27 133 0.88
28 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:35135965 original size:27 final size:27
Alignment explanation
Indices: 35135521--35136022 Score: 135
Period size: 27 Copynumber: 18.7 Consensus size: 27
35135511 CTACCCTACA
* *
35135521 AGGGTATTTCGATAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
35135547 AGGGGTATTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTACAAATCG
* ***
35135574 AGGGGTATTTTGGTAATTTTATTGATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
* ** *
35135602 AGGGTATTTTGGTAATTTTGTAAA-CTA
1 AGGGTATTTCGGTAATTTTACAAATC-G
** **
35135629 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * * * **
35135656 AGGGTAAAAT-GTTAATTCTATAAATTT
1 AGGGT-ATTTCGGTAATTTTACAAATCG
*** * * * *
35135683 AGGGTAAGACGATAATTCTATAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
35135710 AGGGTAAAATT--GTAATTCTATAAATCG
1 AGGGT--ATTTCGGTAATTTTACAAATCG
** * *
35135737 AGGGTAAAAT-GGTAATTCTATAAATCG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
*** *
35135764 AGGGTAAAACGGTAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *** ** * ** *
35135791 AGAGTAAAACAATAATTCTGTAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** * * *
35135818 AGGTTA-AACAGTAATTCTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
35135844 ATGGTACTTT-GGAAATTTTACAAGTTG
1 AGGGTA-TTTCGGTAATTTTACAAATCG
** *
35135871 AGGACATTTCTGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * * *
35135898 AGGGTATTTCAATCATTTTGCAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
35135925 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** * *
35135952 AGGATATTGGGGTAATTTTATAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
35135979 GGGGTACTTT-GGTAATTTCACAACT-G
1 AGGGTA-TTTCGGTAATTTTACAAATCG
* *
35136005 GGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
35136023 GGTAAACTAA
Statistics
Matches: 375, Mismatches: 85, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
25 3 0.01
26 50 0.13
27 313 0.83
28 7 0.02
29 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:35154969 original size:40 final size:40
Alignment explanation
Indices: 35154902--35155065 Score: 217
Period size: 40 Copynumber: 4.1 Consensus size: 40
35154892 ACCCAAGTAT
* *
35154902 CTTCGGGAT-TTAG-CCGGATATAACAACTCGTACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
35154941 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
35154981 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
35155021 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
35155061 CTTCG
1 CTTCG
35155066 AATCTTAGTC
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.12
40 94 0.85
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:35158354 original size:46 final size:45
Alignment explanation
Indices: 35158304--35158475 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
35158294 TGGTTGAGCA
*
35158304 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
35158350 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
35158397 TCCGAGCTCATTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
35158443 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTT
35158476 GTGGGCGGGT
Statistics
Matches: 100, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 57 0.57
47 30 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:35158460 original size:93 final size:93
Alignment explanation
Indices: 35158301--35158471 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
35158291 GGATGGTTGA
* * *
35158301 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
35158366 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
35158394 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCATTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
35158458 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
35158472 ACTTGTGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:35160772 original size:55 final size:54
Alignment explanation
Indices: 35160650--35160865 Score: 163
Period size: 55 Copynumber: 4.0 Consensus size: 54
35160640 ATTACGGTTT
* * * * *
35160650 AAGGATACCATGTAAGACCATG-CTAAGGCATGGAAATTGGTGAGGTTTC-TAAGGC
1 AAGGTTACCATGTAAGACCATGTC-AAGACATGG-CATTGAT-AAGTTTCATAAGGC
*** * *
35160705 AAGAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTATTATAAGGC
1 AAGGTTACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-TCATAAGGC
* * * * * *
35160760 AAAGG-TCCCATGTAAGACCATGCCGAGGCTTGGCATT-AGTGAG-TTCATAAGGC
1 -AAGGTTACCATGTAAGACCATGTCAAGACATGGCATTGA-TAAGTTTCATAAGGC
* * * *
35160813 AAGGTTACCATGTAAGACTATGTCAAGACATGGCAATGGTAAGTTTCAAAAGG
1 AAGGTTACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCATAAGG
35160866 ATACCACGTA
Statistics
Matches: 125, Mismatches: 28, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
52 4 0.03
53 40 0.32
54 16 0.13
55 61 0.49
56 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGGTTACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCATAAGGC
Found at i:35160847 original size:53 final size:55
Alignment explanation
Indices: 35160713--35160865 Score: 154
Period size: 53 Copynumber: 2.8 Consensus size: 55
35160703 GCAAGAAAAT
* *
35160713 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTATTATAAGGCAAAGGTCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTATCATAAGGCAAAGGTAC
* * * * *
35160768 CATGTAAGACCATGCCGAGGCTTGGCATT-AGTGAG-T-TCATAAGGC-AAGGTTAC
1 CATGTAAGACCATGTCAAGACATGGCATTGA-TAAGTTATCATAAGGCAAAGG-TAC
* * * *
35160821 CATGTAAGACTATGTCAAGACATGGCAATGGTAAGTT-TCAAAAGG
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTATCATAAGG
35160866 ATACCACGTA
Statistics
Matches: 78, Mismatches: 16, Indels: 9
0.76 0.16 0.09
Matches are distributed among these distances:
52 4 0.05
53 36 0.46
54 10 0.13
55 28 0.36
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (55 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTATCATAAGGCAAAGGTAC
Found at i:35162834 original size:29 final size:29
Alignment explanation
Indices: 35162774--35162916 Score: 234
Period size: 29 Copynumber: 5.0 Consensus size: 29
35162764 CATACATGCT
* * *
35162774 TATGGCCCACTAGGCCC-AATCTCATTCA
1 TATGGCCCATTAGGCCCAAATCACATTCG
*
35162802 TATGGCCCACTAGGCCCAAATCACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
*
35162831 TATGGCCCATTAGGCCCAAATCACATTTG
1 TATGGCCCATTAGGCCCAAATCACATTCG
35162860 TATGGCCCATTAGGCCCAAATCACATTCG
1 TATGGCCCATTAGGCCCAAATCACATTCG
35162889 TATGGCCCATTAGGCCCAAATCACATTC
1 TATGGCCCATTAGGCCCAAATCACATTC
35162917 ATATTCATAC
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
28 17 0.16
29 92 0.84
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAATCACATTCG
Found at i:35172487 original size:30 final size:30
Alignment explanation
Indices: 35172448--35172516 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
35172438 CCGTGTACTA
*
35172448 GGCCATGTCCTCCACAAGGCTGAGACATAC
1 GGCCGTGTCCTCCACAAGGCTGAGACATAC
35172478 GGCCGTGTCCTCCACAAGGCTGAGACATAC
1 GGCCGTGTCCTCCACAAGGCTGAGACATAC
*
35172508 GGTCGTGTC
1 GGCCGTGTC
35172517 TCTGCCCGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.19
Consensus pattern (30 bp):
GGCCGTGTCCTCCACAAGGCTGAGACATAC
Found at i:35173400 original size:47 final size:46
Alignment explanation
Indices: 35173346--35173522 Score: 171
Period size: 47 Copynumber: 3.8 Consensus size: 46
35173336 GGGAAGGTGC
35173346 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAG
* * **
35173392 TCGATGCCATGTCCCAGACATGGTCTTATACTGACT-ATCATCTCGTAG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATC-CCAAG
* * * * * * *
35173440 CTGATG-CATGTCCTAGAAAT-ATCTTACACTAGCTCTCGTCTCAATG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAA-G
*
35173486 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
35173523 TCATAATGTG
Statistics
Matches: 102, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
45 1 0.01
46 18 0.18
47 63 0.62
48 20 0.20
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAG
Found at i:35173545 original size:47 final size:46
Alignment explanation
Indices: 35173348--35173559 Score: 159
Period size: 47 Copynumber: 4.5 Consensus size: 46
35173338 GAAGGTGCCG
* *
35173348 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAGT-CG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT--CAAGTGCT
* * * **
35173395 ATGCCATGTCCCAGACATGGTCTTATACTGACTATCATCTCGTAGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAAGT-GCT
* * * * * *
35173442 GATG-CATGTCCTAGAAAT-ATCTTACACTAGCTCTCGTCTCAA-TGCCA
1 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--ATCAAGTG-CT
35173489 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTGGCCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAA-GT-G-CT
*
35173537 ATG-CATGTCCCAGAC-TTGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
35173560 AACTAGCCAA
Statistics
Matches: 129, Mismatches: 25, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
45 5 0.04
46 24 0.19
47 74 0.57
48 26 0.20
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAAGTGCT
Found at i:35173559 original size:94 final size:93
Alignment explanation
Indices: 35173347--35173566 Score: 228
Period size: 94 Copynumber: 2.3 Consensus size: 93
35173337 GGAAGGTGCC
* * * *
35173347 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCCCAAGTCGATGCCATGTCCCAGACA
1 GATG-CATGTCCCAGAC-TTGTCTTACACTAGCTCACATCCCAAGCCAATGCCATGTCCCAGACA
* *
35173412 TGGTCTTATACTGACTATCATCTCGTAGCT
64 TGGTCTTACACTGACTATCATATCGTAGCT
* ** * * * *
35173442 GATGCATGTCCTAGAAATATCTTACACTAGCTCTCGTCTCAATGCCAATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACTTGTCTTACACTAGCTCACATCCCAA-GCCAATGCCATGTCCCAGACAT
* * *
35173507 GGTCTTACACTGGCTCTCATAAT-GTGGCCT
65 GGTCTTACACTGACTATCAT-ATCGTAG-CT
*
35173537 -ATGCATGTCCCAGACTTGTCTTAAACTAGC
1 GATGCATGTCCCAGACTTGTCTTACACTAGC
35173567 CAACAATAAC
Statistics
Matches: 101, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
93 19 0.19
94 75 0.74
95 7 0.07
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
GATGCATGTCCCAGACTTGTCTTACACTAGCTCACATCCCAAGCCAATGCCATGTCCCAGACATG
GTCTTACACTGACTATCATATCGTAGCT
Found at i:35182778 original size:40 final size:42
Alignment explanation
Indices: 35182700--35182778 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
35182690 ATAGAGGTTT
* *
35182700 TCACCCGGCCAGACACACGGCCGTGTCATTGGCCCGTGTTCC
1 TCACACGGCCAGACACACGCCCGTGTCATTGGCCCGTGTTCC
* *
35182742 TCACACGGCCA-AGACACGCCCGTGT-GTTGGCCCGTGT
1 TCACACGGCCAGACACACGCCCGTGTCATTGGCCCGTGT
35182779 GAAAAAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 11 0.33
41 12 0.36
42 10 0.30
ACGTcount: A:0.15, C:0.38, G:0.28, T:0.19
Consensus pattern (42 bp):
TCACACGGCCAGACACACGCCCGTGTCATTGGCCCGTGTTCC
Found at i:35183573 original size:13 final size:13
Alignment explanation
Indices: 35183551--35183583 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35183541 AAGGGTTTGT
35183551 TTAT-TAAACTAA
1 TTATCTAAACTAA
35183563 TTATCTAAACTAA
1 TTATCTAAACTAA
*
35183576 TTAACTAA
1 TTATCTAA
35183584 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:35186167 original size:40 final size:40
Alignment explanation
Indices: 35186084--35186346 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
35186074 TTGAATGCTG
* * * * * *
35186084 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
35186124 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
35186164 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35186204 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
35186244 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35186284 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35186323 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35186347 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:35186366 original size:79 final size:80
Alignment explanation
Indices: 35186123--35186381 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
35186113 AAGTGAATAT
* * * * * * *
35186123 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
35186187 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
35186203 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
35186268 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
35186283 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
35186347 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
35186362 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
35186382 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:35194122 original size:40 final size:40
Alignment explanation
Indices: 35194039--35194301 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
35194029 TTGAATGCTG
* * * * * *
35194039 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
35194079 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
35194119 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35194159 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
35194199 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35194239 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35194278 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35194302 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:35194321 original size:79 final size:80
Alignment explanation
Indices: 35194078--35194336 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
35194068 AAGTGAATAT
* * * * * * *
35194078 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
35194142 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
35194158 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
35194223 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
35194238 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
35194302 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
35194317 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
35194337 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:35197649 original size:4 final size:5
Alignment explanation
Indices: 35197593--35197666 Score: 66
Period size: 5 Copynumber: 14.8 Consensus size: 5
35197583 TATGTCTTTC
*
35197593 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT AAAAT AAAAT
*
35197639 AAAAT -AAAT AAAA- ATAAT AAGAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA
35197667 AGGTAGGAGG
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
3 3 0.05
4 7 0.12
5 29 0.51
6 18 0.32
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:35197653 original size:31 final size:31
Alignment explanation
Indices: 35197593--35197655 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
35197583 TATGTCTTTC
*
35197593 AAAATAAAATAATAAAATTGAAATGAAAATA
1 AAAATAAAATAATAAAATTGAAATAAAAATA
35197624 AAAATAAAATAAAATAAAA-T-AAATAAAAATA
1 AAAATAAAAT--AATAAAATTGAAATAAAAATA
35197655 A
1 A
35197656 TAAGAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 21 0.72
32 1 0.03
33 7 0.24
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (31 bp):
AAAATAAAATAATAAAATTGAAATAAAAATA
Found at i:35202522 original size:27 final size:27
Alignment explanation
Indices: 35202489--35202678 Score: 173
Period size: 27 Copynumber: 7.3 Consensus size: 27
35202479 TACTGAAATG
*
35202489 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35202516 CCTTCGATTTATAGAATTACCATTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * **
35202543 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
35202570 CCCTCGATTTATAGAATTACCA---T-
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35202593 ---T-GATTTATAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35202616 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
35202643 CCCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
35202670 CCCTCGATT
1 CCCTCGATT
35202679 GTGAAATTAC
Statistics
Matches: 134, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
19 15 0.11
20 1 0.01
22 1 0.01
24 1 0.01
26 2 0.01
27 113 0.84
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:35202561 original size:54 final size:53
Alignment explanation
Indices: 35202489--35202678 Score: 207
Period size: 54 Copynumber: 3.7 Consensus size: 53
35202479 TACTGAAATG
** * * *
35202489 CCCTCGATTTGTAGAATTACCATTTTACCTTCGATTTATAGAATTACCATTTCA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT-A
*
35202543 CCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCA--T-
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTA
* * *
35202593 ---T-GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCA-TTTA
*
35202643 CCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATT
1 CCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATT
35202679 GTGAAATTAC
Statistics
Matches: 115, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
46 40 0.35
47 1 0.01
49 1 0.01
52 1 0.01
53 2 0.02
54 70 0.61
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (53 bp):
CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTA
Found at i:35202615 original size:46 final size:46
Alignment explanation
Indices: 35202548--35202639 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
35202538 TTTCACCCTC
* * *
35202548 GATTTACAAAATTACTGTTTTACCCTCGATTTATAGAATTACCATT
1 GATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
*
35202594 GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
1 GATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
35202640 TTACCCTCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (46 bp):
GATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
Found at i:35202661 original size:73 final size:73
Alignment explanation
Indices: 35202513--35202661 Score: 203
Period size: 73 Copynumber: 2.0 Consensus size: 73
35202503 AATTACCATT
* **
35202513 TTACCTTCGATTTATAGAATTACCATTTCACCCTCGATTTACAAAATTACTGTTTTACCCTCGAT
1 TTACCTTCGATTTATAAAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGAT
* *
35202578 TTATAGAA
66 TTACAAAA
* *
35202586 TTACCATT-GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-A
1 TTACC-TTCGATTTATAAAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGA
35202649 GTTTACAAAA
65 -TTTACAAAA
35202659 TTA
1 TTA
35202662 TCGTTTTACC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
72 1 0.01
73 64 0.96
74 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (73 bp):
TTACCTTCGATTTATAAAATTACCATTTCACCCTCGATTTACAAAATTACCATTTTACCCTCGAT
TTACAAAA
Found at i:35202668 original size:100 final size:100
Alignment explanation
Indices: 35202494--35202678 Score: 275
Period size: 100 Copynumber: 1.9 Consensus size: 100
35202484 AAATGCCCTC
* * * * *
35202494 GATTTGTAGAATTACCATTTTACCTTCGATTTATAGAATTACCATTTCACCCTCGATTTACAAAA
1 GATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTACAAAA
35202559 TTACTGTTTTACCCTCGATTTATAGAATTACCATT
66 TTACTGTTTTACCCTCGATTTATAGAATTACCATT
* *
35202594 GATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-AGTTTACAAA
1 GATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGA-TTTACAAA
35202658 ATTA-TCGTTTTACCCTCGATT
65 ATTACT-GTTTTACCCTCGATT
35202679 GTGAAATTAC
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
99 2 0.03
100 74 0.97
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (100 bp):
GATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTCACCCTCGATTTACAAAA
TTACTGTTTTACCCTCGATTTATAGAATTACCATT
Done.