Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold28
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: 2815568
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.30
Warning! 166732 characters in sequence are not A, C, G, or T
File 5 of 16
Found at i:755251 original size:15 final size:15
Alignment explanation
Indices: 755231--755269 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
755221 TAAAAATGTC
*
755231 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
755246 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
755261 CCAAATGAA
1 CAAAATGAA
755270 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:759916 original size:13 final size:13
Alignment explanation
Indices: 759898--759923 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
759888 TACAGCAAGT
759898 ATGTATCGATACA
1 ATGTATCGATACA
759911 ATGTATCGATACA
1 ATGTATCGATACA
759924 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:766526 original size:28 final size:27
Alignment explanation
Indices: 766487--766539 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
766477 TATTTTGGAG
766487 ATAAAAACAGGGTT-GAAGTATCCCCTC
1 ATAAAAACAGGGTTAGAA-TATCCCCTC
766514 ATAAATAACAGGGTTAGAATATCCCC
1 ATAAA-AACAGGGTTAGAATATCCCC
766540 GATTGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 5 0.21
28 16 0.67
29 3 0.12
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (27 bp):
ATAAAAACAGGGTTAGAATATCCCCTC
Found at i:766667 original size:79 final size:79
Alignment explanation
Indices: 766516--766667 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 79
766506 ATCCCCTCAT
* * *
766516 AAATAACAGGGTTAGAATATCCCCGATTGTGAAAAATCGGTGTTCTAGAAATAAAATCAAGGTTG
1 AAATAACAGGGTTAGAATATCCCCGATTATGAAAAATCGATGTTCTAGAAATAAAACCAAGGTTG
*
766581 GAGTATCCTTTCGA
66 GAATATCCTTTCGA
* * * * * * * *
766595 AAATAACAGGGTTGGAGTATCCCTGATTATGGAAAATCGATGTTCTGGAAATAAGACCAGGGTTT
1 AAATAACAGGGTTAGAATATCCCCGATTATGAAAAATCGATGTTCTAGAAATAAAACCAAGGTTG
766660 GAATATCC
66 GAATATCC
766668 CCGATGGTGG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (79 bp):
AAATAACAGGGTTAGAATATCCCCGATTATGAAAAATCGATGTTCTAGAAATAAAACCAAGGTTG
GAATATCCTTTCGA
Found at i:766668 original size:51 final size:51
Alignment explanation
Indices: 766601--766720 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
766591 TCGAAAATAA
* * *
766601 CAGGGTTGGAGTATCCCTGATTATGGAAAATCGATGTTCTGGAAATAAGAC
1 CAGGGTTGGAGTATCCCCGATGATGGAAAATCGATGTTCTGGAAATAAAAC
* * * * * *
766652 CAGGGTTTGAATATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAAC
1 CAGGGTTGGAGTATCCCCGATGATGGAAAATCGATGTTCTGGAAATAAAAC
766703 CAGGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
766721 TCGGAAATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGATGATGGAAAATCGATGTTCTGGAAATAAAAC
Found at i:766737 original size:79 final size:78
Alignment explanation
Indices: 766652--766878 Score: 229
Period size: 79 Copynumber: 2.9 Consensus size: 78
766642 GAAATAAGAC
* * * * * * *
766652 CAGGGTTTGAATATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAACCAGGGTTGGAGTAT
1 CAGGGTTAGAGTATCCCCGATCGTGGAAAATCGATGTTTTAGAAATAAAA-CTGGGTTGGAGTAT
***
766717 CCCCTCGGAAATAA
65 CCCCTAAAAAATAA
* * *** * * * * *
766731 TAGGGTTGGAGTATTGTCGATTGTGAAAAATCAATATTTTAGAAATAAAATTTGGGTTGGAGTAT
1 CAGGGTTAGAGTATCCCCGATCGTGGAAAATCGATGTTTTAGAAATAAAA-CTGGGTTGGAGTAT
*
766796 CTCCTAAAAAATAA
65 CCCCTAAAAAATAA
*
766810 CAGGGTTAGAGTATCCCCGATCGTGGAAAATCGATGTTTTAGAAATAAAACTGAGGTCGGAGTAT
1 CAGGGTTAGAGTATCCCCGATCGTGGAAAATCGATGTTTTAGAAATAAAACTG-GGTTGGAGTAT
766875 CCCC
65 CCCC
766879 GATTGTGAAA
Statistics
Matches: 115, Mismatches: 32, Indels: 2
0.77 0.21 0.01
Matches are distributed among these distances:
78 2 0.02
79 113 0.98
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (78 bp):
CAGGGTTAGAGTATCCCCGATCGTGGAAAATCGATGTTTTAGAAATAAAACTGGGTTGGAGTATC
CCCTAAAAAATAA
Found at i:766776 original size:130 final size:130
Alignment explanation
Indices: 766522--766778 Score: 318
Period size: 130 Copynumber: 2.0 Consensus size: 130
766512 TCATAAATAA
* *
766522 CAGGGTTAGAATATCCCCGATTGTGAAAAATCGGTGTTCTAGAAATAAAATCAAGGTTGGAGTAT
1 CAGGGTTAGAATATCCCCGATGGTGAAAAATCGGTGTTCTAGAAATAAAACCAAGGTTGGAGTAT
** * * * *
766587 CCTTTCGAAAATAACAGGGTTGGAGTATCCCTGATTATGGAAAATCGATGTTCTGGAAATAAGAC
66 CCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTATGAAAAATCAATATTCTAGAAATAAGAC
* * * * * *
766652 CAGGGTTTGAATATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAAACCAGGGTTGGAGTAT
1 CAGGGTTAGAATATCCCCGATGGTGAAAAATCGGTGTTCTAGAAATAAAACCAAGGTTGGAGTAT
* * ** * *
766717 CCCCTCGGAAATAATAGGGTTGGAGTAT-TGTCGATTGTGAAAAATCAATATTTTAGAAATAA
66 CCCCTCGAAAATAACAGGGTTGGAGTATCCCT-GATTATGAAAAATCAATATTCTAGAAATAA
766779 AATTTGGGTT
Statistics
Matches: 106, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
129 1 0.01
130 105 0.99
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (130 bp):
CAGGGTTAGAATATCCCCGATGGTGAAAAATCGGTGTTCTAGAAATAAAACCAAGGTTGGAGTAT
CCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTATGAAAAATCAATATTCTAGAAATAAGAC
Found at i:766839 original size:209 final size:209
Alignment explanation
Indices: 766476--766940 Score: 538
Period size: 209 Copynumber: 2.2 Consensus size: 209
766466 GAAAAATTTA
* * *
766476 ATATTTTGGAGATAAAAACAGGGTTGAAGTATCCCCTCATAAATAACAGGGTTAGAATATCCCCG
1 ATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTAGAATATCCCCG
** * * **
766541 ATTGTGAAAAATCGGTGTTCTAGAAATAAAATCAAGGTTGGAGTATCCTTTCGAAAATAACAGGG
66 ATTGTGAAAAATCAATATTCTAGAAATAAAATCAAGGTTGGAGTATCCTCTAAAAAATAACAGGG
* * * * * **
766606 TTGGAGTATCCCTGATTATGGAAAATCGATGTTCTGGAAATAAGACCAG-GGTTTGAATATCCCC
131 TTAGAGTATCCCCGATCATGGAAAATCGATGTTCTAGAAATAA-AACAGAGGTCGGAATATCCCC
* *
766670 GATGGTGGAAAATTG
195 GATGGTGAAAAATCG
* * * * * * * ***
766685 GTGTTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGGAAATAATAGGGTTGGAGTATTGTCG
1 ATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTAGAATATCCCCG
* ***
766750 ATTGTGAAAAATCAATATTTTAGAAATAAAATTTGGGTTGGAGTAT-CTCCTAAAAAATAACAGG
66 ATTGTGAAAAATCAATATTCTAGAAATAAAATCAAGGTTGGAGTATCCT-CTAAAAAATAACAGG
* * * *
766814 GTTAGAGTATCCCCGATCGTGGAAAATCGATGTTTTAGAAATAAAACTGAGGTCGGAGTATCCCC
130 GTTAGAGTATCCCCGATCATGGAAAATCGATGTTCTAGAAATAAAACAGAGGTCGGAATATCCCC
*
766879 GATTGTGAAAAATCG
195 GATGGTGAAAAATCG
* * *
766894 ATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAAC
1 ATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTCAGAAATAAC
766941 GGGCCTCGAT
Statistics
Matches: 210, Mismatches: 44, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
208 5 0.02
209 205 0.98
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (209 bp):
ATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTAGAATATCCCCG
ATTGTGAAAAATCAATATTCTAGAAATAAAATCAAGGTTGGAGTATCCTCTAAAAAATAACAGGG
TTAGAGTATCCCCGATCATGGAAAATCGATGTTCTAGAAATAAAACAGAGGTCGGAATATCCCCG
ATGGTGAAAAATCG
Found at i:766877 original size:51 final size:51
Alignment explanation
Indices: 766818--766929 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
766808 AACAGGGTTA
* *
766818 GAGTATCCCCGATCGTGGAAAATCGATGTTTTAGAAATAAAA-CTGAGGTCG
1 GAGTATCCCCGATCGTGAAAAATCGATATTTTAGAAATAAAATC-GAGGTCG
* * *
766869 GAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCGATCGTGAAAAATCGATATTTTAGAAATAAAATCGAGGTCG
766920 GAGTATCCCC
1 GAGTATCCCC
766930 TCAGAAATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (51 bp):
GAGTATCCCCGATCGTGAAAAATCGATATTTTAGAAATAAAATCGAGGTCG
Found at i:767028 original size:28 final size:28
Alignment explanation
Indices: 766992--767052 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
766982 GAGTTTAGAG
*
766992 TATCTTCTCGAAAATAACGGAGTTGGAA
1 TATCCTCTCGAAAATAACGGAGTTGGAA
*
767020 TATCCTCTCGAAAATAGCGGAGTTGGAA
1 TATCCTCTCGAAAATAACGGAGTTGGAA
767048 TATCC
1 TATCC
767053 CCGATGGTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (28 bp):
TATCCTCTCGAAAATAACGGAGTTGGAA
Found at i:770074 original size:75 final size:77
Alignment explanation
Indices: 769960--770132 Score: 181
Period size: 78 Copynumber: 2.3 Consensus size: 77
769950 CTGCTCTTTG
** * * * *
769960 AGGATAAAGG-AAAAGGAGTACGTCCTGCTCTTCGAGGACAAA-ATAA-AAGGGAATGAAATGGG
1 AGGATAAAGGAAAAAGGAAAACATCCTGCCCTTCGAGGACAAAGAAAAGAAGGAAATGAAATGGG
770022 TCATACTCCTTC
66 TCATACTCCTTC
* * * *
770034 AGGATAAAGGAAAAAGGAAAACATTCTGCCCTTTGAGGACAAAGGAAAAGAAGGAAATTAAATGT
1 AGGATAAAGGAAAAAGGAAAACATCCTGCCCTTCGAGGACAAA-GAAAAGAAGGAAATGAAATGG
* * *
770099 GTCATGCTCTTTG
65 GTCATACTCCTTC
*
770112 AGGACAAAGGAGAAAAGGAAA
1 AGGATAAAGGA-AAAAGGAAA
770133 TAAAGTGCGT
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
74 10 0.12
75 26 0.32
77 3 0.04
78 32 0.40
79 9 0.11
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (77 bp):
AGGATAAAGGAAAAAGGAAAACATCCTGCCCTTCGAGGACAAAGAAAAGAAGGAAATGAAATGGG
TCATACTCCTTC
Found at i:770192 original size:41 final size:42
Alignment explanation
Indices: 770064--770199 Score: 175
Period size: 42 Copynumber: 3.2 Consensus size: 42
770054 ACATTCTGCC
* * *
770064 CTTTGAGGACAAAGGAAAAGAAGGAAATTAAATGTGTCATGCT
1 CTTTGAGGACAAAGGAGAA-AAGGAAATAAAATGCGTCATGCT
* * *
770107 CTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGCGTCCTACT
1 CTTTGAGGACAAAGGAGAAAAGGAAATAAAATGCGTCATGCT
* *
770149 CTTTGAGGACAAAGG-GAAAAGGAAATAAAATACGTCTTGCT
1 CTTTGAGGACAAAGGAGAAAAGGAAATAAAATGCGTCATGCT
*
770190 CTTTGGGGAC
1 CTTTGAGGAC
770200 TAGAAGGTGC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 31 0.38
42 33 0.40
43 18 0.22
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.22
Consensus pattern (42 bp):
CTTTGAGGACAAAGGAGAAAAGGAAATAAAATGCGTCATGCT
Found at i:770495 original size:123 final size:122
Alignment explanation
Indices: 770186--770849 Score: 758
Period size: 123 Copynumber: 5.5 Consensus size: 122
770176 AAATACGTCT
* * * * * * * * *
770186 TGCTCTTTGGGGACTAGAAGGTGCCACCAACATATATGGGCTTTACAAGGAGAAA-GCGTCCTGC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCCTAC
* * * * *
770250 TCTTTGAGGACTAAAAGGTGCCACCAATTTGTGTGGGCTTTG-AAAGGAAA-GCGTCT
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCATCC
* * * * *
770306 TGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGATAAGGCGTCCTACT
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACT
* *
770371 CTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGAGGCATCA
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAA-AGGCATCC
** * * *
770429 TGCTCTTCAAGGACT-GAATGATGTCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATCCTAC
1 TGCTCTTTGAGGACTGGAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTAC
* *
770493 TCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGGCATCC
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAGGCATCC
*
770552 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGTGC--CTT
1 TGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAG-GCATCCT
* * * * * *
770614 ACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTTTAGGCTTT-AAAAGGACAAGACATCC
63 ACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGGCATCC
** * *
770674 TGCTCTTTGA-GACTGGAAAGTGTTACCAACTTGTGTAGGCTTTTAAAGGAAAAGGCATCCTACT
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACT
* *
770738 CTTTGAGGATTGGAAA-GTGCCACCAACTTGTGTGGG-TTT-AAAAGGAAAAGGCGTCC
66 CTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGGCATCC
* * *
770794 TGCTTTTTGAGGATTGGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGG
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
770850 TGCCCTGTTT
Statistics
Matches: 471, Mismatches: 58, Indels: 29
0.84 0.10 0.05
Matches are distributed among these distances:
119 4 0.01
120 121 0.26
121 108 0.23
122 35 0.07
123 192 0.41
124 9 0.02
125 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (122 bp):
TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCATCC
Found at i:770874 original size:60 final size:61
Alignment explanation
Indices: 770186--770849 Score: 706
Period size: 61 Copynumber: 10.9 Consensus size: 61
770176 AAATACGTCT
* * * * * * * *
770186 TGCTCTTTGGGGACTAGAAGGTGCCACCAACATATATGGGCTTTACAAGGAGAAA-GCGTCC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCC
* * * * *
770247 TGCTCTTTGAGGACT-AAAAGGTGCCACCAATTTGTGTGGGCTTTGAAAGG-AAA-GCGTCT
1 TGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * * * *
770306 TGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGATAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * *
770367 TACTCTTTGAAGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAGAGGCATCA
1 TGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAA-AGGCATCC
** * * *
770429 TGCTCTTCAAGGACT-GAATGATGTCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * * *
770490 TACTCTTTGAAGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAAGAAAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCC
*
770552 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGTGC--CT
1 TGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAG-GCATCC
* ** * * * *
770613 TACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTTTAGGCTTTAAAAGGACAAGACATCC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
** * *
770674 TGCTCTTTGA-GACTGGAAAGTGTTACCAACTTGTGTAGGCTTTTAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * *
770734 TACTCTTTGAGGATTGGAAAGTGCCACCAACTTGTGTGGG-TTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * *
770794 TGCTTTTTGAGGATTGGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGG
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
770850 TGCCCTGTTT
Statistics
Matches: 514, Mismatches: 71, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
59 50 0.10
60 119 0.23
61 228 0.44
62 115 0.22
63 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (61 bp):
TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
Found at i:771864 original size:14 final size:14
Alignment explanation
Indices: 771844--771880 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
771834 AAGCAAGTTC
771844 TTTTCTTTTTT-TT
1 TTTTCTTTTTTCTT
771857 TCTTTCTTTTTTCTT
1 T-TTTCTTTTTTCTT
771872 TTTT-TTTTT
1 TTTTCTTTTT
771881 GTTGTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.27
14 13 0.59
15 3 0.14
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTCTTTTTTCTT
Found at i:771868 original size:11 final size:10
Alignment explanation
Indices: 771844--771878 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
771834 AAGCAAGTTC
771844 TTTTCTTTTT
1 TTTTCTTTTT
771854 TTTTCTTTCTT
1 TTTTCTTT-TT
771865 TTTTCTTTTT
1 TTTTCTTTTT
771875 TTTT
1 TTTT
771879 TTGTTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:771879 original size:11 final size:11
Alignment explanation
Indices: 771844--771879 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
771834 AAGCAAGTTC
771844 TTTTC-TTTTT
1 TTTTCTTTTTT
*
771854 TTTTCTTTCTT
1 TTTTCTTTTTT
771865 TTTTCTTTTTT
1 TTTTCTTTTTT
771876 TTTT
1 TTTT
771880 TGTTGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 5 0.22
11 18 0.78
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:783255 original size:14 final size:14
Alignment explanation
Indices: 783236--783263 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
783226 CATCAAGCTA
783236 TCGCAACATGGCTC
1 TCGCAACATGGCTC
783250 TCGCAACATGGCTC
1 TCGCAACATGGCTC
783264 GCTTTTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (14 bp):
TCGCAACATGGCTC
Found at i:784343 original size:79 final size:79
Alignment explanation
Indices: 784220--784391 Score: 229
Period size: 79 Copynumber: 2.2 Consensus size: 79
784210 ATAAAGACGG
* *
784220 GGTTAGAGTATCCC-TCAGAAATAACAGGGCTAGAGTATAACCGATTGTGAAAAATCGATGTTCT
1 GGTTAGAGTATCCCTTCAGAAATAACAGGGATAGAGTATAACCGATTGTGAAAAATCAATGTTCT
* *
784284 GAAAATAAAATCGT
66 GAAAATAAAACCGA
* * * ** * *
784298 GGTTAGAGTATCCCTTCAGAACTAACGGGGATGGAGTATCTCCGATTTTGAAAAGTCAATGTTCT
1 GGTTAGAGTATCCCTTCAGAAATAACAGGGATAGAGTATAACCGATTGTGAAAAATCAATGTTCT
784363 GAAAATAAAACCGA
66 GAAAATAAAACCGA
*
784377 GGTTTGAGTATCCCT
1 GGTTAGAGTATCCCT
784392 GATGGTGAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
78 14 0.17
79 67 0.83
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (79 bp):
GGTTAGAGTATCCCTTCAGAAATAACAGGGATAGAGTATAACCGATTGTGAAAAATCAATGTTCT
GAAAATAAAACCGA
Found at i:786895 original size:20 final size:21
Alignment explanation
Indices: 786870--786908 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
786860 AGTGAAACCC
786870 AGAATATATCGATA-AAATGA
1 AGAATATATCGATATAAATGA
786890 AGAATATATCGATATAAAT
1 AGAATATATCGATATAAAT
786909 TGTGAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (21 bp):
AGAATATATCGATATAAATGA
Found at i:793578 original size:15 final size:15
Alignment explanation
Indices: 793558--793592 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
793548 AACCATCAAA
793558 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
793573 GATGATGATGATAAT
1 GATGATGAAGATAAT
793588 GATGA
1 GATGA
793593 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:796847 original size:21 final size:21
Alignment explanation
Indices: 796823--796875 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
796813 CATGGTCCTA
*
796823 TATCGATACATTTCAGGCATG
1 TATCGATACATTTCACGCATG
**
796844 TATCGATACA-TTCACTTATG
1 TATCGATACATTTCACGCATG
796864 TATCGATACATT
1 TATCGATACATT
796876 GCCTTATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (21 bp):
TATCGATACATTTCACGCATG
Found at i:796892 original size:21 final size:20
Alignment explanation
Indices: 796841--796894 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
796831 CATTTCAGGC
796841 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
796861 ATGTATCGATACATTGC-CTT
1 ATGTATCGATACATT-CACTT
*
796881 ATTGTATTGATACA
1 A-TGTATCGATACA
796895 AATTGTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:798472 original size:79 final size:79
Alignment explanation
Indices: 798340--798599 Score: 275
Period size: 79 Copynumber: 3.3 Consensus size: 79
798330 ACAATGGGGC
* * * * *
798340 TAGAGTATCCCCGATTATAGAAAATT-GATG-TTTTGAAAATGAAA-TCGGGGTTGGAGTATCCC
1 TAGAGTATCCTCGATTAT-GAAAATTCGATGCTTTAG-AAAT-AAAGCCAGCGTTGGAGTATCCC
798402 CTCGAAAATAACGGGAT
63 CTCGAAAATAACGGGAT
*
798419 TAGAGTATCCTCGATTATGGAAAA-TCGATGCTTTAGAAATAAGGCCAGCGTTGGAGTATCCCCG
1 TAGAGTATCCTCGATTAT-GAAAATTCGATGCTTTAGAAATAAAGCCAGCGTTGGAGTATCCCC-
798483 T-GAAAATAACGAGG-T
64 TCGAAAATAACG-GGAT
* * * * *
798498 TAGAGTATCCTCGATTGTGAAAATTTGGTGTTTTAGAAATAAAGCCAGGGTTGGAGTATCCCCTC
1 TAGAGTATCCTCGATTATGAAAATTCGATGCTTTAGAAATAAAGCCAGCGTTGGAGTATCCCCTC
798563 -AGAAATAACGGGAT
66 GA-AAATAACGGGAT
* *
798577 TGGAGTATCC-CGGATTGTGAAAA
1 TAGAGTATCCTC-GATTATGAAAA
798600 GATTGGTGTT
Statistics
Matches: 157, Mismatches: 14, Indels: 20
0.82 0.07 0.10
Matches are distributed among these distances:
78 13 0.08
79 137 0.87
80 7 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
TAGAGTATCCTCGATTATGAAAATTCGATGCTTTAGAAATAAAGCCAGCGTTGGAGTATCCCCTC
GAAAATAACGGGAT
Found at i:798666 original size:50 final size:50
Alignment explanation
Indices: 798608--798703 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
798598 AAGATTGGTG
** *
798608 TTTTAGAAATAAAATTGGGGTTGGAGTATGCCCAAGATGAAAAATCAATA
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCAAGATGAAAAATCAATA
* *
798658 TTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGAGATGAAAAATC
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCAAGATGAAAAATC
798704 TAGAAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (50 bp):
TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCAAGATGAAAAATCAATA
Found at i:801095 original size:13 final size:13
Alignment explanation
Indices: 801048--801077 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
801038 GTAAACTTAA
*
801048 AATGTATCGATAC
1 AATGTATCAATAC
801061 AATGTATCAATAC
1 AATGTATCAATAC
801074 AATG
1 AATG
801078 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:801767 original size:41 final size:41
Alignment explanation
Indices: 801672--801778 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
801662 GGGGTATCCC
* * * * *
801672 ACTTTTTGAGGATAAAGG-AAAAGAGAATGAAATGGGTCTT
1 ACTTCTTGAGGACAAAGGAAAAAGAAAAGGAAATGGGTCCT
* * *
801712 ACTCCTTAAGGACAAAGGAAGAAAGAAAAGGAAA-GTGTCCT
1 ACTTCTTGAGGACAAAGGAA-AAAGAAAAGGAAATGGGTCCT
801753 ACTTCTTGAGGACAAAGTGAAAAAGA
1 ACTTCTTGAGGACAAAG-GAAAAAGA
801779 GTACGTCCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
40 14 0.26
41 26 0.48
42 14 0.26
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (41 bp):
ACTTCTTGAGGACAAAGGAAAAAGAAAAGGAAATGGGTCCT
Found at i:801977 original size:132 final size:131
Alignment explanation
Indices: 801831--802083 Score: 377
Period size: 132 Copynumber: 1.9 Consensus size: 131
801821 AAATGCATCT
*
801831 TGCTCTTTGAGGACAAAAGA-AAAAGGAAAATAAAGTGCGTCCTGCTCTTTAAGGACAAAA-AGA
1 TGCTCTTTAAGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTAAGGACAAAAGAG-
* *
801894 AATGAAGG-AAATAAAGTGCGTCCTACTCTTTGAAGACAAAAGGAGAAAAGAAGGAAATGGAAAG
65 AA--AAGGAAAATAAACTGCGTCCTACTCTTTGAAGACAAAAGG-GAAAAGAAAGAAATGGAAAG
801958 TGTCC
127 TGTCC
* *
801963 TGCTCTTTAAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAGA
1 TGCTCTTTAAGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTAAGGACAAAAGAGA
* * *
802028 AAAGGAAAATAAACTGTGTCTTACTCTTTGAGGACAAAAGGGAAAAGAAAGAAATG
66 AAAGGAAAATAAACTGCGTCCTACTCTTTGAAGACAAAAGGGAAAAGAAAGAAATG
802084 AAATGCATCT
Statistics
Matches: 110, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
131 18 0.16
132 49 0.45
133 41 0.37
134 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (131 bp):
TGCTCTTTAAGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTAAGGACAAAAGAGA
AAAGGAAAATAAACTGCGTCCTACTCTTTGAAGACAAAAGGGAAAAGAAAGAAATGGAAAGTGTC
C
Found at i:802005 original size:89 final size:88
Alignment explanation
Indices: 801833--802031 Score: 250
Period size: 89 Copynumber: 2.3 Consensus size: 88
801823 ATGCATCTTG
* *
801833 CTCTTTGAGGACAAAAGA-AAAAG--GAAAAT--AAAGTGCGTCCTGCTCTTTAAGGACAAAAAG
1 CTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGGAAAGT--GTCCTGCTCTTTAAGGACAAAAAG
801893 AAATGAAGGAAATAAAGTGCGTCCTA
64 AAA-GAAGGAAATAAAGTGCGTCCTA
*
801919 CTCTTTGAAGACAAAAGGAGAAAAGAAGGAAATGGAAAGTGTCCTGCTCTTTAAGGAC-AAAGGA
1 CTCTTTGAAGACAAAA-GAGAAAAGAAGGAAATGGAAAGTGTCCTGCTCTTTAAGGACAAAAAGA
*
801983 GAA-AAGGAAAATAAAGTGCGTCCTG
65 -AAGAAGG-AAATAAAGTGCGTCCTA
*
802008 CTCTTTGAGGACAAAAGAGAAAAG
1 CTCTTTGAAGACAAAAGAGAAAAG
802032 GAAAATAAAC
Statistics
Matches: 100, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
86 15 0.15
87 2 0.02
88 17 0.17
89 36 0.36
90 25 0.25
92 5 0.05
ACGTcount: A:0.44, C:0.13, G:0.25, T:0.19
Consensus pattern (88 bp):
CTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGGAAAGTGTCCTGCTCTTTAAGGACAAAAAGAA
AGAAGGAAATAAAGTGCGTCCTA
Found at i:802073 original size:43 final size:43
Alignment explanation
Indices: 801809--802074 Score: 265
Period size: 43 Copynumber: 6.1 Consensus size: 43
801799 ATAAAGAAAT
* * * *
801809 AAAAGGAAAACGAAA-TGCATCTTGCTCTTTGAGGACAAAA-GA
1 AAAAGGAAAA-TAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGG
* * *
801851 AAAAGGAAAATAAAGTGCGTCCTGCTCTTTAAGGACAAAAAGA
1 AAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGG
* *
801894 AATGAAGG-AAATAAAGTGCGTCCTACTCTTTGAAGACAAAAGGAG
1 AA--AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGG-G
* *
801939 AAAAGAAGGAAATGGAAAGT--GTCCTGCTCTTTAAGGAC-AAAGGAG
1 AAAAG--GAAAAT--AAAGTGCGTCCTGCTCTTTGAGGACAAAAGG-G
*
801984 AAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAG
1 AAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGG
* * * *
802027 AAAAGGAAAATAAACTGTGTCTTACTCTTTGAGGACAAAAGGG
1 AAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGG
802070 AAAAG
1 AAAAG
802075 AAAGAAATGA
Statistics
Matches: 191, Mismatches: 20, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
41 8 0.04
42 32 0.17
43 73 0.38
44 35 0.18
45 19 0.10
46 19 0.10
48 5 0.03
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (43 bp):
AAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGGG
Found at i:802236 original size:105 final size:105
Alignment explanation
Indices: 802049--802272 Score: 349
Period size: 105 Copynumber: 2.1 Consensus size: 105
802039 AACTGTGTCT
*
802049 TACTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAATGCATCTTGCTATTTAAGGACTAGGAG
1 TACTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAATGCATCCTGCTATTTAAGGACTAGGAG
802114 GTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCC
66 GTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCC
* * * ** * *
802154 TACTTTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACTAGGAG
1 TACTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAATGCATCCTGCTATTTAAGGACTAGGAG
* *
802219 GTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGTGTCT
66 GTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCC
*
802259 TGCTCTTTGAGGAC
1 TACTCTTTGAGGAC
802273 TAGAAGGTGT
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (105 bp):
TACTCTTTGAGGACAAAAGGGAAAAGAAAGAAATGAAATGCATCCTGCTATTTAAGGACTAGGAG
GTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCGTCC
Found at i:802396 original size:62 final size:61
Alignment explanation
Indices: 802195--802583 Score: 466
Period size: 62 Copynumber: 6.4 Consensus size: 61
802185 AATGAAGTGT
* * * *
802195 GTCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTTG--AAGGAGAAGGT
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
802255 GTCTTGCTCTTTGAGGACTAGAAGGTGTCACCAACTTGTGTGGGATTT-AAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
** *
802316 G-CCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGT
1 GTCC-TGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
* * *
802378 GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTG-AAAG-AGAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
802438 ATCCTACTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGAC
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
* * *
802500 GTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGAC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
*
802562 ATCCTGCTCTTTGAGGACTAAA
1 GTCCTGCTCTTTGAGGACTAAA
802584 CGGATGAAAG
Statistics
Matches: 287, Mismatches: 31, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
59 1 0.00
60 95 0.33
61 57 0.20
62 129 0.45
63 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGC
Found at i:808861 original size:79 final size:79
Alignment explanation
Indices: 808730--809030 Score: 304
Period size: 79 Copynumber: 3.8 Consensus size: 79
808720 ACAATAGGGC
* * * *
808730 TAGAGTATCTCCGATTATAGAAAA-TCGGTGTTTT-GAAAATAAA-ATCAGGGTTGGAGTATCCC
1 TAGAGTATCCCCGATTGT-GAAAAGTCGGTGTTTTAG-AAATAAAGCT-GGGGTTGGAGTATCCC
808792 CTCGAAAATAACGGGGT
63 CTCGAAAATAACGGGGT
* * * * * *
808809 TAGAGTATCCCCGATTGTGGAAAA-TCGATGCTTTCGAAATAAGGCTGGGGTTGGAGTATCCTCG
1 TAGAGTATCCCCGATTGT-GAAAAGTCGGTGTTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCT
*
808873 CGAAAATAACAGGGT
65 CGAAAATAACGGGGT
* * * * * * *
808888 TAAAGTATCCCCGATAGTGAAAATTTGGTGTTTTAGAAATAAAGCCGGGATTGGAGTTTCCCCTC
1 TAGAGTATCCCCGATTGTGAAAAGTCGGTGTTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTC
* *
808953 GAAAATAACGAGAT
66 GAAAATAACGGGGT
* * * **
808967 TGGAGTACCCCCGATTGTGAAAAGACTGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCCC
1 TAGAGTATCCCCGATTGTGAAAAGTC-GGTGTTTTAGAAATAAAGCTGGGGTTGGAGTATCCCC
809031 GAGATGAAAA
Statistics
Matches: 180, Mismatches: 38, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
78 5 0.03
79 141 0.78
80 34 0.19
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
TAGAGTATCCCCGATTGTGAAAAGTCGGTGTTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTC
GAAAATAACGGGGT
Found at i:809068 original size:50 final size:50
Alignment explanation
Indices: 808998--809093 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
808988 AAGACTGGTG
**
808998 TTTTAGAAATAAAATTGGGGTTGGAGTATCCCCGAGATGAAAAATCAATA
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGAGATGAAAAATCAATA
*
809048 TTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGAGATGAAAAATC
1 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGAGATGAAAAATC
809094 TAGAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (50 bp):
TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGAGATGAAAAATCAATA
Found at i:811456 original size:20 final size:20
Alignment explanation
Indices: 811431--811485 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
811421 GTAAACTCAA
811431 AATGTATCGATACAATAAAC
1 AATGTATCGATACAATAAAC
* * *
811451 AATGTATCAATACATTGAAC
1 AATGTATCGATACAATAAAC
811471 AATGTATCGATACAA
1 AATGTATCGATACAA
811486 ATTGTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATAAAC
Found at i:814096 original size:13 final size:13
Alignment explanation
Indices: 814078--814103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
814068 CAATTTTTTG
814078 TGTATCGATACAT
1 TGTATCGATACAT
814091 TGTATCGATACAT
1 TGTATCGATACAT
814104 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:816664 original size:13 final size:13
Alignment explanation
Indices: 816646--816684 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
816636 ATAATCATCC
*
816646 TGTATCGATACAG
1 TGTATCGATACAA
816659 TGTATCGATACAA
1 TGTATCGATACAA
816672 TGTATCGATACAA
1 TGTATCGATACAA
816685 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:816695 original size:20 final size:20
Alignment explanation
Indices: 816670--816748 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
816660 GTATCGATAC
816670 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
816690 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
816715 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
816735 CATGTATCGATACA
1 AATGTATCGATACA
816749 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:820626 original size:21 final size:21
Alignment explanation
Indices: 820597--820641 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
820587 AAGTTTTCAT
*
820597 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
820617 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
820639 TTT
1 TTT
820642 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:822873 original size:13 final size:13
Alignment explanation
Indices: 822855--822880 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
822845 CAATTTTTTG
822855 TGTATCGATACAT
1 TGTATCGATACAT
822868 TGTATCGATACAT
1 TGTATCGATACAT
822881 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:831910 original size:2 final size:2
Alignment explanation
Indices: 831903--831928 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
831893 ATATTCAAAA
831903 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
831929 CTATTAGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:832740 original size:164 final size:162
Alignment explanation
Indices: 832358--832793 Score: 468
Period size: 164 Copynumber: 2.6 Consensus size: 162
832348 ATATTTTTTG
*
832358 GTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAAATCAATTAAATCAGTTTTCAAAAATT
1 GTTTTTAATTTTTAAAATTCATCAAATATTATTATTT-ATTCAATTAAATCAGTTTTCAAAAATT
* * * ** * *
832423 CATTCATTTTCAAGGATTTTTTTATTTTTTTCCTTGAAACTCCCTTTATTTTCAAAATACGAAGT
65 CATTCATTTT-TATGAGTTTTGGA-ATTTTTCCTTGAAATTCCC-TTATTTTCAAAATACG-AGT
** ** *
832488 TTTCTACTCTGTAAATTTTTTAAGAGATTTTTCTGGG
126 TTTCTACTCCATAAATTTTGGAAGAGATTTTTCTGGA
* * *
832525 GTTGTTAACTTTTTAAAATTCATCAAATATTATTATTTATTTTACATTAAATTAGTTTTCAAAAA
1 GTTTTTAA-TTTTTAAAATTCATCAAATATTATTATTTA-TTCA-ATTAAATCAGTTTTCAAAAA
* *
832590 TTCCTTCATTTTTATTAGTTTTGGAATTTTTCCTTGAAATTCTCC-TATTTTCAAAATACG-GTG
63 TTCATTCATTTTTATGAGTTTTGGAATTTTTCCTTGAAATTC-CCTTATTTTCAAAATACGAGT-
** * *
832653 TTTCTACTCCATAAATTTTGGGGGGGGATTTTTCT-TA
126 TTTCTACTCCATAAATTTT-GGAAGAGATTTTTCTGGA
*
832690 GTTTTTAATTTTTTAAATTCATCAAATATTATTATTTATTCCATATTAAATCAG-TTTCTAAAAA
1 GTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATT-CA-ATTAAATCAGTTTTC-AAAAA
* * *
832754 GTAATTCATTTTTATGAGTTTTGG-ATTTTTTCTTCGAAAT
63 TTCATTCATTTTTATGAGTTTTGGAATTTTTCCTT-GAAAT
832794 CTTTTTTTTC
Statistics
Matches: 228, Mismatches: 32, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
163 15 0.07
164 71 0.31
165 24 0.11
166 25 0.11
167 23 0.10
168 40 0.18
169 30 0.13
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (162 bp):
GTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTCAATTAAATCAGTTTTCAAAAATTC
ATTCATTTTTATGAGTTTTGGAATTTTTCCTTGAAATTCCCTTATTTTCAAAATACGAGTTTTCT
ACTCCATAAATTTTGGAAGAGATTTTTCTGGA
Found at i:833418 original size:15 final size:14
Alignment explanation
Indices: 833398--833440 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
833388 GAAAGAAGAG
833398 AGAAAAGAAAAACAA
1 AGAAAAGAAAAA-AA
833413 AGAAAAGAAAGAAAA
1 AGAAAAGAAA-AAAA
*
833428 AAAAAAGAGAAAA
1 AGAAAAGA-AAAA
833441 TAGAGTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (14 bp):
AGAAAAGAAAAAAA
Found at i:833425 original size:24 final size:22
Alignment explanation
Indices: 833393--833440 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
833383 TAGCTGAAAG
*
833393 AAGAGAGAAAAGAAAAACAAAGAA
1 AAGAAAGAAAA-AAAAA-AAAGAA
*
833417 AAGAAAGAAAAAAAAAAGAGAA
1 AAGAAAGAAAAAAAAAAAAGAA
833439 AA
1 AA
833441 TAGAGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 10 0.45
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (22 bp):
AAGAAAGAAAAAAAAAAAAGAA
Found at i:835137 original size:20 final size:20
Alignment explanation
Indices: 835114--835165 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
835104 TAATTCATAG
*
835114 TGTATCAATACAAAGCAATT
1 TGTATCGATACAAAGCAATT
**
835134 TGTATCGATACTTAGCAATT
1 TGTATCGATACAAAGCAATT
835154 TGTATCGATACA
1 TGTATCGATACA
835166 TCTGGATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAAAGCAATT
Found at i:837949 original size:21 final size:21
Alignment explanation
Indices: 837925--837964 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
837915 ATTCATGAAC
*
837925 AATTAACCACACAACATCAAT
1 AATTAACAACACAACATCAAT
*
837946 AATTAACAACACAAGATCA
1 AATTAACAACACAACATCA
837965 TTCAAAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.25, G:0.03, T:0.17
Consensus pattern (21 bp):
AATTAACAACACAACATCAAT
Found at i:838246 original size:21 final size:20
Alignment explanation
Indices: 838204--838246 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
838194 GTCAAGAGGT
*
838204 TTGGTGAAAATATCAACTAA
1 TTGGTGAAAATATCAACGAA
* *
838224 TTGGTGCAAAGTATCTACGAA
1 TTGGTG-AAAATATCAACGAA
838245 TT
1 TT
838247 CGAGCATATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGGTGAAAATATCAACGAA
Found at i:843838 original size:33 final size:33
Alignment explanation
Indices: 843796--843861 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
843786 ATAATTCATG
843796 ATGTATCGATACAAT-GCAATTTGTATCGATACA
1 ATGTATCGATA-AATAGCAATTTGTATCGATACA
**
843829 ATGTATCGATATTTAGCAATTTGTATCGATACA
1 ATGTATCGATAAATAGCAATTTGTATCGATACA
843862 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (33 bp):
ATGTATCGATAAATAGCAATTTGTATCGATACA
Found at i:845289 original size:155 final size:155
Alignment explanation
Indices: 845015--845296 Score: 356
Period size: 155 Copynumber: 1.8 Consensus size: 155
845005 ACCGAGTCCA
* *
845015 CTTTTATGCCGAAGGTTGATATTTAAGGTAGGTTCATCCCAGTTAAAATCGTTTTTAAATCCTTT
1 CTTTTATGCCCAAGGTGGATATTTAAGGTAGGTTCATCCCAGTTAAAATCGTTTTTAAATCCTTT
* *
845080 AGGGATATCGAGTATTTCTACATTAAAGGTATCCCCTAAGGGCATTTTCGTAATTTT-TTAAAAC
66 AGGGATATCGAGTATTTCTACATCAAAGGTATCCCATAAGGGCATTTTCGTAATTTTGTTAAAAC
845144 TGAGCCTAGGTTGTCACCAGGTCTG
131 TGAGCCTAGGTTGTCACCAGGTCTG
* * * * *
845169 CTTTTATGCCTCAA-GTGGATATTTAGGGTAGGTTCATCCTA-TTAAAATCTTTTTTTTAAGTTC
1 CTTTTATGCC-CAAGGTGGATATTTAAGGTAGGTTCATCCCAGTTAAAATC--GTTTTTAAATCC
* * * * * * *
845232 TTTAGGGGTATCGGGTACTTT-TACGTCGAAGGTATCCTATAAGGGTATTTTTGTAATTTTGTTA
63 TTTAGGGATATCGAGTA-TTTCTACATCAAAGGTATCCCATAAGGGCATTTTCGTAATTTTGTTA
845296 A
127 A
845297 CTTAGCCCTT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
153 8 0.07
154 34 0.32
155 58 0.54
156 7 0.07
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (155 bp):
CTTTTATGCCCAAGGTGGATATTTAAGGTAGGTTCATCCCAGTTAAAATCGTTTTTAAATCCTTT
AGGGATATCGAGTATTTCTACATCAAAGGTATCCCATAAGGGCATTTTCGTAATTTTGTTAAAAC
TGAGCCTAGGTTGTCACCAGGTCTG
Found at i:851083 original size:19 final size:19
Alignment explanation
Indices: 851059--851104 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
851049 TCAACAAGAA
851059 AGAGAAGCACTTGCTTTCT
1 AGAGAAGCACTTGCTTTCT
851078 AGAGAAGCACTTGCTTTCT
1 AGAGAAGCACTTGCTTTCT
851097 AGAGAAGC
1 AGAGAAGC
851105 CAGCTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (19 bp):
AGAGAAGCACTTGCTTTCT
Found at i:852443 original size:10 final size:10
Alignment explanation
Indices: 852417--852456 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
852407 AAAAGAATTT
852417 ATATT-TTAA
1 ATATTATTAA
852426 AT-TTATTAA
1 ATATTATTAA
852435 ATATTATTAA
1 ATATTATTAA
852445 A-ATTATATAA
1 ATATTAT-TAA
852455 AT
1 AT
852457 TAATTGAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 2 0.07
9 13 0.48
10 12 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATTATTAA
Found at i:852455 original size:20 final size:18
Alignment explanation
Indices: 852417--852456 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
852407 AAAAGAATTT
*
852417 ATATTTTAAATTTATTAA
1 ATATTTTAAAATTATTAA
852435 ATATTATTAAAATTATATAA
1 ATATT-TTAAAATTAT-TAA
852455 AT
1 AT
852457 TAATTGAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTTTAAAATTATTAA
Found at i:853409 original size:21 final size:22
Alignment explanation
Indices: 853385--853430 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
853375 AAGTGATATT
853385 AATAAAAATAATAT-TTTTAAA
1 AATAAAAATAATATATTTTAAA
* * *
853406 AATATAATTAATATATTTTTAA
1 AATAAAAATAATATATTTTAAA
853428 AAT
1 AAT
853431 TTATTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAAAAATAATATATTTTAAA
Found at i:853442 original size:24 final size:22
Alignment explanation
Indices: 853386--853444 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
853376 AGTGATATTA
853386 ATAAAAATAATATTTTTAAAAAT
1 ATAAAAAT-ATATTTTTAAAAAT
* *
853409 ATAATTAATATATTTTTAAAATTT
1 ATAA-AAATATATTTTTAAAA-AT
853433 ATTAAAAATATA
1 A-TAAAAATATA
853445 CCTTTAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 16 0.53
24 11 0.37
25 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAAAAATATATTTTTAAAAAT
Found at i:853833 original size:16 final size:14
Alignment explanation
Indices: 853813--853854 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
853803 TAAAAAAATA
*
853813 TTTAAATTTTATATT
1 TTTAAATATTA-ATT
853828 TATTAAATATTAATT
1 T-TTAAATATTAATT
853843 TTT-AATATTAAT
1 TTTAAATATTAAT
853855 CAACCGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 9 0.36
14 2 0.08
15 5 0.20
16 9 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTAAATATTAATT
Found at i:854515 original size:12 final size:12
Alignment explanation
Indices: 854493--854546 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
854483 GTTAATCAGC
854493 AAAAGTTTAATTT
1 AAAA-TTTAATTT
854506 AAAATTTAATTT
1 AAAATTTAATTT
854518 -AAATTTAA-TT
1 AAAATTTAATTT
* * *
854528 ATATTTTATTTT
1 AAAATTTAATTT
854540 AAAATTT
1 AAAATTT
854547 TAAATTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 2 0.06
11 13 0.38
12 15 0.44
13 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
AAAATTTAATTT
Found at i:854551 original size:30 final size:31
Alignment explanation
Indices: 854515--854577 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
854505 TAAAATTTAA
*
854515 TTTAAATTTAATTATATTTTA-TTTTAAAAT
1 TTTAAATTTAATTAAATTTTATTTTTAAAAT
854545 TTTAAATTTAATTAAATTTTATTTTTAAAAT
1 TTTAAATTTAATTAAATTTTATTTTTAAAAT
854576 TT
1 TT
854578 GAGTAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTAAATTTAATTAAATTTTATTTTTAAAAT
Found at i:854568 original size:35 final size:34
Alignment explanation
Indices: 854498--854569 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
854488 TCAGCAAAAG
*
854498 TTTAATTTAAAATTTAATTTAAATTTAATTATAT
1 TTTAATTTAAAATTTAATTTAAATTAAATTATAT
* *
854532 TTTATTTTAAAATTTTAAATTT-AATTAAATTTTAT
1 TTTAATTTAAAA-TTT-AATTTAAATTAAATTATAT
854567 TTT
1 TTT
854570 TAAAATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 11 0.33
35 17 0.52
36 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TTTAATTTAAAATTTAATTTAAATTAAATTATAT
Found at i:854584 original size:24 final size:23
Alignment explanation
Indices: 854544--854589 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
854534 TATTTTAAAA
* *
854544 TTTTAAATTTAATTAAATTTTAT
1 TTTTAAATTTAAGTAAAATTTAT
*
854567 TTTTAAAATTTGAGTAAAATTTA
1 TTTT-AAATTTAAGTAAAATTTA
854590 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTTAAATTTAAGTAAAATTTAT
Found at i:854590 original size:35 final size:31
Alignment explanation
Indices: 854498--854577 Score: 99
Period size: 30 Copynumber: 2.5 Consensus size: 31
854488 TCAGCAAAAG
* *
854498 TTTAATTTAAAATTTAATTTAAATTTAATTATAT
1 TTTATTTTAAAATTT-A--TAAATTTAATTAAAT
854532 TTTATTTTAAAATTT-TAAATTTAATTAAAT
1 TTTATTTTAAAATTTATAAATTTAATTAAAT
854562 TTTATTTTTAAAATTT
1 TTTA-TTTTAAAATTT
854578 GAGTAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 18 0.42
31 11 0.26
34 14 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTATTTTAAAATTTATAAATTTAATTAAAT
Found at i:855642 original size:15 final size:15
Alignment explanation
Indices: 855624--855657 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
855614 TTATTAAGAA
855624 TTAATTTTAATATAT
1 TTAATTTTAATATAT
* *
855639 TTAATTTTATTATTT
1 TTAATTTTAATATAT
855654 TTAA
1 TTAA
855658 CATTATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATTTTAATATAT
Found at i:855663 original size:15 final size:16
Alignment explanation
Indices: 855644--855691 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
855634 TATATTTAAT
*
855644 TTTATTATTTTTAACA
1 TTTATTATTTTTAAAA
855660 TTATATTATTTTTAAAA
1 TT-TATTATTTTTAAAA
*
855677 -TTATTATTATTAAAA
1 TTTATTATTTTTAAAA
855692 AATTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 13 0.45
16 3 0.10
17 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATTATTTTTAAAA
Found at i:855668 original size:17 final size:18
Alignment explanation
Indices: 855641--855687 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
855631 TAATATATTT
855641 AATT-TTATTATTTTTAA
1 AATTATTATTATTTTTAA
*
855658 CATTA-TATTATTTTTAA
1 AATTATTATTATTTTTAA
855675 AATTATTATTATT
1 AATTATTATTATT
855688 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTATTATTATTTTTAA
Found at i:855703 original size:18 final size:17
Alignment explanation
Indices: 855673--855720 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
855663 TATTATTTTT
*
855673 AAAATTATTATTATTAA
1 AAAATTATAATTATTAA
*
855690 AAAATTAATAATTATTAT
1 AAAATT-ATAATTATTAA
* *
855708 AATATTATTATTA
1 AAAATTATAATTA
855721 GCATACGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATTATAATTATTAA
Found at i:856377 original size:22 final size:23
Alignment explanation
Indices: 856352--856395 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
856342 TAAATAACAT
* *
856352 AAATTTAATTA-AAAATTTTAAA
1 AAATTAAATTATAAAAATTTAAA
856374 AAATTAAATTATAAAAATTTAA
1 AAATTAAATTATAAAAATTTAA
856396 TAATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATTAAATTATAAAAATTTAAA
Found at i:857191 original size:15 final size:16
Alignment explanation
Indices: 857165--857195 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
857155 AAAATAAAAT
857165 AATATTATATAAATAA
1 AATATTATATAAATAA
857181 AATATTA-ATAAATAA
1 AATATTATATAAATAA
857196 TTTTTATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATTATATAAATAA
Found at i:857195 original size:19 final size:19
Alignment explanation
Indices: 857152--857195 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
857142 ATTGATAATT
*
857152 TAAA-AAATAAAATAATAT
1 TAAATAAATAAAATAATAA
* *
857170 TATATAAATAAAATATTAA
1 TAAATAAATAAAATAATAA
857189 TAAATAA
1 TAAATAA
857196 TTTTTATCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAATAAATAAAATAATAA
Found at i:860951 original size:2 final size:2
Alignment explanation
Indices: 860944--860973 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
860934 ATCTGAGATA
860944 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
860974 GTAATCTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:866103 original size:21 final size:21
Alignment explanation
Indices: 866072--866117 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
866062 TTTGCCTCAC
*
866072 TTTTTTTTTAA-A-TTATTTA
1 TTTTTTTTTAATACTTATATA
866091 TTTTTTATGTTAATACTTATATA
1 TTTTTT-T-TTAATACTTATATA
866114 TTTT
1 TTTT
866118 ATAATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 6 0.27
20 1 0.05
21 4 0.18
22 1 0.05
23 10 0.45
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTTTTTAATACTTATATA
Found at i:867586 original size:8 final size:8
Alignment explanation
Indices: 867573--867609 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
867563 TTAAGAAAAG
867573 AAAGAGAA
1 AAAGAGAA
867581 AAAGAGAA
1 AAAGAGAA
*
867589 AAAAAGAA
1 AAAGAGAA
867597 AAA-AGAA
1 AAAGAGAA
867604 AAAGAG
1 AAAGAG
867610 GAGGGGGTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAGAGAA
Found at i:867599 original size:17 final size:19
Alignment explanation
Indices: 867566--867608 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
867556 TTTTTCCTTA
867566 AGAAAAGAAAGAGAAAAAG
1 AGAAAAGAAAGAGAAAAAG
867585 AGAAAA-AAAGA-AAAAAG
1 AGAAAAGAAAGAGAAAAAG
867602 A-AAAAGA
1 AGAAAAGA
867609 GGAGGGGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
18 5 0.22
19 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AGAAAAGAAAGAGAAAAAG
Found at i:874174 original size:3 final size:3
Alignment explanation
Indices: 874166--874207 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
874156 GATATCACTT
874166 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
874208 GATTTAGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:875342 original size:24 final size:23
Alignment explanation
Indices: 875315--875382 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
875305 ATGTTTATAT
875315 TTATATTTTTTTATATTTAAAATA
1 TTATATTTTTTTAT-TTTAAAATA
*
875339 TTATATTTTTATT-TTTTAAGATA
1 TTATATTTTT-TTATTTTAAAATA
875362 TTAATAATTTATTTTATTTTA
1 TT-AT-ATTT-TTTTATTTTA
875383 TGTATATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 10 0.26
24 13 0.34
25 8 0.21
26 7 0.18
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (23 bp):
TTATATTTTTTTATTTTAAAATA
Found at i:875347 original size:22 final size:23
Alignment explanation
Indices: 875315--875364 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
875305 ATGTTTATAT
*
875315 TTATATTTTTTTATATTTAAAATA
1 TTATATTTTTAT-TATTTAAAATA
* *
875339 TTATATTTTTATTTTTTAAGATA
1 TTATATTTTTATTATTTAAAATA
875362 TTA
1 TTA
875365 ATAATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTATATTTTTATTATTTAAAATA
Found at i:875510 original size:14 final size:14
Alignment explanation
Indices: 875491--875524 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
875481 TTATGTGATA
875491 TTTATAAATATTTT
1 TTTATAAATATTTT
**
875505 TTTATATTTATTTT
1 TTTATAAATATTTT
875519 TTTATA
1 TTTATA
875525 TTGTGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATAAATATTTT
Found at i:875525 original size:14 final size:14
Alignment explanation
Indices: 875499--875526 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
875489 TATTTATAAA
875499 TATTTTTTTATATT
1 TATTTTTTTATATT
875513 TATTTTTTTATATT
1 TATTTTTTTATATT
875527 GTGTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTTATATT
Found at i:875609 original size:2 final size:2
Alignment explanation
Indices: 875592--875625 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
875582 ATTAAAAATT
*
875592 TA TA TC TA TCA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA T
875626 TTTGAACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:876053 original size:13 final size:13
Alignment explanation
Indices: 876035--876061 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
876025 ATTGTTACTT
876035 ACTACATAATTGC
1 ACTACATAATTGC
876048 ACTACATAATTGC
1 ACTACATAATTGC
876061 A
1 A
876062 GGTAAGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTACATAATTGC
Found at i:877841 original size:2 final size:2
Alignment explanation
Indices: 877834--877875 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
877824 TGATGTTTTA
*
877834 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
877876 TCTTCATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:877888 original size:2 final size:2
Alignment explanation
Indices: 877883--877911 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
877873 TCTTCTTCAT
877883 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
877912 TTGTAGAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:884198 original size:4 final size:4
Alignment explanation
Indices: 884189--884219 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
884179 TATGTTTATA
884189 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
884220 ATCAAGTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:884514 original size:20 final size:20
Alignment explanation
Indices: 884489--884531 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
884479 ATTTTTTTAC
884489 TTTTAAGAATTGTCTCATGG
1 TTTTAAGAATTGTCTCATGG
884509 TTTTAAGAATTGTCTCATGG
1 TTTTAAGAATTGTCTCATGG
884529 TTT
1 TTT
884532 ATAATTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (20 bp):
TTTTAAGAATTGTCTCATGG
Found at i:885317 original size:2 final size:2
Alignment explanation
Indices: 885304--885413 Score: 68
Period size: 2 Copynumber: 56.5 Consensus size: 2
885294 ATAGCATGTG
* * * * *
885304 TA TA TG TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA TG TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
885346 TT TA TA GCA -A GTA TA TA TA TA TA TA TA TA T- TA -A AA GA -A GA
1 TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
885386 GA TA TA -A TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
885414 TTTGAGAGGA
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
1 5 0.06
2 82 0.92
3 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:890719 original size:20 final size:21
Alignment explanation
Indices: 890682--890723 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
890672 TCTTAAAGTA
890682 ATAATATAAAATAATTAATTT
1 ATAATATAAAATAATTAATTT
890703 ATAATATAAAA-AATTAATTT
1 ATAATATAAAATAATTAATTT
890723 A
1 A
890724 CATGTAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATATAAAATAATTAATTT
Found at i:937576 original size:15 final size:15
Alignment explanation
Indices: 937556--937586 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
937546 TAAAAATGTC
*
937556 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
937571 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
937586 C
1 C
937587 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:939684 original size:13 final size:13
Alignment explanation
Indices: 939666--939704 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
939656 ACATTTTTCT
939666 TTGTATCGATACA
1 TTGTATCGATACA
939679 TTGTATCGATACA
1 TTGTATCGATACA
939692 TTGTATCGATACA
1 TTGTATCGATACA
939705 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:939849 original size:21 final size:21
Alignment explanation
Indices: 939825--939871 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
939815 AAATCTTTTG
939825 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
939846 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
939866 CAAAAT
1 CAAAAT
939872 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:939868 original size:20 final size:19
Alignment explanation
Indices: 939827--939869 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
939817 ATCTTTTGCA
939827 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
939847 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
939867 AAA
1 AAA
939870 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:942268 original size:13 final size:13
Alignment explanation
Indices: 942250--942275 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
942240 TACAGCAAGT
942250 ATGTATCGATACA
1 ATGTATCGATACA
942263 ATGTATCGATACA
1 ATGTATCGATACA
942276 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:943904 original size:61 final size:61
Alignment explanation
Indices: 943808--944574 Score: 704
Period size: 61 Copynumber: 12.5 Consensus size: 61
943798 AACCTTTTAT
* * ** * *
943808 CCTTTTAGTCCTCAAAGAGTAAGACGTTTTTTCCTTTCAAAGTCCACACAAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * **
943869 TCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACATAAGTCAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* ** * * * * *
943930 CCTTTCAGT-CTCAAAGAGCAAGATGTTTTTTCCTTTTAAAACCTACATAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
943990 CCTTTT-GGCTTTCAAAGAGCAAAATACCTTTTCCTTTGAAAGCTCACACAAGTTGGTGGCA
1 CCTTTTAGTC-CTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
944051 CCTTTTGGTCCTCAAAGAGTAAGACGCCTTTTCCTTTCAAAGCCTACAAAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * * *
944112 CCTTTTAGTCCTTAAAGAGTAGGACG-TTTTTCCCTTTTAAAGCCCACAAAAATTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTT-CCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
944173 CCTTTTTAGTCTTTAAAGAGTAGGATGCCTTGTCCTTTTAAAGCCCACACAAGTTGGTGGTAA
1 CC-TTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG-CA
* * * *
944236 CTTTTTAGTCCTTAAAGAGTAAGATGCCTTTTCCTTTCGAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
944297 -CTTTTCTGTCCTCAAAGAGTAAGATGCATTTT--TTTTAAAGCCCACAAAAGTTGGTGGCA
1 CCTTTT-AGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
944356 CCTTCTAGTCCTTAAAGAG-TAG-GGCATTTTCCTTTAAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * * *
944415 CCTTTTAGTCCTCAAAGAACATGACGCTTTTTCTTTTCAAAACCCATACAAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
944476 CCTTTTAGTCCTCAAAGAGCAAGACACTTCCTTTTTTCTTTTACAGCCCATACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAG--A-TGCC-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
944541 ACTTCTAGTCCTCAAAGACCAAGATGCCTCTTTC
1 CCTTTTAGTCCTCAAAGAGCAAGATGCCT-TTTC
944575 TTTTTCTTTT
Statistics
Matches: 580, Mismatches: 108, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
57 7 0.01
58 2 0.00
59 76 0.13
60 61 0.11
61 272 0.47
62 107 0.18
63 7 0.01
64 1 0.00
65 47 0.08
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:944032 original size:121 final size:122
Alignment explanation
Indices: 943808--944579 Score: 621
Period size: 121 Copynumber: 6.3 Consensus size: 122
943798 AACCTTTTAT
* ** * * * * *
943808 CCTTTTAGTCCTCAAAGAGTAAGACGTTTTTTCCTTTCAAAGTCCACACAAGTTGATGGCATCTT
1 CCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTAAAGCCCACAAAAGTTGGTGGCACCTT
* * * * * * **
943873 TTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTCAAAGCCCACATAAGTCAGTGGCA
66 TTAGGCCTTAAAGAGCAAAATACCTTTTCCTTTGAAAGCCCACACAAGTTGGTGGCA
* * ** * * * *
943930 CCTTTCAGT-CTCAAAGAGCAAGATGTTTTTTCCTTTTAAAACCTACATAAGTTGGTGGTACCTT
1 CCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTAAAGCCCACAAAAGTTGGTGGCACCTT
* *
943994 TT-GGCTTTCAAAGAGCAAAATACCTTTTCCTTTGAAAGCTCACACAAGTTGGTGGCA
66 TTAGGCCTT-AAAGAGCAAAATACCTTTTCCTTTGAAAGCCCACACAAGTTGGTGGCA
* * * *
944051 CCTTTTGGTCCTCAAAGAGTAAGACGCCTTTTCCTTTCAAAGCCTACAAAAGTTGGTGGCACCTT
1 CCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTAAAGCCCACAAAAGTTGGTGGCACCTT
* * ** * * * *
944116 TTAGTCCTTAAAGAG--TAGGACGTTTTTCCCTTTTAAAGCCCACAAAAATTGGTGGCA
66 TTAGGCCTTAAAGAGCAAAATAC-CTTTT-CCTTTGAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
944173 CCTTTTTAGTCTTTAAAGAGTAGGATGCCTTGTCCTTTTAAAGCCCACACAAGTTGGTGGTAACT
1 CC-TTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTAAAGCCCACAAAAGTTGGTGG-CACC
* * * *
944238 TTTTAGTCCTTAAAGAGTAAGATGCCTTTTCCTTTCG-AAGCCCACACAAGTTGGTGGCA
64 TTTTAGGCCTTAAAGAGCAAAATACCTTTTCCTTT-GAAAGCCCACACAAGTTGGTGGCA
* *
944297 -CTTTTCTGTCCTCAAAGAGTAAGATGCATTTT--TTTTAAAGCCCACAAAAGTTGGTGGCACCT
1 CCTTTT-AGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTAAAGCCCACAAAAGTTGGTGGCACCT
* * * *** * * *
944359 TCTAGTCCTTAAAGAG--TAGGGCATTTTCCTTTAAAAGCCCACACAAGCTGGTGGCA
65 TTTAGGCCTTAAAGAGCAAAATACCTTTTCCTTTGAAAGCCCACACAAGTTGGTGGCA
** * * * * * * *
944415 CCTTTTAGTCCTCAAAGAACATGACG-CTTTTTCTTTTCAAAACCCATACAAGTTGATGGCACCT
1 CCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTT-AAAGCCCACAAAAGTTGGTGGCACCT
* * * * * * *
944479 TTTAGTCCTCAAAGAGCAAGACACTTCCTTTTTTCTTTTACAGCCCATACAAGTTGGTGGCA
65 TTTAGGCCTTAAAGAGCAA-A-A-TACC-TTTTCCTTTGAAAGCCCACACAAGTTGGTGGCA
* * ** *
944541 ACTTCTAGTCCTCAAAGACCAAGATGCCTCTTTCTTTTT
1 CCTTTTAGTCCTCAAAGAGTAAGATGCCT-TTTCCTTTT
944580 CTTTTTAAAA
Statistics
Matches: 519, Mismatches: 107, Indels: 42
0.78 0.16 0.06
Matches are distributed among these distances:
117 4 0.01
118 47 0.09
119 9 0.02
120 60 0.12
121 123 0.24
122 94 0.18
123 74 0.14
124 44 0.08
125 5 0.01
126 50 0.10
127 2 0.00
128 7 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (122 bp):
CCTTTTAGTCCTCAAAGAGTAAGATGCCTTTTCCTTTTAAAGCCCACAAAAGTTGGTGGCACCTT
TTAGGCCTTAAAGAGCAAAATACCTTTTCCTTTGAAAGCCCACACAAGTTGGTGGCA
Found at i:944144 original size:182 final size:181
Alignment explanation
Indices: 943836--944540 Score: 720
Period size: 182 Copynumber: 3.9 Consensus size: 181
943826 GTAAGACGTT
* * * * *
943836 TTTTCCTTTCAAAGTCCACACAAGTTGATGGCATCTTTTAGTCCTCAAAGAGCAAGATGCCTTTT
1 TTTTCCTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
* ** * * *
943901 CCTTTCAAAGCCCACATAAGTCAGTGGCACCTTTCAGT-CTCAAAGAGCAAGATGTTTTTTCCTT
66 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGATGCTTTTTCCTT
* * * * * *
943965 TTAAAACCTACATAAGTTGGTGGTACCTTTTGGCTTTCAAAGAGCAAAATACC
131 TTAAAGCCCACAAAAGTTGGTGGCACCTTTTGTCTTT-AAAGAG-AAAATGCC
* * * *
944018 TTTTCCTTTGAAAGCTCACACAAGTTGGTGGCACCTTTTGGTCCTCAAAGAGTAAGACGCCTTTT
1 TTTTCCTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
* * * * *
944083 CCTTTCAAAGCCTACAAAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGACG-TTTTTCCCT
66 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGATGCTTTTT-CCT
* **
944147 TTTAAAGCCCACAAAAATTGGTGGCACCTTTTTAGTCTTTAAAGAGTAGGATGCC
130 TTTAAAGCCCACAAAAGTTGGTGGCACC-TTTT-GTCTTTAAAGAG-AAAATGCC
* * * * * * *
944202 TTGTCCTTTTAAAGCCCACACAAGTTGGTGGTAACTTTTTAGTCCTTAAAGAGTAAGATGCCTTT
1 TTTTCCTTTAAAAGCCCACACAAGTTGGTGG-CACCTTTTAGTCCTCAAAGAGCAAGACGCCTTT
* * *
944267 TCCTTTCGAAGCCCACACAAGTTGGTGGCA-CTTTTCTGTCCTCAAAGAGTAAGATGCATTTT--
65 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGTAAGATGCTTTTTCC
* * * ** *
944329 TTTTAAAGCCCACAAAAGTTGGTGGCACCTTCTAGTCCTTAAAGAG-TAGGGCA
129 TTTTAAAGCCCACAAAAGTTGGTGGCACCTT-TTGTCTTTAAAGAGAAAATGCC
* * * *
944382 TTTTCCTTTAAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAACATGACGCTTTTT
1 TTTTCCTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
* * * * * *
944447 CTTTTCAAAACCCATACAAGTTGATGGCACCTTTTAGTCCTCAAAGAGCAAGACACTTCCTTTTT
66 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAG--A--TGCTTTTT
* * * *
944512 TCTTTTACAGCCCATACAAGTTGGTGGCA
127 CCTTTTAAAGCCCACAAAAGTTGGTGGCA
944541 ACTTCTAGTC
Statistics
Matches: 434, Mismatches: 74, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
179 65 0.15
180 35 0.08
181 1 0.00
182 108 0.25
183 73 0.17
184 48 0.11
185 100 0.23
186 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (181 bp):
TTTTCCTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGATGCTTTTTCCTT
TTAAAGCCCACAAAAGTTGGTGGCACCTTTTGTCTTTAAAGAGAAAATGCC
Found at i:944550 original size:65 final size:66
Alignment explanation
Indices: 944442--944564 Score: 185
Period size: 65 Copynumber: 1.9 Consensus size: 66
944432 AACATGACGC
* * *
944442 TTTTTCTTTTCAAAACCCATACAAGTTGATGGCACCTTTTAGTCCTCAAAGAGCAAGACACTTCC
1 TTTTTCTTTTCAAAACCCATACAAGTTGATGGCAACTTCTAGTCCTCAAAGACCAAGACACTTCC
944507 T
66 T
* * *
944508 TTTTTCTTTT-ACAGCCCATACAAGTTGGTGGCAACTTCTAGTCCTCAAAGACCAAGA
1 TTTTTCTTTTCAAAACCCATACAAGTTGATGGCAACTTCTAGTCCTCAAAGACCAAGA
944565 TGCCTCTTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
65 41 0.80
66 10 0.20
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (66 bp):
TTTTTCTTTTCAAAACCCATACAAGTTGATGGCAACTTCTAGTCCTCAAAGACCAAGACACTTCC
T
Found at i:948433 original size:30 final size:30
Alignment explanation
Indices: 948368--948546 Score: 209
Period size: 30 Copynumber: 5.9 Consensus size: 30
948358 ATACTTTTTT
*
948368 AAAGTCCACGACTCAGTGGCA-ATTTCTTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTC-T-TC
948399 AAAGTCCACGACTCAGTGGCATCTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTCTTC
* *
948429 AAAGTCCATGACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAT-C-TTTCTTC
*
948461 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTCT-TC
* *
948491 AAAGTCCACGACTTAGTGGCATTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTCTTC
* * * *
948521 AAAGCCCACAACTCCGTGGCACCTTT
1 AAAGTCCACGACTCAGTGGCATCTTT
948547 TCTTTTTAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
29 4 0.03
30 67 0.52
31 27 0.21
32 31 0.24
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTCTTC
Found at i:948480 original size:62 final size:61
Alignment explanation
Indices: 948368--948617 Score: 229
Period size: 62 Copynumber: 4.0 Consensus size: 61
948358 ATACTTTTTT
948368 AAAGTCCACGACTCAGTGGCAATTTCTTC-TCAAAGTCCACGACTCAGTGGCATCTTTCT-TC
1 AAAGTCCACGACTCAGTGGC-ATTT-TTCTTCAAAGTCCACGACTCAGTGGCATCTTTCTCTC
* * *
948429 AAAGTCCATGACTCAGTGGCATCCTTTTCTTTAAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAT--TTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTCTCTC
* * * * * * *
948491 AAAGTCCACGACTTAGTGGCATTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTCTTTTT
1 AAAGTCCACGACTCAGTGGCATTTTTCTTCAAAGTCCACGACTCAGTGGCATC-TTTC-TCTC
* * * * * *
948554 AAAGCCCACAACTTC-GTGGCACTTTTTTTCCTTCTAAGTCCACAATTCCGTGGCATCTTTCTCT
1 AAAGTCCACGAC-TCAGTGGCA---TTTTT-CTTCAAAGTCCACGACTCAGTGGCATCTTTCTCT
948618 TTTTCTAAAG
Statistics
Matches: 156, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
60 27 0.17
61 26 0.17
62 50 0.32
63 18 0.12
64 1 0.01
65 2 0.01
66 9 0.06
67 23 0.15
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCATTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTTCTCTC
Found at i:948523 original size:92 final size:92
Alignment explanation
Indices: 948365--948551 Score: 288
Period size: 92 Copynumber: 2.0 Consensus size: 92
948355 CAAATACTTT
948365 TTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCTTCA
1 TTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCTTCA
* **
948430 AAGTCCATGACTCAGTGGCATCCTTTTC
66 AAGCCCACAACTCAGTGGCA-CCTTTTC
* *
948458 TTTAAAGTCCACGACTCAGTGGC-ATTT-TGTCTCAAAGTCCACGACTTAGTGGCATTTTTCTTC
1 TTTAAAGTCCACGACTCAGTGGCAATTTCT-TCTCAAAGTCCACGACTCAGTGGCATCTTTCTTC
*
948521 AAAGCCCACAACTCCGTGGCACCTTTTC
65 AAAGCCCACAACTCAGTGGCACCTTTTC
948549 TTT
1 TTT
948552 TTAAAGCCCA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
91 11 0.13
92 53 0.61
93 23 0.26
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (92 bp):
TTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCTTCA
AAGCCCACAACTCAGTGGCACCTTTTC
Found at i:948606 original size:34 final size:34
Alignment explanation
Indices: 948512--948633 Score: 119
Period size: 33 Copynumber: 3.6 Consensus size: 34
948502 CTTAGTGGCA
*
948512 TTTTTCTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTTTCTTCAAAGCCCACAATTCCGTGGCACCTT
948546 TTCTTT-TT-AAAGCCCACAACTT-CGTGGCA-CTT
1 TT-TTTCTTCAAAGCCCACAA-TTCCGTGGCACCTT
* * *
948578 TTTTTCCTTCTAAGTCCACAATTCCGTGGCATCTT
1 TTTTT-CTTCAAAGCCCACAATTCCGTGGCACCTT
948613 TCTCTTT-TTCTAAAGCCCACA
1 T-T-TTTCTTC-AAAGCCCACA
948634 CAAGTCGGTG
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
31 3 0.04
32 5 0.07
33 22 0.30
34 21 0.29
35 10 0.14
36 9 0.12
37 3 0.04
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.38
Consensus pattern (34 bp):
TTTTTCTTCAAAGCCCACAATTCCGTGGCACCTT
Found at i:948659 original size:33 final size:33
Alignment explanation
Indices: 948621--948817 Score: 328
Period size: 33 Copynumber: 6.0 Consensus size: 33
948611 TTTCTCTTTT
948621 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
948654 TCTAAAGCCCACACAAGTCGGTGGCAA-CCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
*
948686 TTCTAAAGCCCACACAAGTCGGTGGTAACCCTTC
1 -TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
948720 TC-AAAGCCCACACAAGTCGGTGGCAACCC-TC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
* *
948751 TCTAAAGCCCACACAAGTTGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
*
948784 TCTAAAGCCCACGCAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
948817 T
1 T
948818 AAGCCCAATA
Statistics
Matches: 153, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
31 4 0.03
32 56 0.37
33 88 0.58
34 5 0.03
ACGTcount: A:0.27, C:0.35, G:0.19, T:0.19
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:948791 original size:97 final size:97
Alignment explanation
Indices: 948620--948824 Score: 344
Period size: 97 Copynumber: 2.1 Consensus size: 97
948610 CTTTCTCTTT
948620 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
*
948685 CTTCTAAAGCCCACACAAGTCGGTGGTAACCC
66 CTTCTAAAGCCCACACAAGTCGGTGGCAACCC
*
948717 TTCTCAAAGCCCACACAAGTCGGTGGCAACCC-TCTCTAAAGCCCACACAAGTTGGTGGCAACCA
1 TTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC-
*
948781 TTC-TCTAAAGCCCACGCAAGTCGGTGGCAACCC
64 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCC
948814 TTCT-AAGCCCA
1 TTCTAAAGCCCA
948825 ATATCGCTGG
Statistics
Matches: 103, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
95 7 0.07
97 66 0.64
98 30 0.29
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.19
Consensus pattern (97 bp):
TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
CTTCTAAAGCCCACACAAGTCGGTGGCAACCC
Found at i:948924 original size:43 final size:43
Alignment explanation
Indices: 948863--949496 Score: 763
Period size: 43 Copynumber: 14.1 Consensus size: 43
948853 GCACCTTCAT
* *
948863 CTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
948906 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
948949 CTTTAAGTCCAATATAGCTGGCCTTGAAAT-AGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTG-AATCAGCACATTGGCA----C
*
948996 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* ** * *
949041 ATCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
*
949085 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
949133 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
*
949177 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
949225 CTTTAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCACATTGGCA-C
*
949269 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
949317 CTTTAAGT-CAATATAGCTGGCCTTGAATCAGCATATTGGCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
*
949360 TTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
949408 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
949451 TTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA-ATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
949493 CTTT
1 CTTT
949497 TCCATCTTTA
Statistics
Matches: 518, Mismatches: 38, Indels: 71
0.83 0.06 0.11
Matches are distributed among these distances:
42 44 0.08
43 271 0.52
44 6 0.01
45 1 0.00
47 1 0.00
48 15 0.03
49 178 0.34
50 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:948930 original size:22 final size:22
Alignment explanation
Indices: 948863--948930 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
948853 GCACCTTCAT
948863 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * * * *
948885 CTTGAATTAGCACAT-TGGC--AC
1 CTTTAAGT-CCA-ATGTAGCTGGC
948906 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
948928 CTT
1 CTT
948931 GAATCAGCAC
Statistics
Matches: 31, Mismatches: 10, Indels: 10
0.61 0.20 0.20
Matches are distributed among these distances:
19 2 0.06
20 5 0.16
21 7 0.23
22 10 0.32
23 5 0.16
24 2 0.06
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:949002 original size:92 final size:92
Alignment explanation
Indices: 948863--949496 Score: 1003
Period size: 92 Copynumber: 7.0 Consensus size: 92
948853 GCACCTTCAT
* * *
948863 CTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA-C-----CTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
948922 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
948949 CTTTAAGTCCAATATAGCTGGCCTTGAAAT-AGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTG-AATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
949013 AGCTGGCCTTGAATCAGCACATTGGCAC
65 AGCTGGCCTTGAATCAGCACATTGGCAC
* ** *
949041 ATCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
949106 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
949133 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
949198 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
949225 CTTTAAG-CCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
949289 AGCTGGCCTTGAATCAGCACATTGGCAC
65 AGCTGGCCTTGAATCAGCACATTGGCAC
* *
949317 CTTTAAGT-CAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
949381 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
949408 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCACATTGGCA-C----T-TTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
949467 GCTGGCCTTGAATCAGCA-ATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
949493 CTTT
1 CTTT
949497 TCCATCTTTA
Statistics
Matches: 521, Mismatches: 16, Indels: 23
0.93 0.03 0.04
Matches are distributed among these distances:
85 12 0.02
86 68 0.13
87 5 0.01
91 93 0.18
92 343 0.66
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:949528 original size:51 final size:55
Alignment explanation
Indices: 949452--949571 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 55
949442 CATTGGCACT
* *
949452 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCA-ATTGGCA-C-CTTTTC-CATC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGACATCTCTTTTCTCATC
* * *
949503 TTTAAGTTCAATGTAGCTGACCTTGAATCAGCACATTGACATCTTTTTTCTCATC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGACATCTCTTTTCTCATC
*
949558 TTTAAGCCCAATAT
1 TTTAAGTCCAATAT
949572 CGTTGGCCGT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
51 30 0.53
52 6 0.11
53 1 0.02
54 5 0.09
55 15 0.26
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (55 bp):
TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGACATCTCTTTTCTCATC
Found at i:949585 original size:55 final size:53
Alignment explanation
Indices: 949452--949603 Score: 173
Period size: 55 Copynumber: 2.8 Consensus size: 53
949442 CATTGGCACT
*
949452 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCAATTGGCA-C-CTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCAATTGGCATCTTTTTTCCATC
* * * *
949503 TTTAAGTTCAATGTAGCTGACCTTGAATCAGCACATTGACATCTTTTTTCTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCA-ATTGGCATCTTTTTTC-CATC
* * * * *
949558 TTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCA-ATTGGCATCTTT
949604 ATCACTTTTC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
51 30 0.37
52 6 0.07
53 1 0.01
54 5 0.06
55 40 0.49
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (53 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCAATTGGCATCTTTTTTCCATC
Found at i:949714 original size:49 final size:49
Alignment explanation
Indices: 949618--949715 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
949608 CTTTTCTCAT
* *
949618 CTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCAGGCCTTGAATCAGCACAGTGGCAC
* * * *
949667 CTTCATCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCATAGTGGCAC
1 CTTCATCTTTAAGTCCAATGTCGCAGGCCTTGAATCAGCACAGTGGCAC
949716 ACTGCAAGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (49 bp):
CTTCATCTTTAAGTCCAATGTCGCAGGCCTTGAATCAGCACAGTGGCAC
Found at i:950293 original size:32 final size:32
Alignment explanation
Indices: 950238--950338 Score: 148
Period size: 32 Copynumber: 3.1 Consensus size: 32
950228 TTCAACGATT
*
950238 TGTATCAATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACA-AAAGTGTTGTATCGATACAA
*
950271 TGTATCGATACACAAGTGTTGTATCGATACAA
1 TGTATCGATACAAAAGTGTTGTATCGATACAA
* * *
950303 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACAAAAGTGTTGTATCGATACAA
950335 TGTA
1 TGTA
950339 AGCTACTGCC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 52 0.83
33 11 0.17
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACAAAAGTGTTGTATCGATACAA
Found at i:950327 original size:19 final size:17
Alignment explanation
Indices: 950236--950331 Score: 64
Period size: 13 Copynumber: 5.7 Consensus size: 17
950226 ATTTCAACGA
*
950236 TTTGTATCAATACATAAAG
1 TTTGTATCGATAC--AAAG
950255 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACAAAG
950271 --TGTATCGATACACAAG
1 TTTGTATCGATACA-AAG
950287 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACAAAG
950303 --TGTATCGATACATAAG
1 TTTGTATCGATACA-AAG
950319 TTTTGTATCGATA
1 -TTTGTATCGATA
950332 TAATGTAAGC
Statistics
Matches: 63, Mismatches: 1, Indels: 26
0.70 0.01 0.29
Matches are distributed among these distances:
13 22 0.35
15 4 0.06
17 4 0.06
19 22 0.35
20 11 0.17
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (17 bp):
TTTGTATCGATACAAAG
Found at i:950394 original size:13 final size:13
Alignment explanation
Indices: 950376--950400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
950366 ATTACTCAAA
950376 TGTATCGATACAT
1 TGTATCGATACAT
950389 TGTATCGATACA
1 TGTATCGATACA
950401 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:950465 original size:52 final size:52
Alignment explanation
Indices: 950409--950533 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
950399 CACTGATCTT
*
950409 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTAACGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACACTATAAAA
*
950461 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACACTATAAAA
*
950513 AGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
950534 TTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTAACGATACACTATAAAA
Found at i:953907 original size:21 final size:21
Alignment explanation
Indices: 953865--953914 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
953855 TTTTACCAAG
*
953865 ATGTATCAATACATGCCTTTA
1 ATGTATCAATACAGGCCTTTA
*
953886 ATGTATCAATACAAGGTC-TTA
1 ATGTATCAATAC-AGGCCTTTA
953907 ATG-ATCAA
1 ATGTATCAA
953915 AAATTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 18 0.69
22 3 0.12
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (21 bp):
ATGTATCAATACAGGCCTTTA
Found at i:953961 original size:21 final size:21
Alignment explanation
Indices: 953935--954031 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
953925 TTCTACAATT
*
953935 TGTATCGATACAAACAGT-AAA
1 TGTATCGATACAAAC-CTAAAA
* *
953956 TGTATCGATACATAA-GT-GAA
1 TGTATCGATACA-AACCTAAAA
* **
953976 TGTATTGATACATGCCTAAAA
1 TGTATCGATACAAACCTAAAA
*
953997 TATATCGATACAAACCTAAAA
1 TGTATCGATACAAACCTAAAA
*
954018 TATATCGATACAAA
1 TGTATCGATACAAA
954032 ACCATCCTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
20 16 0.25
21 45 0.71
22 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.28
Consensus pattern (21 bp):
TGTATCGATACAAACCTAAAA
Found at i:953979 original size:20 final size:21
Alignment explanation
Indices: 953935--953988 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
953925 TTCTACAATT
*
953935 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATACAGTAAA
*
953956 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
*
953976 TGTATTGATACAT
1 TGTATCGATACAT
953989 GCCTAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:954077 original size:20 final size:20
Alignment explanation
Indices: 954049--954089 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
954039 TACATACTGT
954049 TAAGGAAATGTATCGATACA
1 TAAGGAAATGTATCGATACA
*
954069 TAAGTAAATGTATCGATACA
1 TAAGGAAATGTATCGATACA
954089 T
1 T
954090 GCTTACAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
TAAGGAAATGTATCGATACA
Found at i:956626 original size:79 final size:77
Alignment explanation
Indices: 956479--957038 Score: 333
Period size: 79 Copynumber: 7.2 Consensus size: 77
956469 TTCATTGATT
* **
956479 TTTTTCATTTTCAAAATAT-GATTTTTTCACCATC-GAGGATACTCCAATCCCGTTGTTTCCGAG
1 TTTTT-ATTTTCAAAATATCGA--TTTTCACCATCAG-GGATACTCCAA-CCCGTTATTTTTGAG
* *
956542 GGGATACTCCAATCCTG
61 AGGATACTCCAACCCTG
*
956559 TTTTTATTTTCGAAATATCGATTCTTCACCATCAGGGATACTCCAACCTCGTTATTTTTGAGAGG
1 TTTTTATTTTCAAAATATCGATT-TTCACCATCAGGGATACTCCAACC-CGTTATTTTTGAGAGG
956624 ATACTCCAACCCCT-
64 ATACTCCAA-CCCTG
* * * * * * *
956638 TTTCTATTTCCAAAATATCAATTTTCACCATCGGGGTTACTCCAACCCTGTTATTTTTTATAGGA
1 TTTTTATTTTCAAAATATCGATTTTCACCATCAGGGATACTCCAACCC-GTTATTTTTGAGAGGA
** *
956703 TACTATAACCCCG
65 TACTCCAACCCTG
* ** * *
956716 TTTTTA-TTTCTAAAATATCGATTTTTCATCATTGGGGATACTACAACCCCGTTATTTTTGAGGG
1 TTTTTATTTTC-AAAATATCGA-TTTTCACCATCAGGGATACTCCAA-CCCGTTATTTTTGAGAG
* * **
956780 GGTATTCCAACCCCA
63 GATACTCCAACCCTG
* * ** * * *
956795 TTTTCATTTTCTAAATATTAAATTTT--TC-TCAAGGATACTCAAACCCTGTTATTTTTGAG-GG
1 TTTTTATTTTCAAAATA-TCGATTTTCACCATCAGGGATACTCCAACCC-GTTATTTTTGAGAGG
* *
956856 ATACTCTAACCTTG
64 ATACTCCAACCCTG
** * * * * * * * *
956870 TTTTTATTTTCAAAATATTAAAATTTTCATC-TTAGGGATACTCCAACCCCATCAATTATAAGGG
1 TTTTTATTTTCAAAATA-T-CGATTTTCACCATCAGGGATACTCCAA-CCCGTTATTTTTGAGAG
956934 GATACTCCAA-CCTCG
63 GATACTCCAACCCT-G
** *** * *
956949 TTTTTA-TTTCTAAAATATTAATTTT--TTTTC-GAGGATACTCCAACCCCATTATTTATGAGAG
1 TTTTTATTTTC-AAAATATCGATTTTCACCATCAG-GGATACTCCAA-CCCGTTATTTTTGAGAG
* *
957010 GATACTCTAA-TCTCG
63 GATACTCCAACCCT-G
957025 TTTTTA-TTTCAAAA
1 TTTTTATTTTCAAAA
957039 ATATTAAAAT
Statistics
Matches: 390, Mismatches: 68, Indels: 49
0.77 0.13 0.10
Matches are distributed among these distances:
75 36 0.09
76 78 0.20
77 15 0.04
78 88 0.23
79 153 0.39
80 20 0.05
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (77 bp):
TTTTTATTTTCAAAATATCGATTTTCACCATCAGGGATACTCCAACCCGTTATTTTTGAGAGGAT
ACTCCAACCCTG
Found at i:956894 original size:76 final size:76
Alignment explanation
Indices: 956751--957071 Score: 272
Period size: 76 Copynumber: 4.2 Consensus size: 76
956741 TCATCATTGG
* * * * * * * *
956751 GGATACT-ACAACCCCGTTATTTTTGAGGGGGTATTCCAACCCCATTTTCATTTTC-TAAATATT
1 GGATACTCA-AACCCCATTATTTATGAGGGGATACTCCAACCTCGTTTTTA-TTTCAAAAATATT
956814 AAATTTTTCTCAA
64 AAATTTTTCTCAA
** * * *
956827 GGATACTCAAACCCTGTTATTTTTGA-GGGATACTCTAACCTTGTTTTTATTTTC-AAAATATTA
1 GGATACTCAAACCCCATTATTTATGAGGGGATACTCCAACCTCGTTTTTA-TTTCAAAAATATT-
* *
956890 AAATTTTCATCTTAG
64 AAATTTT--TCTCAA
* * * * *
956905 GGATACTCCAACCCCATCAATTATAAGGGGATACTCCAACCTCGTTTTTATTTCTAAAATATTAA
1 GGATACTCAAACCCCATTATTTATGAGGGGATACTCCAACCTCGTTTTTATTTCAAAAATATTAA
* * *
956970 TTTTTTTTCGA
66 ATTTTTCTCAA
* * * *
956981 GGATACTCCAACCCCATTATTTATGAGAGGATACTCTAATCTCGTTTTTATTTCAAAAATATTAA
1 GGATACTCAAACCCCATTATTTATGAGGGGATACTCCAACCTCGTTTTTATTTCAAAAATATTAA
* *
957046 AATTTTCATCTTA
66 ATTTTTC-TC-AA
*
957059 GGATACTCCAACC
1 GGATACTCAAACC
957072 ATGTATTCCG
Statistics
Matches: 201, Mismatches: 36, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
75 28 0.14
76 94 0.47
77 3 0.01
78 47 0.23
79 29 0.14
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (76 bp):
GGATACTCAAACCCCATTATTTATGAGGGGATACTCCAACCTCGTTTTTATTTCAAAAATATTAA
ATTTTTCTCAA
Found at i:956910 original size:154 final size:153
Alignment explanation
Indices: 956592--957071 Score: 502
Period size: 154 Copynumber: 3.1 Consensus size: 153
956582 CTTCACCATC
* * * *
956592 AGGGATACTCCAACCTCGTTATTTTTGAGAGGATACTCCAACCCCTTTTCTATTTCCAAAATA-T
1 AGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCTTTTC-ATTTTCTAAATATT
* * * * * * * *
956656 CAATTTTCACCATCGGGGTTACTCCAACCCTGTTATTTTTTATAGGATACTATAACCCCGTTTTT
65 AAATTTT--TC-TCGAGGATACTCCAACCCTGTTATTTTTGA-GGGATACTCTAACCTCGTTTTT
* ** *
956721 ATTTCTAAAATA-TCGATTTTTCATCATT
126 ATTTCAAAAATATTAAAATTTTCATC-TT
* * * *
956749 GGGGATACTACAACCCCGTTATTTTTGAGGGGGTATTCCAACCCCATTTTCATTTTCTAAATATT
1 AGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCC-TTTTCATTTTCTAAATATT
* * *
956814 AAATTTTTCTCAAGGATACTCAAACCCTGTTATTTTTGAGGGATACTCTAACCTTGTTTTTATTT
65 AAATTTTTCTCGAGGATACTCCAACCCTGTTATTTTTGAGGGATACTCTAACCTCGTTTTTA-TT
956879 TC-AAAATATTAAAATTTTCATCTT
129 TCAAAAATATTAAAATTTTCATCTT
* * * * * * *
956903 AGGGATACTCCAACCCCATCAATTATAAGGGGATACTCCAACCTCGTTTTTA-TTTCTAAAATAT
1 AGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACC-CCTTTTCATTTTCT-AAATAT
* * ** * *
956967 TAATTTTTTTTCGAGGATACTCCAACCCCATTATTTATGAGAGGATACTCTAATCTCGTTTTTAT
64 TAAATTTTTCTCGAGGATACTCCAACCCTGTTATTTTTGAG-GGATACTCTAACCTCGTTTTTAT
957032 TTCAAAAATATTAAAATTTTCATCTT
128 TTCAAAAATATTAAAATTTTCATCTT
957058 A-GGATACTCCAACC
1 AGGGATACTCCAACC
957072 ATGTATTCCG
Statistics
Matches: 273, Mismatches: 42, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
153 5 0.02
154 123 0.45
155 83 0.30
156 1 0.00
157 49 0.18
158 12 0.04
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (153 bp):
AGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCTTTTCATTTTCTAAATATTA
AATTTTTCTCGAGGATACTCCAACCCTGTTATTTTTGAGGGATACTCTAACCTCGTTTTTATTTC
AAAAATATTAAAATTTTCATCTT
Found at i:960924 original size:13 final size:13
Alignment explanation
Indices: 960906--960932 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
960896 ACATAAAGTG
960906 TTGTATCGATACA
1 TTGTATCGATACA
960919 TTGTATCGATACA
1 TTGTATCGATACA
960932 T
1 T
960933 AAGTGTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:960942 original size:32 final size:33
Alignment explanation
Indices: 960886--960955 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 33
960876 TTTCAACGAT
960886 TTGTATCGATACATAAAGTGTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
960919 TTGTATCGATACAT-AAGTGTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
*
960951 ATGTA
1 TTGTA
960956 AGCTACTGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.61
33 14 0.39
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATAAAGTGTTGTATCGATACA
Found at i:961011 original size:13 final size:12
Alignment explanation
Indices: 960971--961051 Score: 70
Period size: 13 Copynumber: 7.1 Consensus size: 12
960961 CTGCCAAAAA
960971 ATGTATCGATAC
1 ATGTATCGATAC
960983 AT-TACTC-A-A-
1 ATGTA-TCGATAC
960992 ATGTATCGATAC
1 ATGTATCGATAC
961004 ATTGTATCGATAC
1 A-TGTATCGATAC
961017 AT-TACTC-A-A-
1 ATGTA-TCGATAC
961026 ATGTATCGATAC
1 ATGTATCGATAC
961038 ATTGTATCGATAC
1 A-TGTATCGATAC
961051 A
1 A
961052 CTGATTTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 23
0.71 0.00 0.29
Matches are distributed among these distances:
9 8 0.14
10 8 0.14
11 8 0.14
12 9 0.16
13 24 0.42
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:961015 original size:34 final size:34
Alignment explanation
Indices: 960972--961051 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
960962 TGCCAAAAAA
960972 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
961006 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
961040 TGTATCGATACA
1 TGTATCGATACA
961052 CTGATTTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Done.