Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 172 of 325
Found at i:54123487 original size:40 final size:40
Alignment explanation
Indices: 54123296--54123480 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
54123286 TCGAATGATG
* * * *
54123296 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
54123336 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
54123376 TTCGGTCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54123415 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54123456 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54123481 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54123513 original size:79 final size:79
Alignment explanation
Indices: 54123349--54123505 Score: 176
Period size: 79 Copynumber: 2.0 Consensus size: 79
54123339 GGACTAAGAT
** * **
54123349 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGTCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
54123414 ATCCGGGTTAAGTC
66 ATCCGGATTAAATC
* *
54123428 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
54123491 TATATCC-GATTAAAT
63 TAAATCCGGATTAAAT
54123506 TTCGAAGGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGATTAAATC
Found at i:54134686 original size:34 final size:34
Alignment explanation
Indices: 54134643--54134707 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
54134633 AGTATTAGTG
* *
54134643 TGGGTCTTAGCCCA-TAGCAGTAGTAGTATCAATA
1 TGGGCCTTAGCCCATTA-CAGTAATAGTATCAATA
54134677 TGGGCCTTAGCCCATTACAGTAATAGTATCA
1 TGGGCCTTAGCCCATTACAGTAATAGTATCA
54134708 GTAATGCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAGTAATAGTATCAATA
Found at i:54134768 original size:22 final size:23
Alignment explanation
Indices: 54134729--54134771 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
54134719 GAAGTCCTAC
*
54134729 CCGTCCATCCTCTACACTCCACT
1 CCGTCCAGCCTCTACACTCCACT
54134752 CCGTCCAGCC-CTACACTCCA
1 CCGTCCAGCCTCTACACTCCA
54134772 TATGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.19, C:0.53, G:0.07, T:0.21
Consensus pattern (23 bp):
CCGTCCAGCCTCTACACTCCACT
Found at i:54136576 original size:486 final size:486
Alignment explanation
Indices: 54135658--54136629 Score: 1588
Period size: 486 Copynumber: 2.0 Consensus size: 486
54135648 TCTCATACCC
* *
54135658 AACCAAACATCTAACCACAGAAGCAAACAGATATTTACCACACATGCATACAATTTCTATATTCA
1 AACCAAACATCTAACCACAAAAGCAAACAGATATTTACCACACATGCAAACAATTTCTATATTCA
* * * * *
54135723 AACATTACATCCAAACAAAATATACACCTGACTTAAAAGGAATTGTGCAATCCTGAACCCGATGC
66 AACATCACATCCAAACAAAACACACACCTGACTTAAAAGGAACTGTGCAATCCCGAACCCGATGC
*
54135788 TCCTTAGACCCGCATCTGAGACACGCTATTGACTTCCTCTAGCATTCACCCCAGATGGCACCTTT
131 TCCTTAGACCCGCATCTGAGACACGCTATTGACTTCCTCCAGCATTCACCCCAGATGGCACCTTT
* *
54135853 TGCAGCACTAGCAAGTCGAAAAGTTAAGGCGTGTCTTAACGCATTTCAAAAAACGAGGCTCCTGC
196 TGCAGCACTAGCAAGCCGAAAAGTTAAGGCGTGTCTTAACACATTTCAAAAAACGAGGCTCCTGC
* *
54135918 TTTAGAGGACTGTGATCCCTCTTCTTGCTGCACTCCAAGCGCCTAGCCTGAAGTGTTTCACAATA
261 TTCAGAGGACTGTAATCCCTCTTCTTGCTGCACTCCAAGCGCCTAGCCTGAAGTGTTTCACAATA
*
54135983 CGCCTTAACTCTTGCCTCGAACACTTCTTGCAGTACTTCCCTCACCAACCGGGTCAGTGCCTCTG
326 CGCCTTAACTCTTGCCTCGAACACTTCTTGCAGCACTTCCCTCACCAACCGGGTCAGTGCCTCTG
** *
54136048 TACCAAGCTCTAGGTTATTGTTACCTGAAGTTAGCAGACTTACCTTGACTATAGTTTCTTGAACC
391 TACCAAGCTCTAGGTTATTGTTACCCAAAGTTAGCAGACTTACCTTGACTACAGTTTCTTGAACC
*
54136113 ATCTCATGTTTCGGGGAGACGAGA-AACTCCT
456 ATCTCATGTTCCGGGGAGACGA-ACAACTCCT
*
54136144 AACCAAACATCTAACCACAAAAGCAAATAGATATTTACCACACATGCAAACAATTTCTATATTCA
1 AACCAAACATCTAACCACAAAAGCAAACAGATATTTACCACACATGCAAACAATTTCTATATTCA
*
54136209 AACATCACATCCAAA-AAACACACACACTTGACTTAAAAGGAACTGTGCAATCCCGAACCCGATG
66 AACATCACATCCAAACAAA-ACACACACCTGACTTAAAAGGAACTGTGCAATCCCGAACCCGATG
* * * *
54136273 CTCCTTAGACCTGCATCTGAGACACGCTCTTGACTTCCTCCAGCATTCGCCCCAGATGGCGCCTT
130 CTCCTTAGACCCGCATCTGAGACACGCTATTGACTTCCTCCAGCATTCACCCCAGATGGCACCTT
* * ** * *
54136338 TTGCAGCACTCGCAAGCCGAAACGTTTGGGCGTGTCTTAACACATTTCACAGAACGAGGCTCCTG
195 TTGCAGCACTAGCAAGCCGAAAAGTTAAGGCGTGTCTTAACACATTTCAAAAAACGAGGCTCCTG
*
54136403 CTTCAGAGGACTGTAATCCCTCTTCTTGCTGCACTCCAAGTGCCTAGCCTGAAGTGTTTCACAAT
260 CTTCAGAGGACTGTAATCCCTCTTCTTGCTGCACTCCAAGCGCCTAGCCTGAAGTGTTTCACAAT
* *
54136468 ACGCCTTAACTCTTGCCTCGAACACTTCTTTCAGCACTTCCCTTACCAACCGGGTCAGTGCCTCT
325 ACGCCTTAACTCTTGCCTCGAACACTTCTTGCAGCACTTCCCTCACCAACCGGGTCAGTGCCTCT
* * **
54136533 GTACCAAGCTCTGGGTTATTGTTACCCAAAGTTGGTGGACTTACCTTGACTACAGTTTCTTGAAC
390 GTACCAAGCTCTAGGTTATTGTTACCCAAAGTTAGCAGACTTACCTTGACTACAGTTTCTTGAAC
54136598 CATCTCATGTTCCGGGGAGACGAACAACTCCT
455 CATCTCATGTTCCGGGGAGACGAACAACTCCT
54136630 TGCAACCTTG
Statistics
Matches: 448, Mismatches: 36, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
485 4 0.01
486 444 0.99
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (486 bp):
AACCAAACATCTAACCACAAAAGCAAACAGATATTTACCACACATGCAAACAATTTCTATATTCA
AACATCACATCCAAACAAAACACACACCTGACTTAAAAGGAACTGTGCAATCCCGAACCCGATGC
TCCTTAGACCCGCATCTGAGACACGCTATTGACTTCCTCCAGCATTCACCCCAGATGGCACCTTT
TGCAGCACTAGCAAGCCGAAAAGTTAAGGCGTGTCTTAACACATTTCAAAAAACGAGGCTCCTGC
TTCAGAGGACTGTAATCCCTCTTCTTGCTGCACTCCAAGCGCCTAGCCTGAAGTGTTTCACAATA
CGCCTTAACTCTTGCCTCGAACACTTCTTGCAGCACTTCCCTCACCAACCGGGTCAGTGCCTCTG
TACCAAGCTCTAGGTTATTGTTACCCAAAGTTAGCAGACTTACCTTGACTACAGTTTCTTGAACC
ATCTCATGTTCCGGGGAGACGAACAACTCCT
Found at i:54138284 original size:40 final size:41
Alignment explanation
Indices: 54138169--54138291 Score: 194
Period size: 41 Copynumber: 3.0 Consensus size: 41
54138159 TAAAACGAAC
*
54138169 TGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
1 TGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
*
54138210 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
1 TGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
** *
54138251 TGGTGGATCCACGACCGT-AAGCAGCCATGCGATCCTCAAT
1 TGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
54138291 T
1 T
54138292 TCTTCCTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 22 0.29
41 54 0.71
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (41 bp):
TGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:54138579 original size:27 final size:27
Alignment explanation
Indices: 54138547--54138860 Score: 194
Period size: 27 Copynumber: 11.7 Consensus size: 27
54138537 TTGGTAAATA
*
54138547 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
54138574 TGCAAACCAATGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTTC-GATAATTT
** *
54138601 TTGAAAGTCAAGGGTATTTCTG-TAATTC
1 TACAAA-TCAAGGGTATTTC-GATAATTT
** * *
54138629 TGTAAATCAGGGGTATTTTTG-TAATTT
1 TACAAATCAAGGGTA-TTTCGATAATTT
** *
54138656 TTTAAAACAAGGGTA-TTC-AGTAATTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
* * * * *
54138682 TCCAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
*
54138709 TACAAATCGAGGGTATTTC-AGTAATTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
* * *
54138736 TACAAGTCGAGGGTATTTTGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * * *
54138763 CACAAAT-TAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* *
54138789 TACAAATCGAGGGTATTT-TAGTAATTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
* * *
54138816 TACAAATCGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
54138843 CACAAACCAGGGGTATTT
1 TACAAATCAAGGGTATTT
54138861 AGTAATATTA
Statistics
Matches: 230, Mismatches: 45, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.01
26 39 0.17
27 162 0.70
28 27 0.12
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:54138644 original size:55 final size:53
Alignment explanation
Indices: 54138549--54138866 Score: 250
Period size: 53 Copynumber: 5.9 Consensus size: 53
54138539 GGTAAATATA
* * **
54138549 CAAACCAAGGGTATTTC-GATAATTTTGCAAACCAATGGTATTTCTGTAATTTTT
1 CAAATCAAGGGTATTTCAG-TAATTTTGCAAATCAGGGGTATTT-TGTAATTTTT
* * * *
54138603 GAAAGTCAAGGGTATTTCTGTAATTCTGTAAATCAGGGGTATTTTTGTAATTTTT
1 CAAA-TCAAGGGTATTTCAGTAATTTTGCAAATCAGGGGTA-TTTTGTAATTTTT
* * * * *
54138658 TAAAACAAGGGTA-TTCAGTAATTTTCCAAATTAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCAGTAATTTTGCAAATCAGGGGTATTTT-GTAATTTTT
* * * **
54138711 CAAATCGAGGGTATTTCAGTAATTTTACAAGTC-GAGGGTATTTTGATAATTTCA
1 CAAATCAAGGGTATTTCAGTAATTTTGCAAATCAG-GGGTATTTTG-TAATTTTT
* ** * *
54138765 CAAAT-TAGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTTTAGTAATTTTA
1 CAAATCAAGGGTATTTCAGTAATTTTGCAAATCAG-GGGTATTTT-GTAATTTTT
* ** ** * *
54138818 CAAATCGAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTAGTAAT
1 CAAATCAAGGGTATTTCAGTAATTTTGCAAATCAGGGGTATTTTGTAAT
54138867 ATTAGTAAAT
Statistics
Matches: 223, Mismatches: 31, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
52 4 0.02
53 92 0.41
54 81 0.36
55 42 0.19
56 4 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
CAAATCAAGGGTATTTCAGTAATTTTGCAAATCAGGGGTATTTTGTAATTTTT
Found at i:54138723 original size:80 final size:80
Alignment explanation
Indices: 54138639--54138848 Score: 262
Period size: 80 Copynumber: 2.6 Consensus size: 80
54138629 TGTAAATCAG
* **
54138639 GGGTATTTTTGTAATTTTTTAAAACAAGGGTATTCAG-TAATTTTC-CAAATTAGGGGTATTTTG
1 GGGTATTTTAGTAATTTTACAAAACAAGGGTATTCAGATAA-TTTCACAAATTA-GGGTATTTTG
54138702 GTAATTTTACAAATCGA
64 GTAATTTTACAAATCGA
* ** * **
54138719 GGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTTGATAATTTCACAAATTAGGGTATTTTGGT
1 GGGTATTTTAGTAATTTTACAAAACAAGGGTATTCAGATAATTTCACAAATTAGGGTATTTTGGT
54138784 AATTTTACAAATCGA
66 AATTTTACAAATCGA
* * ** *
54138799 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTCACAAA
1 GGGTATTTTAGTAATTTTACAAAACAAGGGTATTCAGATAATTTCACAAA
54138849 CCAGGGGTAT
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 106 0.91
81 10 0.09
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTTACAAAACAAGGGTATTCAGATAATTTCACAAATTAGGGTATTTTGGT
AATTTTACAAATCGA
Found at i:54138866 original size:80 final size:81
Alignment explanation
Indices: 54138690--54138860 Score: 290
Period size: 80 Copynumber: 2.1 Consensus size: 81
54138680 TTTCCAAATT
*
54138690 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTT
**
54138755 GATAATTTCACAAATT
66 GATAATTTCACAAACC
*
54138771 A-GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTT
*
54138835 GGTAATTTCACAAACC
66 GATAATTTCACAAACC
54138851 AGGGGTATTT
1 AGGGGTATTT
54138861 AGTAATATTA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
80 75 0.89
81 9 0.11
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTT
GATAATTTCACAAACC
Found at i:54140011 original size:27 final size:27
Alignment explanation
Indices: 54139988--54140060 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
54139978 TATTACACAG
* *
54139988 GGGCAAAACAATTATTTTACTACATAA
1 GGGCAAAACAGTCATTTTACTACATAA
*
54140015 GGGCAAAACAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACTACATAA
54140042 GGGCAAAACAGTCATTTTA
1 GGGCAAAACAGTCATTTTA
54140061 TCAATTAGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACTACATAA
Found at i:54142745 original size:20 final size:20
Alignment explanation
Indices: 54142707--54142747 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
54142697 AGAACATGTA
*
54142707 TTCATAAAAGTTTAGAATTT
1 TTCATAAAAGTTTACAATTT
54142727 TTCATAAAA-TTTCACAATTT
1 TTCATAAAAGTTT-ACAATTT
54142747 T
1 T
54142748 ACATTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (20 bp):
TTCATAAAAGTTTACAATTT
Found at i:54145826 original size:17 final size:18
Alignment explanation
Indices: 54145804--54145837 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54145794 TCACATTGTA
54145804 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
54145821 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
54145838 CCTTATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:54146938 original size:29 final size:29
Alignment explanation
Indices: 54146905--54146976 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
54146895 ACTTATTCAA
* * * *
54146905 ATGGCCCATTTGGCCCAGTTCATATTCTT
1 ATGGCCCATTAGGCCCAATTCACATTCGT
*
54146934 ATGGCCCACTAGGCCCAATTCACATTCGT
1 ATGGCCCATTAGGCCCAATTCACATTCGT
54146963 ATGGCCCATTAGGC
1 ATGGCCCATTAGGC
54146977 TCGAATCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAATTCACATTCGT
Found at i:54147094 original size:19 final size:18
Alignment explanation
Indices: 54147061--54147097 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
54147051 TAGGCCCAAC
54147061 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
54147079 AGCCCATTCTGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
54147098 GGCAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.38, G:0.16, T:0.27
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:54151435 original size:29 final size:29
Alignment explanation
Indices: 54151363--54151475 Score: 104
Period size: 29 Copynumber: 3.9 Consensus size: 29
54151353 CATACATGCA
* * * *
54151363 TATGACCCACTAGGCTCAA-TCTTATTCA
1 TATGGCCCACTAGGCCCAATTCATATTCT
* * *
54151391 AATGGCCTATCT-GGCCCAGTTCATATTCT
1 TATGGCCCA-CTAGGCCCAATTCATATTCT
* *
54151420 TATGGCCCACTAGGCCCAATTCACATTTT
1 TATGGCCCACTAGGCCCAATTCATATTCT
* *
54151449 TATGGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAATTCATATT
54151476 ATATTCATGC
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 13 0.19
29 54 0.81
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (29 bp):
TATGGCCCACTAGGCCCAATTCATATTCT
Found at i:54152261 original size:51 final size:51
Alignment explanation
Indices: 54152201--54152302 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
54152191 ACACTAGATT
* **
54152201 TGACCAAAGTAGAAGGAGTAGTGATTGCACTAAGGGTATTTGGCCAAAGAG
1 TGACCAAAGTAGAAGGAGTAGTGATTGCACCAAGGGTATTCAGCCAAAGAG
54152252 TGACCAAAGTAGAAGGAGTAGTGATTGCACCAAGGGTATTCAGCCAAAGAG
1 TGACCAAAGTAGAAGGAGTAGTGATTGCACCAAGGGTATTCAGCCAAAGAG
54152303 GTTCGGCCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (51 bp):
TGACCAAAGTAGAAGGAGTAGTGATTGCACCAAGGGTATTCAGCCAAAGAG
Found at i:54153018 original size:16 final size:16
Alignment explanation
Indices: 54152997--54153029 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54152987 AAAAATTCAA
54152997 GATTTTGAGATTTTTG
1 GATTTTGAGATTTTTG
*
54153013 GATTTTGGGATTTTTG
1 GATTTTGAGATTTTTG
54153029 G
1 G
54153030 GGCGTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (16 bp):
GATTTTGAGATTTTTG
Found at i:54159931 original size:14 final size:14
Alignment explanation
Indices: 54159912--54159940 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
54159902 AAAATGTGAA
54159912 TCGATTCTTCTTCG
1 TCGATTCTTCTTCG
54159926 TCGATTCTTCTTCG
1 TCGATTCTTCTTCG
54159940 T
1 T
54159941 AGGTCATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.28, G:0.14, T:0.52
Consensus pattern (14 bp):
TCGATTCTTCTTCG
Found at i:54176907 original size:51 final size:49
Alignment explanation
Indices: 54176848--54176988 Score: 183
Period size: 49 Copynumber: 2.8 Consensus size: 49
54176838 AACTAGGTCG
*
54176848 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCCGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAA-TT-GATCA
* * * * * *
54176899 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAATTGATCA
* *
54176948 CATGTGTATTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATA
54176989 GTTTGGCTAC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 39 0.49
50 2 0.03
51 38 0.48
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAATTGATCA
Found at i:54176983 original size:49 final size:51
Alignment explanation
Indices: 54176843--54176988 Score: 197
Period size: 51 Copynumber: 2.9 Consensus size: 51
54176833 TATGTAACTA
*
54176843 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCCGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAACTTC
* * * * * *
54176894 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAACTTC
* *
54176943 GGTCGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATA
54176989 GTTTGGCTAC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 39 0.48
50 2 0.02
51 41 0.50
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAACTTC
Found at i:54179098 original size:31 final size:31
Alignment explanation
Indices: 54179060--54179123 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
54179050 CCTTTTCATA
54179060 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
54179091 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
54179122 TT
1 TT
54179124 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:54179359 original size:25 final size:24
Alignment explanation
Indices: 54179317--54179413 Score: 126
Period size: 25 Copynumber: 4.0 Consensus size: 24
54179307 GCTTTATCAT
*
54179317 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
54179342 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
54179365 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
54179390 ATAACTGGGGCATAAGCTCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54179414 CACTTCCTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
23 23 0.35
24 8 0.12
25 34 0.52
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54179368 original size:23 final size:23
Alignment explanation
Indices: 54179338--54179411 Score: 121
Period size: 23 Copynumber: 3.1 Consensus size: 23
54179328 CCTAGCCTCT
54179338 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
54179361 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
54179384 TTTATCATAACTGGGGCATAAGCTC
1 TTTA--ATAACTGGGGCATAAGCCC
54179409 TTT
1 TTT
54179412 TACACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 27 0.56
25 21 0.44
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:54179394 original size:48 final size:48
Alignment explanation
Indices: 54179317--54179411 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
54179307 GCTTTATCAT
*
54179317 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTA
* *
54179365 ATAACTGG-GGCATAAGCC-CTTTATCATAACTGGGGCATAAGCTCTTT
1 ATAACTGGAGGCAT-AGCCTCTTT-TAATAACTGGGGCATAAGCCCTTT
54179412 TACACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 8 0.19
48 34 0.81
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (48 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:54179487 original size:20 final size:20
Alignment explanation
Indices: 54179462--54179522 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
54179452 TTATTATTAC
54179462 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
54179482 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
54179502 GTCATGTGCATACCATACAT
1 ATCATGTGCATATCATACAT
54179522 A
1 A
54179523 CCATTTTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:54188351 original size:50 final size:49
Alignment explanation
Indices: 54188225--54188466 Score: 204
Period size: 50 Copynumber: 4.9 Consensus size: 49
54188215 AGCCGAAGCT
* * * * *
54188225 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-TCAAC
1 ATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGACTCAAC
* * * * *
54188273 AATCCGGTACAGGTAGTAGCC-AGCACTTAGTACTACAGACGTGACCTCATC
1 -ATCTGATACACGTAGTAGCCTA-CACTTAGTACTACACACGTGA-CTCAAC
* *
54188324 ATCTGATACACGTAGTAGCCTACACTTAATACTACATACGTGA-TCGAAGTC
1 ATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGACTC-AA--C
* * * * * * *
54188375 AT-TGAGTACGCATAGTAGCCTGCACTTGGTACTACACATGCGACTTAAC
1 ATCTGA-TACACGTAGTAGCCTACACTTAGTACTACACACGTGACTCAAC
*
54188424 AGTATGATACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTG
54188467 TATTCACAAT
Statistics
Matches: 151, Mismatches: 31, Indels: 21
0.74 0.15 0.10
Matches are distributed among these distances:
48 2 0.01
49 36 0.24
50 70 0.46
51 42 0.28
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGACTCAAC
Found at i:54194922 original size:50 final size:50
Alignment explanation
Indices: 54194807--54195048 Score: 235
Period size: 50 Copynumber: 4.8 Consensus size: 50
54194797 AGCCGAAGCT
**
54194807 ATCTGATATGCATAGTAGCCTGCACTTAGTACTACACA--TG-CGCTCAA-C
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGAC-CT-AATC
* * * * *
54194855 AATCTGGTACACGTAGTAACCTTCACTTAGTACTACACACGTGACCTCATC
1 -ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * *
54194906 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TC
* * * *
54194957 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAAT-
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * *
54195006 AGTATGATACACATAGTAGCCTACACTTAGTACTACATACGTG
1 A-TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTG
54195049 TATTCACAGT
Statistics
Matches: 160, Mismatches: 25, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
49 33 0.21
50 79 0.49
51 47 0.29
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
Found at i:54195014 original size:101 final size:99
Alignment explanation
Indices: 54194817--54195048 Score: 263
Period size: 101 Copynumber: 2.3 Consensus size: 99
54194807 ATCTGATATG
* * * * *
54194817 CATAGTAGCCTGCACTTAGTACTACACATGCGCTCAACAATCTGGTACACGTAGTAACCTTCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCAACAATCTGGTACACATAGTAACCTGCACT
* * *
54194882 TAGTACTACACACGTGACCTCATCATCTGATACA
66 TAGTACTACACACGCGACCTAATCATATGATACA
* * *
54194916 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-AT-TGAGTACGCATAGTAGCCTG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATC-AA--CAATCTG-GTACACATAGTAACCTG
* *
54194979 CACTTAGTACTACACATGCGACTTAAT-AGTATGATACA
62 CACTTAGTACTACACACGCGACCTAATCA-TATGATACA
* *
54195017 CATAGTAGCCTACACTTAGTACTACATACGTG
1 CATAGTAGCCTGCACTTAGTACTACACACGTG
54195049 TATTCACAGT
Statistics
Matches: 112, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
99 31 0.28
100 5 0.04
101 75 0.67
102 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATCAACAATCTGGTACACATAGTAACCTGCACT
TAGTACTACACACGCGACCTAATCATATGATACA
Found at i:54196526 original size:24 final size:25
Alignment explanation
Indices: 54196497--54196545 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
54196487 AAAAATTATT
* *
54196497 AATAATTCAAT-AAATTTAAATTTA
1 AATAATTAAATAAAATTCAAATTTA
54196521 AATAATTAAATAAAATTCAAATTTA
1 AATAATTAAATAAAATTCAAATTTA
54196546 GGAGAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (25 bp):
AATAATTAAATAAAATTCAAATTTA
Found at i:54197254 original size:17 final size:16
Alignment explanation
Indices: 54197232--54197272 Score: 59
Period size: 14 Copynumber: 2.6 Consensus size: 16
54197222 GTAAAGTTGA
54197232 TAATAATTAATATATAT
1 TAATAATT-ATATATAT
54197249 TAATAA-T-TATATAT
1 TAATAATTATATATAT
54197263 TAATAATTAT
1 TAATAATTAT
54197273 CATCTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.59
15 1 0.05
16 2 0.09
17 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATAATTATATATAT
Found at i:54197259 original size:14 final size:14
Alignment explanation
Indices: 54197242--54197272 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
54197232 TAATAATTAA
54197242 TATATATTAATAAT
1 TATATATTAATAAT
54197256 TATATATTAATAAT
1 TATATATTAATAAT
54197270 TAT
1 TAT
54197273 CATCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATATTAATAAT
Found at i:54203612 original size:104 final size:103
Alignment explanation
Indices: 54203433--54203654 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
54203423 TGTATATAAA
** * *
54203433 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
54203498 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
54203536 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
54203600 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
54203640 A-GGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
54203655 GATATCCATT
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
103 41 0.37
104 70 0.62
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:54203706 original size:70 final size:72
Alignment explanation
Indices: 54203574--54203724 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
54203564 TCATTGGTGG
* *
54203574 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
54203639 GA-GGGT
66 GAGGGGT
***
54203645 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
54203709 GAGGGGT
66 GAGGGGT
54203716 TGCTAAGTG
1 TGCTAAGTG
54203725 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 31 0.42
71 43 0.58
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:54211087 original size:26 final size:26
Alignment explanation
Indices: 54211052--54211102 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
54211042 AATGTGAAAG
*
54211052 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
54211078 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
54211103 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:54211169 original size:102 final size:103
Alignment explanation
Indices: 54210975--54211195 Score: 358
Period size: 103 Copynumber: 2.2 Consensus size: 103
54210965 TGTATATAAA
** * *
54210975 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
54211040 GAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
54211077 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
54211141 TTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
54211180 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
54211196 GATATCCATT
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
102 47 0.42
103 63 0.57
104 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:54211216 original size:71 final size:71
Alignment explanation
Indices: 54211115--54211265 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
54211105 TCATTGGTGG
* *
54211115 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
54211179 GAGGGGT
65 GAGGGGT
***
54211186 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
54211251 AGGGGT
66 AGGGGT
54211257 TGCTAAGTG
1 TGCTAAGTG
54211266 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 3 0.04
71 71 0.96
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
AGGGGT
Found at i:54213339 original size:24 final size:23
Alignment explanation
Indices: 54213303--54213348 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
54213293 CATATTACCT
*
54213303 TGCTTCAGCTCAAGAAATTCTTTA
1 TGCTTCAGATCAAGAAA-TCTTTA
* *
54213327 TGCTTCTGATCAATAAATCTTT
1 TGCTTCAGATCAAGAAATCTTT
54213349 CACTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (23 bp):
TGCTTCAGATCAAGAAATCTTTA
Found at i:54213834 original size:18 final size:18
Alignment explanation
Indices: 54213813--54213847 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54213803 CAATCGGCGC
54213813 TGCTCCTTCAGCCGGAGT
1 TGCTCCTTCAGCCGGAGT
*
54213831 TGCTCCTTCAGCTGGAG
1 TGCTCCTTCAGCCGGAG
54213848 CTGGTGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.31, G:0.29, T:0.29
Consensus pattern (18 bp):
TGCTCCTTCAGCCGGAGT
Found at i:54215473 original size:91 final size:92
Alignment explanation
Indices: 54215344--54215512 Score: 295
Period size: 91 Copynumber: 1.8 Consensus size: 92
54215334 CCCGCCCAAG
* * *
54215344 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54215409 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
54215436 GAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54215500 CGAGTTCGGATGC
66 CGAGTTCGGATGC
54215513 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 67 0.92
92 6 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:54215509 original size:46 final size:46
Alignment explanation
Indices: 54215344--54215509 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
54215334 CCCGCCCAAG
* * * *
54215344 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * * *
54215390 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACATTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA-TAAGT
54215436 GAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
54215481 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
54215510 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 30 0.30
46 58 0.58
47 6 0.06
48 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:54215528 original size:46 final size:46
Alignment explanation
Indices: 54215344--54215528 Score: 129
Period size: 46 Copynumber: 4.0 Consensus size: 46
54215334 CCCGCCCAAG
* ***
54215344 GAACTCGGACTCAACTCAACGAGCTCGG--GCGT-TTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACCATCC-T-AGT
* *
54215390 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
54215436 GAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
54215481 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
54215527 GA
1 GA
54215529 CATGTCACTT
Statistics
Matches: 111, Mismatches: 12, Indels: 32
0.72 0.08 0.21
Matches are distributed among these distances:
44 10 0.09
45 30 0.27
46 59 0.53
47 5 0.05
48 3 0.03
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:54231131 original size:43 final size:42
Alignment explanation
Indices: 54231041--54231152 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 42
54231031 TGAGATTTCG
* ** *
54231041 TGTAAGACCATATCTGGGATATGGCATCGATATGAGTTTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCTA
* * *
54231083 CGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCTA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCCTA
54231126 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
54231153 TGGTATGGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCTA
Found at i:54231263 original size:20 final size:20
Alignment explanation
Indices: 54231235--54231281 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
54231225 TGACAAAGTT
*
54231235 TAAGTTGTGAATGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
54231255 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
54231275 TAAGTTG
1 TAAGTTG
54231282 CTAGTTGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:54233457 original size:16 final size:17
Alignment explanation
Indices: 54233421--54233458 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
54233411 ATACCCCATT
*
54233421 CACCTATTCATTCAACG
1 CACCTATTCATTCAACA
*
54233438 CACCT-TTCATTCCACA
1 CACCTATTCATTCAACA
54233454 CACCT
1 CACCT
54233459 CTCTCTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.26, C:0.42, G:0.03, T:0.29
Consensus pattern (17 bp):
CACCTATTCATTCAACA
Found at i:54236101 original size:29 final size:26
Alignment explanation
Indices: 54236033--54236088 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
54236023 TTTACATCGT
54236033 TGCTCACACGAGCTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGTC
54236059 TGCTCACACGAGCTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGTC
54236085 TGCT
1 TGCT
54236089 GCTCACACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.25
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGTC
Found at i:54238087 original size:17 final size:17
Alignment explanation
Indices: 54238067--54238101 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
54238057 TGTTTTGAAG
54238067 ATAGTTTTCCACTCATC
1 ATAGTTTTCCACTCATC
54238084 ATAGTTTTCCACTCATC
1 ATAGTTTTCCACTCATC
54238101 A
1 A
54238102 CCTTCTCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.40
Consensus pattern (17 bp):
ATAGTTTTCCACTCATC
Found at i:54238699 original size:6 final size:5
Alignment explanation
Indices: 54238680--54238763 Score: 69
Period size: 5 Copynumber: 15.2 Consensus size: 5
54238670 TTCAAAATCT
* *
54238680 TTTTC TTCTC TTTTC ATTTTC TCTTTC TTTTTCC TTTTC CTTTC TTTTC
1 TTTTC TTTTC TTTTC -TTTTC T-TTTC -TTTT-C TTTTC TTTTC TTTTC
*
54238729 TCTTTC TTTTTC TTTTC TCTTTAT TTTTC TTTTC T
1 T-TTTC -TTTTC TTTTC T-TTT-C TTTTC TTTTC T
54238764 CTCAAACTCT
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
5 31 0.48
6 30 0.46
7 4 0.06
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:54238708 original size:17 final size:16
Alignment explanation
Indices: 54238677--54238765 Score: 80
Period size: 17 Copynumber: 5.6 Consensus size: 16
54238667 TATTTCAAAA
54238677 TCTTTT-TCTTCTCTTT
1 TCTTTTCTCTT-TCTTT
54238693 TCATTTTCTCTTTC--T
1 TC-TTTTCTCTTTCTTT
* *
54238708 T-TTTCCT-TTTCCTT
1 TCTTTTCTCTTTCTTT
54238722 TCTTTTCTCTTTCTTTT
1 TCTTTTCTCTTTC-TTT
*
54238739 TCTTTTCTCTTTATTTT
1 TCTTTTCTCTTT-CTTT
54238756 TCTTTTCTCT
1 TCTTTTCTCT
54238766 CAAACTCTCT
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
12 4 0.07
13 5 0.08
14 2 0.03
15 7 0.11
16 6 0.10
17 33 0.54
18 4 0.07
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTTTTCTCTTTCTTT
Found at i:54238763 original size:28 final size:28
Alignment explanation
Indices: 54238677--54238760 Score: 111
Period size: 28 Copynumber: 3.0 Consensus size: 28
54238667 TATTTCAAAA
*
54238677 TCTTTTTCTTCTCT-TTTCATTTTCTCTT
1 TCTTTTTCTTTTCTCTTT-ATTTTCTCTT
*
54238705 TCTTTTTCCTTTTC-CTTTCTTTTCTCTT
1 TCTTTTT-CTTTTCTCTTTATTTTCTCTT
54238733 TCTTTTTCTTTTCTCTTTATTTT-TCTT
1 TCTTTTTCTTTTCTCTTTATTTTCTCTT
54238760 T
1 T
54238761 TCTCTCAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
27 11 0.22
28 31 0.62
29 8 0.16
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (28 bp):
TCTTTTTCTTTTCTCTTTATTTTCTCTT
Found at i:54240526 original size:36 final size:36
Alignment explanation
Indices: 54240486--54240559 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
54240476 GAGGTACAAG
* *
54240486 TATGTACACGAGCAAGTTATGCTTGTGAGACATTGA
1 TATGTACACGAACAAGTTATGCTTGTGAAACATTGA
54240522 TATGTACACGAACAAGTTATGCTTGTGAAACATTGA
1 TATGTACACGAACAAGTTATGCTTGTGAAACATTGA
54240558 TA
1 TA
54240560 ACCTTGTGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (36 bp):
TATGTACACGAACAAGTTATGCTTGTGAAACATTGA
Found at i:54241688 original size:15 final size:15
Alignment explanation
Indices: 54241668--54241715 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
54241658 TCAAAGATGG
54241668 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
54241683 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
54241697 GTTTATGGATATAAA
1 GTTTATGGATATGAA
54241712 GTTT
1 GTTT
54241716 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:54241702 original size:14 final size:14
Alignment explanation
Indices: 54241662--54241705 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
54241652 AAGGGTTCAA
54241662 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
54241676 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
54241691 AGATGGGTTTATGG
1 AGATGGGTTTATGG
54241705 A
1 A
54241706 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:54241731 original size:29 final size:29
Alignment explanation
Indices: 54241662--54241721 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
54241652 AAGGGTTCAA
*
54241662 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
54241691 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
54241720 AG
1 AG
54241722 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:54259054 original size:40 final size:40
Alignment explanation
Indices: 54258974--54259204 Score: 290
Period size: 40 Copynumber: 5.7 Consensus size: 40
54258964 CTTCCAAACC
* * * *
54258974 CAAATACCTTCGAGATTTAG-CCGGATATAG-CAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCA
* *
54259013 CACATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
*
54259053 CAAATACCTTCGGGACTTAGCCCAGG-TATAG-CAACTACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGATATAGTC-ACTA---GCA
**
54259096 CAAATGCCTTCGGGACTTCTCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
*
54259136 CAAATGCCTTCGGGACTTAGCCCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
54259176 CAAATGCCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
54259205 CATCCGAATA
Statistics
Matches: 168, Mismatches: 15, Indels: 17
0.84 0.08 0.09
Matches are distributed among these distances:
39 16 0.10
40 114 0.68
41 3 0.02
42 2 0.01
43 32 0.19
44 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
Found at i:54259103 original size:83 final size:82
Alignment explanation
Indices: 54258974--54259204 Score: 314
Period size: 83 Copynumber: 2.9 Consensus size: 82
54258964 CTTCCAAACC
* * * *
54258974 CAAATACCTTCGAGATTTAG-CCGGATATAGCA--ACTCGCACACATGCCTTCGGGTCTTAGCCC
1 CAAATACCTTCGGGACTTAGCCCGGATATAGCACTACTCGCACAAATGCCTTCGGGACTTAGCCC
54259036 GGATATAGTCACTAGCA
66 GGATATAGTCACTAGCA
**
54259053 CAAATACCTTCGGGACTTAGCCCAGG-TATAGCAACTACTCGCACAAATGCCTTCGGGACTTCTC
1 CAAATACCTTCGGGACTTAGCCC-GGATATAGC-ACTACTCGCACAAATGCCTTCGGGACTTAGC
54259117 CCGGATATAGTCACTAGCA
64 CCGGATATAGTCACTAGCA
* *
54259136 CAAATGCCTTCGGGACTTAGCCCGGATATGGTCACTA---GCACAAATGCCTTCGGGACTTAGCC
1 CAAATACCTTCGGGACTTAGCCCGGATATAG-CACTACTCGCACAAATGCCTTCGGGACTTAGCC
54259198 CGGATAT
65 CGGATAT
54259205 CATCCGAATA
Statistics
Matches: 135, Mismatches: 10, Indels: 13
0.85 0.06 0.08
Matches are distributed among these distances:
79 18 0.13
80 38 0.28
81 3 0.02
82 2 0.01
83 73 0.54
84 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (82 bp):
CAAATACCTTCGGGACTTAGCCCGGATATAGCACTACTCGCACAAATGCCTTCGGGACTTAGCCC
GGATATAGTCACTAGCA
Found at i:54264269 original size:2 final size:2
Alignment explanation
Indices: 54264262--54264298 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
54264252 CATTTTCCTT
* *
54264262 AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
54264299 TTTTAAGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (2 bp):
AG
Found at i:54271343 original size:42 final size:42
Alignment explanation
Indices: 54271284--54271401 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
54271274 TAGGGTTAGT
*
54271284 TGAGATTACGTGTAAGACCATATCTAGGATATGAAATTGATA
1 TGAGATTACATGTAAGACCATATCTAGGATATGAAATTGATA
* * * *
54271326 TGAGATTTCATGTAAGACCATAGCTAGGCTATTGGAATTGATA
1 TGAGATTACATGTAAGACCATATCTAGGATA-TGAAATTGATA
*
54271369 TGAGA--ACCGATGTAAGACCATATCTGGGATATG
1 TGAGATTA-C-ATGTAAGACCATATCTAGGATATG
54271402 GCATTGGTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTAGGATATGAAATTGATA
Found at i:54277357 original size:28 final size:28
Alignment explanation
Indices: 54277317--54277380 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
54277307 GATTGGCAGA
*
54277317 AAGTGTGCGAGTTTAATTGTATAA-CACT
1 AAGTGTGCGAGTTTAATTAT-TAAGCACT
*
54277345 AAGTGTGCGAGTTTGATTATTAAGCACT
1 AAGTGTGCGAGTTTAATTATTAAGCACT
*
54277373 AAATGTGC
1 AAGTGTGC
54277381 CAACTTACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (28 bp):
AAGTGTGCGAGTTTAATTATTAAGCACT
Found at i:54284292 original size:29 final size:29
Alignment explanation
Indices: 54284231--54284320 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
54284221 CACATACCTA
*
54284231 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
54284259 TATATAGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
54284288 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
54284317 TATA
1 TATA
54284321 GTCATGCTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 17 0.30
29 39 0.70
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:54284551 original size:16 final size:16
Alignment explanation
Indices: 54284526--54284568 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
54284516 GTAGTTAAAC
*
54284526 TTTCGGCTTTTTAGCA
1 TTTCGGCTTTTCAGCA
* *
54284542 TTTTGGCTTTTCAGTA
1 TTTCGGCTTTTCAGCA
54284558 TTTCGGCTTTT
1 TTTCGGCTTTT
54284569 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.16, G:0.19, T:0.56
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:54286473 original size:40 final size:40
Alignment explanation
Indices: 54286418--54286602 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
54286408 TATTCGGATG
54286418 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
*
54286458 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCAAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
54286501 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* * * *
54286541 ACATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
* *
54286581 ATATCC-GGCTAAATCCCAAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
54286603 TACTTGGGTT
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 15 0.12
40 72 0.57
41 2 0.02
43 35 0.28
44 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:54286561 original size:83 final size:80
Alignment explanation
Indices: 54286422--54286602 Score: 265
Period size: 83 Copynumber: 2.2 Consensus size: 80
54286412 CGGATGATAT
* *
54286422 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCAAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATCCGGGCAAAGACCCGAAGGCATTTG
54286487 TGCAAGTAGTTGCTATAC
66 TGC--G-AGTTGCTATAC
* *
54286505 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATTCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATCCGGGCAAAGACCCGAAGGCATTTG
*
54286570 TGCGAGTTGCTATAT
66 TGCGAGTTGCTATAC
* *
54286585 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
54286603 TACTTGGGTT
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 14 0.15
80 12 0.13
81 1 0.01
83 64 0.70
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTACATCCGGGCAAAGACCCGAAGGCATTTG
TGCGAGTTGCTATAC
Found at i:54294580 original size:40 final size:40
Alignment explanation
Indices: 54294525--54294749 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
54294515 TATTCGGATG
*
54294525 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
54294565 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
54294605 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
54294648 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
54294688 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54294728 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
54294750 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 14 0.09
40 114 0.70
43 35 0.21
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:54294768 original size:83 final size:80
Alignment explanation
Indices: 54294525--54294749 Score: 371
Period size: 83 Copynumber: 2.8 Consensus size: 80
54294515 TATTCGGATG
*
54294525 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
54294590 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
* *
54294605 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAAG
54294670 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
* *
54294688 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
54294750 TACTTGGGTT
Statistics
Matches: 135, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
79 15 0.11
80 43 0.32
81 1 0.01
82 1 0.01
83 75 0.56
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:54299112 original size:27 final size:27
Alignment explanation
Indices: 54299082--54299438 Score: 466
Period size: 27 Copynumber: 13.3 Consensus size: 27
54299072 TTGTTTATAA
54299082 AATTACC-ACAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
54299109 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
54299136 AATTACCGGAATACCCCTATAGGGCAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
54299163 ACTTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
54299190 AATTATCGCAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54299217 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
54299244 AATTACCGCAATACCCCTGTATAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54299271 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
54299298 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
54299325 AATTATCGCAATACCACTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
54299352 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
54299379 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
54299406 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
54299432 AATTACC
1 AATTACC
54299439 ATTTTGCCCC
Statistics
Matches: 285, Mismatches: 44, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
26 16 0.06
27 268 0.94
28 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:54299917 original size:22 final size:22
Alignment explanation
Indices: 54299865--54299929 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
54299855 TTAAAGCCTT
*
54299865 CTGATTATGGCTTTGTGT-CAAC
1 CTGATTATGGCTCTGT-TCCAAC
*
54299887 CT-ACATATGGCTCTGTTCCAAC
1 CTGA-TTATGGCTCTGTTCCAAC
* *
54299909 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTTCCAA
54299930 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTTCCAAC
Found at i:54300176 original size:27 final size:26
Alignment explanation
Indices: 54300088--54300189 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
54300078 ATTCTGTTAA
* * *
54300088 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTCTGCCACAATATCT-GTTCTG
*
54300115 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
54300142 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* * *
54300169 GTGACTCTGTCACCATATCTG
1 GTGGCTCTGCCACAATATCTG
54300190 ATAACTGAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.14
27 51 0.77
28 6 0.09
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:54300364 original size:6 final size:6
Alignment explanation
Indices: 54300349--54300414 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
54300339 ATTCTGTTAC
* * * *
54300349 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
54300398 CTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGAT
54300415 AATGTTTCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.06
6 40 0.83
7 4 0.08
8 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:54300377 original size:31 final size:31
Alignment explanation
Indices: 54300326--54300405 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 31
54300316 TTGCATTCAC
*
54300326 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
54300358 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
54300389 ATTTTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
54300406 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 38 0.84
32 7 0.16
ACGTcount: A:0.19, C:0.15, G:0.14, T:0.53
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:54302492 original size:29 final size:29
Alignment explanation
Indices: 54302431--54302520 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
54302421 CACATACCTG
* *
54302431 TATATGACCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
54302459 TATATGGCCCATTTGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
54302488 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
54302517 TATA
1 TATA
54302521 GTCATACTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 16 0.29
29 39 0.71
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:54304596 original size:40 final size:40
Alignment explanation
Indices: 54304450--54304671 Score: 269
Period size: 39 Copynumber: 5.7 Consensus size: 40
54304440 TCGAATGATG
* * * *
54304450 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
54304489 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
54304528 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54304567 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54304607 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54304647 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54304672 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 22 0.14
39 67 0.42
40 65 0.40
41 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54304623 original size:39 final size:39
Alignment explanation
Indices: 54304452--54304671 Score: 259
Period size: 40 Copynumber: 5.6 Consensus size: 39
54304442 GAATGATGTC
* * * *
54304452 CGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
* * *
54304490 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 -CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
54304530 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
54304568 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
54304608 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
54304648 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
54304672 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 25 0.16
39 60 0.38
40 67 0.42
41 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:54304678 original size:79 final size:78
Alignment explanation
Indices: 54304488--54304704 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 78
54304478 AAGTGACCAT
* * *
54304488 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCGGGCTAAG-CCCGAAGGCATT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAATCGGGTTAAGTCCCGAAGGCATT
54304551 GGTGCGAGTTACTAA
64 GGTGCGAGTTACTAA
* *
54304566 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTCCCGAAGGCATTT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAATCGGGTTAAGTCCCGAAGGCATTG
54304631 GTGCGAGTTACTATA
65 GTGCGAGTTACTA-A
* ** * * * *
54304646 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAATCGGGTTAAGTCCCGAAGG
54304705 TACGTGATTT
Statistics
Matches: 121, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
77 1 0.01
78 46 0.38
79 72 0.60
80 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (78 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCGGGTTAAGTCCCGAAGGCATTGG
TGCGAGTTACTAA
Found at i:54310072 original size:47 final size:47
Alignment explanation
Indices: 54309987--54310254 Score: 434
Period size: 47 Copynumber: 5.7 Consensus size: 47
54309977 TTAGGATTCT
* *
54309987 ATGTGATGGATGTG-AA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
54310032 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
54310079 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
54310126 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
54310173 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC-AAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA-TGGCCG
* * *
54310220 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54310255 TCCCGAAGGG
Statistics
Matches: 210, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
45 13 0.06
46 4 0.02
47 193 0.92
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:54310429 original size:37 final size:37
Alignment explanation
Indices: 54310371--54310449 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
54310361 CCGAGCTCTA
* * *
54310371 AAGACCCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
* *
54310408 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
54310445 AAGAC
1 AAGAC
54310450 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:54311807 original size:79 final size:80
Alignment explanation
Indices: 54311657--54311962 Score: 471
Period size: 79 Copynumber: 3.9 Consensus size: 80
54311647 TGAGAATGAG
*
54311657 AGTGATATATCCGGGCTAAGT-CCGAAGAGCATTCG-GCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
54311720 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
*
54311735 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGT-CCG
1 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
54311799 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * *
54311814 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCC--GATAAGTTCCG
1 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
54311877 -AGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * * * * *
54311891 AGAGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCG
1 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
54311956 AAGAGCA
66 AAGAGCA
54311963 ATCATGCTGG
Statistics
Matches: 210, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
77 66 0.31
78 24 0.11
79 90 0.43
80 30 0.14
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AAGAGCATTCGTGCT
Found at i:54311974 original size:40 final size:40
Alignment explanation
Indices: 54311657--54311962 Score: 471
Period size: 40 Copynumber: 7.8 Consensus size: 40
54311647 TGAGAATGAG
54311657 AGTGATATATCCGGGCTAAGT-CCGAAGAGCATTCG-GCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
54311695 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
54311735 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
54311775 AGTGATATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
54311814 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
54311854 AGTGATGTATCC--GATAAGTTCCG-AGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
54311891 AGAGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
54311931 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
54311963 ATCATGCTGG
Statistics
Matches: 244, Mismatches: 18, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
37 24 0.10
38 29 0.12
39 59 0.24
40 132 0.54
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:54314968 original size:48 final size:47
Alignment explanation
Indices: 54314916--54315061 Score: 183
Period size: 48 Copynumber: 3.1 Consensus size: 47
54314906 GGATTCTATG
*
54314916 TGATGGATGTGACTGCATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGATGGATGTGAATG-ATATATGTGATAAGGCCTAATGGCCGATGTGA
* *
54314964 TGATGTGAAAGTGTAT-ATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGATG-G-ATGTGAATGATATATGTGATAAGGCCTAATGGCCGATGTGA
54315012 TGA---ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGATGGATGTG-AA-TG-ATATATGTGATAAGGCCTAATGGCCGATGTGA
54315059 TGA
1 TGA
54315062 ATGTGAAAGT
Statistics
Matches: 87, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
43 4 0.05
44 1 0.01
45 1 0.01
47 35 0.40
48 40 0.46
49 1 0.01
50 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (47 bp):
TGATGGATGTGAATGATATATGTGATAAGGCCTAATGGCCGATGTGA
Found at i:54315048 original size:47 final size:47
Alignment explanation
Indices: 54314932--54315134 Score: 300
Period size: 47 Copynumber: 4.3 Consensus size: 47
54314922 ATGTGACTGC
54314932 ATATATGTGATAAGGCCTAATGGCCGATGTGATG-ATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
54314980 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
54315027 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * ** * * *
54315074 ATATATGTGACAGGGCCGAGCGGCCAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
54315121 ATAAATGTGATAAG
1 ATATATGTGATAAG
54315135 TCCCGAAGGG
Statistics
Matches: 143, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
47 98 0.69
48 34 0.24
49 11 0.08
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:54320240 original size:29 final size:29
Alignment explanation
Indices: 54320179--54320268 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
54320169 CACATACCTG
* *
54320179 TATATGACCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
54320207 TATATGGCCCATTTGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
54320236 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
54320265 TATA
1 TATA
54320269 GTCATACTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
28 16 0.29
29 39 0.71
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:54322468 original size:40 final size:40
Alignment explanation
Indices: 54322197--54322461 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
54322187 TCGAATGATG
* * * *
54322197 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
54322237 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
54322277 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
54322316 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54322356 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54322397 -CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54322437 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54322462 AACGAGTAGC
Statistics
Matches: 201, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
39 33 0.16
40 158 0.79
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54324498 original size:4 final size:4
Alignment explanation
Indices: 54324491--54324515 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
54324481 ATATATGTAT
54324491 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
54324516 AATACACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:54329931 original size:12 final size:12
Alignment explanation
Indices: 54329911--54329953 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
54329901 GAGAGGAAAC
*
54329911 AAAATGAGATTG
1 AAAAAGAGATTG
54329923 AAAAAGAGATTG
1 AAAAAGAGATTG
*
54329935 AAAAAGAGAATG
1 AAAAAGAGATTG
54329947 AAAAAGA
1 AAAAAGA
54329954 AAAAGAGTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:54329989 original size:16 final size:16
Alignment explanation
Indices: 54329968--54330012 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
54329958 GAGTTCGATC
*
54329968 AAAAGAAAAGAGTGGA
1 AAAAGAAATGAGTGGA
54329984 AAAAGAAATTGA--GGA
1 AAAAGAAA-TGAGTGGA
54329999 AAAAGAAATGAGTG
1 AAAAGAAATGAGTG
54330013 TTTCCAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 3 0.12
15 11 0.44
16 9 0.36
17 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (16 bp):
AAAAGAAATGAGTGGA
Found at i:54333952 original size:14 final size:14
Alignment explanation
Indices: 54333933--54333973 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
54333923 CAAAATAGCT
* *
54333933 TATGCATATGTATG
1 TATGCAAATGTACG
54333947 TATGCAAATGTACG
1 TATGCAAATGTACG
*
54333961 TATGCAGATGTAC
1 TATGCAAATGTAC
54333974 CAATGCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (14 bp):
TATGCAAATGTACG
Found at i:54340102 original size:50 final size:49
Alignment explanation
Indices: 54339969--54340145 Score: 187
Period size: 50 Copynumber: 3.6 Consensus size: 49
54339959 ATCTATTGTG
* * * * * *
54339969 AGGTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGAAAACTGT
1 AGGTCACATGTGTAGTACTAAGTGCAGACTACTACGTGTA-CC--AGACTGT
* * **
54340021 -GATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGT
1 AGGTCACATGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACT-GT
54340069 GAGGTCACATGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGT
1 -AGGTCACATGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGT
* *
54340119 TGGTCGCATGTGTAGTACTAAGTGCAG
1 AGGTCACATGTGTAGTACTAAGTGCAG
54340146 GCAACTATGC
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 25 0.23
50 42 0.39
51 35 0.33
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
AGGTCACATGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGT
Found at i:54341871 original size:16 final size:16
Alignment explanation
Indices: 54341832--54341873 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
54341822 ATGAAAAAAC
54341832 AGAACAAAAATAATAA
1 AGAACAAAAATAATAA
*
54341848 A-AATAAAATATAATAA
1 AGAACAAAA-ATAATAA
54341864 AGAA-AAAAAT
1 AGAACAAAAAT
54341874 TATTATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 8 0.35
16 13 0.57
17 2 0.09
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (16 bp):
AGAACAAAAATAATAA
Found at i:54349271 original size:42 final size:43
Alignment explanation
Indices: 54349211--54349323 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
54349201 CCGAGGCTAT
* * **
54349211 GTGTAAGACCATATCTGGGATATGA-TATCGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGAGCATCGATACGAGATCCC
* * *
54349253 GTGTAAGACCATAGCTGGGGTATTAGCATCGATACGAGATCCC
1 GTGTAAGACCATATCTGGGATATGAGCATCGATACGAGATCCC
* *
54349296 ATGTAAGACCATATTTGGGATATG-GCAT
1 GTGTAAGACCATATCTGGGATATGAGCAT
54349324 TTGTATGATG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGATATGAGCATCGATACGAGATCCC
Found at i:54351532 original size:18 final size:17
Alignment explanation
Indices: 54351500--54351533 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54351490 CCCATTCATT
*
54351500 TGTCTGTACGAATTTAG
1 TGTCTGTAAGAATTTAG
54351517 TGTCTAGTAAGAATTTA
1 TGTCT-GTAAGAATTTA
54351534 TCTGTTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (17 bp):
TGTCTGTAAGAATTTAG
Found at i:54358427 original size:29 final size:28
Alignment explanation
Indices: 54358386--54358444 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
54358376 GTGAGCATGA
54358386 ATATAATGTGATTGGGGCCTAAAGGGCC
1 ATATAATGTGATTGGGGCCTAAAGGGCC
* *
54358414 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATAT-AATGTGATTGGGGCCTAAAGGGCC
54358443 AT
1 AT
54358445 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
ATATAATGTGATTGGGGCCTAAAGGGCC
Found at i:54369323 original size:43 final size:43
Alignment explanation
Indices: 54369261--54369346 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
54369251 ATCACCTTCA
** * *
54369261 ATGCCAATGTATTAAACGTGGTCTTACTCATACACACATATCG
1 ATGCCAACATATTAAACGTGGTCTTACTCACACAAACATATCG
* *
54369304 ATGCCAACATATTAGACGTGGTCTTACTCGCACAAACATATCG
1 ATGCCAACATATTAAACGTGGTCTTACTCACACAAACATATCG
54369347 TAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAACATATTAAACGTGGTCTTACTCACACAAACATATCG
Found at i:54369395 original size:99 final size:99
Alignment explanation
Indices: 54369225--54369546 Score: 310
Period size: 112 Copynumber: 3.1 Consensus size: 99
54369215 TCCCAAATAA
* *
54369225 GGTCTTACTCGTA-AATACATATCAAAATCACCT-TCAATGCCAATGTATTAAACGTGGTCTTAC
1 GGTCTTACTCGTACAA-ACATATC-GAATCACATATCAATGCCAATGTATTAAACGTGGTCTTAC
**
54369288 TCATACA-CACATATCGATGCCAACATATTAGACGT
64 TTGTACATCACATATCGATGCCAACATATTAGACGT
* * *
54369323 GGTCTTACTCGCACAAACATATCGTAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACT
1 GGTCTTACTCGTACAAACATATCG-AATCACATATCAATGCCAATGTATTAAACGTGGTCTTACT
* * * *
54369388 TGCACACACATATTGAAATCACATATCGATGCCAACGTATTAAATGT
65 TG-----------T-ACATCACATATCGATGCCAACATATTAGACGT
* * *
54369435 GGTCTTACTCATACACACATATCAGAATCACATACCAATGCCAATGTATTAAACGTGGTCTTACT
1 GGTCTTACTCGTACAAACATATC-GAATCACATATCAATGCCAATGTATTAAACGTGGTCTTACT
***
54369500 TGTA-ATCACATATCGATGCCAACATCCCAGACGT
65 TGTACATCACATATCGATGCCAACATATTAGACGT
*
54369534 GGTCTTACACGTA
1 GGTCTTACTCGTA
54369547 ATCAGATATT
Statistics
Matches: 182, Mismatches: 25, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
98 26 0.14
99 66 0.36
100 1 0.01
101 1 0.01
110 1 0.01
111 2 0.01
112 84 0.46
113 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (99 bp):
GGTCTTACTCGTACAAACATATCGAATCACATATCAATGCCAATGTATTAAACGTGGTCTTACTT
GTACATCACATATCGATGCCAACATATTAGACGT
Found at i:54369512 original size:112 final size:112
Alignment explanation
Indices: 54369295--54369501 Score: 317
Period size: 112 Copynumber: 1.8 Consensus size: 112
54369285 TACTCATACA
* * * *
54369295 CACATATCGATGCCAACATATTAGACGTGGTCTTACTCGCACAAACATATCGTAATCACATATCG
1 CACATATCGATGCCAACATATTAAACGTGGTCTTACTCACACAAACATATCGTAATCACATACCA
54369360 ATGCCAACGTATTAAACGTGGTCTTACTTGCACACACATATTGAAAT
66 ATGCCAACGTATTAAACGTGGTCTTACTTGCACACACATATTGAAAT
* * * *
54369407 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCATACACACATATCAG-AATCACATACC
1 CACATATCGATGCCAACATATTAAACGTGGTCTTACTCACACAAACATATC-GTAATCACATACC
*
54369471 AATGCCAATGTATTAAACGTGGTCTTACTTG
65 AATGCCAACGTATTAAACGTGGTCTTACTTG
54369502 TAATCACATA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 84 0.99
113 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (112 bp):
CACATATCGATGCCAACATATTAAACGTGGTCTTACTCACACAAACATATCGTAATCACATACCA
ATGCCAACGTATTAAACGTGGTCTTACTTGCACACACATATTGAAAT
Found at i:54369513 original size:56 final size:56
Alignment explanation
Indices: 54369295--54369499 Score: 286
Period size: 56 Copynumber: 3.7 Consensus size: 56
54369285 TACTCATACA
* * * *
54369295 CACATATCGATGCCAACATATTAGACGTGGTCTTACTCGCACAAACATATCGTAAT
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGAAAT
* *
54369351 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTTGCACACACATATTGAAAT
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGAAAT
* **
54369407 CACATATCGATGCCAACGTATTAAATGTGGTCTTACTCATACACACATATC-AGAAT
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGA-AAT
* * *
54369463 CACATACCAATGCCAATGTATTAAACGTGGTCTTACT
1 CACATATCGATGCCAACGTATTAAACGTGGTCTTACT
54369500 TGTAATCACA
Statistics
Matches: 133, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
55 1 0.01
56 132 0.99
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
CACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGAAAT
Found at i:54369592 original size:42 final size:43
Alignment explanation
Indices: 54369487--54369641 Score: 204
Period size: 43 Copynumber: 3.6 Consensus size: 43
54369477 AATGTATTAA
** *
54369487 ACGTGGTCTTACTTGTAATCACATATCGATGCCAACATCCCAG
1 ACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAG
* * *
54369530 ACGTGGTCTTACACGTAATCAGATATTGATGCCAACGT-CCTG
1 ACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAG
* * * *
54369572 ACATTGTCTTACACGTAATCACATATCGACGCCAATGTCCCAG
1 ACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAG
*
54369615 ACGTGGTCGTACACGTAATCACATATC
1 ACGTGGTCTTACACGTAATCACATATC
54369642 AGAAATCCTA
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 35 0.37
43 60 0.63
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
ACGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCCAG
Found at i:54371097 original size:26 final size:26
Alignment explanation
Indices: 54371015--54371149 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
54371005 CTGGAGGCCT
54371015 AGCCTCTTTT-AAT-AACT-GGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
54371038 AGCCCTTTTCGGTAAGCTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
54371063 AGCCCTTTTCAATAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
54371089 AGCCCTTTTCGATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
54371115 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
54371141 AGCCCTTTT
1 AGCCCTTTT
54371150 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.05
23 5 0.05
24 3 0.03
25 26 0.27
26 59 0.60
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:54371224 original size:20 final size:20
Alignment explanation
Indices: 54371199--54371264 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
54371189 TTATGAATTC
54371199 ATCATGAGCACT-TCATACAT
1 ATCATGAGCA-TATCATACAT
*
54371219 ATCATGTGCATATCATACAT
1 ATCATGAGCATATCATACAT
*
54371239 ATCATGTGCATATCATATCA-
1 ATCATGAGCATATCATA-CAT
54371259 ATCATG
1 ATCATG
54371265 TATATCATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.93
21 2 0.05
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (20 bp):
ATCATGAGCATATCATACAT
Found at i:54371230 original size:11 final size:11
Alignment explanation
Indices: 54371216--54371254 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
54371206 GCACTTCATA
54371216 CATATCATGTG
1 CATATCATGTG
*
54371227 CATATCA--TA
1 CATATCATGTG
54371236 CATATCATGTG
1 CATATCATGTG
54371247 CATATCAT
1 CATATCAT
54371255 ATCAATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (11 bp):
CATATCATGTG
Found at i:54371243 original size:40 final size:38
Alignment explanation
Indices: 54371199--54371273 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 38
54371189 TTATGAATTC
54371199 ATCATGAGCACT-TCATA-CATATCATGTGCATATCATACAT
1 ATCATGAGCA-TATCATATCA-ATCATGT--ATATCATACAT
*
54371239 ATCATGTGCATATCATATCAATCATGTATATCATA
1 ATCATGAGCATATCATATCAATCATGTATATCATA
54371274 TCCCACGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
38 8 0.25
39 1 0.03
40 21 0.66
41 2 0.06
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (38 bp):
ATCATGAGCATATCATATCAATCATGTATATCATACAT
Found at i:54371265 original size:20 final size:21
Alignment explanation
Indices: 54371211--54371275 Score: 95
Period size: 20 Copynumber: 3.3 Consensus size: 21
54371201 CATGAGCACT
54371211 TCATA-CATATCATGTGCATA
1 TCATATCATATCATGTGCATA
54371231 TCATA-CATATCATGTGCATA
1 TCATATCATATCATGTGCATA
54371251 TCATATCA-ATCATGT--ATA
1 TCATATCATATCATGTGCATA
54371269 TCATATC
1 TCATATC
54371276 CCACGTACCA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.23
20 32 0.73
21 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (21 bp):
TCATATCATATCATGTGCATA
Found at i:54371271 original size:9 final size:10
Alignment explanation
Indices: 54371216--54371272 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
54371206 GCACTTCATA
54371216 CATATCATGT
1 CATATCATGT
*
54371226 GCATATCAT-A
1 -CATATCATGT
54371236 CATATCATGT
1 CATATCATGT
*
54371246 GCATATCATAT
1 -CATATCATGT
54371257 CA-ATCATGT
1 CATATCATGT
54371266 -ATATCAT
1 CATATCAT
54371273 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:54376070 original size:34 final size:34
Alignment explanation
Indices: 54375986--54376078 Score: 93
Period size: 34 Copynumber: 2.7 Consensus size: 34
54375976 GCATTATTGA
* *
54375986 TACTA-TACTGAAATGGGTTAAGGCCCACACTAT
1 TACTACTACTGGAATGGGCTAAGGCCCACACTAT
* *
54376019 TACTGCTACTGTAATGGGCTAAGGCCCACACTGA-
1 TACTACTACTGGAATGGGCTAAGGCCCACACT-AT
*
54376053 TACTACT-GTGGATATGGGCTTAAGGC
1 TACTACTACTGGA-ATGGGC-TAAGGC
54376079 TAGACTGTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
33 7 0.14
34 36 0.72
35 7 0.14
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (34 bp):
TACTACTACTGGAATGGGCTAAGGCCCACACTAT
Found at i:54378570 original size:53 final size:53
Alignment explanation
Indices: 54378499--54378707 Score: 195
Period size: 53 Copynumber: 3.9 Consensus size: 53
54378489 TTTTCCTTTT
* * * *
54378499 TGAACTTACCATTTCCATGTCTTGACAAGGTCTTACGTGGTATCCTTGCCTTA
1 TGAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * *
54378552 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTA
1 TGAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTA
* * *
54378605 TAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 T-G-AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * * * *
54378660 TAAAATTTATCAATGTCATGCCTTGGCATGGTCATACATGATATCCTT
1 T-GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
54378708 ATCTTACCAA
Statistics
Matches: 128, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 40 0.31
55 42 0.33
56 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (53 bp):
TGAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:54378659 original size:55 final size:54
Alignment explanation
Indices: 54378513--54378707 Score: 205
Period size: 55 Copynumber: 3.6 Consensus size: 54
54378503 CTTACCATTT
* * * * * *
54378513 CCATGTCTTGACAAGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
* ** *
54378566 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTTATCAATG
* * * *
54378621 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAAAATTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
* * *
54378675 TCATGCCTTGGCATGGTCATACATGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGATATCCTT
54378708 ATCTTACCAA
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 31 0.26
54 40 0.34
55 42 0.36
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATG
Found at i:54378737 original size:47 final size:47
Alignment explanation
Indices: 54378685--54378807 Score: 174
Period size: 47 Copynumber: 2.6 Consensus size: 47
54378675 TCATGCCTTG
* * *
54378685 GCATGGTCATACATGATATCCTTATCTTACCAAATGCCATGTCCCAA
1 GCATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTCCCAA
* * *
54378732 GCATGGTCTTACATGGTATCCTTGTCTTGCCAAATGTCATGTTCCAA
1 GCATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTCCCAA
* *
54378779 ACATGGTCTTACAAGGTATCCTTGTCTTA
1 GCATGGTCTTACATGGTATCCTTGTCTTA
54378808 GTGCCAATGC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (47 bp):
GCATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTCCCAA
Found at i:54383207 original size:23 final size:23
Alignment explanation
Indices: 54383177--54383223 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
54383167 TACAATTTGC
*
54383177 TTCAAGCAACTTAACATGTACGT
1 TTCAAGCAACTTAACATGCACGT
54383200 TTCAAGCAACTTAACATGCACGT
1 TTCAAGCAACTTAACATGCACGT
54383223 T
1 T
54383224 CATAATACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (23 bp):
TTCAAGCAACTTAACATGCACGT
Found at i:54389203 original size:12 final size:12
Alignment explanation
Indices: 54389186--54389210 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54389176 AAAATCTGAT
54389186 TTCAATGTGTAA
1 TTCAATGTGTAA
54389198 TTCAATGTGTAA
1 TTCAATGTGTAA
54389210 T
1 T
54389211 GTGTATAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTCAATGTGTAA
Found at i:54391865 original size:46 final size:45
Alignment explanation
Indices: 54391798--54391972 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
54391788 TGTAACCCGC
* *
54391798 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
54391844 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * **
54391890 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* *
54391937 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
54391973 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.66
47 32 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:54391964 original size:93 final size:93
Alignment explanation
Indices: 54391805--54391977 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
54391795 CGCCCATAAG
* ** *
54391805 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
54391870 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
54391898 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
54391963 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
54391978 CAAATATCCC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:54393715 original size:25 final size:25
Alignment explanation
Indices: 54393687--54393758 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
54393677 CTCTTTTAAT
*
54393687 AACTGGGGCAAATCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
54393712 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
54393737 AACTAGGGCAAAGCTCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
54393759 CACTTCCTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:54393815 original size:10 final size:10
Alignment explanation
Indices: 54393802--54393841 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
54393792 CATATATGAA
54393802 CATATCATGG
1 CATATCATGG
54393812 CATATCATGCG
1 CATATCATG-G
54393823 CATATCATGG
1 CATATCATGG
54393833 CATATCATG
1 CATATCATG
54393842 TATAAAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (10 bp):
CATATCATGG
Found at i:54393828 original size:21 final size:21
Alignment explanation
Indices: 54393802--54393841 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
54393792 CATATATGAA
54393802 CATATCATGGCATATCATGCG
1 CATATCATGGCATATCATGCG
54393823 CATATCATGGCATATCATG
1 CATATCATGGCATATCATG
54393842 TATAAAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
CATATCATGGCATATCATGCG
Found at i:54396078 original size:42 final size:42
Alignment explanation
Indices: 54396022--54396140 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 42
54396012 GATGCCTCTT
* * *
54396022 TCCCAGATAGGGTCTTACACGAAA-TCAAATACGATGCCTATG
1 TCCCAGACACGGTCTTACACGAAACTCAAAT-CGAGGCCTATG
* * *
54396064 TCCTAGACATGGTCTTACACGTAAATCTCAAATCGAGGCCTGTG
1 TCCCAGACACGGTCTTACACG-AAA-CTCAAATCGAGGCCTATG
* *
54396108 TCCCAGACACGATCTTACACGATATCTCAAATC
1 TCCCAGACACGGTCTTACACGA-AACTCAAATC
54396141 AATGTCAACT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 18 0.28
43 12 0.19
44 28 0.44
45 6 0.09
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
TCCCAGACACGGTCTTACACGAAACTCAAATCGAGGCCTATG
Found at i:54396124 original size:44 final size:43
Alignment explanation
Indices: 54396034--54396140 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 43
54396024 CCAGATAGGG
* * * *
54396034 TCTTACACGAAA--TCAAATACGATGCCTATGTCCTAGACATGG
1 TCTTACACGAAATCTCAAAT-CGAGGCCTATGTCCCAGACACGA
*
54396076 TCTTACACGTAAATCTCAAATCGAGGCCTGTGTCCCAGACACGA
1 TCTTACACG-AAATCTCAAATCGAGGCCTATGTCCCAGACACGA
*
54396120 TCTTACACGATATCTCAAATC
1 TCTTACACGAAATCTCAAATC
54396141 AATGTCAACT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 9 0.16
43 14 0.25
44 27 0.48
45 6 0.11
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
TCTTACACGAAATCTCAAATCGAGGCCTATGTCCCAGACACGA
Found at i:54396488 original size:21 final size:21
Alignment explanation
Indices: 54396462--54396504 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
54396452 TTAGTGGAAG
54396462 ATGATGAGAAAATAAACATGC
1 ATGATGAGAAAATAAACATGC
54396483 ATGATGAGAAAATAAACATGC
1 ATGATGAGAAAATAAACATGC
54396504 A
1 A
54396505 ATGGCCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (21 bp):
ATGATGAGAAAATAAACATGC
Found at i:54400933 original size:20 final size:20
Alignment explanation
Indices: 54400910--54400968 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
54400900 TAAACATGGT
54400910 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
**
54400930 ATGTATGATATGCACATGGT
1 ATGTATGATATGCACATGAC
54400950 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
54400969 TGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:54401123 original size:24 final size:24
Alignment explanation
Indices: 54401018--54401161 Score: 197
Period size: 23 Copynumber: 6.0 Consensus size: 24
54401008 GGAGGAAGTG
54401018 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
54401042 GATAAAA-GGCGTATGCCCCAGTTAT
1 --TAAAAGGGCTTATGCCCCAGTTAT
54401067 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
54401090 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
54401113 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
54401137 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
54401162 ATGATAAAAC
Statistics
Matches: 109, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
22 3 0.03
23 42 0.39
24 31 0.28
25 28 0.26
26 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:54401137 original size:47 final size:47
Alignment explanation
Indices: 54401018--54401142 Score: 198
Period size: 47 Copynumber: 2.6 Consensus size: 47
54401008 GGAGGAAGTG
54401018 TAAAAGGGCTTATGCCCCAGTTATGATAAAAGGCGTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT--TAAAAGGCGTATGCCCCAGTTAT
* *
54401067 T-AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGCGTATGCCCCAGTTAT
*
54401113 TAAAAGGGCTTTTGCCCCAGTTATTAAAAG
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAG
54401143 AGGCTAGGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
46 22 0.31
47 26 0.37
48 22 0.31
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAAGGCGTATGCCCCAGTTAT
Found at i:54401390 original size:31 final size:31
Alignment explanation
Indices: 54401355--54401418 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
54401345 CGTTTACAGT
54401355 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
54401386 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
54401417 AA
1 AA
54401419 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Done.