Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 48 of 335
Found at i:17427171 original size:71 final size:72
Alignment explanation
Indices: 17427054--17427245 Score: 282
Period size: 71 Copynumber: 2.7 Consensus size: 72
17427044 TGCTTTATCA
* * *
17427054 AATAACTGGAGGCCT-AGCCTCTTTTAAAAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATA
1 AATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATA
17427118 AGCCC-TTT
64 AGCCCTTTT
* * *
17427126 AATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 AATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAG
17427191 CCCTTTT
66 CCCTTTT
*
17427198 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 AATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
17427246 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 75 0.69
72 34 0.31
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
AATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAG
CCCTTTT
Found at i:17428369 original size:27 final size:26
Alignment explanation
Indices: 17428339--17428416 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
17428329 AGGCATATTC
17428339 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
17428366 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
17428393 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
17428417 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:17428493 original size:27 final size:27
Alignment explanation
Indices: 17428471--17428784 Score: 286
Period size: 27 Copynumber: 11.7 Consensus size: 27
17428461 CAAGGGTATT
*
17428471 TCAGTAATTTTGTAAATCGAGGGTAAA
1 TCAGTAATTCTGTAAATCGAGGGTAAA
*
17428498 T-AGTAATTCTGTAAATCAAGGGTGAAA
1 TCAGTAATTCTGTAAATCGAGGGT-AAA
*
17428525 -CAGTAATTCTATAAATCGAGGGTAAAA
1 TCAGTAATTCTGTAAATCGAGGGT-AAA
* *
17428552 T-GGCAATTCTGTAAATCGAGGGTAAA
1 TCAGTAATTCTGTAAATCGAGGGTAAA
* *
17428578 ACGGTAATTCTGTAAATCGAGGGTAAA
1 TCAGTAATTCTGTAAATCGAGGGTAAA
* *
17428605 AC-GATAATTATGTAAATCG-GGGTAAA
1 TCAG-TAATTCTGTAAATCGAGGGTAAA
* * * * *
17428631 ACGGTAATTATGTAAATTGGGGGTAAAA
1 TCAGTAATTCTGTAAATCGAGGGT-AAA
* *
17428659 T-GGTAATTCTGTAAATTGAGGGTAAAA
1 TCAGTAATTCTGTAAATCGAGGGT-AAA
17428686 T-AGTAATTCTGTAAA-CTGAGGGTAAA
1 TCAGTAATTCTGTAAATC-GAGGGTAAA
* *
17428712 ACGGTAATTCTGTAAATCGAGGGTAAA
1 TCAGTAATTCTGTAAATCGAGGGTAAA
* * * *
17428739 ACGGTAATTCTAT-AACCTGAGGGTAAA
1 TCAGTAATTCTGTAAATC-GAGGGTAAA
* *
17428766 ACGGTAATTCTGTAAATCG
1 TCAGTAATTCTGTAAATCG
17428785 GGAGTACTTT
Statistics
Matches: 251, Mismatches: 23, Indels: 26
0.84 0.08 0.09
Matches are distributed among these distances:
26 53 0.21
27 191 0.76
28 7 0.03
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (27 bp):
TCAGTAATTCTGTAAATCGAGGGTAAA
Found at i:17428665 original size:134 final size:135
Alignment explanation
Indices: 17428475--17428783 Score: 412
Period size: 134 Copynumber: 2.3 Consensus size: 135
17428465 GGTATTTCAG
* *
17428475 TAATTTTGTAAATCGAGGGTAAATA--GTAATTCTGTAAATCAAGGGTGAAACAGTAATTCTATA
1 TAATTATGTAAATCGAGGGTAAA-ACGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
*
17428538 AATCGAGGGTAAAATGGCAATTCTGTAAA-TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGT
65 AATCGAGGGTAAAATAGCAATTCTGTAAACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGT
17428602 AAAACGA
129 AAAACGA
* *** ** *
17428609 TAATTATGTAAATCG-GGGTAAAACGGTAATTATGTAAATTGGGGGTAAAATGGTAATTCTGTAA
1 TAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
* *
17428673 ATTGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
66 ATCGAGGGTAAAATAGCAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
*
17428738 AACGG
131 AACGA
* * *
17428743 TAATTCTAT-AACCTGAGGGTAAAACGGTAATTCTGTAAATC
1 TAATTATGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATC
17428784 GGGAGTACTT
Statistics
Matches: 152, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
132 1 0.01
133 10 0.07
134 117 0.77
135 24 0.16
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.29
Consensus pattern (135 bp):
TAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAATAGCAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
AACGA
Found at i:17428815 original size:54 final size:54
Alignment explanation
Indices: 17428474--17428784 Score: 398
Period size: 54 Copynumber: 5.8 Consensus size: 54
17428464 GGGTATTTCA
* * * *
17428474 GTAATTTTGTAAATCGAGGGTAAATA--GTAATTCTGTAAATCAAGGGTGAAACA
1 GTAATTCTGTAAATCGAGGGTAAA-ACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
17428527 GTAATTCTATAAATCGAGGGTAAAATGGCAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
17428581 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * * **
17428634 GTAATTATGTAAATTGGGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
17428688 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
17428742 GTAATTCTAT-AACCTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
17428785 GGAGTACTTT
Statistics
Matches: 225, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
52 1 0.00
53 70 0.31
54 154 0.68
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:17428815 original size:81 final size:79
Alignment explanation
Indices: 17428474--17428786 Score: 371
Period size: 81 Copynumber: 3.9 Consensus size: 79
17428464 GGGTATTTCA
* * * * *
17428474 GTAATTTTGTAAATCGAGGGTAAATA--GTAATTCTGTAAATCAAGGGTGAAACAGTAATTCTAT
1 GTAATTATGTAAATCGAGGGTAAA-ACGGTAATTCTGTAAAT-GAGGGTAAAACGGTAATTCTGT
*
17428537 AAATCGAGGGTAAAATG
64 AAATCG-GGGTAAAACG
* * * *
17428554 GCAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAAT-GAGGGTAAAACGGTAATTCTGTA
17428619 AATCGGGGTAAAACG
65 AATCGGGGTAAAACG
* * * **
17428634 GTAATTATGTAAATTGGGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTGTA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAA-TGAGGGTAAAACGGTAATTCTGTA
17428699 AA-CTGAGGGTAAAACG
65 AATC-G-GGGTAAAACG
* * *
17428715 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAACCTGAGGGTAAAACGGTAATTCTGTA
1 GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAA-ATGAGGGTAAAACGGTAATTCTGTA
17428780 AATCGGG
65 AATCGGG
17428787 AGTACTTTGG
Statistics
Matches: 200, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.01
80 90 0.45
81 107 0.54
82 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (79 bp):
GTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATGAGGGTAAAACGGTAATTCTGTAA
ATCGGGGTAAAACG
Found at i:17435949 original size:23 final size:23
Alignment explanation
Indices: 17435919--17436005 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
17435909 GCTTTACTAA
* *
17435919 TCAGGCACTTTATGTTTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
**
17435942 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
*
17435963 TCAGGCACCTTGTGTGTCGT-TT
1 TCAGGCACCTTATGTGTCGTATT
*
17435985 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTTATGTGTCGTAT
17436006 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 35 0.65
22 2 0.04
23 17 0.31
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:17437425 original size:27 final size:27
Alignment explanation
Indices: 17437378--17437429 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
17437368 ATAATAATAT
**
17437378 AATAAAATAAAGTAATTAAATAAAACA
1 AATAAAATAAAGTAAAGAAATAAAACA
17437405 AATAAAATAAAAG-AAAGAAATAAAA
1 AATAAAAT-AAAGTAAAGAAATAAAA
17437430 GAGAGAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (27 bp):
AATAAAATAAAGTAAAGAAATAAAACA
Found at i:17439199 original size:20 final size:20
Alignment explanation
Indices: 17439176--17439216 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
17439166 ACCCCACGAC
*
17439176 CATGTTCCAGGCCACACGGG
1 CATGTCCCAGGCCACACGGG
17439196 CATGTCCCAGGCCACACGGG
1 CATGTCCCAGGCCACACGGG
17439216 C
1 C
17439217 TTGTGCTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.12
Consensus pattern (20 bp):
CATGTCCCAGGCCACACGGG
Found at i:17444676 original size:16 final size:16
Alignment explanation
Indices: 17444655--17444685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17444645 AGTAGCTTTG
*
17444655 AATCAATTAAGTTAGA
1 AATCAATTAAATTAGA
17444671 AATCAATTAAATTAG
1 AATCAATTAAATTAG
17444686 TAAAAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (16 bp):
AATCAATTAAATTAGA
Found at i:17444959 original size:21 final size:21
Alignment explanation
Indices: 17444935--17444974 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17444925 TTTAAGTGAT
*
17444935 TAATTAATTTATATTGATTTA
1 TAATTAATTTATATGGATTTA
* *
17444956 TAATTTATTTTTATGGATT
1 TAATTAATTTATATGGATT
17444975 AATCAAAAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TAATTAATTTATATGGATTTA
Found at i:17446380 original size:22 final size:23
Alignment explanation
Indices: 17446334--17446382 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
17446324 AATTGAAATT
* * *
17446334 TTAAATTTTCATAATTATAAAAA
1 TTAAATCTCCATAATGATAAAAA
17446357 TTAAATCTCCATAATGA-AAAAA
1 TTAAATCTCCATAATGATAAAAA
17446379 TTAA
1 TTAA
17446383 CACAATTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (23 bp):
TTAAATCTCCATAATGATAAAAA
Found at i:17459279 original size:13 final size:12
Alignment explanation
Indices: 17459263--17459312 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
17459253 ATAACTATTA
17459263 AATATTTGTAATT
1 AATATTT-TAATT
**
17459276 AATATTTTAAAA
1 AATATTTTAATT
17459288 AATATTTTAAATT
1 AATATTTT-AATT
17459301 AATAATTTTAAT
1 AAT-ATTTTAAT
17459313 ACATTTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 11 0.35
13 15 0.48
14 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
AATATTTTAATT
Found at i:17459291 original size:25 final size:26
Alignment explanation
Indices: 17459262--17459311 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
17459252 TATAACTATT
17459262 AAATATTTGT-AATTAAT-ATTTTAAA
1 AAATATTT-TAAATTAATAATTTTAAA
17459287 AAATATTTTAAATTAATAATTTTAA
1 AAATATTTTAAATTAATAATTTTAA
17459312 TACATTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
AAATATTTTAAATTAATAATTTTAAA
Found at i:17460213 original size:6 final size:6
Alignment explanation
Indices: 17460197--17460231 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
17460187 TTTTCTTTTC
17460197 TTTTCGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
1 TTTT-GG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
17460232 AACAGACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.00, C:0.03, G:0.29, T:0.69
Consensus pattern (6 bp):
TTTTGG
Found at i:17472113 original size:18 final size:18
Alignment explanation
Indices: 17472090--17472125 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17472080 CCGTCCTTTT
17472090 ATAAAAATATACAAGAAG
1 ATAAAAATATACAAGAAG
17472108 ATAAAAATATACAAGAAG
1 ATAAAAATATACAAGAAG
17472126 CTGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.11, T:0.17
Consensus pattern (18 bp):
ATAAAAATATACAAGAAG
Found at i:17475636 original size:3 final size:3
Alignment explanation
Indices: 17475630--17475676 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
17475620 TTTCAATATC
17475630 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
17475677 GAGTCACTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:17480101 original size:13 final size:13
Alignment explanation
Indices: 17480074--17480118 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
17480064 ACCATATATA
17480074 AATAAAAATAA-T
1 AATAAAAATAATT
* *
17480086 AATAATAGTAATT
1 AATAAAAATAATT
17480099 AATAAAAATAATT
1 AATAAAAATAATT
17480112 AATAAAA
1 AATAAAA
17480119 CAACAGTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AATAAAAATAATT
Found at i:17480215 original size:20 final size:20
Alignment explanation
Indices: 17480182--17480222 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17480172 TAATACTATT
17480182 AAAAACATGATGATAATAAC
1 AAAAACATGATGATAATAAC
* * *
17480202 AAAAATATGTTGATGATAAC
1 AAAAACATGATGATAATAAC
17480222 A
1 A
17480223 TTAAATATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.24
Consensus pattern (20 bp):
AAAAACATGATGATAATAAC
Found at i:17480449 original size:14 final size:14
Alignment explanation
Indices: 17480430--17480460 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17480420 ATATATTTAC
*
17480430 ATAATAAATATATA
1 ATAATAAATAAATA
17480444 ATAATAAATAAATA
1 ATAATAAATAAATA
17480458 ATA
1 ATA
17480461 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:17480461 original size:19 final size:18
Alignment explanation
Indices: 17480432--17480468 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
17480422 ATATTTACAT
17480432 AATAAATATATAATAATA
1 AATAAATATATAATAATA
17480450 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
17480469 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:17480521 original size:60 final size:62
Alignment explanation
Indices: 17480443--17480559 Score: 143
Period size: 60 Copynumber: 1.9 Consensus size: 62
17480433 ATAAATATAT
* *
17480443 AATAATAAATAAATAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAGAA
1 AATAATAAATAAAAAATATAAAAATAATGAAA-ATGAAGCTCAAATTAATTAAATTAATAGAA
** *
17480503 AATAATAAA-AAACAAATATAAAAATAATGCGAATGAAGCTCAAATTAATTAATTTAA
1 AATAATAAATAAA-AAATATAAAAATAATGAAAATGAAGCTCAAATTAATTAAATTAA
17480560 CAATAAAACA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
59 3 0.06
60 21 0.44
61 6 0.12
62 18 0.38
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.28
Consensus pattern (62 bp):
AATAATAAATAAAAAATATAAAAATAATGAAAATGAAGCTCAAATTAATTAAATTAATAGAA
Found at i:17480879 original size:18 final size:18
Alignment explanation
Indices: 17480856--17480891 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17480846 ATAACAAGTA
*
17480856 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
17480874 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
17480892 ATGGTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:17480907 original size:29 final size:29
Alignment explanation
Indices: 17480874--17480972 Score: 101
Period size: 29 Copynumber: 3.2 Consensus size: 29
17480864 GAGTTAGTGG
17480874 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
17480903 GGGTGTGGGGTGATGGAGGTAGTGGATGGTTTAGTA
1 -------GGGTGATGGAGGTAGTGGATGGTTTAGTA
* *
17480939 GGGTGATGGAGTTAGTGG-TCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
17480968 GGGTG
1 GGGTG
17480973 TTTAATTTGG
Statistics
Matches: 60, Mismatches: 2, Indels: 9
0.85 0.03 0.13
Matches are distributed among these distances:
28 1 0.02
29 30 0.50
36 29 0.48
ACGTcount: A:0.16, C:0.01, G:0.52, T:0.31
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTA
Found at i:17480918 original size:36 final size:36
Alignment explanation
Indices: 17480873--17480943 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
17480863 GGAGTTAGTG
17480873 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGT
1 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGT
17480909 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTG
1 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTG
17480944 ATGGAGTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.54, T:0.30
Consensus pattern (36 bp):
GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGT
Found at i:17481507 original size:46 final size:46
Alignment explanation
Indices: 17481457--17481630 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
17481447 GTTGAGCATC
*
17481457 CGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
* * *
17481503 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGTAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GT-T
* * **
17481549 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
*
17481596 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17481631 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 62 0.57
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
Found at i:17481567 original size:93 final size:93
Alignment explanation
Indices: 17481454--17481622 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
17481444 ATGGTTGAGC
* * **
17481454 ATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
17481519 AGTCCGAGTTCGTGAGATGTAACTAGGT
66 AGTCCGAGTTCGTGAGATGTAACTAGGT
* *
17481547 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
17481612 AGTCCGAGTTC
66 AGTCCGAGTTC
17481623 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGT
Found at i:17483588 original size:43 final size:43
Alignment explanation
Indices: 17483540--17483665 Score: 123
Period size: 44 Copynumber: 2.9 Consensus size: 43
17483530 GGGTATTACA
*
17483540 TTAGGGGGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
1 TTAGGGAGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
* * * * * *
17483583 TTAGGGAGATAAGATC-TATAATC-TTCAGCTTGTTACC-CTATTGC
1 TTAGGGAGTTAAG-GCGTGT-ATCTTTGATC-TGCT-CCACTATTGC
*
17483627 TTAGGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTA
1 TTAGGGAGTTAAGGCGTGTATCTTTGATCTGCTCCACTA
17483666 CCGCTTAAGG
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
42 2 0.03
43 27 0.44
44 31 0.50
45 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TTAGGGAGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
Found at i:17483686 original size:87 final size:87
Alignment explanation
Indices: 17483540--17483725 Score: 264
Period size: 87 Copynumber: 2.1 Consensus size: 87
17483530 GGGTATTACA
* ** * *
17483540 TTAGGGGGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAAT
1 TTAGGGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTATAAT
* *
17483605 CTTCAGCTTGTTACCCTATTGC
66 CTTCAGCCTGTTACCCTACTGC
* * *
17483627 TTAGGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTGTAGT
1 TTAGGGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTATAAT
* *
17483692 TTTTAGCCTGTTACCCTACTGC
66 CTTCAGCCTGTTACCCTACTGC
17483714 TTAGGGGGTTAA
1 TTAGGGGGTTAA
17483726 GACTGGTGGT
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (87 bp):
TTAGGGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTATAAT
CTTCAGCCTGTTACCCTACTGC
Found at i:17483893 original size:133 final size:133
Alignment explanation
Indices: 17483723--17484086 Score: 400
Period size: 133 Copynumber: 2.7 Consensus size: 133
17483713 CTTAGGGGGT
* * *
17483723 TAAGACTGGTGGTTTG-AATCTGCTCCATTGCCGATACATGGAGATAAAATTCGTCAAAATTTGA
1 TAAGACTGGTGG-CTGAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCG-CAAAATTTGA
* * *
17483787 TCTGCTCCACTCCTACTCAGCAAAAATAAGATCTAG-A-GTTTAGCCTGCTCCACTCCTGCTCAG
64 TCTGCTCCACTCCTGCTCAGCAAAGATAAGATCTAGCACATTTAGCCTGCTCCACTCCTGCTCAG
17483850 TGAAGA
129 TG-AGA
** * *
17483856 TAAGACTGGTGGCTGAAATCTGCTCTATTGCTAATACATGGAGATAAGATCCGCTGAAATTTGAT
1 TAAGACTGGTGGCTGAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGC-AAAATTTGAT
* *** * *
17483921 CTGTTCCACTCCTGC-CAG-TGGGATGAGATCT-GCTACATTTAGCCTGTTCCACTCCTGCTCAG
65 CTGCTCCACTCCTGCTCAGCAAAGATAAGATCTAGC-ACATTTAGCCTGCTCCACTCCTGCTCAG
*
17483983 TGGGA
129 TGAGA
* * * *
17483988 TAAGGCTTGTGGCTGAAATCTGCT-TCATTGCCGATACATAGAGATAAGATTCGCCAAAATTTGG
1 TAAGACTGGTGGCTGAAATCTGCTCT-ATTGCCGATACATGGAGATAAGATTCG-CAAAATTTGA
* * *
17484052 TCTACTCCGCTCCTGCTCAGCGAAGATAAGATCTA
64 TCTGCTCCACTCCTGCTCAGCAAAGATAAGATCTA
17484087 TCGAAATTTG
Statistics
Matches: 189, Mismatches: 32, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
130 1 0.01
131 9 0.05
132 74 0.39
133 96 0.51
134 9 0.05
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (133 bp):
TAAGACTGGTGGCTGAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCAAAATTTGATC
TGCTCCACTCCTGCTCAGCAAAGATAAGATCTAGCACATTTAGCCTGCTCCACTCCTGCTCAGTG
AGA
Found at i:17484118 original size:178 final size:178
Alignment explanation
Indices: 17483911--17484353 Score: 665
Period size: 179 Copynumber: 2.5 Consensus size: 178
17483901 AAGATCCGCT
*
17483911 GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTCC
1 GAAATTTGATCTGTTCCATTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTCC
* *
17483976 TGCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTTCATTGCCGATACATAGAGATAAGATTCG
66 TGCTCAGTGGGATAAGGCTTGTGGCTAAAATCTGCTCCATTGCCGATACATAGAGATAAGATTCG
* *
17484041 CCAAAATTTGGTCTACTCCGCTCCTGCTCAGCGAAGATAAGATCTATC
131 CCAAAATTTGATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTATC
* *
17484089 GAAATTTGATCTGTTCCATTCCAGCCAGTGGGATGAGATCTGCTGCATTTAGCCTGCTT-CACTC
1 GAAATTTGATCTGTTCCATTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTG-TTCCACTC
* * * * *
17484153 CTGCTCAGTGAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATATATGGAGGTAAGATT
65 CTGCTCAGTG-GGATAAGGCTTGTGGCTAAAATCTGCTCCATTGCCGATACATAGAGATAAGATT
* * * *
17484218 CGCCAAAATTTGATTTGCTCCGCTCTTGATCAGCGAAGATAAGATCTGTC
129 CGCCAAAATTTGATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTATC
* * * *
17484268 GAAATTTGATCTATTCCACTT-CTGCCAGTAGGATGAGATCTGTTATATTTAGCCTGTTCCACTC
1 GAAATTTGATCTGTTCCA-TTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTC
17484332 CTGCTCAGTGGGATAAGGCTTG
65 CTGCTCAGTGGGATAAGGCTTG
17484354 CCGAAATCTG
Statistics
Matches: 237, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
178 80 0.34
179 155 0.65
180 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (178 bp):
GAAATTTGATCTGTTCCATTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTCC
TGCTCAGTGGGATAAGGCTTGTGGCTAAAATCTGCTCCATTGCCGATACATAGAGATAAGATTCG
CCAAAATTTGATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTATC
Found at i:17485633 original size:24 final size:24
Alignment explanation
Indices: 17485606--17485677 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
17485596 TTCCCTCTCC
17485606 TTTGCTTTTCTTTTCTTTCTTTTT
1 TTTGCTTTTCTTTTCTTTCTTTTT
* * **
17485630 TTTGTTTTTCTCTTCTTT-TTCCT
1 TTTGCTTTTCTTTTCTTTCTTTTT
* *
17485653 TTTCCTTTT-TTCTC-TTCTTTTT
1 TTTGCTTTTCTTTTCTTTCTTTTT
17485675 TTT
1 TTT
17485678 TTGAAAGTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 2 0.05
22 9 0.24
23 10 0.27
24 16 0.43
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (24 bp):
TTTGCTTTTCTTTTCTTTCTTTTT
Found at i:17485676 original size:13 final size:12
Alignment explanation
Indices: 17485634--17485675 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
17485624 CTTTTTTTTG
17485634 TTTTTCTCTTCT
1 TTTTTCTCTTCT
* *
17485646 TTTTCCTTTTCCT
1 TTTTTCTCTT-CT
17485659 TTTTTCTCTTCT
1 TTTTTCTCTTCT
17485671 TTTTT
1 TTTTT
17485676 TTTTGAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTCTTCT
Found at i:17488224 original size:21 final size:21
Alignment explanation
Indices: 17488198--17488238 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17488188 GCTGGCTCAT
*
17488198 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
*
17488219 CATGTTTTTCTGGGACTCCA
1 CATGTTGTTCTGGGACTCCA
17488239 ACATTTGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCCAG
Found at i:17491974 original size:125 final size:126
Alignment explanation
Indices: 17491751--17492119 Score: 668
Period size: 125 Copynumber: 2.9 Consensus size: 126
17491741 GTTTTAGCCT
* * *
17491751 TAAGAGGATATTCAAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCATGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
17491816 CTTTGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
17491877 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAA-CCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
17491941 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
17492002 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
17492067 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAG
17492120 AAGATCAATG
Statistics
Matches: 235, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
125 122 0.52
126 113 0.48
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAACTGG
Found at i:17492589 original size:21 final size:19
Alignment explanation
Indices: 17492564--17492612 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
17492554 ACTTTGCTTA
17492564 AAATATATATATATACATAAT
1 AAATATATATATA-ACA-AAT
*
17492585 AAATATATA-ATAATAAAT
1 AAATATATATATAACAAAT
17492603 AAATA-ATATA
1 AAATATATATA
17492613 ATAATATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 9 0.35
19 2 0.08
20 3 0.12
21 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATATATATAACAAAT
Found at i:17492599 original size:14 final size:14
Alignment explanation
Indices: 17492572--17492610 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
17492562 TAAAATATAT
17492572 ATATATACATAATAA
1 ATATATA-ATAATAA
17492587 ATATATAATAATAA
1 ATATATAATAATAA
*
17492601 ATAAATAATA
1 ATATATAATA
17492611 TAATAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATATAATAATAA
Found at i:17493029 original size:17 final size:17
Alignment explanation
Indices: 17493007--17493077 Score: 65
Period size: 17 Copynumber: 4.1 Consensus size: 17
17492997 ATAACAAGTA
*
17493007 GGGTGATGGAGTTAGTG
1 GGGTGATGGAGGTAGTG
17493024 GGGTGATGGAGGTAGTG
1 GGGTGATGGAGGTAGTG
* *
17493041 GATGGT-TTAGTAGGGT-GTG
1 G--GGTGAT-GGA-GGTAGTG
17493060 GGGTGATGGAGGTAGTG
1 GGGTGATGGAGGTAGTG
17493077 G
1 G
17493078 ATGGTTTAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
16 3 0.07
17 26 0.60
18 2 0.05
19 9 0.21
20 3 0.07
ACGTcount: A:0.17, C:0.00, G:0.55, T:0.28
Consensus pattern (17 bp):
GGGTGATGGAGGTAGTG
Found at i:17493056 original size:29 final size:29
Alignment explanation
Indices: 17493018--17493105 Score: 95
Period size: 36 Copynumber: 2.8 Consensus size: 29
17493008 GGTGATGGAG
*
17493018 TTAGTGGGGTGATGGAGGTAGTGGATGGT
1 TTAGTAGGGTGATGGAGGTAGTGGATGGT
17493047 TTAGTAGGGTGTGGGGTGATGGAGGTAGTGGATGGT
1 TTAGTA-------GGGTGATGGAGGTAGTGGATGGT
*
17493083 TTAGTAGGGTGATGGAGTTAGTG
1 TTAGTAGGGTGATGGAGGTAGTG
17493106 TTCGGTTTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
29 21 0.42
36 29 0.58
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (29 bp):
TTAGTAGGGTGATGGAGGTAGTGGATGGT
Found at i:17493068 original size:36 final size:36
Alignment explanation
Indices: 17493021--17493093 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
17493011 GATGGAGTTA
17493021 GTGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
17493057 GTGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
17493093 G
1 G
17493094 ATGGAGTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.16, C:0.00, G:0.53, T:0.30
Consensus pattern (36 bp):
GTGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
Found at i:17493112 original size:29 final size:29
Alignment explanation
Indices: 17493060--17493119 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
17493050 GTAGGGTGTG
*
17493060 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAGTGGATGGTTTAATA
* *
17493089 GGGTGATGGAGTTAGT-GTTCGGTTTAATA
1 GGGTGATGGAGGTAGTGGAT-GGTTTAATA
17493118 GG
1 GG
17493120 ATGTTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.20, C:0.02, G:0.45, T:0.33
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAATA
Found at i:17493716 original size:87 final size:85
Alignment explanation
Indices: 17493360--17493738 Score: 525
Period size: 85 Copynumber: 4.4 Consensus size: 85
17493350 AAAGAAAATA
*
17493360 AGATCTGT-AATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACATGCTC
17493424 CACCACTGCTCGGA-GAG-CC
66 CACCACTGCTC-GACGAGCCC
* * *
17493443 AGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGCTAAGGCGAGTCTTTGACTTGCT
1 A-GATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACATGCT
*
17493508 CCACCACTGCTCGGCGAGCCC
65 CCACCACTGCTCGACGAGCCC
* * * * *
17493529 A-AGTTTATAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTGAGTCTTCGACACGCT
1 AGA-TCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACATGCT
* * *
17493593 TCGCCACTGCTCGGCGAGCCC
65 CCACCACTGCTCGACGAGCCC
* *
17493614 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTGGATCTTTGATC-TG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG-AG-TCTTCGA-CATG
*
17493678 CTCCGCCACTGCTCGACGAGCCC
63 CTCCACCACTGCTCGACGAGCCC
17493701 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGG
17493739 TATAACAGCC
Statistics
Matches: 264, Mismatches: 23, Indels: 14
0.88 0.08 0.05
Matches are distributed among these distances:
83 1 0.00
84 9 0.03
85 182 0.69
86 5 0.02
87 66 0.25
88 1 0.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.29
Consensus pattern (85 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACATGCTC
CACCACTGCTCGACGAGCCC
Found at i:17495093 original size:46 final size:46
Alignment explanation
Indices: 17495041--17495216 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
17495031 TGGTTGAGCA
17495041 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * * *
17495087 TTCGAACTCGTTGAGTTAAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
17495132 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17495180 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
17495217 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.58
47 24 0.23
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17495207 original size:93 final size:93
Alignment explanation
Indices: 17495038--17495208 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
17495028 GGATGGTTGA
* **
17495038 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
17495103 TAAGTCTGAGTTCGTGAGATGTAACTAG
66 TAAGTCCGAGTTCGTGAGATGTAACTAG
* *
17495131 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
17495196 TGAGTCCGAGTTC
66 TAAGTCCGAGTTC
17495209 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TAAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17497292 original size:87 final size:86
Alignment explanation
Indices: 17497119--17497311 Score: 215
Period size: 87 Copynumber: 2.2 Consensus size: 86
17497109 GGGCGAGGGG
* * ** * *
17497119 TATTACATTAGAGGGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGAT
1 TATTAC-TTAG-GGGTTAAAGCATGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGAT
**
17497184 CTATAATCTTCAGCTTATTACCC
64 CTATAATCTTCAGCCGATTACCC
17497207 TATTACTTAGGGAGTTAAAGCATGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATC
1 TATTACTTAGGG-GTTAAAGCATGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATC
* * * * *
17497272 TGTAGTTTTTAGCCGGTTACCC
65 TATAATCTTCAGCCGATTACCC
* *
17497294 TACTGCTTAGGGGGTTAA
1 TATTACTTA-GGGGTTAA
17497312 GACTGGTGGT
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
86 2 0.02
87 77 0.88
88 9 0.10
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (86 bp):
TATTACTTAGGGGTTAAAGCATGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCT
ATAATCTTCAGCCGATTACCC
Found at i:17497478 original size:133 final size:133
Alignment explanation
Indices: 17497325--17497669 Score: 450
Period size: 133 Copynumber: 2.6 Consensus size: 133
17497315 TGGTGGTTTG
17497325 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGTCAAAATTTGATCTGCTCCACTCCTGCT
1 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGTCAAAATTTGATCTGCTCCACTCCTGCT
*
17497390 CAGCGAAGATAAGATCTAG-A-GTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTG
66 CAGCGAAGATAAGATCT-GCACATTTAGCCTGCTCCACTCCTGCTCAGTG-AGATAAGACTGGTG
17497453 ACTGA
129 ACTGA
* * * * *
17497458 AATCTGCTCTATTGCTGATACATGGAGATAAGATCCG-CTGAAATTTGATCTGTTCCACTCCTGC
1 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGTC-AAAATTTGATCTGCTCCACTCCTGC
* * * * * * *
17497522 -CAGTG-GGATGAGATCTGCTACATTTAGCCTGTTCCACTCCTGCTCAGTGGGATAAGGCTTGTG
65 TCAGCGAAGATAAGATCTGC-ACATTTAGCCTGCTCCACTCCTGCTCAGTGAGATAAGACTGGTG
*
17497585 GCTGA
129 ACTGA
** *
17497590 AATCTATTCCATTGCCGATACATGGAGATAAGATTC-TCCAAAATTTGATCTGCTCCGCTCCTGC
1 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGT-CAAAATTTGATCTGCTCCACTCCTGC
17497654 TCAGCGAAGATAAGAT
65 TCAGCGAAGATAAGAT
17497670 ATGTTGAAAT
Statistics
Matches: 179, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
130 1 0.01
131 9 0.05
132 74 0.41
133 88 0.49
134 7 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (133 bp):
AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGTCAAAATTTGATCTGCTCCACTCCTGCT
CAGCGAAGATAAGATCTGCACATTTAGCCTGCTCCACTCCTGCTCAGTGAGATAAGACTGGTGAC
TGA
Found at i:17497689 original size:178 final size:178
Alignment explanation
Indices: 17497496--17497939 Score: 683
Period size: 179 Copynumber: 2.5 Consensus size: 178
17497486 TAAGATCCGC
17497496 TGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTC
1 TGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTC
* *
17497561 CTGCTCAGTGGGATAAGGCTTGTGGCTGAAATCTATTCCATTGCCGATACATGGAGATAAGATTC
66 CTGCTCAGTGGGATAAGGCTTGTGGCTGAAATCTACTCCATTGCCGATACATAGAGATAAGATTC
* *
17497626 TCCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATATGT
131 ACCAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATATGT
* * *
17497674 TGAAATTTAATCTGTTCCACTCCAGCCAGTGGGATGAGATCTGCTGCATTTAGCCTGCTT-CACT
1 TGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTG-TTCCACT
* * * *
17497738 CCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATATATAGAGGTAAGAT
65 CCTGCTCAGTG-GGATAAGGCTTGTGGCTGAAATCTACTCCATTGCCGATACATAGAGATAAGAT
*
17497803 TCACCAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGT
129 TCACCAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATATGT
* * * * * * *
17497853 CGAAATTTGATCTATTCCACTCCTACTAGTAGGATGAGATCTGCTATATTTATCCTGTTCCACTC
1 TGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTC
*
17497918 CTGCTCAGTAGGATAAGGCTTG
66 CTGCTCAGTGGGATAAGGCTTG
17497940 CCGAAATCTG
Statistics
Matches: 238, Mismatches: 25, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
178 81 0.34
179 157 0.66
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (178 bp):
TGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTC
CTGCTCAGTGGGATAAGGCTTGTGGCTGAAATCTACTCCATTGCCGATACATAGAGATAAGATTC
ACCAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATATGT
Found at i:17499417 original size:47 final size:47
Alignment explanation
Indices: 17499341--17499505 Score: 235
Period size: 47 Copynumber: 3.5 Consensus size: 47
17499331 GCTTTATCAT
* * * * *
17499341 ATAACTGGAGGCCT-AGCCTCTTTTAATAACCGGGGAAAAAGCCCTTTTT
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCC-TTTA
17499390 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
*
17499436 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
17499483 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17499506 TCACTTCCTC
Statistics
Matches: 108, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
46 22 0.20
47 69 0.64
48 5 0.05
49 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:17499420 original size:23 final size:23
Alignment explanation
Indices: 17499362--17499504 Score: 223
Period size: 23 Copynumber: 6.1 Consensus size: 23
17499352 CCTAGCCTCT
* * *
17499362 TTTAATAACCGGGGAAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17499385 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17499409 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17499432 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17499455 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
17499479 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17499502 TTT
1 TTT
17499505 TTCACTTCCT
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
23 70 0.63
24 41 0.37
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:17499453 original size:70 final size:70
Alignment explanation
Indices: 17499362--17499504 Score: 250
Period size: 70 Copynumber: 2.0 Consensus size: 70
17499352 CCTAGCCTCT
*
17499362 TTTAATAACCGGGGAAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACCGGGGAAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
17499427 AGCCC
66 AGCCC
* * *
17499432 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACCGGGGAAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
17499497 AGCCC
66 AGCCC
17499502 TTT
1 TTT
17499505 TTCACTTCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (70 bp):
TTTAATAACCGGGGAAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
AGCCC
Found at i:17499576 original size:9 final size:9
Alignment explanation
Indices: 17499562--17499620 Score: 55
Period size: 9 Copynumber: 6.1 Consensus size: 9
17499552 ACATCTCGTG
17499562 TACATATCA
1 TACATATCA
17499571 TACATATCA
1 TACATATCA
*
17499580 TGTGCATATCA
1 --TACATATCA
*
17499591 TACATGTCA
1 TACATATCA
*
17499600 TGTGCATATCA
1 --TACATATCA
17499611 TACATATCA
1 TACATATCA
17499620 T
1 T
17499621 GTTTATCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 25 0.62
11 15 0.38
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (9 bp):
TACATATCA
Found at i:17499587 original size:20 final size:20
Alignment explanation
Indices: 17499564--17499622 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
17499554 ATCTCGTGTA
17499564 CATATCATACATATCATGTG
1 CATATCATACATATCATGTG
*
17499584 CATATCATACATGTCATGTG
1 CATATCATACATATCATGTG
17499604 CATATCATACATATCATGT
1 CATATCATACATATCATGT
17499623 TTATCAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
CATATCATACATATCATGTG
Found at i:17499705 original size:25 final size:25
Alignment explanation
Indices: 17499659--17499706 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17499649 ATATATAAAC
* * * *
17499659 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17499684 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17499707 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17500954 original size:27 final size:27
Alignment explanation
Indices: 17500863--17500946 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
17500853 GGGCATATTC
*
17500863 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
17500890 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
17500917 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
17500944 GTC
1 GTC
17500947 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:17500963 original size:27 final size:26
Alignment explanation
Indices: 17500863--17500956 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
17500853 GGGCATATTC
*
17500863 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
17500890 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
17500917 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
17500944 GTCTTTTTACCTA
1 GTCACTTTACCTA
17500957 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.07
27 54 0.89
28 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:17501156 original size:54 final size:53
Alignment explanation
Indices: 17501005--17501237 Score: 198
Period size: 54 Copynumber: 4.3 Consensus size: 53
17500995 TTGGTAAATC
* * * ** *
17501005 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTT-TATAA-TTT
* * * * ** * *
17501060 TAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGATAATTT
1 TACAAA-TCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT-ATAATTT
* * *
17501115 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGGTAATTT
1 TACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT-ATAATTT
* * *
17501169 TACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTT
1 TACAAATCGA-GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA-TAATTT
**
17501223 TGTAAATCGAGGGTA
1 TACAAATCGAGGGTA
17501238 AAACAATAAT
Statistics
Matches: 146, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
53 1 0.01
54 92 0.63
55 16 0.11
56 37 0.25
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (53 bp):
TACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTATAATTT
Found at i:17501235 original size:27 final size:27
Alignment explanation
Indices: 17500985--17501237 Score: 165
Period size: 27 Copynumber: 9.3 Consensus size: 27
17500975 TTTCATCCTA
* * * * *
17500985 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* ** *
17501012 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
17501039 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-T
* **
17501068 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAT
*
17501095 CAGGGGTATTTT-GATAATTTTACAAAT
1 CAAGGGTATTTTAG-TAATTTTACAAAT
** ** * *
17501122 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
*
17501149 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
17501175 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTAGTAATTTTACAAAT
**
17501202 CTAAGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTAGTAATTTTACAAAT
*
17501230 CGAGGGTA
1 CAAGGGTA
17501238 AAACAATAAT
Statistics
Matches: 182, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.02
27 148 0.81
28 16 0.09
29 15 0.08
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:17501236 original size:81 final size:79
Alignment explanation
Indices: 17500985--17501237 Score: 206
Period size: 81 Copynumber: 3.1 Consensus size: 79
17500975 TTTCATCCTA
* * * * ** ** * *
17500985 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
17501050 CTA-TAATTTTTAGAAAGT
65 -TAGTAATTTTT--AAA-T
* * * *
17501068 CAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTATTTTGATAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTATTTTGGTAATTTTACAAACTAAGGGTAT
** ** *
17501131 TTCGGTAATTTCACAAAC
63 TTTAGTAATTT-TTAAAT
17501149 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
17501214 TAGTAATTTTGTAAAT
65 TAGTAATTTT-TAAAT
*
17501230 CGAGGGTA
1 CAAGGGTA
17501238 AAACAATAAT
Statistics
Matches: 132, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
79 2 0.02
80 7 0.05
81 66 0.50
82 3 0.02
83 48 0.36
84 4 0.03
85 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTT
AGTAATTTTTAAAT
Found at i:17501247 original size:27 final size:27
Alignment explanation
Indices: 17501215--17501426 Score: 259
Period size: 27 Copynumber: 7.9 Consensus size: 27
17501205 AGGGTATTTT
*
17501215 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* ** *
17501242 AATAATTCTGTAAATTAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17501269 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17501296 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17501323 AGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17501350 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
17501377 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
17501404 -GATAATTCTGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
17501427 CTTTGGTAAT
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 158 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:17501248 original size:54 final size:54
Alignment explanation
Indices: 17501190--17501412 Score: 162
Period size: 54 Copynumber: 4.1 Consensus size: 54
17501180 GGTATTTTGG
* *** * *
17501190 TAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAA
1 TAATTCTACAAACTAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAA
** * **
17501244 TAATTCTGTAAATTAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTG
1 TAATTCTACAAACTAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAA
** * * * * *
17501298 TAATTCTGTAAA-TCGAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTAAAACGA
1 TAATTCTACAAACT-AAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAA
* ** * ** * * * *
17501352 TAATTATGTAAA-TCAGGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAACGA
1 TAATTCTACAAACT-AAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAA
17501406 TAATTCT
1 TAATTCT
17501413 GTAAATCGGG
Statistics
Matches: 143, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 1 0.01
54 142 0.99
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (54 bp):
TAATTCTACAAACTAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAA
Found at i:17501453 original size:27 final size:27
Alignment explanation
Indices: 17501432--17501520 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
17501422 GGGTACTTTG
*
17501432 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
17501459 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
17501486 GTATTTTTACAAA-CTAAGGGTATTTC-
1 GTAATTTTACAAATCGAA-GGTATTTCA
17501512 GATAATTTT
1 G-TAATTTT
17501521 TGTAAACTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
26 3 0.06
27 51 0.94
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:17503568 original size:18 final size:18
Alignment explanation
Indices: 17503545--17503615 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
17503535 ATAACAAGTA
*
17503545 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
17503563 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
17503581 ATGGT-TTAGTAGGGT-GTGG
1 -GGGTGAT-GGA-GGTAGTGG
17503600 GGGTGATGGAGGTAGT
1 GGGTGATGGAGGTAGT
17503616 AGATGGTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 3 0.07
18 25 0.61
19 10 0.24
20 3 0.07
ACGTcount: A:0.17, C:0.00, G:0.55, T:0.28
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:17503609 original size:37 final size:37
Alignment explanation
Indices: 17503559--17503633 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
17503549 GATGGAGTTA
*
17503559 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTAGATGGTTTAGTAGGGT
17503596 GTGGGGGTGATGGAGGTAGTAGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTAGATGGTTTAGTAGGGT
17503633 G
1 G
17503634 ATGGAGTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTAGATGGTTTAGTAGGGT
Found at i:17503633 original size:29 final size:29
Alignment explanation
Indices: 17503600--17503662 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
17503590 TAGGGTGTGG
17503600 GGGTGATGGAGGTAGTAGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGT-GATCGGTTTAGTA
* * *
17503629 GGGTGATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGATCGGTTTAGTA
17503658 GGGTG
1 GGGTG
17503663 TTTAATTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.17, C:0.02, G:0.49, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGATCGGTTTAGTA
Found at i:17509492 original size:20 final size:20
Alignment explanation
Indices: 17509455--17509492 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17509445 TGATGGGGAG
*
17509455 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
17509475 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
17509493 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:17511045 original size:17 final size:17
Alignment explanation
Indices: 17511025--17511059 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17511015 ATCCCAATTG
17511025 AATAAAAGGAAAATTCA
1 AATAAAAGGAAAATTCA
17511042 AATAAAAGGAAAATTCA
1 AATAAAAGGAAAATTCA
17511059 A
1 A
17511060 TGGATCTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AATAAAAGGAAAATTCA
Found at i:17511412 original size:46 final size:46
Alignment explanation
Indices: 17511360--17511533 Score: 339
Period size: 46 Copynumber: 3.8 Consensus size: 46
17511350 AGTGTGCTCT
17511360 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
17511406 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
17511452 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
17511498 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
17511534 TGGAATGTGT
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:17511523 original size:30 final size:30
Alignment explanation
Indices: 17511500--17511563 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
17511490 ATGGCAGCCT
**
17511500 GATATGAAATGTGTAAGACCATGGTTGAAA
1 GATATGAAATGTGTAAGACCATGGCAGAAA
* **
17511530 GATATGGAATGTGTAAGACCATGGTTGAAA
1 GATATGAAATGTGTAAGACCATGGCAGAAA
17511560 GATA
1 GATA
17511564 CCATGGCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.27
Consensus pattern (30 bp):
GATATGAAATGTGTAAGACCATGGCAGAAA
Found at i:17511541 original size:76 final size:76
Alignment explanation
Indices: 17511454--17511609 Score: 258
Period size: 76 Copynumber: 2.1 Consensus size: 76
17511444 ATGGCAACCT
* ***
17511454 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGAC
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGAC
17511519 CATGGTTGAAA
66 CATGGTTGAAA
* *
17511530 GATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGAC
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGAC
17511595 CATGGTTGAAA
66 CATGGTTGAAA
17511606 GATA
1 GATA
17511610 CCATGGCAAC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (76 bp):
GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGAC
CATGGTTGAAA
Found at i:17511567 original size:46 final size:45
Alignment explanation
Indices: 17511544--17511663 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 45
17511534 TGGAATGTGT
*
17511544 AAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAAC
1 AAGACCATGGTTGAAAGATACCATGGCAAC-AGATATGAAATGAAC
* **
17511590 AAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGT
1 AAGACCATGGTTGAAAGATACCATGGCAACA-GATATG-AAATGAAC
* * *
17511636 AAGACCATAGTTGAAAGACACTATGGCA
1 AAGACCATGGTTGAAAGATACCATGGCA
17511664 TCATGTCAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.02
46 64 0.98
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.18
Consensus pattern (45 bp):
AAGACCATGGTTGAAAGATACCATGGCAACAGATATGAAATGAAC
Found at i:17511612 original size:122 final size:122
Alignment explanation
Indices: 17511408--17511653 Score: 386
Period size: 122 Copynumber: 2.0 Consensus size: 122
17511398 ATGGCAGCCT
***
17511408 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGAC
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGAC
* * * * *
17511473 CATGGTTGAAAGATACCATGGCAGCCTGATATG-AAATGTGTAAGACCATGGTTGAAA
66 CATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAA
* *
17511530 GATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGAC
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGAC
17511595 CATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAA
66 CATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAA
17511652 GA
1 GA
17511654 CACTATGGCA
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
121 1 0.01
122 112 0.99
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (122 bp):
GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGAC
CATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAA
Found at i:17512386 original size:33 final size:32
Alignment explanation
Indices: 17512305--17512386 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
17512295 ATGTCAATGT
* *
17512305 TTGAATGTAAGACCATAGCTGAGCTATGACAT
1 TTGAATGTAAGACCATAACTGAGCTATGACAC
* * * *
17512337 TTTAATGAAAAGACCATAACTGGGTTATGACACC
1 TTGAATG-TAAGACCATAACTGAGCTATGACA-C
*
17512371 TTGAATGTAATACCAT
1 TTGAATGTAAGACCAT
17512387 GGTTGGACCA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 6 0.15
33 27 0.69
34 6 0.15
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (32 bp):
TTGAATGTAAGACCATAACTGAGCTATGACAC
Found at i:17512473 original size:33 final size:33
Alignment explanation
Indices: 17512414--17512491 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
17512404 ATATGTATAC
* *
17512414 GTGTAAGACCATAGTTGGCCTATGGCATCCTGA
1 GTGTAAGACCATAATTGGCCTATGGCATCATGA
** * *
17512447 -TGATAAGACCATAATTGGGTTTTGGCATTATGA
1 GTG-TAAGACCATAATTGGCCTATGGCATCATGA
17512480 GTGTAAGACCAT
1 GTGTAAGACCAT
17512492 GGTAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 2 0.05
33 33 0.89
34 2 0.05
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (33 bp):
GTGTAAGACCATAATTGGCCTATGGCATCATGA
Found at i:17512485 original size:105 final size:105
Alignment explanation
Indices: 17512310--17512503 Score: 230
Period size: 105 Copynumber: 1.8 Consensus size: 105
17512300 AATGTTTGAA
**
17512310 TGTAAGACCATAGCTGAGCTATGACATTTTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
1 TGTAAGACCATAGCTGAGCTATGACATCCTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
* *
17512375 ATGTAATACCATGGTTGGACCATGGCAGAATATGTATACG
66 ATGTAAGACCATGGTAGGACCATGGCAGAATATGTATACG
* * * * * * * *
17512415 TGTAAGACCATAGTTG-GCCTATGGCATCCTGATGATAAGACCATAATTGGGTTTTGGCA-TTAT
1 TGTAAGACCATAGCTGAG-CTATGACATCCTAATGAAAAGACCATAACTGGGTTATGACACCT-T
* *
17512478 GAGTGTAAGACCATGGTAGGGCCATG
64 GAATGTAAGACCATGGTAGGACCATG
17512504 ACAATTGTGT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
104 2 0.03
105 71 0.97
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (105 bp):
TGTAAGACCATAGCTGAGCTATGACATCCTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
ATGTAAGACCATGGTAGGACCATGGCAGAATATGTATACG
Found at i:17514611 original size:43 final size:43
Alignment explanation
Indices: 17514558--17514929 Score: 369
Period size: 43 Copynumber: 8.7 Consensus size: 43
17514548 GCCACAAAAA
* * *
17514558 TTAGCGGCG-TTTTTAGAAAAAATGCTGCTAAAGACCAGGATCT
1 TTAGCGGCGCTTTTTA-AAAAAACGCCGCTAAAGACCAGGACCT
* * * *
17514601 TTAGCTGCGTTTTTTATAAAAGCGCCGCTAAAGACCAGGACCT
1 TTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGACCAGGACCT
* * *
17514644 TTAGCGGCGC-TCTTATAAAAACGCCGCCAAAGACCAGGACCT
1 TTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGACCAGGACCT
* *
17514686 TTAGCAGCGCTTTTTTAAAAAACGCCGCTAGAA-ACCAGGACCT
1 TTAGCGGCGCTTTTTAAAAAAACGCCGCTA-AAGACCAGGACCT
* * * * * *
17514729 TTAGCGGCGC-ATTT-AAAAAACGCCGTTATAGACCTGTACTT
1 TTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGACCAGGACCT
* * * * * * *
17514770 TTAACGGCGC-TTTTATAAAAATGCCGCTATAGACCTGTACTT
1 TTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGACCAGGACCT
* * *
17514812 TTAGCGACGCTTTTTTAAAAAAACGCTGCTAAAGACCAAGACCT
1 TTAGCGGCGC-TTTTTAAAAAAACGCCGCTAAAGACCAGGACCT
* * * *
17514856 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGATCCTGTACTT
1 TTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGA-CCAGGACCT
*
17514900 TTAGCGGCGCTTTTTTAAAAAACGCCGCTA
1 TTAGCGGCGCTTTTTAAAAAAACGCCGCTA
17514930 GTTTGCCCAG
Statistics
Matches: 276, Mismatches: 45, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
40 1 0.00
41 32 0.12
42 73 0.26
43 94 0.34
44 76 0.28
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
TTAGCGGCGCTTTTTAAAAAAACGCCGCTAAAGACCAGGACCT
Found at i:17515253 original size:21 final size:21
Alignment explanation
Indices: 17515229--17515276 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
17515219 TCCTGTTCTG
*
17515229 CTCCGCCTCCCTTGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
17515250 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
17515271 CTCCGC
1 CTCCGC
17515277 TCTAAGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.00, C:0.56, G:0.19, T:0.25
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTGCTGC
Found at i:17515869 original size:17 final size:19
Alignment explanation
Indices: 17515832--17515871 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17515822 TACAATATAG
17515832 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTATTTAA
*
17515851 TAGTAAAAA-GTTA-TTAA
1 TAGTAAAAATATTATTTAA
17515868 TAGT
1 TAGT
17515872 TGATAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (19 bp):
TAGTAAAAATATTATTTAA
Found at i:17525244 original size:24 final size:24
Alignment explanation
Indices: 17525193--17525358 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
17525183 GCTTTATCAT
*
17525193 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
17525218 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17525242 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
17525265 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
17525289 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
17525313 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17525336 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17525359 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 45 0.34
24 76 0.57
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17525293 original size:71 final size:71
Alignment explanation
Indices: 17525193--17525359 Score: 273
Period size: 71 Copynumber: 2.3 Consensus size: 71
17525183 GCTTTATCAT
* *
17525193 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
17525257 GCCCTTTA
64 GCCCTTTA
* *
17525265 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
17525330 CCTTTA
66 CCTTTA
17525336 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
17525360 CACTTCCTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 78 0.87
72 12 0.13
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:17525359 original size:47 final size:48
Alignment explanation
Indices: 17525193--17525358 Score: 257
Period size: 47 Copynumber: 3.5 Consensus size: 48
17525183 GCTTTATCAT
* *
17525193 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
17525242 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
17525289 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
17525336 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17525359 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
47 71 0.65
48 27 0.25
49 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:17525430 original size:9 final size:9
Alignment explanation
Indices: 17525416--17525472 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
17525406 ATCTCATGTG
17525416 CATATCATA
1 CATATCATA
*
17525425 CATATCATGTG
1 CATATCA--TA
17525436 CATATCATA
1 CATATCATA
* *
17525445 CATGTCATGTG
1 CATATCA--TA
17525456 CATATCATA
1 CATATCATA
17525465 CATATCAT
1 CATATCAT
17525473 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:17525432 original size:20 final size:20
Alignment explanation
Indices: 17525404--17525474 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
17525394 GCATTTATGA
*
17525404 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17525424 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
17525444 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
17525464 ACATATCATGT
1 ACATATCATGT
17525475 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:17525439 original size:11 final size:11
Alignment explanation
Indices: 17525409--17525463 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
17525399 TATGAACATC
17525409 TCATGTGCATA
1 TCATGTGCATA
*
17525420 TCA--TACATA
1 TCATGTGCATA
17525429 TCATGTGCATA
1 TCATGTGCATA
* *
17525440 TCA--TACATG
1 TCATGTGCATA
17525449 TCATGTGCATA
1 TCATGTGCATA
17525460 TCAT
1 TCAT
17525464 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:17532827 original size:14 final size:13
Alignment explanation
Indices: 17532808--17532837 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
17532798 CAATATAATT
17532808 TTACTTCATATATA
1 TTACTTCATATA-A
17532822 TTACTTCATATAA
1 TTACTTCATATAA
17532835 TTA
1 TTA
17532838 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:17535433 original size:27 final size:29
Alignment explanation
Indices: 17535369--17535439 Score: 94
Period size: 27 Copynumber: 2.5 Consensus size: 29
17535359 TTAATCAAAA
*
17535369 CTCTAAACCTTAAACCATTAAACTATATC
1 CTCTAAACCTTAAACCACTAAACTATATC
17535398 CT-TATAACCTTAAACC-CTAAA-TATATC
1 CTCTA-AACCTTAAACCACTAAACTATATC
*
17535425 CTCTAAACCCTAAAC
1 CTCTAAACCTTAAAC
17535440 TATATCTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 17 0.45
28 8 0.21
29 13 0.34
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (29 bp):
CTCTAAACCTTAAACCACTAAACTATATC
Found at i:17535453 original size:20 final size:21
Alignment explanation
Indices: 17535400--17535445 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
17535390 ACTATATCCT
*
17535400 TATAACCT-TAAACCCTAAA-
1 TATATCCTCTAAACCCTAAAC
17535419 TATATCCTCTAAACCCTAAAC
1 TATATCCTCTAAACCCTAAAC
17535440 TATATC
1 TATATC
17535446 TCCTAACCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
20 11 0.46
21 6 0.25
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.30
Consensus pattern (21 bp):
TATATCCTCTAAACCCTAAAC
Found at i:17535705 original size:207 final size:202
Alignment explanation
Indices: 17535350--17535848 Score: 772
Period size: 207 Copynumber: 2.4 Consensus size: 202
17535340 TTAATATTAT
*
17535350 TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCTTATAACCTTAAACCC
1 TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAACCC
* * *
17535415 TAAATATATCCTCTAAACCCTAAACTATATCTCCTAACCATAAACCACAAAACAATAACCCCTAA
66 TAAATATATCCCCTAAACCCTAAACTATATCCCCTAAACATAAACCACAAAACAATAACCCCTAA
*
17535480 GCCTTAACCACAAAATGTATGAATTAATCATAACCTTAAACTATATCCCTTGA-TCCTTAAACCA
131 GCCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATTCC-TAAACCA
17535544 CAAAATAA
195 CAAAATAA
*
17535552 TAACACTAATTAATCAAAACTGTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAACCC
1 TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAACCC
* *
17535617 TAAAGTATATATATCCCCTAAACCCTAAACTATATCCCCTAAACATAAACCATAAAATAATAACC
66 T--A--A-ATATATCCCCTAAACCCTAAACTATATCCCCTAAACATAAACCACAAAACAATAACC
17535682 CCTAAGCCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATTCCTAA
126 CCTAAGCCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATTCCTAA
17535747 ACCACAAAATAA
191 ACCACAAAATAA
* * * *
17535759 TAACACTAATTAATCAATACTCTAAACGTTAAACCATTAAACTATATCCC-CT-A-CTAAAGTAC
1 TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAA--AC
*
17535821 CCTAAATTATATCCCCTAAACCTTAAAC
64 CCTAAA-TATATCCCCTAAACCCTAAAC
17535849 CACAAAATAA
Statistics
Matches: 274, Mismatches: 14, Indels: 18
0.90 0.05 0.06
Matches are distributed among these distances:
201 1 0.00
202 85 0.31
204 6 0.02
205 1 0.00
206 7 0.03
207 171 0.62
208 3 0.01
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.27
Consensus pattern (202 bp):
TAACACTAATTAATCAAAACTCTAAACCTTAAACCATTAAACTATATCCCTATAACCTTAAACCC
TAAATATATCCCCTAAACCCTAAACTATATCCCCTAAACATAAACCACAAAACAATAACCCCTAA
GCCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCCTTGATTCCTAAACCAC
AAAATAA
Found at i:17535890 original size:15 final size:15
Alignment explanation
Indices: 17535860--17535908 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
17535850 ACAAAATAAA
*
17535860 AACCCCT-AAGCATT
1 AACCCCTAAACCATT
17535874 AACCCCTAAACCATT
1 AACCCCTAAACCATT
* * *
17535889 AACCCATAACCCATA
1 AACCCCTAAACCATT
17535904 AACCC
1 AACCC
17535909 TTAACCACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 7 0.23
15 23 0.77
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (15 bp):
AACCCCTAAACCATT
Found at i:17535898 original size:22 final size:22
Alignment explanation
Indices: 17535873--17535952 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
17535863 CCCTAAGCAT
*
17535873 TAACCCCTAAACCATTAACCCA
1 TAACCCATAAACCATTAACCCA
*
17535895 TAACCCATAAACCCTTAA-CCA
1 TAACCCATAAACCATTAACCCA
* *
17535916 CTAGCCCAT-AACCCTTAAACCC-
1 -TAACCCATAAACCATT-AACCCA
* *
17535938 CAACCCTTAAACCAT
1 TAACCCATAAACCAT
17535953 AAGCCGTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 15 0.32
22 30 0.64
23 2 0.04
ACGTcount: A:0.39, C:0.41, G:0.01, T:0.19
Consensus pattern (22 bp):
TAACCCATAAACCATTAACCCA
Found at i:17535913 original size:15 final size:15
Alignment explanation
Indices: 17535874--17535992 Score: 65
Period size: 15 Copynumber: 8.3 Consensus size: 15
17535864 CCTAAGCATT
* * *
17535874 AACCCCTAAACCATT
1 AACCCATAACCCATA
17535889 AACCCATAACCCATA
1 AACCCATAACCCATA
*
17535904 AACCCTTAA-CCACT-
1 AACCCATAACCCA-TA
* *
17535918 AGCCCATAACCCTTA
1 AACCCATAACCCATA
* *
17535933 AACCC-CAACCCTTA
1 AACCCATAACCCATA
* *
17535947 AA-CCATAAGCCGTA
1 AACCCATAACCCATA
17535961 AA--CATAATCCC-TA
1 AACCCATAA-CCCATA
17535974 AACCCATAAACCC-TA
1 AACCCAT-AACCCATA
17535989 AACC
1 AACC
17535993 TTTAAATAGT
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
13 11 0.13
14 31 0.37
15 39 0.47
16 2 0.02
ACGTcount: A:0.41, C:0.39, G:0.03, T:0.17
Consensus pattern (15 bp):
AACCCATAACCCATA
Found at i:17536641 original size:40 final size:40
Alignment explanation
Indices: 17536538--17536829 Score: 404
Period size: 40 Copynumber: 7.2 Consensus size: 40
17536528 GACGTAGTTC
* *
17536538 TGCTTGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAA
1 TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
* ** * *
17536578 TGCTCAGATCTTTAGCGGTGCTTTCATAAAAATGCCACTAA
1 TGCTC-GATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
* * **
17536619 TGCTCGATCTTTAGTGGCGCTTTGCTAAAAACGTTGCTAA
1 TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
* *
17536659 TGCTCGATCTTTAACGGCGCTTTGTTAAAAACGCTGCTAA
1 TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
* *
17536699 TGCTCAGATCTTTAGCGGCGCTTTGATAAAAACACCGCTAA
1 TGCTC-GATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
17536740 TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
1 TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
* * *
17536780 TTCTCGATTTTTAGCCGCGCTTTGTTAAAAACGCCGCTAA
1 TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
17536820 TGCTCGATCT
1 TGCTCGATCT
17536830 ATTCGATTTT
Statistics
Matches: 222, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 150 0.68
41 72 0.32
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (40 bp):
TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
Found at i:17536709 original size:81 final size:80
Alignment explanation
Indices: 17536538--17536829 Score: 397
Period size: 81 Copynumber: 3.6 Consensus size: 80
17536528 GACGTAGTTC
* *
17536538 TGCTTGATCTTTAGCGGCGCTTT-CTTAAAAACGCCGCTAATGCTCAGATCTTTAGCGGTGCTTT
1 TGCTCGATCTTTAGCGGCGCTTTGC-TAAAAACGCCGCTAATGCTC-GATCTTTAGCGGCGCTTT
** * *
17536602 CATAAAAATGCCACTAA
64 GTTAAAAACGCCGCTAA
* ** *
17536619 TGCTCGATCTTTAGTGGCGCTTTGCTAAAAACGTTGCTAATGCTCGATCTTTAACGGCGCTTTGT
1 TGCTCGATCTTTAGCGGCGCTTTGCTAAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTGT
*
17536684 TAAAAACGCTGCTAA
66 TAAAAACGCCGCTAA
* *
17536699 TGCTCAGATCTTTAGCGGCGCTTTGATAAAAACACCGCTAATGCTCGATCTTTAGCGGCGCTTTG
1 TGCTC-GATCTTTAGCGGCGCTTTGCTAAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTG
17536764 TTAAAAACGCCGCTAA
65 TTAAAAACGCCGCTAA
* * * *
17536780 TTCTCGATTTTTAGCCGCGCTTTGTTAAAAACGCCGCTAATGCTCGATCT
1 TGCTCGATCTTTAGCGGCGCTTTGCTAAAAACGCCGCTAATGCTCGATCT
17536830 ATTCGATTTT
Statistics
Matches: 186, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
80 74 0.40
81 111 0.60
82 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (80 bp):
TGCTCGATCTTTAGCGGCGCTTTGCTAAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTGT
TAAAAACGCCGCTAA
Found at i:17536759 original size:121 final size:121
Alignment explanation
Indices: 17536538--17536829 Score: 433
Period size: 121 Copynumber: 2.4 Consensus size: 121
17536528 GACGTAGTTC
* * *
17536538 TGCTTGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATCTTTAGCGGTGCTTTC
1 TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCAGATCTTTAGCGGCGCTTTC
** * **
17536603 ATAAAAATGCCACTAATGCTCGATCTTTAGTGGCGCTTTGCTAAAAACGTTGCTAA
66 ATAAAAACACCACTAATGCTCGATCTTTAGCGGCGCTTTGCTAAAAACGCCGCTAA
* * *
17536659 TGCTCGATCTTTAACGGCGCTTTGTTAAAAACGCTGCTAATGCTCAGATCTTTAGCGGCGCTTTG
1 TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCAGATCTTTAGCGGCGCTTTC
* *
17536724 ATAAAAACACCGCTAATGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAA
66 ATAAAAACACCACTAATGCTCGATCTTTAGCGGCGCTTTGCTAAAAACGCCGCTAA
* * *
17536780 TTCTCGATTTTTAGCCGCGCTTTGTTAAAAACGCCGCTAATGCTC-GATCT
1 TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCAGATCT
17536830 ATTCGATTTT
Statistics
Matches: 153, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
120 5 0.03
121 148 0.97
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (121 bp):
TGCTCGATCTTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTCAGATCTTTAGCGGCGCTTTC
ATAAAAACACCACTAATGCTCGATCTTTAGCGGCGCTTTGCTAAAAACGCCGCTAA
Found at i:17550157 original size:2 final size:2
Alignment explanation
Indices: 17550150--17550179 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17550140 TTCCCCATTG
17550150 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17550180 AACTGCAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:17555221 original size:2 final size:2
Alignment explanation
Indices: 17555214--17555249 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17555204 ATTAAGTTAT
17555214 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17555250 ATGGTTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17555327 original size:4 final size:4
Alignment explanation
Indices: 17555318--17555361 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
17555308 GAAAAGCAGG
*
17555318 GAAA GAAA GAAA GAAA GAAA GAAA G-GA GAAAA GAAA G-AA GAAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA GAAA GAAA GAAA G
17555362 GGAAAATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 5 0.14
4 28 0.80
5 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:17555350 original size:20 final size:18
Alignment explanation
Indices: 17555327--17555367 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
17555317 GGAAAGAAAG
17555327 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAG-AAGAAAGG-GA
17555347 AAAGAAAGAAGAAAGGGA
1 AAAGAAAGAAGAAAGGGA
17555365 AAA
1 AAA
17555368 TTGGTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAGAAAGGGA
Found at i:17556243 original size:19 final size:20
Alignment explanation
Indices: 17556221--17556268 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
17556211 AATTATATTG
*
17556221 AATTGAAAAAAATAT-AGTT
1 AATTGAAAAAAATATGAATT
*
17556240 AATT-AATTAAAATATGAATT
1 AATTGAA-AAAAATATGAATT
17556260 AATTGAAAA
1 AATTGAAAA
17556269 CTGGAAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
AATTGAAAAAAATATGAATT
Found at i:17556692 original size:18 final size:18
Alignment explanation
Indices: 17556639--17556706 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
17556629 AAAGATCAAC
*
17556639 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
17556658 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
17556676 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
*
17556694 TGTTACTGGATAA
1 TGTTACTGAATAA
17556707 CCGATCAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:17561406 original size:15 final size:15
Alignment explanation
Indices: 17561386--17561415 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17561376 TTTAATCCTT
*
17561386 TATAAATTATAAAAA
1 TATAAACTATAAAAA
17561401 TATAAACTATAAAAA
1 TATAAACTATAAAAA
17561416 ATTAAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:17563067 original size:28 final size:27
Alignment explanation
Indices: 17563025--17563078 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
17563015 TTTATTTTTA
*
17563025 AAGGATATTATAATATTAAAATAAAAT
1 AAGGATAATATAATATTAAAATAAAAT
17563052 AAGGATAAATATAATATTAAAATAAAA
1 AAGGAT-AATATAATATTAAAATAAAA
17563079 ATCTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (27 bp):
AAGGATAATATAATATTAAAATAAAAT
Found at i:17564057 original size:2 final size:2
Alignment explanation
Indices: 17564050--17564092 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
17564040 CACTCACTTG
*
17564050 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17564092 C
1 C
17564093 CGCCCTTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (2 bp):
CT
Found at i:17571517 original size:11 final size:11
Alignment explanation
Indices: 17571494--17571530 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
17571484 TTGGAAGTGA
17571494 AGAAAGTTGAGG
1 AGAAAG-TGAGG
17571506 AGAAAGTGAGG
1 AGAAAGTGAGG
*
17571517 AGAAAGTGAAG
1 AGAAAGTGAGG
17571528 AGA
1 AGA
17571531 TTAAACAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.41, T:0.11
Consensus pattern (11 bp):
AGAAAGTGAGG
Found at i:17575024 original size:35 final size:35
Alignment explanation
Indices: 17574973--17575251 Score: 289
Period size: 35 Copynumber: 8.0 Consensus size: 35
17574963 CGATTCACAA
**
17574973 CTCAGTATGGTTAATACCATACCTACGTTTCATAG
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
* * *
17575008 CTCAGTATGGACAATACCATACCTATGTTTCACAA
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
*
17575043 CTCTGTATGGGA-AATACCATACCTACGTATT-ATAG
1 CTCAGTAT-GGACAATACCATACCTACGT-TTCATAG
* * *
17575078 CTCGGCATGGATAATACCATACCTACGTTTCATAG
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
* * * * * * *
17575113 CTCATTGTGGACAACACCACACCTGCGTTTCACAA
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
* *
17575148 CTCGGTATGAGA-AATACCATACCTATGTATT-ATAG
1 CTCAGTATG-GACAATACCATACCTACGT-TTCATAG
* *
17575183 CTC-GATATGGATAATACCATACCTACGTGTCATAG
1 CTCAG-TATGGACAATACCATACCTACGTTTCATAG
*
17575218 CTCAGTATGGACAATACCATACCTACGTGTCATA
1 CTCAGTATGGACAATACCATACCTACGTTTCATA
17575252 ACTTTTCCAT
Statistics
Matches: 201, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
34 9 0.04
35 182 0.91
36 10 0.05
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (35 bp):
CTCAGTATGGACAATACCATACCTACGTTTCATAG
Found at i:17575166 original size:105 final size:105
Alignment explanation
Indices: 17574979--17575254 Score: 417
Period size: 105 Copynumber: 2.6 Consensus size: 105
17574969 ACAACTCAGT
* *
17574979 ATGGTTAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTATGTTTCACAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
* * *
17575044 TCTGTATGGGAAATACCATACCTACGTATTATAGCTCGGC
66 TCGGTATGAGAAATACCATACCTACGTATTATAGCTCGAC
* * * * *
17575084 ATGGATAATACCATACCTACGTTTCATAGCTCATTGTGGACAACACCACACCTGCGTTTCACAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
* *
17575149 TCGGTATGAGAAATACCATACCTATGTATTATAGCTCGAT
66 TCGGTATGAGAAATACCATACCTACGTATTATAGCTCGAC
* * *
17575189 ATGGATAATACCATACCTACGTGTCATAGCTCAGTATGGACAATACCATACCTACGTGTCATAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
17575254 T
66 T
17575255 TTTCCATGGA
Statistics
Matches: 151, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 151 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (105 bp):
ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
TCGGTATGAGAAATACCATACCTACGTATTATAGCTCGAC
Found at i:17578177 original size:21 final size:20
Alignment explanation
Indices: 17578148--17578196 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
17578138 TTAATTAATT
*
17578148 TTTAAAATTAATTTCATAAAA
1 TTTATAATTAATTT-ATAAAA
*
17578169 TTTATAATTAATTTATAATA
1 TTTATAATTAATTTATAAAA
*
17578189 TTAATAAT
1 TTTATAAT
17578197 AATCAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTATAATTAATTTATAAAA
Found at i:17578195 original size:20 final size:21
Alignment explanation
Indices: 17578149--17578196 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
17578139 TAATTAATTT
17578149 TTAA-AATTAATTTCATAAAA
1 TTAATAATTAATTTCATAAAA
* *
17578169 TTTATAATTAATTT-ATAATA
1 TTAATAATTAATTTCATAAAA
17578189 TTAATAAT
1 TTAATAAT
17578197 AATCAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATAATTAATTTCATAAAA
Found at i:17578627 original size:15 final size:13
Alignment explanation
Indices: 17578609--17578651 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
17578599 TAATATATAA
17578609 ATATAAAATAATGTT
1 ATAT-AAATAAT-TT
*
17578624 ATATCAATAATTT
1 ATATAAATAATTT
*
17578637 ATATTAATAATTT
1 ATATAAATAATTT
17578650 AT
1 AT
17578652 GAGAATTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 16 0.62
14 6 0.23
15 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
ATATAAATAATTT
Found at i:17596781 original size:27 final size:28
Alignment explanation
Indices: 17596723--17596786 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
17596713 GGCATAGGGT
*
17596723 TTTAAGGTTTTGTTAAAATAATTTAAAG
1 TTTAGGGTTTTGTTAAAATAATTTAAAG
*
17596751 -TTAGGGTTTTGTTAAAATAATTT-AGG
1 TTTAGGGTTTTGTTAAAATAATTTAAAG
17596777 TTTAGGGTTT
1 TTTAGGGTTT
17596787 AGGGTTTAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTTGTTAAAATAATTTAAAG
Found at i:17596808 original size:41 final size:41
Alignment explanation
Indices: 17596751--17596835 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 41
17596741 TAATTTAAAG
* * *
17596751 TTAGGGTTTTGTTAAAATAATTTAGGTTTAGGGTTTAGGGT
1 TTAGGGTTTTGTTAAAATAATTTAGATGTAGGGTGTAGGGT
*
17596792 TTAGGTTTTTGTTAAAATAATTTAGATGTAGGGTGTAGGGT
1 TTAGGGTTTTGTTAAAATAATTTAGATGTAGGGTGTAGGGT
17596833 TTA
1 TTA
17596836 AGAATTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (41 bp):
TTAGGGTTTTGTTAAAATAATTTAGATGTAGGGTGTAGGGT
Found at i:17596850 original size:41 final size:41
Alignment explanation
Indices: 17596764--17596852 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 41
17596754 GGGTTTTGTT
* * * ** **
17596764 AAAATAATTTAGGTTTAGGGTTTAGGGTTTAGGTTTTTGTT
1 AAAATAATTTAGATGTAGGGTGTAGGGTTTAGAATTTTGAA
17596805 AAAATAATTTAGATGTAGGGTGTAGGGTTTAAGAATTTT-AA
1 AAAATAATTTAGATGTAGGGTGTAGGGTTT-AGAATTTTGAA
17596846 AAAATAA
1 AAAATAA
17596853 ATCAAGGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 34 0.85
42 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (41 bp):
AAAATAATTTAGATGTAGGGTGTAGGGTTTAGAATTTTGAA
Found at i:17596967 original size:34 final size:33
Alignment explanation
Indices: 17596850--17596986 Score: 134
Period size: 34 Copynumber: 4.0 Consensus size: 33
17596840 TTTTAAAAAA
* *
17596850 TAAATCAAGGTTTAGAGTTTTTTTCTAAAAATTAAT
1 TAAATTAAGGTTTAGAG--TTTTT-AAAAAATTAAT
* *
17596886 TAAATT-AGGTTTTAGGGGTTTTAAATAAATTAAT
1 TAAATTAAGG-TTTAGAGTTTTTAAA-AAATTAAT
* *
17596920 TAAACTAGGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAAGGTTTAGAGTTTTTAA-AAAATTAAT
**
17596954 TAAATTAAGGTTTAGTTTTTTTAAAAAA-TAAT
1 TAAATTAAGGTTTAGAGTTTTTAAAAAATTAAT
17596986 T
1 T
17596987 TTGTGTGTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
32 5 0.06
33 6 0.07
34 57 0.67
35 6 0.07
36 11 0.13
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (33 bp):
TAAATTAAGGTTTAGAGTTTTTAAAAAATTAAT
Found at i:17597196 original size:125 final size:124
Alignment explanation
Indices: 17597039--17597435 Score: 512
Period size: 125 Copynumber: 3.2 Consensus size: 124
17597029 ATAAGGATTT
* * *
17597039 TTTTTCCTACAGTAGTTTC-AGAAAAATTAATTTTAAGAAGACAATTCTGAA-AAGATAATGTCA
1 TTTTT-CTACAGTAGTTCCTA-AAAAA-TAATTTTGAGAAGACGATTCTGAACAA-ATAATGTCA
* * * * *
17597102 AAAATGCTTCAAGTAGGATGCATTGTTAGCAAAATTACTGAAAAAAGTTCCTACGTGGACACTC
62 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGTTCC-ACGTGGACGCTC
* ** *
17597166 TTTTTCTACAATAGTTCCTAAAAAATAATTTTGAGAAGGTGGTTCTGAACAAATAATGTCAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAATGTCAAAAA
* * *
17597231 CGCTTTAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTG-AAAAAAGTTCCACGTGGACGCTC
* * **
17597291 TTTTTCTACAGCAGTTCTTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATGGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAATGTCAAAAA
*
17597356 CGATTCAAGCAGGATGCACTGTCAGCAAAATTGA-TGAAAAAAGCTTCCACGTGGACGCTC
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAG-TTCCACGTGGACGCTC
*
17597416 TTTTTCTTCAGTAGTTCCTA
1 TTTTTCTACAGTAGTTCCTA
17597436 TTTGGCCTTA
Statistics
Matches: 235, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
124 6 0.03
125 195 0.83
126 28 0.12
127 6 0.03
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAATGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGTTCCACGTGGACGCTC
Found at i:17598520 original size:16 final size:16
Alignment explanation
Indices: 17598499--17598530 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17598489 TTTACAGTAA
17598499 TGAAACAATATAGCAT
1 TGAAACAATATAGCAT
17598515 TGAAACAATATAGCAT
1 TGAAACAATATAGCAT
17598531 CATGAACGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (16 bp):
TGAAACAATATAGCAT
Found at i:17600522 original size:24 final size:25
Alignment explanation
Indices: 17600465--17600525 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
17600455 AAAAAACTTC
17600465 TATTTTATTAAAAATATAAAAATAA
1 TATTTTATTAAAAATATAAAAATAA
*
17600490 T-TTACTATT-AAAATATTAAAAA-AA
1 TATT-TTATTAAAAATA-TAAAAATAA
17600514 TATTTTATTAAA
1 TATTTTATTAAA
17600526 TGAAACAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TATTTTATTAAAAATATAAAAATAA
Found at i:17603140 original size:31 final size:31
Alignment explanation
Indices: 17603105--17603173 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
17603095 AATTTTATTA
*
17603105 TTTTAATAATTTTTAAAAAATT-AAAT-TAAT
1 TTTTTATAATTTTT-AAAAATTAAAATATAAT
* *
17603135 TTTTTATTATTTTTAAAGATTAAAATATAAT
1 TTTTTATAATTTTTAAAAATTAAAATATAAT
17603166 TTTATTAT
1 TTT-TTAT
17603174 CACTAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 6 0.18
30 16 0.48
31 7 0.21
32 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
TTTTTATAATTTTTAAAAATTAAAATATAAT
Found at i:17603147 original size:29 final size:32
Alignment explanation
Indices: 17603115--17603173 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 32
17603105 TTTTAATAAT
17603115 TTTTAAAAAATT-AAAT-TAATTTT-TTATTA
1 TTTTAAAAAATTAAAATATAATTTTATTATTA
* *
17603144 TTTTTAAAGATTAAAATATAATTTTATTAT
1 TTTTAAAAAATTAAAATATAATTTTATTAT
17603174 CACTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 4 0.16
31 7 0.28
32 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (32 bp):
TTTTAAAAAATTAAAATATAATTTTATTATTA
Found at i:17603149 original size:30 final size:32
Alignment explanation
Indices: 17603113--17603173 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
17603103 TATTTTAATA
17603113 ATTTTTAAAAAATT-AAAT-TAATTTT-TTATT
1 ATTTTT-AAAAATTAAAATATAATTTTATTATT
*
17603143 ATTTTTAAAGATTAAAATATAATTTTATTAT
1 ATTTTTAAAAATTAAAATATAATTTTATTAT
17603174 CACTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 6 0.22
30 10 0.37
31 7 0.26
32 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (32 bp):
ATTTTTAAAAATTAAAATATAATTTTATTATT
Found at i:17613047 original size:21 final size:21
Alignment explanation
Indices: 17613023--17613068 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
17613013 ACATTTTTCT
17613023 AAATTTCTCAAAAAATCTCTC
1 AAATTTCTCAAAAAATCTCTC
***
17613044 AAATTTCTCCCTAAATCTCTC
1 AAATTTCTCAAAAAATCTCTC
17613065 AAAT
1 AAAT
17613069 CTCTTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATTTCTCAAAAAATCTCTC
Found at i:17613246 original size:18 final size:17
Alignment explanation
Indices: 17613223--17613301 Score: 62
Period size: 15 Copynumber: 4.7 Consensus size: 17
17613213 AAATGTTAAT
17613223 TTTAATTTTTTAATATTA
1 TTTAATTTTTTAAT-TTA
*
17613241 TTTAATATTTTTTCATTTA
1 TTT-A-ATTTTTTAATTTA
17613260 TTTAATTTTAATT-ATTT-
1 TTTAATTTT--TTAATTTA
17613277 TTT-A-TTTTTAATTTA
1 TTTAATTTTTTAATTTA
17613292 --TAATTTTTTA
1 TTTAATTTTTTA
17613302 TAACAATCTG
Statistics
Matches: 52, Mismatches: 1, Indels: 19
0.72 0.01 0.26
Matches are distributed among these distances:
13 3 0.06
14 5 0.10
15 9 0.17
16 1 0.02
17 8 0.15
18 8 0.15
19 9 0.17
20 9 0.17
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTAATTTTTTAATTTA
Done.