Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 48 of 378
Found at i:12037346 original size:16 final size:17
Alignment explanation
Indices: 12037321--12037370 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
12037311 TTTTCTTACT
12037321 TTAT-TAAATTATTATA
1 TTATATAAATTATTATA
*
12037337 TTATAT-AATTATTATT
1 TTATATAAATTATTATA
* *
12037353 TTATTTAAATTATAATA
1 TTATATAAATTATTATA
12037370 T
1 T
12037371 GAGCTATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATAAATTATTATA
Found at i:12037529 original size:30 final size:32
Alignment explanation
Indices: 12037495--12037559 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
12037485 TACTTAAAAT
12037495 TTAAG-TA-AAAAGATATTA-TTATTATTATTA
1 TTAAGCTATAAAAGATATTAGTTATTATTA-TA
**
12037525 TTAAGCTATAAATTATATTAGTTATTATTATA
1 TTAAGCTATAAAAGATATTAGTTATTATTATA
12037557 TTA
1 TTA
12037560 TGAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 5 0.17
31 2 0.07
32 14 0.47
33 9 0.30
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (32 bp):
TTAAGCTATAAAAGATATTAGTTATTATTATA
Found at i:12037554 original size:15 final size:15
Alignment explanation
Indices: 12037507--12037559 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
12037497 AAGTAAAAAG
12037507 ATATTA-TTATTATT
1 ATATTAGTTATTATT
* *
12037521 ATTATTAAGCTATAAATT
1 A-TATT-AGTTAT-TATT
12037539 ATATTAGTTATTATT
1 ATATTAGTTATTATT
12037554 ATATTA
1 ATATTA
12037560 TGAAATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 1 0.03
15 13 0.42
16 6 0.19
17 7 0.23
18 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (15 bp):
ATATTAGTTATTATT
Found at i:12037712 original size:34 final size:30
Alignment explanation
Indices: 12037636--12037694 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
12037626 TACATTTGTA
12037636 TTATTTATGTA-TAATTAGTGAAAAGATATT
1 TTATTTAT-TATTAATTAGTGAAAAGATATT
12037666 TTATTTATTATTAATTAGT-AAAAGATATT
1 TTATTTATTATTAATTAGTGAAAAGATATT
12037695 ATTAGATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (30 bp):
TTATTTATTATTAATTAGTGAAAAGATATT
Found at i:12038187 original size:21 final size:21
Alignment explanation
Indices: 12038137--12038187 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
12038127 TTGAAAAAAT
*
12038137 AATGAATTAGGGATTTAATTG
1 AATGAATTTGGGATTTAATTG
12038158 AATGAATTTGGGATTTAATTG
1 AATGAATTTGGGATTTAATTG
12038179 AATGAATTT
1 AATGAATTT
12038188 TAAGTTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (21 bp):
AATGAATTTGGGATTTAATTG
Found at i:12044532 original size:26 final size:26
Alignment explanation
Indices: 12044461--12044635 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
12044451 CTATTTTAAT
*
12044461 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCGGTA
**
12044486 AACTAGGGCA-AAGCCCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTA
12044511 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCGGTA
* **
12044537 AACTAGGGCATAAGACCTTTTCAATA
1 AACTAGGGCATAAGCCCTTTTCGGTA
*
12044563 AACTAGGGCATAAGCCATTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCGGTA
*
12044589 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCGGTA
*
12044615 AACTGGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
12044636 GCACTTCCTC
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 32 0.24
26 103 0.76
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCGGTA
Found at i:12045517 original size:27 final size:27
Alignment explanation
Indices: 12045439--12045525 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
12045429 TATTCGTCAT
* * *
12045439 TTTACCATACAGGGG-TATTACAGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
*
12045466 TTTACCCTATAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
* *
12045493 TTTACCCTACAGGGGCTTTAGGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
12045520 TTTACC
1 TTTACC
12045526 TAATAGGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:12045609 original size:27 final size:27
Alignment explanation
Indices: 12045579--12045905 Score: 182
Period size: 27 Copynumber: 12.1 Consensus size: 27
12045569 GTAAATCTAC
* *
12045579 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTAT
* ** * * * *
12045606 AAACCAATAGAATTTCCA-TATTTTTAG
1 AAACTAAGGGTATTT-TAGTAATTTTAT
* * *
12045633 AAAGTCAAGGGTATTTCT-GTAACTTTGT
1 AAACT-AAGGGTATTT-TAGTAATTTTAT
*
12045661 AAA-TCAAGGGTATTTTAGTAATTTTAC
1 AAACT-AAGGGTATTTTAGTAATTTTAT
* * ** * *
12045688 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACTAAGGGTATTTTAGTAATTTTAT
* * *
12045715 AAAC-CAGTGGTATTTTGGTAATTTTAC
1 AAACTAAG-GGTATTTTAGTAATTTTAT
* * *
12045742 AAACTAGGGGTATTTTGGCAATTTTAT
1 AAACTAAGGGTATTTTAGTAATTTTAT
* * *
12045769 AAATTGAGGGTATTTCT-GTAATTTTAC
1 AAACTAAGGGTATTT-TAGTAATTTTAT
* * *
12045796 AAACCAAGGGTATTTTAGCAATTTTAC
1 AAACTAAGGGTATTTTAGTAATTTTAT
*
12045823 AAACT-AGGGTATTTTGGTAATTTTACT
1 AAACTAAGGGTATTTTAGTAATTTTA-T
* * * * *
12045850 GATC-GAGGGTATTTTGGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTAT
** *
12045876 AAACCGAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTAT
12045903 AAA
1 AAA
12045906 TCGAGGGTAA
Statistics
Matches: 237, Mismatches: 51, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
26 25 0.11
27 191 0.81
28 21 0.09
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACTAAGGGTATTTTAGTAATTTTAT
Found at i:12045757 original size:81 final size:80
Alignment explanation
Indices: 12045667--12045900 Score: 317
Period size: 81 Copynumber: 2.9 Consensus size: 80
12045657 TTGTAAATCA
* *
12045667 AGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAG-GGTATTTT
*
12045731 GGTAATTTTACAAACT
65 AGTAATTTTACAAACT
* * *
12045747 AGGGGTATTTTGGCAATTTTATAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 A-GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
*
12045812 AGCAATTTTACAAACT
65 AGTAATTTTACAAACT
** * * ** *
12045828 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTTA
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA
12045893 GTAATTTT
66 GTAATTTT
12045901 GTAAATCGAG
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
80 62 0.46
81 70 0.52
82 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA
GTAATTTTACAAACT
Found at i:12045910 original size:27 final size:27
Alignment explanation
Indices: 12045640--12046034 Score: 253
Period size: 27 Copynumber: 14.7 Consensus size: 27
12045630 TAGAAAGTCA
* * *
12045640 AGGGTATTTCT-GTAACTTTGTAAATCA
1 AGGGTATTT-TGGTAATTTTATAAATCG
* * *
12045667 AGGGTATTTTAGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * *
12045694 AGGGTATTTCGGTAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
12045720 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
* *
12045747 AGGGGTATTTTGGCAATTTTATAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * *
12045775 AGGGTATTTCT-GTAATTTTACAAACCA
1 AGGGTATTT-TGGTAATTTTATAAATCG
* * * *
12045802 AGGGTATTTTAGCAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTATAAATCG
*
12045828 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
* *
12045855 AGGGTATTTTGGTAATTTTGTAAACCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
12045882 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
****** * * *
12045909 AGGGTAAAACAATAATTCTGTAAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
***** *
12045936 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
***
12045963 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * *
12045990 AGGGTACTTTGGTAATTTTACAATTTG
1 AGGGTATTTTGGTAATTTTATAAATCG
**
12046017 AGGGTATTTCAGTAATTT
1 AGGGTATTTTGGTAATTT
12046035 GGTAAACTAA
Statistics
Matches: 303, Mismatches: 56, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
26 25 0.08
27 275 0.91
28 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:12051069 original size:35 final size:37
Alignment explanation
Indices: 12051021--12051528 Score: 302
Period size: 36 Copynumber: 14.0 Consensus size: 37
12051011 GATAGATCCA
* **
12051021 TCTAAGGCAAAC-TTAAAAAGGTTGCCATAGACCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTG
* * *
12051057 TCTAAGACAA-CTTATAAAAAAAAGGTT-GGATAGA-GTCG
1 TCTAAGGCAACCTT-T---AAAAAGGTTGGGATAGACCTTG
*
12051095 TCTAAGGCAACC-TTAAAAAGGTTGGGATAGACC-TA
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTG
* *
12051130 TCTAAGGCAACC-TTAAATAGGTTGGGATAGACCATG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTG
* * *
12051166 TCAAAGGCAACC-TTAAATAGGTTGGGATAGACCATG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTG
* * **
12051202 TCAAAGGCAACCTTTAAAAAATGTTGGGATAGACC-CA
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGACCTTG
* * * *
12051239 TCTAAGG-AAACATTAAAATGGTTGGGATGGACCTTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTG
* * * *
12051275 TCTAAGGCAACTTTTAAAAAAGGTTGGCATAGGTCCAT-
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATA-GACCTTG
* ** * * **
12051313 T-TAAAGCAACC-TTGGAAAGGCTGGGATAAATATTG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTG
* * * * **
12051348 TCTAATGAAACCTTTAAAAAAGGTTGTGATAAACC-CA
1 TCTAAGGCAACCTTT-AAAAAGGTTGGGATAGACCTTG
* * * * *
12051385 TCTAAGGTAACC-TTAAAAAGGTTGAGATAAATCTCG
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTG
* * * *
12051421 TCTAAGGCAACTTTTAGAAAAGGTTGGTATTGACC-TA
1 TCTAAGGCAACCTTTA-AAAAGGTTGGGATAGACCTTG
* * *
12051458 TCTAAGACAA-CGTTAAAAATGTTGGGATAGACCTAT-
1 TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT-TG
* *
12051494 T-TACA-GCAACAC-TAAAAAAGGTTAGGATAGACCTT
1 TCTA-AGGCAAC-CTTTAAAAAGGTTGGGATAGACCTT
12051529 TTCTTATGTA
Statistics
Matches: 368, Mismatches: 77, Indels: 55
0.74 0.15 0.11
Matches are distributed among these distances:
34 10 0.03
35 106 0.29
36 117 0.32
37 48 0.13
38 68 0.18
39 10 0.03
40 9 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTG
Found at i:12051153 original size:109 final size:109
Alignment explanation
Indices: 12051007--12051306 Score: 319
Period size: 109 Copynumber: 2.7 Consensus size: 109
12050997 TTAAAAATTA
* ** *
12051007 TTGGGATAGATCCATCTAAGGCAAACTTAAAAAGGTTGCCATAGACCTTGTCTAAGACAACTTAT
1 TTGGGATAGA-CCATCTAAGGCAACCTT-AAAAGGTTGGGATAGACCTTGTCTAAGGCAACTT-T
* *
12051072 AAAAAAAAGGTT-GGATAGAGTC-GTCTAAGGCAACC-TT-AAAAAGG
63 AAAAAAAAGGTTGGGATAGA-CCAGTCAAAGGCAACCTTTAAAAAAGG
* * *
12051116 TTGGGATAGACCTATCTAAGGCAACCTTAAATAGGTTGGGATAGACCATGTCAAAGGCAACCTT-
1 TTGGGATAGACC-ATCTAAGGCAACCTTAAA-AGGTTGGGATAGACCTTGTCTAAGGCAACTTTA
* *
12051180 --AAATAGGTTGGGATAGACCATGTCAAAGGCAACCTTTAAAAAATG
64 AAAAAAAGGTTGGGATAGACCA-GTCAAAGGCAACCTTTAAAAAAGG
* * *
12051225 TTGGGATAGACCCATCTAAGGAAACATTAAAATGGTTGGGATGGACCTTGTCTAAGGCAACTTT-
1 TTGGGATAGA-CCATCTAAGGCAACCTTAAAA-GGTTGGGATAGACCTTGTCTAAGGCAACTTTA
* *
12051289 TAAAAAAGGTTGGCATAG
64 AAAAAAAGGTTGGGATAG
12051307 GTCCATTTAA
Statistics
Matches: 161, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
105 9 0.06
106 7 0.04
107 12 0.07
108 9 0.06
109 108 0.67
110 2 0.01
111 14 0.09
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (109 bp):
TTGGGATAGACCATCTAAGGCAACCTTAAAAGGTTGGGATAGACCTTGTCTAAGGCAACTTTAAA
AAAAAGGTTGGGATAGACCAGTCAAAGGCAACCTTTAAAAAAGG
Found at i:12051262 original size:73 final size:72
Alignment explanation
Indices: 12051007--12051526 Score: 403
Period size: 73 Copynumber: 7.2 Consensus size: 72
12050997 TTAAAAATTA
* ** *
12051007 TTGGGATAGATCCATCTAAGGCAAA-CTTAAAAAGGTTGCCATAGACCTTGTCTAAGACAA-CTT
1 TTGGGATAGACCCATCTAAGG-AAACCTTAAAAAGGTTGGGATAGACC-TGTCTAAGGCAACCTT
12051070 ATAAAAAAAAGG
64 -T--AAAAAAGG
** * * *
12051082 TT-GGATAGAGTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCTATCTAAGGCAACC-TT-
1 TTGGGATAGACCCATCTAAGGAAACCTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTTA
*
12051144 AAATAGG
66 AAAAAGG
* * * *
12051151 TTGGGATAGA-CCATGTCAAAGGCAACCTTAAATAGGTTGGGATAGACCATGTCAAAGGCAACCT
1 TTGGGATAGACCCA--TCTAAGGAAACCTTAAAAAGGTTGGGATAGACC-TGTCTAAGGCAACCT
*
12051215 TTAAAAAATG
63 TTAAAAAAGG
* * * *
12051225 TTGGGATAGACCCATCTAAGGAAACATTAAAATGGTTGGGATGGACCTTGTCTAAGGCAACTTTT
1 TTGGGATAGACCCATCTAAGGAAACCTTAAAAAGGTTGGGATAGACC-TGTCTAAGGCAACCTTT
12051290 AAAAAAGG
65 AAAAAAGG
* ** * * * ** * * ** * *
12051298 TTGGCATAGGTCCATTTAAAGCAACCTTGGAAAGGCTGGGATAAATATTGTCTAATGAAACCTTT
1 TTGGGATAGACCCATCTAAGGAAACCTTAAAAAGGTTGGGATAGA-CCTGTCTAAGGCAACCTTT
12051363 AAAAAAGG
65 AAAAAAGG
* * * * * * *
12051371 TTGTGATAAACCCATCTAAGGTAACCTTAAAAAGGTTGAGATAAATCTCGTCTAAGGCAACTTTT
1 TTGGGATAGACCCATCTAAGGAAACCTTAAAAAGGTTGGGATAGACCT-GTCTAAGGCAACCTTT
*
12051436 AGAAAAGG
65 AAAAAAGG
* * * * * * *
12051444 TTGGTATTGACCTATCTAA-GACAACGTTAAAAATGTTGGGATAGACCTATTTACA-GCAACAC-
1 TTGGGATAGACCCATCTAAGGA-AACCTTAAAAAGGTTGGGATAGACCTGTCTA-AGGCAAC-CT
12051506 -TAAAAAAGG
63 TTAAAAAAGG
*
12051515 TTAGGATAGACC
1 TTGGGATAGACC
12051527 TTTTCTTATG
Statistics
Matches: 350, Mismatches: 81, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
69 9 0.03
70 7 0.02
71 48 0.14
72 23 0.07
73 207 0.59
74 51 0.15
75 5 0.01
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (72 bp):
TTGGGATAGACCCATCTAAGGAAACCTTAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTTA
AAAAAGG
Found at i:12065088 original size:35 final size:35
Alignment explanation
Indices: 12064995--12065091 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 35
12064985 TGCCAATAGC
* * *
12064995 TGGAGTAGGTGGTGGACAGCAGATGCACCAGTGGG
1 TGGAGCAGGTGGTGGACGGCAGATGCACCAGTGCG
* * * * *
12065030 TGGATCAGGTGGTGAACGACAGATGCGCCAGTGCT
1 TGGAGCAGGTGGTGGACGGCAGATGCACCAGTGCG
* *
12065065 TGGAGCAGGTTGTGGATGGCAGATGCA
1 TGGAGCAGGTGGTGGACGGCAGATGCA
12065092 ATTGGTTTTC
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.23, C:0.15, G:0.42, T:0.20
Consensus pattern (35 bp):
TGGAGCAGGTGGTGGACGGCAGATGCACCAGTGCG
Found at i:12065291 original size:27 final size:27
Alignment explanation
Indices: 12065206--12065294 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
12065196 ATTTCAGTCT
12065206 TTTTTTTACTAATTATTTATTATTCAA
1 TTTTTTTACTAATTATTTATTATTCAA
** * * *
12065233 TTTTTTTTGTCAGCATCATTTCAGTCTT---
1 TTTTTTTACT-A--ATTATTT-ATTATTCAA
12065261 TTTTTTTACTAATTATTTATTATTCAA
1 TTTTTTTACTAATTATTTATTATTCAA
12065288 TTTTTTT
1 TTTTTTT
12065295 TACTTTCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
24 4 0.09
25 6 0.13
27 16 0.36
28 9 0.20
30 6 0.13
31 4 0.09
ACGTcount: A:0.22, C:0.10, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTTTTTACTAATTATTTATTATTCAA
Found at i:12065291 original size:28 final size:28
Alignment explanation
Indices: 12065205--12065298 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 28
12065195 CATTTCAGTC
12065205 TTTTTTTTACTAATTATTTATTATTCAA
1 TTTTTTTTACTAATTATTTATTATTCAA
* * * * *
12065233 TTTTTTTT-GTCAGCATCA-TT-TCAGTC-T
1 TTTTTTTTACT-A--ATTATTTATTATTCAA
12065260 TTTTTTTTACTAATTATTTATTATTCAA
1 TTTTTTTTACTAATTATTTATTATTCAA
12065288 TTTTTTTTACT
1 TTTTTTTTACT
12065299 TTCTTTAACT
Statistics
Matches: 49, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
25 3 0.06
26 2 0.04
27 14 0.29
28 25 0.51
29 2 0.04
30 3 0.06
ACGTcount: A:0.22, C:0.11, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTTTTTTACTAATTATTTATTATTCAA
Found at i:12065292 original size:54 final size:54
Alignment explanation
Indices: 12065185--12065295 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 54
12065175 ATCCCATGCC
12065185 TTGTCAGCATCATTTCAGTCTTTTTTTTACTAATTATTTATTATTCAATTTTTT
1 TTGTCAGCATCATTTCAGTCTTTTTTTTACTAATTATTTATTATTCAATTTTTT
12065239 TTGTCAGCATCATTTCAGTCTTTTTTTTTACTAATTATTTATTATTCAATTTTTT
1 TTGTCAGCATCATTTCAGTC-TTTTTTTTACTAATTATTTATTATTCAATTTTTT
12065294 TT
1 TT
12065296 ACTTTCTTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 20 0.36
55 36 0.64
ACGTcount: A:0.22, C:0.13, G:0.05, T:0.60
Consensus pattern (54 bp):
TTGTCAGCATCATTTCAGTCTTTTTTTTACTAATTATTTATTATTCAATTTTTT
Found at i:12066285 original size:31 final size:31
Alignment explanation
Indices: 12066241--12066417 Score: 293
Period size: 31 Copynumber: 5.7 Consensus size: 31
12066231 TTAGTCTTGA
* *
12066241 CATAT-ACTAGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
12066271 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
12066302 CATATCACTGGGCCAAAGCCTTTTCATATAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
12066333 CATATCACTGGGCCGAAACCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
12066364 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
12066395 CATATCACTAGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
12066418 ACTGTAAACA
Statistics
Matches: 137, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.04
31 132 0.96
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:12066488 original size:42 final size:42
Alignment explanation
Indices: 12066441--12066572 Score: 210
Period size: 42 Copynumber: 3.1 Consensus size: 42
12066431 TGGCCCTTAG
*
12066441 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
12066483 GCCCATTTCAATATCACATGTAATGTCGATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
* * *
12066525 GCCCATTTCAATATCACATATAATTTCAATAAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
12066567 ACCCAT
1 GCCCAT
12066573 CTGGGGAGAC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:12066750 original size:25 final size:25
Alignment explanation
Indices: 12066722--12066791 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
12066712 CTCTTTTAAT
12066722 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
12066747 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
12066772 AATTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
12066792 AGCACTTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:12067663 original size:27 final size:27
Alignment explanation
Indices: 12067604--12067665 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
12067594 CATATTTTTT
12067604 ATTTTACCATACAAGGGTATTACGGTC
1 ATTTTACCATACAAGGGTATTACGGTC
* * *
12067631 ACTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTACCATACAAGGG-TATTACGGTC
*
12067658 TTTTTACC
1 ATTTTACC
12067666 TATTAGGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTTTACCATACAAGGGTATTACGGTC
Found at i:12067749 original size:27 final size:27
Alignment explanation
Indices: 12067719--12067958 Score: 116
Period size: 27 Copynumber: 8.9 Consensus size: 27
12067709 GTAAATCTAC
*
12067719 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
*
12067746 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTAT
* * *
12067772 AAAAGTCAAGGGTATTT-TGTAATTTTGT
1 -AAA-CCAAGGGTATTTCAGTAATTTTAT
** * *
12067800 AAA-TTAGTGGTATTTTAGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
*** * * *
12067827 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
12067854 AAACC-AGTGGTATTTCGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* ** *
12067881 AAA-CTAGGTGTATTTTGGTAATTTTAC
1 AAACCAAGG-GTATTTCAGTAATTTTAT
* * ** *
12067908 AAACTAGGGGTATTTTGGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
**
12067935 CCTA-CAAGGGTATTTCAGTAATTT
1 -AAACCAAGGGTATTTCAGTAATTT
12067959 CACGATCGAG
Statistics
Matches: 171, Mismatches: 29, Indels: 26
0.76 0.13 0.12
Matches are distributed among these distances:
25 2 0.01
26 12 0.07
27 139 0.81
28 18 0.11
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:12067848 original size:54 final size:53
Alignment explanation
Indices: 12067725--12067930 Score: 175
Period size: 54 Copynumber: 3.8 Consensus size: 53
12067715 CTACAAACCA
* ** * *
12067725 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTA-AAAGTCA
1 AGGGTATTTCGGTAATTTTACAAACCAGTGGTATTT-TAGTAA-TTTTACAAA-T-T
* ** **
12067780 AGGGTATTT-TGTAATTTTGTAAATTAGTGGTATTTTAGTAATTTTACAAATT
1 AGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTAGTAATTTTACAAATT
* ** *
12067832 GAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTAGTAATTTTACAAATT
* * * *
12067886 AGGTGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 AGG-GTATTTCGGTAATTTTACAAACCAGTGGTATTTTAGTAATT
12067931 CTATCCTACA
Statistics
Matches: 127, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
53 20 0.16
54 98 0.77
55 9 0.07
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.43
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTAGTAATTTTACAAATT
Found at i:12067875 original size:81 final size:80
Alignment explanation
Indices: 12067782--12067930 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 80
12067772 AAAAGTCAAG
* ** * *
12067782 GGTATTTTGTAATTTTGTAAATTA-GTGGTATTTTAGTAATTTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTGGTAATTTTACAAACTAGGT-GTATTTTAGTAATTTTACAAACTAG-GGGTATTTCGG
12067845 TAATTTCACAAACCAGT
64 TAATTTCACAAACCAGT
* *
12067862 GGTATTTCGGTAATTTTACAAACTAGGTGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTT-GGTAATTTTACAAACTAGGTGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGGT
12067927 AATT
65 AATT
12067931 CTATCCTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
80 7 0.12
81 48 0.81
82 4 0.07
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (80 bp):
GGTATTTGGTAATTTTACAAACTAGGTGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGGTA
ATTTCACAAACCAGT
Found at i:12067947 original size:81 final size:80
Alignment explanation
Indices: 12067778--12067958 Score: 190
Period size: 81 Copynumber: 2.2 Consensus size: 80
12067768 TTTTAAAAGT
* ** * *
12067778 CAAGGGTATTT-TGTAATTTTGTAAATTAGTGGTATTTTAGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACTAGTGGTATTTTAGTAATTTTACAAATAGAGGGTATTT
12067842 CGGTAATTTCACAAA
66 CGGTAATTTCACAAA
* * *
12067857 CCAGTGGTATTTCGGTAATTTTACAAACTAG-GTGTATTTTGGTAATTTTACAAACTAG-GGGTA
1 CAAG-GGTATTTCAGTAATTTTACAAACTAGTG-GTATTTTAGTAATTTTACAAA-TAGAGGGTA
* **
12067920 TTTTGGTAA-TTCTATCCTA
63 TTTCGGTAATTTC-A-CAAA
12067939 CAAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
12067959 CACGATCGAG
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
79 3 0.04
80 11 0.13
81 63 0.75
82 7 0.08
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (80 bp):
CAAGGGTATTTCAGTAATTTTACAAACTAGTGGTATTTTAGTAATTTTACAAATAGAGGGTATTT
CGGTAATTTCACAAA
Found at i:12067948 original size:54 final size:53
Alignment explanation
Indices: 12067833--12067961 Score: 150
Period size: 54 Copynumber: 2.4 Consensus size: 53
12067823 TTACAAATTG
* * *
12067833 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACT
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGGTAATTCTACAAACA
* * * * **
12067886 AGGTGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTACA
1 AGG-GTATTTCGGTAATTTCACAAACCAGGGGTATTTCGGTAATTCTA-CAAACA
*
12067941 AGGGTATTTCAGTAATTTCAC
1 AGGGTATTTCGGTAATTTCAC
12067962 GATCGAGGGT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
53 3 0.05
54 53 0.85
55 6 0.10
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGGTAATTCTACAAACA
Found at i:12067999 original size:27 final size:27
Alignment explanation
Indices: 12067963--12068186 Score: 279
Period size: 27 Copynumber: 8.3 Consensus size: 27
12067953 TAATTTCACG
*
12067963 ATCGAGGGTAAAACGGTAATTTTGTAA
1 ATCGAGGGTAAAATGGTAATTTTGTAA
12067990 A-CTGAGGGTAAAATGGTAATTTTGTAA
1 ATC-GAGGGTAAAATGGTAATTTTGTAA
* *
12068017 ATCGAGGGTAAAATGGTAATTCTATAA
1 ATCGAGGGTAAAATGGTAATTTTGTAA
*
12068044 ATCGAGGGTAAAATGGTAATTTTATAA
1 ATCGAGGGTAAAATGGTAATTTTGTAA
* * *
12068071 ATTGAGGATAAAATAGTAATTTTGTAA
1 ATCGAGGGTAAAATGGTAATTTTGTAA
* * *
12068098 ATCGAGGATGAAACGGTAATTTTGTAA
1 ATCGAGGGTAAAATGGTAATTTTGTAA
* * * *
12068125 ATCGAGGGTGAAACGGTAATTCTATAA
1 ATCGAGGGTAAAATGGTAATTTTGTAA
* **
12068152 ATCGAGGGTAAAATGGTAATTCTACAA
1 ATCGAGGGTAAAATGGTAATTTTGTAA
12068179 ATCGAGGG
1 ATCGAGGG
12068187 CATTTCAATA
Statistics
Matches: 177, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 175 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (27 bp):
ATCGAGGGTAAAATGGTAATTTTGTAA
Found at i:12069854 original size:14 final size:14
Alignment explanation
Indices: 12069837--12069873 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12069827 TAAACCCCAC
12069837 ACCTTAAATCCTAA
1 ACCTTAAATCCTAA
*
12069851 ACCTTAAACCCTAA
1 ACCTTAAATCCTAA
*
12069865 ACCCTAAAT
1 ACCTTAAAT
12069874 TATACACCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.24
Consensus pattern (14 bp):
ACCTTAAATCCTAA
Found at i:12070398 original size:141 final size:141
Alignment explanation
Indices: 12070123--12070838 Score: 933
Period size: 141 Copynumber: 5.1 Consensus size: 141
12070113 TATATATATA
** * * * * * * *
12070123 TCGTCTTAGGACTGGAC-AAATCCAACTATTATTTAAGTGTTGACTTAGGCATATATATACCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * *
12070187 CCTTATACAAAGAGTTGGCC-AAAACATA-AGTTGGCAAGTCTATCCCAACACTTAAGAAAGTGT
66 CCTTATACAAAGAGTT-GCCGAAAGCGTATA-TTGGCATGTCTATCCCAACACTTAAGAAAGTGT
12070250 CGCCACAATAGTG
129 CGCCACAATAGTG
* *
12070263 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTAGCCTTAGGCATACATATTCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * *
12070328 CCTTATACAAATAGTTGCCTAAAGTGTATATTGGCATGTATATCCCAACACTTAAGAAAGTGTCG
66 CCTTATACAAAGAGTTGCCGAAAGCGTATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
12070393 CCACAATAGTG
131 CCACAATAGTG
*
12070404 TCGTCTTAGGACTACACAAAAGCTAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* *
12070469 CCTTATACAAAGAGTTGCCGAAAGTGTATATTGGCATGTCTATCCCAACACATAAGAAAGTGTCG
66 CCTTATACAAAGAGTTGCCGAAAGCGTATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
*
12070534 CCAAAATAGTG
131 CCACAATAGTG
* * *
12070545 TCGTCTTAGGACTACTCAAAAACCAACTCTTA-TCAAGCATTGCCTTAGGCATACATATCCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
** * * * **
12070609 CCTTATACAAAGAGTTGCTTAAAGCGTATCTTGGCATGTCTATCGCAACACTTAAAAAAACGTCG
66 CCTTATACAAAGAGTTGCCGAAAGCGTATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
*
12070674 CCATAATAGTG
131 CCACAATAGTG
* * * * * *
12070685 TCGTCTTAGGGCTAGAC-AAAGCCAACTCTTATTTAAGCGTTGCTTTAAGCATGCATATCCCAAC
1 TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
* * * *
12070749 CCTTATACAAAAAGTTGGCGAAAGCGTATGTTGGCCA-GTCTATCCCAACACTTAAGAAAGTGTT
66 CCTTATACAAAGAGTTGCCGAAAGCGTATATTGG-CATGTCTATCCCAACACTTAAGAAAGTGTC
*
12070813 GCC-CCATAAGTG
130 GCCACAAT-AGTG
* *
12070825 TCGTATTAGCACTA
1 TCGTCTTAGGACTA
12070839 TTTTGTTGTA
Statistics
Matches: 508, Mismatches: 62, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
139 15 0.03
140 225 0.44
141 267 0.53
142 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (141 bp):
TCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGCCGAAAGCGTATATTGGCATGTCTATCCCAACACTTAAGAAAGTGTCG
CCACAATAGTG
Found at i:12073564 original size:13 final size:13
Alignment explanation
Indices: 12073548--12073581 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
12073538 AGGGACACGC
12073548 CCGTGTGACACAG
1 CCGTGTGACACAG
*
12073561 CCGTGTGACACTG
1 CCGTGTGACACAG
12073574 CCGTGTGA
1 CCGTGTGA
12073582 AGTGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.29, G:0.32, T:0.21
Consensus pattern (13 bp):
CCGTGTGACACAG
Found at i:12079745 original size:28 final size:28
Alignment explanation
Indices: 12079713--12079814 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 28
12079703 TAATTATATG
* *
12079713 TGGCACTTAACGTGCGAAGTATCGGGGA
1 TGGCACTTAATGTGCGAAGTATCGAGGA
* * * *
12079741 TGGCACTTAGTGTGCGATA-CATCCAGAA
1 TGGCACTTAATGTGCGA-AGTATCGAGGA
* *
12079769 TGGCACTTAGTGTGCGAAGTAACGAGGA
1 TGGCACTTAATGTGCGAAGTATCGAGGA
12079797 TGGCACTTAGA-GTGCGAA
1 TGGCACTTA-ATGTGCGAA
12079815 ACATCTAGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.02
28 58 0.97
29 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (28 bp):
TGGCACTTAATGTGCGAAGTATCGAGGA
Found at i:12079799 original size:56 final size:56
Alignment explanation
Indices: 12079713--12079839 Score: 173
Period size: 56 Copynumber: 2.3 Consensus size: 56
12079703 TAATTATATG
** * * * *
12079713 TGGCACTTAACGTGCGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGAGTGCGAAACATCCAGAA
*
12079769 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGAGTGCGAAACATCTAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGAGTGCGAAACATCCAGAA
* *
12079825 CGACACTTAGTGTGC
1 TGGCACTTAGTGTGC
12079840 AAGGTATAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGAGTGCGAAACATCCAGAA
Found at i:12079953 original size:32 final size:32
Alignment explanation
Indices: 12079917--12080009 Score: 98
Period size: 32 Copynumber: 2.9 Consensus size: 32
12079907 TGAGTATGAG
*
12079917 ATTGGTACGAGATGATACAGGTATCTAC-AGAA
1 ATTGGTACAAGATGATACAGGTATCTACGA-AA
* * *
12079949 ATTGGTACAATATGGTACAGGTATGTACGAAA
1 ATTGGTACAAGATGATACAGGTATCTACGAAA
* * * *
12079981 ATTGGTACAATATGGTACATGTATGTACG
1 ATTGGTACAAGATGATACAGGTATCTACG
12080010 GAGATTCAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 54 0.98
33 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (32 bp):
ATTGGTACAAGATGATACAGGTATCTACGAAA
Found at i:12081739 original size:19 final size:20
Alignment explanation
Indices: 12081705--12081748 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
12081695 GTTTGGTATG
*
12081705 TGATTGTTGCATTAAT-ATTT
1 TGATTGTTGAATTAATGA-TT
12081725 TGATTG-TGAATTAATGATT
1 TGATTGTTGAATTAATGATT
12081744 TGATT
1 TGATT
12081749 TAGCGTATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.52
Consensus pattern (20 bp):
TGATTGTTGAATTAATGATT
Found at i:12082020 original size:34 final size:34
Alignment explanation
Indices: 12081977--12082044 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
12081967 AGTGTGGAAT
12081977 TACATAGTTTCGTGATTGAAGGATTAGTACTGTG
1 TACATAGTTTCGTGATTGAAGGATTAGTACTGTG
12082011 TACATAGTTTCGTGATTGAAGGATTAGTACTGTG
1 TACATAGTTTCGTGATTGAAGGATTAGTACTGTG
12082045 ATCAAATAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.38
Consensus pattern (34 bp):
TACATAGTTTCGTGATTGAAGGATTAGTACTGTG
Found at i:12086029 original size:28 final size:28
Alignment explanation
Indices: 12085998--12086097 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 28
12085988 AGTATCGGGG
*
12085998 ATGGCACTTAATGTGCGATACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
* *
12086026 ATGGCACTTAGTGTGCGAAGTA-A-CAAGG
1 ATGGCACTTAGTGTGCG-A-TACATCCAGA
*
12086054 ATGGCACTTAGTGTGCGAAACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
* *
12086082 ACGACACTTAGTGTGC
1 ATGGCACTTAGTGTGC
12086098 AAGGTATAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 2 0.03
28 53 0.88
29 2 0.03
30 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGATACATCCAGA
Found at i:12086249 original size:32 final size:32
Alignment explanation
Indices: 12086175--12086265 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 32
12086165 TGAGTATGAG
* * * *
12086175 ATTGGTACGAGATGATACAGGTATCTACGGAA
1 ATTGGTACAATATGGTACAGGTATGTACGGAA
12086207 ATTGGTACAATATGGTACAGGTATGTACGGAA
1 ATTGGTACAATATGGTACAGGTATGTACGGAA
* *
12086239 ATTGGTACAATATGGTATATGTATGTA
1 ATTGGTACAATATGGTACAGGTATGTA
12086266 TGGAGATTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (32 bp):
ATTGGTACAATATGGTACAGGTATGTACGGAA
Found at i:12090296 original size:156 final size:156
Alignment explanation
Indices: 12090012--12090327 Score: 605
Period size: 156 Copynumber: 2.0 Consensus size: 156
12090002 ATAACTTAGA
12090012 AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
1 AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
* *
12090077 AATTGGTTATTTTTCCCAGGGGTGAGTCTTAAGCCAAAAATAAACAATGGGAGGTATTAATAATT
66 AATTGGTTATTTTGCCCAGGGGTGAGTCTTAAGCCAAAAATAAACAATGGAAGGTATTAATAATT
12090142 TATTTTTCCTGATATAAACCTCGAGC
131 TATTTTTCCTGATATAAACCTCGAGC
12090168 AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
1 AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
*
12090233 AATTGGTTATTTTGCCCAGGGGTGAGTCTTAAGCCGAAAATAAACAATGGAAGGTATTAATAATT
66 AATTGGTTATTTTGCCCAGGGGTGAGTCTTAAGCCAAAAATAAACAATGGAAGGTATTAATAATT
12090298 TATTTTTCCTGATATAAACCTCGAGC
131 TATTTTTCCTGATATAAACCTCGAGC
12090324 AACT
1 AACT
12090328 AATTCCGGAG
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 157 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (156 bp):
AACTTCATGCATTTCATTATACGAGCCTTAGGACTAAATTGTAAAAGTGTGAAAAGTTAGGGGCA
AATTGGTTATTTTGCCCAGGGGTGAGTCTTAAGCCAAAAATAAACAATGGAAGGTATTAATAATT
TATTTTTCCTGATATAAACCTCGAGC
Found at i:12096538 original size:6 final size:6
Alignment explanation
Indices: 12096527--12096583 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
12096517 TGATGGTTTG
12096527 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
12096575 GTATAT GTA
1 GTATAT GTA
12096584 ATATTTGGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (6 bp):
GTATAT
Found at i:12102329 original size:19 final size:19
Alignment explanation
Indices: 12102305--12102342 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12102295 TTATACCAAG
12102305 CCATCACATTCCACTATCA
1 CCATCACATTCCACTATCA
12102324 CCATCACATTCCACTATCA
1 CCATCACATTCCACTATCA
12102343 ACATAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.42, G:0.00, T:0.26
Consensus pattern (19 bp):
CCATCACATTCCACTATCA
Found at i:12104046 original size:14 final size:16
Alignment explanation
Indices: 12104024--12104056 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
12104014 TTTAAATTCC
12104024 AAACAAATA-ATTTAA
1 AAACAAATATATTTAA
12104039 AAAC-AATATATTTAA
1 AAACAAATATATTTAA
12104054 AAA
1 AAA
12104057 TCATAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (16 bp):
AAACAAATATATTTAA
Found at i:12104991 original size:18 final size:18
Alignment explanation
Indices: 12104954--12104991 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
12104944 AAAAAATAAC
*
12104954 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
12104972 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTACATTT-AAAAT
12104990 AT
1 AT
12104992 ATGGTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:12105430 original size:13 final size:13
Alignment explanation
Indices: 12105393--12105429 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
12105383 AATTTGGCAA
12105393 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
12105406 TG-TTTTGGAAAAG
1 TGCTTTT-GAAAAG
12105419 TGCTTTT-AAAA
1 TGCTTTTGAAAA
12105430 AATTTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.36
13 10 0.45
14 4 0.18
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:12106986 original size:11 final size:10
Alignment explanation
Indices: 12106961--12106996 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
12106951 AATCTGTTAA
*
12106961 AAAAATAAGT
1 AAAAACAAGT
12106971 AAAAACAAGT
1 AAAAACAAGT
12106981 ATAAAACAAGT
1 A-AAAACAAGT
12106992 AAAAA
1 AAAAA
12106997 AAAATAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.72, C:0.06, G:0.08, T:0.14
Consensus pattern (10 bp):
AAAAACAAGT
Found at i:12106997 original size:11 final size:11
Alignment explanation
Indices: 12106960--12106997 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
12106950 CAATCTGTTA
*
12106960 AAAAAATAAGT
1 AAAAAACAAGT
12106971 -AAAAACAAGT
1 AAAAAACAAGT
*
12106981 ATAAAACAAGT
1 AAAAAACAAGT
12106992 AAAAAA
1 AAAAAA
12106998 AAATAGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (11 bp):
AAAAAACAAGT
Found at i:12107380 original size:11 final size:11
Alignment explanation
Indices: 12107366--12107414 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
12107356 TTTATTGTTG
12107366 ATTTTAATTTA
1 ATTTTAATTTA
12107377 A-TTTAATTTA
1 ATTTTAATTTA
12107387 A-TTTAGATTTA
1 ATTTTA-ATTTA
*
12107398 ATTTTTAATTTT
1 A-TTTTAATTTA
12107410 ATTTT
1 ATTTT
12107415 TTGCAAGGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 14 0.41
11 11 0.32
12 5 0.15
13 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
ATTTTAATTTA
Found at i:12107410 original size:6 final size:5
Alignment explanation
Indices: 12107368--12107401 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
12107358 TATTGTTGAT
12107368 TTTAA TTTAA TTTAA TTTAA TTTAGA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTA-A TTTAA TTT
12107402 TTAATTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:12107746 original size:15 final size:15
Alignment explanation
Indices: 12107689--12107751 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
12107679 ACTATTTTAC
12107689 AAAAATAG--TAT-A
1 AAAAATAGAATATGA
* *
12107701 AAAAAGAAAATATGA
1 AAAAATAGAATATGA
***
12107716 AAAAATATCTTAATGA
1 AAAAATAGAAT-ATGA
12107732 AAAAATAGAATATGA
1 AAAAATAGAATATGA
12107747 AAAAA
1 AAAAA
12107752 ATACAATAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
12 6 0.16
14 3 0.08
15 17 0.45
16 12 0.32
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.21
Consensus pattern (15 bp):
AAAAATAGAATATGA
Found at i:12108115 original size:23 final size:23
Alignment explanation
Indices: 12108065--12108120 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
12108055 AATAAAATAC
*
12108065 TAAAATAGT-ATATTTTAAAAAA
1 TAAAATAATAATATTTTAAAAAA
* *
12108087 TAAAATCATAATATTTT-AGAAA
1 TAAAATAATAATATTTTAAAAAA
12108109 TACAAATAATAA
1 TA-AAATAATAA
12108121 ATGGACAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (23 bp):
TAAAATAATAATATTTTAAAAAA
Found at i:12108147 original size:134 final size:134
Alignment explanation
Indices: 12107790--12108279 Score: 751
Period size: 135 Copynumber: 3.7 Consensus size: 134
12107780 ATAATATAAG
* * * *
12107790 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCA-AAAATTTTA-AAA-ATATA-AAC
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CAGAATATTTTAGAAATACAAATAAT
*
12107851 AAAGGGACAAAATTAGGGTTATTTAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGAT
65 AAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGAT
12107916 -AAAA
130 AAAAA
12107920 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTC-GAATATTTTAGAAATACAAATAAT
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-TCAGAATATTTTAGAAATACAAATAAT
*
12107984 AAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTAATACATTTATGTATTAAAATAAGA
65 AAAGGGACAAAATTAGGGTTATAT-AAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGA
12108049 TAAAAA
129 TAAAAA
* *
12108055 AATAAAATACTAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTAGAAATACAAATAATA
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAGAATATTTTAGAAATACAAATAATA
* * *
12108120 AATGGACAAAATTTGGGTTATATAAAAAACACTAAAGTTATACATTTATGTACTAAAATATA-AT
66 AAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGTACTAAAATA-AGAT
12108184 ATAAAA
130 A-AAAA
* * * *
12108190 AATAAAATATGAAAATATTATATTTTAAAAAATAAAATCCGAATATTTTAAAAATACAAATAATA
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAGAATATTTTAGAAATACAAATAATA
12108255 AAGGGACAAAATTAGGGTTATATAA
66 AAGGGACAAAATTAGGGTTATATAA
12108280 GATAAAAAAT
Statistics
Matches: 330, Mismatches: 20, Indels: 15
0.90 0.05 0.04
Matches are distributed among these distances:
130 46 0.14
131 4 0.01
132 3 0.01
133 25 0.08
134 80 0.24
135 172 0.52
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (134 bp):
AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAGAATATTTTAGAAATACAAATAATA
AAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACATTTATGTACTAAAATAAGATA
AAAA
Found at i:12108310 original size:232 final size:233
Alignment explanation
Indices: 12108043--12108512 Score: 804
Period size: 232 Copynumber: 2.0 Consensus size: 233
12108033 ATGTATTAAA
*
12108043 ATAAGATAAAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAAATCAT-AATATTTTAGA
1 ATAAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATC-TGAATATTTTAGA
* * *
12108107 AATACAAATAATAAATGGACAAAATTTGGGTTATAT-AAAAAACACTAAAGTTATACATTTATGT
65 AATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAATTATACATTTATGT
* * *
12108171 ACTAAAATATAATATAAAAAATAAAATATGAAAATATTATATTTT-AAAAAATAAAATCCGAATA
130 ACT-AAA-ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATA
12108235 TTTTAAAAATACAAATAATAAAGGGACAAAATTAGGGTTAT
193 TTTTAAAAATACAAATAATAAAGGGACAAAATTAGGGTTAT
12108276 ATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGAA
1 ATAAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGAA
12108340 ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACACTAAAATTATACATTTATGT
66 ATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAAAACACTAAAATTATACATTTATGT
12108405 ACTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATT
130 ACTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATT
*
12108470 TTACAAATACAAATAATAAAGGGACAAAATTAGGGTTAT
195 TTAAAAATACAAATAATAAAGGGACAAAATTAGGGTTAT
12108509 ATAA
1 ATAA
12108513 AAACACTAAA
Statistics
Matches: 225, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
231 1 0.00
232 121 0.54
233 73 0.32
234 30 0.13
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (233 bp):
ATAAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGAA
ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAATTATACATTTATGTA
CTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTT
TAAAAATACAAATAATAAAGGGACAAAATTAGGGTTAT
Found at i:12108391 original size:97 final size:97
Alignment explanation
Indices: 12108177--12108376 Score: 355
Period size: 97 Copynumber: 2.1 Consensus size: 97
12108167 ATGTACTAAA
* * *
12108177 ATATAATATAAAAAATAAAATATGAAAATATTATATTTTAAAAAATAAAATCCGAATATTTTAAA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
12108242 AATACAAATAATAAAGGGACAAAATTAGGGTT
66 AATACAAATAATAAAGGGACAAAATTAGGGTT
* *
12108274 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
12108339 AATACAAATAATAAAGGGACAAAATTAGGGTT
66 AATACAAATAATAAAGGGACAAAATTAGGGTT
12108371 ATATAA
1 ATATAA
12108377 AAAAAACACT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.29
Consensus pattern (97 bp):
ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
AATACAAATAATAAAGGGACAAAATTAGGGTT
Found at i:12108431 original size:135 final size:136
Alignment explanation
Indices: 12108274--12108646 Score: 655
Period size: 135 Copynumber: 2.8 Consensus size: 136
12108264 AATTAGGGTT
* *
12108274 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
12108339 AATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACACTAAAATTATACATTTATG
66 AATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAAAACACTAAAATTATACATTTATG
12108404 TACT-AA
130 TACTAAA
*
12108410 A-ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTAC
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAAATAAAATCCGAATATTTTAA
12108474 AAATACAAATAATAAAGGGACAAAATTAGGGTTATAT--AAAAACACTAAAATTATACATTTATG
65 AAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAATTATACATTTATG
12108537 TACTAAA
130 TACTAAA
*
12108544 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATTTTAAA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
*
12108609 AATAAAAATAATAAAGGGACAAAATTAGGGTTATATAA
66 AATACAAATAATAAAGGGACAAAATTAGGGTTATATAA
12108647 GATAAAAAAT
Statistics
Matches: 227, Mismatches: 5, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
133 30 0.13
134 62 0.27
135 74 0.33
136 61 0.27
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.28
Consensus pattern (136 bp):
ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAA
AATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAATTATACATTTATGT
ACTAAA
Found at i:12108582 original size:367 final size:366
Alignment explanation
Indices: 12107909--12108844 Score: 1662
Period size: 367 Copynumber: 2.6 Consensus size: 366
12107899 ATGTACTAAA
12107909 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-TCGAATATTTTAGAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCT-GAATATTTTAGAA
*
12107973 ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTAATACATTTATGTA
65 ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATGTA
* *
12108038 TTAAAATAAGATAAAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAAATCATAATATTT
130 CTAAAATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTT
* * *
12108103 TAGAAATACAAATAATAAATGGACAAAATTTGGGTTATATAAAAAACACTAAAGTTATACATTTA
194 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAATTATACATTTA
* * * *
12108168 TGTACTAAAATATAATATAAAAAATAAAATATGAAAATATTATATTTTAAAAAATAAAATCCGAA
259 TGTACTAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAA
*
12108233 TATTTTAAAAATACAAATAATAAAGGGACAAAATTAGGGTTAT
324 TATTTTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
12108276 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGAAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGAAA
*
12108341 TACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACACTAAAATTATACATTTATGTA
66 TACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAAAACACTAAAGTTATACATTTATGTA
**
12108406 CTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTT
130 CTAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAAATAAAATCATAATATTT
*
12108471 TACAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAACACTAAAATTATACATTTA
194 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAATTATACATTTA
12108535 TGTACTAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAA
259 TGTACTAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAA
12108600 TATTTTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
324 TATTTTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
* *
12108643 ATAAGATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAGAAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGAAA
12108708 TACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAAACACTAAAGTTATACATTTATGTAC
66 TACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATGTAC
12108772 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
131 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
12108837 GAAATACA
196 GAAATACA
12108845 CCTATTCAAT
Statistics
Matches: 545, Mismatches: 21, Indels: 9
0.95 0.04 0.02
Matches are distributed among these distances:
364 29 0.05
365 70 0.13
367 349 0.64
368 97 0.18
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (366 bp):
ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGAAA
TACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTATGTAC
TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAATTATACATTTATG
TACTAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATA
TTTTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
Found at i:12108650 original size:97 final size:97
Alignment explanation
Indices: 12108544--12108743 Score: 364
Period size: 97 Copynumber: 2.1 Consensus size: 97
12108534 ATGTACTAAA
12108544 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATTTTAAA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATTTTAAA
12108609 AATAAAAATAATAAAGGGACAAAATTAGGGTT
66 AATAAAAATAATAAAGGGACAAAATTAGGGTT
* * *
12108641 ATATAAGATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAGA
1 ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATTTTAAA
*
12108706 AATACAAATAATAAAGGGACAAAATTAGGGTT
66 AATAAAAATAATAAAGGGACAAAATTAGGGTT
12108738 ATATAA
1 ATATAA
12108744 AAAACACTAA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 99 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.28
Consensus pattern (97 bp):
ATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATTTTAAA
AATAAAAATAATAAAGGGACAAAATTAGGGTT
Found at i:12108689 original size:134 final size:132
Alignment explanation
Indices: 12108281--12108690 Score: 515
Period size: 135 Copynumber: 3.0 Consensus size: 132
12108271 GTTATATAAG
* *
12108281 ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTAGAAATACAA
1 ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAAAATACAA
**
12108346 ATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAACACTAAAATTATACATTTATGTACTA-A
66 ATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAA-A-TAAAA-TATACAAATA-GTA-TATA
*
12108410 --AATAAG
126 TTAA-AAA
*
12108416 ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTACAAATACA
1 ATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAAATAAAATCCGAATATTTTAAAAATACA
* * ** * *
12108481 AATAATAAAGGGACAAAATTAGGGTTATAT-AAAAACACTAAAATTATACATTTATGTACTAAAA
65 AATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAAATAAAA-TATACAAATA-GTA-TATAT
* *
12108545 TATAAG
127 TAAAAA
* *
12108551 ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAATATTTTAAAAATAAAA
1 ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAAAATACAA
*
12108616 ATAATAAAGGGACAAAATTAGGGTTATATAAGATAAAAAATAAAATATGA-AAATAGTATATTTT
66 ATAATAAAGGGACAAAATTAGGGTTATATAA-A-AAAAAATAAAATAT-ACAAATAGTATATATT
12108680 AAAAA
128 AAAAA
12108685 ATAAAA
1 ATAAAA
12108691 TCCGAATATT
Statistics
Matches: 250, Mismatches: 17, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
133 23 0.09
134 72 0.29
135 77 0.31
136 68 0.27
137 10 0.04
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (132 bp):
ATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAAAAATACAA
ATAATAAAGGGACAAAATTAGGGTTATATAAAAAAAAATAAAATATACAAATAGTATATATTAAA
AA
Found at i:12108722 original size:231 final size:231
Alignment explanation
Indices: 12108411--12108842 Score: 780
Period size: 232 Copynumber: 1.9 Consensus size: 231
12108401 ATGTACTAAA
12108411 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTACAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTACAA
12108476 ATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAACACTAAAATTATACATTTATGTAC
66 ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAATTATACATTTATGTAC
12108540 TAAAATATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCA-AATATT
131 T-AAA-ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CATAATATT
12108604 TTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
193 TTAAAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
* *
12108643 ATAAGATAAAAAATAAAATATGAAAATAGTATATTTT-AAAAAATAAAATCCGAATATTTTAGAA
1 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTACAA
*
12108707 ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTTATACATTTATGTAC
66 ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAATTATACATTTATGTAC
12108772 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
131 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
*
12108837 GAAATA
196 AAAATA
12108843 CACCTATTCA
Statistics
Matches: 194, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
229 2 0.01
230 63 0.32
231 64 0.33
232 65 0.34
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.28
Consensus pattern (231 bp):
ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAATAAAATCCGAATATTTTACAA
ATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAATTATACATTTATGTAC
TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
AAAATAAAAATAATAAAGGGACAAAATTAGGGTTAT
Found at i:12111040 original size:12 final size:12
Alignment explanation
Indices: 12111025--12111058 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
12111015 GCCGATATAG
12111025 AGCCCGATCCAC
1 AGCCCGATCCAC
12111037 AGCCCGATCCAC
1 AGCCCGATCCAC
*
12111049 AGCCAGATCC
1 AGCCCGATCC
12111059 CGAGCTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.47, G:0.18, T:0.09
Consensus pattern (12 bp):
AGCCCGATCCAC
Found at i:12114985 original size:126 final size:126
Alignment explanation
Indices: 12114771--12115011 Score: 412
Period size: 126 Copynumber: 1.9 Consensus size: 126
12114761 TATTATAATA
*
12114771 TGTTATATTTAAAAATAACAAAAAAAAATACCTTTAATTTTTTCTTCTCCTTCTTTCTCACTCTC
1 TGTTATATTTAAAAATAACAAAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCACTCTC
*
12114836 TTATCTTCTGTAATCTTTTTTTTACTGAAATTTTTTTCCTTCTTTATTTTTTTCAGAAAATC
66 TTATCTTCTCTAATCTTTTTTTTACTGAAATTTTTTTCCTTCTTT-TTTTTTTCAGAAAATC
* *
12114898 TGTTATATTTAAAAATAA-GAAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTCTC
1 TGTTATATTTAAAAATAACAAAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCACTCTC
* *
12114962 TTCTCTTCTCTAATTTTTTTTTTACTGAAATTTTTTTCCTTCTTTTTTTT
66 TTATCTTCTCTAATCTTTTTTTTACTGAAATTTTTTTCCTTCTTTTTTTT
12115012 CTTCTGTTCT
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
125 5 0.05
126 85 0.79
127 18 0.17
ACGTcount: A:0.25, C:0.18, G:0.03, T:0.54
Consensus pattern (126 bp):
TGTTATATTTAAAAATAACAAAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCACTCTC
TTATCTTCTCTAATCTTTTTTTTACTGAAATTTTTTTCCTTCTTTTTTTTTTCAGAAAATC
Found at i:12115197 original size:15 final size:15
Alignment explanation
Indices: 12115177--12115226 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
12115167 ATATTTTATT
12115177 ATTTTTTTCAGATTC
1 ATTTTTTTCAGATTC
12115192 ATTTTTTT-A-A--C
1 ATTTTTTTCAGATTC
*
12115203 AGTTTTTTCAGATTC
1 ATTTTTTTCAGATTC
12115218 AATTTTTTT
1 -ATTTTTTT
12115227 TAACAGATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
11 8 0.29
12 1 0.04
13 2 0.07
14 1 0.04
15 9 0.32
16 7 0.25
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTTTTTTCAGATTC
Found at i:12115208 original size:26 final size:28
Alignment explanation
Indices: 12115179--12115232 Score: 94
Period size: 26 Copynumber: 2.0 Consensus size: 28
12115169 ATTTTATTAT
12115179 TTTTTTCAGATTC-A-TTTTTTTAACAG
1 TTTTTTCAGATTCAATTTTTTTTAACAG
12115205 TTTTTTCAGATTCAATTTTTTTTAACAG
1 TTTTTTCAGATTCAATTTTTTTTAACAG
12115233 ATTGTGTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 13 0.50
27 1 0.04
28 12 0.46
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.57
Consensus pattern (28 bp):
TTTTTTCAGATTCAATTTTTTTTAACAG
Found at i:12117439 original size:228 final size:227
Alignment explanation
Indices: 12117031--12118379 Score: 1092
Period size: 228 Copynumber: 5.9 Consensus size: 227
12117021 ATTCAAATAG
* * * * *
12117031 ATGCAAATTTTTGTCAAGACCCTGACCGGCAAGACTATCACCCTT-GAGGTGGAAAGCTCCGACA
1 ATGCAAATTTTTGTTAAGACCCTGACCGGAAAGACGATCA-CCTTGGAGGTTGAAAGCTCAGACA
* * * * * *
12117095 CCATCGATAATGTCAAGGCAAAGATCCAAGATAAAGAAGGAATCCCACCAAATCAACAGAGGCTT
65 CCATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCC-CCAGACCAACAGAGG-TT
** * * * * * * * *
12117160 -ATCTTTGCTAGTAAGCAGCTAGAATATGGTCGTACACTTGCTGACTACAACATTCAGAAGGAGT
128 GATCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAAT
* *
12117224 CCACCCTGCACTTGGTCCTTCGT-TTGAGGAGTGGT
193 CCACCCTCCATTTGGTCCTTCGTCTTGAGG-GTGGT
* * * * * *
12117259 ATGCAAATCTTTGTTAAGACCCTCACCGGCAAGACTATCACCCTT-GAGGTGGAAAGCTCGGACA
1 ATGCAAATTTTTGTTAAGACCCTGACCGGAAAGACGATCA-CCTTGGAGGTTGAAAGCTCAGACA
* * * *
12117323 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAATAAGGGATCCCTCCAGACCAGCAGAGGCTT
65 CCATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCC-CCAGACCAACAGAGG-TT
* * * * *
12117388 -ATCTTTGCCGGTAAGCAACTAGAAGATGGTCGTACCCTGGCTGATTACAACATCCAAAAGGATT
128 GATCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAAT
* * * * * *
12117452 CCACCCTCCATTTGGTGCTCCGCCTTCG-TGGAGGA
193 CCACCCTCCATTTGGTCCTTCGTCTT-GAGGGTGGT
* * * * * * * * *
12117487 ATGCAAATCTTTGTTAAGACCTTGACAGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATTTTTGTTAAGACCCTGACCGGAAAGACGATCACCTTGGAGGTTGAAAGCTCAGACAC
* * * ** *
12117552 CATTGACAATGTCAAGGCTAAGATCCAGGAT-AAGGAGGGTATTCGGCCAGACCAGCAGAGGTTG
66 CATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGG-A-TCCCCCAGACCAACAGAGGTTG
* * *
12117616 ATCTTTGCTGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACATCATCCAAAAGGAATC
129 ATCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAATC
* *
12117681 CACCCTCTATTTGGTGCTTCGTCTCCGTGGTGGTATGCAAATGTGGTGGT
194 CACCCTCCATTTGGT-C--C-T-T-C---GT-CT-TG---A-G-GGTGGT
* * * * * * * * *
12117731 ATGCAAATATTTGTTAAGACTCTTACCGGAAAGACCATTACTTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATTTTTGTTAAGACCCTGACCGGAAAGACGATCACCTTGGAGGTTGAAAGCTCAGACAC
* * *
12117796 CATTGACAATGTCAAGGCTAAGATCCAGGACAAAG-AGGGTATTCCCCCAGACCAACAGAGGTTG
66 CATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGG-A-TCCCCCAGACCAACAGAGGTTG
* * * *
12117860 ATCTTTGCCGGTAAGCAACTTGAAGATGGCCGCACTCTCGCTGATTACAACATCCAAAAGGAATC
129 ATCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAATC
* * ***
12117925 CACCCTCCACTTGGTGCTTCGTCTTTTTGGTGGT
194 CACCCTCCATTTGGTCCTTCGTCTTGAGGGTGGT
* * * * * * *
12117959 ATGCAGATTTTTGTGAAGACTCTTACCAGGAAA-ACGATCACCTTGGAAGTTGAGAGCTCTGACA
1 ATGCAAATTTTTGTTAAGACCCTGACC-GGAAAGACGATCACCTTGGAGGTTGAAAGCTCAGACA
* * * * *
12118023 CTATTGACAATGTCAAGGCCAAAATCCAGGATAAGGAAGGTATCCCTCCAGACCAACAGAGGTTG
65 CCATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCC-CCAGACCAACAGAGGTTG
* * * * * * *
12118088 AT-TTT-CACGGGTAAGCAGCTTG-AGAATGGCAGGACACTTGCAGACTACAACAT-TAAAAGGA
129 ATCTTTGC-C-GGTAAGCAACTAGAAG-ATGGCCGCACACTGGCTGACTACAACATCCAAAAGGA
* * * *
12118149 ATCGACCCTCCATTTGGTTCTTCGTCTTCG-TGGTGGG
191 ATCCACCCTCCATTTGGTCCTTCGTCTT-GAGGGTGGT
* ** * * * * *
12118186 ATGCAAATTTTTGTGAAGACATTGACAGGAAAGACGATCACTTTGGAAGTTGAAAGCTCGGACAT
1 ATGCAAATTTTTGTTAAGACCCTGACCGGAAAGACGATCACCTTGGAGGTTGAAAGCTCAGACAC
* * * * * *
12118251 TATTGATAATGTGAAGGCCAAGATCCAAGATAAGGAAGGAATCCCCCTAGACCAGCAGAGGTTGA
66 CATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCCCC-AGACCAACAGAGGTTGA
* * * ** * *
12118316 TCTTTGCAGGGAAGCAACTTGAAGATGGAAGGAC-CTTGGCAGACTACAACATCCAGAAA-GAAT
130 TCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACAC-TGGCTGACTACAACATCCA-AAAGGAAT
12118379 C
193 C
12118380 GACTCTGCAC
Statistics
Matches: 944, Mismatches: 138, Indels: 78
0.81 0.12 0.07
Matches are distributed among these distances:
226 9 0.01
227 201 0.21
228 507 0.54
229 17 0.02
230 1 0.00
231 1 0.00
232 1 0.00
233 1 0.00
234 2 0.00
235 2 0.00
237 1 0.00
238 3 0.00
239 2 0.00
240 1 0.00
241 1 0.00
244 191 0.20
245 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (227 bp):
ATGCAAATTTTTGTTAAGACCCTGACCGGAAAGACGATCACCTTGGAGGTTGAAAGCTCAGACAC
CATTGACAATGTCAAGGCCAAGATCCAAGATAAAGAAGGGATCCCCCAGACCAACAGAGGTTGAT
CTTTGCCGGTAAGCAACTAGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAATCCA
CCCTCCATTTGGTCCTTCGTCTTGAGGGTGGT
Found at i:12117726 original size:16 final size:16
Alignment explanation
Indices: 12117707--12117738 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12117697 CTTCGTCTCC
12117707 GTGGTGGTATGCAAAT
1 GTGGTGGTATGCAAAT
12117723 GTGGTGGTATGCAAAT
1 GTGGTGGTATGCAAAT
12117739 ATTTGTTAAG
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:0.25, C:0.06, G:0.38, T:0.31
Consensus pattern (16 bp):
GTGGTGGTATGCAAAT
Found at i:12117916 original size:244 final size:242
Alignment explanation
Indices: 12117487--12118194 Score: 828
Period size: 244 Copynumber: 3.0 Consensus size: 242
12117477 TCGTGGAGGA
* *
12117487 ATGCAAATCTTTGTTAAGAC-CTTGACAGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATA
1 ATGCAAATATTTGTTAAGACTCTT-ACCGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATA
** *
12117551 CCATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCGGCCAGACCAGCAGAGGTTG
65 CCATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCCCCCAGACCAACAGAGGTTG
* * * * *
12117616 ATCTTTGCTGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACATCATCCAAAAGGAATC
130 ATCTTTGCCGGTAAGCAACTTGAAGATGGCCGCACACTCGCTGACTACAACATCCAAAAGGAATC
*
12117681 CACCCTCTATTTGGTGCTTCGTCTCCGTGGTGGTATGCAAATGTGGTGGT
195 CACCCTCCATTTGGTGCTTCGTCT-CGTGGTGGTATGCAAAT-TGGTGGT
*
12117731 ATGCAAATATTTGTTAAGACTCTTACCGGAAAGACCATTACTTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATATTTGTTAAGACTCTTACCGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATAC
* *
12117796 CATTGACAATGTCAAGGCTAAGATCCAGGACAAAGAGGGTATTCCCCCAGACCAACAGAGGTTGA
66 CATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCCCCCAGACCAACAGAGGTTGA
* *
12117861 TCTTTGCCGGTAAGCAACTTGAAGATGGCCGCACTCTCGCTGATTACAACATCCAAAAGGAATCC
131 TCTTTGCCGGTAAGCAACTTGAAGATGGCCGCACACTCGCTGACTACAACATCCAAAAGGAATCC
*
12117926 ACCCTCCACTTGGTGCTTCG--TC----T--T-T-----TTGGTGGT
196 ACCCTCCATTTGGTGCTTCGTCTCGTGGTGGTATGCAAATTGGTGGT
* * * * * * * * * *
12117959 ATGCAGATTTTTGTGAAGACTCTTACCAGGAAA-ACGATCACCTTGGAAGTTGAGAGCTCTGACA
1 ATGCAAATATTTGTTAAGACTCTTACC-GGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATA
* * * *
12118023 CTATTGACAATGTCAAGGCCAAAATCCAGGATAAGGAAGGTA-TCCCTCCAGACCAACAGAGGTT
65 CCATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCCC-CCAGACCAACAGAGGTT
* * * * * *
12118087 GAT-TTT-CACGGGTAAGCAGCTTG-AGAATGGCAGGACACTTGCAGACTACAACAT-TAAAAGG
129 GATCTTTGC-C-GGTAAGCAACTTGAAG-ATGGCCGCACACTCGCTGACTACAACATCCAAAAGG
* * *
12118148 AATCGACCCTCCATTTGGTTCTTCGTCTTCGTGGTGGGATGCAAATT
191 AATCCACCCTCCATTTGGTGCTTCGTC-TCGTGGTGGTATGCAAATT
12118195 TTTGTGAAGA
Statistics
Matches: 399, Mismatches: 44, Indels: 44
0.82 0.09 0.09
Matches are distributed among these distances:
226 1 0.00
227 38 0.10
228 145 0.36
229 6 0.02
230 2 0.01
234 2 0.01
235 1 0.00
237 2 0.01
241 1 0.00
242 3 0.01
244 195 0.49
245 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (242 bp):
ATGCAAATATTTGTTAAGACTCTTACCGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATAC
CATTGACAATGTCAAGGCTAAGATCCAGGATAAGGAGGGTATTCCCCCAGACCAACAGAGGTTGA
TCTTTGCCGGTAAGCAACTTGAAGATGGCCGCACACTCGCTGACTACAACATCCAAAAGGAATCC
ACCCTCCATTTGGTGCTTCGTCTCGTGGTGGTATGCAAATTGGTGGT
Found at i:12118270 original size:227 final size:228
Alignment explanation
Indices: 12117723--12118379 Score: 787
Period size: 227 Copynumber: 2.9 Consensus size: 228
12117713 GTATGCAAAT
* * * * * * *
12117723 GTGGTGGTATGCAAATATTTGTTAAGACTCTTACCGGAAAGACCATTACTTTGGAGGTTGAGAGT
1 GTGGTGGTATGCAAATTTTTGTGAAGACTCTTACAGGAAAGACGATCACTTTGGAAGTTGAGAGC
* * * * * *
12117788 TCAGATACCATTGACAATGTCAAGGCTAAGATCCAGGACAAAGAGGGTATTCCCCCAGACCAACA
66 TCAGACACTATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAAGGTA-TCCCCCAGACCAACA
* * * * *
12117853 GAGGTTGATCTTTGC-C-GGTAAGCAACTTGAAGATGGCCGCACTCTCGCTGATTACAACATCCA
130 GAGGTTGATCTTTGCACGGGTAAGCAACTTGAAGATGGCAGGAC-CTTGCAGACTACAACATCCA
*
12117916 AAAGGAATCCACCCTCCACTTGGTGCTTCGTCTTT
194 AAAGGAATCCACCCTCCACTTGGTGCTTCGTCTTC
* * *
12117951 TTGGTGGTATGCAGATTTTTGTGAAGACTCTTACCAGGAAA-ACGATCACCTTGGAAGTTGAGAG
1 GTGGTGGTATGCAAATTTTTGTGAAGACTCTTA-CAGGAAAGACGATCACTTTGGAAGTTGAGAG
* *
12118015 CTCTGACACTATTGACAATGTCAAGGCCAAAATCCAGGATAAGGAAGGTATCCCTCCAGACCAAC
65 CTCAGACACTATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAAGGTATCCC-CCAGACCAAC
*
12118080 AGAGGTTGAT-TTT-CACGGGTAAGCAGCTTG-AGAATGGCAGGACACTTGCAGACTACAACAT-
129 AGAGGTTGATCTTTGCACGGGTAAGCAACTTGAAG-ATGGCAGGAC-CTTGCAGACTACAACATC
* * * *
12118141 TAAAAGGAATCGACCCTCCATTTGGTTCTTCGTCTTC
192 CAAAAGGAATCCACCCTCCACTTGGTGCTTCGTCTTC
* * *
12118178 GTGGTGGGATGCAAATTTTTGTGAAGACAT-TGACAGGAAAGACGATCACTTTGGAAGTTGAAAG
1 GTGGTGGTATGCAAATTTTTGTGAAGAC-TCTTACAGGAAAGACGATCACTTTGGAAGTTGAGAG
* * * * * * *
12118242 CTCGGACATTATTGATAATGTGAAGGCCAAGATCCAAGATAAGGAAGGAATCCCCCTAGACCAGC
65 CTCAGACACTATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAAGGTATCCCCC-AGACCAAC
*
12118307 AGAGGTTGATCTTTGCA-GGG-AAGCAACTTGAAGATGGAAGGACCTTGGCAGACTACAACATCC
129 AGAGGTTGATCTTTGCACGGGTAAGCAACTTGAAGATGGCAGGACCTT-GCAGACTACAACATCC
12118370 AGAAA-GAATC
193 A-AAAGGAATC
12118380 GACTCTGCAC
Statistics
Matches: 368, Mismatches: 47, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
226 13 0.04
227 186 0.51
228 158 0.43
229 11 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (228 bp):
GTGGTGGTATGCAAATTTTTGTGAAGACTCTTACAGGAAAGACGATCACTTTGGAAGTTGAGAGC
TCAGACACTATTGACAATGTCAAGGCCAAGATCCAGGATAAGGAAGGTATCCCCCAGACCAACAG
AGGTTGATCTTTGCACGGGTAAGCAACTTGAAGATGGCAGGACCTTGCAGACTACAACATCCAAA
AGGAATCCACCCTCCACTTGGTGCTTCGTCTTC
Found at i:12119465 original size:17 final size:18
Alignment explanation
Indices: 12119426--12119468 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
12119416 GCTCCTATTG
12119426 TCTTTTTTCTTTCCTCTCC
1 TCTTTTTTCTTTCCTCT-C
* *
12119445 TCTTTTTTTTTTGCTCT-
1 TCTTTTTTCTTTCCTCTC
12119462 TCTTTTT
1 TCTTTTT
12119469 CTCCCCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (18 bp):
TCTTTTTTCTTTCCTCTC
Found at i:12122518 original size:26 final size:26
Alignment explanation
Indices: 12122489--12122593 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
12122479 TGGTACAAAT
12122489 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12122515 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12122541 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12122567 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12122593 T
1 T
12122594 AATGGGCATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12124221 original size:27 final size:28
Alignment explanation
Indices: 12124189--12124318 Score: 171
Period size: 27 Copynumber: 4.8 Consensus size: 28
12124179 AGGAAGCGTC
*
12124189 CTGGTGGCTATGCCACAAT-TATCTGAT
1 CTGGTGGCTCTGCCACAATATATCTGAT
12124216 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAATATATCTGAT
* *
12124242 CCTAGTGGCTATGCCACAAT-TATCTGAT
1 -CTGGTGGCTCTGCCACAATATATCTGAT
* *
12124270 CTGGTGGCTCTACCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAATATATCTGAT
12124297 CTGGTGGCTCTGCCACAATATA
1 CTGGTGGCTCTGCCACAATATA
12124319 AGTATCTGGT
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
26 5 0.06
27 76 0.85
28 8 0.09
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATATATCTGAT
Found at i:12124329 original size:54 final size:54
Alignment explanation
Indices: 12124186--12124315 Score: 224
Period size: 54 Copynumber: 2.4 Consensus size: 54
12124176 TAGAGGAAGC
*
12124186 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
*
12124240 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
* *
12124294 GTTCTGGTGGCTCTGCCACAAT
1 GTCCTGGTGGCTATGCCACAAT
12124316 ATAAGTATCT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCT
Found at i:12124341 original size:81 final size:80
Alignment explanation
Indices: 12124189--12124347 Score: 180
Period size: 81 Copynumber: 2.0 Consensus size: 80
12124179 AGGAAGCGTC
* ** *
12124189 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGGCTAT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATAAGTCCTAGTGACTAT
12124254 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
12124270 CTGGTGGCTCTACCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATAAGTATCTGGTGACT
1 CTGGTGGCTATACCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATAAGT-CCTAGTGACT
*
12124333 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
12124348 GCAGCCTCGC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
80 15 0.23
81 51 0.77
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATAAGTCCTAGTGACTAT
GCCACAATATCTGAT
Found at i:12130557 original size:26 final size:26
Alignment explanation
Indices: 12130528--12130635 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
12130518 TGGTACAAAT
*
12130528 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
12130554 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12130580 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12130606 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12130632 TGAT
1 TGAT
12130636 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12132270 original size:27 final size:26
Alignment explanation
Indices: 12132230--12132370 Score: 151
Period size: 27 Copynumber: 5.2 Consensus size: 26
12132220 AGGAAGTGTC
*
12132230 CTGGTGGCTATGCCATAATTATCTGAT
1 CTGGTGGCTCTGCCA-AATTATCTGAT
*
12132257 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCAAAT-TATCTGAT
*
12132283 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCA-AATTATCTGAT
* * *
12132311 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCAAAT-TATCTGAT
12132338 CTGGTGGCTCTGCCATAA-TATCTGTAT
1 CTGGTGGCTCTGCCA-AATTATCTG-AT
12132365 CTGGTG
1 CTGGTG
12132371 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 11 0.11
27 81 0.84
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCAAATTATCTGAT
Found at i:12132308 original size:54 final size:54
Alignment explanation
Indices: 12132226--12132370 Score: 238
Period size: 54 Copynumber: 2.7 Consensus size: 54
12132216 ATAGAGGAAG
*
12132226 TGTCCTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTACCACATATATC
*
12132280 TGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATC
1 TGTCCTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTACCACATATATC
* *
12132334 TGTTCTGGTGGCTCTGCCATAA-TATCTGTATCTGGTG
1 TGTCCTGGTGGCTATGCCATAATTATCTG-ATCTGGTG
12132371 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
TGTCCTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTACCACATATATC
Found at i:12137537 original size:16 final size:17
Alignment explanation
Indices: 12137499--12137539 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
12137489 TTGAAAAATC
12137499 GAGATAAAAATAATAATA
1 GAGAT-AAAATAATAATA
12137517 -A-ATAAAATAAT-ATA
1 GAGATAAAATAATAATA
12137531 GAGATAAAA
1 GAGATAAAA
12137540 AATGGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.14
15 9 0.43
16 8 0.38
17 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (17 bp):
GAGATAAAATAATAATA
Found at i:12137662 original size:3 final size:3
Alignment explanation
Indices: 12137648--12138108 Score: 113
Period size: 3 Copynumber: 153.3 Consensus size: 3
12137638 AATAGGACGG
* * * *
12137648 ATA ATA AAA ATA ATA GTA ATG ATA ATA ATA A-A TATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * * * *
12137693 ATA TTA A-A A-A ATTA AT- ATA ATG ATG ATA ATA GTG TTA A-A A-A
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * **
12137734 ATA ATA ATA ATA A-A CA-A ACGA CATA TTA ATG ATA ATA GATA ATA ACG
1 ATA ATA ATA ATA ATA -ATA A-TA -ATA ATA ATA ATA ATA -ATA ATA ATA
*
12137781 ATA ATA ATA ATGGA AGTA ATGA A-A ATA ATA ATA ATA GA-A ACA ATA
1 ATA ATA ATA AT--A A-TA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
12137826 GTA ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ACA ATG ATA CATTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA
* * * * *
12137873 ATA ATA ATA AT- ATA CGTG CTA ATA ATA ATA ACA AT- ATA A-A AAA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
12137916 ATA ATA CT- ATA TTA ATA AAA ATA ATA ATA GTA GGTTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA
* * * * *
12137962 GTA ATA AAA AGGTA A-A A-A ATA ATA ATG A-A ATA ATA AAA ATA CTA
1 ATA ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** * *
12138006 TTA CATTA CTA CTA ATA ATA ATA ATA ATA A-A AGC A-A ACA GTA ATA
1 ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
12138051 GT- ATA TAGA ATA ATA GTA A-A AGTA ATA ATA ATA ATA ATT ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* *
12138096 ATA TTA AAA ATA A
1 ATA ATA ATA ATA A
12138109 CACTCTCCCC
Statistics
Matches: 333, Mismatches: 82, Indels: 86
0.66 0.16 0.17
Matches are distributed among these distances:
2 38 0.11
3 259 0.78
4 24 0.07
5 11 0.03
6 1 0.00
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:12137713 original size:28 final size:29
Alignment explanation
Indices: 12137678--12137745 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
12137668 GATAATAATA
12137678 AATATAATA-G-TAATAATATTAAAAAATT
1 AATATAATATGATAATAATATTAAAAAA-T
* *
12137706 AATATAATGATGATAATAGTGTTAAAAAAT
1 AATATAAT-ATGATAATAATATTAAAAAAT
12137736 AATAATAATA
1 AAT-ATAATA
12137746 AACAAACGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 8 0.24
29 1 0.03
30 6 0.18
31 19 0.56
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (29 bp):
AATATAATATGATAATAATATTAAAAAAT
Found at i:12137941 original size:23 final size:23
Alignment explanation
Indices: 12137908--12137967 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
12137898 TAATAACAAT
*
12137908 ATAAAAA-AATAATACTATATTA
1 ATAAAAATAATAATACTAGATTA
* *
12137930 ATAAAAATAATAATAGTAGGTTA
1 ATAAAAATAATAATACTAGATTA
* *
12137953 ATAATAATAGTAATA
1 ATAAAAATAATAATA
12137968 AAAAGGTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (23 bp):
ATAAAAATAATAATACTAGATTA
Found at i:12138400 original size:24 final size:26
Alignment explanation
Indices: 12138373--12138425 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
12138363 ATCTCGTGTA
*
12138373 TTTCTTGTATT-GAAAGTCTCT-CTT
1 TTTCTTGTATTCGAAACTCTCTCCTT
*
12138397 TTTCTTGTATTCGAATCTCTCTCCTT
1 TTTCTTGTATTCGAAACTCTCTCCTT
12138423 TTT
1 TTT
12138426 TCTCCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.44
25 8 0.32
26 6 0.24
ACGTcount: A:0.13, C:0.21, G:0.09, T:0.57
Consensus pattern (26 bp):
TTTCTTGTATTCGAAACTCTCTCCTT
Found at i:12138424 original size:25 final size:24
Alignment explanation
Indices: 12138373--12138424 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
12138363 ATCTCGTGTA
* *
12138373 TTTCTTGTATTGAAAGTCTCTCTT
1 TTTCTTGTATTGAAACTCTCTCCT
*
12138397 TTTCTTGTATTCGAATCTCTCTCCT
1 TTTCTTGTATT-GAAACTCTCTCCT
12138422 TTT
1 TTT
12138425 TTCTCCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.13, C:0.21, G:0.10, T:0.56
Consensus pattern (24 bp):
TTTCTTGTATTGAAACTCTCTCCT
Found at i:12138560 original size:24 final size:24
Alignment explanation
Indices: 12138525--12138574 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
12138515 TCTTTTTGCA
12138525 GGCAAGTAGGGTGATGGAGTTAGT
1 GGCAAGTAGGGTGATGGAGTTAGT
*
12138549 GGCAAGTGGGGTGATGGAGTTAGT
1 GGCAAGTAGGGTGATGGAGTTAGT
12138573 GG
1 GG
12138575 TTGGTTTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.50, T:0.24
Consensus pattern (24 bp):
GGCAAGTAGGGTGATGGAGTTAGT
Found at i:12139127 original size:177 final size:176
Alignment explanation
Indices: 12138861--12139208 Score: 507
Period size: 177 Copynumber: 2.0 Consensus size: 176
12138851 GAGAAGAGAT
* * *
12138861 TTGTAGCTTGAAGCTGCCCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATTTACTCCA
1 TTGTAGCTTGAACCTGCCCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACGCCA
* * * *
12138926 TTGTCGCTACATGGAGATAAGATTCGCCCTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAG
66 TTGCCACTACATGAAGATAAGATTCGCCCTCTTCGATCTGCTCCACTACTACTTAGAGAGATAAG
* *
12138991 ATCTACAATTTTTAGTCTGCTCCATTGCAACTTCAAGGAGATAAGAC
131 ATCTACAATTTTCAGTCTGCTCCACTGCAAC-TCAAGGAGATAAGAC
* * * * *
12139038 TTGTATCTTGAACCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCGCCA
1 TTGTAGCTTGAACCTGCCCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACGCCA
* **
12139103 TTGCCACTACATGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGGTTAGAGAGATAAG
66 TTGCCACTACATGAAGATAAGATTCGCCCTCTTCGATCTGCTCCACTACTACTTAGAGAGATAAG
* * *
12139168 ATCTGCAATTTTCAGTCTGCTTCACTGCAACTCAGGGAGAT
131 ATCTACAATTTTCAGTCTGCTCCACTGCAACTCAAGGAGAT
12139209 GAGGCTAGTA
Statistics
Matches: 151, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
176 9 0.06
177 142 0.94
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (176 bp):
TTGTAGCTTGAACCTGCCCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACGCCA
TTGCCACTACATGAAGATAAGATTCGCCCTCTTCGATCTGCTCCACTACTACTTAGAGAGATAAG
ATCTACAATTTTCAGTCTGCTCCACTGCAACTCAAGGAGATAAGAC
Found at i:12139226 original size:132 final size:131
Alignment explanation
Indices: 12139058--12139299 Score: 301
Period size: 132 Copynumber: 1.8 Consensus size: 131
12139048 AACCTGCTCT
* * * *
12139058 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTGCGCCATTGCC-ACTACAT-GAAGAT
1 ACTGCAACTTCAGGGAGATAAGGCTAGTAGCCTAAATCT--G-C-TTCCCTACTACATGGAAGAT
* * *
12139121 AAGATTCGCCGTCTTCGATCTGCTCCACTACTGGTTAGAGAGATAAGATCTGCAATTTTCAGTCT
62 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATTTTCAGTCT
12139186 GCTTC
127 GCTTC
* *
12139191 ACTGCAAC-TCAGGGAGATGAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTCGGGAAGATAA
1 ACTGCAACTTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACAT--GGAAGATAA
* * *
12139255 GATTCACCATCTTCGATCTGTTCTACTACTGCTTAGGGAGATAAG
64 GATTCACCATCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAG
12139300 GCTCGTGGTT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
128 4 0.04
129 7 0.08
130 1 0.01
132 73 0.78
133 8 0.09
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (131 bp):
ACTGCAACTTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACATGGAAGATAAGA
TTCACCATCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATTTTCAGTCTGCTT
C
Found at i:12139253 original size:88 final size:87
Alignment explanation
Indices: 12139195--12139371 Score: 219
Period size: 88 Copynumber: 2.0 Consensus size: 87
12139185 TGCTTCACTG
*
12139195 CAACTCAGGGAGATGAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTC
1 CAACTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTC
12139260 ACCATCTTCGATCTGTTCTACTA
66 A-CATCTTCGATCTGTTCTACTA
** * * * ** * *
12139283 CTGCTTAGGGAGATAAGGCTCGTGGTTTAAATCTGCTTCCCTAGTACCTCGGGAAGATAATATTC
1 CAACTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTC
* * *
12139348 GCGATCTTCGATCTGCTCCACTA
66 AC-ATCTTCGATCTGTTCTACTA
12139371 C
1 C
12139372 TGCTTAGAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
87 1 0.01
88 74 0.99
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (87 bp):
CAACTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTC
ACATCTTCGATCTGTTCTACTA
Found at i:12139341 original size:220 final size:220
Alignment explanation
Indices: 12139115--12139519 Score: 580
Period size: 220 Copynumber: 1.8 Consensus size: 220
12139105 GCCACTACAT
* *
12139115 GAAGATAAGATTCGCCG-TCTTCGATCTGCTCCACTACTGGTTAGAGAGATAAGATCTGCAATT-
1 GAAGATAAGATTCG-CGATCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAAATCTGCAATTA
* * * * *
12139178 TTCAGTCTGCTTCACTGCAACTCAGGGAGATGAGGCTAGTAGCCTAAATCTGCTTCCCTACTACC
65 TT-AGCCCGCTCCACTACAACTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACC
* * *
12139243 TCGGGAAGATAAGATTCACCATCTTCGATCTGTTCTACTACTGCTTAGGGAGATAAGGCTCGTGG
129 TCAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTCGTGG
12139308 TTTAAATCTGCTTCCCTAGTACCTCGG
194 TTTAAATCTGCTTCCCTAGTACCTCGG
*
12139335 GAAGATAATATTCGCGATCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAAATCTGCAATTAT
1 GAAGATAAGATTCGCGATCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAAATCTGCAATTAT
* ** * * * *
12139400 TAGCCCGCTCCGCTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTT
66 TAGCCCGCTCCACTACAACTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTC
*** *
12139465 AGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
131 AGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
12139520 ATCTGCAATC
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
219 2 0.01
220 157 0.98
221 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (220 bp):
GAAGATAAGATTCGCGATCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAAATCTGCAATTAT
TAGCCCGCTCCACTACAACTCAGGGAGATAAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTC
AGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGCTCGTGGTT
TAAATCTGCTTCCCTAGTACCTCGG
Found at i:12139363 original size:45 final size:45
Alignment explanation
Indices: 12139225--12139372 Score: 124
Period size: 44 Copynumber: 3.3 Consensus size: 45
12139215 AGTAGCCTAA
* *
12139225 ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTTCG
1 ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCGATCTTCG
* * * * ** * * **
12139270 ATCTG-TTCTACTACTGCTTAGGG-AGATAAGGCTCGTGGT-TTAA
1 ATCTGCTTC-CCTACTACCTCGGGAAGATAAGATTCGCGATCTTCG
* *
12139313 ATCTGCTTCCCTAGTACCTCGGGAAGATAATATTCGCGATCTTCG
1 ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCGATCTTCG
12139358 ATCTGC-TCCACTACT
1 ATCTGCTTCC-CTACT
12139373 GCTTAGAGAG
Statistics
Matches: 73, Mismatches: 25, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
43 16 0.22
44 30 0.41
45 27 0.37
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (45 bp):
ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCGATCTTCG
Found at i:12139372 original size:88 final size:88
Alignment explanation
Indices: 12139222--12139386 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 88
12139212 GCTAGTAGCC
* *
12139222 TAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTTCGATCTGTTCTACTACTGC
1 TAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
*
12139287 TTAGGGAGATAAGGCTCGTGGTT
66 TTAGAGAGATAAGGCTCGTGGTT
* * * *
12139310 TAAATCTGCTTCCCTAGTACCTCGGGAAGATAATATTCGCGATCTTCGATCTGCTCCACTACTGC
1 TAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
12139375 TTAGAGAGATAA
66 TTAGAGAGATAA
12139387 AATCTGCAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (88 bp):
TAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGC
TTAGAGAGATAAGGCTCGTGGTT
Found at i:12139385 original size:44 final size:44
Alignment explanation
Indices: 12139249--12139563 Score: 121
Period size: 44 Copynumber: 7.2 Consensus size: 44
12139239 TACCTCGGGA
* * * * *
12139249 AGATAAGATTCACCATCTTCGATCTGTTCTACTACTGCTTAGGG
1 AGATAAGATTCGCGATCTTCGATCTGCTCCACTACTGCTTAGAG
** * * ** * * * * *
12139293 AGATAAGGCTCGTGGT-TTAAATCTGCTTCC-CTAGTACCTCGGG
1 AGATAAGATTCGCGATCTTCGATCTGC-TCCACTACTGCTTAGAG
*
12139336 AAGATAATATTCGCGATCTTCGATCTGCTCCACTACTGCTTAGAG
1 -AGATAAGATTCGCGATCTTCGATCTGCTCCACTACTGCTTAGAG
* * * * * * * *
12139381 AGATAA-AATCTGCAATTATTAG-CCCGCTCCGCTACTGCTTAGGG
1 AGATAAGATTC-GCGA-TCTTCGATCTGCTCCACTACTGCTTAGAG
** * * * ** *
12139425 AGATAAGGCTAGTG-GCTTAAATCTGCTTCC-CTACTACCTTAG-G
1 AGATAAGATTCGCGATCTTCGATCTGC-TCCACTACT-GCTTAGAG
* *
12139468 AAGATAAGATTTGTCG-TCTTCGATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTCG-CGATCTTCGATCTGCTCCACTACTGCTTAGAG
* *
12139513 AGATAAGA-TCTGCAATCTTC-AGCCTGCTCCACTACTGCTTA-AGG
1 AGATAAGATTC-GCGATCTTCGA-TCTGCTCCACTACTGCTTAGA-G
12139557 AGATAAG
1 AGATAAG
12139564 GCTAGTGGCC
Statistics
Matches: 196, Mismatches: 57, Indels: 36
0.68 0.20 0.12
Matches are distributed among these distances:
42 3 0.02
43 31 0.16
44 125 0.64
45 37 0.19
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
AGATAAGATTCGCGATCTTCGATCTGCTCCACTACTGCTTAGAG
Found at i:12139385 original size:132 final size:131
Alignment explanation
Indices: 12139279--12139916 Score: 904
Period size: 132 Copynumber: 4.8 Consensus size: 131
12139269 GATCTGTTCT
* * * *
12139279 ACTACTGCTTAGGGAGATAAGGCTCGTGGTTTAAATCTGCTTCCCTAGTACCTCGGGAAGATAAT
1 ACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAG
* * * *
12139344 ATTCGCGATCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAAATCTGCAAT-TATTAGCCCGC
66 ATTCGCG-TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCT-TCAGCCTGC
12139408 TCC
129 TCC
* **
12139411 GCTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGGAAGATAAG
1 ACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAG
*
12139476 ATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCT
66 ATTCG-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCT
12139541 CC
130 CC
* * * *
12139543 ACTACTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTATTACCTCGGAAAGATAAG
1 ACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAG
* *
12139608 ATCTTC-CGTCTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGCAATCTTCAGCCTGC
66 A--TTCGCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGC
12139672 TCC
129 TCC
* * * *
12139675 ACTGCTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTCGGAAAGATAAG
1 ACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAG
* * * * **
12139740 ATCCGCCGTCTTTGATCTGCTCCACTACTTCTTAAGGAG-TCAAGATCTAAAATCTTCAGCCTGC
66 ATTCG-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT-AAGATCTGCAATCTTCAGCCTGC
12139804 TCC
129 TCC
* * *
12139807 ACTACTTCTTAGAGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAG
1 ACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAG
12139872 ATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
66 ATTCGC-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
12139917 CTAATGGCTT
Statistics
Matches: 456, Mismatches: 41, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
130 2 0.00
131 2 0.00
132 446 0.98
133 4 0.01
134 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (131 bp):
ACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAG
ATTCGCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTC
C
Found at i:12139827 original size:220 final size:220
Alignment explanation
Indices: 12139640--12140133 Score: 602
Period size: 220 Copynumber: 2.2 Consensus size: 220
12139630 CACTACTGTT
* * *
12139640 TAGGG-AGATAAGA-TCTGCAATCTTC-AGCCTGCTCCACTGCTGCTTAAGGAGATAAGGCTAGT
1 TAGGGAAGATAAGATTC-GCAATCTTCGA-CCTGCTCCACTACTGCTTAAGGAGATAAGACTAAT
* *
12139702 GGCCTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATCCGCCGTCTTTGATCTGCTCCACTA
64 GGCCTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTA
*
12139767 CT-TCTTAAGGAG-TCAAGATCTAAAATCTTCAGCCTGCTCCACTACTTCTTAGAGAGATAAGAC
129 CTGT-TTAAGGAGAT-AAGATCTAAAATCTTCAGCCTGCTCCACTACTGCTTAGAGAGATAAGAC
**
12139830 TAGTGGCTTAAATCTGCTTCCCTACTACC
192 TACCGGCTTAAATCTGCTTCCCTACTACC
* ** * *
12139859 TCGGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTAATGG
1 TAGGGAAGATAAGATTCGCAATCTTCGACCTGCTCCACTACTGCTTAAGGAGATAAGACTAATGG
* * *
12139924 CTTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCGCCGTCTTCGATCTGCTCCATTACT
66 CCTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACT
** * * * * **
12139989 GTTTAAGGAGATAAGATCTGCAATCTTTAGCCTGCTCCACTACTGCTTAGGGAGAGAAGGCTAGT
131 GTTTAAGGAGATAAGATCTAAAATCTTCAGCCTGCTCCACTACTGCTTAGAGAGATAAGACTACC
*
12140054 GGCTTAAATCTACTTCCCTACTACC
196 GGCTTAAATCTGCTTCCCTACTACC
* ** * ** * * * *
12140079 TCGAAAAGATAAGATTCACCGTCTTCGATCTGCTCTACTACTACTTAGGGAGATA
1 TAGGGAAGATAAGATTCGCAATCTTCGACCTGCTCCACTACTGCTTAAGGAGATA
12140134 GGATCTACAA
Statistics
Matches: 243, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
219 4 0.02
220 234 0.96
221 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (220 bp):
TAGGGAAGATAAGATTCGCAATCTTCGACCTGCTCCACTACTGCTTAAGGAGATAAGACTAATGG
CCTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATCCGCCGTCTTCGATCTGCTCCACTACT
GTTTAAGGAGATAAGATCTAAAATCTTCAGCCTGCTCCACTACTGCTTAGAGAGATAAGACTACC
GGCTTAAATCTGCTTCCCTACTACC
Found at i:12139827 original size:352 final size:352
Alignment explanation
Indices: 12139490--12140268 Score: 1059
Period size: 352 Copynumber: 2.2 Consensus size: 352
12139480 GTCGTCTTCG
* *
12139490 ATCTGC-TCCACTACTGCTTAGGG-AGATAAGA-TCTGCAATCTTC-AGCCTGCTCCACTACTGC
1 ATCTGCTTCC-CTACTACCTAGGGAAGATAAGATTC-GCAATCTTCGA-CCTGCTCCACTACTGC
* * * * *
12139551 TTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTATTACCTCGGAAAGATAAGA-TCTTCC
63 TTAAGGAGATAAGACTAATGGCCTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTC-GCC
* * *
12139615 GTCTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGC
127 GTCTTCGATCTGCTCCACTACTGTTTAAGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTAC
* * * *
12139680 TGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATCCG
192 TGCTTAAGGAGAGAAGGCTAGTGGCCTAAATCTACTTCCCTACTACCTCGAAAAGATAAGATCCA
* * **
12139745 CCGTCTTTGATCTGCTCCACTACTTCTTAAGGAG-TCAAGATCTAAAATCT-TCAGCCTGCTCCA
257 CCGTCTTCGATCTGCTCCACTACTACTTAAGGAGAT-AAGATCTAAAAT-TATCAGCCCACTCCA
12139808 CTACTTCTTAGAGAGATAAGACTAGTGGCTTAA
320 CTACTTCTTAGAGAGATAAGACTAGTGGCTTAA
* ** *
12139841 ATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTTCCCTACTACCTAGGGAAGATAAGATTCGCAATCTTCGACCTGCTCCACTACTGCTTA
* *
12139906 GGGAGATAAGACTAATGGCTTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCGCCGTCT
66 AGGAGATAAGACTAATGGCCTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCGCCGTCT
* *
12139971 TCGATCTGCTCCATTACTGTTTAAGGAGATAAGATCTGCAATCTTTAGCCTGCTCCACTACTGCT
131 TCGATCTGCTCCACTACTGTTTAAGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTACTGCT
* * *
12140036 TAGGGAGAGAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAAAGATAAGATTCACCGT
196 TAAGGAGAGAAGGCTAGTGGCCTAAATCTACTTCCCTACTACCTCGAAAAGATAAGATCCACCGT
* * * * * *
12140101 CTTCGATCTGCTCTACTACTACTTAGGGAGATAGGATCTACAATTATTAGCCCATTCCACTACTT
261 CTTCGATCTGCTCCACTACTACTTAAGGAGATAAGATCTAAAATTATCAGCCCACTCCACTACTT
* * *
12140166 CTTAGGGAGATAAGGCTTGTGGCTTAA
326 CTTAGAGAGATAAGACTAGTGGCTTAA
* * * **
12140193 ATTTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCGATTTGCTCCACTACTGCTTA
1 ATCTGCTTCCCTACTACCTAGGGAAGATAAGATTCGCAATCTTCGACCTGCTCCACTACTGCTTA
*
12140258 GGGAGATAAGA
66 AGGAGATAAGA
12140269 TCTGCAATCT
Statistics
Matches: 379, Mismatches: 42, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
351 17 0.04
352 356 0.94
353 6 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (352 bp):
ATCTGCTTCCCTACTACCTAGGGAAGATAAGATTCGCAATCTTCGACCTGCTCCACTACTGCTTA
AGGAGATAAGACTAATGGCCTAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCGCCGTCT
TCGATCTGCTCCACTACTGTTTAAGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTACTGCT
TAAGGAGAGAAGGCTAGTGGCCTAAATCTACTTCCCTACTACCTCGAAAAGATAAGATCCACCGT
CTTCGATCTGCTCCACTACTACTTAAGGAGATAAGATCTAAAATTATCAGCCCACTCCACTACTT
CTTAGAGAGATAAGACTAGTGGCTTAA
Found at i:12139873 original size:88 final size:88
Alignment explanation
Indices: 12139788--12140004 Score: 249
Period size: 88 Copynumber: 2.5 Consensus size: 88
12139778 GTCAAGATCT
* *
12139788 AAAATCTTC-AGCCTGCTCCACTACTTCTTAGAGAGATAAGACTAGTGGCTTAAATCTGCTTCCC
1 AAAATCTTCGA-CCTGCTCCACTACTGCTTAGAGAGATAAGACTAATGGCTTAAATCTGCTTCCC
**
12139852 TACTACCTCGGGAAGATAAGATTC
65 TACTACCTCGAAAAGATAAGATTC
**** * *
12139876 GCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCT
1 AAAATCTTCGACCTGCTCCACTACTGCTTAGAGAGATAAGACTAATGGCTTAAATCTGCTTCCCT
12139941 ACTACCTCGAAAAGATAAGATTC
66 ACTACCTCGAAAAGATAAGATTC
**** * * *
12139964 GCCGTCTTCGATCTGCTCCATTACTGTTTA-AGGAGATAAGA
1 AAAATCTTCGACCTGCTCCACTACTGCTTAGA-GAGATAAGA
12140005 TCTGCAATCT
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
88 112 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (88 bp):
AAAATCTTCGACCTGCTCCACTACTGCTTAGAGAGATAAGACTAATGGCTTAAATCTGCTTCCCT
ACTACCTCGAAAAGATAAGATTC
Found at i:12139902 original size:484 final size:484
Alignment explanation
Indices: 12139406--12140400 Score: 1458
Period size: 484 Copynumber: 2.1 Consensus size: 484
12139396 TTATTAGCCC
* * * *
12139406 GCTCCGCTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTAG-GAA
1 GCTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCTACTACC-TAGAAAA
* * *
12139470 GATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAG
65 GATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATCTTCAG
* * * *
12139535 CCTGCTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTATTACCTCGGA
130 CCTGCTCCACTACTGCTTAAGGAGAGAAGGCTAGTGGCCTAAATCTACTTCCCTACTACCTCGAA
* * ** *
12139600 AAGATAAGA-TCTTCCGTCTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGCAATCT-
195 AAGATAAGATTC-ACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAAT-TA
** *
12139663 TCAGCCTGCTCCACTGCTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCT
258 TCAGCCCACTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCT
* * *
12139728 CGGAAAGATAAGATCCGCCGTCTTTGATCTGCTCCACTACTTCTTAAGGAG-TCAAGATCTAAAA
323 CGGAAAGATAAGATCCGCCATCTTCGATCTGCTCCACTACTGCTTAAGGAGAT-AAGATCTAAAA
* * *
12139792 TCTTCAGCCTGCTCCACTACTTCTTAGAGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTA
387 TCTTCAACCTGCTCCACTACTGCTTAGAGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTA
* *
12139857 CCTCGGGAAGATAAGATTCGCTGTCTTCGATCT
452 CCTCGGAAAGATAAGATTCGCCGTCTTCGATCT
*
12139890 GCTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCTACTACCTCGAAAAG
1 GCTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCTACTACCTAGAAAAG
* * *
12139955 ATAAGATTCGCCGTCTTCGATCTGCTCCATTACTGTTTAAGGAGATAAGATCTGCAATCTTTAGC
66 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATCTTCAGC
* *
12140020 CTGCTCCACTACTGCTTAGGGAGAGAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAA
131 CTGCTCCACTACTGCTTAAGGAGAGAAGGCTAGTGGCCTAAATCTACTTCCCTACTACCTCGAAA
* * *
12140085 AGATAAGATTCACCGTCTTCGATCTGCTCTACTACTACTTAGGGAGATAGGATCTACAATTATTA
196 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTATCA
* * * * * *
12140150 GCCCATTCCACTACTTCTTAGGGAGATAAGGCTTGTGGCTTAAATTTGCTTCCCTACTACCTCGG
261 GCCCACTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTCGG
* * * * **
12140215 GAAGATAAGATTCGCCATCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT
326 AAAGATAAGATCCGCCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTAAAATCTT
* * *
12140280 CAACCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCTCTACTACCTC
391 CAACCTGCTCCACTACTGCTTAGAGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTC
12140345 GGAAAGATAAGATTCGCCGTCTTCGATCT
456 GGAAAGATAAGATTCGCCGTCTTCGATCT
*
12140374 GCTCCACTACTACTTAGGGAGATAAGA
1 GCTCCACTACTGCTTAGGGAGATAAGA
12140401 TTTATAATTA
Statistics
Matches: 455, Mismatches: 52, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
483 3 0.01
484 449 0.99
485 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (484 bp):
GCTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCTACTACCTAGAAAAG
ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATCTTCAGC
CTGCTCCACTACTGCTTAAGGAGAGAAGGCTAGTGGCCTAAATCTACTTCCCTACTACCTCGAAA
AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTATCA
GCCCACTCCACTACTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACCTCGG
AAAGATAAGATCCGCCATCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTAAAATCTT
CAACCTGCTCCACTACTGCTTAGAGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTC
GGAAAGATAAGATTCGCCGTCTTCGATCT
Found at i:12139957 original size:132 final size:131
Alignment explanation
Indices: 12139888--12141589 Score: 2199
Period size: 132 Copynumber: 12.9 Consensus size: 131
12139878 TGTCTTCGAT
* *
12139888 CTGCTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCTACTACCTCGAAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* * ** *
12139953 AGATAAGATTCGCCGTCTTCGATCTGCTCCATTACTGTTTAAGGAGATAAGATCTGCAATCTTTA
66 AGATAAGATTAG-CGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATC-TTA
12140018 G-C
129 GAC
* *
12140020 CTGCTCCACTACTGCTTAGGGAGAGAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* * * * *
12140085 AGATAAGATTCACCGTCTTCGATCTGCTCTACTACTACTTAGGGAGATAGGATCTACAATTATTA
66 AGATAAGATT-AGCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAA-TCTTA
*
12140150 GCC
129 GAC
* * * **
12140153 CAT--TCCACTACTTCTTAGGGAGATAAGGCTTGTGGCTTAAATTTGCTTCCCTACTACCTCGGG
1 C-TGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAA
* * * *
12140216 AAGATAAGATTCGCCATCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTC
65 AAGATAAGATTAG-CGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTT-
12140281 A-AC
128 AGAC
* * *
12140284 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCTCTACTACCTCGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* * ** *
12140349 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATTTATAATTATTA
66 AGATAAGATTAG-CGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAA-TCTTA
12140414 G-C
129 GAC
* * * *
12140416 CCGCTCTATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* *
12140481 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAGGATCTGCAATCATTA
66 AGATAAGATT-AGCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATC-TTA
12140546 G-C
129 GAC
* * * *
12140548 CCGCTCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* * * * * *
12140613 AGATAAGATTTGCCGTCTTTGATTTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATTATTA
66 AGATAAGATTAG-CGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAA-TCTTA
12140678 G-C
129 GAC
* * *
12140680 CCGCTCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* *
12140745 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAGGATCTGCAATCATTA
66 AGATAAGATTAG-CGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATC-TTA
12140810 G-C
129 GAC
* * * *
12140812 CCGCTCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* * * *
12140877 AGATAAGATTCGCCGTCTTCGATTTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATCTTCA
66 AGATAAGATTAG-CGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTT-A
12140942 G-C
129 GAC
*
12140944 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* * * *
12141009 AGATAAGATTCGCCGTCTTCGATATGCTCCACTACTACTTAGAGAGATAGGATCTGCAATCATTA
66 AGATAAGATTAG-CGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATC-TTA
12141074 G-C
129 GAC
* * * **
12141076 CCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATTTGCTTCTCTACTACCTCGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* * * *
12141141 AGATAAGATTCACCGTCTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
66 AGATAAGATT-AGCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTT-A
12141206 G-C
129 GAC
*
12141208 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* * *
12141273 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAGTCATTA
66 AGATAAGATT-AGCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATC-TTA
12141338 G-C
129 GAC
* * *
12141340 CTGCTCCATTACTGCTTAGGGAGATAAGGGTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
* * * * *
12141405 AGATAAGATTCGCCGTCTTTGATTTGCCCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
66 AGATAAGATTAG-CGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTT-A
*
12141470 -AT
129 GAC
* * * *
12141472 CTACTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTTCTTACTACCTCTG-G
1 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC-GAA
* * * *
12141536 AAGATAAGATTCGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGAT
65 AAGATAAGATTAG-CGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGAT
12141590 TTGTAATTTT
Statistics
Matches: 1408, Mismatches: 138, Indels: 48
0.88 0.09 0.03
Matches are distributed among these distances:
130 1 0.00
131 13 0.01
132 1381 0.98
133 12 0.01
134 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGAAA
AGATAAGATTAGCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTAGA
C
Found at i:12140091 original size:264 final size:264
Alignment explanation
Indices: 12139865--12141589 Score: 2450
Period size: 264 Copynumber: 6.5 Consensus size: 264
12139855 TACCTCGGGA
* * * *
12139865 AGATAAGAT-TCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAA
1 AGATAAGATCT-GCTATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAA
* * **
12139929 ATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCGCCGTCTTCGATCTGCTCCATTACTGTTTA
65 ATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTA
* * * *
12139994 AGGAGATAAGATCTGCAATCTTTAGCCTGCTCCACTACTGCTTAGGGAGAGAAGGCTAGTGGCTT
130 GGGAGATAAGATCTGCAATCATTAGCCCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTT
* * * *
12140059 AAATCTACTTCCCTACTACCTCGAAAAGATAAGATTCA-CCGTCTTCGATCTGCTCTACTACTAC
195 AAATCTACTTCCCTACTACCTCGAGAAGATAAGATT-AGCCGTCTTCGATTTGCTCCACTACTGC
12140123 TTAGGG
259 TTAGGG
* * * * * * * *
12140129 AGATAGGATCTACAATTATTAGCCCAT--TCCACTACTTCTTAGGGAGATAAGGCTTGTGGCTTA
1 AGATAAGATCTGCTA-TCTTCGACC-TGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTA
* * * * *
12140192 AATTTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCGATTTGCTCCACTACTGCTT
64 AATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTT
* *
12140257 AGGGAGATAAGATCTGCAATC-TTCAACCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGC
129 AGGGAGATAAGATCTGCAATCATT-AGCCCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGC
* * *
12140321 TTAAATCTACTTCTCTACTACCTCG-GAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACT
193 TTAAATCTACTTCCCTACTACCTCGAG-AAGATAAGATTAGCCGTCTTCGATTTGCTCCACTACT
*
12140385 ACTTAGGG
257 GCTTAGGG
** * * * * *
12140393 AGATAAGAT-TTATAATTATTAG-CCCGCTCTATTACTGCTTAGGGAGATAAGGCTAGTGGCTTA
1 AGATAAGATCTGCT-A-TCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTA
*
12140456 AATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTT
64 AATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTT
* *
12140521 AGGGAGATAGGATCTGCAATCATTAGCCCGCTCCATTACTGCTTAGGGAGATAAGGCTAGTGGCT
129 AGGGAGATAAGATCTGCAATCATTAGCCCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCT
* *
12140586 TAAATCTACTTCCCTACTACCTCGAGAAGATAAGATTTGCCGTCTTTGATTTGCTCCACTACTGC
194 TAAATCTACTTCCCTACTACCTCGAGAAGATAAGATTAGCCGTCTTCGATTTGCTCCACTACTGC
*
12140651 TTAGAG
259 TTAGGG
* * * * *
12140657 AGATAAGATCTGCAATTATTAG-CCCGCTCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAA
1 AGATAAGATCTGCTA-TCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAA
12140721 ATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTA
65 ATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTA
* *
12140786 GGGAGATAGGATCTGCAATCATTAGCCCGCTCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTT
130 GGGAGATAAGATCTGCAATCATTAGCCCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTT
*
12140851 AAATCTACTTCCCTACTACCTCGAGAAGATAAGATTCGCCGTCTTCGATTTGCTCCACTACTGCT
195 AAATCTACTTCCCTACTACCTCGAGAAGATAAGATTAGCCGTCTTCGATTTGCTCCACTACTGCT
*
12140916 TAGAG
260 TAGGG
*
12140921 AGATAAGATCTGCAATCTTC-AGCCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAA
1 AGATAAGATCTGCTATCTTCGA-CCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAA
*
12140985 ATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATATGCTCCACTACTACTTA
65 ATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTA
* *
12141050 GAGAGATAGGATCTGCAATCATTAGCCCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTT
130 GGGAGATAAGATCTGCAATCATTAGCCCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTT
* * * * *
12141115 AAATTTGCTTCTCTACTACCTCGGGAAGATAAGATTCA-CCGTCTTCGATTTGCTCTACTACTGC
195 AAATCTACTTCCCTACTACCTCGAGAAGATAAGATT-AGCCGTCTTCGATTTGCTCCACTACTGC
12141179 TTAGGG
259 TTAGGG
*
12141185 AGATAAGATCTGCAATCTTC-AGCCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAA
1 AGATAAGATCTGCTATCTTCGA-CCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAA
* * * *
12141249 ATCTACTTCCCTACTACCTCGAAAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTACTTA
65 ATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTA
* * * *
12141314 GGGAGATAAGATCTGCAGTCATTAGCCTGCTCCATTACTGCTTAGGGAGATAAGGGTAGTGGCTT
130 GGGAGATAAGATCTGCAATCATTAGCCCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTT
* * * *
12141379 AAATCTGCTTCCCTACTACCTCGAGAAGATAAGATTCGCCGTCTTTGATTTGCCCCACTACTGCT
195 AAATCTACTTCCCTACTACCTCGAGAAGATAAGATTAGCCGTCTTCGATTTGCTCCACTACTGCT
12141444 TAGGG
260 TAGGG
* * * *
12141449 AGATAAGATCTGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAA
1 AGATAAGATCTGCTATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAA
* * * * *
12141514 TCTGCTTTCTTACTACCTCTGG-AAGATAAGATTCGCCATCTTCGATCTGCTCCACTATTGCTTA
66 TCTGCTTCCCTACTACCTC-GGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTA
12141578 GGGAGATAAGAT
130 GGGAGATAAGAT
12141590 TTGTAATTTT
Statistics
Matches: 1342, Mismatches: 101, Indels: 36
0.91 0.07 0.02
Matches are distributed among these distances:
263 8 0.01
264 1321 0.98
265 12 0.01
266 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (264 bp):
AGATAAGATCTGCTATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAA
TCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAG
GGAGATAAGATCTGCAATCATTAGCCCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTA
AATCTACTTCCCTACTACCTCGAGAAGATAAGATTAGCCGTCTTCGATTTGCTCCACTACTGCTT
AGGG
Found at i:12140091 original size:396 final size:395
Alignment explanation
Indices: 12139890--12141589 Score: 2535
Period size: 396 Copynumber: 4.3 Consensus size: 395
12139880 TCTTCGATCT
* * *
12139890 GCTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATCTGCTTCCCTACTACCTCGAAAAG
1 GCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAG
* ** *
12139955 ATAAGATTCGCCGTCTTCGATCTGCTCCATTACTGTTTAAGGAGATAAGATCTGCAATCTTTAGC
66 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTTAGC
* *
12140020 CTGCTCCACTACTGCTTAGGGAGAGAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAA
131 CCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAA
* * * *
12140085 AGATAAGATTCACCGTCTTCGATCTGCTCTACTACTACTTAGGGAGATAGGATCTACAAT-TATT
196 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACCTAGGGAGATAAGATCTGCAATCT-TT
*** * * *
12140149 AGCCCATTCCACTACTTCTTAGGGAGATAAGGCTTGTGGCTTAAATTTGCTTCCCTACTACCTCG
260 AGCCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCG
* * * *
12140214 GGAAGATAAGATTCGCCATCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCT
325 AGAAGATAAGATTCGCCGTCTTCGATTTGCTCCACTACTACTTAGAGAGATAAGATCTGCAATCT
* *
12140279 TCAACCT
390 T-AGCCC
* *
12140286 GCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCTCTACTACCTCGGAAAG
1 GCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAG
* **
12140351 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATTTATAAT-TATTAG
66 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCT-TTAG
* * * *
12140415 CCCGCTCTATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGA
130 CCCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAA
* * *
12140480 AAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAGGATCTGCAATCATT
195 AAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACCTAGGGAGATAAGATCTGCAATCTTT
* * *
12140545 AGCCCGCTCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCG
260 AGCCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCG
* * * *
12140610 AGAAGATAAGATTTGCCGTCTTTGATTTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATTA
325 AGAAGATAAGATTCGCCGTCTTCGATTTGCTCCACTACTACTTAGAGAGATAAGATCTGCAA-TC
12140675 TTAGCCC
389 TTAGCCC
*
12140682 GCTCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAG
1 GCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAG
* *
12140747 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAGGATCTGCAATCATTAGC
66 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTTAGC
* *
12140812 CCGCTCCATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAGA
131 CCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAA
* * * * * *
12140877 AGATAAGATTCGCCGTCTTCGATTTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATCTTCA
196 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACCTAGGGAGATAAGATCTGCAATCTTTA
12140942 GCCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCG-
261 GCCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGA
* *
12141006 GAAAGATAAGATTCGCCGTCTTCGATATGCTCCACTACTACTTAGAGAGATAGGATCTGCAATCA
326 G-AAGATAAGATTCGCCGTCTTCGATTTGCTCCACTACTACTTAGAGAGATAAGATCTGCAATC-
12141071 TTAGCCC
389 TTAGCCC
* * *
12141078 GCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATTTGCTTCTCTACTACCTCGGGAAG
1 GCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAG
* * * * *
12141143 ATAAGATTCACCGTCTTCGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGC
66 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTTAGC
*
12141208 CTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAA
131 CCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAA
* * * *
12141273 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAGTCATTA
196 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACCTAGGGAGATAAGATCTGCAATCTTTA
* *
12141338 GCCTGCTCCATTACTGCTTAGGGAGATAAGGGTAGTGGCTTAAATCTGCTTCCCTACTACCTCGA
261 GCCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGA
* * * *
12141403 GAAGATAAGATTCGCCGTCTTTGATTTGCCCCACTACTGCTTAGGGAGATAAGATCTGCAATCTT
326 GAAGATAAGATTCGCCGTCTTCGATTTGCTCCACTACTACTTAGAGAGATAAGATCTGCAATCTT
** *
12141468 CAATCT
391 -AGCCC
* * *
12141474 ACTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTTCTTACTACCTCTGG-AA
1 GCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC-GGAAA
* * *
12141538 GATAAGATTCGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGAT
65 GATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGAT
12141590 TTGTAATTTT
Statistics
Matches: 1188, Mismatches: 107, Indels: 18
0.90 0.08 0.01
Matches are distributed among these distances:
395 5 0.00
396 1177 0.99
397 6 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (395 bp):
GCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGAAAG
ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTTAGC
CCGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGAAA
AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACCTAGGGAGATAAGATCTGCAATCTTTA
GCCTGCTCCACTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGA
GAAGATAAGATTCGCCGTCTTCGATTTGCTCCACTACTACTTAGAGAGATAAGATCTGCAATCTT
AGCCC
Found at i:12140162 original size:616 final size:615
Alignment explanation
Indices: 12139116--12140529 Score: 1962
Period size: 616 Copynumber: 2.3 Consensus size: 615
12139106 CCACTACATG
** * *
12139116 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGGTT-AGAGAGATAAGATCTGCAATTTT
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAAG-GAGATAAGATCT-AAAATTT
* * * * * * * *
12139180 CAGTCTGCTTCACTGCAACTCAGGGAGATGAGGCTAGTAGCCTAAATCTGCTTCCCTACTACCTC
64 CAGCCTGCTCCACTACTACTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC
* * * * ** *
12139245 GGGAAGATAAGATTCACCATCTTCGATCTGTTCTACTACTGCTTAGGGAGATAAGGCTCGTGGTT
129 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTAATGGCT
* ** *
12139310 TAAATCTGCTTCCCTAGTACCTCGGGAAGATAATATTCGCGATCTTCGATCTGCTCCACTACTGC
194 TAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCGCGATCTTCGATCTGCTCCACTACTGC
* *
12139375 TTAGAGAGATAAAATCTGCAATTATTAGCCCGCTCCGCTACTGCTTAGGGAGATAAGGCTAGTGG
259 TTAGAGAGATAAAATCTGCAATTATTAGCCCGCTCCACTACTGCTTAGGGAGAGAAGGCTAGTGG
* * * ***
12139440 CTTAAATCTGCTTCCCTACTACCTTAGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACT
324 CTTAAATCTACTTCCCTACTACCTGAGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACT
* * **
12139505 GCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTACTGCTTAAGGAGATAAGGCTAGT
389 ACTTAGGGAGATAAGATCTACAATCTTCAGCCCACTCCACTACTGCTTAAGGAGATAAGGCTAGT
* * * *
12139570 GGCCTAAATCTGCTTCCCTATTACCTCGGAAAGATAAGA-TCTTCCGTCTTTGATCTGCTCCACT
454 GGCCTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATTC-GCCATCTTCGATCTGCTCCACT
* * *
12139634 ACTGTTTAGGGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGCTGCTTAAGGAGATAAGGCT
518 ACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTGCTCCACTACTGCTTAAGGAGATAAGGCT
*
12139699 AGTGGCCTAAATCTGCTTCCCTACTACCTCGGA
583 AGTGGCCTAAATCTACTTCCCTACTACCTCGGA
* * *
12139732 AAGATAAGATCCGCCGTCTTTGATCTGCTCCACTACTTCTTAAGGAG-TCAAGATCTAAAATCTT
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAAGGAGAT-AAGATCTAAAAT-TT
* * *
12139796 CAGCCTGCTCCACTACTTCTTAGAGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTC
64 CAGCCTGCTCCACTACTACTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTC
* *
12139861 GGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTAATGGCT
129 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTAATGGCT
*
12139926 TAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCGCCG-TCTTCGATCTGCTCCATTACTG
194 TAAATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCG-CGATCTTCGATCTGCTCCACTACTG
* * *
12139990 TTTA-AGGAGATAAGATCTGCAATCT-TTAGCCTGCTCCACTACTGCTTAGGGAGAGAAGGCTAG
258 CTTAGA-GAGATAAAATCTGCAAT-TATTAGCCCGCTCCACTACTGCTTAGGGAGAGAAGGCTAG
*
12140053 TGGCTTAAATCTACTTCCCTACTACCTCGA-AAAGATAAGATTCACCGTCTTCGATCTGCTCTAC
321 TGGCTTAAATCTACTTCCCTACTACCT-GAGAAAGATAAGATTCACCGTCTTCGATCTGCTCCAC
* * * * *
12140117 TACTACTTAGGGAGATAGGATCTACAAT-TATTAGCCCATTCCACTACTTCTTAGGGAGATAAGG
385 TACTACTTAGGGAGATAAGATCTACAATCT-TCAGCCCACTCCACTACTGCTTAAGGAGATAAGG
* * * * *
12140181 CTTGTGGCTTAAATTTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCGATTTGCTC
449 CTAGTGGCCTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCATCTTCGATCTGCTC
*
12140246 CACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTGCTCCACTACTGCTTAGGGAGATAA
514 CACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTGCTCCACTACTGCTTAAGGAGATAA
* *
12140311 GGCTAGTGGCTTAAATCTACTTCTCTACTACCTCGGA
579 GGCTAGTGGCCTAAATCTACTTCCCTACTACCTCGGA
* * * *
12140348 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATTTATAATTATT
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAAGGAGATAAGATCTAAAATT-TC
* * * *
12140413 AGCCCGCTCTATTACTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCG
65 AGCCTGCTCCACTACTACTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCG
* *
12140478 GAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATA
130 GGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
12140530 GGATCTGCAA
Statistics
Matches: 702, Mismatches: 85, Indels: 22
0.87 0.11 0.03
Matches are distributed among these distances:
615 7 0.01
616 686 0.98
617 9 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (615 bp):
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAAGGAGATAAGATCTAAAATTTCA
GCCTGCTCCACTACTACTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGG
GAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTA
AATCTGCTTCCCTACTACCTCGAAAAGATAAGATTCGCGATCTTCGATCTGCTCCACTACTGCTT
AGAGAGATAAAATCTGCAATTATTAGCCCGCTCCACTACTGCTTAGGGAGAGAAGGCTAGTGGCT
TAAATCTACTTCCCTACTACCTGAGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTAC
TTAGGGAGATAAGATCTACAATCTTCAGCCCACTCCACTACTGCTTAAGGAGATAAGGCTAGTGG
CCTAAATCTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACT
GCTTAGGGAGATAAGATCTGCAATCTTCAACCTGCTCCACTACTGCTTAAGGAGATAAGGCTAGT
GGCCTAAATCTACTTCCCTACTACCTCGGA
Found at i:12146088 original size:19 final size:20
Alignment explanation
Indices: 12146064--12146110 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
12146054 TTGTGACACT
*
12146064 CAATGCATATG-ATAAAATG
1 CAATGCAAATGCATAAAATG
*
12146083 CAATGCAAATGCATGAAATG
1 CAATGCAAATGCATAAAATG
12146103 -AATGCAAA
1 CAATGCAAA
12146111 AAGAGACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (20 bp):
CAATGCAAATGCATAAAATG
Found at i:12148002 original size:3 final size:3
Alignment explanation
Indices: 12147987--12148314 Score: 87
Period size: 3 Copynumber: 109.7 Consensus size: 3
12147977 AAATAGGACA
* * * **
12147987 AAT AAT AAA AAT AAT AGT AAT GAT AAT AAT AA- ATAT AAT GGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * * ** *
12148032 AAT ATT AA- AA- AATT AAT -AT AAT GAT GAT AAT AGT GTT AA- AAA
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
12148074 AAT AAT AAT AAT AAT AA- ACA- AACG ACAT ATT AAT AAT AAT AGAA AAT
1 AAT AAT AAT AAT AAT AAT A-AT AA-T A-AT AAT AAT AAT AAT A-AT AAT
* * * *
12148121 AAC GAT AAT AAT AAT AGA- AGT AAT GAA- AAT AAT AAT AAT AGA- AAC
1 AAT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT
* * * *
12148166 AAT AGT AAT AAA AAT AAT AA- AAT AGAA AAT AAT AAT GAT ACATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-A-T AAT
* * * * *
12148213 AAT AAT AAC AAT -AT AA- AAA AAT AAT ACT -AT ATT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
12148258 AGT AGT AGGTT AAT AAT AAT AGT AAT AAA AAGGT AA- AA- AAT AAT AAT
1 AAT AAT A--AT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT
*
12148305 GA- AAT AAT AA
1 AAT AAT AAT AA
12148315 AAACACTATT
Statistics
Matches: 237, Mismatches: 58, Indels: 60
0.67 0.16 0.17
Matches are distributed among these distances:
2 26 0.11
3 189 0.80
4 15 0.06
5 7 0.03
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:12148132 original size:25 final size:24
Alignment explanation
Indices: 12148074--12148136 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
12148064 GTGTTAAAAA
*
12148074 AATAATAATAATAATAAACAAACG
1 AATAATAATAATAATAAAAAAACG
*
12148098 ACATATTAATAATAATAGAAAATAACG
1 A-ATAATAATAATAATA-AAAA-AACG
12148125 -ATAATAATAATA
1 AATAATAATAATA
12148137 GAAGTAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 1 0.03
25 25 0.76
26 3 0.09
27 4 0.12
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.25
Consensus pattern (24 bp):
AATAATAATAATAATAAAAAAACG
Found at i:12148159 original size:30 final size:30
Alignment explanation
Indices: 12148139--12148219 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
12148129 TAATAATAGA
12148139 AGTAATGAAAATAATAATAATAGAAACAAT
1 AGTAATGAAAATAATAATAATAGAAACAAT
*
12148169 AGTAATAAAAATAATAA-AATAG-AA-AAT
1 AGTAATGAAAATAATAATAATAGAAACAAT
* *
12148196 AATAATGATACATTAATAATAATA
1 AGTAATGA-A-AATAATAATAATA
12148220 ACAATATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
27 9 0.20
28 3 0.07
29 12 0.27
30 20 0.45
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (30 bp):
AGTAATGAAAATAATAATAATAGAAACAAT
Found at i:12148247 original size:36 final size:35
Alignment explanation
Indices: 12148178--12148256 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 35
12148168 TAGTAATAAA
*
12148178 AATAATAAAATAGAAAATAATAATGATACATTAAT
1 AATAATAAAATAGAAAAAAATAATGATACATTAAT
* *
12148213 AATAATAACAATATAAAAAAATAAT-ACTATATTAAT
1 AATAATAA-AATAGAAAAAAATAATGA-TACATTAAT
*
12148249 AAAAATAA
1 AATAATAA
12148257 TAGTAGTAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 9 0.24
36 29 0.76
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (35 bp):
AATAATAAAATAGAAAAAAATAATGATACATTAAT
Found at i:12148410 original size:21 final size:22
Alignment explanation
Indices: 12148363--12148418 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
12148353 AAAAGAACAC
* *
12148363 AATAATAGT-ATATAGAATAAT
1 AATAAAAGTAATATAGAATAAA
*
12148384 AGTAAAAGTAATA-AGAATAAA
1 AATAAAAGTAATATAGAATAAA
*
12148405 AATAAAAATAATAT
1 AATAAAAGTAATAT
12148419 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (22 bp):
AATAAAAGTAATATAGAATAAA
Found at i:12148414 original size:18 final size:18
Alignment explanation
Indices: 12148393--12148427 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12148383 TAGTAAAAGT
12148393 AATAAGAATAAAAATAAA
1 AATAAGAATAAAAATAAA
* *
12148411 AATAATATTAAAAATAA
1 AATAAGAATAAAAATAA
12148428 TACTCTCCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAAGAATAAAAATAAA
Found at i:12148751 original size:25 final size:25
Alignment explanation
Indices: 12148710--12148762 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
12148700 TCGTGTATTC
*
12148710 CTTGTATTGAAAGTCTCT-TTTTTT
1 CTTGTATTGAAACTCTCTCTTTTTT
*
12148734 CTTGTATTTGAATCTCTCTCCTTTTTT
1 CTTGTA-TTGAAACTCTCT-CTTTTTT
12148761 CT
1 CT
12148763 CCAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 10 0.42
27 8 0.33
ACGTcount: A:0.13, C:0.19, G:0.09, T:0.58
Consensus pattern (25 bp):
CTTGTATTGAAACTCTCTCTTTTTT
Found at i:12150757 original size:228 final size:228
Alignment explanation
Indices: 12150360--12151942 Score: 1311
Period size: 228 Copynumber: 6.9 Consensus size: 228
12150350 GACACAACAG
* * * * * * *
12150360 ATGCAGATCTTTGTAAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
* *
12150425 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
* * * * * *
12150490 TCTTCGCTGGGAAACAGCTAGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
131 TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAGTCT
12150555 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
196 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * *
12150588 ATGCAGATCTTCGTGAAAACCCTCACTGGCAAGACAATCACCCTTGAGGTTGAAAGCTCCGACAC
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
* * *
12150653 AATTGATAATGTCAAGGCTAAGATCCAGGATAAGGAAGGGATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
* * * * * * *
12150718 TCTTTGCCGGTAAGCAACTGGAAGATGGTCGCACCCTTGCTGACTACAACATTCAAAAAGAGTCT
131 TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAGTCT
* *
12150783 ACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGC
196 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * *
12150816 ATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACAC
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
* * * *
12150881 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
* * ** * *
12150946 TCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAGTC
131 TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCA-AAAGGAGTC
* *
12151010 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGC
195 TACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * *
12151044 ATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCA-CTTTAGAGGTGGAGAGTTCTGATA
1 ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTT-GAGGTGGAGAGCTCCGACA
* * * * * *
12151108 CAATTGATAACGTTAAGTCCAAGATTCAGGACAAGG-AGGGCATCCCACCAGACCAGCAGAGG-T
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGG-ATCCCACCTGACCAACAGAGGCT
* * * * * * * * *
12151171 TAATTTTTGCTGGGAAACAACTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAA
129 T-ATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAG
* * *
12151236 TCTACCCTCCAT-TTGGT-GTTGCGTCTTC-GTGGTGGT
193 TCTACCCTCCATCTT-GTCCTT-CGTC-TCAGGGGTGGC
* * * * * * * * * *
12151272 ATGCA-AGTTTTTGTGAAGACCCTCACAGGAAAGACTATTA-CCTTGGAAGTTGAGAGTTCTGAT
1 ATGCAGA-TATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTT-GAGGTGGAGAGCTCCGAC
* * * * * * * * *
12151335 ACGATTGACAATGTGAAAGCTAAGATCCAGGACAAGGAAGGTATTCCACCGGATCAACAGAGGCT
64 ACAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCT
* * * ** * * * *
12151400 GATTTTTGCTGGCAAGCAGCTGGAGGATGGGAGGACCCTTGCTGATTATAATATTCAGAAA-GAG
129 TATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCA-AAAGGAG
* * * * *
12151464 TCAACCCTCCA-CTTGGTGCTTCGCCTGC-GTGGTGGA
193 TCTACCCTCCATCTT-GTCCTTCGTCT-CAGGGGTGGC
** * * * *
12151500 ATGCAGATATTTGTGAAAACTTTGACCGGTAAA-ACCATTA-CGTTGGAGGTGGAGAGCTCCGAC
1 ATGCAGATATTTGTGAAAACCCTCACTGG-AAAGACCATCACCCTT-GAGGTGGAGAGCTCCGAC
** * * *
12151563 ACGGTTGATAATGTTAAGGCCAAGATCCAAGATAAGG-AGGGTATCCCACCTGACCAACAGAGG-
64 ACAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGG-ATCCCACCTGACCAACAGAGGC
* * * * * ** * * *
12151626 TTGATTTTTGCCGGAAAGCAGCTCGAGGACGGGAGGACCCTTGCGGACTATAACATTCAAAAGGA
128 TT-ATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGA
* * * * * * * *
12151691 GTCGACCCTGCAT-TTGGT-TTTGCGCCTTAGAGGAGGG
192 GTCTACCCTCCATCTT-GTCCTT-CGTCTCAGGGGTGGC
* * * * * * * *
12151728 ATGCAGATATTTGTCAAGACCTTGACTGGGAAA-ACCATCACCCTGGAGGTTGAGAGCTCGGATA
1 ATGCAGATATTTGTGAAAACCCTCACT-GGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACA
* * * * * * * * *
12151792 CGATTGACAATGTAAAAGCAAAGATTCAGGACAAGG-AGGGAATTCCC-CCGGATCAGCAGAGG-
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGG-A-TCCCACCTGACCAACAGAGGC
* * * * * * *
12151854 TTGATCTTTGCTGGGAAGCAGTTGGAGGACGGTCGAACCCTAGCTGACTACAATATCCAGAAGGA
128 TT-ATCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGA
* *
12151919 GTCTACTCTGCATCTTGTCCTTCG
192 GTCTACCCTCCATCTTGTCCTTCG
12151943 CCTCCGTGGT
Statistics
Matches: 1120, Mismatches: 207, Indels: 56
0.81 0.15 0.04
Matches are distributed among these distances:
227 26 0.02
228 1065 0.95
229 29 0.03
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (228 bp):
ATGCAGATATTTGTGAAAACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGCTCCGACAC
AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAAGGGATCCCACCTGACCAACAGAGGCTTA
TCTTTGCTGGGAAGCAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATTCAAAAGGAGTCT
ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGC
Found at i:12151668 original size:684 final size:679
Alignment explanation
Indices: 12150360--12151942 Score: 1583
Period size: 684 Copynumber: 2.3 Consensus size: 679
12150350 GACACAACAG
* * * * * *
12150360 ATGCAGATCTTTGTAAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAGATCTTTGTAAAAAC-CTCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATAC
* * * * *
12150425 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
65 AATTGATAATGT-AAAGCCAAGATTCAGGACAAGG-AGGGAT-CCCCCAGACCAGCAGAGG-TTA
* * * * * * *
12150490 TCTTCGCTGGGAAACAGCTAGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
126 TCTTTGCTGGGAAACAACTAGAAGATGGCAGAACCCTTGCAGACTACAACATCCAAAAGGAATCC
* *
12150555 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACTGGCAA
191 ACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACAGGAAA
* * * *
12150620 GACAATCACCCTTGAGGTTGAAAGCTCCGACACAATTGATAATGTCAAGGCTAAGATCCAGGATA
256 GACAATCACCCTTGAAGTTGAAAGCTCCGACACAATTGACAATGTCAAAGCTAAGATCCAGGACA
* * * * **
12150685 AGGAAGGGATCCCTCCTGACCAACAGAGGCTTATCTTTGCCGGTAAGCAACTGGAAGATGGTCGC
321 AGGAAGGGATCCCACCGGACCAACAGAGGCTGATCTTTGCCGGCAAGCAACTGGAAGATGGGAGC
* *
12150750 ACCCTTGCTGACTACAACATTCAAAAAGAGTCTACCCTCCACCTTGTGCTTCGTCTCAGGGGTGG
386 ACCCTTGCTGACTACAACATTCAAAAAGAGTCAACCCTCCACCTTGTGCTTCGCCTCAGGGGTGG
* * *
12150815 CATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACA
451 AATGCAAATATTTGTCAAAACTCTTACCGGCAAAACAATCACCCTTGAAGTGGAAAGCTCCGACA
*
12150880 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTT
516 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCACCTGACCAACAGAGGCTT
* * * * * *
12150945 ATCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAGT
581 ATCTTTGCCGGAAAACAACTCGAGGACGGCAGCACCCTTGCGGACTACAACATCCA-AAAGGAGT
* * * *
12151009 CTACCCTCCACCTT-GTCCTT-CGTCTTAGGGGTGGC
645 CGACCCTCCA-CTTGGT-CTTGCGCCTTAGAGGAGGC
** * *
12151044 ATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCACTTTAGAGGTGGAGAGTTCTGATAC
1 ATGCAGATCTTTGTAAAAAC-CTCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATAC
* *
12151109 AATTGATAACGTTAAGTCCAAGATTCAGGACAAGGAGGGCATCCCACCAGACCAGCAGAGGTTAA
65 AATTGATAATGTAAAG-CCAAGATTCAGGACAAGGAGGG-ATCCC-CCAGACCAGCAGAGGTT-A
* * * * *
12151174 TTTTTGCTGGGAAACAACTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAATCT
126 TCTTTGCTGGGAAACAACTAGAAGATGGCAGAACCCTTGCAGACTACAACATCCAAAAGGAATCC
* * * * * *
12151239 ACCCTCCAT-TTGGT-GTTGCGTCTTC-GTGGTGGTATGCA-AGTTTTTGTGAAGACCCTCACAG
191 ACCCTCCATCTT-GTCCTT-CGTC-TCAGGGGTGGCATGCAGA-TCTTCGTGAAAACCCTCACAG
* * * * * * * *
12151300 GAAAGACTATTA-CCTTGGAAGTTGAGAGTTCTGATACGATTGACAATGTGAAAGCTAAGATCCA
252 GAAAGACAATCACCCTT-GAAGTTGAAAGCTCCGACACAATTGACAATGTCAAAGCTAAGATCCA
* * * * * * *
12151364 GGACAAGGAAGGTATTCCACCGGATCAACAGAGGCTGATTTTTGCTGGCAAGCAGCTGGAGGATG
316 GGACAAGGAAGGGATCCCACCGGACCAACAGAGGCTGATCTTTGCCGGCAAGCAACTGGAAGATG
* * * * *
12151429 GGAGGACCCTTGCTGATTATAATATTCAGAAAGAGTCAACCCTCCA-CTTGGTGCTTCGCCTGC-
381 GGAGCACCCTTGCTGACTACAACATTCAAAAAGAGTCAACCCTCCACCTT-GTGCTTCGCCT-CA
* * * * * * * * *
12151492 GTGGTGGAATGCAGATATTTGTGAAAACT-TTGACCGGTAAAACCATTA-CGTTGGAGGTGGAGA
444 GGGGTGGAATGCAAATATTTGTCAAAACTCTT-ACCGGCAAAACAATCACCCTT-GAAGTGGAAA
** * * * *
12151555 GCTCCGACACGGTTGATAATGTTAAGGCCAAGATCCAAGATAAGGAGGGTATCCCACCTGACCAA
507 GCTCCGACACAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCACCTGACCAA
* * * * * * *
12151620 CAGAGG-TTGATTTTTGCCGGAAAGCAGCTCGAGGACGGGAGGACCCTTGCGGACTATAACATTC
572 CAGAGGCTT-ATCTTTGCCGGAAAACAACTCGAGGACGGCAGCACCCTTGCGGACTACAACATCC
* * * *
12151684 AAAAGGAGTCGACCCTGCATTTGGTTTTGCGCCTTAGAGGAGGG
636 AAAAGGAGTCGACCCTCCACTTGGTCTTGCGCCTTAGAGGAGGC
* * * * * * * *
12151728 ATGCAGATATTTGTCAAGACCTTGACTGGGAAAACCATCACCCTGGAGGTTGAGAGCTCGGATAC
1 ATGCAGATCTTTGTAAAAACC-TCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATAC
* * * * *
12151793 GATTGACAATGTAAAAGCAAAGATTCAGGACAAGGAGGGAATTCCCCCGGATCAGCAGAGGTTGA
65 AATTGATAATGT-AAAGCCAAGATTCAGGACAAGGAGGG-A-TCCCCCAGACCAGCAGAGGTT-A
* ** * * * * * * * *
12151858 TCTTTGCTGGGAAGCAGTTGGAGGACGGTC-GAACCCTAGCTGACTACAATATCCAGAAGGAGTC
126 TCTTTGCTGGGAAACAACTAGAAGATGG-CAGAACCCTTGCAGACTACAACATCCAAAAGGAATC
* * *
12151922 TACTCTGCATCTTGTCCTTCG
190 CACCCTCCATCTTGTCCTTCG
12151943 CCTCCGTGGT
Statistics
Matches: 729, Mismatches: 147, Indels: 46
0.79 0.16 0.05
Matches are distributed among these distances:
683 38 0.05
684 676 0.93
685 15 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (679 bp):
ATGCAGATCTTTGTAAAAACCTCACTGGAAAAACCATCACCCTAGAGGTGGAGAGCTCCGATACA
ATTGATAATGTAAAGCCAAGATTCAGGACAAGGAGGGATCCCCCAGACCAGCAGAGGTTATCTTT
GCTGGGAAACAACTAGAAGATGGCAGAACCCTTGCAGACTACAACATCCAAAAGGAATCCACCCT
CCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACAGGAAAGACAA
TCACCCTTGAAGTTGAAAGCTCCGACACAATTGACAATGTCAAAGCTAAGATCCAGGACAAGGAA
GGGATCCCACCGGACCAACAGAGGCTGATCTTTGCCGGCAAGCAACTGGAAGATGGGAGCACCCT
TGCTGACTACAACATTCAAAAAGAGTCAACCCTCCACCTTGTGCTTCGCCTCAGGGGTGGAATGC
AAATATTTGTCAAAACTCTTACCGGCAAAACAATCACCCTTGAAGTGGAAAGCTCCGACACAATT
GATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCACCTGACCAACAGAGGCTTATCTT
TGCCGGAAAACAACTCGAGGACGGCAGCACCCTTGCGGACTACAACATCCAAAAGGAGTCGACCC
TCCACTTGGTCTTGCGCCTTAGAGGAGGC
Found at i:12151954 original size:456 final size:453
Alignment explanation
Indices: 12150359--12151946 Score: 1535
Period size: 456 Copynumber: 3.5 Consensus size: 453
12150349 CGACACAACA
* * * * * *
12150359 GATGCAGATCTTTGTAAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACA
1 GATGCAGATATTTGTCAAAACTCTTACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGACA
* * * * *
12150424 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTT
66 CAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGCTT
* * *
12150489 ATCTTCGCTGGGAAACAGCTAGAGGATGGCCGTACCCTTGCTGACTACAACATCCA-AAAGGAGT
131 ATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAA-GAGT
* * * *
12150553 CCACCCTCCATCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTGAAAACCCTCACTGGC
195 CTACCCTCCATCTTGTCCTTCGCCTCAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACTGGA
* * * * * *
12150618 AAGACAATCACCCTTGAGGTTGAAAGCTCCGACACAATTGATAATGTCAAGGCTAAGATCCAGGA
260 AAAACCATCA-CCTTGAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCAGGA
* * * *
12150683 TAAGGAAGGGATCCCTCCTGACCAACAGAGGCTTATCTTTGCCGGTAAGCAACTGGAAGATGGTC
324 TAAGG-AGGGATCCCACCTGACCAACAGAGG-TTATTTTTGCCGGAAAGCAACTCGAAGATGG-C
* * * * * * *
12150748 -GCACCCTTGCTGACTACAACATTCAAAAAGAGTCTACCCTCCACCTT-GTGCTT-CGTCTCAGG
386 AGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCA-TTTGGT-CTTGCGTCTTAGA
12150810 GGTGG
449 GGTGG
* * * * * *
12150815 CATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCCGACA
1 GATGCAGATATTTGTCAAAACTCTTACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGACA
* * * *
12150880 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTA-TCCCTCCTGACCAACAGAGGCT
66 CAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCC-CCGGACCAACAGAGGCT
* ** *
12150944 TATCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAAGAGT
130 TATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAGT
* * * * *
12151009 CTACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGCATGCAGATCTTTGTAAAAACGCTCACTGGA
195 CTACCCTCCATCTTGTCCTTCGCCTCAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACTGGA
* * * * * * *
12151074 AAAACCATCACTTTAGAGGTGGAGAGTTCTGATACAATTGATAACGTTAAGTCCAAGATTCAGGA
260 AAAACCATCACCTT-GAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCAGGA
* * * * *
12151139 CAAGGAGGGCATCCCACCAGACCAGCAGAGGTTAATTTTTGCTGGGAAA-CAACTTGAAGATGGC
324 TAAGGAGGG-ATCCCACCTGACCAACAGAGGTT-ATTTTTGC-CGGAAAGCAACTCGAAGATGGC
* * * *
12151203 AGAACCCTTGCAGACTATAACATTCAAAAGGAATCTACCCTCCATTTGGTGTTGCGTCTTCGTGG
386 AGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCATTTGGTCTTGCGTCTTAGAGG
12151268 TGG
451 TGG
* * * * * * * * * * * * * *
12151271 TATGCA-AGTTTTTGTGAAGACCCTCAC-AGGAAAGACTATTACCTTGGAAGTTGAGAGTTCTGA
1 GATGCAGA-TATTTGTCAAAACTCTTACTGGGAAA-ACCATCACCCTGGAAGTGGAAAGCTCCGA
* * * * * * *
12151334 TACGATTGACAATGTGAAAGCTAAGATCCAGGACAAGGAAGGTATTCCACCGGATCAACAGAGGC
64 CACAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGC
* * * * ** * * * * *
12151399 TGATTTTTGCTGGCAAGCAGCTGGAGGATGGGAGGACCCTTGCTGATTATAATATTCAGAAAGAG
129 TTATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAG
* * * * * ** * *
12151464 TCAACCCTCCA-CTTGGTGCTTCGCCTGC-GTGGTGGAATGCAGATATTTGTGAAAACTTTGACC
194 TCTACCCTCCATCTT-GTCCTTCGCCT-CAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACT
* * * **
12151527 GGTAAAACCATTACGTTGGAGGTGGAGAGCTCCGACACGGTTGATAATGTTAAGGCCAAGATCCA
257 GGAAAAACCATCACCTT-GAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCA
* * * *
12151592 AGATAAGGAGGGTATCCCACCTGACCAACAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAGGACG
321 GGATAAGGAGGG-ATCCCACCTGACCAACAGAGGTT-ATTTTTGCCGGAAAGCAACTCGAAGATG
* * * * * * *
12151657 GGAGGACCCTTGCGGACTATAACATTCAAAAGGAGTCGACCCTGCATTTGGTTTTGCGCCTTAGA
384 GCAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCATTTGGTCTTGCGTCTTAGA
*
12151722 GGAGG
449 GGTGG
* * * * * *
12151727 GATGCAGATATTTGTCAAGAC-CTTGACTGGGAAAACCATCACCCTGGAGGTTGAGAGCTCGGAT
1 GATGCAGATATTTGTCAAAACTCTT-ACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGAC
* * * * * * * * *
12151791 ACGATTGACAATGTAAAAGCAAAGATTCAGGACAAGGAGGGAATTCCCCCGGATCAGCAGAGG-T
65 ACAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGCT
* * * * * * *
12151855 TGATCTTTGCTGGGAAGCAGTTGGAGGACGGTCGAACCCTAGCTGACTACAATATCCAGAAGGAG
130 T-ATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAG
* *
12151920 TCTACTCTGCATCTTGTCCTTCGCCTC
194 TCTACCCTCCATCTTGTCCTTCGCCTC
12151947 CGTGGTGGTT
Statistics
Matches: 935, Mismatches: 177, Indels: 41
0.81 0.15 0.04
Matches are distributed among these distances:
455 33 0.04
456 883 0.94
457 19 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (453 bp):
GATGCAGATATTTGTCAAAACTCTTACTGGGAAAACCATCACCCTGGAAGTGGAAAGCTCCGACA
CAATTGACAATGTCAAAGCCAAGATCCAAGACAAGGAAGGTATTCCCCCGGACCAACAGAGGCTT
ATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAGTC
TACCCTCCATCTTGTCCTTCGCCTCAGGGGTGGCATGCAGATCTTTGTGAAAACCCTCACTGGAA
AAACCATCACCTTGAGGTGGAGAGCTCCGACACAATTGATAATGTTAAGGCCAAGATCCAGGATA
AGGAGGGATCCCACCTGACCAACAGAGGTTATTTTTGCCGGAAAGCAACTCGAAGATGGCAGAAC
CCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCATTTGGTCTTGCGTCTTAGAGGTGG
Found at i:12152205 original size:87 final size:87
Alignment explanation
Indices: 12152054--12152236 Score: 321
Period size: 87 Copynumber: 2.1 Consensus size: 87
12152044 TTTTTTAAGG
12152054 TAATGATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCG
1 TAAT-ATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCG
12152119 GACTATTTCATAATCTCCTATCC
65 GACTATTTCATAATCTCCTATCC
* * *
12152142 TAATATACTTTGGTGTGAAGTGGTTAGAGAGCTACAACTCAGTTACTATATTAATTAAGGTTCGG
1 TAATATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCGG
*
12152207 ACTATTTCATAATCTCGTATCC
66 ACTATTTCATAATCTCCTATCC
12152229 TAATATAC
1 TAATATAC
12152237 ATTCATCTTG
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 87 0.96
88 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (87 bp):
TAATATACTTTGGTGTGAAGTGGTTAGAGAGCCACAACTCACTTACTATATTAAATAAGGTTCGG
ACTATTTCATAATCTCCTATCC
Found at i:12153918 original size:9 final size:9
Alignment explanation
Indices: 12153904--12153935 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
12153894 CCATTTGTCC
12153904 TTGCATCTG
1 TTGCATCTG
12153913 TTGCATCTG
1 TTGCATCTG
12153922 TTGCATC-G
1 TTGCATCTG
12153930 TTGCAT
1 TTGCAT
12153936 GTCTTAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (9 bp):
TTGCATCTG
Found at i:12155324 original size:30 final size:30
Alignment explanation
Indices: 12155288--12155345 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
12155278 CTTAGCAAGC
12155288 AAATGCCTCTAAAATAATAACAAAATTAAA
1 AAATGCCTCTAAAATAATAACAAAATTAAA
12155318 AAATGCCTCTAAAATAATAACAAAATTA
1 AAATGCCTCTAAAATAATAACAAAATTA
12155346 TCAATAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAA
Found at i:12155404 original size:22 final size:22
Alignment explanation
Indices: 12155379--12155421 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12155369 TATCCAAACA
12155379 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* *
12155401 ATAATAATAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
12155422 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:12161527 original size:19 final size:19
Alignment explanation
Indices: 12161503--12161539 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
12161493 AAATTCCTTA
12161503 TTCCA-TTCGCCAACTAACT
1 TTCCATTTC-CCAACTAACT
12161522 TTCCATTTCCCAACTAAC
1 TTCCATTTCCCAACTAAC
12161540 GTGTAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.27, C:0.38, G:0.03, T:0.32
Consensus pattern (19 bp):
TTCCATTTCCCAACTAACT
Found at i:12162884 original size:5 final size:5
Alignment explanation
Indices: 12162874--12162898 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12162864 TATGCCGGGT
12162874 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
12162899 ATTATGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:12163724 original size:17 final size:17
Alignment explanation
Indices: 12163679--12163724 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
12163669 TAAAACTATA
12163679 AAAAATCATTAAAAATGT
1 AAAAATCA-TAAAAATGT
** *
12163697 AAAAAAAATAAAATTGT
1 AAAAATCATAAAAATGT
12163714 AAAAATCATAA
1 AAAAATCATAA
12163725 CAAGTTATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (17 bp):
AAAAATCATAAAAATGT
Found at i:12176807 original size:51 final size:51
Alignment explanation
Indices: 12176747--12176848 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
12176737 CCTCCTTCTC
*
12176747 AATTAAGTAATTTCATCCAATTAG-GTAACTGGGGATTGGTTTTATGGTAGG
1 AATTAAGTAATTTCATCCAATT-GCGTAACTAGGGATTGGTTTTATGGTAGG
* *
12176798 AATTAAGTAATTTCTTCCAATTGCGTAATTAGGGATTGGTTTTATGGTAGG
1 AATTAAGTAATTTCATCCAATTGCGTAACTAGGGATTGGTTTTATGGTAGG
12176849 TATAGAGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 46 0.98
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (51 bp):
AATTAAGTAATTTCATCCAATTGCGTAACTAGGGATTGGTTTTATGGTAGG
Found at i:12177788 original size:10 final size:10
Alignment explanation
Indices: 12177775--12177813 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
12177765 TGATATTATA
12177775 TTTATAATAT
1 TTTATAATAT
*
12177785 TTTATATTAT
1 TTTATAATAT
*
12177795 TTTATATTAT
1 TTTATAATAT
12177805 ATTTATAAT
1 -TTTATAAT
12177814 TATGACAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 19 0.73
11 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:12179950 original size:26 final size:26
Alignment explanation
Indices: 12179914--12179963 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
12179904 AGTAGGTTAA
12179914 TTTTGAAAAATCACCATAAATTTTAG
1 TTTTGAAAAATCACCATAAATTTTAG
12179940 TTTTGAAAAATCACCATAAATTTT
1 TTTTGAAAAATCACCATAAATTTT
12179964 GGAAATCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (26 bp):
TTTTGAAAAATCACCATAAATTTTAG
Found at i:12194369 original size:40 final size:40
Alignment explanation
Indices: 12194274--12194371 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 40
12194264 CTTTTCAGGT
* * * *
12194274 CAAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* * *
12194314 TAAATCCTATTCACTTTAAATTACTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
12194354 CAAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
12194372 TATTCTCGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:12195595 original size:10 final size:10
Alignment explanation
Indices: 12195569--12195607 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
12195559 CATTACACTA
*
12195569 TTTCTCATTAC
1 TTTCTC-TTAT
12195580 TTTCTCTTAT
1 TTTCTCTTAT
12195590 TTTCTCTTAT
1 TTTCTCTTAT
12195600 TTTCTCTT
1 TTTCTCTT
12195608 CACTAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 21 0.78
11 6 0.22
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTCTCTTAT
Found at i:12197580 original size:23 final size:22
Alignment explanation
Indices: 12197539--12197581 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12197529 CTTTAGCTAT
*
12197539 TTTTATTTTTATTGCAATTTAA
1 TTTTATTTTTATTACAATTTAA
*
12197561 TTTTGTTTTTATTACTAATTT
1 TTTTATTTTTATTAC-AATTT
12197582 TTCTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTATTACAATTTAA
Done.