Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 63 of 313
Found at i:21306852 original size:50 final size:50
Alignment explanation
Indices: 21306777--21306877 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
21306767 CCAGGTTGAC
21306777 TAAAAACATTATTTCAATTTCTTGTTTAGACAAAATTAGTTTTGAGATAA
1 TAAAAACATTATTTCAATTTCTTGTTTAGACAAAATTAGTTTTGAGATAA
*
21306827 TAAAAACATTATTTCAATTTCTTGTTTAGACAAAATTGGTTTTGAGATAA
1 TAAAAACATTATTTCAATTTCTTGTTTAGACAAAATTAGTTTTGAGATAA
21306877 T
1 T
21306878 TATTAAGAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (50 bp):
TAAAAACATTATTTCAATTTCTTGTTTAGACAAAATTAGTTTTGAGATAA
Found at i:21313741 original size:16 final size:16
Alignment explanation
Indices: 21313720--21313750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21313710 CTATGCATAC
*
21313720 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
21313736 AAAATACAAAAGACA
1 AAAATACAAAAGACA
21313751 TAAAGTGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:21314203 original size:61 final size:60
Alignment explanation
Indices: 21314057--21314223 Score: 210
Period size: 60 Copynumber: 2.8 Consensus size: 60
21314047 AGAGTTTTTC
* * * * * *
21314057 CACAAAGTTATCCTTTATATCTAGTGCTCGCCAAAAAGGCTTTCTTATCTAGAGTTATGT
1 CACAAAGCTATCCTTTATATCCAGTACTCGCCAAAAAGGCTTTCCTATCCAAAGTTATGT
* *
21314117 CACAAAGCTATCCTTTATATCCAGTACTCGCCATAAAGGCTTTCCTATCCAAAGTTGTG-
1 CACAAAGCTATCCTTTATATCCAGTACTCGCCAAAAAGGCTTTCCTATCCAAAGTTATGT
* * *
21314176 CTACAAAAGCTATCCTTTATAACCAGTACTCACCACAAAGGCTTTCCT
1 C-AC-AAAGCTATCCTTTATATCCAGTACTCGCCAAAAAGGCTTTCCT
21314224 TCAGAAATTT
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
59 1 0.01
60 53 0.56
61 40 0.43
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (60 bp):
CACAAAGCTATCCTTTATATCCAGTACTCGCCAAAAAGGCTTTCCTATCCAAAGTTATGT
Found at i:21315217 original size:20 final size:21
Alignment explanation
Indices: 21315178--21315219 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
21315168 TACCTCTCCC
21315178 TTAACTTAACCCGAGTGTCCTT
1 TTAACTTAACCCGAG-GTCCTT
*
21315200 TTAACTTAACTCGA-GTCCTT
1 TTAACTTAACCCGAGGTCCTT
21315220 ATGGGAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (21 bp):
TTAACTTAACCCGAGGTCCTT
Found at i:21334777 original size:10 final size:10
Alignment explanation
Indices: 21334764--21334790 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21334754 CAAGATTTTA
21334764 GAAGAAGCTG
1 GAAGAAGCTG
21334774 GAAGAAGCTG
1 GAAGAAGCTG
21334784 GAAGAAG
1 GAAGAAG
21334791 TCTTGGGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.07, G:0.41, T:0.07
Consensus pattern (10 bp):
GAAGAAGCTG
Found at i:21340565 original size:47 final size:47
Alignment explanation
Indices: 21340494--21340762 Score: 189
Period size: 47 Copynumber: 5.7 Consensus size: 47
21340484 GTAAGGTGTC
* *
21340494 GATGCCATGTCCTAGACACAGTCTTACACTGGCTCATATCTCAAGTC-
1 GATGCCATGTCCCAGACA-TGTCTTACACTGGCTCATATCTCAAGTCT
* * **
21340541 AATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTTGTAG-CT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCAT-ATC-TCAAGTCT
* * ** * * *
21340589 GATG-CATGTCCTAGACATGTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCATATCTCAAGTCT
* * * *
21340635 GATG-CATGTCCCAGACATGTCTTACACTAGCCCTTGTCTCAA-TGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCATATCTCAAGT-CT
* * *
21340681 GATGCCATGTCCCAGACATGGTCTGACACTGGCTCCCATAATGT-GA-TC-
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCT--CAT-ATCTCAAGTCT
* *
21340729 GATG-CATGTCCCAGATATGTCTTACACTAGCTCA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCA
21340763 CACACGAATG
Statistics
Matches: 177, Mismatches: 33, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 70 0.40
47 74 0.42
48 21 0.12
49 1 0.01
50 4 0.02
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCATATCTCAAGTCT
Found at i:21356296 original size:40 final size:40
Alignment explanation
Indices: 21356239--21356420 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
21356229 GAGGATTATA
21356239 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
21356279 TACGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
21356319 TCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * * * *
21356359 TCCAGGTTAAGTCCCGAATGCATTTGTGCTGGTTGTTACAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTA-TT
* *
21356400 T-CGGGCTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
21356421 ATTGGGTTGG
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 122 0.98
41 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.31
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
Found at i:21357596 original size:6 final size:6
Alignment explanation
Indices: 21357581--21357682 Score: 95
Period size: 6 Copynumber: 16.8 Consensus size: 6
21357571 AACCAAAATG
* *
21357581 AGAATT AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
21357629 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
21357678 AGAAT
1 AGAAT
21357683 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
5 6 0.08
6 67 0.84
7 5 0.06
8 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:21357615 original size:30 final size:30
Alignment explanation
Indices: 21357581--21357682 Score: 152
Period size: 30 Copynumber: 3.4 Consensus size: 30
21357571 AACCAAAATG
* *
21357581 AGAATTAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
21357611 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
21357641 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
21357672 AGAATCAGAAT
1 AGAATCAGAAT
21357683 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.02
30 43 0.65
31 22 0.33
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:21357837 original size:27 final size:26
Alignment explanation
Indices: 21357800--21357865 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
21357790 AGCATGGCTG
*
21357800 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
21357826 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
21357853 CCAGAATCAGATA
1 CCAGAA-CAGATA
21357866 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:21357870 original size:27 final size:27
Alignment explanation
Indices: 21357800--21357873 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
21357790 AGCATGGCTG
* *
21357800 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
21357826 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
21357853 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
21357874 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:21357880 original size:27 final size:27
Alignment explanation
Indices: 21357824--21357881 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
21357814 GTGACAGAGT
* * *
21357824 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
21357851 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
21357878 CACC
1 CACC
21357882 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:21358086 original size:22 final size:22
Alignment explanation
Indices: 21358038--21358096 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
21358028 GTAAATACGT
*
21358038 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
21358060 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
21358082 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
21358097 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:21358468 original size:27 final size:27
Alignment explanation
Indices: 21358438--21358929 Score: 534
Period size: 27 Copynumber: 18.3 Consensus size: 27
21358428 GGGGCAAAAT
* * * *
21358438 GGTAATTTTACCCCACAAGGGTCTCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
21358465 GGTAATTCTATCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
21358492 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21358519 GATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21358546 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
21358573 GGCAATTCTACCCTA-TAGGG-ATATCC
1 GGTAATTCTACCCTACAAGGGTAT-TTC
* *
21358599 TGGTAATTCTACCCAACAGGGGTATTTC
1 -GGTAATTCTACCCTACAAGGGTATTTC
*
21358627 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21358654 GATAATTCTACCCTA-AAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21358680 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21358707 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
21358734 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21358760 TGGTAATTCTACCCTATAGGGGTA-TTC
1 -GGTAATTCTACCCTACAAGGGTATTTC
*
21358787 TGGTAATTCTACCCTACAGGGGTA-TTC
1 -GGTAATTCTACCCTACAAGGGTATTTC
* *
21358814 TAGTAATTCTACTCTAC-AGGAGTA-TTC
1 -GGTAATTCTACCCTACAAGG-GTATTTC
* *
21358841 TAGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAAGGGTATTTC
*
21358869 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
21358896 AATAATTCAATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
21358923 GGTAATT
1 GGTAATT
21358930 TCACAAATCA
Statistics
Matches: 407, Mismatches: 47, Indels: 22
0.86 0.10 0.05
Matches are distributed among these distances:
25 2 0.00
26 37 0.09
27 352 0.86
28 14 0.03
29 2 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:21359053 original size:27 final size:27
Alignment explanation
Indices: 21358913--21359161 Score: 135
Period size: 27 Copynumber: 9.2 Consensus size: 27
21358903 CAATCCTACA
* ***
21358913 AGGGTATTTCGGTAATTTCACAAATC-
1 AGGGTATTTTGGTAATTTTGTAAATCG
* ** *
21358939 AGGGGTATTTTGCTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTGTAAATCG
* **
21358966 AGAGGTATTTTGGTAATTTTATTGATCG
1 AG-GGTATTTTGGTAATTTTGTAAATCG
*
21358994 AGGGTATTTTGGTAATTTTGTAAA-CTA
1 AGGGTATTTTGGTAATTTTGTAAATC-G
* *
21359021 AAGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * *
21359048 AGGGTAAAATGGTAATTCTGTAAATTG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * *
21359075 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
**** * *
21359102 AGGGTAAGACGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
*** * *
21359129 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTGTAAATCG
21359156 AGGGTA
1 AGGGTA
21359162 AAACGATAAT
Statistics
Matches: 189, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.02
27 181 0.96
28 4 0.02
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAATCG
Found at i:21359162 original size:27 final size:27
Alignment explanation
Indices: 21359032--21359257 Score: 317
Period size: 27 Copynumber: 8.4 Consensus size: 27
21359022 AGGTATTTTA
* *
21359032 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
21359059 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
21359086 GTAATTCTATAAATCGAGGGTAAGACG
1 GTAATTCTATAAATCGAGGGTAAAATG
21359113 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
21359140 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
21359167 ATAATTCTATAAATCGAAGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
** *
21359194 GTAATTCTATAAATCTTGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
21359221 ATAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
21359248 GTAATTCTAT
1 GTAATTCTAT
21359258 CTTATAGGAA
Statistics
Matches: 174, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:21359279 original size:81 final size:81
Alignment explanation
Indices: 21359025--21359297 Score: 268
Period size: 81 Copynumber: 3.4 Consensus size: 81
21359015 AAACTAAAGG
* * *
21359025 TATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGTAA
1 TATTTCAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGTAA
*
21359090 TTCTATAAATCGAGG-G
66 TTCTATAAATC-AGGAA
*** * * * * *
21359106 TAAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAA
1 TATTTCAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGTAA
21359171 TTCTATAAATCGAAGGTAA
66 TTCTATAAATC--AGG-AA
* * ** * *
21359190 -A-AT-GGTAATTCTATAAATCTTGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAA
1 TATTTCAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGTAA
**
21359252 TTCTATCTTAT-AGGAA
66 TTCTAT-AAATCAGGAA
*
21359268 TATTTCAGTAATTTTATCAAATCGAGGGTA
1 TATTTCAGTAATTCTAT-AAATCGAGGGTA
21359298 TTTCAGTAAT
Statistics
Matches: 154, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
78 2 0.01
79 4 0.03
80 1 0.01
81 131 0.85
82 15 0.10
83 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (81 bp):
TATTTCAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGTAA
TTCTATAAATCAGGAA
Found at i:21359323 original size:27 final size:27
Alignment explanation
Indices: 21359268--21359442 Score: 187
Period size: 27 Copynumber: 6.5 Consensus size: 27
21359258 CTTATAGGAA
21359268 TATTTCAGTAATTTTATCAAA-TCGAGGG
1 TATTTCAGTAATTTTA-CAAACT-GAGGG
*
21359296 TATTTCAGTAATTTTGCAAACTGAGGG
1 TATTTCAGTAATTTTACAAACTGAGGG
* *
21359323 TATTTCGGTAATTTTACAAATTGAGGG
1 TATTTCAGTAATTTTACAAACTGAGGG
* * *
21359350 TATTTCAGTAATTTTACAATC-AACGG
1 TATTTCAGTAATTTTACAAACTGAGGG
* * *
21359376 TATTTCGGTAATTTTATAAACTGGGGG
1 TATTTCAGTAATTTTACAAACTGAGGG
* *
21359403 TACTTT-GGTAATTTTAC-AACTGGGGG
1 TA-TTTCAGTAATTTTACAAACTGAGGG
*
21359429 TATTTCAATAATTT
1 TATTTCAGTAATTT
21359443 GGTAAACTAA
Statistics
Matches: 125, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
25 3 0.02
26 38 0.30
27 65 0.52
28 19 0.15
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAACTGAGGG
Found at i:21359431 original size:53 final size:52
Alignment explanation
Indices: 21359268--21359434 Score: 185
Period size: 53 Copynumber: 3.1 Consensus size: 52
21359258 CTTATAGGAA
* *
21359268 TATTTCAGTAATTTTATCAAATCGAGGGTATTTCAGTAATTTTGCAAACTGAGGG
1 TATTTCGGTAATTTTAT-AAAT-GAGGGTATTTCAGTAATTTTAC-AACTGAGGG
* * *
21359323 TATTTCGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAA-TCAACGG
1 TATTTCGGTAATTTTATAAA-TGAGGGTATTTCAGTAATTTTACAACT-GAGGG
* * *
21359376 TATTTCGGTAATTTTATAAACTGGGGGTACTTT-GGTAATTTTACAACTGGGGG
1 TATTTCGGTAATTTTATAAA-TGAGGGTA-TTTCAGTAATTTTACAACTGAGGG
21359429 TATTTC
1 TATTTC
21359435 AATAATTTGG
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 51 0.53
54 28 0.29
55 16 0.17
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (52 bp):
TATTTCGGTAATTTTATAAATGAGGGTATTTCAGTAATTTTACAACTGAGGG
Found at i:21360956 original size:27 final size:26
Alignment explanation
Indices: 21360919--21360984 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
21360909 AGCATGGCTG
*
21360919 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
21360945 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
21360972 CCAGAATCAGATA
1 CCAGAA-CAGATA
21360985 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:21360989 original size:27 final size:27
Alignment explanation
Indices: 21360919--21360992 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
21360909 AGCATGGCTG
* *
21360919 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
21360945 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
21360972 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
21360993 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:21360999 original size:27 final size:27
Alignment explanation
Indices: 21360943--21361000 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
21360933 GTGACAGAGT
* * *
21360943 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
21360970 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
21360997 CACC
1 CACC
21361001 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:21361205 original size:22 final size:22
Alignment explanation
Indices: 21361157--21361215 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
21361147 GTAAATACGT
*
21361157 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
21361179 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
21361201 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
21361216 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:21361382 original size:27 final size:26
Alignment explanation
Indices: 21361303--21361385 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
21361293 TCGATCGGTC
* * *
21361303 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
21361329 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
21361356 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
21361383 AAC
1 AAC
21361386 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:21361614 original size:27 final size:27
Alignment explanation
Indices: 21361584--21362022 Score: 427
Period size: 27 Copynumber: 16.3 Consensus size: 27
21361574 GGGGCAAAAT
* * * *
21361584 GGTAATTTTACCCCATAAGGGCATCTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* *
21361611 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* *
21361638 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * *
21361665 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTATAAGGGTATTTC
*
21361692 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* *
21361719 GGTAATTCTACCCTA-CAGGG-ATATCC
1 GGTAATTCTACCCTATAAGGGTAT-TTC
* * *
21361745 TGGTAATTCTACCCAACAGGGGTATTTC
1 -GGTAATTCTACCCTATAAGGGTATTTC
* *
21361773 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * * *
21361800 GATAATTCTACCCTACAGGGGTA-TCC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * *
21361826 AGGTAATTCTACCATACAGGGGTATTTC
1 -GGTAATTCTACCCTATAAGGGTATTTC
* * *
21361854 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * * *
21361881 GGTAATTGTACCCTACAAAGGTATTCC
1 GGTAATTCTACCCTATAAGGGTATTTC
*
21361908 GGTAATTCTACCCTATAGGGGTA-TTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * *
21361934 TAGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTATAAGGGTATTTC
* *
21361962 CGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
** * *
21361989 AATAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
21362016 GGTAATT
1 GGTAATT
21362023 TCACAAATCA
Statistics
Matches: 352, Mismatches: 52, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.01
26 10 0.03
27 328 0.93
28 10 0.03
29 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTATAAGGGTATTTC
Found at i:21361650 original size:54 final size:54
Alignment explanation
Indices: 21361584--21362022 Score: 515
Period size: 54 Copynumber: 8.1 Consensus size: 54
21361574 GGGGCAAAAT
* * * * *
21361584 GGTAATTTTACCCCATAAGGGCATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
21361638 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
21361692 GGTAATTCTATCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGATA-TCC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
21361745 TGGTAATTCTACCCAACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTGC
1 -GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
21361800 GATAATTCTACCCTACAGGGGTA-TCCAGGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC-GGTAATTCTACCCTACAGGGGTATTTC
* * * ** *
21361854 GGTAATTCTACCATACAGGGGTATTTCGGTAATTGTACCCTACAAAGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
21361908 GGTAATTCTACCCTATAGGGGTA-TTCTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC-GGTAATTCTACCCTACAGGGGTATTTC
* ** * *
21361962 CGTAATTCTACCCTACAAGGGTATTTCAATAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
21362016 GGTAATT
1 GGTAATT
21362023 TCACAAATCA
Statistics
Matches: 327, Mismatches: 52, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
53 6 0.02
54 314 0.96
55 7 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:21361721 original size:81 final size:81
Alignment explanation
Indices: 21361609--21362022 Score: 530
Period size: 81 Copynumber: 5.1 Consensus size: 81
21361599 TAAGGGCATC
* * * *
21361609 TCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCT
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCT
*
21361674 ACCCTATAGGGGTATT
66 ACCCTACAGGGGTATT
* * *
21361690 TTGGTAATTCTATCCTATAAGGGTATTTCGGTAATTCTACCCTAC-AGGG-ATATCCTGGTAATT
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTAT-TCC-GGTAATT
*
21361753 CTACCCAACAGGGGTATT
64 CTACCCTACAGGGGTATT
* * *
21361771 TCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTA-TCCAGGTAATTC
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCC-GGTAATTC
*
21361835 TACCATACAGGGGTATT
65 TACCCTACAGGGGTATT
* * * *
21361852 TCGGTAATTCTACCATACAGGGGTATTTCGGTAATTGTACCCTACAAAGGTATTCCGGTAATTCT
1 TCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCT
*
21361917 ACCCTATAGGGGTA-T
66 ACCCTACAGGGGTATT
* * * * **
21361932 TCTAGTAATTCTACCCTACAGGGGTATTTCCGTAATTCTACCCTACAAGGGTATTTCAATAATTC
1 TC-GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTC
* *
21361997 TATCCTACAAGGGTATT
65 TACCCTACAGGGGTATT
21362014 TCGGTAATT
1 TCGGTAATT
21362023 TCACAAATCA
Statistics
Matches: 287, Mismatches: 39, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
79 2 0.01
80 9 0.03
81 266 0.93
82 9 0.03
83 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (81 bp):
TCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCT
ACCCTACAGGGGTATT
Found at i:21362078 original size:27 final size:27
Alignment explanation
Indices: 21362007--21362103 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
21361997 TATCCTACAA
* *
21362007 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
21362034 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
***
21362061 GGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTACAAATCAG
21362087 AGGGTATTTTGGTAATT
1 -GGGTATTTTGGTAATT
21362104 CTGTAAACCA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 2 0.03
27 59 0.95
28 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:21362120 original size:54 final size:54
Alignment explanation
Indices: 21362008--21362164 Score: 145
Period size: 54 Copynumber: 2.9 Consensus size: 54
21361998 ATCCTACAAG
* * * * ** * **
21362008 GGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTCAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTCTGTAAACCAAA
** **
21362062 GGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTCTGTAAACCAAA
1 GGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTCTGTAAACCAAA
* ***
21362116 GGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAA
1 GGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTCTGTAAA
21362165 TCGAGGGTAA
Statistics
Matches: 83, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
54 82 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTCTGTAAACCAAA
Found at i:21362146 original size:27 final size:27
Alignment explanation
Indices: 21362125--21362402 Score: 412
Period size: 27 Copynumber: 10.3 Consensus size: 27
21362115 AGGTATTTCA
*
21362125 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
21362152 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
21362179 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
21362206 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
21362233 GTAATTCTGTAAATCGAGGGTAAGACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
21362260 GTAATTCTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
21362287 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
21362314 ATAATTCTATAAATCGAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* ** *
21362341 GTAATTCTATAAATCTTGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
21362368 ATAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
21362395 GTAATTCT
1 GTAATTCT
21362403 ATCTTACAGG
Statistics
Matches: 227, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 227 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:21362523 original size:26 final size:27
Alignment explanation
Indices: 21362415--21362588 Score: 178
Period size: 27 Copynumber: 6.5 Consensus size: 27
21362405 CTTACAGGAA
21362415 TATTTCAGTAATTTTACAAATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
*
21362442 TATTTCAGTAATTTTGCAAA-CTGAGGG
1 TATTTCAGTAATTTTACAAATC-GAGGG
* *
21362469 TATTTCTGTAATTTTACAAATCGATGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* * *
21362496 TATTTTAGTAATTTTAC-AATCAACGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* * *
21362522 TATTTCGGTAATTTTATAAACCG-GAGG
1 TATTTCAGTAATTTTACAAATCGAG-GG
* * *
21362549 TACTTT-GGTAATTTTACAACT-GGGGG
1 TA-TTTCAGTAATTTTACAAATCGAGGG
21362575 TATTTCAGTAATTT
1 TATTTCAGTAATTT
21362589 GGTAAACTAA
Statistics
Matches: 122, Mismatches: 18, Indels: 15
0.79 0.12 0.10
Matches are distributed among these distances:
25 3 0.02
26 34 0.28
27 81 0.66
28 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:21362577 original size:53 final size:52
Alignment explanation
Indices: 21362415--21362588 Score: 190
Period size: 53 Copynumber: 3.3 Consensus size: 52
21362405 CTTACAGGAA
*
21362415 TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGGTATTT-AGTAATTTTAC-AACTGAGGG
* * * *
21362469 TATTTCTGTAATTTTACAAATCGATGGTATTTTAGTAATTTTACAA-TCAACGG
1 TATTTCAGTAATTTTACAAATCGAGGGTA-TTTAGTAATTTTACAACT-GAGGG
* * * * *
21362522 TATTTCGGTAATTTTATAAACCG-GAGGTACTTTGGTAATTTTACAACTGGGGG
1 TATTTCAGTAATTTTACAAATCGAG-GGTA-TTTAGTAATTTTACAACTGAGGG
21362575 TATTTCAGTAATTT
1 TATTTCAGTAATTT
21362589 GGTAAACTAA
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 59 0.58
54 38 0.38
55 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (52 bp):
TATTTCAGTAATTTTACAAATCGAGGGTATTTAGTAATTTTACAACTGAGGG
Found at i:21374681 original size:47 final size:47
Alignment explanation
Indices: 21374571--21374887 Score: 244
Period size: 47 Copynumber: 6.8 Consensus size: 47
21374561 ATTATTGTTG
* * *
21374571 GCTAGTGTAAGACATGTCCGGGACAT-ACATCGGCCACATT---ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGG---CATTGAGACGAGA
* *
21374617 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGGGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGACGAGA
21374665 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTG-GAACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAG-ACGAGA
* * * ***
21374712 GCTAGTGTAAGACATGTCTGGAACAT-GTATTGGCCCCGAGACGTAG-
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG-AGA
* * * *
21374758 GCCT-GTGTAAGACATGTTTGGGACAT-GCATCGG-TTATGAGATGATA
1 G-CTAGTGTAAGACATGTCTGGGACATGGCATCGGCAT-TGAGACGAGA
* * * * *
21374804 GTTAGTGTAAGACCATGTCTAGGACATGGCAT-TG-ATTTGAGATGTGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA-TTGAGACGAGA
* * *
21374851 GCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
21374888 CCTTACCCAC
Statistics
Matches: 222, Mismatches: 32, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
45 6 0.03
46 62 0.28
47 125 0.56
48 28 0.13
49 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACGAGA
Found at i:21374732 original size:94 final size:92
Alignment explanation
Indices: 21374571--21374887 Score: 263
Period size: 93 Copynumber: 3.4 Consensus size: 92
21374561 ATTATTGTTG
* * *
21374571 GCTAGTGTAAGACATGTCCGGGACATACATCGGCCACATT--ATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGAATGAGAGCTAGTGTAAGACCATG
*
21374634 TCTGGGACATGGCATCGGCATTGGGACGAGA
63 TCTGGGACATGGCAT-GGCATTGAGACGAGA
*
21374665 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGGAACGAGAGCTAGTGTAAGA-CATGT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATT-GAATGAGAGCTAGTGTAAGACCATGT
* * ***
21374729 CTGGAACAT-GTATTGGCCCCGAGACGTAG-
64 CTGGGACATGGCA-TGGCATTGAGACG-AGA
* * * *
21374758 GCCT-GTGTAAGACATGTTTGGGACATGCATCGG-TTATGAGATGATAGTTAGTGTAAGACCATG
1 G-CTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGA-ATGAGAGCTAGTGTAAGACCATG
* * * *
21374821 TCTAGGACATGGCATTG-ATTTGAGATGTGA
63 TCTGGGACATGGCATGGCA-TTGAGACGAGA
* * *
21374851 GCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
21374888 CCTTACCCAC
Statistics
Matches: 179, Mismatches: 27, Indels: 32
0.75 0.11 0.13
Matches are distributed among these distances:
91 3 0.02
92 29 0.16
93 60 0.34
94 59 0.33
95 28 0.16
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAATGAGAGCTAGTGTAAGACCATGTCT
GGGACATGGCATGGCATTGAGACGAGA
Found at i:21379837 original size:27 final size:26
Alignment explanation
Indices: 21379802--21379911 Score: 121
Period size: 27 Copynumber: 4.1 Consensus size: 26
21379792 AGCATGGCTG
*
21379802 CCAGAACAGATAATGTGGCAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
21379828 CCAGATACAGATAGTCATGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
21379856 CCAGAACAGATAGATGTGGCAGAGCCT
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
21379883 CCAGATCAGATGATTGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
21379910 CC
1 CC
21379912 TGGACACTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
26 5 0.07
27 48 0.69
28 17 0.24
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:21388007 original size:27 final size:27
Alignment explanation
Indices: 21387935--21388045 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
21387925 AGCATGGTTG
* * *
21387935 CCAGAACAAATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
21387961 CCAGATACAGATAGT-CGTGGTAGAGCCA
1 CCAGA-ACAGATA-TATGTGGCAGAGCCA
*
21387989 CCAGAACAGATATATGTGGCAGAGCCT
1 CCAGAACAGATATATGTGGCAGAGCCA
* * * *
21388016 CCAGATCAGATATTTGTGGCATAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
21388043 CCA
1 CCA
21388046 AGACACTTCC
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
26 6 0.09
27 48 0.71
28 14 0.21
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:21388045 original size:54 final size:54
Alignment explanation
Indices: 21387935--21388045 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 54
21387925 AGCATGGTTG
* *
21387935 CCAGAACAAATAATGTGACAGAGTCACCAGATACAGATAGTCGTGGTAGAGCCA
1 CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAGTCGTGGCAGAGCCA
* * * * * * *
21387989 CCAGAACAGATATATGTGGCAGAGCCTCCAGAT-CAGATATTTGTGGCATAGTCA
1 CCAGAACAAATA-ATGTGACAGAGCCACCAGATACAGATAGTCGTGGCAGAGCCA
21388043 CCA
1 CCA
21388046 AGACACTTCC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (54 bp):
CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAGTCGTGGCAGAGCCA
Found at i:21388484 original size:16 final size:15
Alignment explanation
Indices: 21388463--21388492 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21388453 AAAATATCGA
21388463 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
21388479 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
21388493 CCGATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:21392947 original size:48 final size:45
Alignment explanation
Indices: 21392851--21393070 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 45
21392841 GTTATTGTTT
** * *** * *
21392851 GCTAGTGTAAGACATGTCCAGGACATGCATCGACCACATTAGGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTGA-GACGAGA
21392897 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TTGAGACGAGA
* * * *
21392945 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGAGGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCTTGAGACG-AGA
* * *
21392991 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-TTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTT--GAGACGAGA
21393037 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCG
21393071 ATACCTTACC
Statistics
Matches: 145, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 69 0.48
47 42 0.29
48 30 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTGAGACGAGA
Found at i:21393031 original size:46 final size:47
Alignment explanation
Indices: 21392893--21393070 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 47
21392883 ACCACATTAG
*
21392893 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-GAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--TTCGAGAC
* * ** *
21392941 GAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCGAGAG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGTTCGAGAC
*
21392987 GTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTACGAGAT
1 G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTT-CGAGAC
* *
21393033 GATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
21393071 ATACCTTACC
Statistics
Matches: 113, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
45 4 0.04
46 58 0.51
47 29 0.26
48 22 0.19
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTTCGAGAC
Found at i:21396848 original size:27 final size:27
Alignment explanation
Indices: 21396817--21396994 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21396807 TAAATTGTAC
21396817 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21396844 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21396870 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21396898 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21396926 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21396953 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21396980 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21396995 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21396931 original size:82 final size:81
Alignment explanation
Indices: 21396818--21396973 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21396808 AAATTGTACA
* *
21396818 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21396882 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21396899 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21396964 TGCGAGTTGA
65 TGCGAATTGA
21396974 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21396985 original size:82 final size:81
Alignment explanation
Indices: 21396814--21396994 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21396804 GATTAAATTG
* *
21396814 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21396879 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21396895 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21396959 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21396977 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21396995 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21398966 original size:52 final size:52
Alignment explanation
Indices: 21398834--21398991 Score: 192
Period size: 53 Copynumber: 3.0 Consensus size: 52
21398824 GGTGCTGAAT
* * * * *
21398834 AAAATCATATTGTGTAAGACCGTAACTGGTAGGTTATGGCATCATATGAGAA
1 AAAATCATATCGTGTAAGACCATAACTAGTGGGTTATGGCATCATATGGGAA
** * * *
21398886 GAAGGTCAAATCGTGTAAGACCATAACTACTGGGTTATGGCATCATGTGGGAA
1 -AAAATCATATCGTGTAAGACCATAACTAGTGGGTTATGGCATCATATGGGAA
* *
21398939 AAAATCATATCGTGTAAGACTATAACTAGTGGGTTATAGCATCATAT-GGAA
1 AAAATCATATCGTGTAAGACCATAACTAGTGGGTTATGGCATCATATGGGAA
21398990 AA
1 AA
21398992 TTTTAAAGAA
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
51 6 0.07
52 40 0.45
53 42 0.48
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAATCATATCGTGTAAGACCATAACTAGTGGGTTATGGCATCATATGGGAA
Found at i:21399218 original size:57 final size:58
Alignment explanation
Indices: 21399143--21399303 Score: 191
Period size: 57 Copynumber: 2.8 Consensus size: 58
21399133 AAAGATACCT
21399143 TTGTGGAAAAACTCTGGAAAGGCAAGAATTTGTGGCGAACCTATTAAAGGA-AACCCC
1 TTGTGGAAAAACTCTGGAAAGGCAAGAATTTGTGGCGAACCTATTAAAGGACAACCCC
* * * * **
21399200 TTGTGGCAAAAGTTTGGAAAGGTAAGCCTTTGTGGCGAACCTATTAAAGGACAA-CCC
1 TTGTGGAAAAACTCTGGAAAGGCAAGAATTTGTGGCGAACCTATTAAAGGACAACCCC
* * * ** * *
21399257 TTATGGAAAAACTCTAGAAAGGTAAGCCTTTGTGGCAAACCTGTTAA
1 TTGTGGAAAAACTCTGGAAAGGCAAGAATTTGTGGCGAACCTATTAA
21399304 GGGCAGCCTT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 88 0.98
58 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (58 bp):
TTGTGGAAAAACTCTGGAAAGGCAAGAATTTGTGGCGAACCTATTAAAGGACAACCCC
Found at i:21399258 original size:29 final size:28
Alignment explanation
Indices: 21399171--21399258 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 28
21399161 AAGGCAAGAA
21399171 TTTGTGGCGAACCTATTAAAGGAAACCC
1 TTTGTGGCGAACCTATTAAAGGAAACCC
* * ** * *
21399199 CTTGTGGCAAAAGT-TTGGAAAGGTAAGCC
1 TTTGTGGCGAACCTATT--AAAGGAAACCC
21399228 TTTGTGGCGAACCTATTAAAGGACAACCC
1 TTTGTGGCGAACCTATTAAAGGA-AACCC
21399257 TT
1 TT
21399259 ATGGAAAAAC
Statistics
Matches: 44, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
27 2 0.05
28 15 0.34
29 25 0.57
30 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (28 bp):
TTTGTGGCGAACCTATTAAAGGAAACCC
Found at i:21399296 original size:28 final size:28
Alignment explanation
Indices: 21399140--21399296 Score: 68
Period size: 29 Copynumber: 5.5 Consensus size: 28
21399130 TTTAAAGATA
* *
21399140 CCTTTGTGGAAAAACTCTGGAAAGGCAAG
1 CCTTTGTGG-CAAACTCTAGAAAGGCAAG
** * * * *
21399169 AATTTGTGGCGAAC-CTATTAAAGGAAAC
1 CCTTTGTGGCAAACTCTA-GAAAGGCAAG
* * * * *
21399197 CCCTTGTGGCAAAAGTTTGGAAAGGTAAG
1 CCTTTGTGGC-AAACTCTAGAAAGGCAAG
* * *
21399226 CCTTTGTGGCGAAC-CTATTAAAGGACAAC
1 CCTTTGTGGCAAACTCTA-GAAAGG-CAAG
** *
21399255 CCTTATG-GAAAAACTCTAGAAAGGTAAG
1 CCTT-TGTGGCAAACTCTAGAAAGGCAAG
21399283 CCTTTGTGGCAAAC
1 CCTTTGTGGCAAAC
21399297 CTGTTAAGGG
Statistics
Matches: 86, Mismatches: 34, Indels: 17
0.63 0.25 0.12
Matches are distributed among these distances:
27 5 0.06
28 35 0.41
29 40 0.47
30 6 0.07
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (28 bp):
CCTTTGTGGCAAACTCTAGAAAGGCAAG
Found at i:21402282 original size:46 final size:45
Alignment explanation
Indices: 21402225--21402315 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 45
21402215 TGCCAACGAT
21402225 GCTAGCACACAGCCTCTAATCAATTAAATCCCTAATTATCAAACTA
1 GCTAGCACACAGCCTCTAATCAATTAAAT-CCTAATTATCAAACTA
*
21402271 GCTAGCTCACAGCCTCTAATCAATTAAATCCTAATTATCAAACTA
1 GCTAGCACACAGCCTCTAATCAATTAAATCCTAATTATCAAACTA
21402316 AGTCATTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 16 0.36
46 28 0.64
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.27
Consensus pattern (45 bp):
GCTAGCACACAGCCTCTAATCAATTAAATCCTAATTATCAAACTA
Found at i:21403877 original size:39 final size:39
Alignment explanation
Indices: 21403825--21403985 Score: 189
Period size: 39 Copynumber: 4.2 Consensus size: 39
21403815 GACTTTAGCA
* * * *
21403825 CGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
* * *
21403864 CGGTTATAATTCCAGCACATATCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
* * * * *
21403903 TGGATATAATTCCAGTACATAGCCTGTGGGCCCT-ACTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
* *
21403941 CGAATATAATTCCAGCACATAGCCTACGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
21403980 CGGATA
1 CGGATA
21403986 AACATCACTG
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
38 31 0.31
39 69 0.69
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (39 bp):
CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
Found at i:21411909 original size:39 final size:39
Alignment explanation
Indices: 21411852--21412013 Score: 236
Period size: 39 Copynumber: 4.2 Consensus size: 39
21411842 GGACTTTAGC
* * * * *
21411852 CCGGACATATTTCTAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* * *
21411891 CCGGTTATAATTCCAGCACATAGCTTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
21411930 CCGGATATAATTCCAGCACATAGTCTGCGGACCCT-AGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
21411968 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
21412007 CCGGATA
1 CCGGATA
21412014 AACATCACTG
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
38 37 0.33
39 74 0.67
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:21411997 original size:77 final size:78
Alignment explanation
Indices: 21411852--21412013 Score: 236
Period size: 77 Copynumber: 2.1 Consensus size: 78
21411842 GGACTTTAGC
* * * * * * *
21411852 CCGGACATATTTCTAGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACATAGCTT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
*
21411917 GCGGACCTTAAGT
66 GCGGACCCTAAGT
*
21411930 CCGGATATAATTCCAGCACATAGTCTGCGGACCCT-AGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
21411994 GCGGACCCTAAGT
66 GCGGACCCTAAGT
21412007 CCGGATA
1 CCGGATA
21412014 AACATCACTG
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
77 46 0.61
78 29 0.39
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:21416234 original size:122 final size:122
Alignment explanation
Indices: 21415995--21416300 Score: 476
Period size: 122 Copynumber: 2.5 Consensus size: 122
21415985 CAAGCTCAAT
* * * *
21415995 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGG--A
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCAC-AATTGCCTTCGGGTCTTAGCCCGGATA
* * *
21416057 TATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
65 TATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
21416115 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
21416180 ATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
66 ATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
21416237 TGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 TGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATA
21416301 AAATTCAAAT
Statistics
Matches: 172, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
119 2 0.01
120 54 0.31
122 112 0.65
123 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (122 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
ATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:21416304 original size:40 final size:40
Alignment explanation
Indices: 21415995--21416300 Score: 461
Period size: 40 Copynumber: 7.6 Consensus size: 40
21415985 CAAGCTCAAT
* * * *
21415995 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
21416035 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
*
21416075 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* *
21416115 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
21416155 TGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCACAAA
*
21416197 TGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
* * *
21416237 TGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAA
*
21416277 TGCCTTCGGGACTTAGCCCGGATA
1 TGCCTTCGGGTCTTAGCCCGGATA
21416301 AAATTCAAAT
Statistics
Matches: 249, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.00
40 207 0.83
41 4 0.02
42 37 0.15
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
Found at i:21424049 original size:37 final size:37
Alignment explanation
Indices: 21423999--21424077 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21423989 TTATTACGAA
* * *
21423999 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21424036 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21424073 GTCTT
1 GTCTT
21424078 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21424323 original size:49 final size:49
Alignment explanation
Indices: 21424196--21424560 Score: 616
Period size: 49 Copynumber: 7.6 Consensus size: 49
21424186 CCCTTCGGGA
* * * * *
21424196 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21424243 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21424290 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21424339 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21424388 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21424437 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21424486 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21424535 CTTATCAC--ATATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
21424561 ATGGGTTTAA
Statistics
Matches: 304, Mismatches: 10, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 61 0.20
49 242 0.80
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21430036 original size:21 final size:20
Alignment explanation
Indices: 21430002--21430041 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
21429992 CCCTTGAAAC
*
21430002 AGGGCACACGCCCGTGTGGA
1 AGGGCACACACCCGTGTGGA
21430022 AGGGCAACACACCCGTGTGG
1 AGGGC-ACACACCCGTGTGG
21430042 CTATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:21431470 original size:46 final size:45
Alignment explanation
Indices: 21431411--21431536 Score: 182
Period size: 46 Copynumber: 2.8 Consensus size: 45
21431401 ATATCGCGAG
*
21431411 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCT--AT
*
21431457 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATGCTAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTAT
* *
21431502 GTCTGATGCATGTCCTAGACATGTCTTACACTAGC
1 G-CCGATGCATGTCCCAGACATGTCTTACACTAGC
21431537 ACACATATCA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
45 3 0.04
46 68 0.93
47 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTAT
Found at i:21433636 original size:19 final size:19
Alignment explanation
Indices: 21433600--21433638 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
21433590 TTAGGCTCTA
*
21433600 ATCAATTAAATCCCTAATT
1 ATCAATTAAATCACTAATT
* *
21433619 ATCAATTAAGTCATTAATT
1 ATCAATTAAATCACTAATT
21433638 A
1 A
21433639 CCCTTAATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (19 bp):
ATCAATTAAATCACTAATT
Found at i:21436431 original size:21 final size:20
Alignment explanation
Indices: 21436407--21436458 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
21436397 ATATTCAAGT
* *
21436407 TGTTCGTTTGTTTATGCTTTG
1 TGTT-GTTTGATTATACTTTG
21436428 TGTTGGTTTGATTATACTTTG
1 TGTT-GTTTGATTATACTTTG
21436449 TAGTTGTTTG
1 T-GTTGTTTG
21436459 GACCTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.10, C:0.06, G:0.25, T:0.60
Consensus pattern (20 bp):
TGTTGTTTGATTATACTTTG
Found at i:21448489 original size:46 final size:44
Alignment explanation
Indices: 21448430--21448544 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
21448420 ACAGGACAGA
* *
21448430 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
21448476 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
21448520 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
21448545 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:21448525 original size:44 final size:45
Alignment explanation
Indices: 21448430--21448563 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
21448420 ACAGGACAGA
* *
21448430 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
21448476 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
21448520 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
21448564 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:21457703 original size:25 final size:25
Alignment explanation
Indices: 21457674--21457724 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
21457664 ATCAATATTA
21457674 TCCCATGAAAATTCATATTTCTGGT
1 TCCCATGAAAATTCATATTTCTGGT
21457699 TCCCATGAAAATTCATATTTCTGGT
1 TCCCATGAAAATTCATATTTCTGGT
21457724 T
1 T
21457725 TTATCTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (25 bp):
TCCCATGAAAATTCATATTTCTGGT
Found at i:21467307 original size:28 final size:27
Alignment explanation
Indices: 21467244--21467312 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 27
21467234 ATATTAAGTC
*
21467244 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
21467271 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
21467299 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21467313 CAATCTCATG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:21487764 original size:46 final size:46
Alignment explanation
Indices: 21487714--21487889 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
21487704 TGGTTGAGCA
21487714 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21487760 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21487805 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21487853 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21487890 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21487870 original size:93 final size:93
Alignment explanation
Indices: 21487711--21487882 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21487701 GGATGGTTGA
* *
21487711 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21487776 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21487804 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21487869 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21487883 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21491525 original size:17 final size:17
Alignment explanation
Indices: 21491504--21491542 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
21491494 ATATGTTCTA
21491504 ATATGAAATATGATATG
1 ATATGAAATATGATATG
* * *
21491521 CTATGACATGTGATATG
1 ATATGAAATATGATATG
21491538 ATATG
1 ATATG
21491543 TTCTGACATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (17 bp):
ATATGAAATATGATATG
Found at i:21491533 original size:44 final size:44
Alignment explanation
Indices: 21491470--21491608 Score: 154
Period size: 44 Copynumber: 3.2 Consensus size: 44
21491460 GGGTAGGATT
*
21491470 TGATATGCTATGATATGTGATAAGATATGTTCTAATATGAAATA
1 TGATATGCTATGAAATGTGATAAGATATGTTCTAATATGAAATA
* * * * * *
21491514 TGATATGCTATGACATGTGATATGATATGTTCTGACATGATACA
1 TGATATGCTATGAAATGTGATAAGATATGTTCTAATATGAAATA
* * * * *
21491558 TGATATGCTATGAAATGTTACTTAG-TATATTCCAATATGAAATT
1 TGATATGCTATGAAATGTGA-TAAGATATGTTCTAATATGAAATA
21491602 TGATATG
1 TGATATG
21491609 AAATGATATA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 75 0.97
45 2 0.03
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (44 bp):
TGATATGCTATGAAATGTGATAAGATATGTTCTAATATGAAATA
Found at i:21491549 original size:22 final size:22
Alignment explanation
Indices: 21491470--21491575 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
21491460 GGGTAGGATT
*
21491470 TGATATGCTATGATATGTGATA
1 TGATATGCTATGACATGTGATA
* * * * * **
21491492 AGATATGTTCTAATATGAAATA
1 TGATATGCTATGACATGTGATA
21491514 TGATATGCTATGACATGTGATA
1 TGATATGCTATGACATGTGATA
* * *
21491536 TGATATGTTCTGACATGAT-ACA
1 TGATATGCTATGACATG-TGATA
*
21491558 TGATATGCTATGAAATGT
1 TGATATGCTATGACATGT
21491576 TACTTAGTAT
Statistics
Matches: 64, Mismatches: 19, Indels: 3
0.74 0.22 0.03
Matches are distributed among these distances:
21 1 0.02
22 62 0.97
23 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.38
Consensus pattern (22 bp):
TGATATGCTATGACATGTGATA
Found at i:21493112 original size:18 final size:17
Alignment explanation
Indices: 21493089--21493125 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
21493079 AATATTTTTT
21493089 TTATAAATGTTATATATA
1 TTATAAATGTTATAT-TA
*
21493107 TTATAAATTTTATATTA
1 TTATAAATGTTATATTA
21493124 TT
1 TT
21493126 TTTACTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTATAAATGTTATATTA
Found at i:21495170 original size:9 final size:9
Alignment explanation
Indices: 21495156--21495189 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
21495146 GATTTATTCT
*
21495156 ATTAATTTA
1 ATTAATTAA
21495165 ATTAATTAA
1 ATTAATTAA
*
21495174 ATTAACTAA
1 ATTAATTAA
21495183 ATTAATT
1 ATTAATT
21495190 TCCAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATTAA
Found at i:21496507 original size:49 final size:49
Alignment explanation
Indices: 21496435--21496533 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
21496425 TTTGGAAGTT
21496435 AGAATCTATAGAACCGAAAAGAGTAAGACCTTTTTTGGAATACACAAGC
1 AGAATCTATAGAACCGAAAAGAGTAAGACCTTTTTTGGAATACACAAGC
21496484 AGAATCTATAGAACCGAAAAGAGTAAGACCTTTTTTGGAATACACAAGC
1 AGAATCTATAGAACCGAAAAGAGTAAGACCTTTTTTGGAATACACAAGC
21496533 A
1 A
21496534 TATAATCCCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.22
Consensus pattern (49 bp):
AGAATCTATAGAACCGAAAAGAGTAAGACCTTTTTTGGAATACACAAGC
Found at i:21509135 original size:15 final size:15
Alignment explanation
Indices: 21509115--21509147 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
21509105 TGTATCGGTA
*
21509115 AAAGCCGAAATGCTG
1 AAAGCCGAAATGCCG
21509130 AAAGCCGAAATGCCG
1 AAAGCCGAAATGCCG
21509145 AAA
1 AAA
21509148 AGTCGAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.09
Consensus pattern (15 bp):
AAAGCCGAAATGCCG
Found at i:21509421 original size:29 final size:28
Alignment explanation
Indices: 21509371--21509480 Score: 141
Period size: 29 Copynumber: 3.9 Consensus size: 28
21509361 CATGATTATG
* *
21509371 AATGTGATTGGGCATAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
21509399 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
*
21509428 CAA-GTGATTTGGGCCTAATGGGCCATATG
1 -AATGTGA-TTGGGCCTAATGGGCCATATA
* *
21509457 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
21509481 AATACAAGTA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
28 25 0.34
29 47 0.64
30 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:21509476 original size:57 final size:57
Alignment explanation
Indices: 21509374--21509489 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
21509364 GATTATGAAT
* *
21509374 GTGATTGGGCATAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAA
1 GTGATTGGGCATAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAA
* * * *
21509431 GTGATTTGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAAATACAA
1 GTGA-TTGGGCATAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAA
21509488 GT
1 GT
21509490 ATGTGAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 28 0.54
58 24 0.46
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (57 bp):
GTGATTGGGCATAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAA
Found at i:21514214 original size:23 final size:23
Alignment explanation
Indices: 21514177--21514326 Score: 123
Period size: 23 Copynumber: 6.6 Consensus size: 23
21514167 TGAGCTAATG
* *
21514177 AACAATAATCTCTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
*
21514200 AACGGTAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
*
21514223 TACAGTAAGCTCT-TTCGAGCTG-
1 AACAGTAAGCTCTATT-GAGCTGA
*
21514245 AACAGCAAGCTCT-TTCGAGCTG-
1 AACAGTAAGCTCTATT-GAGCTGA
* * *
21514267 AACAGAAAGCTC-ATAGGAGCTAA
1 AACAGTAAGCTCTAT-TGAGCTGA
* *
21514290 AACGGTAAGCT-TCAATGAGCTGAA
1 AACAGTAAGCTCT-ATTGAGCTG-A
21514314 AACAGTAAGCTCT
1 AACAGTAAGCTCT
21514327 TACGAGCTGA
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
22 39 0.38
23 51 0.50
24 12 0.12
25 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:21514287 original size:22 final size:22
Alignment explanation
Indices: 21514206--21514278 Score: 103
Period size: 22 Copynumber: 3.3 Consensus size: 22
21514196 CTGAAACGGT
*
21514206 AAGCTCTATT-GAGCTGATACAGT
1 AAGCTCT-TTCGAGCTGA-ACAGA
*
21514229 AAGCTCTTTCGAGCTGAACAGC
1 AAGCTCTTTCGAGCTGAACAGA
21514251 AAGCTCTTTCGAGCTGAACAGA
1 AAGCTCTTTCGAGCTGAACAGA
21514273 AAGCTC
1 AAGCTC
21514279 ATAGGAGCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
22 33 0.70
23 14 0.30
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (22 bp):
AAGCTCTTTCGAGCTGAACAGA
Found at i:21514300 original size:45 final size:45
Alignment explanation
Indices: 21514193--21514334 Score: 119
Period size: 45 Copynumber: 3.1 Consensus size: 45
21514183 AATCTCTATT
* * *
21514193 GAGCTGAAACGGTAAGCTCTATTGAGCTGATACAGTAAGCTCTTTC
1 GAGCT-AAACGGTAAGCTCTATTGAGCTGATACAGAAAGCTCATAC
* * * *
21514239 GAGCTGAACAGCAAGCTCT-TTCGAGCTGA-ACAGAAAGCTCATAG
1 GAGCTAAACGGTAAGCTCTATT-GAGCTGATACAGAAAGCTCATAC
* * * *
21514283 GAGCTAAAACGGTAAGCT-TCAATGAGCTGAAAACAGTAAGCTCTTAC
1 GAGCT-AAACGGTAAGCTCT-ATTGAGCTG-ATACAGAAAGCTCATAC
21514330 GAGCT
1 GAGCT
21514335 GATATATCGG
Statistics
Matches: 76, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
44 19 0.25
45 33 0.43
46 7 0.09
47 17 0.22
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
GAGCTAAACGGTAAGCTCTATTGAGCTGATACAGAAAGCTCATAC
Found at i:21523125 original size:40 final size:40
Alignment explanation
Indices: 21523073--21523221 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 40
21523063 ATTACCACAA
* *
21523073 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGACATAGCAACTC
* * * *
21523113 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGACATAGCAACTC
* * * * *
21523153 GCACAAATGCCTTCGGGTCTTAGCCCAGATCAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGA-CATAGCAACTC
* *
21523193 GCACAAATGCCTTCGGGACTTAGCCCGGA
1 GCACAAATGCCTTCGGGTCTTAACCCGGA
21523222 TCTCATTCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 91 0.96
41 4 0.04
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGACATAGCAACTC
Found at i:21523157 original size:80 final size:80
Alignment explanation
Indices: 21523073--21523222 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
21523063 ATTACCACAA
* * * * * *
21523073 GCACAATTGCCTTCGGGTCTTAACCC-GGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCAGAGCAAAGC-ACTAGCACAAATGCCTTCGGGACTTAGC
21523137 CCGGATATATCAACTC
65 CCGGATATATCAACTC
* * *
21523153 GCACAAATGCCTTCGGGTCTTAGCCCAGATCAAATCACTAGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCAGAGCAAAGCACTAGCACAAATGCCTTCGGGACTTAGCC
21523218 CGGAT
66 CGGAT
21523223 CTCATTCAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
80 55 0.92
81 5 0.08
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.23
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGAGCAAAGCACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATATATCAACTC
Found at i:21536554 original size:49 final size:49
Alignment explanation
Indices: 21536479--21536577 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
21536469 ATCCGACCCA
* *
21536479 TGATCTCGAACTAGCTACCATCGTGTTTACTTTAAAAATATGGCGACAT
1 TGATCTCGAACTAGCCACCATCGTGTTTACATTAAAAATATGGCGACAT
* * * *
21536528 TGATCTCGAACTAGCCGCCATTGTGTTTGCATTGAAAATATGGCGACAT
1 TGATCTCGAACTAGCCACCATCGTGTTTACATTAAAAATATGGCGACAT
21536577 T
1 T
21536578 ATTTGTTTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (49 bp):
TGATCTCGAACTAGCCACCATCGTGTTTACATTAAAAATATGGCGACAT
Found at i:21536972 original size:45 final size:45
Alignment explanation
Indices: 21536921--21537007 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
21536911 TTCCGAACGA
21536921 GGAATCGGAGTTTCAAAGTGATGATGATGATTGTTTGAGGTTCAG
1 GGAATCGGAGTTTCAAAGTGATGATGATGATTGTTTGAGGTTCAG
* * *
21536966 GGAATCGGAGTTTCAGATTGATGATGATGGTTGTTTGAGGTT
1 GGAATCGGAGTTTCAAAGTGATGATGATGATTGTTTGAGGTT
21537008 TAGAAGTCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.24, C:0.06, G:0.34, T:0.36
Consensus pattern (45 bp):
GGAATCGGAGTTTCAAAGTGATGATGATGATTGTTTGAGGTTCAG
Found at i:21538076 original size:55 final size:55
Alignment explanation
Indices: 21537987--21538095 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 55
21537977 GTTCATCGGT
* *
21537987 CCGTACGAAGTATCCGAACGAGTTGGACCCGTTGCATACCGATTAATTTTGCCCG
1 CCGTACGAAATATCCGAACGAGTTGGACCCGTTGCATACAGATTAATTTTGCCCG
* * * * * *
21538042 CCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCGTATAGATTGATTTTGCCC
1 CCGTACGAAATATCCGAACGAGTTGGACCCGTTGCATACAGATTAATTTTGCCC
21538096 CCGGAGCTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.28
Consensus pattern (55 bp):
CCGTACGAAATATCCGAACGAGTTGGACCCGTTGCATACAGATTAATTTTGCCCG
Found at i:21538495 original size:37 final size:37
Alignment explanation
Indices: 21538445--21538520 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
21538435 AGTCGGGAAG
21538445 TGGTTTCGGGACCGCTAAACCGAGTCACCAAAATGTT
1 TGGTTTCGGGACCGCTAAACCGAGTCACCAAAATGTT
*
21538482 TGGTTTCGGGACCGCTAAACCGAGTCACCGAAATGTT
1 TGGTTTCGGGACCGCTAAACCGAGTCACCAAAATGTT
21538519 TG
1 TG
21538521 AATGTGATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (37 bp):
TGGTTTCGGGACCGCTAAACCGAGTCACCAAAATGTT
Found at i:21539159 original size:70 final size:70
Alignment explanation
Indices: 21539046--21539186 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
21539036 GGAAAGAAGA
*
21539046 AGAAATGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGA
1 AGAAAGGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGA
21539111 GATGC
66 GATGC
21539116 AGAAAGGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGA
1 AGAAAGGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGA
21539181 GATGC
66 GATGC
21539186 A
1 A
21539187 TGCATGTTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (70 bp):
AGAAAGGTGAAGAGATTCGGCCATGCATGTAGCTAGGCTAAGGTATGTTTGATGATGTTCCATGA
GATGC
Found at i:21540112 original size:40 final size:40
Alignment explanation
Indices: 21540029--21540211 Score: 140
Period size: 40 Copynumber: 4.6 Consensus size: 40
21540019 TTGAATGCTG
* * * * *
21540029 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* *
21540069 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
21540109 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
21540149 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
21540188 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
21540212 TGAACGAGGA
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 36 0.29
40 77 0.62
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:21540193 original size:39 final size:39
Alignment explanation
Indices: 21540082--21540211 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 39
21540072 GGACTAAGAT
* * *
21540082 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
21540122 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
21540162 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
21540201 CCGAAGGCATT
1 CCGAAGGCATT
21540212 TGAACGAGGA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 38 0.47
40 43 0.53
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:21548311 original size:80 final size:79
Alignment explanation
Indices: 21548169--21548384 Score: 236
Period size: 80 Copynumber: 2.7 Consensus size: 79
21548159 CTGTCCGAGC
* * * * * * * * *
21548169 TAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGA
1 TAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATTCGTGCGA
21548233 GATACTAAATCCGGGT
64 GATACTAAATCCGGGT
* * *
21548249 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAG
* **
21548314 TTGTTAAATCCGGGT
65 ATACTAAATCCGGGT
* * *
21548329 TATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
21548385 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 35 0.30
80 77 0.66
81 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGA
TACTAAATCCGGGT
Found at i:21548366 original size:39 final size:40
Alignment explanation
Indices: 21548215--21548384 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
21548205 GGACTAAGAT
* * *
21548215 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
*
21548255 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
21548295 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
21548335 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
21548374 CCGAAGGCATT
1 CCGAAGGCATT
21548385 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:21548404 original size:79 final size:80
Alignment explanation
Indices: 21548237--21548419 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
21548227 GTGCGAGATA
* * *
21548237 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
21548302 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
21548317 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
21548381 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
21548396 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
21548420 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:21550593 original size:26 final size:26
Alignment explanation
Indices: 21550564--21550618 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
21550554 GAAATGAAAT
21550564 GAGTTAATTTTGATTTCATATAGATC
1 GAGTTAATTTTGATTTCATATAGATC
21550590 GAGTTAATTTTGATTTCATATAGATC
1 GAGTTAATTTTGATTTCATATAGATC
21550616 GAG
1 GAG
21550619 AAACAAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (26 bp):
GAGTTAATTTTGATTTCATATAGATC
Found at i:21555518 original size:40 final size:40
Alignment explanation
Indices: 21555468--21555550 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
21555458 AAGGCACACG
*
21555468 TCTGCTTACACGGGCGTGTGATCTATGAACGTAAAATTTT
1 TCTGCTTACACGAGCGTGTGATCTATGAACGTAAAATTTT
21555508 TCTGCTTACACGAGCGTGTGATCTATGAACGTAAAATTTT
1 TCTGCTTACACGAGCGTGTGATCTATGAACGTAAAATTTT
21555548 TCT
1 TCT
21555551 AAGTGCTCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (40 bp):
TCTGCTTACACGAGCGTGTGATCTATGAACGTAAAATTTT
Found at i:21560426 original size:15 final size:15
Alignment explanation
Indices: 21560406--21560436 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21560396 ATATTTTAAC
*
21560406 TATATTATAATATGT
1 TATATTATAACATGT
21560421 TATATTATAACATGT
1 TATATTATAACATGT
21560436 T
1 T
21560437 TTTTTTAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (15 bp):
TATATTATAACATGT
Found at i:21578432 original size:28 final size:28
Alignment explanation
Indices: 21578386--21578456 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
21578376 CTACCCTTCC
*
21578386 CCATTCCCTA-A-TCCCTACTCCAGCCA
1 CCATTCCCTAGATTCTCTACTCCAGCCA
**
21578412 CCATTACCC-AGATTCTCTACTCTGGCCA
1 CCATT-CCCTAGATTCTCTACTCCAGCCA
21578440 CCATTCCCTAGATTCTC
1 CCATTCCCTAGATTCTC
21578457 ACTTCCCCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 6 0.16
27 7 0.18
28 25 0.66
ACGTcount: A:0.21, C:0.44, G:0.07, T:0.28
Consensus pattern (28 bp):
CCATTCCCTAGATTCTCTACTCCAGCCA
Found at i:21580096 original size:5 final size:5
Alignment explanation
Indices: 21580086--21580152 Score: 77
Period size: 5 Copynumber: 13.8 Consensus size: 5
21580076 TATTCTTAGT
* *
21580086 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT- TTAT- TTTTA TTTTCA TTTCA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA
*
21580135 ATTT- TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
21580153 GAAAGACATA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
4 9 0.17
5 40 0.75
6 4 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:21580110 original size:33 final size:31
Alignment explanation
Indices: 21580072--21580152 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 31
21580062 TCCTCCTATC
* *
21580072 TTTTTATTCTTAGTTTTTATTTT-ATTTTATTT
1 TTTTTATT-TTA-TTTTTATTTTCATTTCAATT
21580104 TATTTTATTTTTTATTTTTATTTTCATTTCAATT
1 T-TTTTATTT--TATTTTTATTTTCATTTCAATT
21580138 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
21580153 GAAAGACATA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
31 6 0.14
32 2 0.05
33 25 0.58
34 10 0.23
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (31 bp):
TTTTTATTTTATTTTTATTTTCATTTCAATT
Found at i:21581169 original size:19 final size:19
Alignment explanation
Indices: 21581141--21581190 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
21581131 ACCCCTAAAC
* *
21581141 TCTCCACTCTTCTTCCATT
1 TCTCCCCTCTTCTTCCACT
*
21581160 TCTCCCCTC-TCTTTCCCCT
1 TCTCCCCTCTTC-TTCCACT
21581179 T-TCCCCTCTTCT
1 TCTCCCCTCTTCT
21581191 CACCCTTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.04, C:0.50, G:0.00, T:0.46
Consensus pattern (19 bp):
TCTCCCCTCTTCTTCCACT
Found at i:21582746 original size:13 final size:13
Alignment explanation
Indices: 21582730--21582762 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21582720 TTTAATTAAA
*
21582730 TTAGTTAATTAGT
1 TTAGATAATTAGT
21582743 TTAGATAATTAGT
1 TTAGATAATTAGT
21582756 TTA-ATAA
1 TTAGATAA
21582763 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:21583548 original size:19 final size:19
Alignment explanation
Indices: 21583520--21583569 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
21583510 ACCCCTAAAC
* *
21583520 TCTCCACTCTTCTTCCATT
1 TCTCCCCTCTTCTTCCACT
*
21583539 TCTCCCCTC-TCTTTCCCCT
1 TCTCCCCTCTTC-TTCCACT
21583558 T-TCCCCTCTTCT
1 TCTCCCCTCTTCT
21583570 CACCCTTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.04, C:0.50, G:0.00, T:0.46
Consensus pattern (19 bp):
TCTCCCCTCTTCTTCCACT
Found at i:21594309 original size:16 final size:15
Alignment explanation
Indices: 21594269--21594315 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
21594259 AGATGATAAT
21594269 TATTAATATATAATTA
1 TATTAAT-TATAATTA
21594285 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
*
21594301 TATTAATTATTATTA
1 TATTAATTATAATTA
21594316 ACTTTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 9 0.33
16 17 0.63
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:21594314 original size:10 final size:11
Alignment explanation
Indices: 21594267--21594316 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
21594257 AAAGATGATA
21594267 ATTATTAATAT
1 ATTATTAATAT
* *
21594278 ATAATTATATCT
1 ATTATTA-ATAT
21594290 ATTA-TAATAT
1 ATTATTAATAT
21594300 A-TATTAAT-T
1 ATTATTAATAT
21594309 ATTATTAA
1 ATTATTAA
21594317 CTTTATATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
9 4 0.12
10 14 0.44
11 8 0.25
12 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTATTAATAT
Found at i:21594314 original size:22 final size:23
Alignment explanation
Indices: 21594267--21594316 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
21594257 AAAGATGATA
21594267 ATTATTAATATATAATTATATCT
1 ATTATTAATATATAATTATATCT
21594290 ATTA-TAATATAT-ATTA-AT-T
1 ATTATTAATATATAATTATATCT
21594309 ATTATTAA
1 ATTATTAA
21594317 CTTTATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 4 0.15
22 8 0.31
23 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTATTAATATATAATTATATCT
Found at i:21594528 original size:17 final size:18
Alignment explanation
Indices: 21594502--21594535 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21594492 TTTTTGTTTA
21594502 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
21594519 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
21594536 ATATTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:21621171 original size:22 final size:22
Alignment explanation
Indices: 21621102--21621180 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 22
21621092 TTGTATGAGT
* * *
21621102 TTAGCACTTCTGTATTATCTAC
1 TTAGCACTTCAGTATTCTCTGC
* * * *
21621124 TTAGCACTTCAATGTTCTTTGT
1 TTAGCACTTCAGTATTCTCTGC
*
21621146 TTAGCACTTCAGTACTCTCTGC
1 TTAGCACTTCAGTATTCTCTGC
21621168 TTAGCACTTCAGT
1 TTAGCACTTCAGT
21621181 GCTTCCAGGT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (22 bp):
TTAGCACTTCAGTATTCTCTGC
Found at i:21624869 original size:17 final size:15
Alignment explanation
Indices: 21624839--21624872 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
21624829 TGGGTAAATC
21624839 ATTTTTTTATTTTTT
1 ATTTTTTTATTTTTT
21624854 ATTTTCTTTCATTTTTT
1 ATTTT-TTT-ATTTTTT
21624871 AT
1 AT
21624873 CATGAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 3 0.18
17 9 0.53
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTTTTATTTTTT
Found at i:21628209 original size:13 final size:13
Alignment explanation
Indices: 21628191--21628220 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21628181 TTTTTTAAAA
*
21628191 AAATTATATATAT
1 AAATTAAATATAT
21628204 AAATTAAATATAT
1 AAATTAAATATAT
21628217 AAAT
1 AAAT
21628221 AAAAAATAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAAATATAT
Found at i:21628425 original size:21 final size:21
Alignment explanation
Indices: 21628384--21628424 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21628374 AGATTTTTTT
*
21628384 TCATAAAAATTATATATAAAA
1 TCATAAAAATTATATAAAAAA
21628405 TCATAAAAATT-TATAAAAAA
1 TCATAAAAATTATATAAAAAA
21628425 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
TCATAAAAATTATATAAAAAA
Found at i:21628426 original size:22 final size:21
Alignment explanation
Indices: 21628384--21628427 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
21628374 AGATTTTTTT
* *
21628384 TCATAAAAATTATATATAAAA
1 TCATAAAAATTATAAAAAAAA
21628405 TCATAAAAATTTATAAAAAAAA
1 TCATAAAAA-TTATAAAAAAAA
21628427 T
1 T
21628428 TTTTTTACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
TCATAAAAATTATAAAAAAAA
Found at i:21628724 original size:17 final size:17
Alignment explanation
Indices: 21628690--21628740 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
21628680 AATTTTAAAA
21628690 TAATTTATTTATATTTTA-
1 TAATTT-TTTA-ATTTTAC
21628708 TGAATTTTTTAATTTTAC
1 T-AATTTTTTAATTTTAC
21628726 TAATTTTTTAATTTT
1 TAATTTTTTAATTTT
21628741 TAGATTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 20 0.65
18 6 0.19
19 5 0.16
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TAATTTTTTAATTTTAC
Found at i:21628749 original size:9 final size:8
Alignment explanation
Indices: 21628690--21628751 Score: 54
Period size: 9 Copynumber: 7.2 Consensus size: 8
21628680 AATTTTAAAA
21628690 TAATTTATT
1 TAATTT-TT
21628699 TATATTTTAT
1 TA-ATTTT-T
*
21628709 GAATTTTT
1 TAATTTTT
*
21628717 TAATTTTAC
1 TAATTTT-T
21628726 TAATTTTT
1 TAATTTTT
21628734 TAA-TTTT
1 TAATTTTT
21628741 TAGATTTTT
1 TA-ATTTTT
21628750 TA
1 TA
21628752 TAAATTTAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 6 0.14
8 11 0.25
9 21 0.48
10 6 0.14
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (8 bp):
TAATTTTT
Found at i:21628749 original size:17 final size:17
Alignment explanation
Indices: 21628712--21628766 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
21628702 ATTTTATGAA
21628712 TTTTTTAATTTTACTA-A-
1 TTTTTTAATTTT--TAGAT
21628729 TTTTTTAATTTTTAGAT
1 TTTTTTAATTTTTAGAT
*
21628746 TTTTTATAA-ATTTAGAT
1 TTTTT-TAATTTTTAGAT
21628763 TTTT
1 TTTT
21628767 ATATATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 2 0.06
16 1 0.03
17 28 0.82
18 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTTTTAATTTTTAGAT
Found at i:21628764 original size:25 final size:23
Alignment explanation
Indices: 21628732--21628782 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
21628722 TTACTAATTT
*
21628732 TTTAATTTTTAGATTTTTTATAAA
1 TTTAATTTTTAGATATTTTA-AAA
*
21628756 TTTAGATTTTTATATATTTTAAAA
1 TTTA-ATTTTTAGATATTTTAAAA
21628780 TTT
1 TTT
21628783 TCCATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTAATTTTTAGATATTTTAAAA
Found at i:21628774 original size:16 final size:17
Alignment explanation
Indices: 21628728--21628774 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
21628718 AATTTTACTA
*
21628728 ATTTTTTA-ATTTTTAG
1 ATTTTTTATATATTTAG
*
21628744 ATTTTTTATAAATTTAG
1 ATTTTTTATATATTTAG
21628761 A-TTTTTATATATTT
1 ATTTTTTATATATTT
21628775 TAAAATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
ATTTTTTATATATTTAG
Found at i:21628776 original size:17 final size:17
Alignment explanation
Indices: 21628730--21628776 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
21628720 TTTTACTAAT
21628730 TTTTTA-AT-TTTTAGA
1 TTTTTATATATTTTAGA
*
21628745 TTTTT-TATAAATTTAGA
1 TTTTTATAT-ATTTTAGA
21628762 TTTTTATATATTTTA
1 TTTTTATATATTTTA
21628777 AAATTTTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 7 0.27
17 16 0.62
18 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTTATATATTTTAGA
Found at i:21630850 original size:46 final size:47
Alignment explanation
Indices: 21630703--21631057 Score: 193
Period size: 46 Copynumber: 7.5 Consensus size: 47
21630693 TTTGTGTGCT
* * * *
21630703 AGTGTAAGA-CATGTCTGGAACATGCATCGGCC-AGATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCTCGA-GATGTA-AGCC
* * * * * * *
21630749 AGTGTAAGACCATGTATGGGACAAGGAATCGGCATTGAGATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGAC-ATGCATTGGCCTCGAGATGTA-AGCC
*
21630797 AGTGTAAGA-CATGTCTGGGACATGTATTGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCTCGAGATGTAAGCC
* * *
21630843 AATGTAAGA-CATGTTTGGGACATGCATTGG-CTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCT-CGAGATGTAAGCC
* * * * *
21630887 AGCGTAAGACCATGTCCGGGACATGGCATTGGCAT-GAATATGTGAAAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCTCG-AGATGT--AAGCC
* * * *
21630937 AGTGTAAGACCATGTCTGGGACATGGCCTCGGCCTC-A-ATTTCAATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCTCGAGATGT--A-AGCC
* * *
21630986 AGTGTAAGACCGTGTCTGGGACATGGCATCGAG--TTGATGGATG--AGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATTG-GCCTCGA--GATGTAAGCC
*
21631033 AATGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
21631058 GAATTGACAT
Statistics
Matches: 246, Mismatches: 43, Indels: 40
0.75 0.13 0.12
Matches are distributed among these distances:
44 9 0.04
45 15 0.06
46 74 0.30
47 48 0.20
48 31 0.13
49 35 0.14
50 32 0.13
52 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATTGGCCTCGAGATGTAAGCC
Found at i:21630952 original size:50 final size:49
Alignment explanation
Indices: 21630884--21631016 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 49
21630874 TACGAGATGT
* * * * *
21630884 GTCAGCGTAAGACCATGTCCGGGACATGGCATTGGCATGAATATGTGAA-A
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAT-T-TCAATA
* *
21630934 G-CTAGTGTAAGACCATGTCTGGGACATGGCCTCGGCCTCAATTTCAATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAATTTCAATA
*
21630983 GTCAGTGTAAGACCGTGTCTGGGACATGGCATCG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
21631017 AGTTGATGGA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
48 3 0.04
49 33 0.46
50 35 0.49
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAATTTCAATA
Found at i:21631800 original size:12 final size:10
Alignment explanation
Indices: 21631785--21631811 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
21631775 AGACACATGG
21631785 GTGTGTGGCC
1 GTGTGTGGCC
21631795 GTGTGTGGCC
1 GTGTGTGGCC
21631805 GTGTGTG
1 GTGTGTG
21631812 ACACACGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (10 bp):
GTGTGTGGCC
Found at i:21635315 original size:111 final size:111
Alignment explanation
Indices: 21635121--21635324 Score: 275
Period size: 111 Copynumber: 1.8 Consensus size: 111
21635111 TTTGAAAAAC
* * **
21635121 TTTTTAATTTGGCCGAGTCTTAATAACACTGAAATTATTGTATACATGTTTTTAAGTGTAGTAAC
1 TTTTTAATTTGACCGAGTCTTAATAACACTGAAATGATTGTATACATGTGATTAAGTGTAGTAAC
* *
21635186 GCCTCTTATCTCGTCTCGACGTAGGGCTCGGATTTGGGGTGTTACA
66 GCCTCGTATCTCATCTCGACGTAGGGCTCGGATTTGGGGTGTTACA
** * * * *
21635232 TTTTTAATTTGATTGAGTCTTAATGACA-TCGCAATGATTGTATGCATGTGATTAAGTGTGGTAA
1 TTTTTAATTTGACCGAGTCTTAATAACACT-GAAATGATTGTATACATGTGATTAAGTGTAGTAA
*
21635296 CGCCTGGTATCTCATCTCGACGTAGGGCT
65 CGCCTCGTATCTCATCTCGACGTAGGGCT
21635325 TAGGTGTGGG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
110 1 0.01
111 78 0.99
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.38
Consensus pattern (111 bp):
TTTTTAATTTGACCGAGTCTTAATAACACTGAAATGATTGTATACATGTGATTAAGTGTAGTAAC
GCCTCGTATCTCATCTCGACGTAGGGCTCGGATTTGGGGTGTTACA
Found at i:21649987 original size:28 final size:28
Alignment explanation
Indices: 21649930--21649989 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
21649920 AAACACTATA
* *
21649930 GTGCTCACTGCTACGCGAATGCACTACG
1 GTGCTCACTGCTACACGAATACACTACG
* *
21649958 GTGCTCATTGCTACATGAATACACCT-CG
1 GTGCTCACTGCTACACGAATACA-CTACG
21649986 GTGC
1 GTGC
21649990 ATCTTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (28 bp):
GTGCTCACTGCTACACGAATACACTACG
Found at i:21650729 original size:52 final size:53
Alignment explanation
Indices: 21650650--21650754 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 53
21650640 GTACTGATAA
* *
21650650 TTAGAAGGAAGTATTGATACTTCAACC-AGGTATCGATACCTTACTAGAGTAC
1 TTAGAAGGAAGTATCGATACTTCAACCAAGGTATAGATACCTTACTAGAGTAC
*
21650702 TTAGAAGGAAGTATCGATACTTTAACCAAGGTATAGATACCTTACTAGAGTAC
1 TTAGAAGGAAGTATCGATACTTCAACCAAGGTATAGATACCTTACTAGAGTAC
21650755 CGATTCTCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 25 0.51
53 24 0.49
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (53 bp):
TTAGAAGGAAGTATCGATACTTCAACCAAGGTATAGATACCTTACTAGAGTAC
Found at i:21651317 original size:38 final size:38
Alignment explanation
Indices: 21651274--21651349 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
21651264 CTAAGCATGG
*
21651274 TATAAATATTACAGTAAGTGGAGAAAGATGATAATTCA
1 TATAAATATTAAAGTAAGTGGAGAAAGATGATAATTCA
21651312 TATAAATATTAAAGTAAGTGGAGAAAGATGATAATTCA
1 TATAAATATTAAAGTAAGTGGAGAAAGATGATAATTCA
21651350 CCATATTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (38 bp):
TATAAATATTAAAGTAAGTGGAGAAAGATGATAATTCA
Done.