Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 76 of 208
Found at i:22304890 original size:50 final size:50
Alignment explanation
Indices: 22304775--22305068 Score: 408
Period size: 50 Copynumber: 5.9 Consensus size: 50
22304765 GATCATAACA
* ** * **
22304775 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATTAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ** **
22304826 TGCCCATACCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22304876 TGCCAACGCCATGTCCGAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
22304926 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
22304976 TGACAACGCCATGTACCAGACAAGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
22305026 TGCCAACGACATGTCCCAGACATGGTTTTACATTGGACCTCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
22305069 TACCTAAATG
Statistics
Matches: 215, Mismatches: 28, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
50 183 0.85
51 32 0.15
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:22306449 original size:33 final size:33
Alignment explanation
Indices: 22306365--22306469 Score: 117
Period size: 33 Copynumber: 3.2 Consensus size: 33
22306355 AGACAAAAAC
22306365 AATATTC-AGCAAACACAATGAATGGGGAGAAG-
1 AATATTCGA-CAAACACAATGAATGGGGAGAAGT
* * * *
22306397 AGGT-TTCGGCAAACGCAATGAATGGAGAGAAGT
1 A-ATATTCGACAAACACAATGAATGGGGAGAAGT
* *
22306430 CATATTCGACAAACTCAATGAATGGGGAGAAGT
1 AATATTCGACAAACACAATGAATGGGGAGAAGT
22306463 AATATTC
1 AATATTC
22306470 AGGAAAGGGA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
32 26 0.44
33 33 0.56
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (33 bp):
AATATTCGACAAACACAATGAATGGGGAGAAGT
Found at i:22309788 original size:12 final size:13
Alignment explanation
Indices: 22309771--22309799 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22309761 AGATGAGCAA
22309771 AATTTGGC-TTTT
1 AATTTGGCTTTTT
22309783 AATTTGGCTTTTT
1 AATTTGGCTTTTT
22309796 AATT
1 AATT
22309800 CATTTAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (13 bp):
AATTTGGCTTTTT
Found at i:22311056 original size:17 final size:17
Alignment explanation
Indices: 22311023--22311057 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22311013 CTACAGGGGT
* *
22311023 CACACAGCCGTGTGACA
1 CACACAGCCGAGAGACA
22311040 CACACAGCCGAGAGACA
1 CACACAGCCGAGAGACA
22311057 C
1 C
22311058 GCCCGTGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.37, G:0.23, T:0.06
Consensus pattern (17 bp):
CACACAGCCGAGAGACA
Found at i:22312467 original size:25 final size:25
Alignment explanation
Indices: 22312387--22312505 Score: 91
Period size: 25 Copynumber: 4.8 Consensus size: 25
22312377 ATGTATGCTT
* * *
22312387 ATACGAGCTGTA-AATGGTAAGCTC
1 ATACGAGCTGAATAACGATAAGCTC
* * * *
22312411 TTCCGAGATGAATAACGATAAACTC
1 ATACGAGCTGAATAACGATAAGCTC
* * *
22312436 CTCCGAGCTGAATAACGGTAAGCTC
1 ATACGAGCTGAATAACGATAAGCTC
*
22312461 ATACGAGCT-AAGTATCGATAAGCTC
1 ATACGAGCTGAA-TAACGATAAGCTC
* *
22312486 ATATGAGCTGAA-ATCGATAA
1 ATACGAGCTGAATAACGATAA
22312506 CACTAATGAC
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
24 18 0.24
25 56 0.74
26 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (25 bp):
ATACGAGCTGAATAACGATAAGCTC
Found at i:22313482 original size:125 final size:126
Alignment explanation
Indices: 22313162--22313500 Score: 608
Period size: 125 Copynumber: 2.7 Consensus size: 126
22313152 CGTCTCTGGT
* *
22313162 CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
*
22313227 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATTTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATGTTTCTGAG
* *
22313288 AAAATAGTATAAAATCGTTTGTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
22313353 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAA-TTTTTTTCTGATGTTTCTGAG
66 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATGTTTCTGAG
*
22313413 CAAATAGTATAAAATCGTTTCTGCGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
*
22313478 TGGACACGATTTTGCTACAGTAG
66 TGGACGCGATTTTGCTACAGTAG
22313501 CAAGTTTGGA
Statistics
Matches: 204, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
125 104 0.51
126 100 0.49
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (126 bp):
CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGCGCCCTCG
TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATGTTTCTGAG
Found at i:22315198 original size:7 final size:7
Alignment explanation
Indices: 22315188--22315212 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22315178 TTATATACAT
22315188 AATACTA
1 AATACTA
22315195 AATACTA
1 AATACTA
22315202 AATACTA
1 AATACTA
22315209 AATA
1 AATA
22315213 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:22316192 original size:15 final size:16
Alignment explanation
Indices: 22316167--22316197 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
22316157 ATAATTATCT
22316167 AAAAATACATAAATAA
1 AAAAATACATAAATAA
22316183 AAAAAT-CATAAATAA
1 AAAAATACATAAATAA
22316198 TAATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATACATAAATAA
Found at i:22316341 original size:29 final size:28
Alignment explanation
Indices: 22316290--22316353 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
22316280 GCCATTGATG
* *
22316290 AAAATATAAAAAAAATTAAAATTATTTT
1 AAAAAATATAAAAAATTAAAATTATTTT
*
22316318 AAATAAATATAAAAAATTATAATTATTTT
1 AAA-AAATATAAAAAATTAAAATTATTTT
22316347 AAAAAAT
1 AAAAAAT
22316354 GGATTTGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
AAAAAATATAAAAAATTAAAATTATTTT
Found at i:22319885 original size:46 final size:46
Alignment explanation
Indices: 22319702--22319885 Score: 208
Period size: 46 Copynumber: 4.0 Consensus size: 46
22319692 TTTTGCCCAA
* *
22319702 GTTCTGAGTTCCTGCATGTGTTGCAGACTCGAGAATATAGGAATA-
1 GTTCTGAGCTCCTGCATATGTTGCAGACTCGAGAATATAGGAATAT
* * * * * * *
22319747 GTTTTCGAACTCTTGCATATGCTGCAGATTCAAGAATATAGGAATAG
1 GTTCT-GAGCTCCTGCATATGTTGCAGACTCGAGAATATAGGAATAT
* * * *
22319794 GTTCTGAGCTCTTGCATATATTGCAGACTCGAGAATACATGAATAT
1 GTTCTGAGCTCCTGCATATGTTGCAGACTCGAGAATATAGGAATAT
* * *
22319840 GTCCTGAGCCCCTGCATATGTTGCGGACTCGAGAATATAGGAATAT
1 GTTCTGAGCTCCTGCATATGTTGCAGACTCGAGAATATAGGAATAT
22319886 TAAACCCTAG
Statistics
Matches: 113, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
45 4 0.04
46 105 0.93
47 4 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (46 bp):
GTTCTGAGCTCCTGCATATGTTGCAGACTCGAGAATATAGGAATAT
Found at i:22323443 original size:30 final size:29
Alignment explanation
Indices: 22323409--22323488 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
22323399 GAGAATGTAA
22323409 TGCTCACACAAGCTGACAGTATTTCAAT-G-T
1 TGCTCACACAAGCTGACA-T-TTT-AATGGAT
*
22323439 TGCTCAGACAAGCTGACATTTTAATGGAAT
1 TGCTCACACAAGCTGACATTTTAATGG-AT
*
22323469 TGCTCACACAAGTTGACATT
1 TGCTCACACAAGCTGACATT
22323489 GTATCGAGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.07
28 4 0.09
29 1 0.02
30 36 0.82
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (29 bp):
TGCTCACACAAGCTGACATTTTAATGGAT
Found at i:22334936 original size:48 final size:46
Alignment explanation
Indices: 22334850--22334955 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 46
22334840 TTTGCATGTA
* * * * *
22334850 TATATATTCTTTCTTTCTATCTGTTTGTGTATATATATATTTTCTTT
1 TATATATTCTTCCTTTCTATCTATATGTGTATACATATACTTT-TTT
* *
22334897 TCATATATTCTTCCTTTCTATCTATATGTGTGTGCATATACTTTTTT
1 T-ATATATTCTTCCTTTCTATCTATATGTGTATACATATACTTTTTT
22334944 TATATAATTCTT
1 TATAT-ATTCTT
22334956 TCTATCTTCC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
46 4 0.08
47 11 0.22
48 35 0.70
ACGTcount: A:0.21, C:0.13, G:0.07, T:0.59
Consensus pattern (46 bp):
TATATATTCTTCCTTTCTATCTATATGTGTATACATATACTTTTTT
Found at i:22338037 original size:41 final size:40
Alignment explanation
Indices: 22337953--22338101 Score: 201
Period size: 40 Copynumber: 3.6 Consensus size: 40
22337943 ACCAAAAATT
*
22337953 TATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATAAAAAAAAGTATTTTAAAAA
22337997 TATTTTAAAATTAAAAAAATAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATAAAAAAAAGTATTTTAAAAA
* * *
22338037 AAATTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAA-TAAAAAAAAGTATTTTAAAAA
*
22338078 TATTTTAAAGTT-AAAAAATAAAAA
1 TATTTTAAAATTAAAAAAATAAAAA
22338102 TATTTATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
39 6 0.06
40 48 0.49
41 31 0.32
43 6 0.06
44 6 0.06
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATAAAAAAAAGTATTTTAAAAA
Found at i:22338076 original size:11 final size:11
Alignment explanation
Indices: 22338062--22338086 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22338052 AAAATTAAAA
22338062 AAAAGTATTTT
1 AAAAGTATTTT
22338073 AAAAGTATTTT
1 AAAAGTATTTT
22338084 AAA
1 AAA
22338087 GTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:22339338 original size:41 final size:41
Alignment explanation
Indices: 22339281--22339362 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
22339271 TTCTTAAGTT
22339281 TGCAATGGAGGAGCAAATACAAAAGTTTGGATAGTTGTCCC
1 TGCAATGGAGGAGCAAATACAAAAGTTTGGATAGTTGTCCC
22339322 TGCAATGGAGGAGCAAATACAAAAGTTTGGATAGTTGTCCC
1 TGCAATGGAGGAGCAAATACAAAAGTTTGGATAGTTGTCCC
22339363 AGTTGTGGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (41 bp):
TGCAATGGAGGAGCAAATACAAAAGTTTGGATAGTTGTCCC
Found at i:22340331 original size:15 final size:15
Alignment explanation
Indices: 22340322--22340354 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22340312 CAAATGCTAT
22340322 AATAATAAATACAAC
1 AATAATAAATACAAC
*
22340337 AATAATAAATACATC
1 AATAATAAATACAAC
22340352 AAT
1 AAT
22340355 GACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:22340835 original size:39 final size:39
Alignment explanation
Indices: 22340758--22340847 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 39
22340748 TATTCGTTAA
* *
22340758 TATAAATATATATACATGTACATATATAAAAATAATAAT
1 TATATATATATATACATATACATATATAAAAATAATAAT
* *
22340797 TATATATATATATATATATAGAT-TATAAGAAA-AGATAAT
1 TATATATATATATACATATACATATATAA-AAATA-ATAAT
*
22340836 TACATATATATA
1 TATATATATATA
22340848 AAAATAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
38 6 0.14
39 38 0.86
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.38
Consensus pattern (39 bp):
TATATATATATATACATATACATATATAAAAATAATAAT
Found at i:22341094 original size:12 final size:12
Alignment explanation
Indices: 22341079--22341112 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22341069 AATCACAGTG
*
22341079 ATAATATTAACA
1 ATAATAATAACA
22341091 ATAATAATAACA
1 ATAATAATAACA
*
22341103 ATACTAATAA
1 ATAATAATAA
22341113 TTATATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAATAATAACA
Found at i:22341727 original size:4 final size:4
Alignment explanation
Indices: 22341720--22341783 Score: 60
Period size: 4 Copynumber: 15.8 Consensus size: 4
22341710 ATTTAGGCAA
* * *
22341720 AAAT AAAT AAAT AAAT AAAT AGAGA- AAAT AAAA AAAT AAAAT ATAT ATAT
1 AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT AAAT -AAAT AAAT AAAT
22341770 AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAA
22341784 AGAACGATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
3 4 0.08
4 40 0.78
5 6 0.12
6 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:22342574 original size:132 final size:132
Alignment explanation
Indices: 22342334--22342581 Score: 403
Period size: 132 Copynumber: 1.9 Consensus size: 132
22342324 CTGCAACTTC
*
22342334 AGGGAGATAAGACTTACAATCTTCAACCTATCCCACTGCTGTCCAGGGAGATATGATTACTGGCT
1 AGGGAGATAAGACTGACAATCTTCAACCTATCCCACTGCTGTCCAGGGAGATATGATTACTGGCT
22342399 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
22342464 TT
131 TT
* * *
22342466 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGA-AGTA-GAATTACTG
1 AGGGAGATAAGA-CTGACAATCTTCAACCTATCCCACTGCTGTCCAGGGAGA-TATG-ATTACTG
*
22342528 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
63 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATC
22342582 GGCTCCCCTG
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
131 2 0.02
132 103 0.95
133 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (132 bp):
AGGGAGATAAGACTGACAATCTTCAACCTATCCCACTGCTGTCCAGGGAGATATGATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
TT
Found at i:22342683 original size:89 final size:89
Alignment explanation
Indices: 22342573--22342798 Score: 346
Period size: 88 Copynumber: 2.6 Consensus size: 89
22342563 AAATCCGCCA
* * * * *
22342573 TCTTCGATCGGCTCCCCTGTCGGCGCAGGAAGGCAATATCTGCTATTTTTTAACCTACTCTGCTG
1 TCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTTAACCTACTCCGCTG
*
22342638 CAACCCAGGGAGGAAAGGCTGGTG
66 CAACCCAAGGAGGAAAGGCTGGTG
* *
22342662 TCTTCGATCTGTTTTGCTGTCGGCGCAGGAAGGCAAGATCTGCTA-TTTTTAACCTACTCCGCTG
1 TCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTTAACCTACTCCGCTG
*
22342726 CAACCCAAGGAGGCAAGGCTGGTG
66 CAACCCAAGGAGGAAAGGCTGGTG
* *
22342750 TCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTTCTATTTT
1 TCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTT
22342799 CATTGATCTG
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
88 81 0.66
89 42 0.34
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (89 bp):
TCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTTAACCTACTCCGCTG
CAACCCAAGGAGGAAAGGCTGGTG
Found at i:22348730 original size:15 final size:15
Alignment explanation
Indices: 22348721--22348753 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22348711 CAAATGCTAT
22348721 AATAATAAATACAAC
1 AATAATAAATACAAC
*
22348736 AATAATAAATACATC
1 AATAATAAATACAAC
22348751 AAT
1 AAT
22348754 GACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:22350308 original size:4 final size:4
Alignment explanation
Indices: 22350301--22350365 Score: 57
Period size: 4 Copynumber: 16.8 Consensus size: 4
22350291 ATTTAGGCAA
*
22350301 AAAT AAAT AAAT AAAT AAAT AAAT AGAGA- AAAT AAA- AAAT -AAT ATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT AAAT AAAT AAAT
* *
22350348 ATAT AAAT GAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAA
22350366 AGAACGATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 9 0.18
4 39 0.76
5 2 0.04
6 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:22350361 original size:29 final size:27
Alignment explanation
Indices: 22350299--22350366 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 27
22350289 TTATTTAGGC
22350299 AAAAATAAATAAATAAATAAATAAATAG
1 AAAAATAAA-AAATAAATAAATAAATAG
22350327 AGAAAATAAAAAATAATATATATATAAAT-G
1 A-AAAATAAAAAATAA-ATA-A-ATAAATAG
22350357 AAAAATAAAA
1 AAAAATAAAA
22350367 GAACGATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
28 7 0.19
29 20 0.56
30 3 0.08
31 6 0.17
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (27 bp):
AAAAATAAAAAATAAATAAATAAATAG
Found at i:22352020 original size:19 final size:19
Alignment explanation
Indices: 22351996--22352049 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
22351986 AATCTTCAAG
* *
22351996 GATATGCAATCTTTGATAT
1 GATATGCAATCTTAGATAA
22352015 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
22352034 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
22352050 AGATAAGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:22352075 original size:22 final size:22
Alignment explanation
Indices: 22352010--22352072 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 22
22352000 TGCAATCTTT
*
22352010 GATATGATATGCAATCTT---A
1 GATAAGATATGCAATCTTAGAA
22352029 GATAAGATATGCAATCTTAGAA
1 GATAAGATATGCAATCTTAGAA
* *
22352051 GATAAGACTTTGTAATCTTAGA
1 GATAAGA-TATGCAATCTTAGA
22352073 GATTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 17 0.46
22 8 0.22
23 12 0.32
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (22 bp):
GATAAGATATGCAATCTTAGAA
Found at i:22353017 original size:24 final size:23
Alignment explanation
Indices: 22352863--22353138 Score: 142
Period size: 24 Copynumber: 11.7 Consensus size: 23
22352853 TGTTTAAACT
22352863 TATTATTATTAAATTTATCAT-TAA
1 TATTATT-TTAAATTTATCATGT-A
** * *
22352887 TATTATCTAAGATAATTTATTATATA
1 TATTAT-T-TTA-AATTTATCATGTA
* * *
22352913 TTATTATTTTAGATTTATCACGTTT
1 -TATTATTTTAAATTTATCATG-TA
*
22352938 TATTATTTGT-AATTTATCA-ATA
1 TATTATTT-TAAATTTATCATGTA
*
22352960 TCATTATTTTAAATTCATC--GTAA
1 T-ATTATTTTAAATTTATCATGT-A
*
22352983 CATTATTTTAAATTTATCATGTA
1 TATTATTTTAAATTTATCATGTA
22353006 TATTTATTTTAAAATTTATCAT-TA
1 TA-TTATTTT-AAATTTATCATGTA
* *
22353030 -A-TATTTAAAATTTATTATGTA
1 TATTATTTTAAATTTATCATGTA
** *
22353051 CTATTATTTTGGATTTATCACGTA
1 -TATTATTTTAAATTTATCATGTA
* **
22353075 TGATTATTCTAGAA-TTATCATCAA
1 T-ATTATTTTA-AATTTATCATGTA
*
22353099 AATT-TTTTAAATTTTAT-ATGTA
1 TATTATTTTAAA-TTTATCATGTA
*
22353121 TTATTATTTCAAATTTAT
1 -TATTATTTTAAATTTAT
22353139 TATATTTTGT
Statistics
Matches: 192, Mismatches: 37, Indels: 47
0.70 0.13 0.17
Matches are distributed among these distances:
20 10 0.05
21 9 0.05
22 27 0.14
23 35 0.18
24 75 0.39
25 18 0.09
26 11 0.06
27 7 0.04
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.53
Consensus pattern (23 bp):
TATTATTTTAAATTTATCATGTA
Found at i:22353057 original size:69 final size:69
Alignment explanation
Indices: 22352984--22353138 Score: 163
Period size: 70 Copynumber: 2.2 Consensus size: 69
22352974 TCATCGTAAC
* * *
22352984 ATTATTTTAAATTTATCATGTAT-ATTTATTTTAAAATTTATCAT-TAATATTTAAAA-TTTATT
1 ATTATTTTAAATTTATCACGTATGA-TTATTCTAAAA-TTATCATAAAATATTTAAAATTTTA-T
22353046 ATGTACT
63 ATGTACT
** * * *
22353053 ATTATTTTGGATTTATCACGTATGATTATTCTAGAATTATCATCAAAATTTTTTAAATTTTATAT
1 ATTATTTTAAATTTATCACGTATGATTATTCTAAAATTATCAT-AAAATATTTAAAATTTTATAT
*
22353118 GTATT
65 GTACT
*
22353123 ATTATTTCAAATTTAT
1 ATTATTTTAAATTTAT
22353139 TATATTTTGT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
68 7 0.10
69 29 0.41
70 30 0.43
71 4 0.06
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (69 bp):
ATTATTTTAAATTTATCACGTATGATTATTCTAAAATTATCATAAAATATTTAAAATTTTATATG
TACT
Found at i:22357105 original size:32 final size:32
Alignment explanation
Indices: 22357064--22357130 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
22357054 TAAAACAAGA
22357064 TTTGGGCCAAACCTATTTATGTAGAGTAGTGT
1 TTTGGGCCAAACCTATTTATGTAGAGTAGTGT
22357096 TTTGGGCCAAACCTATTTATGTAGAGTAGTGT
1 TTTGGGCCAAACCTATTTATGTAGAGTAGTGT
22357128 TTT
1 TTT
22357131 TTTGGGTTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (32 bp):
TTTGGGCCAAACCTATTTATGTAGAGTAGTGT
Found at i:22358164 original size:15 final size:16
Alignment explanation
Indices: 22358144--22358173 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22358134 TTCTCCTATT
22358144 TCTCTTT-TTCTTTAC
1 TCTCTTTATTCTTTAC
22358159 TCTCTTTATTCTTTA
1 TCTCTTTATTCTTTA
22358174 TTTTTATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (16 bp):
TCTCTTTATTCTTTAC
Found at i:22362767 original size:24 final size:24
Alignment explanation
Indices: 22362739--22362790 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
22362729 TTTCAAGAAG
* *
22362739 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
* *
22362763 ATTTAGCATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
22362787 ATTT
1 ATTT
22362791 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:22379182 original size:11 final size:11
Alignment explanation
Indices: 22379142--22379208 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
22379132 ACTTAATCAC
22379142 TTTAATATTAAA
1 TTTAATATT-AA
*
22379154 TTTAAT-CTAA
1 TTTAATATTAA
22379164 TATT-ATATTAA
1 T-TTAATATTAA
*
22379175 TTTAATATAAAA
1 TTTAATAT-TAA
22379187 TATT-ATATTAA
1 T-TTAATATTAA
22379198 TTTAATATTAA
1 TTTAATATTAA
22379209 ATATTATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
10 9 0.20
11 21 0.47
12 13 0.29
13 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTAATATTAA
Found at i:22379192 original size:23 final size:22
Alignment explanation
Indices: 22379146--22379215 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 22
22379136 AATCACTTTA
*
22379146 ATATTAAATTTAATCT-AATATT
1 ATATT-AATTTAATATAAATATT
22379168 ATATTAATTTAATATAAAATATT
1 ATATTAATTTAATAT-AAATATT
22379191 ATATTAATTTAATATTAAATATT
1 ATATTAATTTAATA-TAAATATT
22379214 AT
1 AT
22379216 TAAAATAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
21 9 0.20
22 5 0.11
23 29 0.66
24 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTAATTTAATATAAATATT
Found at i:22379213 original size:7 final size:6
Alignment explanation
Indices: 22379143--22379214 Score: 57
Period size: 5 Copynumber: 12.5 Consensus size: 6
22379133 CTTAATCACT
* *
22379143 TTAATA TTAA-A TTTAAT- CTAATA TT-ATA TTAAT- TTAATA TAAAATA
1 TTAATA TTAATA -TTAATA TTAATA TTAATA TTAATA TTAATA T-TAATA
22379189 TT-ATA TTAAT- TTAATA TTAAATA TTA
1 TTAATA TTAATA TTAATA TT-AATA TTA
22379215 TTAAAATAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
5 25 0.47
6 17 0.32
7 11 0.21
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:22383485 original size:28 final size:27
Alignment explanation
Indices: 22383448--22383546 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 27
22383438 TAATGAGATT
*
22383448 AGCACAAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* *
22383475 ATGCACTAAGTGTGCGAGTATAAGTGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
* *
22383504 AGCATTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
22383532 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
22383547 TACTTATTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 55 0.92
29 3 0.05
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:22384564 original size:47 final size:47
Alignment explanation
Indices: 22384484--22384811 Score: 336
Period size: 47 Copynumber: 7.0 Consensus size: 47
22384474 TTATAATTTG
*
22384484 ATGTATAATGCTGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
22384530 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
* * *
22384577 ATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
*
22384624 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCAAATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTC-CATTTTA
* * * *
22384672 A-GTATATTGATGCTG-CCCATTTT-AATGTA-TAATGCTGTCAAATTTTGA
1 ATGTATA---ATGCTGTCCAATTTTGAGTGTATTGATGCTGTC-CATTTT-A
* * * * *
22384720 GTGTATTGATGCTGTCC-ATTTTTAATGTA-TAATGCTGTCCGATTTTA
1 ATGTA-TAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCC-ATTTTA
* *
22384767 A-GTATATTGATGCTGTCTAA-TTTGA-TGTA-TAATGCTGTCCATTTT
1 ATGTATA---ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTT
22384812 GAGCATATTA
Statistics
Matches: 249, Mismatches: 18, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
45 1 0.00
46 24 0.10
47 158 0.63
48 48 0.19
49 11 0.04
50 7 0.03
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (47 bp):
ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
Found at i:22384669 original size:72 final size:72
Alignment explanation
Indices: 22384484--22384811 Score: 353
Period size: 72 Copynumber: 4.6 Consensus size: 72
22384474 TTATAATTTG
*
22384484 ATGTATAATGCTGTCCATTTTGAGTATATTGATGCTGTCC-ATTTTAATGTATA---ATGCTGTC
1 ATGTATAATGCTGTCCATTTTGAGTGTATTGATGCTGTCCAATTTTAATGTATATTGATGCTG-C
*
22384545 CAATTTTGA
65 CCATTTT-A
* * * *
22384554 GTGTATTGATGCTGTCCATTTT-AATGTA-TAATGCTGTCCAATTTTAA-GTATATTGATGCTGC
1 ATGTA-TAATGCTGTCCATTTTGAGTGTATTGATGCTGTCCAATTTTAATGTATATTGATGCTGC
22384616 CCATTTTA
65 CCATTTTA
*
22384624 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCAAATTTTAA-GTATATTGATGCTGC
1 ATGTATAATGCTGTCC-ATTTTGAGTGTATTGATGCTGTCCAATTTTAATGTATATTGATGCTGC
22384688 CCATTTTA
65 CCATTTTA
* *
22384696 ATGTATAATGCTGTCAAATTTTGAGTGTATTGATGCTGTCCATTTTTAATGTATA---ATGCTGT
1 ATGTATAATGCTGTC-CATTTTGAGTGTATTGATGCTGTCCAATTTTAATGTATATTGATGCTG-
*
22384758 CCGATTTTA
64 CCCATTTTA
* * *
22384767 A-GTATATTGATGCTGTCTAATTTGA-TGTA-TAATGCTGTCC-ATTTT
1 ATGTATA---ATGCTGTCCATTTTGAGTGTATTGATGCTGTCCAATTTT
22384812 GAGCATATTA
Statistics
Matches: 225, Mismatches: 19, Indels: 29
0.82 0.07 0.11
Matches are distributed among these distances:
69 29 0.13
70 46 0.20
71 40 0.18
72 97 0.43
73 13 0.06
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (72 bp):
ATGTATAATGCTGTCCATTTTGAGTGTATTGATGCTGTCCAATTTTAATGTATATTGATGCTGCC
CATTTTA
Found at i:22384828 original size:46 final size:46
Alignment explanation
Indices: 22384491--22384852 Score: 251
Period size: 47 Copynumber: 7.7 Consensus size: 46
22384481 TTGATGTATA
* *
22384491 ATGCTGTCCATTTTGA-GTATATTGATGCTGTCCATTTTAATGTATA---
1 ATGCTGTCCAATTTGATGTATA---ATGCTGTCCATTTTGA-GTATATTG
* *
22384537 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATA---
1 ATGCTGTCCAA-TTTGA-TGTA-TAATGCTGTCCATTTTGA-GTATATTG
* * * *
22384584 ATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTAATGTATA---
1 ATGCTGTCCAATTTGATGTATA---ATGCTGTCCATTTTGA-GTATATTG
* * *
22384631 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCAAATTTTAAGTATATTG
1 ATGCTGTCCAA-TTTGA-TGTA-TAATGCTGTC-CATTTTGAGTATATTG
* * * * *
22384681 ATGCTGCCCATTTTAATGTATAATGCTGTCAAATTTTGAGTGTATTG
1 ATGCTGTCCAATTTGATGTATAATGCTGTC-CATTTTGAGTATATTG
* * *
22384728 ATGCTGTCCATTTTTAATGTATAATGCTGTCCGATTTTAAGTATATTG
1 ATGCTGTCCA-ATTTGATGTATAATGCTGTCC-ATTTTGAGTATATTG
* *
22384776 ATGCTGTCTAATTTGATGTATAATGCTGTCCATTTTGAGCATATT-
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAGTATATTG
* *
22384821 ATCGCTGTCCAATTTGCTGAATAATCGCTGTC
1 AT-GCTGTCCAATTTGATGTATAAT-GCTGTC
22384853 TAAAACAGGG
Statistics
Matches: 269, Mismatches: 29, Indels: 35
0.81 0.09 0.11
Matches are distributed among these distances:
44 1 0.00
45 5 0.02
46 45 0.17
47 140 0.52
48 57 0.21
49 10 0.04
50 11 0.04
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (46 bp):
ATGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAGTATATTG
Found at i:22384851 original size:23 final size:22
Alignment explanation
Indices: 22384778--22384852 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
22384768 GTATATTGAT
* *
22384778 GCTGTCTAATTTGATGTATAAT-
1 GCTGTCCAATTTG-TGAATAATC
* * *
22384800 GCTGTCCATTTTGAGCATATTATC
1 GCTGTCCAATTTGTG-A-ATAATC
22384824 GCTGTCCAATTTGCTGAATAATC
1 GCTGTCCAATTTG-TGAATAATC
22384847 GCTGTC
1 GCTGTC
22384853 TAAAACAGGG
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
21 1 0.02
22 11 0.27
23 15 0.37
24 13 0.32
25 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (22 bp):
GCTGTCCAATTTGTGAATAATC
Found at i:22391366 original size:28 final size:27
Alignment explanation
Indices: 22391333--22391402 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 27
22391323 TAATGAGATT
22391333 AGCACTAAGTGTGCGAGTTTAATTGA-A
1 AGCACTAAGTGTGCGAGTTTAATT-ATA
*
22391360 ATGCACTAAGTGTGCGAGTTTGATTATTA
1 A-GCACTAAGTGTGCGAGTTTAATTA-TA
22391389 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
22391403 ATACTTATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 2 0.05
28 35 0.90
29 2 0.05
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTATA
Found at i:22392427 original size:47 final size:47
Alignment explanation
Indices: 22392348--22392675 Score: 327
Period size: 47 Copynumber: 7.0 Consensus size: 47
22392338 TTATAATTTG
* *
22392348 ATGTATAATACTGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
22392394 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
* * *
22392441 ATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
22392488 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCC-ATTTTA
* * * *
22392536 A-GTATATTGATGCTG-CCCATTTT-AATGTA-TAATGCTGTCAAATTTTGA
1 ATGTATA---ATGCTGTCCAATTTTGAGTGTATTGATGCTGTC-CATTTT-A
* * * * * *
22392584 GTGTATTGATGCTGTCC-ATTTTTAATGTA-TAATGATGTCCAATTTTA
1 ATGTA-TAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCC-ATTTTA
* *
22392631 A-GTATATTGATGCTGTCTAA-TTTGA-TGTA-TAATGCTGTCCATTTT
1 ATGTATA---ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTT
22392676 GAGCATATTA
Statistics
Matches: 245, Mismatches: 21, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
45 1 0.00
46 23 0.09
47 156 0.64
48 47 0.19
49 11 0.04
50 7 0.03
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (47 bp):
ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
Found at i:22392530 original size:72 final size:72
Alignment explanation
Indices: 22392348--22392684 Score: 362
Period size: 72 Copynumber: 4.8 Consensus size: 72
22392338 TTATAATTTG
* *
22392348 ATGTATAATACTGTCC-ATTTTGAGTATATTGATGCTGTCC-ATTTTAATGTATA---ATGCTGT
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAA-GTATATTGATGCTG-
22392408 CCAATTTTGA
64 CCAATTTT-A
* * * *
22392418 GTGTATTGATGCTGTCC-ATTTT-AATGTA-TAATGCTGTCCAATTTTAAGTATATTGATGCTGC
1 ATGTA-TAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGC
*
22392480 CCATTTTA
65 CAATTTTA
22392488 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCC
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCC
*
22392553 CATTTTA
66 AATTTTA
* * *
22392560 ATGTATAATGCTGTCAAATTTTGAGTGTATTGATGCTGTCCATTTTTAATGTATAATGATG-T-C
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAA-GTATATTGATGCTGC
22392623 CAATTTTA
65 CAATTTTA
* * * *
22392631 A-GTATATTGATGCTGTCTAA-TTTGA-TGTA-TAATGCTGTCC-ATTTTGAGCATATT
1 ATGTATA---ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATT
22392685 ATCGCTGTCC
Statistics
Matches: 234, Mismatches: 21, Indels: 26
0.83 0.07 0.09
Matches are distributed among these distances:
68 5 0.02
69 30 0.13
70 40 0.17
71 39 0.17
72 100 0.43
73 20 0.09
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.44
Consensus pattern (72 bp):
ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCC
AATTTTA
Found at i:22395997 original size:26 final size:26
Alignment explanation
Indices: 22395967--22396024 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 26
22395957 CTCATTTGTG
22395967 AGTCATC-TGGAGACAATCTCTCTGAA
1 AGTCATCTTGG-GACAATCTCTCTGAA
22395993 AGTCATCTTGGGACAATCTCTCTGAA
1 AGTCATCTTGGGACAATCTCTCTGAA
22396019 AGTCAT
1 AGTCAT
22396025 GCATGACTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (26 bp):
AGTCATCTTGGGACAATCTCTCTGAA
Found at i:22403972 original size:148 final size:148
Alignment explanation
Indices: 22403699--22403999 Score: 503
Period size: 148 Copynumber: 2.0 Consensus size: 148
22403689 TCCAGTGTGA
* * *
22403699 GTATCGATACTTTTACCTAGAATGCTAAAATTTCACAAGTTAAAACTTTTTTCAAGCTCAAAACA
1 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACGTTTTTCAAGCTCAAAACA
* * * *
22403764 TATTCCTACTCAACATACAAATAATATCTATTTTAACCAAGCATACTATCATCTTTTAACCATGC
66 TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
22403829 TACATGCCATATTAACAC
131 TACATGCCATATTAACAC
*
22403847 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACGTTTTTCATGCTCAAAACA
1 GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACGTTTTTCAAGCTCAAAACA
* *
22403912 TATTCCTACTCAACATACAAATAATGCCAAATTAAACCAAGCATACTATCATCTTTTAACCATTC
66 TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
*
22403977 TACATGCCTTATTAACAC
131 TACATGCCATATTAACAC
22403995 GTATT
1 GTATT
22404000 TATTAAGCAA
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
148 142 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.34
Consensus pattern (148 bp):
GTATTGATACTTTTACCCAGAATGCTAAAATTTCACAAGTTAAAACGTTTTTCAAGCTCAAAACA
TATTCCTACTCAACATACAAATAATACCAAATTAAACCAAGCATACTATCATCTTTTAACCATGC
TACATGCCATATTAACAC
Found at i:22428256 original size:19 final size:20
Alignment explanation
Indices: 22428214--22428256 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
22428204 TAGTCTAAAA
* *
22428214 AAATTAATGATTTAATAGTT
1 AAATTAATGATATAATAATT
22428234 -AATTAATG-TATAATAATT
1 AAATTAATGATATAATAATT
22428252 AAATT
1 AAATT
22428257 GTAAAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
AAATTAATGATATAATAATT
Found at i:22429439 original size:20 final size:20
Alignment explanation
Indices: 22429398--22429513 Score: 87
Period size: 20 Copynumber: 5.8 Consensus size: 20
22429388 TACTTTCATA
* *
22429398 CTCTTTTTAGCATTAAGGTG
1 CTCTTGTTAGCATTACGGTG
* *
22429418 CTCCTGTTAGCATTACGATG
1 CTCTTGTTAGCATTACGGTG
*
22429438 CTCTTGATAGCACATT-C-GTG
1 CTCTTGTTAG--CATTACGGTG
*
22429458 CTCTTGTTAGCACTACGGTG
1 CTCTTGTTAGCATTACGGTG
* *
22429478 CTCTTGATT-GCA-CATCTGTG
1 CTCTTG-TTAGCATTA-CGGTG
*
22429498 CTCTTATTAGCATTAC
1 CTCTTGTTAGCATTAC
22429514 AATATTCTTG
Statistics
Matches: 75, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 60 0.80
21 4 0.05
22 4 0.05
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (20 bp):
CTCTTGTTAGCATTACGGTG
Found at i:22429449 original size:40 final size:39
Alignment explanation
Indices: 22429415--22429545 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
22429405 TAGCATTAAG
*
22429415 GTGCTCCTGTTAGCATTACGATGCTCTTGATAGCACATTC
1 GTGCTCCTGTTAGCACTACGATGCTCTTGATAG-ACATTC
* * *
22429455 GTGCTCTTGTTAGCACTACGGTGCTCTTGATTGCACA-TC
1 GTGCTCCTGTTAGCACTACGATGCTCTTGATAG-ACATTC
* * * * ** *
22429494 TGTGCTCTTATTAGCATTACAATATTCTTGATAGCATATTC
1 -GTGCTCCTGTTAGCACTACGATGCTCTTGATAG-ACATTC
*
22429535 ATGCTCCTGTT
1 GTGCTCCTGTT
22429546 TGCATTATGA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 2 0.03
40 70 0.95
41 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (39 bp):
GTGCTCCTGTTAGCACTACGATGCTCTTGATAGACATTC
Found at i:22430440 original size:13 final size:13
Alignment explanation
Indices: 22430422--22430448 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22430412 AAGGAGAAGA
22430422 GAAGCCCAATTCG
1 GAAGCCCAATTCG
22430435 GAAGCCCAATTCG
1 GAAGCCCAATTCG
22430448 G
1 G
22430449 CAAGGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (13 bp):
GAAGCCCAATTCG
Found at i:22439209 original size:3 final size:3
Alignment explanation
Indices: 22439201--22439256 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
22439191 ATTAGTTTAA
22439201 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22439249 TAT TAT TA
1 TAT TAT TA
22439257 GGTCTTTCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:22442420 original size:14 final size:15
Alignment explanation
Indices: 22442401--22442430 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22442391 CCTCATAAAT
22442401 AAAAAT-TAAAACCA
1 AAAAATCTAAAACCA
22442415 AAAAATCTAAAACCA
1 AAAAATCTAAAACCA
22442430 A
1 A
22442431 TAATGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAATCTAAAACCA
Found at i:22443751 original size:22 final size:23
Alignment explanation
Indices: 22443704--22443754 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
22443694 TATCCTTCAA
* *
22443704 ATTTATTATGTATTATTTTATAT
1 ATTTATTATGTATAATTTAATAT
22443727 ATTT-TTATGTA-AATTTAATATT
1 ATTTATTATGTATAATTTAATA-T
22443749 ATTTAT
1 ATTTAT
22443755 AAACAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
ATTTATTATGTATAATTTAATAT
Found at i:22448688 original size:18 final size:15
Alignment explanation
Indices: 22448651--22448707 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
22448641 CAGATTCAAT
22448651 CAAAAAAAAGAAGAA
1 CAAAAAAAAGAAGAA
22448666 CAAAAAAAAGAAGAA
1 CAAAAAAAAGAAGAA
*
22448681 C-AAAAAAAGAACAA
1 CAAAAAAAAGAAGAA
*
22448695 AAAACAAAAAGAA
1 CAAA-AAAAAGAA
22448708 ACAAAAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 12 0.32
15 18 0.47
16 8 0.21
ACGTcount: A:0.81, C:0.09, G:0.11, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAGAAGAA
Found at i:22448692 original size:26 final size:29
Alignment explanation
Indices: 22448655--22448714 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 29
22448645 TTCAATCAAA
*
22448655 AAAAAGAAGAACAAAAAA-AAGAAG-AAC
1 AAAAAGAAGAACAAAAAACAAAAAGAAAC
22448682 AAAAA-AAGAACAAAAAACAAAAAGAAAC
1 AAAAAGAAGAACAAAAAACAAAAAGAAAC
22448710 AAAAA
1 AAAAA
22448715 CTTCTACCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 12 0.40
27 10 0.33
28 8 0.27
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (29 bp):
AAAAAGAAGAACAAAAAACAAAAAGAAAC
Found at i:22449194 original size:2 final size:2
Alignment explanation
Indices: 22449187--22449213 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22449177 TAACCTACTC
22449187 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
22449214 ATTNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22449952 original size:3 final size:3
Alignment explanation
Indices: 22449944--22449970 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22449934 GGCCAAACAG
22449944 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
22449971 CGAACCGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22450575 original size:47 final size:48
Alignment explanation
Indices: 22450517--22450615 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
22450507 CATAGTTTTG
*
22450517 TTTAAGTAATATTTATAAAAATTAGATAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
22450564 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
22450612 TTTA
1 TTTA
22450616 TTTCATTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
Found at i:22450633 original size:18 final size:18
Alignment explanation
Indices: 22450600--22450652 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
22450590 TAAAATTAAA
22450600 AATTTTAGTGTTTTTATTTC
1 AATTTTA-T-TTTTTATTTC
* *
22450620 ATTTTTATTTTTTATTTT
1 AATTTTATTTTTTATTTC
*
22450638 AATTTTATTTCTTAT
1 AATTTTATTTTTTAT
22450653 AATTTGGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 22 0.76
19 1 0.03
20 6 0.21
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (18 bp):
AATTTTATTTTTTATTTC
Found at i:22451121 original size:14 final size:14
Alignment explanation
Indices: 22451102--22451128 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22451092 CTTAATTAAA
22451102 CTATAATCCCTAAT
1 CTATAATCCCTAAT
22451116 CTATAATCCCTAA
1 CTATAATCCCTAA
22451129 ATCCATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (14 bp):
CTATAATCCCTAAT
Found at i:22451431 original size:22 final size:21
Alignment explanation
Indices: 22451383--22451431 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
22451373 AACCTTAAAT
*
22451383 CCCTAACTCTTAACCACTAAC
1 CCCTAACTCTAAACCACTAAC
** *
22451404 ATCTAACTCATAAACCCCTAAC
1 CCCTAACTC-TAAACCACTAAC
22451426 CCCTAA
1 CCCTAA
22451432 ACCGTAAATC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAACTCTAAACCACTAAC
Found at i:22451725 original size:7 final size:7
Alignment explanation
Indices: 22451695--22451753 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
22451685 TAAATTCGTA
*
22451695 AACCCCA
1 AACCCCT
*
22451702 AATCCCT
1 AACCCCT
* *
22451709 AACTCTT
1 AACCCCT
22451716 AACCCCT
1 AACCCCT
**
22451723 AACATCT
1 AACCCCT
22451730 AACCCCT
1 AACCCCT
22451737 AAACCCCT
1 -AACCCCT
22451745 AACCCCT
1 AACCCCT
22451752 AA
1 AA
22451754 ACCTTAAATC
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
7 33 0.82
8 7 0.17
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCCT
Found at i:22451811 original size:15 final size:15
Alignment explanation
Indices: 22451776--22451813 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
22451766 AACCCTTAAT
22451776 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
22451790 T-AATCCATAATCCC
1 TAAATCCATAATCCC
22451804 TAAATCCATA
1 TAAATCCATA
22451814 TATACTCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:22452136 original size:16 final size:15
Alignment explanation
Indices: 22452098--22452152 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 15
22452088 TCTTTTGAAG
22452098 ATTTTAAAT-ATTCA
1 ATTTTAAATAATTCA
**
22452112 ATTAGAAATAAGTTCA
1 ATTTTAAATAA-TTCA
22452128 ATTTTAAATAATT-A
1 ATTTTAAATAATTCA
*
22452142 A-TATAAATAAT
1 ATTTTAAATAAT
22452153 AAACCAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 9 0.26
14 9 0.26
15 3 0.09
16 13 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (15 bp):
ATTTTAAATAATTCA
Found at i:22452270 original size:24 final size:24
Alignment explanation
Indices: 22452238--22452287 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
22452228 TCTTAAAAAA
*
22452238 CGCCGCTAAAATCTC-GAGCATTAG
1 CGCCGCTAAAA-CCCAGAGCATTAG
22452262 CGCCGCTAAAACCCAGAGCATTAG
1 CGCCGCTAAAACCCAGAGCATTAG
22452286 CG
1 CG
22452288 GTGCTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (24 bp):
CGCCGCTAAAACCCAGAGCATTAG
Found at i:22452282 original size:65 final size:65
Alignment explanation
Indices: 22452200--22452328 Score: 197
Period size: 65 Copynumber: 2.0 Consensus size: 65
22452190 ACAAAAACGA
* *
22452200 CGCTAAAACCCCGAGCATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAATCTC-GAGCATTAGCG
1 CGCTAAAACCCAGAGCATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAA-CCCAGAGCATTAGCG
22452264 C
65 C
* * *
22452265 CGCTAAAACCCAGAGCATTAGCGGTGCTTTTTAGAAAACGCCGCTAAAACCCAGAGCATTAGCG
1 CGCTAAAACCCAGAGCATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAACCCAGAGCATTAGCG
22452329 GCGATTCTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 2 0.03
65 56 0.97
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (65 bp):
CGCTAAAACCCAGAGCATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAACCCAGAGCATTAGCGC
Found at i:22452307 original size:41 final size:41
Alignment explanation
Indices: 22452262--22452557 Score: 344
Period size: 41 Copynumber: 7.2 Consensus size: 41
22452252 CGAGCATTAG
* *
22452262 CGCCGCTAAAACCCAGAGCATTAGCGGTGCTTTTTAGAAAA
1 CGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTTAAAAAA
* * *
22452303 CGCCGCTAAAACCCAGAGCATTAGCGGCGATTCTTAGAAAA
1 CGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTTAAAAAA
* * *
22452344 CGCCGCTAAAACCTAGAGCATTAGCAGCGCTTTTTAGAAAA
1 CGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTTAAAAAA
* * * *
22452385 CACCGCTAAAACCCCGAGCATTAGCGACGC-TTTCACAAAAA
1 CGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTTA-AAAAA
* * * * *
22452426 CGCCGCTAAAACCCATAGCTTTAGCGACTCTTCTTAAAAAA
1 CGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTTAAAAAA
* * *
22452467 TGCCGCT-AAACCCCGAGCATTAGCGGCGCTTTCTAAAAAA
1 CGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTTAAAAAA
* * * *
22452507 CGTCGCTAAAACCCTGAGCATTAGCGGCGCTTTCTCAAAAA
1 CGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTTAAAAAA
*
22452548 CGCCACTAAA
1 CGCCGCTAAA
22452558 GCCACTGAAG
Statistics
Matches: 217, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
40 35 0.16
41 179 0.82
42 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (41 bp):
CGCCGCTAAAACCCAGAGCATTAGCGGCGCTTTTTAAAAAA
Found at i:22452538 original size:122 final size:123
Alignment explanation
Indices: 22452264--22452557 Score: 367
Period size: 122 Copynumber: 2.4 Consensus size: 123
22452254 AGCATTAGCG
* * *
22452264 CCGCTAAAACCCAGAGCATTAGCGGTGCTTTTTA-GAAAACGCCGCTAAAACCCAGAGCATTAGC
1 CCGCTAAAACCCAGAGCATTAGCGGCGC-TTTCACAAAAACGCCGCTAAAACCCAGAGCATTAGC
* * * * *
22452328 GGCGATTCTTAGAAAACGCCGCTAAAACCTAGAGCATTAGCAGCGCTTTTTAGAAAACA
65 GACGATTCTTAAAAAACGCCGCTAAAACCCAGAGCATTAGCAGCGCTTTCTAAAAAACA
* * * *
22452387 CCGCTAAAACCCCGAGCATTAGCGACGCTTTCACAAAAACGCCGCTAAAACCCATAGCTTTAGCG
1 CCGCTAAAACCCAGAGCATTAGCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTAGCG
** * * * *
22452452 ACTCTTCTTAAAAAATGCCGCT-AAACCCCGAGCATTAGCGGCGCTTTCTAAAAAACG
66 ACGATTCTTAAAAAACGCCGCTAAAACCCAGAGCATTAGCAGCGCTTTCTAAAAAACA
* * * *
22452509 TCGCTAAAACCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCACTAAA
1 CCGCTAAAACCCAGAGCATTAGCGGCGCTTTCACAAAAACGCCGCTAAA
22452558 GCCACTGAAG
Statistics
Matches: 147, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
122 77 0.52
123 70 0.48
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (123 bp):
CCGCTAAAACCCAGAGCATTAGCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTAGCG
ACGATTCTTAAAAAACGCCGCTAAAACCCAGAGCATTAGCAGCGCTTTCTAAAAAACA
Found at i:22465905 original size:13 final size:11
Alignment explanation
Indices: 22465871--22465897 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22465861 ATACAACTAT
22465871 ATAAATATTTA
1 ATAAATATTTA
22465882 ATAAATATTTA
1 ATAAATATTTA
22465893 ATAAA
1 ATAAA
22465898 AATATTTACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATAAATATTTA
Found at i:22466991 original size:12 final size:11
Alignment explanation
Indices: 22466970--22467009 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
22466960 AAGCATAAAC
22466970 AAATAAAATGA
1 AAATAAAATGA
22466981 AAATGAAAATGAA
1 AAAT-AAAATG-A
22466994 AAACTAAAATGA
1 AAA-TAAAATGA
22467006 AAAT
1 AAAT
22467010 TTTCTAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.19
12 10 0.38
13 10 0.38
14 1 0.04
ACGTcount: A:0.70, C:0.03, G:0.10, T:0.17
Consensus pattern (11 bp):
AAATAAAATGA
Found at i:22467002 original size:13 final size:12
Alignment explanation
Indices: 22466970--22467008 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
22466960 AAGCATAAAC
22466970 AAATAAAATG-A
1 AAATAAAATGAA
22466981 AAATGAAAATGAA
1 AAAT-AAAATGAA
22466994 AAACTAAAATGAA
1 AAA-TAAAATGAA
22467007 AA
1 AA
22467009 TTTTCTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 6 0.24
13 14 0.56
14 1 0.04
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (12 bp):
AAATAAAATGAA
Found at i:22470462 original size:22 final size:21
Alignment explanation
Indices: 22470428--22470472 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
22470418 AAATAACATG
* *
22470428 AAAATAATTTAATTGATGCACA
1 AAAATAATATAATAGA-GCACA
*
22470450 AAAATCATATAATAGAGCACA
1 AAAATAATATAATAGAGCACA
22470471 AA
1 AA
22470473 TTTGCATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.56, C:0.11, G:0.09, T:0.24
Consensus pattern (21 bp):
AAAATAATATAATAGAGCACA
Found at i:22471826 original size:15 final size:16
Alignment explanation
Indices: 22471801--22471830 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22471791 ATATTGCCTT
22471801 ACCCCCTTTTAAAAAG
1 ACCCCCTTTTAAAAAG
22471817 ACCCCC-TTTAAAAA
1 ACCCCCTTTTAAAAA
22471831 AAAGCAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.33, G:0.03, T:0.23
Consensus pattern (16 bp):
ACCCCCTTTTAAAAAG
Found at i:22471831 original size:16 final size:16
Alignment explanation
Indices: 22471801--22471831 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22471791 ATATTGCCTT
*
22471801 ACCCCCTTTTAAAAAG
1 ACCCCCTTTAAAAAAG
22471817 ACCCCCTTTAAAAAA
1 ACCCCCTTTAAAAAA
22471832 AAGCAATGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.32, G:0.03, T:0.23
Consensus pattern (16 bp):
ACCCCCTTTAAAAAAG
Found at i:22474885 original size:129 final size:129
Alignment explanation
Indices: 22474717--22475180 Score: 618
Period size: 129 Copynumber: 3.6 Consensus size: 129
22474707 CCATCATTTT
* * * * * * * **
22474717 GATCCGCTCCACTGTAACTTCA-AGGAGATAGGATTTGTGGTTCTAATCCACTCCACAACAACTT
1 GATCTGCTCTACTGCAACTTCAGA-GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTT
* * * * * * *
22474781 TAGGGAGATAGTATTGGTTTCTTCTATCTTCTCCACTACAACTTTAGAGAGATAAGACTAGATGC
65 CAGGGAGATAGGATTGGTTTCTTCTATCTTCTCCACTACAACATCAGGGAGATAAGACTGGATAC
22474846 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCT---C--CAACTTC
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
22474906 AGGGAGATAGGATTGGTTTCTTCTATCTTCTCCACTACAACATCAGGGAGATAAGACTGGATAC
66 AGGGAGATAGGATTGGTTTCTTCTATCTTCTCCACTACAACATCAGGGAGATAAGACTGGATAC
*
22474970 GATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
* * * * *
22475035 GGGGAGATAGGATTGGTTTCATCTGTCTGCTCCACTGCAACATCAGGGAGATAAGACTGGATAC
66 AGGGAGATAGGATTGGTTTCTTCTATCTTCTCCACTACAACATCAGGGAGATAAGACTGGATAC
* * * *
22475099 GATCTGCTCTACTACAACTTTAGAGAGATAA-AGTCTATGGTTTTAATCCGCTTCACTGCAACTT
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTGGTTTTAATCCGCTCCACTGCAACTT
*
22475163 CAGGGAGATAGGACTGGT
65 CAGGGAGATAGGATTGGT
22475181 ATGGGATCTT
Statistics
Matches: 301, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
124 115 0.38
126 1 0.00
127 1 0.00
128 1 0.00
129 182 0.60
130 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (129 bp):
GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
AGGGAGATAGGATTGGTTTCTTCTATCTTCTCCACTACAACATCAGGGAGATAAGACTGGATAC
Found at i:22475042 original size:44 final size:43
Alignment explanation
Indices: 22474678--22475172 Score: 182
Period size: 44 Copynumber: 11.6 Consensus size: 43
22474668 AATGTGATCT
* * * * ** *
22474678 GCTCTACTGCAACTTCAGAGAGATGAGATCCATCATTTTGATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-CTTGGTTTTAATCC
* * * * *
22474722 GCTCCACTGTAACTTCAAGGAGATAGGATTTGTGGTTCTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCC
* ** * * * *
22474766 ACTCCACAACAACTTTAGGGAGAT-AG-TATTGGTTTCTTCTATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTTGG-TT-TT-AATCC
* * * * * * *** *
22474810 TCTCCACTACAACTTTAGAGAGATAAGA-C-TAGATGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCC
* *
22474851 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCC
* * *
22474895 GCT---C--CAACTTCAGGGAGATAGGA--TTGGTTTCTTCTATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTTGG-TT-TT-AATCC
* * * * *** *
22474934 TCTCCACTACAACATCAGGGAGATAAGA-C-TGGATACGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCC
* * *
22474975 GCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCC
* * *
22475019 GCTCCACTGCAACTTCGGGGAGATAGGA--TTGG-TTTCATCTGTC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATC---C
* * *** *
22475062 TGCTCCACTGCAACATCAGGGAGATAAGA-C-TGGATACGATCT
1 -GCTCCACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCC
* * * *
22475104 GCTCTACTACAACTTTAGAGAGATAA-AGTCTATGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TCT-TGGTTTTAATCC
*
22475148 GCTTCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
22475173 GGACTGGTAT
Statistics
Matches: 328, Mismatches: 92, Indels: 62
0.68 0.19 0.13
Matches are distributed among these distances:
36 3 0.01
37 3 0.01
38 2 0.01
39 22 0.07
40 7 0.02
41 82 0.25
42 9 0.03
43 5 0.02
44 189 0.58
45 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCC
Found at i:22475104 original size:253 final size:256
Alignment explanation
Indices: 22474717--22475180 Score: 641
Period size: 253 Copynumber: 1.8 Consensus size: 256
22474707 CCATCATTTT
* * *
22474717 GATCCGCTCCACTGTAACTTCAAGGAGATAGGATTTGTGGTTCTAATCCACTCCACAACAACTTT
1 GATCCGCTCCACTGTAACTTCAAGGAGATAAGATCTGTGGTTCTAATCCACTCCACAACAACTTC
* * * * * *
22474782 AGGGAGATAGTATTGGTTTCTTCTATCTTCTCCACTACAACTTTAGAGAGATAAGACTAGATGCG
66 AGGGAGATAGGATTGGTTTCATCTATCTGCTCCACTACAACATCAGAGAGATAAGACTAGATACG
* *
22474847 ATCTGCTCTACTGCAACTTCAGAGAGAT-AAGATCTGTGGTTTTAATCCGC-T-C-CAACTTCAG
131 ATCTGCTCTACTACAACTTCAGAGAGATAAAG-TCTATGGTTTTAATCCGCTTACGCAACTTCAG
*
22474908 GGAGATAGGATTGGTTTCTTCTATCTTCTCCACTACAACATCAGGGAGATAAGACTGGATAC
195 GGAGATAGGACTGGTTTCTTCTATCTTCTCCACTACAACATCAGGGAGATAAGACTGGATAC
* * * * **
22474970 GATCTGCTCTACTGTAACTTC-AGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTT
1 GATCCGCTCCACTGTAACTTCAAG-GAGATAAGATCTGTGGTTCTAATCCACTCCACAACAACTT
* * * * *
22475034 CGGGGAGATAGGATTGGTTTCATCTGTCTGCTCCACTGCAACATCAGGGAGATAAGACTGGATAC
65 CAGGGAGATAGGATTGGTTTCATCTATCTGCTCCACTACAACATCAGAGAGATAAGACTAGATAC
*
22475099 GATCTGCTCTACTACAACTTTAGAGAGATAAAGTCTATGGTTTTAATCCGCTTCACTGCAACTTC
130 GATCTGCTCTACTACAACTTCAGAGAGATAAAGTCTATGGTTTTAATCCGCTT-AC-GCAACTTC
22475164 AGGGAGATAGGACTGGT
193 AGGGAGATAGGACTGGT
22475181 ATGGGATCTT
Statistics
Matches: 180, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
252 2 0.01
253 150 0.83
254 4 0.02
256 1 0.01
258 23 0.13
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (256 bp):
GATCCGCTCCACTGTAACTTCAAGGAGATAAGATCTGTGGTTCTAATCCACTCCACAACAACTTC
AGGGAGATAGGATTGGTTTCATCTATCTGCTCCACTACAACATCAGAGAGATAAGACTAGATACG
ATCTGCTCTACTACAACTTCAGAGAGATAAAGTCTATGGTTTTAATCCGCTTACGCAACTTCAGG
GAGATAGGACTGGTTTCTTCTATCTTCTCCACTACAACATCAGGGAGATAAGACTGGATAC
Found at i:22475282 original size:88 final size:88
Alignment explanation
Indices: 22475186--22475881 Score: 926
Period size: 88 Copynumber: 7.9 Consensus size: 88
22475176 CTGGTATGGG
* * * * *
22475186 ATCTTCGATCTACTTCGCTACCAATACGGGAAGACAAGATCTGTTATCTTTAACCAACTCCACTA
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTA
*
22475251 CTGCTCAGGGAGACAAGGCTAAT
66 CTGCTCAGGGAGACAAGGCTGAT
* * * *
22475274 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATTTTCAACCTACTCTACTG
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTA
* * *
22475339 TTGCTCAGGGAGATAAGGCTGAG
66 CTGCTCAGGGAGACAAGGCTGAT
* * * *
22475362 GTCTTCGATCAACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTG
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTA
*
22475427 CTGCTCAGGGAGACAAGGCTGGT
66 CTGCTCAGGGAGACAAGGCTGAT
*
22475450 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTA
* * * *
22475515 CTGCTGAGAGAGATAAGGCTGAG
66 CTGCTCAGGGAGACAAGGCTGAT
* ** * *
22475538 GTCTTTAATCTACTTCGCTGCCAATACAGGAAGATAATATCT-CTTATTTTTAACCTACTCCACT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC-TATTTTTAACCTACTCCACT
* *
22475602 GCTGCTCAGGGAGACAAGGCTGGT
65 ACTGCTCAGGGAGACAAGGCTGAT
* * * * *
22475626 ACCTTCGATCTACTTCGATGCTAATACAGGAAGACAAGATCTGCTCTTTTTTTAACCTACTCCGC
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG--CTATTTTTAACCTACTCCAC
* * *
22475691 TGCTGCACAGGGAGACAAGGCTGGT
64 TACTGCTCAGGGAGACAAGGCTGAT
* * *
22475716 ATCTTCGATCTACTTTGCTACCAATACAAGAAGACAAGATCTGCTATTTTTAACCTACTCCACTA
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTA
* * * *
22475781 TTGCTTAGGGAGATAAGGCTGAG
66 CTGCTCAGGGAGACAAGGCTGAT
* * *
22475804 GTCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTA
22475869 CTGCTCAGGGAGA
66 CTGCTCAGGGAGA
22475882 TAGGATTTAT
Statistics
Matches: 527, Mismatches: 77, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
87 1 0.00
88 447 0.85
90 78 0.15
91 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (88 bp):
ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTA
CTGCTCAGGGAGACAAGGCTGAT
Found at i:22475443 original size:44 final size:44
Alignment explanation
Indices: 22475388--22475709 Score: 134
Period size: 44 Copynumber: 7.3 Consensus size: 44
22475378 GCTGCTAATA
22475388 CAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCT
1 CAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCT
* * * * ** * * * ***
22475432 CAGGGAGACAAG-GCTGGTATCTTCGATCTACTTCGCTGCCAAT
1 CAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCT
* *
22475475 ACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTACTGCT
1 -CAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCT
* * * *** * * * * ***
22475520 GA-GAGAGATAAG-GCTGAGGTCTTTAATCTACTTCGCTGCCAAT
1 CAGGA-AGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCT
* *
22475563 ACAGGAAGATAATATCT-CTTATTTTTAACCTACTCCACTGCTGCT
1 -CAGGAAGACAAGATCTGC-TATTTTTAACCTACTCCACTGCTGCT
* * * ** ** * * **
22475608 CAGGGAGACAAG-GCTGGTACCTTCGATCTACTTCGA-TGCTAAT
1 CAGGAAGACAAGATCTGCTATTTTTAACCTAC-TCCACTGCTGCT
* * *
22475651 ACAGGAAGACAAGATCTGCTCTTTTTTTAACCTACTCCGCTGCTGCA
1 -CAGGAAGACAAGATCTG--CTATTTTTAACCTACTCCACTGCTGCT
*
22475698 CAGGGAGACAAG
1 CAGGAAGACAAG
22475710 GCTGGTATCT
Statistics
Matches: 184, Mismatches: 80, Indels: 26
0.63 0.28 0.09
Matches are distributed among these distances:
43 56 0.30
44 59 0.32
45 44 0.24
46 13 0.07
47 12 0.07
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
CAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTGCTGCT
Found at i:22475656 original size:264 final size:263
Alignment explanation
Indices: 22475186--22475881 Score: 1038
Period size: 264 Copynumber: 2.6 Consensus size: 263
22475176 CTGGTATGGG
* * *
22475186 ATCTTCGATCTACTTCGCTACCAATACGGGAAGACAAGATCTGTTATCTTTAACCAACTCCACTA
1 ATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTAT-TTTAACCTACTCCACTA
* * **
22475251 CTGCTCAGGGAGACAAGGCTAATATCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCT
65 CTGCTCAGGGAGATAAGGCTGAGGTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCT
* * * *
22475316 GCTATTTTCAACCTACTCTACTGTTGCTCAGGGAGATAAGGCTGAGGTCTTCGATCAACTTCGCT
130 GCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT-AGGTCTTCGATCAACTTCGAT
*
22475381 GCTAATACAGGAAGACAAGATCTG-CTATTTTTAACCTACTCCACTGCTGCTCAGGGAGACAAGG
194 GCTAATACAGGAAGACAAGATCTGCCTATTTTTAACCTACTCCACTGCTGCACAGGGAGACAAGG
22475445 CTGGT
259 CTGGT
*
22475450 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTA
1 ATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATTTT-AACCTACTCCACTA
* * ** *
22475515 CTGCTGAGAGAGATAAGGCTGAGGTCTTTAATCTACTTCGCTGCCAATACAGGAAGATAATATCT
65 CTGCTCAGGGAGATAAGGCTGAGGTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCT
* *
22475580 -CTTATTTTTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT-GGTACCTTCGATCTACTTCG
130 GC-TATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTAGGT--CTTCGATCAACTTCG
* *
22475643 ATGCTAATACAGGAAGACAAGATCTGCTCTTTTTTTAACCTACTCCGCTGCTGCACAGGGAGACA
192 ATGCTAATACAGGAAGACAAGATCTGC-CTATTTTTAACCTACTCCACTGCTGCACAGGGAGACA
22475708 AGGCTGGT
256 AGGCTGGT
* *
22475716 ATCTTCGATCTACTTTGCTACCAATACAAGAAGACAAGATCTGCTATTTTTAACCTACTCCACTA
1 ATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTA-TTTTAACCTACTCCACTA
* * * *
22475781 TTGCTTAGGGAGATAAGGCTGAGGTCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCT
65 CTGCTCAGGGAGATAAGGCTGAGGTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCT
*
22475846 GCTATTTTCAACCTACTCCACTACTGCTCAGGGAGA
130 GCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
22475882 TAGGATTTAT
Statistics
Matches: 389, Mismatches: 35, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
262 3 0.01
263 4 0.01
264 189 0.49
266 188 0.48
267 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (263 bp):
ATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATTTTAACCTACTCCACTAC
TGCTCAGGGAGATAAGGCTGAGGTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTG
CTATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTAGGTCTTCGATCAACTTCGATGC
TAATACAGGAAGACAAGATCTGCCTATTTTTAACCTACTCCACTGCTGCACAGGGAGACAAGGCT
GGT
Found at i:22478329 original size:3 final size:3
Alignment explanation
Indices: 22478321--22478347 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22478311 GGCCAAACAG
22478321 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
22478348 CGAACCGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22478952 original size:47 final size:46
Alignment explanation
Indices: 22478894--22478990 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 46
22478884 CATAGTTTTG
22478894 TTTAAGTAATATTTATAAAAATTAGATAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGAT-AAATTA-AAATTTTAGTGTT
22478941 TTTAAGTAATATTTATAAAAATTAGATAAATTAAAATTTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAATTAAAATTTTAGTGTT
22478987 TTTA
1 TTTA
22478991 TTTCATTTTN
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
45 10 0.20
46 12 0.24
47 27 0.55
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (46 bp):
TTTAAGTAATATTTATAAAAATTAGATAAATTAAAATTTTAGTGTT
Found at i:22481926 original size:43 final size:43
Alignment explanation
Indices: 22481853--22482127 Score: 374
Period size: 43 Copynumber: 6.4 Consensus size: 43
22481843 TTTTCCAAAA
*
22481853 TTAGCGGCGTTTGT-GGTAAAGCGCCGCTAAAGATCATGTTCT
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTCT
* *
22481895 TTAGCGGCGTTTGTGGGTAAAGCGCTGCTAAATGTCATGTTCT
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTCT
* * *
22481938 TTAGCGACATTTGTGGGGTAAAGCGCCGCTAAAGGTCATGTACT
1 TTAGCGGCGTTTGT-GGGTAAAGCGCCGCTAAAGGTCATGTTCT
* * * *
22481982 TTCGCGGCGTTTGTGGGTGAAGCGTCGCTAAAGGTCACGTTCT
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTCT
* * *
22482025 TTAACGGCGTTTATGGGTGAAGCGCCGCTAAAGGTCATGTT-T
1 TTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTCT
* *
22482067 GTTAGCGGCGTTTGTGGGTGAAGCACCGCTAAAGGTCATGTTCT
1 -TTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTCT
*
22482111 TTAGCGGCGTTTTTGGG
1 TTAGCGGCGTTTGTGGG
22482128 CCCGAGTTAC
Statistics
Matches: 205, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
42 15 0.07
43 152 0.74
44 38 0.19
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTCT
Found at i:22481967 original size:87 final size:86
Alignment explanation
Indices: 22481867--22482116 Score: 342
Period size: 87 Copynumber: 2.9 Consensus size: 86
22481857 CGGCGTTTGT
* * *
22481867 GGTAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAGCGCTGCTAAATGTCA
1 GGTAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTGAAGCGCTGCTAAAGGTCA
*
22481932 TGTTCTTTAGCGACATTTGTGG
66 TGTTCTTTAGCGACATTTAT-G
* *
22481954 GGTAAAGCGCCGCTAAAGGTCATGTACTTTCGCGGCGTTTGTGGGTGAAGCG-TCGCTAAAGGTC
1 GGTAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTGAAGCGCT-GCTAAAGGTC
* * * *
22482018 ACGTTCTTTAACGGCGTTTATG
65 ATGTTCTTTAGCGACATTTATG
* * *
22482040 GGTGAAGCGCCGCTAAAGGTCATGTT-TGTTAGCGGCGTTTGTGGGTGAAGCACCGCTAAAGGTC
1 GGTAAAGCGCCGCTAAAGGTCATGTTCT-TTAGCGGCGTTTGTGGGTGAAGCGCTGCTAAAGGTC
22482104 ATGTTCTTTAGCG
65 ATGTTCTTTAGCG
22482117 GCGTTTTTGG
Statistics
Matches: 143, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
85 1 0.01
86 69 0.48
87 73 0.51
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.30
Consensus pattern (86 bp):
GGTAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGTGAAGCGCTGCTAAAGGTCA
TGTTCTTTAGCGACATTTATG
Found at i:22485761 original size:16 final size:16
Alignment explanation
Indices: 22485740--22485771 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22485730 GTTTTGTTGT
*
22485740 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
22485756 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
22485772 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:22486057 original size:51 final size:50
Alignment explanation
Indices: 22485999--22486189 Score: 185
Period size: 51 Copynumber: 3.8 Consensus size: 50
22485989 CCGGTTCATA
*
22485999 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACAAG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCATCACTAT-CGATACAAG
* ** * *
22486050 TAGTAGCCTCCACATAGTACTACACA--C-ATGATCGAAGCTATTCGGTACGCA-
1 TAGTAGCCTGCACATAGTACTACACATGCGACCATC--A-CTA-TCGATAC-AAG
* * * *
22486101 TAGTAGCCTGCACATTGTACTACACATGCGACCTATCATTAT-GATATACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCGATACAAG
*
22486151 TAGTAGCCTGCACATAGTACTACACAAGCGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACATGCGACCATCACT
22486190 TTCACTTTCA
Statistics
Matches: 112, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
48 4 0.04
49 5 0.04
50 35 0.31
51 58 0.52
52 4 0.04
53 2 0.02
54 1 0.01
55 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCGATACAAG
Found at i:22486205 original size:101 final size:100
Alignment explanation
Indices: 22485992--22486176 Score: 228
Period size: 102 Copynumber: 1.8 Consensus size: 100
22485982 AATGATGCCG
* *
22485992 GTTCATATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACAAGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTAT-CGATACAAGTAGTAGC
** *
22486057 CTCCACATAGTACTACACACATGATCGAAGCTATTCG
65 CTCCACATAGTACTACACACACCATC-AAGCTATTCC
* * * * * *
22486094 GTACGCATAGTAGCCTGCACATTGTACTACACATGCGACCTATCATTAT-GATATACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCGATACAAGTAGTAGC
*
22486158 CTGCACATAGTACTACACA
65 CTCCACATAGTACTACACA
22486177 AGCGACCATC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 31 0.42
102 35 0.48
103 7 0.10
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (100 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCGATACAAGTAGTAGCC
TCCACATAGTACTACACACACCATCAAGCTATTCC
Found at i:22493345 original size:9 final size:9
Alignment explanation
Indices: 22493331--22493357 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
22493321 CTTAACAACT
22493331 TTCAATTTA
1 TTCAATTTA
22493340 TTCAATTTA
1 TTCAATTTA
22493349 TTCAATTTA
1 TTCAATTTA
22493358 GTCCTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
TTCAATTTA
Found at i:22499699 original size:20 final size:20
Alignment explanation
Indices: 22499657--22499713 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
22499647 ATTCATATAT
* **
22499657 ATTTA-TTTTTATTTGCTTT
1 ATTTATTTTTTATTTTCTGG
22499676 ATTTATTTTTTATTTTCTGG
1 ATTTATTTTTTATTTTCTGG
22499696 ATTTATATCTTTTATTTT
1 ATTTAT-T-TTTTATTTT
22499714 ATTTTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 17 0.53
21 1 0.03
22 9 0.28
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (20 bp):
ATTTATTTTTTATTTTCTGG
Found at i:22499732 original size:47 final size:48
Alignment explanation
Indices: 22499633--22499733 Score: 109
Period size: 49 Copynumber: 2.1 Consensus size: 48
22499623 TTATTTTTTA
* * *
22499633 TTTTTATTTTTTGTATTCATATATATTTATTTTTATTTGCTTTATTTAT
1 TTTTTATTTTCTGGATTCATATATATTTATTTTTATTT-CTTTATGTAT
* *
22499682 TTTTTATTTTCTGGATTTATATCT-TTTA-TTTTATTT-TATTATGTACT
1 TTTTTATTTTCTGGATTCATATATATTTATTTTTATTTCT-TTATGTA-T
22499729 TTTTT
1 TTTTT
22499734 GTTATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.02
46 6 0.13
47 14 0.31
48 4 0.09
49 20 0.44
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (48 bp):
TTTTTATTTTCTGGATTCATATATATTTATTTTTATTTCTTTATGTAT
Found at i:22509523 original size:22 final size:22
Alignment explanation
Indices: 22509463--22509520 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
22509453 AATCTTCAAG
22509463 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
22509482 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
22509504 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
22509521 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:22510657 original size:24 final size:24
Alignment explanation
Indices: 22510630--22510675 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
22510620 GGAAAGGTGA
**
22510630 TTTTCTTTGTTTTCTTCTTTTCCT
1 TTTTCTTTAATTTCTTCTTTTCCT
* *
22510654 TTTTTTTTAATTTCTTTTTTTC
1 TTTTCTTTAATTTCTTCTTTTC
22510676 TCTTGGTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTCTTTAATTTCTTCTTTTCCT
Found at i:22511520 original size:3 final size:3
Alignment explanation
Indices: 22511514--22511566 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
22511504 ATAATAATAA
* * *
22511514 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
22511562 TAT TA
1 TAT TA
22511567 CTTGATTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:22516003 original size:12 final size:12
Alignment explanation
Indices: 22515963--22516010 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
22515953 TTAGATCCTT
22515963 TCAAAA-AAAAA
1 TCAAAATAAAAA
*
22515974 TCAAAATCAAAA
1 TCAAAATAAAAA
*
22515986 TCAAAATCAAAA
1 TCAAAATAAAAA
*
22515998 TAAAAAATAAAAA
1 T-CAAAATAAAAA
22516011 ATGAGAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
11 6 0.19
12 17 0.53
13 9 0.28
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (12 bp):
TCAAAATAAAAA
Found at i:22516003 original size:18 final size:18
Alignment explanation
Indices: 22515963--22516010 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
22515953 TTAGATCCTT
22515963 TCAAAA-AAAAATCAAAA
1 TCAAAATAAAAATCAAAA
*
22515980 TCAAAATCAAAATCAAAA
1 TCAAAATAAAAATCAAAA
*
22515998 TAAAAAATAAAAA
1 T-CAAAATAAAAA
22516011 ATGAGAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 9 0.35
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (18 bp):
TCAAAATAAAAATCAAAA
Found at i:22516006 original size:7 final size:7
Alignment explanation
Indices: 22515994--22516057 Score: 65
Period size: 7 Copynumber: 8.6 Consensus size: 7
22515984 AATCAAAATC
*
22515994 AAAATAA
1 AAAAGAA
*
22516001 AAAATAA
1 AAAAGAA
22516008 AAAATGAGA
1 AAAA-GA-A
22516017 GAAAAAGAA
1 -AAA-AGAA
*
22516026 AGAAGAA
1 AAAAGAA
22516033 AAAAGAA
1 AAAAGAA
22516040 AAAAGAA
1 AAAAGAA
22516047 AAAAGAA
1 AAAAGAA
22516054 AAAA
1 AAAA
22516058 TCTAGATGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
7 39 0.78
8 3 0.06
9 2 0.04
10 5 0.10
11 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (7 bp):
AAAAGAA
Found at i:22516010 original size:6 final size:6
Alignment explanation
Indices: 22515970--22516002 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
22515960 CTTTCAAAAA
22515970 AAAATC AAAATC AAAATC AAAATC AAAAT- AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
22516003 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:22518529 original size:44 final size:44
Alignment explanation
Indices: 22518262--22518704 Score: 190
Period size: 44 Copynumber: 10.1 Consensus size: 44
22518252 AACAATAGCA
* * * * *
22518262 GAGCAGATCGAAGATGGTGAATCTTATCTCTCTGAGATTATAGTG
1 GAGCAGATTGAAGCTAGT-AATCTTATCTCCCTGAGATTACAGTG
* * * * *
22518307 GAGCAGAATGAAGCCAGTAATCCTATTTCTCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTG
* ** * ** *
22518351 GAGCGGATT-AAAATAAAG-GATCTTATCTTTCTGA-AGTTACAGTA
1 GAGCAGATTGAAGCT--AGTAATCTTATCTCCCTGAGA-TTACAGTG
* * * * *
22518395 GAGTAGATCGCATC-AG--GTCTTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTG
** * ** * * *
22518436 GAATAAACCGAAG-AATTTCAGATCTTATCTCCCTGAGATTACAGCG
1 GAGCAGATTGAAGCTA-GT-A-ATCTTATCTCCCTGAGATTACAGTG
* *
22518482 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTG
1 GAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTG
* * ** ** *** *
22518526 GAGCGGGTT-AAAATAAAAGATCTTATCTATTTGA-AGTTACAGTA
1 GAGCAGATTGAAGCTAGTA-ATCTTATCTCCCTGAGA-TTACAGTG
* * * * *
22518570 GAGTAGATCGCATC-AG--GTCTTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTG
* ** ** * ** *
22518611 AAATAGACCGAAGAATTTTAGATCTTATCTCCCTGAGATTACAGCG
1 GAGCAGATTGAAG-CTAGTA-ATCTTATCTCCCTGAGATTACAGTG
*
22518657 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTG
22518701 GAGC
1 GAGC
22518705 GGGTTAAAAT
Statistics
Matches: 286, Mismatches: 91, Indels: 43
0.68 0.22 0.10
Matches are distributed among these distances:
41 54 0.19
42 4 0.01
43 9 0.03
44 134 0.47
45 21 0.07
46 63 0.22
47 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
GAGCAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTG
Found at i:22518573 original size:175 final size:174
Alignment explanation
Indices: 22518282--22518826 Score: 928
Period size: 175 Copynumber: 3.1 Consensus size: 174
22518272 AAGATGGTGA
* * * * * * *
22518282 ATCTTATCTCTCTGAGATTATAGTGGAGCAGAATGAAGCCAGTAATCCTATTTCTCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
*
22518347 AGTGGAGCGGATTAAAATAAAGGATCTTATCTTTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGGTTAAAATAAAGGATCTTATCTTT-TGAAGTTACAGTAGAGTAGATCGCATCAGG
*
22518412 TCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAATTTCAG
130 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
*
22518457 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
*
22518522 AGTGGAGCGGGTTAAAATAAAAGATCTTATCTATTTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAGCGGGTTAAAATAAAGGATCTTATCT-TTTGAAGTTACAGTAGAGTAGATCGCATCAGG
* *
22518587 TCTTATCTCCCTGAGATTACAGTGAAATAGACCGAAGAATTTTAG
130 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
22518632 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* *
22518697 AGTGGAGCGGGTTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGAAGAGTAGATCGCATCAGG
66 AGTGGAGCGGGTTAAAATAAAGGATCTTATCT-TTTGAAGTTACAGTAGAGTAGATCGCATCAGG
22518762 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
130 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
22518807 ATCTTATCTCCCTGAGATTA
1 ATCTTATCTCCCTGAGATTA
22518827 AAGTGGAATA
Statistics
Matches: 349, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
175 347 0.99
176 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (174 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGGTTAAAATAAAGGATCTTATCTTTTGAAGTTACAGTAGAGTAGATCGCATCAGGT
CTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAG
Found at i:22518654 original size:46 final size:46
Alignment explanation
Indices: 22518407--22518864 Score: 215
Period size: 46 Copynumber: 10.3 Consensus size: 46
22518397 GTAGATCGCA
* *
22518407 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAAACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
* ** ** * *
22518453 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAAT-T
* * ** **** *
22518499 T-A-ATCCTATCTCCCTAAGATTACAGTGG-AGCGGGTTAA-AATA
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
** *** * * * *
22518541 AAAGATCTTATCTATTTGA-AGTTACAGTAGAGTAGATC---GCA--
1 TCAGATCTTATCTCCCTGAGA-TTACAGTGGAATAGACCGAAGAATT
* *
22518582 TCAGGTCTTATCTCCCTGAGATTACAGTGAAATAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
* * ** ** * *
22518628 TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAAT-T
* ** ****
22518674 T-A-ATCCTATCTCCCTGAGATTACAGTGG-AGCGGGTTAA-AA-T
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
** * ** * * *
22518715 AAAGGATCTTATCTCTCTGA-AGTTACAGAAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAATAGACCGAAGAATT
*
22518757 TCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
*
22518803 TCAGATCTTATCTCCCTGAGATTAAAGTGGAATAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
*
22518849 TCAGACCTTATCTCCC
1 TCAGATCTTATCTCCC
22518865 AGATAATGTA
Statistics
Matches: 296, Mismatches: 89, Indels: 54
0.67 0.20 0.12
Matches are distributed among these distances:
41 53 0.18
42 4 0.01
43 14 0.05
44 89 0.30
45 6 0.02
46 130 0.44
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
Found at i:22518728 original size:44 final size:44
Alignment explanation
Indices: 22518456--22518783 Score: 133
Period size: 44 Copynumber: 7.5 Consensus size: 44
22518446 AAGAATTTCA
**
22518456 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
* * * * * * **
22518500 AATCCTATCTCCCTAAGATTACAGTGGAGCGGGTT-AAAATAAAA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAAT-AGT
*** ** * * *
22518544 GATCTTATCTATTTGA-AGTTACAGTAGAGTAGATCG--CATCAG-
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAAAT-AGT
* * ** ** **
22518586 G-TCTTATCTCCCTGAGATTACAGTGAAATAGACCGAAGAATTTT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-AATAGT
**
22518630 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 -GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
* * * * *
22518675 AATCCTATCTCCCTGAGATTACAGTGGAGCGGGTT-AAAATAAAG-
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAAT--AGT
* ** * * *
22518719 GATCTTATCTCTCTGA-AGTTACAGAAGAGTAGATCG--CATCAG-
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAAAT-AGT
22518761 G-TCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAGATTACAG
22518784 TGGAATAGAC
Statistics
Matches: 206, Mismatches: 63, Indels: 33
0.68 0.21 0.11
Matches are distributed among these distances:
41 44 0.21
42 6 0.03
43 13 0.06
44 108 0.52
45 5 0.02
46 30 0.15
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAGT
Found at i:22518957 original size:50 final size:49
Alignment explanation
Indices: 22518882--22519356 Score: 282
Period size: 50 Copynumber: 9.5 Consensus size: 49
22518872 GTAGTGGAGC
*
22518882 AGATTAAAGCCACAACGGTGAATCTTGTTTCCCCGACATTGCAATTAGAA
1 AGATTAAAGCCACAACGGTGAATCTTGATTCCCCGACATTGC-ATTAGAA
* * * * ** * *
22518932 AGATTAAAGCTACAACAGCGAATCTT-ACTCCCTAAGCGA-TGCAGTGGAA
1 AGATTAAAGCCACAACGGTGAATCTTGATTCCCCGA-C-ATTGCATTAGAA
* * * * *
22518981 TAGATTAAAGCCACATCTGTGAATCTTGCTTCCCCGACATTGCGGTTAAAA
1 -AGATTAAAGCCACAACGGTGAATCTTGATTCCCCGACATTGC-ATTAGAA
* * * * * * * * *
22519032 AGATTAAATCTATAACGGGGAATCTT-ACTCCCCAGGCAGTGCAGTGGAA
1 AGATTAAAGCCACAACGGTGAATCTTGATTCCCC-GACATTGCATTAGAA
* * *
22519081 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 -AGATTAAAGCCACAACGGTGAATCTTGATTCCCCGACATTGCA-TTAGAA
* * * * * ***
22519132 AGATTAAAGCTACAACAGCGAATCTT-ACTCCCCAGGCGA-TGCAGCGGAA
1 AGATTAAAGCCACAACGGTGAATCTTGATTCCCC-GAC-ATTGCATTAGAA
* * * *
22519181 CAGATTAAAGCCACATCGGTGAATCATGCTTCCCCGACATTGCAGTTAAAA
1 -AGATTAAAGCCACAACGGTGAATCTTGATTCCCCGACATTGCA-TTAGAA
* * * * **
22519232 AGATTAAAGCTACAACAGTGAATCTT-ACTCCCCAGGCGA-TGCA-GCGCAA
1 AGATTAAAGCCACAACGGTGAATCTTGATTCCCC-GAC-ATTGCATTAG-AA
* * * * *
22519281 CAGATTAAAGCCACATCGGTGAATCATGCTTCCCCGACATTGTATTAAAA
1 -AGATTAAAGCCACAACGGTGAATCTTGATTCCCCGACATTGCATTAGAA
* * *
22519331 AGATTAAAGCAACAATGGCGAATCTT
1 AGATTAAAGCCACAACGGTGAATCTT
22519357 ACTTTCCAAA
Statistics
Matches: 306, Mismatches: 96, Indels: 47
0.68 0.21 0.10
Matches are distributed among these distances:
49 56 0.18
50 219 0.72
51 31 0.10
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (49 bp):
AGATTAAAGCCACAACGGTGAATCTTGATTCCCCGACATTGCATTAGAA
Found at i:22519055 original size:100 final size:100
Alignment explanation
Indices: 22518881--22519359 Score: 728
Period size: 100 Copynumber: 4.8 Consensus size: 100
22518871 TGTAGTGGAG
* * * *
22518881 CAGATTAAAGCCACAACGGTGAATCTTGTTTCCCCGACATTGCAATTAGAAAGATTAAAGCTACA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
* * *
22518946 ACAGCGAATCTTACTCCCTAAGCGATGCAGTGGAA
66 ACAGCGAATCTTACTCCCCAGGCGATGCAGCGGAA
* * * * *
22518981 TAGATTAAAGCCACATCTGTGAATCTTGCTTCCCCGACATTGCGGTTAAAAAGATTAAATCTATA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
* * *
22519046 ACGGGGAATCTTACTCCCCAGGC-AGTGCAGTGGAA
66 ACAGCGAATCTTACTCCCCAGGCGA-TGCAGCGGAA
22519081 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
22519146 ACAGCGAATCTTACTCCCCAGGCGATGCAGCGGAA
66 ACAGCGAATCTTACTCCCCAGGCGATGCAGCGGAA
*
22519181 CAGATTAAAGCCACATCGGTGAATCATGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
* *
22519246 ACAGTGAATCTTACTCCCCAGGCGATGCAGCGCAA
66 ACAGCGAATCTTACTCCCCAGGCGATGCAGCGGAA
* * *
22519281 CAGATTAAAGCCACATCGGTGAATCATGCTTCCCCGACATTGTA-TTAAAAAGATTAAAGCAACA
1 CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
**
22519345 ATGGCGAATCTTACT
66 ACAGCGAATCTTACT
22519360 TTCCAAAGGT
Statistics
Matches: 348, Mismatches: 29, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
99 32 0.09
100 315 0.91
101 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACA
ACAGCGAATCTTACTCCCCAGGCGATGCAGCGGAA
Found at i:22520101 original size:26 final size:25
Alignment explanation
Indices: 22520049--22520109 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 25
22520039 GGAAAGGTGA
* *
22520049 TTTTCTTTGTTTTCTTCTTTTCCTT
1 TTTTTTTTGTTTTCTTCTCTTCCTT
* **
22520074 TTTTTATTTGTTTTTTTCTCTTGGTT
1 TTTTT-TTTGTTTTCTTCTCTTCCTT
*
22520100 TTCTTTTTGT
1 TTTTTTTTGT
22520110 GTATCAAACA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.02, C:0.13, G:0.08, T:0.77
Consensus pattern (25 bp):
TTTTTTTTGTTTTCTTCTCTTCCTT
Found at i:22522940 original size:27 final size:27
Alignment explanation
Indices: 22522900--22523001 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 27
22522890 GTGTACCCTA
*
22522900 AAAGGAATGCCTTTGTGGCATATTTTG
1 AAAGGAATGCCTTTGTGGCATATTCTG
* * ** *
22522927 AAAGGAATGTCTTTGTAGTGTACTCTG
1 AAAGGAATGCCTTTGTGGCATATTCTG
*
22522954 AAAGGAATGCCTTTGTGGCATATCCTG
1 AAAGGAATGCCTTTGTGGCATATTCTG
* * * *
22522981 AATGGATTGCTTTTATGGCAT
1 AAAGGAATGCCTTTGTGGCAT
22523002 GTCCTGTATG
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (27 bp):
AAAGGAATGCCTTTGTGGCATATTCTG
Found at i:22523263 original size:26 final size:26
Alignment explanation
Indices: 22523227--22523277 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
22523217 TTTCACTGCA
*
22523227 TAGGTGTTCGCCTATGAATTGTGATG
1 TAGGTGTTCGCCTATAAATTGTGATG
22523253 TAGGTGTTCGCCTATAAATTGTGAT
1 TAGGTGTTCGCCTATAAATTGTGAT
22523278 TGTGTACATT
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:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (26 bp):
TAGGTGTTCGCCTATAAATTGTGATG
Found at i:22526427 original size:58 final size:58
Alignment explanation
Indices: 22526337--22526453 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 58
22526327 AGTGATTCTT
* *
22526337 TCTTGGTTAATATGACCAAGTCTCAAATGTTAAAAGTACGCGTTATTAGACTGAGAAG
1 TCTTGGTTAACATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGACTGAGAAG
* * *
22526395 TCTTGGTTAACATGACCAAGTCTGAAATGTTAAAGGTACGCCTTATTAGAGTGAGAAG
1 TCTTGGTTAACATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGACTGAGAAG
22526453 T
1 T
22526454 TTTAAGTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (58 bp):
TCTTGGTTAACATGACCAAGTCTCAAATGTTAAAAGTACGCCTTATTAGACTGAGAAG
Found at i:22528213 original size:22 final size:23
Alignment explanation
Indices: 22528175--22528232 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
22528165 CATTCCAAAT
*
22528175 CATCCATTA-AACATTCAACTAAA
1 CATCCATTATAA-GTTCAACTAAA
* *
22528198 CAT-CATTATAAGTTCACCTATA
1 CATCCATTATAAGTTCAACTAAA
22528220 CATGCCATTATAA
1 CAT-CCATTATAA
22528233 CCTTGGCCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 16 0.55
23 5 0.17
24 8 0.28
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.31
Consensus pattern (23 bp):
CATCCATTATAAGTTCAACTAAA
Found at i:22532557 original size:16 final size:17
Alignment explanation
Indices: 22532531--22532562 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22532521 TTTAAATAGA
22532531 TAAATTAATTTTCTAAT
1 TAAATTAATTTTCTAAT
22532548 TAAA-TAATTTTCTAA
1 TAAATTAATTTTCTAA
22532563 ACCAAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATTAATTTTCTAAT
Found at i:22545333 original size:5 final size:5
Alignment explanation
Indices: 22545323--22545368 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
22545313 GCATACCCAT
* *
22545323 CAATC CAATC CAATC CAATC CAATC CAATG CAATG CAATC CAATC C
1 CAATC CAATC CAATC CAATC CAATC CAATC CAATC CAATC CAATC C
22545369 TCACGGTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.39, C:0.37, G:0.04, T:0.20
Consensus pattern (5 bp):
CAATC
Found at i:22552977 original size:19 final size:19
Alignment explanation
Indices: 22552953--22552991 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22552943 CCATTATAGA
*
22552953 GAGGTGGCAAGGTGATGGT
1 GAGGTGGCAAGGTGACGGT
*
22552972 GAGGTGGTAAGGTGACGGT
1 GAGGTGGCAAGGTGACGGT
22552991 G
1 G
22552992 GTGCAAAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.54, T:0.21
Consensus pattern (19 bp):
GAGGTGGCAAGGTGACGGT
Found at i:22558784 original size:19 final size:20
Alignment explanation
Indices: 22558762--22558804 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
22558752 GCCCACGTTC
*
22558762 AGGCT-TATGGCTCAATACA
1 AGGCTATATGGCTCAACACA
*
22558781 AGGCTACTATGGTTCAACACA
1 AGGCTA-TATGGCTCAACACA
22558802 AGG
1 AGG
22558805 TTACGTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
21 15 0.75
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (20 bp):
AGGCTATATGGCTCAACACA
Found at i:22561195 original size:14 final size:14
Alignment explanation
Indices: 22561176--22561202 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22561166 GCTACCATTT
22561176 TACTATTATGTTGC
1 TACTATTATGTTGC
22561190 TACTATTATGTTG
1 TACTATTATGTTG
22561203 TTATTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:22561270 original size:30 final size:30
Alignment explanation
Indices: 22561236--22561298 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
22561226 ACTTATTTTA
* *
22561236 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
*
22561266 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
22561296 TTG
1 TTG
22561299 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:22561601 original size:16 final size:15
Alignment explanation
Indices: 22561580--22561609 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22561570 TTTTAGTTGA
22561580 GTCCGGCCCGAGCCCG
1 GTCCGGCCCG-GCCCG
22561596 GTCCGGCCCGGCCC
1 GTCCGGCCCGGCCC
22561610 ATGAGCACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.03, C:0.53, G:0.37, T:0.07
Consensus pattern (15 bp):
GTCCGGCCCGGCCCG
Found at i:22562272 original size:15 final size:13
Alignment explanation
Indices: 22562252--22562286 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
22562242 TTATCTAAAG
22562252 GTTAATTAGGTTAA
1 GTTAATTA-GTTAA
22562266 TGTTAATTAGTTAA
1 -GTTAATTAGTTAA
22562280 GTTAATT
1 GTTAATT
22562287 TAAGTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 5 0.25
15 8 0.40
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (13 bp):
GTTAATTAGTTAA
Found at i:22564449 original size:130 final size:130
Alignment explanation
Indices: 22564206--22564452 Score: 352
Period size: 130 Copynumber: 1.9 Consensus size: 130
22564196 ACACTGCCGT
** ** * *
22564206 GTGTTCAACAAATTTAGGTTGTTTTTTAGTTCACACGGTTTGGCGACACGACTGTGTGACACTTA
1 GTGTTCAACAAATTTAGGTTGTTTTTTAGTTCACACGGCCTGGCGACACGACCATATGACACTGA
** * **
22564271 GTTACATGGCATGCAATTGTTGTACGATTTGGGGTCACAACTTTGTGATGGCACTGTGAACGGTC
66 GTTACATGGCATGCAATTGTTCCACGATTTGGGGACACAACTGGGTGATGGCACTGTGAACGGTC
*
22564336 GTGTTCAACAAATTTAGGTTGTTTTTTAGTTCACACGGCCTGGCGACACGGCCATATGACACTCG
1 GTGTTCAACAAATTTAGGTTGTTTTTTAGTTCACACGGCCTGGCGACACGACCATATGACACT-G
* *
22564401 A-TTACATGGCATGCAATTGTTCCACGATTTGTGGACACGACTGGGTGATGGC
65 AGTTACATGGCATGCAATTGTTCCACGATTTGGGGACACAACTGGGTGATGGC
22564453 GCCACACAGC
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 101 0.99
131 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (130 bp):
GTGTTCAACAAATTTAGGTTGTTTTTTAGTTCACACGGCCTGGCGACACGACCATATGACACTGA
GTTACATGGCATGCAATTGTTCCACGATTTGGGGACACAACTGGGTGATGGCACTGTGAACGGTC
Found at i:22568709 original size:18 final size:17
Alignment explanation
Indices: 22568668--22568717 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
22568658 ATAAATCTAA
*
22568668 AAAATCTTTAAAATAAAT
1 AAAAT-TTTAAAAAAAAT
22568686 ATAAATTTTAAAAAAAATT
1 A-AAATTTTAAAAAAAA-T
*
22568705 AAAATATTAAAAA
1 AAAATTTTAAAAA
22568718 TCATGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 22 0.79
19 6 0.21
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTTTAAAAAAAAT
Found at i:22574214 original size:39 final size:39
Alignment explanation
Indices: 22574160--22574239 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
22574150 TAGGGATCCT
*
22574160 AAGGATTAAAAATATAAATAATAGAACATGTAAAACGTG
1 AAGGATTAAAAATATAAATAATAGAACATGTAAAACATG
* *
22574199 AAGGATTAAGAATATAAATAATAGAGCATGTAAAACATG
1 AAGGATTAAAAATATAAATAATAGAACATGTAAAACATG
22574238 AA
1 AA
22574240 ATCTATCTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.56, C:0.05, G:0.16, T:0.23
Consensus pattern (39 bp):
AAGGATTAAAAATATAAATAATAGAACATGTAAAACATG
Found at i:22576584 original size:269 final size:269
Alignment explanation
Indices: 22576100--22576637 Score: 925
Period size: 269 Copynumber: 2.0 Consensus size: 269
22576090 TCCAAACTTC
*
22576100 AGCTACTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTTCGTAATTCCT
1 AGCTACTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTTCGCAATTCCT
* *
22576165 TTATTAGATCCTGTCGAACAGTAGGTGCCGGTACTGTAGCAAAAGTAATTTCCGCAACACACTAA
66 TTATTAGAGCCCGTCGAACAGTAGGTGCCGGTACTGTAGCAAAAGTAATTTCCGCAACACACTAA
*
22576230 AGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACCTTGCTCAAC
131 AGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACCTCGCTCAAC
*
22576295 ATTAGGTTGTTAAGCACTAGCTAGGTTAACATTCAGCGTTACTGATTCAGTTTCCTCACAATCCT
196 ATTAGGTTGTTAAGCACTAGCTAGGTTAACACTCAGCGTTACTGATTCAGTTTCCTCACAATCCT
*
22576360 CAGTATAAT
261 CACTATAAT
* *
22576369 AGCTGCTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTC-TCTGCAATTTC
1 AGCTACTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTTC-GCAATTCC
* * *
22576433 TTTATTAGAGCCCGTCGAACAGTAGGTGTCGGTACTGTAGCAGAAGTAATTTTCGCAACACACTA
65 TTTATTAGAGCCCGTCGAACAGTAGGTGCCGGTACTGTAGCAAAAGTAATTTCCGCAACACACTA
* *
22576498 AAGAGCATCAGCGATAGCTCGAAGTAAATTTGAATCACCTACTCCCTCATTATTAGCTCGCTCAA
130 AAGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACCTCGCTCAA
* *
22576563 CATTAGGTTGTTGAGCACTAGCTAGGTTAACACTCAGCGTTACTGATTCAGTTTCCTTACAATCC
195 CATTAGGTTGTTAAGCACTAGCTAGGTTAACACTCAGCGTTACTGATTCAGTTTCCTCACAATCC
22576628 TCACTATAAT
260 TCACTATAAT
22576638 CATCGCTAGA
Statistics
Matches: 253, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
268 2 0.01
269 251 0.99
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (269 bp):
AGCTACTAAGAGATCAACCCCTTTCAATCTCAAAAATTCAATCGCACCATTTCTTCGCAATTCCT
TTATTAGAGCCCGTCGAACAGTAGGTGCCGGTACTGTAGCAAAAGTAATTTCCGCAACACACTAA
AGAGCATCAGCGATAGCTCAAAGTAAATTTGAATCACCTACTCCCTCATTATTACCTCGCTCAAC
ATTAGGTTGTTAAGCACTAGCTAGGTTAACACTCAGCGTTACTGATTCAGTTTCCTCACAATCCT
CACTATAAT
Found at i:22579539 original size:19 final size:18
Alignment explanation
Indices: 22579505--22579553 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 18
22579495 ATCCATATCA
*
22579505 CATTTCATCATTTCATATT
1 CATTTC-TCATCTCATATT
22579524 CCATTTCTCATCTCATATT
1 -CATTTCTCATCTCATATT
22579543 CATTTCTCATC
1 CATTTCTCATC
22579554 ATTGTCATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 11 0.39
19 11 0.39
20 6 0.21
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (18 bp):
CATTTCTCATCTCATATT
Found at i:22579539 original size:27 final size:27
Alignment explanation
Indices: 22579485--22579539 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
22579475 ATATATGAAT
*
22579485 TCATTTCAATATCCATATCACATTTCA
1 TCATTTCAATATCCATATCACATCTCA
* *
22579512 TCATTTC-ATATTCCATTTCTCATCTCA
1 TCATTTCAATA-TCCATATCACATCTCA
22579539 T
1 T
22579540 ATTCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (27 bp):
TCATTTCAATATCCATATCACATCTCA
Done.