Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 204 of 438
Found at i:63134673 original size:6 final size:6
Alignment explanation
Indices: 63134655--63134805 Score: 71
Period size: 6 Copynumber: 24.3 Consensus size: 6
63134645 AAGAAACATT
* *
63134655 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
63134704 ATC-GAA ATCAGT ATCAGGTA A-CAGA ATCAAA ACCAGA ATCAGT ATCAGGTA
1 ATCAG-A ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
63134755 A-CAGA ATCAAA ATCAGA ACCAGT ATCAGGCA A-CAGA ATCAAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATC-AGA ATCAGA
63134804 AT
1 AT
63134806 GTGAAAGCAA
Statistics
Matches: 108, Mismatches: 20, Indels: 34
0.67 0.12 0.21
Matches are distributed among these distances:
5 9 0.08
6 77 0.71
7 18 0.17
8 4 0.04
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:63134700 original size:31 final size:31
Alignment explanation
Indices: 63134664--63134805 Score: 187
Period size: 31 Copynumber: 4.5 Consensus size: 31
63134654 TATCAGAACT
* * * *
63134664 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
63134695 AGAATCAGAATC-GAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAG-AATCAGTATCAGGTAAC
*
63134726 AGAATCAAAACCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
63134757 AGAATCAAAATCAGAACCAGTATCAGGCAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
63134788 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
63134806 GTGAAAGCAA
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
30 1 0.01
31 87 0.88
32 11 0.11
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.17
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:63135692 original size:27 final size:27
Alignment explanation
Indices: 63135211--63135701 Score: 558
Period size: 27 Copynumber: 18.3 Consensus size: 27
63135201 GGGGCAAAAT
* ** * *
63135211 GGTAATTTTACCCCCCAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63135238 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
63135265 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63135292 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63135319 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63135346 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
63135373 AGTAATTCTACCTTACAAGAGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63135400 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63135427 GATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63135454 GGTAATT-TACCCTACATGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
63135479 TAGTATTTCTACCATACA-GGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * *
63135506 AGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63135533 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63135560 GATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
63135587 GGTAATTCTACCCTACATGGGCA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
63135613 TGGTATTTGTACCCTACAAGTGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
63135641 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63135668 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
63135695 GATAATT
1 GGTAATT
63135702 TCACAAATCA
Statistics
Matches: 398, Mismatches: 60, Indels: 12
0.85 0.13 0.03
Matches are distributed among these distances:
25 3 0.01
26 42 0.11
27 350 0.88
28 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:63135757 original size:27 final size:27
Alignment explanation
Indices: 63135686--63135811 Score: 119
Period size: 27 Copynumber: 4.7 Consensus size: 27
63135676 TACCCTACAA
* * * *
63135686 GGGTATTTCGATAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
63135713 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*** *
63135740 GGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
63135766 AGGGTATTTTGGTAATTTTATAAACCAA
1 -GGGTATTTTGGTAATTTTACAAACCAG
* **
63135794 GGGCATTTCAGTAATTTT
1 GGGTATTTTGGTAATTTT
63135812 GTAAATCAAG
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 81 0.99
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:63135808 original size:81 final size:80
Alignment explanation
Indices: 63135685--63136026 Score: 240
Period size: 81 Copynumber: 4.2 Consensus size: 80
63135675 CTACCCTACA
* * * * * ** *
63135685 AGGGTATTTCGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTATAAA-CAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTG
**
63135750 GTAATTTTATTGATCG
65 GTAATTTTATAAATCG
* ** * ***
63135766 AGGGTATTTTGGTAATTTTATAAACCAAGGGCATTTCAGTAATTTTGTAAATCAAGGGTAAAATG
1 AGGGTATTTTGGTAATTTTATAAA-CAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTG
*
63135831 GTAATTTTGTAAATCG
65 GTAATTTTATAAATCG
*** * ** *
63135847 AGGGTAAAATGGTAATTCTATCTTAC-AGAAGTATTTCAGTAATTTTACAAATC-GAGGGTATTT
1 AGGGTATTTTGGTAATTTTAT-AAACAAG-GGTATTTCAGTAATTTTACAAATCAG-GGGTATTT
** **
63135910 CAGTAATTTTGCAAA-CTG
63 TGGTAATTTTATAAATC-G
* * * * * * *
63135928 AGGGTATTTCGATAATTTTACAAATCAAGGATATTTCAGTAATTTTATAAATCGGGGGTACTTTG
1 AGGGTATTTTGGTAATTTTATAAA-CAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTG
* *
63135993 GTAATTTTACAAGTCG
65 GTAATTTTATAAATCG
**
63136009 AGGGTATTTCAGTAATTT
1 AGGGTATTTTGGTAATTT
63136027 GGTAAACTAA
Statistics
Matches: 198, Mismatches: 55, Indels: 16
0.74 0.20 0.06
Matches are distributed among these distances:
80 4 0.02
81 189 0.95
82 5 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.38
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTATAAACAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGG
TAATTTTATAAATCG
Found at i:63135824 original size:54 final size:54
Alignment explanation
Indices: 63135683--63136032 Score: 237
Period size: 54 Copynumber: 6.5 Consensus size: 54
63135673 TTCTACCCTA
*** *
63135683 CAAGGGTATTTC-GATAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAG-TAATTTTGTAAATCGA-GGGTATTTTGGTAATTTTACAAAT
* ** * ** * *
63135737 CAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAAT
* * *** **
63135791 CAAGGGCATTTCAGTAATTTTGTAAATCAAGGGTAAAATGGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAAT
* ** * * * * **
63135845 CGAGGGTAAAAT-GGTAATTCTATCT-TA-C-AGAAGTATTTCAGTAATTTTACAAAT
1 CAAGGGT-ATTTCAGTAATT-T-TGTAAATCGAG-GGTATTTTGGTAATTTTACAAAT
* * * *
63135899 CGAGGGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAATC-GAGGGTATTTTGGTAATTTTACAAAT
* * * * *
63135953 CAAGGATATTTCAGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAAT
* *
63136007 CGAGGGTATTTCAGTAATTTGGTAAA
1 CAAGGGTATTTCAGTAATTTTGTAAA
63136033 CTAAAGTATT
Statistics
Matches: 228, Mismatches: 57, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
52 1 0.00
53 7 0.03
54 209 0.92
55 9 0.04
56 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAAT
Found at i:63135834 original size:27 final size:27
Alignment explanation
Indices: 63135804--63135863 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
63135794 GGGCATTTCA
63135804 GTAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTTTGTAAATCAAGGGTAAAATG
*
63135831 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTTTGTAAATCAAGGGTAAAATG
63135858 GTAATT
1 GTAATT
63135864 CTATCTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.35
Consensus pattern (27 bp):
GTAATTTTGTAAATCAAGGGTAAAATG
Found at i:63135907 original size:27 final size:27
Alignment explanation
Indices: 63135877--63136026 Score: 189
Period size: 27 Copynumber: 5.6 Consensus size: 27
63135867 TCTTACAGAA
63135877 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
*
63135904 GTATTTCAGTAATTTTGCAAA-CTGAGG
1 GTATTTCAGTAATTTTACAAATC-GAGG
*
63135931 GTATTTC-GATAATTTTACAAATCAAGG
1 GTATTTCAG-TAATTTTACAAATCGAGG
* * *
63135958 ATATTTCAGTAATTTTATAAATCGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
63135985 GTACTTT-GGTAATTTTACAAGTCGAGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
63136012 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
63136027 GGTAAACTAA
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
26 5 0.05
27 94 0.90
28 5 0.05
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:63138498 original size:27 final size:27
Alignment explanation
Indices: 63138468--63138834 Score: 491
Period size: 27 Copynumber: 13.6 Consensus size: 27
63138458 TACCCCCCAA
* *
63138468 GGGTATCTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* ***
63138495 GGGTCTTTTAATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
63138522 GGGTATTTCGATAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
63138549 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
63138576 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
63138603 GGGTATTTCAGTAATTGTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
63138630 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
63138657 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
63138684 GGGTATTTCGGTAATTTTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
63138711 GGGTATTTCGGTAATTCTACCCTACAT
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
63138738 GGGTATTCCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* ** *
63138765 GTGTATTTCAATAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
63138792 GGGTATTTCGGTAATTCTATCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
63138819 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
63138835 TCACAAATCA
Statistics
Matches: 298, Mismatches: 42, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 298 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:63138849 original size:27 final size:27
Alignment explanation
Indices: 63138819--63139159 Score: 160
Period size: 27 Copynumber: 12.6 Consensus size: 27
63138809 TATCCTACAA
*
63138819 GGGTATTTTGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
63138846 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
***
63138873 GGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTACAAATCAG
** * *
63138899 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAATCAG
* **
63138927 GGGTATTTTAGTAATTTTGTAAATC-G
1 GGGTATTTTGGTAATTTTACAAATCAG
*** * **
63138953 AGGGTAAAATGGTAATTCTGTAAATC-G
1 -GGGTATTTTGGTAATTTTACAAATCAG
*** * **
63138980 AGGGTAAAATGGTAATTCTATCTTA-CAG
1 -GGGTATTTTGGTAATTTTA-CAAATCAG
*** *
63139008 AAATATTTTAGTAATTTTACAAATC-G
1 GGGTATTTTGGTAATTTTACAAATCAG
** * *
63139034 AGGGTATTTCAGTAATTTTAGAAAT-TG
1 -GGGTATTTTGGTAATTTTACAAATCAG
*
63139061 AGGGTATTTCGGTAATTTTACAAATC-G
1 -GGGTATTTTGGTAATTTTACAAATCAG
* *** * *
63139088 AGGATATTTCACTAATTTTATAAATCGG
1 -GGGTATTTTGGTAATTTTACAAATCAG
* *
63139116 GGGTACTTTGGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAATCAG
**
63139142 AGGGTATTTCAGTAATTT
1 -GGGTATTTTGGTAATTT
63139160 GGTAAACTAA
Statistics
Matches: 249, Mismatches: 52, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
26 6 0.02
27 239 0.96
28 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:63138861 original size:81 final size:81
Alignment explanation
Indices: 63138468--63138888 Score: 461
Period size: 81 Copynumber: 5.2 Consensus size: 81
63138458 TACCCCCCAA
* * * *** * *
63138468 GGGTATCTCGGTAATTCTACCCTATAGGGGTCTTTTAATAATTCTACCCTACAGGGGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCGG
*
63138533 TAATTCTACCTTACAG
66 TAATTCTACCCTACAG
* * * *
63138549 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCGG
*
63138614 TAATTGTACCCTACAG
66 TAATTCTACCCTACAG
* ** *
63138630 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCGG
*
63138695 TAATTTTACCCTACAG
66 TAATTCTACCCTACAG
* * * * * * **
63138711 GGGTATTTCGGTAATTCTACCCTACATGGGTATTCCGGTATTTCTACCCTACAAGTGTATTTCAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCGG
*
63138776 TAATTCTACCCTACAA
66 TAATTCTACCCTACAG
* * * * *
63138792 GGGTATTTCGGTAATTCTATCCTACAAGGGTATTTTGGTAATT-T-CACAAATCAGGGGTATTTT
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC-CATA-CAGGGGTATTTC
* **
63138855 GGTAATTTTA-CAAACTAG
64 GGTAATTCTACCCTAC-AG
*
63138873 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
63138889 TTATTGATCG
Statistics
Matches: 289, Mismatches: 48, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.00
80 6 0.02
81 282 0.98
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCGG
TAATTCTACCCTACAG
Found at i:63138958 original size:81 final size:81
Alignment explanation
Indices: 63138818--63139159 Score: 258
Period size: 81 Copynumber: 4.2 Consensus size: 81
63138808 CTATCCTACA
* * * * * * *
63138818 AGGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTT
1 AGGGTATTTTGGTAATTTTATAAACCAAGGATATTTTAGTAATTTTACAAATCGA-GGGTATTTT
**
63138882 GGTAATTTTATTGATCG
65 GGTAATTTTATAAATCG
* * ** ***
63138899 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATG
1 AGGGTATTTTGGTAATTTTATAAACCAAGGATATTTTAGTAATTTTACAAATCGAGGGTATTTTG
* *
63138964 GTAATTCTGTAAATCG
66 GTAATTTTATAAATCG
*** * ** *
63138980 AGGGTAAAATGGTAATTCTATCTTA-C-AGAAATATTTTAGTAATTTTACAAATCGAGGGTATTT
1 AGGGTATTTTGGTAATTTTAT-AAACCAAG-GATATTTTAGTAATTTTACAAATCGAGGGTATTT
** * *
63139043 CAGTAATTTTAGAAATTG
64 TGGTAATTTTATAAATCG
* * * * * * * * *
63139061 AGGGTATTTCGGTAATTTTACAAATCGAGGATATTTCACTAATTTTATAAATCGGGGGTACTTTG
1 AGGGTATTTTGGTAATTTTATAAACCAAGGATATTTTAGTAATTTTACAAATCGAGGGTATTTTG
* *
63139126 GTAATTTTACAAGTCG
66 GTAATTTTATAAATCG
**
63139142 AGGGTATTTCAGTAATTT
1 AGGGTATTTTGGTAATTT
63139160 GGTAAACTAA
Statistics
Matches: 200, Mismatches: 56, Indels: 10
0.75 0.21 0.04
Matches are distributed among these distances:
80 3 0.01
81 192 0.96
82 5 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTATAAACCAAGGATATTTTAGTAATTTTACAAATCGAGGGTATTTTG
GTAATTTTATAAATCG
Found at i:63139143 original size:54 final size:54
Alignment explanation
Indices: 63139018--63139159 Score: 214
Period size: 54 Copynumber: 2.6 Consensus size: 54
63139008 AAATATTTTA
*
63139018 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAGAAATTGAGGGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAGAAATCGAGGGTATTTCG
* * * *
63139072 GTAATTTTACAAATCGAGGATATTTCACTAATTTTATAAATCGGGGGTACTTT-G
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAGAAATCGAGGGTA-TTTCG
*
63139126 GTAATTTTACAAGTCGAGGGTATTTCAGTAATTT
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTT
63139160 GGTAAACTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 76 0.96
55 3 0.04
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAGAAATCGAGGGTATTTCG
Found at i:63160687 original size:39 final size:39
Alignment explanation
Indices: 63160644--63160791 Score: 199
Period size: 39 Copynumber: 3.8 Consensus size: 39
63160634 ACCAGCTCGA
* * *
63160644 AGCCTGCGGGA-CTTTAGCCCGGACGTAATTCCAGCATAT
1 AGCCTGC-GGACCTTAAGTCCGGACATAATTCCAGCATAT
* *
63160683 AGCCTGCGGACCTTAAGTCCGAACATAATTCCAACATAT
1 AGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCATAT
*
63160722 AGCCTGCGAACCTTAAGTCCGGACATAATTCCAGCATAT
1 AGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCATAT
* * *
63160761 AGCCTACGGACCTTAAGTCTGGATATAATTC
1 AGCCTGCGGACCTTAAGTCCGGACATAATTC
63160792 ATCACTGAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 3 0.03
39 93 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGACATAATTCCAGCATAT
Found at i:63161878 original size:13 final size:13
Alignment explanation
Indices: 63161860--63161885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63161850 ATAATCTCAA
63161860 TACAACACATTGT
1 TACAACACATTGT
63161873 TACAACACATTGT
1 TACAACACATTGT
63161886 GCTCAAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TACAACACATTGT
Found at i:63168624 original size:39 final size:39
Alignment explanation
Indices: 63168490--63168635 Score: 172
Period size: 39 Copynumber: 3.8 Consensus size: 39
63168480 ACCAGCTCGA
*
63168490 AGCCTGCGAGA-CTTTAG-CC-GACATAATTCCAGAATAT
1 AGCCTGCG-GACCTTTAGTCCGGACATAATTCCAGCATAT
* * * *
63168527 AGCCTGCGGACCTTGAGTCTGAACATAATTCCAACATAT
1 AGCCTGCGGACCTTTAGTCCGGACATAATTCCAGCATAT
* *
63168566 AGCCTGCGGACATTAAGTCCGGACATAATTCCAGCATAT
1 AGCCTGCGGACCTTTAGTCCGGACATAATTCCAGCATAT
** *
63168605 AGCCTGCAAACCTTTAGTCCGGATATAATTC
1 AGCCTGCGGACCTTTAGTCCGGACATAATTC
63168636 ATCACTGAGT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
36 2 0.02
37 13 0.14
38 1 0.01
39 75 0.82
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (39 bp):
AGCCTGCGGACCTTTAGTCCGGACATAATTCCAGCATAT
Found at i:63179269 original size:41 final size:43
Alignment explanation
Indices: 63179168--63179324 Score: 165
Period size: 41 Copynumber: 3.7 Consensus size: 43
63179158 ATATCATACA
* * **
63179168 ATGCCAATGTCCCAGACGTGGTCTTACATGCTATCTTATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGCAATCAAATATCG
* * *
63179211 ATGCCACTGTCCTAGACAAGGTCTTACATG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGCAATCAAATATCG
* * *
63179252 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGCAATCA-A-ATATCG
* **
63179297 ATGTCAATGTCCCAGATGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
63179325 CGAGAACACA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 28 0.29
42 10 0.11
43 27 0.28
44 3 0.03
45 27 0.28
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGCAATCAAATATCG
Found at i:63179309 original size:45 final size:43
Alignment explanation
Indices: 63179168--63179327 Score: 155
Period size: 45 Copynumber: 3.7 Consensus size: 43
63179158 ATATCATACA
* * * * *
63179168 ATGCCAATGTCCCAGACGTGGTCTTACATGCTATC-TTATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AACCAATATATCG
* * * * *
63179211 ATGCCACTGTCCTAGACAAGGTCTTACATGAATCAA-ATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAACCAATATATCG
63179252 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AACCA-ATATATCG
* **
63179297 ATGTCAATGTCCCAGATGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
63179328 GAACACATAT
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 28 0.29
42 10 0.10
43 27 0.28
44 4 0.04
45 29 0.30
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAACCAATATATCG
Found at i:63186073 original size:40 final size:41
Alignment explanation
Indices: 63186008--63186120 Score: 140
Period size: 40 Copynumber: 2.8 Consensus size: 41
63185998 CATGAGCAAT
* *
63186008 TGAATGATATCCGGGCTAAGTCCCGAAGACATTTATGCTAG
1 TGAATGATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
* * * *
63186049 T-AATGATATCCGGGTTAGGACCCGAAGGCAATTGTGCTAG
1 TGAATGATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
* *
63186089 TGACT-ACATCCGGGCTAAGACCCGAAGGCATT
1 TGAATGATATCCGGGCTAAGACCCGAAGGCATT
63186121 CGTGCAAGTT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 57 0.95
41 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (41 bp):
TGAATGATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG
Found at i:63186143 original size:40 final size:40
Alignment explanation
Indices: 63186096--63186221 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 40
63186086 TAGTGACTAC
*
63186096 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAAACCCGAAGGCATTCGTGCAAGTTGTTAA
* * * **
63186136 ATTCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTCT
1 ATCCGGGCTAAAACCCGAAGGCATTCGTGCAAGTTGTTAA
* * * * *
63186176 ATCCGGGCTAAAACTCGAAGGCATTCGTCCATGTGGTTAT
1 ATCCGGGCTAAAACCCGAAGGCATTCGTGCAAGTTGTTAA
63186216 ATCCGG
1 ATCCGG
63186222 TTGTATTCCG
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAAACCCGAAGGCATTCGTGCAAGTTGTTAA
Found at i:63195482 original size:40 final size:40
Alignment explanation
Indices: 63195408--63195632 Score: 319
Period size: 40 Copynumber: 5.6 Consensus size: 40
63195398 AACCCAAGTA
* * *
63195408 CCTTCGGGATTTAG-CCGGATATAG-CAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
63195447 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
63195487 CCTTCGGGACTTAGCCCGGGTATAGAAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG--TC-ACTAGCACAAATG
*
63195530 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
63195570 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
63195610 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
63195633 CATCCGAATA
Statistics
Matches: 166, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 12 0.07
40 116 0.70
41 2 0.01
42 1 0.01
43 35 0.21
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:63195528 original size:83 final size:82
Alignment explanation
Indices: 63195408--63195632 Score: 327
Period size: 83 Copynumber: 2.8 Consensus size: 82
63195398 AACCCAAGTA
* *
63195408 CCTTCGGGATTTAG-CCGGATATAGCAA-T--TCGCACAAATGCCTTCGGGTCTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAG-AACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
63195469 TAGTCACTAGCACAAATG
65 TAGTCACTAGCACAAATG
* *
63195487 CCTTCGGGACTTAGCCCGGGTATAGAAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAG-AACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
63195552 TAGTCACTAGCACAAATG
65 TAGTCACTAGCACAAATG
* * *
63195570 CCTTCGGGACTTAGCCCGAATATAG-TC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
63195633 CATCCGAATA
Statistics
Matches: 132, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
79 13 0.10
80 45 0.34
81 2 0.02
83 72 0.55
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CCTTCGGGACTTAGCCCGGATATAGAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AGTCACTAGCACAAATG
Found at i:63202591 original size:30 final size:30
Alignment explanation
Indices: 63202555--63202616 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
63202545 GTTTTGCTAA
63202555 TTTTTCTTGAAACTAGACTCACATATATTC
1 TTTTTCTTGAAACTAGACTCACATATATTC
63202585 TTTTTCTTGAAACTAGACTCACATATATTC
1 TTTTTCTTGAAACTAGACTCACATATATTC
63202615 TT
1 TT
63202617 ACCCTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.45
Consensus pattern (30 bp):
TTTTTCTTGAAACTAGACTCACATATATTC
Found at i:63210747 original size:30 final size:29
Alignment explanation
Indices: 63210711--63210866 Score: 169
Period size: 30 Copynumber: 5.5 Consensus size: 29
63210701 GACAAGATTG
* * *
63210711 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAA-TATATA
*
63210741 GCACTAAGTGTGCGAGTTT--GAT-TATA
1 GCACTAAGTGTGCGAGTTTAAAATATATA
* *
63210767 GCACTAAGTGTGCGAG-CTGAAATATATA
1 GCACTAAGTGTGCGAGTTTAAAATATATA
* *
63210795 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGTTTAAAA-TATATA
* *
63210825 GCACTAAGTGTGCGAGCTGAAAATATAT-
1 GCACTAAGTGTGCGAGTTTAAAATATATA
63210853 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
63210867 GATTCACTAT
Statistics
Matches: 113, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.01
26 19 0.17
27 3 0.03
28 35 0.31
29 8 0.07
30 47 0.42
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAAATATATA
Found at i:63210803 original size:28 final size:28
Alignment explanation
Indices: 63210740--63210866 Score: 181
Period size: 28 Copynumber: 4.5 Consensus size: 28
63210730 AAAATTGTAC
*
63210740 AGCACTAAGTGTGCGAGTTTG--AT-TAT
1 AGCACTAAGTGTGCGAG-CTGAAATATAT
63210766 AGCACTAAGTGTGCGAGCTGAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAATATAT
63210794 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTG-AAA-TATAT
63210824 AGCACTAAGTGTGCGAGCTGAAA-ATAT
1 AGCACTAAGTGTGCGAGCTGAAATATAT
63210851 ATGCACTAAGTGTGCG
1 A-GCACTAAGTGTGCG
63210867 GATTCACTAT
Statistics
Matches: 94, Mismatches: 1, Indels: 10
0.90 0.01 0.10
Matches are distributed among these distances:
25 2 0.02
26 17 0.18
27 7 0.07
28 37 0.39
29 6 0.06
30 25 0.27
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:63218618 original size:30 final size:30
Alignment explanation
Indices: 63218582--63218741 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
63218572 GACAAGATTG
* * * * *
63218582 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
63218612 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
63218640 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
63218669 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
63218699 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
63218728 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
63218742 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:63218709 original size:59 final size:57
Alignment explanation
Indices: 63218582--63218741 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
63218572 GACAAGATTG
* * * * * *
63218582 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
63218640 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
63218699 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
63218742 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:63224324 original size:266 final size:266
Alignment explanation
Indices: 63223850--63224330 Score: 856
Period size: 266 Copynumber: 1.8 Consensus size: 266
63223840 TTTTATAAGA
* * *
63223850 CATATTACGTAATCATCAACCTTTTCGTAAGATTATGAACCATTCTATTTACTTACTTTCCATTC
1 CATATTACGCAATCATCAACCTTTTCATAAGATTAGGAACCATTCTATTTACTTACTTTCCATTC
*
63223915 CATTTCAAATACTTAACATAAGCCTAAACAACATTATCAATTCACGATTTAGTGCATTTATCCAT
66 CATTTCAAATACTTAACATAAGCCTAAACAACATTATCAATTCACGAGTTAGTGCATTTATCCAT
* *
63223980 GATATAGGTAAATTCATCCATAAAATAAATGGATTTCTGACATATAAGTACATCATTTAACTCAT
131 GATATAGGTAAATTCATCCATAAAATAAATAGATTTCTCACATATAAGTACATCATTTAACTCAT
63224045 CAATCCTTTCATATCATCATATTACATCCTAATTATGAACTTACCGTTTCACTCCCCTTTTTTAC
196 CAATCCTTTCATATCATCATATTACATCCTAATTATGAACTTACCGTTTCACTCCCCTTTTTTAC
63224110 CCGTTT
261 CCGTTT
*
63224116 CATATTACGCAATCATCAACCTTTTCATAAGATTAGGAACCATT-TCATTTACTTACTTTCTATT
1 CATATTACGCAATCATCAACCTTTTCATAAGATTAGGAACCATTCT-ATTTACTTACTTTCCATT
*
63224180 CCATTTCAAATACTTAACATAAGCCTAAACAACATTATCAATTCACGAGTTAGTGTATTTATCCA
65 CCATTTCAAATACTTAACATAAGCCTAAACAACATTATCAATTCACGAGTTAGTGCATTTATCCA
* *
63224245 TGATATAGGTAAATTCATCCATAAAATAAATAGATTTCTCATATATAAGTATATCATTTAACTCA
130 TGATATAGGTAAATTCATCCATAAAATAAATAGATTTCTCACATATAAGTACATCATTTAACTCA
63224310 TCAATCCTTTCATATCATCAT
195 TCAATCCTTTCATATCATCAT
63224331 TAACGTCAAA
Statistics
Matches: 204, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
265 1 0.00
266 203 1.00
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.38
Consensus pattern (266 bp):
CATATTACGCAATCATCAACCTTTTCATAAGATTAGGAACCATTCTATTTACTTACTTTCCATTC
CATTTCAAATACTTAACATAAGCCTAAACAACATTATCAATTCACGAGTTAGTGCATTTATCCAT
GATATAGGTAAATTCATCCATAAAATAAATAGATTTCTCACATATAAGTACATCATTTAACTCAT
CAATCCTTTCATATCATCATATTACATCCTAATTATGAACTTACCGTTTCACTCCCCTTTTTTAC
CCGTTT
Found at i:63225606 original size:19 final size:19
Alignment explanation
Indices: 63225576--63225631 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
63225566 TTATATGCAC
*
63225576 ACATGATTCCACTAATC-G
1 ACATAATTCCACTAATCAG
* *
63225594 CACCTAGTTCCACTAATCAG
1 -ACATAATTCCACTAATCAG
63225614 ACATAATTCCACTAATCA
1 ACATAATTCCACTAATCA
63225632 AACACCATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.36, C:0.30, G:0.07, T:0.27
Consensus pattern (19 bp):
ACATAATTCCACTAATCAG
Found at i:63229035 original size:46 final size:46
Alignment explanation
Indices: 63228860--63229035 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
63228850 TGTAACCCGC
* * * * *
63228860 CCATAAGCAAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
63228906 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
*
63228956 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
63228999 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
63229036 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 61 0.57
47 28 0.26
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:63229035 original size:93 final size:93
Alignment explanation
Indices: 63228869--63229039 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
63228859 CCCATAAGCA
* * * *
63228869 AACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
63228934 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* *
63228962 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
63229027 GAGTTCGGATGCC
66 GAGCTCGGATGCC
63229040 CAAACATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:63229054 original size:46 final size:46
Alignment explanation
Indices: 63228869--63229054 Score: 152
Period size: 46 Copynumber: 4.0 Consensus size: 46
63228859 CCCATAAGCA
* * * *
63228869 AACTTGGACTCAACTCAACGAGCTCGG--GCGT-TCGCATCCATGAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAT-ACATCC-T-AGTG
* *
63228915 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CTAGTG
* * *
63228962 AACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T-AGTG
* *
63229008 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGTG
63229054 A
1 A
63229055 CATGTCACTT
Statistics
Matches: 114, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
42 1 0.01
43 6 0.05
45 2 0.02
46 60 0.53
47 29 0.25
48 9 0.08
50 5 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGTG
Found at i:63242932 original size:15 final size:15
Alignment explanation
Indices: 63242909--63242939 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63242899 TTCCTTTGAA
63242909 AATAAACTCATTAAG
1 AATAAACTCATTAAG
*
63242924 AATAGACTCATTAAG
1 AATAAACTCATTAAG
63242939 A
1 A
63242940 TTTTAGGCAT
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:0.52, C:0.13, G:0.10, T:0.26
Consensus pattern (15 bp):
AATAAACTCATTAAG
Found at i:63247543 original size:37 final size:37
Alignment explanation
Indices: 63247493--63247567 Score: 134
Period size: 37 Copynumber: 2.0 Consensus size: 37
63247483 GCGTTACCGG
63247493 ACTTAAACATTCATAAACATACAAAA-CTGGGTCACCA
1 ACTTAAACATTCATAAACATACAAAATC-GGGTCACCA
63247530 ACTTAAACATTCATAAACATACAAAATCGGGTCACCA
1 ACTTAAACATTCATAAACATACAAAATCGGGTCACCA
63247567 A
1 A
63247568 ATTTTGCCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.21
Consensus pattern (37 bp):
ACTTAAACATTCATAAACATACAAAATCGGGTCACCA
Found at i:63264071 original size:28 final size:28
Alignment explanation
Indices: 63263979--63264078 Score: 78
Period size: 28 Copynumber: 3.6 Consensus size: 28
63263969 TCGATGTCTC
* * * *
63263979 GCACACTATGTACCATACTCGATACCTC
1 GCACACTAAGTGCCATACTCGATACTTT
* * * *
63264007 GCACGCTAAGTGCTATTCTGGAT--TTT
1 GCACACTAAGTGCCATACTCGATACTTT
* *
63264033 CCACACTCTAAGTGCCATCCTCGATACTTT
1 GCACA--CTAAGTGCCATACTCGATACTTT
63264063 GCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
63264079 TTAATATATA
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
26 4 0.07
28 43 0.80
30 7 0.13
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCGATACTTT
Found at i:63264161 original size:40 final size:39
Alignment explanation
Indices: 63264089--63264171 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
63264079 TTAATATATA
**
63264089 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * *
63264129 TAGCCGAAGCTATTTCAAACCGCATACTAAGTGTCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
63264168 TAGC
1 TAGC
63264172 TGATAAGTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 7 0.19
40 30 0.81
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:63266408 original size:40 final size:40
Alignment explanation
Indices: 63266363--63266492 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
63266353 CGGAATATAA
*
63266363 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
63266403 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
63266443 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
63266483 CCGGATATAA
1 CCGGATATAA
63266493 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63266507 original size:40 final size:40
Alignment explanation
Indices: 63266379--63266530 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
63266369 ATAACCATGT
* * *
63266379 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
63266419 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
63266459 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * * *
63266499 GCATAATTGTCTTCGGGGCTTAGCCCGAATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
63266531 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:63266513 original size:80 final size:80
Alignment explanation
Indices: 63266379--63266530 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
63266369 ATAACCATGT
* *
63266379 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
*
63266444 CGGATATAGCCACTA
66 CGAATATAGCCACTA
* * ** * *
63266459 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
63266522 CCCGAATAT
64 CCCGAATAT
63266531 CATTCAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGAATATAGCCACTA
Found at i:63277272 original size:19 final size:19
Alignment explanation
Indices: 63277245--63277283 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
63277235 TTATTCTAGC
*
63277245 AACTAAATTAACTAAGATG
1 AACTAAATTAACGAAGATG
*
63277264 AACTTAATTAACGAAGATG
1 AACTAAATTAACGAAGATG
63277283 A
1 A
63277284 GTAATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (19 bp):
AACTAAATTAACGAAGATG
Found at i:63277300 original size:54 final size:54
Alignment explanation
Indices: 63277235--63277363 Score: 204
Period size: 54 Copynumber: 2.4 Consensus size: 54
63277225 CAACAATAAA
* * * * *
63277235 TTATTCTAGCAACTAAATTAACTAAGATGAACTTAATTAACGAAGATGAGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACGAAGATGAGTAAT
*
63277289 TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACTAAGATGAGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACGAAGATGAGTAAT
63277343 TTATTCCAGCAACTTAATTAA
1 TTATTCCAGCAACTTAATTAA
63277364 TTAAACTAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (54 bp):
TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACGAAGATGAGTAAT
Found at i:63279588 original size:18 final size:18
Alignment explanation
Indices: 63279565--63279599 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63279555 CTTGGCCCTT
63279565 TGCAATAACAGTAAACAA
1 TGCAATAACAGTAAACAA
63279583 TGCAATAACAGTAAACA
1 TGCAATAACAGTAAACA
63279600 GTACAGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.17
Consensus pattern (18 bp):
TGCAATAACAGTAAACAA
Found at i:63279959 original size:27 final size:27
Alignment explanation
Indices: 63279929--63280080 Score: 135
Period size: 27 Copynumber: 5.7 Consensus size: 27
63279919 TCTAAACATA
* * *
63279929 TACCACATAGGGGCAAAACAGTCAATT
1 TACCACATAAGGGCAAAACAATCATTT
** *** *
63279956 TACCATGT-AGGGCATTCCAGTCATTT
1 TACCACATAAGGGCAAAACAATCATTT
* *
63279982 TACCATATAAGGACAAAACAATCATTT
1 TACCACATAAGGGCAAAACAATCATTT
**
63280009 TACCTGATAAGGGCAAAACAATCATTT
1 TACCACATAAGGGCAAAACAATCATTT
* * * *
63280036 TGCCTCTTAAGGGAAAAACAATCATTT
1 TACCACATAAGGGCAAAACAATCATTT
*
63280063 TACCTCATAAGGGCAAAA
1 TACCACATAAGGGCAAAA
63280081 TAGTTATTTC
Statistics
Matches: 101, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 20 0.20
27 81 0.80
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (27 bp):
TACCACATAAGGGCAAAACAATCATTT
Found at i:63280089 original size:27 final size:27
Alignment explanation
Indices: 63279976--63280080 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
63279966 GGCATTCCAG
*
63279976 TCATTTTACCAT-ATAAGGACAAAACAA
1 TCATTTTACC-TCATAAGGGCAAAACAA
*
63280003 TCATTTTACCTGATAAGGGCAAAACAA
1 TCATTTTACCTCATAAGGGCAAAACAA
* * *
63280030 TCATTTTGCCTCTTAAGGGAAAAACAA
1 TCATTTTACCTCATAAGGGCAAAACAA
63280057 TCATTTTACCTCATAAGGGCAAAA
1 TCATTTTACCTCATAAGGGCAAAA
63280081 TAGTTATTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 68 0.99
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (27 bp):
TCATTTTACCTCATAAGGGCAAAACAA
Found at i:63284122 original size:40 final size:40
Alignment explanation
Indices: 63284042--63284298 Score: 245
Period size: 40 Copynumber: 6.5 Consensus size: 40
63284032 GGGTGTTACA
** * *
63284042 TAGGCACTAAGCCTATGT-AC-TACCGGCACGAAGCCTGC
1 TAGGCACTAAGCCTAAATAACACACCAGCACGAAGCCTGC
* * *
63284080 TAGGCGCTAAGCCTAAATAACACGCCAGCACAAAGCCTGC
1 TAGGCACTAAGCCTAAATAACACACCAGCACGAAGCCTGC
* * * *
63284120 TAGGCACTAAGTCTGAATAACACACCACCACGAAGTCC-AC
1 TAGGCACTAAGCCTAAATAACACACCAGCACGAAG-CCTGC
* * * * *
63284160 CAGGCACTAAGCCCAAATAACACATC-GACATGAAGCCTAC
1 TAGGCACTAAGCCTAAATAACACACCAG-CACGAAGCCTGC
* * *
63284200 T-GGCACTAAGCCGAAATAACACACTAGTACGAAGCCTGC
1 TAGGCACTAAGCCTAAATAACACACCAGCACGAAGCCTGC
* **
63284239 TAGGCACTATGCCTAAATAACACACCAGCACGAAGCCTAT
1 TAGGCACTAAGCCTAAATAACACACCAGCACGAAGCCTGC
* *
63284279 TAAGCACTAAGCCTGAATAA
1 TAGGCACTAAGCCTAAATAA
63284299 TTATAAGGTA
Statistics
Matches: 175, Mismatches: 37, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
38 15 0.09
39 35 0.20
40 123 0.70
41 2 0.01
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (40 bp):
TAGGCACTAAGCCTAAATAACACACCAGCACGAAGCCTGC
Found at i:63284244 original size:79 final size:80
Alignment explanation
Indices: 63284068--63284298 Score: 240
Period size: 79 Copynumber: 2.9 Consensus size: 80
63284058 GTACTACCGG
* * *
63284068 CACGAAGCCTGCTAGGCGCTAAGCCTAAATAACACGCCAGCACAAAGCCTGCTAGGCACTAAGTC
1 CACGAAGCCTGCTAGGCACTAAGCCTAAATAACACACCAGCACAAAGCCTACTAGGCACTAAGTC
*
63284133 TGAATAACACACCAC
66 CGAATAACACACCAC
* * * *
63284148 CACGAAGTCC-ACCAGGCACTAAGCCCAAATAACACATC-G-ACATGAAGCCTACT-GGCACTAA
1 CACGAAG-CCTGCTAGGCACTAAGCCTAAATAACACACCAGCACA--AAGCCTACTAGGCACTAA
* *
63284209 G-CCGAAATAACACACTAG
63 GTCCG-AATAACACACCAC
* * * * *
63284227 TACGAAGCCTGCTAGGCACTATGCCTAAATAACACACCAGCACGAAGCCTATTAAGCACTAAG-C
1 CACGAAGCCTGCTAGGCACTAAGCCTAAATAACACACCAGCACAAAGCCTACTAGGCACTAAGTC
63284291 CTGAATAA
66 C-GAATAA
63284299 TTATAAGGTA
Statistics
Matches: 123, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
78 7 0.06
79 58 0.47
80 53 0.43
81 5 0.04
ACGTcount: A:0.37, C:0.31, G:0.17, T:0.15
Consensus pattern (80 bp):
CACGAAGCCTGCTAGGCACTAAGCCTAAATAACACACCAGCACAAAGCCTACTAGGCACTAAGTC
CGAATAACACACCAC
Found at i:63284298 original size:119 final size:120
Alignment explanation
Indices: 63284071--63284291 Score: 293
Period size: 119 Copynumber: 1.9 Consensus size: 120
63284061 CTACCGGCAC
* * * * * *
63284071 GAAGCCTGCTAGGCGCTAAGCCTAAATAACACGCCAGCACAAAGCCTGCTAGGCACTAAGTCTGA
1 GAAGCCTACTAGGCACTAAGCCGAAATAACACACCAGCACAAAGCCTGCTAGGCACTAAGCCTAA
*
63284136 ATAACACACCACCACGAAGTCCACCAGGCACTAAGCCCAAATAACACATCGACAT
66 ATAACACACCACCACGAAGTCCACCAAGCACTAAGCCCAAATAACACATCGACAT
* * * *
63284191 GAAGCCTACT-GGCACTAAGCCGAAATAACACACTAGTACGAAGCCTGCTAGGCACTATGCCTAA
1 GAAGCCTACTAGGCACTAAGCCGAAATAACACACCAGCACAAAGCCTGCTAGGCACTAAGCCTAA
* **
63284255 ATAACACACCAGCACGAAG-CCTATTAAGCACTAAGCC
66 ATAACACACCACCACGAAGTCC-ACCAAGCACTAAGCC
63284292 TGAATAATTA
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
118 2 0.02
119 75 0.87
120 9 0.10
ACGTcount: A:0.37, C:0.31, G:0.18, T:0.14
Consensus pattern (120 bp):
GAAGCCTACTAGGCACTAAGCCGAAATAACACACCAGCACAAAGCCTGCTAGGCACTAAGCCTAA
ATAACACACCACCACGAAGTCCACCAAGCACTAAGCCCAAATAACACATCGACAT
Found at i:63286238 original size:48 final size:47
Alignment explanation
Indices: 63286180--63286346 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 47
63286170 AAGCTAACGC
* *
63286180 CATGTCCCAGAC-TGGTCTTACACTAGCTTGTATATCGCAA-GGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTCT-CATCGCAATGG-CGATG
* *
63286228 CATGTCCCAGACATGTCTTACACTAGC-TCTCGTCTCAATGGCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTCATCGCAATGGCGATG
* * **
63286274 CATGTCCCGGACATGTCTTACACTAGC-TCTCAT-ACTGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTCATCGCAATGGC-GATG
* *
63286320 CATG-CCTCAGACATGTCTAATACTAGC
1 CATGTCC-CAGACATGTCTTACACTAGC
63286347 ACACATATCA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
45 7 0.07
46 66 0.64
47 4 0.04
48 25 0.24
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTCATCGCAATGGCGATG
Found at i:63299818 original size:53 final size:53
Alignment explanation
Indices: 63299738--63299841 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
63299728 GTCCACTCTT
*
63299738 ATTTTTACAAACTCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
1 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
*
63299791 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTTAATACATTTGG
1 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGG
63299842 ACAGACATCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (53 bp):
ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
Found at i:63301370 original size:31 final size:31
Alignment explanation
Indices: 63301332--63301403 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
63301322 GTTACTGCGT
63301332 CGAAGCCTTTTCATAAATCATATCACTGGGC
1 CGAAGCCTTTTCATAAATCATATCACTGGGC
*
63301363 CGAAGCCTTTTCATAAATCATATCATTGGGC
1 CGAAGCCTTTTCATAAATCATATCACTGGGC
63301394 CGAAGCCTTT
1 CGAAGCCTTT
63301404 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (31 bp):
CGAAGCCTTTTCATAAATCATATCACTGGGC
Found at i:63301474 original size:42 final size:42
Alignment explanation
Indices: 63301427--63301518 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
63301417 TGGCCCTTAG
* ** **
63301427 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATAAATGTATGCAA
63301469 GCCCATTTCAATATCACATGAAATACCAATAAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATAAATGTATGCAA
63301511 GCCCATTT
1 GCCCATTT
63301519 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATAAATGTATGCAA
Found at i:63301734 original size:26 final size:26
Alignment explanation
Indices: 63301663--63301837 Score: 237
Period size: 26 Copynumber: 6.8 Consensus size: 26
63301653 CCTCTTTAAT
* **
63301663 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
63301688 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* * **
63301713 AACTGGGACATAAGCCCCTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
63301739 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
63301765 AACTGGGGCATAAGCCATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
63301791 AACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
63301817 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
63301838 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
25 31 0.24
26 99 0.76
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:63301759 original size:52 final size:52
Alignment explanation
Indices: 63301663--63301837 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
63301653 CCTCTTTAAT
*
63301663 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* *
63301713 AACTGGGACATAAGCCCCTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* *
63301765 AACTGGGGCATAAGCCATTTTCGGTAAACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
63301817 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
63301838 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 8 0.07
51 24 0.21
52 83 0.72
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:63302702 original size:27 final size:27
Alignment explanation
Indices: 63302637--63302705 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
63302627 GGGCATATTC
* * *
63302637 GTCATTTTACCATACAAGGGTATTACG
1 GTCACTTTACCCTACAAGGGTATTACA
*
63302664 GTCACTTTACCCTACAGGGGCT-TTACA
1 GTCACTTTACCCTACAAGGG-TATTACA
63302691 GTCACTTTACCCTAC
1 GTCACTTTACCCTAC
63302706 TGCTTTACGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAAGGGTATTACA
Found at i:63302809 original size:27 final size:27
Alignment explanation
Indices: 63302756--63303058 Score: 161
Period size: 27 Copynumber: 11.3 Consensus size: 27
63302746 TTTCATCCTA
* * * * *
63302756 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
63302783 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
63302810 CAATGGTATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-C
* * *
63302839 CAA-GGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * * *
63302865 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** ** * *
63302892 TGA-GGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
63302918 C-AGTGGTATTTTAGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * *
63302945 C-AGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * ** *
63302970 CTAGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
63302997 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
63303024 CAAGGGTATTTTAATAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
63303051 CAAGGGTA
1 CAAGGGTA
63303059 AAATAGTAAT
Statistics
Matches: 222, Mismatches: 44, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 64 0.29
27 133 0.60
28 20 0.09
29 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:63302906 original size:26 final size:27
Alignment explanation
Indices: 63302869--63303044 Score: 137
Period size: 26 Copynumber: 6.6 Consensus size: 27
63302859 GTAAATCAGG
**
63302869 GGTATTTTGGTAATTTTACAAA-TTGA
1 GGTATTTTGGTAATTTTACAAACCAGA
* * *
63302895 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACCAGA
*
63302922 GGTATTTTAGTAATTTTACAAACCAG-
1 GGTATTTTGGTAATTTTACAAACCAGA
* * * *
63302948 GGTATTTTAGCAATTTTACAGACTAG-
1 GGTATTTTGGTAATTTTACAAACCAGA
*** *
63302974 GGTATTTTGGTAATTTTATTGATC-GA
1 GGTATTTTGGTAATTTTACAAACCAGA
**
63303000 GGGTATTTTGGTAATTTTGTAAACCA-A
1 -GGTATTTTGGTAATTTTACAAACCAGA
**
63303027 GGGTATTTTAATAATTTT
1 -GGTATTTTGGTAATTTT
63303045 GTAAATCAAG
Statistics
Matches: 123, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
25 1 0.01
26 61 0.50
27 61 0.50
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGA
Found at i:63302926 original size:53 final size:52
Alignment explanation
Indices: 63302868--63302991 Score: 142
Period size: 53 Copynumber: 2.4 Consensus size: 52
63302858 TGTAAATCAG
** * *
63302868 GGGTATTTTGGTAATTTTACAAA-TTGAGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACCAG-GGTATTTCAGCAATTTCACAAACCA
* * * * *
63302920 GTGGTATTTTAGTAATTTTACAAACCAGGGTATTTTAGCAATTTTACAGACTA
1 G-GGTATTTTGGTAATTTTACAAACCAGGGTATTTCAGCAATTTCACAAACCA
63302973 GGGTATTTTGGTAATTTTA
1 GGGTATTTTGGTAATTTTA
63302992 TTGATCGAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
52 18 0.30
53 41 0.68
54 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (52 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGTATTTCAGCAATTTCACAAACCA
Found at i:63303068 original size:27 final size:27
Alignment explanation
Indices: 63303010--63303138 Score: 134
Period size: 27 Copynumber: 4.8 Consensus size: 27
63303000 GGGTATTTTG
* * ***
63303010 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTCTGTAAATCAAGGGTAAAATA
* *
63303037 ATAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATA
63303064 GTAATTCTGTAAAT-AAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATA
* * **
63303090 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAATA
* *
63303117 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCAAGGGTA
63303139 CTTTGGTAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 25 0.28
27 65 0.72
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAATA
Found at i:63303146 original size:27 final size:27
Alignment explanation
Indices: 63302972--63303149 Score: 106
Period size: 27 Copynumber: 6.6 Consensus size: 27
63302962 TTTACAGACT
* * ** *
63302972 AGGGTATTTTGGTAATTTTATTGATCG
1 AGGGTAATTTGGTAATTCTATAAATCA
* * * *
63302999 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTAATTTGGTAATTCTATAAATCA
* ** * *
63303026 AGGGTATTTTAATAATTTTGTAAATCA
1 AGGGTAATTTGGTAATTCTATAAATCA
** * *
63303053 AGGGTAAAATAGTAATTCTGTAAAT-A
1 AGGGTAATTTGGTAATTCTATAAATCA
** * *
63303079 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTCTATAAATCA
*** *
63303106 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTCTATAAATCA
*
63303133 AGGGTACTTTGGTAATT
1 AGGGTAATTTGGTAATT
63303150 TTACAATTTG
Statistics
Matches: 129, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 25 0.19
27 104 0.81
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTATAAATCA
Found at i:63305432 original size:31 final size:31
Alignment explanation
Indices: 63305394--63305468 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
63305384 AATGGTTACT
63305394 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
63305425 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
63305456 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
63305469 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:63305539 original size:42 final size:42
Alignment explanation
Indices: 63305492--63305583 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
63305482 TGGCCCTTAG
* ** *
63305492 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
63305534 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
63305576 GCCCATTT
1 GCCCATTT
63305584 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:63305834 original size:26 final size:26
Alignment explanation
Indices: 63305728--63305897 Score: 237
Period size: 26 Copynumber: 6.8 Consensus size: 26
63305718 CCTCTTTAAT
**
63305728 AACTGGGGCA-AAGCCC-TTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
63305752 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
63305777 AACT-GGGCATAAGCCC--TTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
63305800 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
63305826 AACTGGGGCATAAG-CCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
63305851 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
63305877 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
63305898 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.07
24 33 0.25
25 39 0.30
26 49 0.38
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:63305865 original size:51 final size:51
Alignment explanation
Indices: 63305728--63305897 Score: 285
Period size: 51 Copynumber: 3.4 Consensus size: 51
63305718 CCTCTTTAAT
*
63305728 AACTGGGGCA-AAGCCCTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
63305777 AACT-GGGCATAAGCC-CTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
63305826 AACTGGGGCATAAGCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
63305877 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAG-CCTTTT
63305898 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
48 22 0.19
49 28 0.25
50 11 0.10
51 47 0.41
52 6 0.05
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (51 bp):
AACTGGGGCATAAGCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:63306768 original size:25 final size:25
Alignment explanation
Indices: 63306690--63306781 Score: 112
Period size: 27 Copynumber: 3.5 Consensus size: 25
63306680 GGGCATATTC
* *
63306690 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACC-TACAGGGCT-TTACG
63306717 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACA-GGGCTTTACG
63306744 GTCACTTTACCTACAGGGCTTTACG
1 GTCACTTTACCTACAGGGCTTTACG
**
63306769 GTCTTTTTACCTA
1 GTCACTTTACCTA
63306782 ATAGGGGTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
25 21 0.36
26 6 0.10
27 26 0.44
28 6 0.10
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (25 bp):
GTCACTTTACCTACAGGGCTTTACG
Found at i:63307043 original size:26 final size:26
Alignment explanation
Indices: 63306923--63307098 Score: 183
Period size: 27 Copynumber: 6.7 Consensus size: 26
63306913 TGTAAATCAG
**
63306923 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAA-CCA
* *
63306950 GGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTACAAACCA
63306976 GTGGTATTTTGGTAATTTTACAAA-CA
1 G-GGTATTTTGGTAATTTTACAAACCA
* * *
63307002 GGGTATTTTAGCAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACCA
** * *
63307028 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTA-CAAACCA
**
63307055 GGGTATTTTGGTAATTTTGTAAACCA
1 GGGTATTTTGGTAATTTTACAAACCA
* *
63307081 AGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
63307099 GTAAATCAGG
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
25 20 0.16
26 43 0.34
27 62 0.50
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACCA
Found at i:63307099 original size:26 final size:26
Alignment explanation
Indices: 63306812--63307111 Score: 181
Period size: 27 Copynumber: 11.2 Consensus size: 26
63306802 TCATCCTACA
* * * *
63306812 AGGGTGTTTTGGTAAATCTACAAACC
1 AGGGTATTTTGGTAATTTTATAAACC
** *
63306838 AAGGGTATTTCAGTAATTTTGTAAACC
1 -AGGGTATTTTGGTAATTTTATAAACC
* *** * *
63306865 AATGGTATTTCCATAATTTTTAGAAAGTCA
1 -AGGGTATTTTGGTAA-TTTTATAAA--CC
* * *
63306895 AGGGTATTTCT-GTAACTTTGTAAATC
1 AGGGTATTT-TGGTAATTTTATAAACC
* **
63306921 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAA-CC
* * *
63306949 AGGGTATTTCGGTAATTTCACAAACC
1 AGGGTATTTTGGTAATTTTATAAACC
*
63306975 AGTGGTATTTTGGTAATTTTACAAA-C
1 AG-GGTATTTTGGTAATTTTATAAACC
* * * *
63307001 AGGGTATTTTAGCAATTTTACAAACT
1 AGGGTATTTTGGTAATTTTATAAACC
* * *
63307027 AGGGTATTTTGGTAATTTTATTGATCG
1 AGGGTATTTTGGTAATTTTA-TAAACC
*
63307054 AGGGTATTTTGGTAATTTTGTAAACC
1 AGGGTATTTTGGTAATTTTATAAACC
* * * *
63307080 AAGGTATTTTAGTAATTTTGTAAATC
1 AGGGTATTTTGGTAATTTTATAAACC
63307106 AGGGTA
1 AGGGTA
63307112 AAACAGTAAT
Statistics
Matches: 215, Mismatches: 48, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
25 20 0.09
26 56 0.26
27 112 0.52
28 15 0.07
29 11 0.05
30 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTATAAACC
Found at i:63307190 original size:53 final size:53
Alignment explanation
Indices: 63307090--63307217 Score: 188
Period size: 53 Copynumber: 2.4 Consensus size: 53
63307080 AAGGTATTTT
* * *
63307090 AGTAATTTTGTAAATC-AGGGTAAAACAGTAATTCTGTAAATAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATAAGGGTAAAAC
*
63307142 AGTAATTCTATAAATCGAGGGTAAAAC-GTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAAT-AAGGGTAAAAC
*
63307195 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
63307218 CTTTGGTAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
52 27 0.39
53 42 0.61
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (53 bp):
AGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATAAGGGTAAAAC
Found at i:63307207 original size:27 final size:27
Alignment explanation
Indices: 63307090--63307217 Score: 190
Period size: 26 Copynumber: 4.9 Consensus size: 27
63307080 AAGGTATTTT
* *
63307090 AGTAATTTTGTAAATC-AGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
63307116 AGTAATTCTGTAAAT-AAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
63307142 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
63307169 -GTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
63307195 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
63307218 CTTTGGTAAT
Statistics
Matches: 96, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
26 64 0.67
27 32 0.33
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:63309355 original size:53 final size:53
Alignment explanation
Indices: 63309275--63309378 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
63309265 GTCCACTCTT
*
63309275 ATTTTTACAAACTCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
1 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
*
63309328 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTTAATACATTTGG
1 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGG
63309379 ACAGACATCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (53 bp):
ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
Found at i:63310912 original size:31 final size:31
Alignment explanation
Indices: 63310874--63310946 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
63310864 GGTTACTGCA
63310874 CCGAAGCCTTTTCATAAATCATATCACTGGG
1 CCGAAGCCTTTTCATAAATCATATCACTGGG
*
63310905 CCGAAGCCTTTTCATAAATCATATCATTGGG
1 CCGAAGCCTTTTCATAAATCATATCACTGGG
63310936 CCGAAG-CTTTT
1 CCGAAGCCTTTT
63310947 ACTGTAAACG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 5 0.12
31 36 0.88
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (31 bp):
CCGAAGCCTTTTCATAAATCATATCACTGGG
Found at i:63311017 original size:42 final size:42
Alignment explanation
Indices: 63310970--63311061 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
63310960 TGGCCCTTAG
* **
63310970 GCCCATTTCAATATCACATGTAATGTCAATGGA-TGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAAT-GATTGTATGCAA
63311012 GCCCATTTCAATATCACATGAAATACCAATGATTGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGATTGTATGCAA
63311054 GCCCATTT
1 GCCCATTT
63311062 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 2 0.04
42 44 0.96
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGATTGTATGCAA
Found at i:63311233 original size:25 final size:26
Alignment explanation
Indices: 63311205--63311352 Score: 221
Period size: 25 Copynumber: 5.8 Consensus size: 26
63311195 CCTCTTTAAT
63311205 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
63311230 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
63311255 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* *
63311280 AACTGGGACATAAGCCCCTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
63311306 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
63311332 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
63311353 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 57 0.51
26 55 0.49
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:63312243 original size:27 final size:27
Alignment explanation
Indices: 63312154--63312246 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
63312144 GGGCATATTC
* * *
63312154 GTCATTTTACCATACAA-GGTTATTACG
1 GTCACTTTACCTTACAAGGGCT-TTACG
* * *
63312181 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCTTACAAGGGCTTTACG
63312208 GTCACTTTACCTTACAAGGGCTTTACG
1 GTCACTTTACCTTACAAGGGCTTTACG
**
63312235 GTCTTTTTACCT
1 GTCACTTTACCT
63312247 AATAGGGGTA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 52 0.95
28 3 0.05
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (27 bp):
GTCACTTTACCTTACAAGGGCTTTACG
Found at i:63312329 original size:27 final size:27
Alignment explanation
Indices: 63312276--63312581 Score: 181
Period size: 27 Copynumber: 11.3 Consensus size: 27
63312266 TTTCATCCTA
* * * * *
63312276 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
63312303 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
63312330 CAATGGTATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-C
* * *
63312359 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAC
* * * * *
63312386 CAGGGGTATTTTGGTAATATTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** ** * *
63312413 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
63312440 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* *
63312467 C-AGTGGTATTTTAGCAATTTTATAGA-
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * ** *
63312493 CTAGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
63312520 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
63312547 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
63312574 CAAGGGTA
1 CAAGGGTA
63312582 AAATAGTAAT
Statistics
Matches: 225, Mismatches: 46, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
26 23 0.10
27 174 0.77
28 14 0.06
29 14 0.06
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:63312510 original size:80 final size:80
Alignment explanation
Indices: 63312415--63312567 Score: 193
Period size: 80 Copynumber: 1.9 Consensus size: 80
63312405 TTACAAATTG
63312415 AGGGTATTTCGGTAATTTCA-CAAACCAGTGGTATTTTGGTAATTTTACAAACC-AGTGGTATTT
1 AGGGTATTTCGGTAATTTCATCAAACCAG-GGTATTTTGGTAATTTTACAAACCAAG-GGTATTT
63312478 TAGCAATTTTATAGACT
64 TAGCAATTTTATAGACT
* * ** * * **
63312495 AGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTA
1 AGGGTATTTCGGTAATTTCATCAAACCAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
*
63312560 GTAATTTT
66 GCAATTTT
63312568 GTAAATCAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 56 0.90
81 6 0.10
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.42
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTCATCAAACCAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
GCAATTTTATAGACT
Found at i:63312567 original size:54 final size:54
Alignment explanation
Indices: 63312276--63312599 Score: 224
Period size: 54 Copynumber: 6.0 Consensus size: 54
63312266 TTTCATCCTA
* * * * * *
63312276 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAAC
* *** * * * *
63312330 CAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-TCGAGGGTATTT-TAGTAATTTTGTAAAC
* * * * ** ***
63312386 CAGGGGTATTTTGGTAATATTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAAC
* * * * *
63312440 C-AGTGGTATTTTGGTAATTTTACAAA-CCAGTGGTATTTTAGCAATTTTATAGA-
1 CAAG-GGTATTTTGGTAATTTTATAAATCGAG-GGTATTTTAGTAATTTTGTAAAC
* ** *
63312493 CTAGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAAC
* * * *** *
63312547 CAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAA
1 CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAA
63312600 TAAGTGTAAA
Statistics
Matches: 206, Mismatches: 55, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
53 41 0.20
54 116 0.56
55 13 0.06
56 35 0.17
57 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAAC
Found at i:63312588 original size:27 final size:27
Alignment explanation
Indices: 63312559--63312688 Score: 163
Period size: 27 Copynumber: 4.9 Consensus size: 27
63312549 AGGGTATTTT
* *
63312559 AGTAATTTTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
63312586 AGTAATTCTGTAAAT-AAGTGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
63312612 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
63312639 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
63312666 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCAAGGGTA
63312689 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 23 0.25
27 70 0.75
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:63312713 original size:54 final size:54
Alignment explanation
Indices: 63312559--63312688 Score: 181
Period size: 53 Copynumber: 2.4 Consensus size: 54
63312549 AGGGTATTTT
* * * ** * *
63312559 AGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAAT-AAGTGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
63312612 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
*
63312666 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
63312689 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
53 37 0.54
54 31 0.46
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (54 bp):
AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:63314843 original size:44 final size:44
Alignment explanation
Indices: 63314795--63314881 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
63314785 TAGCACTATG
* *
63314795 TGTGCGATACTAATATAAG-TTCGGTTTAATGAAA-TGGCACTAAC
1 TGTGCGATAATAATAT-AGCTTCGG-CTAATGAAATTGGCACTAAC
* *
63314839 TGTGCGATAATATTATAGCTTCGGCTAATTAAATTGGCACTAA
1 TGTGCGATAATAATATAGCTTCGGCTAATGAAATTGGCACTAA
63314882 GTGTCTGAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 9 0.24
44 28 0.76
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (44 bp):
TGTGCGATAATAATATAGCTTCGGCTAATGAAATTGGCACTAAC
Found at i:63322205 original size:49 final size:49
Alignment explanation
Indices: 63322145--63322400 Score: 403
Period size: 49 Copynumber: 5.3 Consensus size: 49
63322135 GTATGAGATA
*
63322145 TATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
63322194 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
63322243 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
63322292 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * *
63322339 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
63322386 TATAAATGTGATAAG
1 TATATATGTGATAAG
63322401 TCCCGAAGGG
Statistics
Matches: 197, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 56 0.28
49 141 0.72
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:63324731 original size:31 final size:31
Alignment explanation
Indices: 63324696--63324759 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
63324686 GTAAAACGAT
63324696 ATAGTCTGAAAGCAGCTGTAGATTGTCAAAA
1 ATAGTCTGAAAGCAGCTGTAGATTGTCAAAA
63324727 ATAGTCTGAAAGCAGCTGTAGATTGTCAAAA
1 ATAGTCTGAAAGCAGCTGTAGATTGTCAAAA
63324758 AT
1 AT
63324760 CGTATGCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (31 bp):
ATAGTCTGAAAGCAGCTGTAGATTGTCAAAA
Found at i:63331413 original size:9 final size:9
Alignment explanation
Indices: 63331399--63331458 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
63331389 GTTTTATTCC
63331399 TTCTTTTAT
1 TTCTTTTAT
63331408 TTCTTTTTAT
1 TTC-TTTTAT
* *
63331418 TTCATTTCT
1 TTCTTTTAT
63331427 TT-TATTTAT
1 TTCT-TTTAT
63331436 TT-TTTTA-
1 TTCTTTTAT
63331443 TTCTTTTAT
1 TTCTTTTAT
63331452 TTACTTT
1 TT-CTTT
63331459 ATTATTATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
7 2 0.05
8 9 0.21
9 18 0.43
10 13 0.31
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (9 bp):
TTCTTTTAT
Found at i:63331426 original size:15 final size:14
Alignment explanation
Indices: 63331403--63331441 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
63331393 TATTCCTTCT
63331403 TTTATTTCTTTTTA
1 TTTATTTCTTTTTA
63331417 TTTCATTTC-TTTTA
1 TTT-ATTTCTTTTTA
63331431 TTTATTT-TTTT
1 TTTATTTCTTTT
63331442 ATTCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 7 0.30
14 11 0.48
15 5 0.22
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTCTTTTTA
Found at i:63331426 original size:24 final size:22
Alignment explanation
Indices: 63331390--63331464 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 22
63331380 TTCTTCTATG
**
63331390 TTTTATTCCTTCTTTTATTTCT
1 TTTTATTTATTCTTTTATTTCT
*
63331412 TTTTATTTCATTTCTTTTATTT-A
1 TTTTATTT-A-TTCTTTTATTTCT
63331435 TTTT-TTTATTCTTTTATTTACT
1 TTTTATTTATTCTTTTATTT-CT
63331457 TTATTATT
1 TT-TTATT
63331465 ATATATTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 11 0.26
21 1 0.02
22 12 0.28
23 6 0.14
24 13 0.30
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTATTTATTCTTTTATTTCT
Found at i:63331448 original size:20 final size:20
Alignment explanation
Indices: 63331399--63331464 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
63331389 GTTTTATTCC
*
63331399 TTCTTTTATTTCTTTTTATTTCA
1 TTCTTTTATTT-ATTTT-TTT-A
63331422 TTTCTTTTATTTATTTTTTTA
1 -TTCTTTTATTTATTTTTTTA
* *
63331443 TTCTTTTATTTACTTTATTA
1 TTCTTTTATTTATTTTTTTA
63331463 TT
1 TT
63331465 ATATATTACT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 20 0.51
21 1 0.03
22 3 0.08
23 4 0.10
24 11 0.28
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (20 bp):
TTCTTTTATTTATTTTTTTA
Found at i:63340871 original size:16 final size:16
Alignment explanation
Indices: 63340850--63340914 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
63340840 ATATCATAAT
63340850 CATTTCTCATATTTTC
1 CATTTCTCATATTTTC
*
63340866 CATTTC-AATATTTTC
1 CATTTCTCATATTTTC
63340881 TCA--TCTCATA--TT-
1 -CATTTCTCATATTTTC
* *
63340893 CATTTATCATATTTGC
1 CATTTCTCATATTTTC
63340909 CATTTC
1 CATTTC
63340915 AATATTAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
11 2 0.05
13 8 0.22
14 2 0.05
15 12 0.32
16 13 0.35
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.52
Consensus pattern (16 bp):
CATTTCTCATATTTTC
Found at i:63340891 original size:15 final size:14
Alignment explanation
Indices: 63340854--63340892 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
63340844 CATAATCATT
63340854 TCTCATATTTTCCA
1 TCTCATATTTTCCA
*
63340868 TTTCAATATTTTCTCA
1 TCTC-ATATTTTC-CA
63340884 TCTCATATT
1 TCTCATATT
63340893 CATTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.62
16 5 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (14 bp):
TCTCATATTTTCCA
Found at i:63340896 original size:43 final size:43
Alignment explanation
Indices: 63340838--63340920 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
63340828 ATCTCATTTA
* *
63340838 TCATATCATAATCATTTCTCATATTTTCCATTTCAATATTTTC
1 TCATATCATAATCATTTATCATATTTGCCATTTCAATATTTTC
* *
63340881 TCATCTCATATTCATTTATCATATTTGCCATTTCAATATT
1 TCATATCATAATCATTTATCATATTTGCCATTTCAATATT
63340921 AATCACATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.28, C:0.20, G:0.01, T:0.51
Consensus pattern (43 bp):
TCATATCATAATCATTTATCATATTTGCCATTTCAATATTTTC
Found at i:63345009 original size:79 final size:82
Alignment explanation
Indices: 63344872--63345056 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 82
63344862 TCGAATGATG
*
63344872 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
63344936 TGTGCGAGTTACTA-AA
66 TGTGCGAGTTACTATAA
* * * **
63344952 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
63345014 TTGTGCGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
*
63345032 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
63345057 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.63
80 33 0.35
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:63345063 original size:40 final size:40
Alignment explanation
Indices: 63344872--63345056 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
63344862 TCGAATGATG
* * *
63344872 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
63344912 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63344952 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63344991 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
63345032 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
63345057 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 40 0.30
40 83 0.62
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:63345078 original size:79 final size:79
Alignment explanation
Indices: 63344872--63345089 Score: 252
Period size: 79 Copynumber: 2.7 Consensus size: 79
63344862 TCGAATGATG
* *
63344872 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCAT
63344935 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* *
63344952 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCAT
63345014 TTGTGCGAGTTACTATAA
63 TTGTGCGAGTTACTA-AA
* **
63345032 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGA-TCCGAAGG
63345090 TACGTGATTC
Statistics
Matches: 119, Mismatches: 9, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
78 1 0.01
79 70 0.59
80 48 0.40
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:63345086 original size:119 final size:119
Alignment explanation
Indices: 63344872--63345089 Score: 282
Period size: 119 Copynumber: 1.8 Consensus size: 119
63344862 TCGAATGATG
*
63344872 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
** *
63344937 GTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
66 GAACGAGTTACTAAATCCGGGTTAACTCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
63344991 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
*
63345054 TTGAACGAG-TAGCTATATCC-GGTTAAACTCCGAAGG
64 TTGAACGAGTTA-CTAAATCCGGGTT-AACTCCGAAGG
63345090 TACGTGATTC
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
118 7 0.08
119 71 0.84
120 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAATCCGGGTTAACTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:63353131 original size:40 final size:40
Alignment explanation
Indices: 63352939--63353124 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
63352929 TCGAATGATG
* * *
63352939 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
63352979 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
63353019 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63353059 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
63353100 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
63353125 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:63353131 original size:80 final size:80
Alignment explanation
Indices: 63352939--63353147 Score: 257
Period size: 80 Copynumber: 2.6 Consensus size: 80
63352929 TCGAATGATG
* * **
63352939 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
63353003 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
* * *
63353019 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATT
63353083 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* **
63353100 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAA
63353148 ACTCTGAAGG
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
79 9 0.08
80 94 0.84
81 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:63355816 original size:43 final size:43
Alignment explanation
Indices: 63355696--63355854 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
63355686 AGCTCGTACA
* *
63355696 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATA-CG
* ** * *
63355739 ATGCC-ACTATCTTAGACAG-AGTTTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAATACG
*
63355781 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCTTAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATC--AAATACG
*
63355825 ATGCCAACGTCCTAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
63355855 ATAACACATA
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 23 0.24
43 35 0.37
44 32 0.34
45 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATACG
Found at i:63357216 original size:111 final size:111
Alignment explanation
Indices: 63357022--63357245 Score: 448
Period size: 111 Copynumber: 2.0 Consensus size: 111
63357012 ATTAAAATAT
63357022 TTTTTGACTTGGATTTGTGGTCTCAAAACCACTATTTCGACTAGGGTCTAAACTAGAATGTTACG
1 TTTTTGACTTGGATTTGTGGTCTCAAAACCACTATTTCGACTAGGGTCTAAACTAGAATGTTACG
63357087 GTAGGCTTAAAATGAGCACCCCACCCCACCAACAACTCTCGTTTGG
66 GTAGGCTTAAAATGAGCACCCCACCCCACCAACAACTCTCGTTTGG
63357133 TTTTTGACTTGGATTTGTGGTCTCAAAACCACTATTTCGACTAGGGTCTAAACTAGAATGTTACG
1 TTTTTGACTTGGATTTGTGGTCTCAAAACCACTATTTCGACTAGGGTCTAAACTAGAATGTTACG
63357198 GTAGGCTTAAAATGAGCACCCCACCCCACCAACAACTCTCGTTTGG
66 GTAGGCTTAAAATGAGCACCCCACCCCACCAACAACTCTCGTTTGG
63357244 TT
1 TT
63357246 GAGCCATTGA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (111 bp):
TTTTTGACTTGGATTTGTGGTCTCAAAACCACTATTTCGACTAGGGTCTAAACTAGAATGTTACG
GTAGGCTTAAAATGAGCACCCCACCCCACCAACAACTCTCGTTTGG
Found at i:63363823 original size:23 final size:23
Alignment explanation
Indices: 63363797--63363840 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
63363787 CTAATTAGGC
63363797 TTACTTCGGATTTGAATTTTTGT
1 TTACTTCGGATTTGAATTTTTGT
*
63363820 TTACTTTGGATTTGAATTTTT
1 TTACTTCGGATTTGAATTTTT
63363841 TCAAAGGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.59
Consensus pattern (23 bp):
TTACTTCGGATTTGAATTTTTGT
Found at i:63363918 original size:15 final size:15
Alignment explanation
Indices: 63363898--63363930 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
63363888 CTCGGGACCT
63363898 TTTGGATTCAGATTA
1 TTTGGATTCAGATTA
63363913 TTTGGATTCAGATTA
1 TTTGGATTCAGATTA
63363928 TTT
1 TTT
63363931 CAAGCTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (15 bp):
TTTGGATTCAGATTA
Found at i:63363959 original size:22 final size:22
Alignment explanation
Indices: 63363918--63363966 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
63363908 GATTATTTGG
* *
63363918 ATTCAGATTATTTCAAGCTCGA
1 ATTCAGATCATTTCAAGCTCAA
**
63363940 ATTCAGATCATTTCGGGCTCAA
1 ATTCAGATCATTTCAAGCTCAA
63363962 ATTCA
1 ATTCA
63363967 TTTAGATGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTCAGATCATTTCAAGCTCAA
Found at i:63364637 original size:17 final size:17
Alignment explanation
Indices: 63364596--63364637 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
63364586 TATTATAATC
*
63364596 TATAATATAATAATATT
1 TATAATATATTAATATT
63364613 TAT--TATATTAATATT
1 TATAATATATTAATATT
*
63364628 TATAAAATAT
1 TATAATATAT
63364638 ATTACTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 14 0.67
17 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAATATATTAATATT
Found at i:63367471 original size:93 final size:93
Alignment explanation
Indices: 63367312--63367483 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
63367302 GGATGGTTGA
* * * * *
63367312 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCAAACTCGTTGAGT
63367377 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
63367405 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCAAACTCGTTGAGT
63367470 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
63367484 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:63367490 original size:46 final size:46
Alignment explanation
Indices: 63367316--63367490 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
63367306 GGTTGAGCAT
* * * *
63367316 CCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * * * *
63367362 CCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
*
63367407 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
63367455 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63367491 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 59 0.57
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:63369455 original size:28 final size:28
Alignment explanation
Indices: 63369423--63369479 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
63369413 TGGTGTTTTG
63369423 ATCAGGTAAGCCCATATGGTATTTATTT
1 ATCAGGTAAGCCCATATGGTATTTATTT
63369451 ATCAGGTAAGCCCATATGGTATTTATTT
1 ATCAGGTAAGCCCATATGGTATTTATTT
63369479 A
1 A
63369480 CTTAGGTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (28 bp):
ATCAGGTAAGCCCATATGGTATTTATTT
Found at i:63385404 original size:40 final size:39
Alignment explanation
Indices: 63385360--63385577 Score: 217
Period size: 40 Copynumber: 5.5 Consensus size: 39
63385350 GCTCGATTGT
* * *
63385360 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
63385400 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGC-CAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
63385439 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
63385479 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
63385519 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
63385560 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
63385578 ATACCATTCG
Statistics
Matches: 154, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.23
40 92 0.60
41 25 0.16
42 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:63385456 original size:79 final size:79
Alignment explanation
Indices: 63385360--63385579 Score: 262
Period size: 79 Copynumber: 2.7 Consensus size: 79
63385350 GCTCGATTGT
* * * * *
63385360 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
63385425 AACTCGC-CAAATGC
65 AACTCGCACAAATGC
* * * * *
63385439 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
63385504 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
63385519 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
63385580 ACCATTCGAA
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 59 0.50
80 30 0.25
81 29 0.25
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:63393674 original size:41 final size:40
Alignment explanation
Indices: 63393456--63393676 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
63393446 GCTCGATTGT
* * *
63393456 CTTCGGGACA-TAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTCGCACAAATGC
63393496 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
63393536 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * * *
63393576 CTTCGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
63393616 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
63393657 CTTCGGGATTTAGCCCGGAT
1 CTTCGGGAATTAGCCCGGAT
63393677 ACCATTCGAA
Statistics
Matches: 159, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 128 0.81
41 29 0.18
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:63395034 original size:41 final size:40
Alignment explanation
Indices: 63394816--63395036 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
63394806 GCTCGATTGT
* * *
63394816 CTTCGGGACA-TAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTCGCACAAATGC
63394856 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
63394896 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * * *
63394936 CTTCGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
63394976 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
63395017 CTTCGGGATTTAGCCCGGAT
1 CTTCGGGAATTAGCCCGGAT
63395037 ACCATTCGAA
Statistics
Matches: 159, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 128 0.81
41 29 0.18
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:63398995 original size:31 final size:31
Alignment explanation
Indices: 63398960--63399023 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
63398950 CCTTTTCATG
63398960 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
63398991 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
63399022 TT
1 TT
63399024 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:63399266 original size:24 final size:24
Alignment explanation
Indices: 63399215--63399357 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
63399205 GCTTTATCAT
*
63399215 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
63399240 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
63399264 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
63399287 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
63399311 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
63399335 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63399358 TCACTTCCGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:63399294 original size:47 final size:48
Alignment explanation
Indices: 63399215--63399356 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
63399205 GCTTTATCAT
* *
63399215 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
63399264 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
63399311 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
63399357 TTCACTTCCG
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:63399315 original size:71 final size:72
Alignment explanation
Indices: 63399214--63399357 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
63399204 TGCTTTATCA
*
63399214 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
63399279 GCCCTTT
66 GCCCTTT
* * **
63399286 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
63399349 AGCCCTTT
65 AGCCCTTT
63399357 T
1 T
63399358 TCACTTCCGC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:63399432 original size:20 final size:20
Alignment explanation
Indices: 63399407--63399467 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
63399397 TTATGATTAC
63399407 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
63399427 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
63399447 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
63399467 A
1 A
63399468 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:63399542 original size:25 final size:25
Alignment explanation
Indices: 63399510--63399557 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63399500 ATACATAAAC
* * *
63399510 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63399535 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63399558 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63407735 original size:34 final size:34
Alignment explanation
Indices: 63407664--63407737 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
63407654 GCATACTGTT
*
63407664 CTGAAATGGGCTAAGGCCCAGACTGTCACTATTA
1 CTGAAATGGGCTAAGGCCCAGACTGTCACTATCA
*
63407698 CTGAAATGGGCTAAGGCCCAGACTG-CTACTGTCA
1 CTGAAATGGGCTAAGGCCCAGACTGTC-ACTATCA
63407732 CTGAAA
1 CTGAAA
63407738 AATGGGATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (34 bp):
CTGAAATGGGCTAAGGCCCAGACTGTCACTATCA
Found at i:63410236 original size:44 final size:42
Alignment explanation
Indices: 63410160--63410257 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 42
63410150 GATTGTGTTA
* * *
63410160 TCGTGTAAGACCACGTCTGAGACGTTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACGTCTGAGACATCGACATCGTA-TT-TGATT
* *
63410203 TACGTGTAAGACCATGTCTGGGACATCGACATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGAGACATCGACATCGTATTTGATT
63410246 TCGTGTAAGACC
1 TCGTGTAAGACC
63410258 CTATTTGGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
42 11 0.23
43 7 0.15
44 29 0.60
45 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGAGACATCGACATCGTATTTGATT
Found at i:63410321 original size:43 final size:43
Alignment explanation
Indices: 63410161--63410319 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
63410151 ATTGTGTTAT
* *
63410161 CGTGTAAGACCACGTCTGAGACGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * * * *
63410205 CGTGTAAGACCATGTCTGGGACATCGACATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
* * * *
63410247 CGTGTAAGACC-CTATTTGGGACAG-TGGCATTGATATTTGGTTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
*
63410290 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
63410320 TGTATGAGCT
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
42 27 0.30
43 35 0.39
44 28 0.31
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:63416781 original size:40 final size:40
Alignment explanation
Indices: 63416736--63416903 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
63416726 CGGAATATAA
*
63416736 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
63416776 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
63416816 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
63416856 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
63416896 CCGGATAT
1 CCGGATAT
63416904 CATTCAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63416886 original size:80 final size:80
Alignment explanation
Indices: 63416752--63416901 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
63416742 ATAACCATGT
* *
63416752 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
63416817 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
63416832 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
63416895 CCCGGAT
64 CCCGGAT
63416902 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:63420094 original size:20 final size:19
Alignment explanation
Indices: 63420069--63420124 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 19
63420059 CCAATACATT
63420069 TCACATAGCATATATTGAG
1 TCACATAGCATATATTGAG
** *
63420088 CTCACATCTCATACATT---
1 -TCACATAGCATATATTGAG
63420105 TCACATAGCATATATTGAG
1 TCACATAGCATATATTGAG
63420124 T
1 T
63420125 TTGGCATTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 7
0.68 0.15 0.17
Matches are distributed among these distances:
16 13 0.48
19 1 0.04
20 13 0.48
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (19 bp):
TCACATAGCATATATTGAG
Found at i:63424259 original size:42 final size:43
Alignment explanation
Indices: 63424202--63424315 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
63424192 TATGATTTAT
63424202 GTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTGACTTC
1 GTGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGACTTC
* * * *
63424244 GTGTAAGGCCCTGTCTGGGATAGTGGCATCGATATTTGA-TCAC
1 GTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGACT-TC
* *
63424287 ATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 GTGTAAGACCATGTCTGGGACAG-TGGCAT
63424316 TGTATGAGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGACTTC
Done.