Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001597.1 Hibiscus syriacus cultivar Beakdansim tig00003179_pilon, whole genome shotgun sequence
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: 188117
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:27 original size:3 final size:3
Alignment explanation
Indices: 19--72 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
9 TTTGGGCTGT
19 ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
66 ATT ATA A
1 ATA ATA A
73 AACGGGATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:406 original size:53 final size:53
Alignment explanation
Indices: 290--409 Score: 154
Period size: 53 Copynumber: 2.3 Consensus size: 53
280 CACTCTTTTG
* *
290 CAAGGAGATAAGATTCAAGAAATCTTTGGAAAACAGATCTGCTACACTTCTTT
1 CAAGGAGATAAGATTCAAGAAATCTTTGGAAAACAGATATGCCACACTTCTTT
* * * *
343 CAAGGCGATAAGATTCGAGAAATCTTT-GAAAACGGATATGTTCCACTCTTCTTT
1 CAAGGAGATAAGATTCAAGAAATCTTTGGAAAACAGATATG--CCACACTTCTTT
397 C-AGGAGATAAGAT
1 CAAGGAGATAAGAT
410 CTAAGGGAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
52 11 0.19
53 36 0.62
54 11 0.19
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (53 bp):
CAAGGAGATAAGATTCAAGAAATCTTTGGAAAACAGATATGCCACACTTCTTT
Found at i:461 original size:100 final size:101
Alignment explanation
Indices: 336--577 Score: 342
Period size: 102 Copynumber: 2.4 Consensus size: 101
326 ATCTGCTACA
* * * * *
336 CTTCTTTCAAGGCGATAAGATTCGAGAAATCTTTGAAAACGGATATGTTCCACTCTTCTTTCAG-
1 CTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAACGGATATGCTCCACTATTCTTTCAGA
* **
400 GAGATAAGATCTAAGGGAAGACAAATCTGCTCCACT
66 GAGATAAGATCCAAAAGAAGACAAATCTGCTCCACT
*
436 CTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACGGATCTGCTCCACTATTCTTTCAG
1 CTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTG-AAAACGGATATGCTCCACTATTCTTTCAG
* *
501 AGAGATAAGGTCCAAAAGAAGACGAATCTGCTCCACT
65 AGAGATAAGATCCAAAAGAAGACAAATCTGCTCCACT
* *
538 ATTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGGAAAA
1 CTTCTTTCAGGGAGATAAGACTCGAGAAATCTTT-GAAAA
578 TGAAATCTGA
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
100 32 0.25
101 26 0.21
102 67 0.53
103 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (101 bp):
CTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAACGGATATGCTCCACTATTCTTTCAGA
GAGATAAGATCCAAAAGAAGACAAATCTGCTCCACT
Found at i:508 original size:55 final size:54
Alignment explanation
Indices: 423--586 Score: 180
Period size: 47 Copynumber: 3.1 Consensus size: 54
413 AGGGAAGACA
*
423 AATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAAACG
1 AATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTG-AAAACG
* * * * *
478 GATCTGCTCCACTATTCTTTCAGAGAGATAAG-GTCCA-AAA-----GAAGACG
1 AATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAACG
* *
525 AATCTGCTCCACTATTCTTTTAGGGAGATAAGACTCGAGAAATCTTTGGAAAATG
1 AATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTT-GAAAACG
580 AAATCTG
1 -AATCTG
587 AAATAAGAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
47 34 0.39
48 4 0.05
49 3 0.03
53 3 0.03
54 3 0.03
55 34 0.39
56 6 0.07
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (54 bp):
AATCTGCTCCACTATTCTTTCAGGGAGATAAGACTCGAGAAATCTTTGAAAACG
Found at i:777 original size:90 final size:89
Alignment explanation
Indices: 580--982 Score: 432
Period size: 90 Copynumber: 4.5 Consensus size: 89
570 TTGGAAAATG
* * * *
580 AAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCTGTGGTGATCAGACTCAAGATTTATTTG
1 AAATCTGAAATAAGGAGAATATGCTCCACTACTCTTCCGTGGAGATCAGACTCAAGATTTATTTG
* * * *
645 ATT-CATTACTCTTTCGTGAAGACT
66 ATTCCACTACTC-TTCGGGGAGACC
* * * * *
669 AAATCTGAAATAAGGAGAATAAGCTCCACTACTATTCCATGGAGATCAGACTCGAGAATTATTTG
1 AAATCTGAAATAAGGAGAATATGCTCCACTACTCTTCCGTGGAGATCAGACTCAAGATTTATTTG
*
734 CTTCCACTACTCTTTCGGGGAGACC
66 ATTCCACTACTC-TTCGGGGAGACC
* * * * * * *
759 AAATCTGAAATAAGGAGAATTTGTTCCATTACTCTTACGTGGAGATCAGAATCAAGACTGATTTG
1 AAATCTGAAATAAGGAGAATATGCTCCACTACTCTTCCGTGGAGATCAGACTCAAGATTTATTTG
824 ATTCCACTACTCTTCTGGGGAGACC
66 ATTCCACTACTCTTC-GGGGAGACC
* * * * * *
849 AAATATGAAATAAGGAGAATCTGTTCCACTACTTTTCCCTGGATATCATG-CTCAAGATTTATTT
1 AAATCTGAAATAAGGAGAATATGCTCCACTACTCTTCCGTGGAGATCA-GACTCAAGATTTATTT
** * * *
913 TCTTCCACTATTCTTCTGGTAGACC
65 GATTCCACTACTCTTCGGGGAGACC
* * * *
938 AAATATGAAATAAGGAGAATATGTTCAACTACTCTTCCGGGGAGA
1 AAATCTGAAATAAGGAGAATATGCTCCACTACTCTTCCGTGGAGA
983 CTAAATCTGA
Statistics
Matches: 264, Mismatches: 47, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
89 107 0.41
90 156 0.59
91 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (89 bp):
AAATCTGAAATAAGGAGAATATGCTCCACTACTCTTCCGTGGAGATCAGACTCAAGATTTATTTG
ATTCCACTACTCTTCGGGGAGACC
Found at i:792 original size:47 final size:48
Alignment explanation
Indices: 729--885 Score: 136
Period size: 47 Copynumber: 3.4 Consensus size: 48
719 CTCGAGAATT
*
729 ATTTGCTTCCACTACTCTTTCGGGGAGACCAAATCTGAAATAAGGAGA
1 ATTTGATTCCACTACTCTTTCGGGGAGACCAAATCTGAAATAAGGAGA
* * * * * **
777 ATTTG-TTCCATTACTCTTACGTGGAGATCAGAATC---AA-GA-CTG-
1 ATTTGATTCCACTACTCTTTCGGGGAGACCA-AATCTGAAATAAGGAGA
*
819 ATTTGATTCCACTACTC-TTCTGGGGAGACCAAATATGAAATAAGGAGA
1 ATTTGATTCCACTACTCTTTC-GGGGAGACCAAATCTGAAATAAGGAGA
*
867 ATCTG-TTCCACTACT-TTTC
1 ATTTGATTCCACTACTCTTTC
886 CCTGGATATC
Statistics
Matches: 83, Mismatches: 16, Indels: 21
0.69 0.13 0.17
Matches are distributed among these distances:
42 10 0.12
43 19 0.23
44 1 0.01
45 4 0.05
46 1 0.01
47 35 0.42
48 13 0.16
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (48 bp):
ATTTGATTCCACTACTCTTTCGGGGAGACCAAATCTGAAATAAGGAGA
Found at i:939 original size:179 final size:178
Alignment explanation
Indices: 580--974 Score: 472
Period size: 179 Copynumber: 2.2 Consensus size: 178
570 TTGGAAAATG
* * * * * * *
580 AAATCTGAAATAAGAAGAATCTGCTCCACTACTCTTCTGTGGTGATCAGACTCAAGATTTATTTG
1 AAATCTGAAATAAGGAGAATATGTTCCACTACTCTTC-GTGGAGATCAGAATCAAGACTGATTTG
* * * *
645 ATTCATTACTCTTTCGTGAAGACTAAATCTGAAATAAGGAGAATAAGCTCCACTACTATTCCATG
65 ATTCACTACTCTTTCGGGAAGACCAAATATGAAATAAGGAGAATAAGCTCCACTACTATTCCATG
*
710 GAGATCAGACTCGAGAATTATTTGCTTCCACTACTCTTTCGGGGAGACC
130 GAGATCAGACTCAAGAATTATTTGCTTCCACTACTCTTTCGGGGAGACC
* *
759 AAATCTGAAATAAGGAGAATTTGTTCCATTACTCTTACGTGGAGATCAGAATCAAGACTGATTTG
1 AAATCTGAAATAAGGAGAATATGTTCCACTACTCTT-CGTGGAGATCAGAATCAAGACTGATTTG
* ** * * *
824 ATTCCACTACTC-TTCTGGGGAGACCAAATATGAAATAAGGAGAATCTGTTCCACTACTTTTCCC
65 ATT-CACTACTCTTTC-GGGAAGACCAAATATGAAATAAGGAGAATAAGCTCCACTACTATTCCA
* * * * * *
888 TGGATATCATG-CTCAAGATTTATTTTCTTCCACTATTC-TTCTGGTAGACC
128 TGGAGATCA-GACTCAAGAATTATTTGCTTCCACTACTCTTTCGGGGAGACC
* *
938 AAATATGAAATAAGGAGAATATGTTCAACTACTCTTC
1 AAATCTGAAATAAGGAGAATATGTTCCACTACTCTTC
975 CGGGGAGACT
Statistics
Matches: 183, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
178 1 0.01
179 103 0.56
180 78 0.43
181 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (178 bp):
AAATCTGAAATAAGGAGAATATGTTCCACTACTCTTCGTGGAGATCAGAATCAAGACTGATTTGA
TTCACTACTCTTTCGGGAAGACCAAATATGAAATAAGGAGAATAAGCTCCACTACTATTCCATGG
AGATCAGACTCAAGAATTATTTGCTTCCACTACTCTTTCGGGGAGACC
Found at i:997 original size:47 final size:47
Alignment explanation
Indices: 933--1029 Score: 122
Period size: 47 Copynumber: 2.1 Consensus size: 47
923 TTCTTCTGGT
* * *
933 AGACCAAATATGAAATAAGGAGAATATGTTCAACTACTCTTCCGGGG
1 AGACCAAATATGAAATAAGAAGAATAGGTTCAACTACTCTTCCGAGG
* * * **
980 AGACTAAATCTGAAATAAGAAGAATCGGTTCCTCTACTCTTCCGAGG
1 AGACCAAATATGAAATAAGAAGAATAGGTTCAACTACTCTTCCGAGG
1027 AGA
1 AGA
1030 TCATACTCGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (47 bp):
AGACCAAATATGAAATAAGAAGAATAGGTTCAACTACTCTTCCGAGG
Found at i:1118 original size:136 final size:136
Alignment explanation
Indices: 825--1111 Score: 346
Period size: 136 Copynumber: 2.1 Consensus size: 136
815 ACTGATTTGA
* * * *
825 TTCCACTACTCTTCTGGGGAGACCAAATATGAAATAAGGAGAATCTGTTCCACTACTTTTCCCTG
1 TTCCACTACTCTTCTGGGGAGACCAAATATGAAATAAGAAGAATCGGTTCCACTACTCTTCCCAG
* * * * * * *
890 GATATCATGCTCAAGATTTATTTTCTTCCACTATTCTTCTGGTAGACCAAATATGAAATAAGGAG
66 GAGATCATACTCAAGATTGATTGTCTTCCACTACTCTTCTGGAAGACCAAATATGAAATAAGAAG
955 AATATG
131 AATATG
* * * * * *
961 TTCAACTACTCTTCCGGGGAGACTAAATCTGAAATAAGAAGAATCGGTTCCTCTACTCTTCCGAG
1 TTCCACTACTCTTCTGGGGAGACCAAATATGAAATAAGAAGAATCGGTTCCACTACTCTTCCCAG
* *
1026 GAGATCATACTCGAGATTGATATGT-TT-CACTACTCTT-TCGTGAAGACCAAATCTGAAATAAG
66 GAGATCATACTCAAGATTGAT-TGTCTTCCACTACTCTTCT-G-GAAGACCAAATATGAAATAAG
1088 AAGAATATG
128 AAGAATATG
*
1097 TTCCACTACTATTCT
1 TTCCACTACTCTTCT
1112 AAGGAGATTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
134 1 0.01
135 10 0.08
136 113 0.90
137 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (136 bp):
TTCCACTACTCTTCTGGGGAGACCAAATATGAAATAAGAAGAATCGGTTCCACTACTCTTCCCAG
GAGATCATACTCAAGATTGATTGTCTTCCACTACTCTTCTGGAAGACCAAATATGAAATAAGAAG
AATATG
Found at i:1181 original size:90 final size:89
Alignment explanation
Indices: 965--1796 Score: 922
Period size: 90 Copynumber: 9.3 Consensus size: 89
955 AATATGTTCA
* * * * ** * *
965 ACTACTCTTCCGGGGAGACTAAATCTGAAATAAGAAGAATCGGTTCCTCTACTCTTCCGA-GGAG
1 ACTACTCTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCC-ATGGTG
* *
1029 ATCATACTCGAGATTGATATGTTTC
65 ATCAGACTCGAGATTGATTTGTTTC
* * * *
1054 ACTACTCTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTATTCTAAGGAGA
1 ACTACTCTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCCATGGTGA
* * *
1119 TTAGACTCAAGATCGATTTGCTTTC
66 TCAGACTCGAGATTGATTTG-TTTC
* * * * *
1144 ACTACTCTTTCATGGAGACCAAATATGAAATAAGAAGAATATGTTCCTCTACTCTTCCA-AG-GA
1 ACTACTCTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCCATGGTGA
* * *
1207 TCAGAATCAAGATTGATTTGCTTCC
66 TCAGACTCGAGATTGATTTG-TTTC
* * * * **
1232 ACTTCTCTTTCGTGAAGACCAAATATGACAA-AAGAAGAATATGTTCTAATACTCTTCTGTGGTG
1 ACTACTCTTTCGTGAAGACCAAATCTGA-AATAAGAAGAATATGTTCCACTACTCTTCCATGGTG
**
1296 ATCAGACTCGAGATTGATTTGAGTC
65 ATCAGACTCGAGATTGATTTGTTTC
* *
1321 ACTACACTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCCATGTTGA
1 ACTACTCTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCCATGGTGA
* **
1386 TCATACTCGAGATTGATTTAATTC
66 TCAGACTCGAGATTGATTTGTTTC
* * * * *
1410 GCCACTC-TTCGTGAAGACCAAATCTGACATAAGAATAAT-TGTTCCACTATTCTTCCATGGTGA
1 ACTACTCTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCCATGGTGA
* *
1473 TCTGACTCGAGATTGATTTGTTCC
66 TCAGACTCGAGATTGATTTGTTTC
* * * * * * * *
1497 ACTGCTCTTTTGTGAAGACCAAATCTGATAGAAGAAGAATCTATTCCACTACTCTTTCGTGGTGA
1 ACTACTCTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCCATGGTGA
* *
1562 TCACACTCGAGATTGATTTGCTTCC
66 TCAGACTCGAGATTGATTTG-TTTC
* * * * * *
1587 ACTACTCTTTCGTGGAGACCAAATCTCACATAAGAAGAATCTATTCCACTACTCTTCCATGGAGA
1 ACTACTCTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCCATGGTGA
*
1652 TCAGACTCGAGATTGATTTGCTTCC
66 TCAGACTCGAGATTGATTTG-TTTC
* * * * *
1677 ACTACTCTTCCGTTG-AGACCAAATCTAAAATAAAAAGAATCTCTTCCACTACTCTTCCATGGTG
1 ACTACTCTTTCG-TGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCCATGGTG
* *
1741 ATCAGACTTGAGATTGATTTGATTC
65 ATCAGACTCGAGATTGATTTGTTTC
*
1766 ACTACTCTTTCGTGAAGACCAAATATGAAAT
1 ACTACTCTTTCGTGAAGACCAAATCTGAAAT
1797 GTTTTCTTCA
Statistics
Matches: 635, Mismatches: 97, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
87 45 0.07
88 134 0.21
89 218 0.34
90 236 0.37
91 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (89 bp):
ACTACTCTTTCGTGAAGACCAAATCTGAAATAAGAAGAATATGTTCCACTACTCTTCCATGGTGA
TCAGACTCGAGATTGATTTGTTTC
Found at i:1593 original size:43 final size:43
Alignment explanation
Indices: 1540--1699 Score: 135
Period size: 43 Copynumber: 3.6 Consensus size: 43
1530 GAAGAATCTA
* *
1540 TTCCACTACTCTTTCGTGGTGATCACACTCGAGATTGATTTGC
1 TTCCACTACTCTTTCGTGGAGATCAAACTCGAGATTGATTTGC
* * * * *
1583 TTCCACTACTCTTTCGTGGAGACCAAATCTC-ACATAAGAAGAATCT-A
1 TTCCACTACTCTTTCGTGGAGATCAAA-CTCGAGAT----TG-ATTTGC
* * *
1630 TTCCACTACTCTTCCATGGAGATCAGACTCGAGATTGATTTGC
1 TTCCACTACTCTTTCGTGGAGATCAAACTCGAGATTGATTTGC
* * *
1673 TTCCACTACTCTTCCGTTGAGACCAAA
1 TTCCACTACTCTTTCGTGGAGATCAAA
1700 TCTAAAATAA
Statistics
Matches: 90, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
42 3 0.03
43 51 0.57
44 3 0.03
46 3 0.03
47 27 0.30
48 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (43 bp):
TTCCACTACTCTTTCGTGGAGATCAAACTCGAGATTGATTTGC
Found at i:1650 original size:47 final size:46
Alignment explanation
Indices: 1582--1738 Score: 135
Period size: 47 Copynumber: 3.4 Consensus size: 46
1572 GATTGATTTG
* *
1582 CTTCCACTACTCTTTCGTGGAGACCAAATCTCACATAAGAAGAATCT
1 CTTCCACTACTCTTCCATGGAGACCAAATCT-ACATAAGAAGAATCT
* * * * * *
1629 ATTCCACTACTCTTCCATGGAGATCAGA-CT-C--GAGATTG-ATTT
1 CTTCCACTACTCTTCCATGGAGACCAAATCTACATAAGA-AGAATCT
* * * *
1671 GCTTCCACTACTCTTCCGTTGAGACCAAATCTAAAATAAAAAGAATCT
1 -CTTCCACTACTCTTCCATGGAGACCAAATCT-ACATAAGAAGAATCT
1719 CTTCCACTACTCTTCCATGG
1 CTTCCACTACTCTTCCATGG
1739 TGATCAGACT
Statistics
Matches: 82, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
42 6 0.07
43 24 0.29
44 3 0.04
46 2 0.02
47 42 0.51
48 5 0.06
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (46 bp):
CTTCCACTACTCTTCCATGGAGACCAAATCTACATAAGAAGAATCT
Found at i:2117 original size:60 final size:62
Alignment explanation
Indices: 1837--2239 Score: 391
Period size: 62 Copynumber: 6.6 Consensus size: 62
1827 ATAAAAAAGA
* * *
1837 TTGACTTCTCTTTACGAGAAAGTCAAGGATTGACTCTACTGAGGAGTCAGAAATAACAAA-G
1 TTGACTTCTCTTCACGAGAAAGTCAAGTATTGACTCTACTGAGGAGTCAGGAATAACAAATG
* * *
1898 ATTGACTTCTCTTCACGACAAAGTCAA-TGATTGACTCTACTGGGGAGTCAGGAATAATAAATG
1 -TTGACTTCTCTTCACGAGAAAGTCAAGT-ATTGACTCTACTGAGGAGTCAGGAATAACAAATG
* * * * * * *
1961 TTGACTTTTCTTTACAATG-AAGTCCA-TGATTGACTCTACTGGGGAGTCAAGAATAACAAAGG
1 TTGACTTCTCTTCACGA-GAAAGTCAAGT-ATTGACTCTACTGAGGAGTCAGGAATAACAAATG
* * * * * * * *
2023 TT-ATATTCTCGTCATGAG-GAGTCAAGTATTAACTCTACTGAGAAGTTAGGGATAACAAAT-
1 TTGA-CTTCTCTTCACGAGAAAGTCAAGTATTGACTCTACTGAGGAGTCAGGAATAACAAATG
*
2083 TTGACTTCTCTTCACGAGAAAGT-AAGTATTAACTCTACTGAGGAGTCAAGG-ATAACAAATG
1 TTGACTTCTCTTCACGAGAAAGTCAAGTATTGACTCTACTGAGGAGTC-AGGAATAACAAATG
* * * *
2144 TTGACTT-T-TTCA-GTAGGAAGTCAAATATTGACTCTACTGAGGAGTCAGGGATAACAAGTG
1 TTGACTTCTCTTCACG-AGAAAGTCAAGTATTGACTCTACTGAGGAGTCAGGAATAACAAATG
* * *
2204 TT-ATTTCTCTTCACTAGGAAGTCAAGTATTGACTCT
1 TTGACTTCTCTTCACGAGAAAGTCAAGTATTGACTCT
2240 TTCTCATGAG
Statistics
Matches: 284, Mismatches: 42, Indels: 31
0.80 0.12 0.09
Matches are distributed among these distances:
58 1 0.00
59 16 0.06
60 79 0.28
61 71 0.25
62 116 0.41
63 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (62 bp):
TTGACTTCTCTTCACGAGAAAGTCAAGTATTGACTCTACTGAGGAGTCAGGAATAACAAATG
Found at i:2229 original size:181 final size:186
Alignment explanation
Indices: 1842--2239 Score: 467
Period size: 181 Copynumber: 2.2 Consensus size: 186
1832 AAAGATTGAC
* * * * *
1842 TTCTCTTTACGAGAAAGTCAAGGATTGACTCTACTGAGGAGTCAGAAATAACAAAGATTGACTTC
1 TTCTCTTCACTAGGAAGTCAAGTATTGACTCTACTGAGAAGTCAGAAATAACAAAGATTGACTTC
* * *
1907 TCTTCACGACAAAGTCAATGATTGACTCTACTGGGGAGTCAGGAATAATAAATGTTGACTTTTCT
66 TCTTCACGACAAAGTCAATGATTAACTCTACTGAGGAGTCAGGAATAACAAATGTTGACTTTTCT
* * * *
1972 TTACAATGAAGTCCATGATTGACTCTACTGGGGAGTCAAGAATAACAAAGGTTATA
131 TCACAAGGAAGTCAATGATTGACTCTACTGAGGAGTCAAGAATAACAAAGGTTATA
* * * ** *
2028 TTCTCGTCA-TGAGG-AGTCAAGTATTAACTCTACTGAGAAGTTAGGGATAACAAA-TTTGACTT
1 TTCTCTTCACT-AGGAAGTCAAGTATTGACTCTACTGAGAAGTCAGAAATAACAAAGATTGACTT
*
2090 CTCTTCACGAGAAAGT-AA-GTATTAACTCTACTGAGGAGTCAAGG-ATAACAAATGTTGAC-TT
65 CTCTTCACGACAAAGTCAATG-ATTAACTCTACTGAGGAGTC-AGGAATAACAAATGTTGACTTT
** * *
2151 T-TTCAGTAGGAAGTCAAAT-ATTGACTCTACTGAGGAGTCAGGGATAAC-AAGTGTTAT-
128 TCTTCACAAGGAAGTC-AATGATTGACTCTACTGAGGAGTCAAGAATAACAAAG-GTTATA
2208 TTCTCTTCACTAGGAAGTCAAGTATTGACTCT
1 TTCTCTTCACTAGGAAGTCAAGTATTGACTCT
2240 TTCTCATGAG
Statistics
Matches: 180, Mismatches: 25, Indels: 19
0.80 0.11 0.08
Matches are distributed among these distances:
180 14 0.08
181 58 0.32
182 6 0.03
183 34 0.19
184 25 0.14
185 34 0.19
186 9 0.05
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (186 bp):
TTCTCTTCACTAGGAAGTCAAGTATTGACTCTACTGAGAAGTCAGAAATAACAAAGATTGACTTC
TCTTCACGACAAAGTCAATGATTAACTCTACTGAGGAGTCAGGAATAACAAATGTTGACTTTTCT
TCACAAGGAAGTCAATGATTGACTCTACTGAGGAGTCAAGAATAACAAAGGTTATA
Found at i:5213 original size:183 final size:184
Alignment explanation
Indices: 4930--5272 Score: 555
Period size: 183 Copynumber: 1.9 Consensus size: 184
4920 TTTATGTTCC
* * *
4930 TCTTCTTCTTTATTGGATGAGTGTAATTACTTTGAGCAACTTCTTTTCCTCTTTGTTTCTTGTGT
1 TCTTATTCTTTATTGGATGAGTGTAATTACTTTGAGCAACTTCTTTTCCTCTTTATTTCTTGTAT
*
4995 TTGGAACTTCATTCATTTCTCTCGGCTAGATTTGATCTCTGAGAAATTTGTA-TTTGATCTACCT
66 TTGGAACTTCATTCATTTCTCTCGACTAGATTTGATCTCTGAGAAATTTGTATTTTGATCTACCT
*
5059 TGCGGCTCCTTGTTTATTTCTCTTTATTTCTTGATTTATTTTTTCTCGCTTTTT
131 TGCGGCTCCTTGTTTATTCCTCTTTATTTCTTGATTTATTTTTTCTCGCTTTTT
* **
5113 TCTTATTCTTTATTGGATGAGTGTAATTACTTTGATCTTCTTCTTTTCCTCTTTATTTCTTGTAT
1 TCTTATTCTTTATTGGATGAGTGTAATTACTTTGAGCAACTTCTTTTCCTCTTTATTTCTTGTAT
* * * *
5178 TTGGAACTTCTTTCGTTGT-TCTCTACTAGATTTGATCTCTGAGCAATTTGTATTTTGATCTACC
66 TTGGAACTTCATTCATT-TCTCTCGACTAGATTTGATCTCTGAGAAATTTGTATTTTGATCTACC
5242 TTGCGGCTCCTTGTTTATTCCTCTTTATTTC
130 TTGCGGCTCCTTGTTTATTCCTCTTTATTTC
5273 AGGGAGAATT
Statistics
Matches: 146, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
183 104 0.71
184 42 0.29
ACGTcount: A:0.15, C:0.18, G:0.14, T:0.53
Consensus pattern (184 bp):
TCTTATTCTTTATTGGATGAGTGTAATTACTTTGAGCAACTTCTTTTCCTCTTTATTTCTTGTAT
TTGGAACTTCATTCATTTCTCTCGACTAGATTTGATCTCTGAGAAATTTGTATTTTGATCTACCT
TGCGGCTCCTTGTTTATTCCTCTTTATTTCTTGATTTATTTTTTCTCGCTTTTT
Found at i:20802 original size:60 final size:60
Alignment explanation
Indices: 20709--20823 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 60
20699 ACTCCGCTTT
* * *
20709 AGTAGTTGACAAGGCAATCATACTCTACATAGTAGCTTTCCAAATAATGGAACATACTTC
1 AGTAGTTGACAAGGCAATCAAACTCTACATAGTAACTTTCCAAATAATAGAACATACTTC
* *
20769 AGTAGTTGATAGGGCAATCAAACTCTACATAGTAACTTTCCAAATAATAGAACAT
1 AGTAGTTGACAAGGCAATCAAACTCTACATAGTAACTTTCCAAATAATAGAACAT
20824 CCTCCAACCG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (60 bp):
AGTAGTTGACAAGGCAATCAAACTCTACATAGTAACTTTCCAAATAATAGAACATACTTC
Found at i:21823 original size:14 final size:15
Alignment explanation
Indices: 21798--21831 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
21788 GAGCAACTCA
21798 AAAAAATAATATTTT
1 AAAAAATAATATTTT
21813 AAAAAAT-ATATTTT
1 AAAAAATAATATTTT
21827 AAAAA
1 AAAAA
21832 TGTTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAAAATAATATTTT
Found at i:22611 original size:2 final size:2
Alignment explanation
Indices: 22606--22644 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
22596 GAGTAATTAA
22606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22645 GTAGAGGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:30792 original size:3 final size:3
Alignment explanation
Indices: 30784--30828 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
30774 AAAGATTCTT
30784 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30829 ATGGGTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34682 original size:2 final size:2
Alignment explanation
Indices: 34677--34741 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
34667 ACACACACAC
34677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34719 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
34742 GGAAATCTCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35558 original size:14 final size:15
Alignment explanation
Indices: 35534--35563 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
35524 TTTTTAAAAA
35534 AAATAAAATTTAATT
1 AAATAAAATTTAATT
35549 AAAT-AAATTTAATT
1 AAATAAAATTTAATT
35563 A
1 A
35564 TGCGTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATAAAATTTAATT
Found at i:36342 original size:17 final size:17
Alignment explanation
Indices: 36298--36492 Score: 72
Period size: 17 Copynumber: 10.9 Consensus size: 17
36288 TTACTACTAG
*
36298 TACTATTATTAATATTA
1 TACTATTATTATTATTA
* **
36315 TATTAGCATTATTATTA
1 TACTATTATTATTATTA
36332 TACTATTATTAAATTATTA
1 TACTATTATT--ATTATTA
* **
36351 TTACTA-CACCATTATTA
1 -TACTATTATTATTATTA
*** *
36368 TCACTATTAACGTGTACTA
1 T-ACTATTATTAT-TATTA
* * *
36387 CTACAATAATTATTAATA
1 -TACTATTATTATTATTA
* *
36405 TTATTGATATACTATTATTA
1 -TACT-AT-TATTATTATTA
*
36425 TATTATTATTATTATT-
1 TACTATTATTATTATTA
* * *
36441 TATTTTTATTATCTATTTT
1 TACTATTATTAT-TA-TTA
*
36460 TATTATCTATTATTATT-
1 TACTAT-TATTATTATTA
36477 TACTATTATTATTATT
1 TACTATTATTATTATT
36493 TAGTAGTAGT
Statistics
Matches: 135, Mismatches: 30, Indels: 27
0.70 0.16 0.14
Matches are distributed among these distances:
16 22 0.16
17 47 0.35
18 15 0.11
19 31 0.23
20 20 0.15
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (17 bp):
TACTATTATTATTATTA
Found at i:36401 original size:3 final size:3
Alignment explanation
Indices: 36395--36492 Score: 90
Period size: 3 Copynumber: 31.0 Consensus size: 3
36385 TACTACAATA
* *
36395 ATT ATT AAT ATT ATT GATAT ACT ATT ATT A-T ATT ATT ATT ATT ATTT
1 ATT ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * *
36442 ATT TTT ATT ATCT ATT TTT ATT ATCT ATT ATT ATTT ACT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT AT-T ATT ATT A-TT ATT ATT ATT ATT
36490 ATT
1 ATT
36493 TAGTAGTAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
2 2 0.03
3 60 0.77
4 15 0.19
5 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:36443 original size:13 final size:13
Alignment explanation
Indices: 36403--36517 Score: 103
Period size: 13 Copynumber: 8.9 Consensus size: 13
36393 TAATTATTAA
36403 TATTATTGA-TATAC
1 TATTATT-ATTAT-C
36417 TATTATTA-TAT-
1 TATTATTATTATC
*
36428 TATTATTATTATT
1 TATTATTATTATC
*
36441 TATTTTTATTATC
1 TATTATTATTATC
*
36454 TATTTTTATTATC
1 TATTATTATTATC
36467 TATTATTATT-TAC
1 TATTATTATTAT-C
*
36480 TATTATTATTATT
1 TATTATTATTATC
* * *
36493 TAGTAGTAGTATC
1 TATTATTATTATC
*
36506 TACTATTATTAT
1 TATTATTATTAT
36518 AAACTAATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
11 8 0.09
12 4 0.05
13 66 0.77
14 8 0.09
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (13 bp):
TATTATTATTATC
Found at i:36449 original size:10 final size:10
Alignment explanation
Indices: 36417--36492 Score: 79
Period size: 10 Copynumber: 7.7 Consensus size: 10
36407 ATTGATATAC
36417 TATTATTATAT
1 TATTATTAT-T
36428 TATTATTA-T
1 TATTATTATT
36437 TATTTATT-TT
1 TA-TTATTATT
36447 TATTATCTATT
1 TATTAT-TATT
*
36458 T-TTATTATC
1 TATTATTATT
36467 TATTATTATT
1 TATTATTATT
*
36477 TACTATTA-T
1 TATTATTATT
36486 TATTATT
1 TATTATT
36493 TAGTAGTAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
9 18 0.32
10 27 0.48
11 11 0.20
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (10 bp):
TATTATTATT
Found at i:37160 original size:10 final size:10
Alignment explanation
Indices: 37141--37182 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
37131 TTCACCACAC
37141 CAAATCCTCT
1 CAAATCCTCT
*
37151 CAAATTCTCT
1 CAAATCCTCT
37161 CAAATCCTCT
1 CAAATCCTCT
* *
37171 TAAATTCTCT
1 CAAATCCTCT
37181 CA
1 CA
37183 CAGCTCGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (10 bp):
CAAATCCTCT
Found at i:37193 original size:20 final size:20
Alignment explanation
Indices: 37141--37182 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
37131 TTCACCACAC
*
37141 CAAATCCTCTCAAATTCTCT
1 CAAATCCTCTTAAATTCTCT
37161 CAAATCCTCTTAAATTCTCT
1 CAAATCCTCTTAAATTCTCT
37181 CA
1 CA
37183 CAGCTCGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAATCCTCTTAAATTCTCT
Found at i:37515 original size:20 final size:20
Alignment explanation
Indices: 37490--37544 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
37480 GACCAACAAA
37490 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
37510 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
37530 TTCGCAACGCGAATT
1 TTCGCAACGCGAATT
37545 TGTAAATCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:37554 original size:20 final size:20
Alignment explanation
Indices: 37531--37577 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
37521 GTTTCCAATT
37531 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
37551 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATTTGTAAA
37571 TCGCAAC
1 TCGCAAC
37578 ACAGAAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGAATTTGTAAA
Found at i:37736 original size:22 final size:22
Alignment explanation
Indices: 37711--37768 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
37701 TCACTCTCTA
*
37711 CGACGACATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
*
37733 CGACGAAATCCGTCCCCATTTC
1 CGACGAAATCCGTCCCCATCTC
* *
37755 CAACGAAAGCCGTC
1 CGACGAAATCCGTC
37769 TATCTCCATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.43, G:0.16, T:0.17
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCTC
Found at i:40085 original size:4 final size:4
Alignment explanation
Indices: 40076--40117 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
40066 TTTTTCGGCG
* * *
40076 TTAT TTAT TTAT TTAT TTAT TGAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
40118 TCAGCGGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:41993 original size:20 final size:20
Alignment explanation
Indices: 41970--42012 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
41960 GATTTTCGGT
*
41970 TTGCGAATTTGACTTTCGCG
1 TTGCAAATTTGACTTTCGCG
41990 TTGCAAATTTGACTTTCGCG
1 TTGCAAATTTGACTTTCGCG
42010 TTG
1 TTG
42013 ATCGCAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
TTGCAAATTTGACTTTCGCG
Found at i:42242 original size:39 final size:39
Alignment explanation
Indices: 42188--42274 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
42178 TCAAGTTGTA
42188 GATTTTGATTTCCTTTTGCTTGGAACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGAACCATATGAGATTTG
* *
42227 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGAACCATATGAGATTTG
42266 GATTTTGAT
1 GATTTTGAT
42275 GAGCATGGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGAACCATATGAGATTTG
Found at i:42640 original size:24 final size:24
Alignment explanation
Indices: 42587--42640 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
42577 AAATTTATAT
*
42587 TGAAATTCAAACTCAAATTGAATT
1 TGAAATTCAAACTCAAATTGAATA
* *
42611 TTAAATTCAAACTCCAATT-ACATA
1 TGAAATTCAAACTCAAATTGA-ATA
42635 TGAAAT
1 TGAAAT
42641 GAATTTGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (24 bp):
TGAAATTCAAACTCAAATTGAATA
Found at i:43045 original size:25 final size:25
Alignment explanation
Indices: 43008--43057 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
42998 ATTATTTTTC
*
43008 CAAATAATATACCCATAACAATGTT
1 CAAATAATATACCCACAACAATGTT
*
43033 CAAATAATGTACCCACAACAATGTT
1 CAAATAATATACCCACAACAATGTT
43058 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (25 bp):
CAAATAATATACCCACAACAATGTT
Found at i:43171 original size:20 final size:20
Alignment explanation
Indices: 43148--43226 Score: 104
Period size: 20 Copynumber: 4.0 Consensus size: 20
43138 AATAAGCGTT
*
43148 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
* *
43168 GCGAAATTCAAATTCCCAAC
1 GCGAAAGTCAAATTCGCAAC
* *
43188 GTGAAAGTCAAATTCGCTAC
1 GCGAAAGTCAAATTCGCAAC
*
43208 GCGATAGTCAAATTCGCAA
1 GCGAAAGTCAAATTCGCAA
43227 TGCTTATTTC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:43492 original size:39 final size:39
Alignment explanation
Indices: 43438--43524 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
43428 TCAAGTTGTA
43438 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
43477 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
43516 GATTTTGAT
1 GATTTTGAT
43525 GAGCATGGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:43857 original size:18 final size:18
Alignment explanation
Indices: 43834--43870 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43824 CGAAATTTAT
43834 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
43852 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
43870 A
1 A
43871 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:44291 original size:25 final size:25
Alignment explanation
Indices: 44257--44306 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
44247 ATTATTTTTC
*
44257 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
44282 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
44307 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:44420 original size:20 final size:20
Alignment explanation
Indices: 44397--44475 Score: 104
Period size: 20 Copynumber: 4.0 Consensus size: 20
44387 AATAAGCGTT
*
44397 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
* *
44417 GCGAAATTCAAATTCCCAAC
1 GCGAAAGTCAAATTCGCAAC
* *
44437 GTGAAAGTCAAATTCGCTAC
1 GCGAAAGTCAAATTCGCAAC
*
44457 GCGATAGTCAAATTCGCAA
1 GCGAAAGTCAAATTCGCAA
44476 TGCTTATTTC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:44820 original size:18 final size:18
Alignment explanation
Indices: 44797--44833 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
44787 AAGCCGGTTG
*
44797 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
44815 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
44833 T
1 T
44834 CTTTTTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.03, G:0.24, T:0.57
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:47302 original size:12 final size:12
Alignment explanation
Indices: 47281--47314 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
47271 GGTTGTGGGT
*
47281 TTTGAGATTGTG
1 TTTGATATTGTG
47293 TTTGATATTGTG
1 TTTGATATTGTG
*
47305 TTTGGTATTG
1 TTTGATATTG
47315 GAAATGTGGT
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:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:48102 original size:19 final size:20
Alignment explanation
Indices: 48061--48211 Score: 96
Period size: 20 Copynumber: 7.6 Consensus size: 20
48051 ACTAAAACCT
*
48061 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
48080 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
* **
48099 GTTGCAAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGC
*
48119 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAATTCGC
**
48140 AATGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGA-A-ATTCGC
* * *
48160 GTTGCGAAATTGGAAACT-GG
1 GTTGCG-AATTTGAAATTCGC
* * * *
48180 GTTGCAAAATCGGAATTCGC
1 GTTGCGAATTTGAAATTCGC
48200 GTTGCGAATTTG
1 GTTGCGAATTTG
48212 TTGGTCATTT
Statistics
Matches: 96, Mismatches: 27, Indels: 17
0.69 0.19 0.12
Matches are distributed among these distances:
18 1 0.01
19 33 0.34
20 45 0.47
21 12 0.12
22 4 0.04
23 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:54118 original size:30 final size:29
Alignment explanation
Indices: 54082--54148 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 29
54072 ATCAAATATA
*
54082 AGAGGATTGTCGGGTGATAATTACAGGTTG
1 AGAGGATTGTCGAGTGATAATTAC-GGTTG
* * *
54112 AGAGGATTGTTGAGTGATATTTTCGGTTG
1 AGAGGATTGTCGAGTGATAATTACGGTTG
54141 AGAGGATT
1 AGAGGATT
54149 ATTGTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.25, C:0.04, G:0.36, T:0.34
Consensus pattern (29 bp):
AGAGGATTGTCGAGTGATAATTACGGTTG
Found at i:57355 original size:27 final size:27
Alignment explanation
Indices: 57305--57356 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
57295 ATGACATATT
* *
57305 TGATATTTAAGAAAATGGGTTTTTAAA
1 TGATATTTAAGAAAATGAGATTTTAAA
57332 TGATATGTT-AGAAAATGAGATTTTA
1 TGATAT-TTAAGAAAATGAGATTTTA
57357 TTAGTGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (27 bp):
TGATATTTAAGAAAATGAGATTTTAAA
Found at i:58210 original size:54 final size:54
Alignment explanation
Indices: 58145--58595 Score: 531
Period size: 54 Copynumber: 8.4 Consensus size: 54
58135 CTATGTGTAC
* * **
58145 TATAGGCACTAAGTGTGCAAACCACAGAATTCATCATATATTGATGAACAACTA
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
*
58199 TATAGGGACTAAGTGTGCAACCCAC-GAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACAACCG
* * *
58253 TATAGACATTAAGTGTGCAACCCACTA-AATTCATCATATGTTAATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCAC-AGAATTCATCATATGTTGATGAACAACCG
* * * *
58307 TATAGGAATTAACTGTGTAACCCA-AGGAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACA-GAATTCATCATATGTTGATGAACAACCG
* **
58361 TATAGGCACTAAGTGTGCGACTTAC-GAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACAACCG
* *
58415 TATAGGCACTAAGTGTGCAACCCAAAGAATTCATCATATATTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
* * *
58469 TATAGGCACTAAGTGTGCAACCCA-TGAAATTCATCAAATGTTGATGAACAACCA
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACAACCG
* * * ** *
58523 TATAGGCACTATATGTGTG-AA-CCAC-GTAATTTATAATATGTTTATGAATGATCG
1 TATAGGCACTA-A-GTGTGCAACCCACAG-AATTCATCATATGTTGATGAACAACCG
*
58577 TATAGGCACTATGTGTGCA
1 TATAGGCACTAAGTGTGCA
58596 TCTCAATGAA
Statistics
Matches: 344, Mismatches: 40, Indels: 27
0.84 0.10 0.07
Matches are distributed among these distances:
52 6 0.02
53 4 0.01
54 325 0.94
55 4 0.01
56 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
Found at i:60978 original size:2 final size:2
Alignment explanation
Indices: 60971--61017 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
60961 TAACTATAGG
60971 TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61011 -A TA TA TA
1 TA TA TA TA
61018 AATAAATAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:61021 original size:8 final size:8
Alignment explanation
Indices: 60971--61026 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
60961 TAACTATAGG
*
60971 TATATATA
1 TATATAAA
*
60979 TATATATA
1 TATATAAA
60987 TATAT-AA
1 TATATAAA
*
60994 TATAATATA
1 TAT-ATAAA
61003 TATATATAA
1 TATATA-AA
61012 TATATAAA
1 TATATAAA
*
61020 TAAATAA
1 TATATAA
61027 CTATCTTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
7 4 0.10
8 26 0.63
9 11 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TATATAAA
Found at i:66360 original size:22 final size:22
Alignment explanation
Indices: 66335--66403 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
66325 ACTAAAGGGG
*
66335 GTATCGGTACCATAGTATAGAA
1 GTATCGATACCATAGTATAGAA
** **
66357 GTATCGATACC--AGGGTAGGG
1 GTATCGATACCATAGTATAGAA
*
66377 GTACCGATACCATAGTATAGAA
1 GTATCGATACCATAGTATAGAA
66399 GTATC
1 GTATC
66404 TAAATAATAG
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
20 15 0.44
22 19 0.56
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGAA
Found at i:66779 original size:54 final size:54
Alignment explanation
Indices: 66689--67185 Score: 576
Period size: 54 Copynumber: 9.2 Consensus size: 54
66679 CTATGTGTAC
* * *
66689 TATAGGCACTAAGTGTGTAA-ACA-ATGAAATTCATCATATGTTGATAAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACA-G-AATTCATCATATGTTGATGAACAACCG
* **
66743 TGTAGGCACTAAGTGTGCAACCCACAGAATGT-ATCATATGTTGATGAACAATTG
1 TATAGGCACTAAGTGTGCAACCCACAGAAT-TCATCATATGTTGATGAACAACCG
* * * *
66797 TATAGACATTAAGTGTGCAACCCATAAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
* * * *
66851 TATAGCCATTAAGTGTGCAACCCACTGAATTCATCATATGTTGATGAACAACTG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
* * * * * *
66905 TATAGGCACTAAGAGTGCGACCCACGGATTTTATAATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
** * * **
66959 TATAGAAACTAAGAGTGCAACCTAGGGAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
*
67013 TATAGGCACTAAGTGTGCAA-GCAGC-GAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCA-CAG-AATTCATCATATGTTGATGAACAACCG
* *
67067 TAAAGGCACTAAGTGTGCAACCCACATAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
* * ** *
67121 TATAGGCACTATA-TGTGCGAA-CCACAGAATTCATAATATGTTTATGAATGATCG
1 TATAGGCACTA-AGTGTGC-AACCCACAGAATTCATCATATGTTGATGAACAACCG
67175 TATAGGCACTA
1 TATAGGCACTA
67186 CGTTTGTATC
Statistics
Matches: 382, Mismatches: 51, Indels: 20
0.84 0.11 0.04
Matches are distributed among these distances:
53 3 0.01
54 369 0.97
55 9 0.02
56 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCG
Found at i:77102 original size:50 final size:50
Alignment explanation
Indices: 76982--77102 Score: 179
Period size: 50 Copynumber: 2.4 Consensus size: 50
76972 TGGAAAACTA
* *
76982 TATGGAACTTATCATGTTCTAGTGATGAAATATAATTATTTATTATATTT
1 TATGGAACTTATCATGTTCTCGTGACGAAATATAATTATTTATTATATTT
* * *
77032 TATAGAACTTGTCATGTTCTCGTGACGAATTATAATTATTTATTATATTT
1 TATGGAACTTATCATGTTCTCGTGACGAAATATAATTATTTATTATATTT
* *
77082 TATGGAACTCATCATTTTCTC
1 TATGGAACTTATCATGTTCTC
77103 ATAACGAGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.47
Consensus pattern (50 bp):
TATGGAACTTATCATGTTCTCGTGACGAAATATAATTATTTATTATATTT
Found at i:92347 original size:37 final size:37
Alignment explanation
Indices: 92277--92383 Score: 101
Period size: 37 Copynumber: 2.9 Consensus size: 37
92267 CTTCGAAGAA
* *
92277 AGTTAATATTAAGCCTTCACGAAGGAGTGGTGAAGCG
1 AGTTAATATTAAGCCTTCACGAAAGAGTAGTGAAGCG
* ** *
92314 AGTTAATCTTAAGCCTTCGTGAAATAGTAGTGAAGC-
1 AGTTAATATTAAGCCTTCACGAAAGAGTAGTGAAGCG
** * * *
92350 AAATCATCTT-AGCCTTCACGGAAGAGTAGTGAAG
1 AGTTAATATTAAGCCTTCACGAAAGAGTAGTGAAG
92384 AAAATCAGTC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
35 20 0.35
36 7 0.12
37 30 0.53
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (37 bp):
AGTTAATATTAAGCCTTCACGAAAGAGTAGTGAAGCG
Found at i:92493 original size:55 final size:55
Alignment explanation
Indices: 92433--92700 Score: 258
Period size: 55 Copynumber: 4.9 Consensus size: 55
92423 AGCAGATCTA
*
92433 TTTTCAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGGCG-GTGAACCCG
1 TTTTCAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGG-GAGCGAACCCG
* *
92488 TTTTCAAAAGATTGTTCGAGTTCTATACTCCTTGGAAGAATAGGGAGCGAACCCG
1 TTTTCAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGGGAGCGAACCCG
* * * * *
92543 TTTTTAGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAATAGGGAG-TAGATCGG
1 TTTTCAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGGGAGCGA-ACCCG
* * * * * * * * **
92598 GTTGCCGAAGATTATTTGAG-TCTTATACTCCCTAAAAGAATAGGGAGATG-ACTCAT
1 TTTTCAGAAGATTGTTCGAGTTC-TATACTCCTTGAAAGAATAGGGAG-CGAAC-CCG
* * * *
92654 TTTTTA-AAGATTGTTCGAGTCCTATACTCGTTGAAAGAAAAGGGAGC
1 TTTTCAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGGGAGC
92701 ATACTCATCC
Statistics
Matches: 173, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
54 4 0.02
55 165 0.95
56 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (55 bp):
TTTTCAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGGGAGCGAACCCG
Found at i:92637 original size:110 final size:111
Alignment explanation
Indices: 92433--92699 Score: 285
Period size: 110 Copynumber: 2.4 Consensus size: 111
92423 AGCAGATCTA
* * *
92433 TTTTCAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGGCG-GTGAACCCGTTTTCAAAA
1 TTTTTAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGG-GAGTGAACCCGGTTGCAAAA
* * ** *
92497 GATTGTTCGAGTTCTATACTCCTTGGAAGAATAGGGAG-CGAAC-CCG
65 GATTATTCGAGTTCTATACTCCCTAAAAGAATAGGGAGACG-ACTCAG
* * * **
92543 TTTTTAGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAATAGGGAGT-AGATCGGGTTGCCGAA
1 TTTTTAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGGGAGTGA-ACCCGGTTGCAAAA
* * *
92607 GATTATTTGAG-TCTTATACTCCCTAAAAGAATAGGGAGATGACTCAT
65 GATTATTCGAGTTC-TATACTCCCTAAAAGAATAGGGAGACGACTCAG
* * *
92654 TTTTTA-AAGATTGTTCGAGTCCTATACTCGTTGAAAGAAAAGGGAG
1 TTTTTAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGGGAG
92700 CATACTCATC
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
109 4 0.03
110 120 0.91
111 8 0.06
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (111 bp):
TTTTTAGAAGATTGTTCGAGTTCTATACTCCTTGAAAGAATAGGGAGTGAACCCGGTTGCAAAAG
ATTATTCGAGTTCTATACTCCCTAAAAGAATAGGGAGACGACTCAG
Found at i:92718 original size:55 final size:55
Alignment explanation
Indices: 92605--92729 Score: 126
Period size: 55 Copynumber: 2.3 Consensus size: 55
92595 CGGGTTGCCG
* * * ** *
92605 AAGATTATTTGAGTCTTATACTCCCTAAAAGAATAGGGAGATGACTCATTTTTTA
1 AAGATTATTCGAGTCCTATACTCCCTAAAAGAAAAGGGAGATGACTCATCCTTCA
* ** *
92660 AAGATTGTTCGAGTCCTATACTCGTTGAAAGAAAAGGGAGCAT-ACTCATCCTTCA
1 AAGATTATTCGAGTCCTATACTCCCTAAAAGAAAAGGGAG-ATGACTCATCCTTCA
* *
92715 AAGATTTTTCAAGTC
1 AAGATTATTCGAGTC
92730 TCACTTATCC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
55 55 0.96
56 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (55 bp):
AAGATTATTCGAGTCCTATACTCCCTAAAAGAAAAGGGAGATGACTCATCCTTCA
Found at i:95304 original size:29 final size:30
Alignment explanation
Indices: 95230--95305 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 30
95220 ATTTTAACCA
95230 TTTAAAATATAATAAATAATTATAAATATATT
1 TTTAAAATATAAT--ATAATTATAAATATATT
* * *
95262 GTTAAAAAAT-ATATTATTAT-AAT-TATT
1 TTTAAAATATAATATAATTATAAATATATT
95289 TTTAAAATATTAATATA
1 TTTAAAATA-TAATATA
95306 TTCAGATCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
27 11 0.31
28 4 0.11
29 11 0.31
31 2 0.06
32 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTAAAATATAATATAATTATAAATATATT
Found at i:96790 original size:20 final size:20
Alignment explanation
Indices: 96765--96814 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
96755 GAAATCAATT
96765 AACTCGACTTCATTTTCTTA
1 AACTCGACTTCATTTTCTTA
96785 AACTCGACTTCATTTTCTTA
1 AACTCGACTTCATTTTCTTA
*
96805 AACTCAACTT
1 AACTCGACTT
96815 GACTTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.42
Consensus pattern (20 bp):
AACTCGACTTCATTTTCTTA
Found at i:96819 original size:25 final size:23
Alignment explanation
Indices: 96764--96819 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 23
96754 AGAAATCAAT
96764 TAACTCGACTTCATTTTCTTAAAC
1 TAACT-GACTTCATTTTCTTAAAC
96788 T--C-GACTTCATTTTCTTAAAC
1 TAACTGACTTCATTTTCTTAAAC
96808 TCAACTTGACTT
1 T-AAC-TGACTT
96820 GAAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
20 19 0.70
22 1 0.04
23 1 0.04
24 1 0.04
25 5 0.19
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (23 bp):
TAACTGACTTCATTTTCTTAAAC
Found at i:102882 original size:2 final size:2
Alignment explanation
Indices: 102877--102908 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
102867 ATAAAAAACT
102877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
102909 ACAAAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:103185 original size:29 final size:29
Alignment explanation
Indices: 103153--103243 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
103143 CATTTTCGTC
*
103153 TCATAGCATATGCTTTTCACTCTTTCATT
1 TCATAGCATATACTTTTCACTCTTTCATT
*
103182 TCATAGCATATACTTTTCACTTTTTCATT
1 TCATAGCATATACTTTTCACTCTTTCATT
* * *
103211 TCATAACATAAAC--TTCACTTTTTCATT
1 TCATAGCATATACTTTTCACTCTTTCATT
*
103238 TTATAG
1 TCATAG
103244 ACCAATGTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 18 0.32
29 38 0.68
ACGTcount: A:0.26, C:0.21, G:0.04, T:0.48
Consensus pattern (29 bp):
TCATAGCATATACTTTTCACTCTTTCATT
Found at i:103760 original size:52 final size:52
Alignment explanation
Indices: 103666--103764 Score: 135
Period size: 52 Copynumber: 1.9 Consensus size: 52
103656 TTAAATCATT
* * * * *
103666 TATCTTTCACTTATCATAATCTTTTCAAACATCATCACAATCAAGTACTTTA
1 TATCATTCACTCATCATAATCTTTTAAAACATCAACAAAATCAAGTACTTTA
* *
103718 TATCATTCACTCATCATAATCTTTTAAAATATTAACAAAATCAAGTA
1 TATCATTCACTCATCATAATCTTTTAAAACATCAACAAAATCAAGTA
103765 TCATACAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.38
Consensus pattern (52 bp):
TATCATTCACTCATCATAATCTTTTAAAACATCAACAAAATCAAGTACTTTA
Found at i:106008 original size:23 final size:24
Alignment explanation
Indices: 105941--106011 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
105931 ATTTCCTGAA
* * *
105941 TGCACAAATAGTGCCGTGTAGAGT
1 TGCACATATAGTGCCATGTAGAAT
* *
105965 TGCACATGTAGTGCCACGTAGAAT
1 TGCACATATAGTGCCATGTAGAAT
*
105989 TTCACATATAG-GCCATGTAGAAT
1 TGCACATATAGTGCCATGTAGAAT
106012 GTACACGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 11 0.28
24 28 0.72
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (24 bp):
TGCACATATAGTGCCATGTAGAAT
Found at i:109094 original size:20 final size:20
Alignment explanation
Indices: 109065--109103 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
109055 AGAGCTTATA
*
109065 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
109085 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
109104 GTGGCGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:110483 original size:23 final size:23
Alignment explanation
Indices: 110441--110484 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
110431 AATACAATTT
* *
110441 AATTTGCCAAGATATTTCCATCC
1 AATTTGCCAAGACATATCCATCC
*
110464 AATTTGCCACGACATATCCAT
1 AATTTGCCAAGACATATCCAT
110485 TTGCTACCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (23 bp):
AATTTGCCAAGACATATCCATCC
Found at i:119824 original size:13 final size:12
Alignment explanation
Indices: 119806--119854 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
119796 TCAAAAAAAT
*
119806 AAAAAAAGGACA
1 AAAAAAAAGACA
119818 AAAAAAAAGAC-
1 AAAAAAAAGACA
*
119829 AAAAAAAACA-A
1 AAAAAAAAGACA
*
119840 AAAAAAAAGCCA
1 AAAAAAAAGACA
119852 AAA
1 AAA
119855 TTTCAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 17 0.55
12 14 0.45
ACGTcount: A:0.82, C:0.10, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGACA
Found at i:119824 original size:21 final size:21
Alignment explanation
Indices: 119798--119846 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
119788 TTTTTTTTTC
* *
119798 AAAAAAATA-AAAAAAGGACAA
1 AAAAAAAGACAAAAAA-AACAA
119819 AAAAAAAGACAAAAAAAACAA
1 AAAAAAAGACAAAAAAAACAA
119840 AAAAAAA
1 AAAAAAA
119847 AGCCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.86, C:0.06, G:0.06, T:0.02
Consensus pattern (21 bp):
AAAAAAAGACAAAAAAAACAA
Found at i:135382 original size:14 final size:14
Alignment explanation
Indices: 135363--135394 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
135353 AGAAGATGAG
135363 AAAAGGTAAAGTGA
1 AAAAGGTAAAGTGA
*
135377 AAAAGGTGAAGTGA
1 AAAAGGTAAAGTGA
135391 AAAA
1 AAAA
135395 TTGTAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.12
Consensus pattern (14 bp):
AAAAGGTAAAGTGA
Found at i:144143 original size:23 final size:23
Alignment explanation
Indices: 144116--144159 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
144106 AATACAATTT
*
144116 AATTTGCCAAGACATTTCCATCC
1 AATTTGCCAAGACATATCCATCC
*
144139 AATTTGCCACGACATATCCAT
1 AATTTGCCAAGACATATCCAT
144160 TTGCTACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (23 bp):
AATTTGCCAAGACATATCCATCC
Found at i:144953 original size:23 final size:23
Alignment explanation
Indices: 144926--144973 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
144916 AAGTTTCCCC
144926 TTATTTCAAACATAGGTGCAGGG
1 TTATTTCAAACATAGGTGCAGGG
144949 TTATTTCAAACATAGGTGCAGGG
1 TTATTTCAAACATAGGTGCAGGG
144972 TT
1 TT
144974 GCCGGCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (23 bp):
TTATTTCAAACATAGGTGCAGGG
Found at i:146047 original size:14 final size:15
Alignment explanation
Indices: 146018--146058 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
146008 TATGTGTCTT
*
146018 AATCTTAAAT-TCTA
1 AATCTTAAATCTATA
*
146032 AA-CTTTAATCTATA
1 AATCTTAAATCTATA
146046 AATCTTAAATCTA
1 AATCTTAAATCTA
146059 AATTATATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 6 0.27
14 7 0.32
15 9 0.41
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (15 bp):
AATCTTAAATCTATA
Found at i:148003 original size:17 final size:18
Alignment explanation
Indices: 147958--148009 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
147948 CTGGAATGTT
* *
147958 TATGAGGGAATTAGAATC
1 TATGAAGGAATTGGAATC
147976 TATGAAGGAATTGGAATC
1 TATGAAGGAATTGGAATC
*
147994 TAT-CAGGAATTGGAAT
1 TATGAAGGAATTGGAAT
148010 TCAATTCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (18 bp):
TATGAAGGAATTGGAATC
Found at i:165161 original size:19 final size:19
Alignment explanation
Indices: 165137--165174 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
165127 TTCTGCGATA
165137 TTTATGTCCTCAAAGACTG
1 TTTATGTCCTCAAAGACTG
165156 TTTATGTCCTCAAAGACTG
1 TTTATGTCCTCAAAGACTG
165175 ATGAGTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (19 bp):
TTTATGTCCTCAAAGACTG
Found at i:169030 original size:64 final size:64
Alignment explanation
Indices: 168960--169122 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
168950 CGGTGCACCA
*
168960 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
169024 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
169089 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
169123 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:169094 original size:19 final size:19
Alignment explanation
Indices: 169070--169120 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
169060 GAAAATATTC
169070 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
169089 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
169108 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
169121 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:171214 original size:40 final size:43
Alignment explanation
Indices: 171159--171274 Score: 157
Period size: 44 Copynumber: 2.7 Consensus size: 43
171149 ATTCTGTGTT
171159 ATTTAGCGGCGTTTGTA-A-A-AAACGCCGCAATATACCATAC
1 ATTTAGCGGCGTTTGTATACAGAAACGCCGCAATATACCATAC
* * * *
171199 ATTTAGCGGTGTTTGTATACTAGAAATGTCGCAATATATCATAC
1 ATTTAGCGGCGTTTGTATAC-AGAAACGCCGCAATATACCATAC
171243 ATTTAGCGGCGTTTGTATACTAGAAACGCCGC
1 ATTTAGCGGCGTTTGTATAC-AGAAACGCCGC
171275 TAATTCTTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 16 0.25
41 1 0.02
43 1 0.02
44 47 0.72
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (43 bp):
ATTTAGCGGCGTTTGTATACAGAAACGCCGCAATATACCATAC
Found at i:171487 original size:42 final size:43
Alignment explanation
Indices: 171309--171504 Score: 166
Period size: 43 Copynumber: 4.6 Consensus size: 43
171299 TTTTCGATAC
* * * *
171309 AAACGCCGCTAAATCTGAAAACTTACTACGACGTTTGTGGGAA
1 AAACGCCGCTAAATCTCAACACCTACTACGACATTTGTGGGAA
* ** * *
171352 AAACGTCGCTAAAAATCATCACCTACTGCGACATTTGTGGGAA
1 AAACGCCGCTAAATCTCAACACCTACTACGACATTTGTGGGAA
* * * * * ** *
171395 AAACGCCGCAAAATATCAAAACCTACTGC-AGCATTTTTAAGTA
1 AAACGCCGCTAAATCTCAACACCTACTACGA-CATTTGTGGGAA
* *
171438 AAACGCCGCTAAATCTCAACACCTACTACGGC-TTTTTAGGG-A
1 AAACGCCGCTAAATCTCAACACCTACTACGACATTTGT-GGGAA
171480 AAACGCCGCTAAA-CATCAACACCTA
1 AAACGCCGCTAAATC-TCAACACCTA
171505 TTGCGGCGTT
Statistics
Matches: 124, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.01
42 30 0.24
43 93 0.75
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAATCTCAACACCTACTACGACATTTGTGGGAA
Found at i:171779 original size:7 final size:6
Alignment explanation
Indices: 171764--171850 Score: 61
Period size: 7 Copynumber: 13.7 Consensus size: 6
171754 ACATGTAAAT
* *
171764 TATACTA TATAGTA TATATA GTTTATA TATATA -ATATA TAGTATA TAAATA
1 TATA-TA TATA-TA TATATA -TATATA TATATA TATATA TA-TATA TATATA
* *
171815 TAAACTA TAGTTTA TATATA TAT-TA TATACTA TATA
1 TATA-TA TA-TATA TATATA TATATA TATA-TA TATA
171851 AATAGTTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
5 10 0.15
6 21 0.32
7 35 0.53
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (6 bp):
TATATA
Found at i:171783 original size:9 final size:9
Alignment explanation
Indices: 171769--171810 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
171759 TAAATTATAC
171769 TATATAGTA
1 TATATAGTA
171778 TATATAGTTTA
1 TATATAG--TA
171789 TATATA-TAA
1 TATATAGT-A
171798 TATATAGTA
1 TATATAGTA
171807 TATA
1 TATA
171811 AATATAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 19 0.66
10 1 0.03
11 8 0.28
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (9 bp):
TATATAGTA
Found at i:171794 original size:20 final size:19
Alignment explanation
Indices: 171764--171850 Score: 84
Period size: 20 Copynumber: 4.3 Consensus size: 19
171754 ACATGTAAAT
171764 TATACTATATAGTATATATAG
1 TATA-TATATA-TATATATAG
*
171785 TTTATATATATAATATATAG
1 TATATATATAT-ATATATAG
* *
171805 TATATAAATATAAACTATAG
1 TATATATATATATA-TATAG
* *
171825 TTTATATATATATTATATAC
1 TATATATATATA-TATATAG
171845 TATATA
1 TATATA
171851 AATAGTTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.06
20 47 0.87
21 4 0.07
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (19 bp):
TATATATATATATATATAG
Found at i:171863 original size:2 final size:2
Alignment explanation
Indices: 171764--171850 Score: 61
Period size: 2 Copynumber: 41.0 Consensus size: 2
171754 ACATGTAAAT
*
171764 TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA TA GTA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * *
171807 TA TA AA TA TA AA CTA TA GTT TA TA TA TA TA T- TA TA TA CTA TA
1 TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
171849 TA
1 TA
171851 AATAGTTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
1 2 0.03
2 55 0.81
3 11 0.16
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:171924 original size:33 final size:33
Alignment explanation
Indices: 171882--172092 Score: 134
Period size: 33 Copynumber: 5.8 Consensus size: 33
171872 ATAAACTATA
*
171882 TATATATATAGGTCATATGTAAACTATATAGTT
1 TATATATATAGGTCATATATAAACTATATAGTT
* * *
171915 TATATATATAGTTCATATGTAAATATCAACTATAGTT
1 TATATATATAGGTCATATAT-AA-A-CTA-TATAGTT
* * *
171952 TATATGTAAACTACAGTTAGTATATAAACTATATAGTT
1 TATA--TATA-TA-GGTCA-TATATAAACTATATAGTT
* * *
171990 TATATGTAAACTATAGTTCATATATAAATATCAACTATAGTA
1 TATA--T--A-TATAGGTCATATAT-AA-A-CTA-TATAGTT
172032 TATATATATAGGTCATATATAAACTATATAGTT
1 TATATATATAGGTCATATATAAACTATATAGTT
* * * *
172065 TATATATACAGTTCATATGTAAAGTATA
1 TATATATATAGGTCATATATAAACTATA
172093 ATTCATATGT
Statistics
Matches: 141, Mismatches: 21, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
33 49 0.35
34 4 0.03
35 2 0.01
36 4 0.03
37 24 0.17
38 20 0.14
39 9 0.06
40 8 0.06
41 7 0.05
42 14 0.10
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (33 bp):
TATATATATAGGTCATATATAAACTATATAGTT
Found at i:171969 original size:18 final size:18
Alignment explanation
Indices: 171937--172716 Score: 239
Period size: 18 Copynumber: 42.2 Consensus size: 18
171927 TCATATGTAA
*
171937 ATATCAACTATAGTTTAT
1 ATATAAACTATAGTTTAT
* *
171955 ATGTAAACTACAG-TTAGT
1 ATATAAACTATAGTTTA-T
171973 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAGTTTAT
* *
171993 ATGTAAACTATAGTTCAT
1 ATATAAACTATAGTTTAT
* *
172011 ATATAAA-TATCAACTATAGT
1 ATATAAACTAT--AGTTTA-T
* * *
172031 ATATATA-TATAGGTCAT
1 ATATAAACTATAGTTTAT
172048 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAGTTTAT
** * *
172068 ATATACAGTTCATA-TGTAA
1 ATATA-AACT-ATAGTTTAT
* * *
172087 AGTAT-AATTCATA-TGTAA
1 A-TATAAACT-ATAGTTTAT
*
172105 ATATCAACTATAGTTTAT
1 ATATAAACTATAGTTTAT
* *
172123 ATGTAACCTATAG-TTAGT
1 ATATAAACTATAGTTTA-T
172141 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAGTTTAT
* *
172161 ATGTAAACTATAGTTCAT
1 ATATAAACTATAGTTTAT
**
172179 ATATAAA-TATCA-ACTAT
1 ATATAAACTAT-AGTTTAT
* *
172196 AATATATA-TATAGTTCAT
1 -ATATAAACTATAGTTTAT
*
172214 ATGTAAACTATA-TAGTT-T
1 ATATAAACTATAGT--TTAT
*
172232 ATAT--A-TATAGTTCAT
1 ATATAAACTATAGTTTAT
*
172247 ATGTAAACTATAGTTCATAT
1 ATATAAACTATAGTT--TAT
*
172267 ATAAATATCAACTATTTCA-TATGTAA
1 AT--ATA--AACTA--T-AGT-T-TAT
*
172293 ATATCAACTATAGTTTAT
1 ATATAAACTATAGTTTAT
*
172311 ATGTAAACTATAG-TTAGT
1 ATATAAACTATAGTTTA-T
172329 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAGTTTAT
* *
172349 ATGTAAACTATAGTTCAT
1 ATATAAACTATAGTTTAT
**
172367 ATATAAA-TATCA-ACTAT
1 ATATAAACTAT-AGTTTAT
* *
172384 AGTATATA-TATAGTTCAT
1 A-TATAAACTATAGTTTAT
*
172402 ATGTAAACTATTTAG-TT-T
1 ATATAAACTA--TAGTTTAT
*
172420 ATAT--A-TATAGTTCAT
1 ATATAAACTATAGTTTAT
*
172435 ATGTAAACTATAGTTCATATGT
1 ATATAAACTATAGTT--TA--T
*
172457 AAATATCAACTATAGTTTAT
1 --ATATAAACTATAGTTTAT
* *
172477 ATGTAACCTATAG-TTAGT
1 ATATAAACTATAGTTTA-T
172495 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAGTTTAT
*
172515 ATGTAAACTATAGTTCATAT
1 ATATAAACTATAGTT--TAT
*
172535 ATAAATATCAACTATAGTATAT
1 AT--ATA--AACTATAGTTTAT
** * *
172557 ATAT-AGTTCATA-TGTAA
1 ATATAAACT-ATAGTTTAT
*
172574 ATATCAACTATAGTTTAT
1 ATATAAACTATAGTTTAT
*
172592 ATGTAAACTATAG-TTAGT
1 ATATAAACTATAGTTTA-T
172610 ATATAAACTATATAGTTTAT
1 ATATAAAC--TATAGTTTAT
*
172630 ATGTAAACTATA-TAGTT-T
1 ATATAAACTATAGT--TTAT
*
172648 ATAT--A-TATAGTTCAT
1 ATATAAACTATAGTTTAT
* * *
172663 ATGTAAACTATAATTCAT
1 ATATAAACTATAGTTTAT
* * *
172681 ATATATAGTATA---TAA
1 ATATAAACTATAGTTTAT
172696 ATATAAACTATAGTTTAT
1 ATATAAACTATAGTTTAT
172714 ATA
1 ATA
172717 AATAGTATAA
Statistics
Matches: 565, Mismatches: 108, Indels: 178
0.66 0.13 0.21
Matches are distributed among these distances:
13 3 0.01
14 3 0.01
15 33 0.06
16 5 0.01
17 70 0.12
18 256 0.45
19 14 0.02
20 111 0.20
21 16 0.03
22 17 0.03
24 29 0.05
26 6 0.01
27 2 0.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (18 bp):
ATATAAACTATAGTTTAT
Found at i:171990 original size:75 final size:70
Alignment explanation
Indices: 171880--172087 Score: 245
Period size: 75 Copynumber: 2.8 Consensus size: 70
171870 TAATAAACTA
* * *
171880 TATATATATATAGGTCATATGTAAACTATATAGTTTATATATATAGTTCATATGTAAATATCAAC
1 TATATATAAATAAGTCATATATAAACTATATAGTTTATATATATAGTTCATATGTAAATATCAAC
171945 TATAG
66 TATAG
* * *
171950 TTTATATGTAAACTACAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATAT
1 --TATATATAAA-TA-AGTCA-TATATAAACTATATAGTTTATA--T--A-TATAGTTCATATGT
172015 AAATATCAACTATAG
56 AAATATCAACTATAG
* * *
172030 TATATATATATAGGTCATATATAAACTATATAGTTTATATATACAGTTCATATGTAAA
1 TATATATAAATAAGTCATATATAAACTATATAGTTTATATATATAGTTCATATGTAAA
172088 GTATAATTCA
Statistics
Matches: 116, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
70 15 0.13
71 1 0.01
72 8 0.07
73 3 0.03
74 3 0.03
75 43 0.37
76 3 0.03
77 3 0.03
78 8 0.07
79 1 0.01
80 28 0.24
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (70 bp):
TATATATAAATAAGTCATATATAAACTATATAGTTTATATATATAGTTCATATGTAAATATCAAC
TATAG
Found at i:171993 original size:38 final size:38
Alignment explanation
Indices: 171945--172639 Score: 146
Period size: 38 Copynumber: 18.5 Consensus size: 38
171935 AAATATCAAC
171945 TATAGTTTATATGTAAACTACAGTT-AGTATATAAACTA
1 TATAGTTTATATGTAAACTACAGTTCA-TATATAAACTA
*
171983 TATAGTTTATATGTAAACTATAGTTCATATATAAA-TA
1 TATAGTTTATATGTAAACTACAGTTCATATATAAACTA
* * * * * *
172020 TCA-ACTATAGTATATATA-TATAGGTCATATATAAACTA
1 T-ATAGTTTA-TATGTAAACTACAGTTCATATATAAACTA
* *
172058 TATAGTTTATA--T--A-TACAGTTCATATGTAAAGTA
1 TATAGTTTATATGTAAACTACAGTTCATATATAAACTA
* * * * *
172091 TA-A-TTCATATGTAAATATCAACTATAGTTTATATGT-AAC-C
1 TATAGTTTATATG----TA--AACTACAGTTCATATATAAACTA
* * * *
172131 TATAG-TTAGTATATAAACTATATAGTTTATATGTAAAC--
1 TATAGTTTA-TATGTAAAC--TACAGTTCATATATAAACTA
* * ** *
172169 TATAGTTCATATATAAA-TATCAACT-ATA-ATATA-TA
1 TATAGTTTATATGTAAACTA-CAGTTCATATATAAACTA
* * *
172204 TATAGTTCATATGTAAACT--A--T-ATAGTTTATA-TA
1 TATAGTTTATATGTAAACTACAGTTCATA-TATAAACTA
* *
172237 TATAGTTCATATGTAAACTATAGTTCATATATAAA-TA
1 TATAGTTTATATGTAAACTACAGTTCATATATAAACTA
* * *
172274 TCAACTA-TTTCATATGTAAATATCAACTATAGTTTATATGTAAAC--
1 T--A-TAGTTT-ATATG----TA--AACTACAGTTCATATATAAACTA
* * * *
172319 TATAG-TTAGTATATAAACTATATAGTTTATATGTAAAC--
1 TATAGTTTA-TATGTAAAC--TACAGTTCATATATAAACTA
* * * *
172357 TATAGTTCATATATAAA-TATCA--AC-TATAGTATA-TA
1 TATAGTTTATATGTAAACTA-CAGTTCATATA-TAAACTA
* *
172392 TATAGTTCATATGTAAACTATTTAGTT--TATAT--A-TA
1 TATAGTTTATATGTAAACTA--CAGTTCATATATAAACTA
* * * *
172427 --TAGTTCATATGTAAACTATAGTTCATATGTAAATATCAA
1 TATAGTTTATATGTAAACTACAGTTCATATAT-AA-A-CTA
* *
172466 CTATAGTTTATATGTAACCTATAGTT-AGTATATAAACTA
1 -TATAGTTTATATGTAAACTACAGTTCA-TATATAAACTA
*
172505 TATAGTTTATATGTAAACTATAGTTCATATATAAA-TA
1 TATAGTTTATATGTAAACTACAGTTCATATATAAACTA
* * * *
172542 TCA-A--CTATA-GTATATA-TATAGTTCATATGTAAATATCAA
1 T-ATAGTTTATATGTA-A-ACTACAGTTCATATAT-AA-A-CTA
*
172581 CTATAGTTTATATGTAAACTATAGTT-AGTATATAAACTA
1 -TATAGTTTATATGTAAACTACAGTTCA-TATATAAACTA
172620 TATAGTTTATATGTAAACTA
1 TATAGTTTATATGTAAACTA
172640 TATAGTTTAT
Statistics
Matches: 517, Mismatches: 55, Indels: 170
0.70 0.07 0.23
Matches are distributed among these distances:
31 14 0.03
32 1 0.00
33 70 0.14
34 9 0.02
35 62 0.12
36 15 0.03
37 44 0.09
38 168 0.32
39 19 0.04
40 13 0.03
41 14 0.03
42 63 0.12
43 4 0.01
44 2 0.00
45 1 0.00
46 18 0.03
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (38 bp):
TATAGTTTATATGTAAACTACAGTTCATATATAAACTA
Found at i:172108 original size:88 final size:91
Alignment explanation
Indices: 171981--172162 Score: 246
Period size: 88 Copynumber: 2.0 Consensus size: 91
171971 GTATATAAAC
* * *
171981 TATATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAG-TATATAT-A-TATAG
1 TATACAGTTCATATGTAAACTATAATTCATATATAAATATCAACTATAGTTATATATAACTATA-
172043 GTCA-TATATAAACTATATAGTTTATA
65 GTCAGTATATAAACTATATAGTTTATA
* * *
172069 TATACAGTTCATATGTAAAGTATAATTCATATGTAAATATCAACTATAGTTTATATGTAACCTAT
1 TATACAGTTCATATGTAAACTATAATTCATATATAAATATCAACTATAG-TTATATATAA-CTAT
*
172134 AGTTAGTATATAAACTATATAGTTTATA
64 AGTCAGTATATAAACTATATAGTTTATA
172162 T
1 T
172163 GTAAACTATA
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
88 44 0.54
90 6 0.07
91 1 0.01
92 3 0.04
93 27 0.33
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (91 bp):
TATACAGTTCATATGTAAACTATAATTCATATATAAATATCAACTATAGTTATATATAACTATAG
TCAGTATATAAACTATATAGTTTATA
Found at i:172121 original size:168 final size:166
Alignment explanation
Indices: 171921--172293 Score: 633
Period size: 168 Copynumber: 2.2 Consensus size: 166
171911 AGTTTATATA
171921 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATAT
1 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATAT
171986 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATATAGGTCATATA
66 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATA--ATATATATATAGGTCATATA
*
172051 TAAACTATATAGTTTATATATACAGTTCATATGTAAAG
129 TAAACTATATAGTTTATATATACAGTTCATATGTAAAC
* * *
172089 TATAATTCATATGTAAATATCAACTATAGTTTATATGTAACCTATAGTTAGTATATAAACTATAT
1 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATAT
* *
172154 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGTTCATATGTA
66 AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGGTCATATATA
*
172219 AACTATATAGTTTATATATATAGTTCATATGTAAAC
131 AACTATATAGTTTATATATACAGTTCATATGTAAAC
* *
172255 TATAGTTCATATATAAATATCAACTAT--TTCATATGTAAA
1 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAA
172294 TATCAACTAT
Statistics
Matches: 194, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
164 10 0.05
166 79 0.41
168 105 0.54
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (166 bp):
TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATAT
AGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGGTCATATATA
AACTATATAGTTTATATATACAGTTCATATGTAAAC
Found at i:172157 original size:150 final size:149
Alignment explanation
Indices: 171880--172152 Score: 367
Period size: 150 Copynumber: 1.8 Consensus size: 149
171870 TAATAAACTA
* *
171880 TATATATATATAGGTCATATGTAAACTATATAGTTTATATATATAGTTCATATGTAAATATCAAC
1 TATATATATATAGGTCATATATAAACTATATAGTTTATATATACAGTTCATATGTAAATATCAAC
* * * *
171945 TATAGTTTATATGTAAACTACAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCA
66 TATAGTGTAAATATAAACTACAGTTA-TATATAAACTATATAGTTTATATATAAACTATAGTTCA
172010 TATATAAATATCAACTATAG
130 TATATAAATATCAACTATAG
172030 TATATATATATAGGTCATATATAAACTATATAGTTTATATATACAGTTCATATGTAAAGTAT-AA
1 TATATATATATAGGTCATATATAAACTATATAGTTTATATATACAGTTCATATGTAAA-TATCAA
* * * * *
172094 TTCATA-TGTAAATATCAACTATAGTT-TATATGTAAC-CTATAG-TTAGTATATAAACTATA
65 CT-ATAGTGTAAATATAAACTACAGTTATATAT-AAACTATATAGTTTA-TATATAAACTATA
172153 TAGTTTATAT
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
147 3 0.03
148 22 0.20
149 3 0.03
150 74 0.69
151 6 0.06
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (149 bp):
TATATATATATAGGTCATATATAAACTATATAGTTTATATATACAGTTCATATGTAAATATCAAC
TATAGTGTAAATATAAACTACAGTTATATATAAACTATATAGTTTATATATAAACTATAGTTCAT
ATATAAATATCAACTATAG
Found at i:172266 original size:86 final size:90
Alignment explanation
Indices: 172113--172574 Score: 289
Period size: 86 Copynumber: 5.2 Consensus size: 90
172103 AAATATCAAC
* * *
172113 TATAGTTTATATGTAACCTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCA
1 TATAGTTCATATGTAAACTATAG-TAGTATATAAACTATATAGTTCATATGTAAACTATAGTTCA
172178 TATATAAATATCAACTATAATATATA
65 TATATAAATATCAACTATAATATATA
*
172204 TATAGTTCATATGTAAACTATA-TAGT-T-TATA-TATATAGTTCATATGTAAACTATAGTTCAT
1 TATAGTTCATATGTAAACTATAGTAGTATATAAACTATATAGTTCATATGTAAACTATAGTTCAT
*
172265 ATATAAATATCAACTAT--T-T-CA
66 ATATAAATATCAACTATAATATATA
* * * * *
172286 TAT-G-T-AAATATCAACTATAGTTTA-TATGTAAAC--TATAGTT-AGTATATAAACTATATAG
1 TATAGTTCATATGTAAACTATAG--TAGTATATAAACTATATAGTTCA-TATGTAAAC--TATAG
* * * *
172344 TTTATATGTAAACTAT--AGT-TCATATATA
61 TTCATATATAAA-TATCAACTATAATATATA
* * * *
172372 AATA--TCAACTATAGTATATA-TATAGTTCA-TATGTAAACTATTTAGTT--TA--TATA-TAT
1 TATAGTTC-A-TAT-GTA-A-ACTATAG-T-AGTATATAAACTATATAGTTCATATGTAAACTAT
* *
172428 AGTTCATATGTAAACTATAGTTCATA-TGTAA-ATATCAA
59 AGTTCATATAT-AA--ATA--TCA-ACTATAATATAT--A
* * *
172466 CTATAGTTTATATGTAACCTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTC
1 -TATAGTTCATATGTAAACTATAG-TAGTATATAAACTATATAGTTCATATGTAAACTATAGTTC
*
172531 ATATATAAATATCAACTATAGTATATA
64 ATATATAAATATCAACTATAATATATA
172558 TATAGTTCATATGTAAA
1 TATAGTTCATATGTAAA
172575 TATCAACTAT
Statistics
Matches: 291, Mismatches: 33, Indels: 94
0.70 0.08 0.22
Matches are distributed among these distances:
79 11 0.04
80 1 0.00
81 3 0.01
82 23 0.08
83 6 0.02
84 17 0.06
85 4 0.01
86 63 0.22
87 5 0.02
88 4 0.01
89 10 0.03
90 4 0.01
91 53 0.18
92 9 0.03
93 39 0.13
94 8 0.03
95 11 0.04
96 1 0.00
97 6 0.02
98 13 0.04
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (90 bp):
TATAGTTCATATGTAAACTATAGTAGTATATAAACTATATAGTTCATATGTAAACTATAGTTCAT
ATATAAATATCAACTATAATATATA
Found at i:172279 original size:24 final size:24
Alignment explanation
Indices: 172252--172317 Score: 100
Period size: 22 Copynumber: 2.8 Consensus size: 24
172242 TTCATATGTA
*
172252 AACTATAGTTCATATATAAATATC
1 AACTATAGTTCATATGTAAATATC
172276 AACTAT--TTCATATGTAAATATC
1 AACTATAGTTCATATGTAAATATC
*
172298 AACTATAGTTTATATGTAAA
1 AACTATAGTTCATATGTAAA
172318 CTATAGTTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 21 0.55
24 17 0.45
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (24 bp):
AACTATAGTTCATATGTAAATATC
Found at i:172294 original size:188 final size:188
Alignment explanation
Indices: 172094--172469 Score: 716
Period size: 188 Copynumber: 2.0 Consensus size: 188
172084 TAAAGTATAA
*
172094 TTCATATGTAAATATCAACTATAGTTTATATGTAACCTATAGTTAGTATATAAACTATATAGTTT
1 TTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTT
172159 ATATGTAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGTTCATATGTAAACTA
66 ATATGTAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGTTCATATGTAAACTA
172224 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
131 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
172282 TTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTT
1 TTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTT
*
172347 ATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTAAACTA
66 ATATGTAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGTTCATATGTAAACTA
* *
172412 TTTAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTAT
131 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
172470 AGTTTATATG
Statistics
Matches: 184, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 184 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (188 bp):
TTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTT
ATATGTAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGTTCATATGTAAACTA
TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
Found at i:172325 original size:168 final size:166
Alignment explanation
Indices: 171921--172340 Score: 513
Period size: 168 Copynumber: 2.5 Consensus size: 166
171911 AGTTTATATA
* * *
171921 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGT-TAG-TATA--TAAACT
1 TATAGTTCATATATAAATATCAACTATA-TTCATATGTAAA-TACACTATAGTTATATGTAAAC-
*
171982 ATATAGTTTA-TATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATATAGGTC
63 ATATAG-TTAGTATATAAACTATAGTTCATATATAAATATCAACTATA--ATATATATATA-GTC
* *
172046 ATATATAAACTATATAGTTTATATATACAGTTCATATGTAAAG
124 ATATATAAACTATATAGTTTATATATATAGTTCATATGTAAAC
* * * *
172089 TATAATTCATATGTAAATATCAACTATAGTTTATATGT--A-AC-CTATAGTTAGTATATAAACT
1 TATAGTTCATATATAAATATCAACTATA-TTCATATGTAAATACACTATAGTTA-TATGTAAAC-
*
172150 ATATAGTTTA-TATGTAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGTTCAT
63 ATATAG-TTAGTATATAAACTATAGTTCATATATAAATATCAACTATAATATATATATAG-TCAT
*
172214 ATGTAAACTATATAGTTTATATATATAGTTCATATGTAAAC
126 ATATAAACTATATAGTTTATATATATAGTTCATATGTAAAC
172255 TATAGTTCATATATAAATATCAACTAT-TTCATATGTAAATATCAACTATAGTTTATATGTAAAC
1 TATAGTTCATATATAAATATCAACTATATTCATATGTAAATA-C-ACTATAG-TTATATGTAAAC
172319 -TATAGTTAGTATATAAACTATA
63 ATATAGTTAGTATATAAACTATA
172341 TAGTTTATAT
Statistics
Matches: 228, Mismatches: 10, Indels: 28
0.86 0.04 0.11
Matches are distributed among these distances:
163 1 0.00
164 13 0.06
165 3 0.01
166 82 0.36
167 4 0.02
168 108 0.47
170 14 0.06
171 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (166 bp):
TATAGTTCATATATAAATATCAACTATATTCATATGTAAATACACTATAGTTATATGTAAACATA
TAGTTAGTATATAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGTCATATATA
AACTATATAGTTTATATATATAGTTCATATGTAAAC
Found at i:172371 original size:166 final size:164
Alignment explanation
Indices: 172022--172700 Score: 521
Period size: 166 Copynumber: 4.2 Consensus size: 164
172012 TATAAATATC
*
172022 AACTATAGTATATATATATAGGTCATATATAAACTATATAGTTTATATATACAGTTCATATGTAA
1 AACTATAGT-TATATATATA-GTCATAT-TAAACTATATAGTTTATATATATAGTTCATATGTAA
* * * * *
172087 AGTATAATTCATATGTAAATATCAACTATAGTTTATATGT--A-A-C--CTATAG-TTAGTATAT
63 ACTATAGTTCATATATAAATATCAACTATA-TTCATATGTAAATATCAACTATAGTTTA-TATGT
* *
172145 AAACTATATAGTTTA-TATGTAAAC--TATAGTTCATATATAAATA
126 AAAC--TATAG-TTAGTATATAAACTATATAGTT--TATAT--GTA
*
172188 TCAACTATA-ATATATATATAGTTCATATGTAAACTATATAGTTTATATATATAGTTCATATGTA
1 --AACTATAGTTATATATATAG-TCATAT-TAAACTATATAGTTTATATATATAGTTCATATGTA
172252 AACTATAGTTCATATATAAATATCAACTAT-TTCATATGTAAATATCAACTATAGTTTATATGTA
62 AACTATAGTTCATATATAAATATCAACTATATTCATATGTAAATATCAACTATAGTTTATATGTA
172316 AACTATAGTTAGTATATAAACTATATAGTTTATATGTA
127 AACTATAGTTAGTATATAAACTATATAGTTTATATGTA
*
172354 AACTATAGTTCATATATA-A---ATA-TCAAC--TATAG--TATATATATAGTTCATATGTAAAC
1 AACTATAGTT-ATATATATAGTCATATTAAACTATATAGTTTATATATATAGTTCATATGTAAAC
* *
172410 TATTTAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTT
65 TA--TAGTTCATATATA-A----ATA--TCAACTATA-TTCATATGTAAATATCAACTATAGTTT
*
172475 ATATGTAACCTATAGTTAGTATATAAACTATATAGTTTATATGTA
120 ATATGTAAACTATAGTTAGTATATAAACTATATAGTTTATATGTA
*
172520 AACTATAGTTCATATATA-A---ATA-TCAAC--TATAG--TATATATATAGTTCATATGTAAA-
1 AACTATAGTT-ATATATATAGTCATATTAAACTATATAGTTTATATATATAGTTCATATGTAAAC
** * * * * * *
172575 TATCAACT-ATAGTTTATATGTAAACTATAGT--TA-GT--ATATAAACTATATAGTTTATATGT
65 TAT-AGTTCATA-TATAAATATCAACTATATTCATATGTAAATATCAAC--TATAGTTTATATGT
* *
172634 AAACTATA--TAGT-T-TATA-TATATAGTTCATATGTA
126 AAACTATAGTTAGTATATAAACTATATAGTTTATATGTA
*
172668 AACTATAATTCATATATATAGT-ATA-TAAA-TATA
1 AACTATAGTT-ATATATATAGTCATATTAAACTATA
172701 AACTATAGTT
Statistics
Matches: 451, Mismatches: 27, Indels: 82
0.81 0.05 0.15
Matches are distributed among these distances:
148 33 0.07
149 4 0.01
150 1 0.00
151 17 0.04
152 2 0.00
153 23 0.05
154 2 0.00
155 26 0.06
156 1 0.00
157 26 0.06
158 1 0.00
159 6 0.01
161 3 0.01
162 3 0.01
163 4 0.01
164 27 0.06
165 5 0.01
166 213 0.47
167 4 0.01
168 26 0.06
170 21 0.05
171 3 0.01
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (164 bp):
AACTATAGTTATATATATAGTCATATTAAACTATATAGTTTATATATATAGTTCATATGTAAACT
ATAGTTCATATATAAATATCAACTATATTCATATGTAAATATCAACTATAGTTTATATGTAAACT
ATAGTTAGTATATAAACTATATAGTTTATATGTA
Found at i:172404 original size:53 final size:53
Alignment explanation
Indices: 172337--172574 Score: 204
Period size: 53 Copynumber: 4.4 Consensus size: 53
172327 GTATATAAAC
*
172337 TATATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATA
1 TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATA
* *
172390 TATATAGTTCATATGTAAACTATTTAGTTTATATATATAGT-TC-A-TAT-GTA-A
1 TATATAGTTCATATGTAAACTA--TAGTTCATATATA-AATATCAACTATAGTATA
* * * * *
172441 -ACTATAGTTCATATGTAAATATCAACTATAGTTTATATGTAACCTATAGT-TAGTATA-TAAA
1 TA-TATAGTTCATATG----TA--AACTATAGTTCATATATAA---ATA-TCAACTATAGTATA
*
172502 CTATATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATA
1 -TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATA
172556 TATATAGTTCATATGTAAA
1 TATATAGTTCATATGTAAA
172575 TATCAACTAT
Statistics
Matches: 150, Mismatches: 12, Indels: 46
0.72 0.06 0.22
Matches are distributed among these distances:
50 1 0.01
51 14 0.09
52 4 0.03
53 50 0.33
54 5 0.03
55 28 0.19
56 19 0.13
57 6 0.04
58 2 0.01
59 2 0.01
60 5 0.03
61 1 0.01
62 12 0.08
63 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (53 bp):
TATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATA
Found at i:172522 original size:354 final size:355
Alignment explanation
Indices: 171926--172574 Score: 1210
Period size: 354 Copynumber: 1.8 Consensus size: 355
171916 ATATATATAG
171926 TTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATATAGTTT
1 TTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATATAGTTT
171991 ATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATATAGGTCATATATAAAC
66 ATATGTAAACTATAGTTCATATATAAATATCAACTATAG-ATATATATATAGGTCATATATAAAC
*
172056 TATATAGTTTATATATACAGTTCATATGTAAAGTATAATTCATATGTAAATATCAACTATAGTTT
130 TATATAGTTTATATATACAGTTCATATGTAAACTATAATTCATATGTAAATATCAACTATAGTTT
172121 ATATGTAACCTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAA
195 ATATGTAACCTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAA
172186 TATCAACTATAATATATATATAGTTCATATGTAAACTATATAGTTTATATATATAGTTCATATGT
260 TATCAACTATAATATATATATAGTTCATATGTAAACTATATAGTTTATATATATAGTTCATATGT
172251 AAACTATAGTTCATATATAAATATCAACTAT
325 AAACTATAGTTCATATATAAATATCAACTAT
*
172282 TTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTT
1 TTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATATAGTTT
* *
172347 ATATGTAAACTATAGTTCATATATAAATATCAACTATAG-TATATATATAGTTCATATGTAAACT
66 ATATGTAAACTATAGTTCATATATAAATATCAACTATAGATATATATATAGGTCATATATAAACT
* * *
172411 ATTTAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTATAGTTTA
131 ATATAGTTTATATATACAGTTCATATGTAAACTATAATTCATATGTAAATATCAACTATAGTTTA
172476 TATGTAACCTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAAT
196 TATGTAACCTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAAT
*
172541 ATCAACTATAGTATATATATAGTTCATATGTAAA
261 ATCAACTATAATATATATATAGTTCATATGTAAA
172575 TATCAACTAT
Statistics
Matches: 285, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
354 182 0.64
356 103 0.36
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (355 bp):
TTCATATGTAAATATCAACTATAGTTTATATGTAAACTACAGTTAGTATATAAACTATATAGTTT
ATATGTAAACTATAGTTCATATATAAATATCAACTATAGATATATATATAGGTCATATATAAACT
ATATAGTTTATATATACAGTTCATATGTAAACTATAATTCATATGTAAATATCAACTATAGTTTA
TATGTAACCTATAGTTAGTATATAAACTATATAGTTTATATGTAAACTATAGTTCATATATAAAT
ATCAACTATAATATATATATAGTTCATATGTAAACTATATAGTTTATATATATAGTTCATATGTA
AACTATAGTTCATATATAAATATCAACTAT
Found at i:172559 original size:188 final size:185
Alignment explanation
Indices: 172094--172539 Score: 636
Period size: 188 Copynumber: 2.4 Consensus size: 185
172084 TAAAGTATAA
* *
172094 TTCATATGTAAATATCAACTATAGTTTATATGTAACCTATAGTTAGTATATAAACTATATAGTTT
1 TTCATATGT-AATATC-ACTATAGTTTATATATAAACTATAGTTAGTATATAAAC-ATATAGTTT
* *
172159 ATATGTAAACTATAGTTCATATATAAATATCAACTATAATATATATATAGTTCATATGTAAACTA
63 ATATATAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTAAACTA
*
172224 TATAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
128 TTTAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
*
172282 TTCATATGTAAATATCAACTATAGTTTATATGTAAACTATAGTTAGTATATAAACTATATAGTTT
1 TTCATATGT-AATATC-ACTATAGTTTATATATAAACTATAGTTAGTATATAAAC-ATATAGTTT
*
172347 ATATGTAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTAAACTA
63 ATATATAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTAAACTA
*
172412 TTTAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAACTAT
128 TTTAGTTTATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
* *
172470 AGTTTATATGT-A-A-C-CTATAG-TTAGTATATAAACTATATAGTTTA-TATGTAAAC-TATAG
1 --TTCATATGTAATATCACTATAGTTTA-TATATAAAC--TATAG-TTAGTATATAAACATATAG
*
172528 TTCATATATAAA
60 TTTATATATAAA
172540 TATCAACTAT
Statistics
Matches: 243, Mismatches: 9, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
183 3 0.01
184 29 0.12
186 14 0.06
187 4 0.02
188 185 0.76
190 8 0.03
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (185 bp):
TTCATATGTAATATCACTATAGTTTATATATAAACTATAGTTAGTATATAAACATATAGTTTATA
TATAAACTATAGTTCATATATAAATATCAACTATAGTATATATATAGTTCATATGTAAACTATTT
AGTTTATATATATAGTTCATATGTAAACTATAGTTCATATATAAATATCAACTAT
Found at i:172562 original size:35 final size:35
Alignment explanation
Indices: 172523--172593 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
172513 ATATGTAAAC
172523 TATAGTTCATATATAAATATCAACTATAGTATATA
1 TATAGTTCATATATAAATATCAACTATAGTATATA
* *
172558 TATAGTTCATATGTAAATATCAACTATAGTTTATA
1 TATAGTTCATATATAAATATCAACTATAGTATATA
172593 T
1 T
172594 GTAAACTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (35 bp):
TATAGTTCATATATAAATATCAACTATAGTATATA
Found at i:172683 original size:31 final size:33
Alignment explanation
Indices: 172582--172689 Score: 114
Period size: 33 Copynumber: 3.2 Consensus size: 33
172572 AAATATCAAC
*
172582 TATAGTTTATATGTAAACTATAGTTAGTAT-ATAAACTA
1 TATAGTTCATATGTAAACTATA--TAGT-TCAT--A-TA
* *
172620 TATAGTTTATATGTAAACTATATAGTTTATATA
1 TATAGTTCATATGTAAACTATATAGTTCATATA
172653 TATAGTTCATATGTAAACTATA-A-TTCATATA
1 TATAGTTCATATGTAAACTATATAGTTCATATA
172684 TATAGT
1 TATAGT
172690 ATATAAATAT
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
31 13 0.19
32 1 0.01
33 23 0.34
34 1 0.01
35 1 0.01
36 6 0.09
38 22 0.33
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (33 bp):
TATAGTTCATATGTAAACTATATAGTTCATATA
Found at i:172694 original size:7 final size:6
Alignment explanation
Indices: 172679--172820 Score: 62
Period size: 6 Copynumber: 23.2 Consensus size: 6
172669 ACTATAATTC
* * * * *
172679 ATATAT ATAGTAT ATAAAT ATAAACT ATAGTTT ATATAA ATAGTAT A-AAAT
1 ATATAT ATA-TAT ATATAT ATATA-T ATA-TAT ATATAT ATA-TAT ATATAT
* * * * *
172730 ATAGTAT ATAAAT ATAAAT -TATAGT ATGTAGT ATATAA ATATAA ACTATA-
1 ATA-TAT ATATAT ATATAT ATATA-T ATATA-T ATATAT ATATAT A-TATAT
*
172780 ATTTAT ATAT-T ATATAT -TATAT ATATA- ATATAT ACTATAT A
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT A-TATAT A
172821 AATAGTTTAT
Statistics
Matches: 107, Mismatches: 15, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
5 24 0.22
6 42 0.39
7 41 0.38
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (6 bp):
ATATAT
Found at i:172707 original size:20 final size:20
Alignment explanation
Indices: 172683--172756 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
172673 TAATTCATAT
172683 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
172703 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
172728 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
172748 TTATAGTAT
1 ATATAGTAT
172757 GTAGTATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 19 0.41
21 1 0.02
22 7 0.15
23 7 0.15
24 1 0.02
25 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:172714 original size:27 final size:27
Alignment explanation
Indices: 172684--172786 Score: 89
Period size: 27 Copynumber: 4.1 Consensus size: 27
172674 AATTCATATA
172684 TATAGTATATAAATATAAACTATAGTT
1 TATAGTATATAAATATAAACTATAGTT
* *
172711 TATA-TAAAT-AGTAT-AA--A-A---
1 TATAGTATATAAATATAAACTATAGTT
* *
172729 TATAGTATATAAATATAAATTATAGTA
1 TATAGTATATAAATATAAACTATAGTT
* *
172756 TGTAGTATATAAATATAAACTATAATT
1 TATAGTATATAAATATAAACTATAGTT
172783 TATA
1 TATA
172787 TATTATATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
18 4 0.07
19 4 0.07
20 4 0.07
21 3 0.05
22 1 0.02
23 1 0.02
24 3 0.05
25 4 0.07
26 4 0.07
27 30 0.52
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (27 bp):
TATAGTATATAAATATAAACTATAGTT
Found at i:172732 original size:25 final size:23
Alignment explanation
Indices: 172683--172743 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
172673 TAATTCATAT
172683 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
172703 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
172728 ATATAGTATATAAATA
1 ATATAGTATATAAATA
172744 TAAATTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.15
22 5 0.15
23 12 0.35
24 1 0.03
25 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATAGTATATAAATAGTATAAA
Found at i:172735 original size:12 final size:13
Alignment explanation
Indices: 172696--172824 Score: 63
Period size: 13 Copynumber: 9.7 Consensus size: 13
172686 TAGTATATAA
172696 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
172710 TTATATAA-ATAGT
1 ATATA-AATATAGT
172723 ATA-AAATATAGT
1 ATATAAATATAGT
*
172735 ATATAAATATA-A
1 ATATAAATATAGT
* *
172747 ATTATAGTATGTAGT
1 A-TATA-AATATAGT
*
172762 ATATAAATATA-A
1 ATATAAATATAGT
*
172774 ACTATAATTTATA-T
1 A-TATAA-ATATAGT
*
172788 ATTATATATTATA-T
1 A-TATA-AATATAGT
*
172802 ATATAATATATACT
1 ATATAA-ATATAGT
172816 ATATAAATA
1 ATATAAATA
172825 GTTTATATAG
Statistics
Matches: 91, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
11 2 0.02
12 12 0.13
13 38 0.42
14 35 0.38
15 4 0.04
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:172772 original size:20 final size:20
Alignment explanation
Indices: 172718--172772 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
172708 GTTTATATAA
172718 ATAGTATA-AAATATAGTAT
1 ATAGTATATAAATATAGTAT
*
172737 ATA-AATATAAATTATAGTAT
1 ATAGTATATAAA-TATAGTAT
*
172757 GTAGTATATAAATATA
1 ATAGTATATAAATATA
172773 AACTATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 6 0.20
20 14 0.47
21 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (20 bp):
ATAGTATATAAATATAGTAT
Found at i:172793 original size:27 final size:26
Alignment explanation
Indices: 172722--172824 Score: 91
Period size: 27 Copynumber: 3.8 Consensus size: 26
172712 ATATAAATAG
* *
172722 TATAAAATATAGTATATAAATATAAA
1 TATAATATATACTATATAAATATAAA
* * *
172748 TTATAGTATGTAGTATATAAATATAAA
1 -TATAATATATACTATATAAATATAAA
* * *
172775 CTATAATTTATA-TATTATATATTATATA
1 -TATAATATATACTA-TATA-AATATAAA
172803 TATAATATATACTATATAAATA
1 TATAATATATACTATATAAATA
172825 GTTTATATAG
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
26 5 0.08
27 49 0.79
28 8 0.13
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (26 bp):
TATAATATATACTATATAAATATAAA
Found at i:172826 original size:72 final size:71
Alignment explanation
Indices: 172686--172824 Score: 181
Period size: 72 Copynumber: 1.9 Consensus size: 71
172676 TTCATATATA
* *
172686 TAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAAATATAGTATATAAATATAAATTA
1 TAGTATATAAATATAAACTATAATTTATATAAATAGTATAAAATATAATATATAAATATAAA-TA
172751 TAGTATG
65 TAGTATG
* * *
172758 TAGTATATAAATATAAACTATAATTTATATATTATA-TATTATATATATAATATATACTATATAA
1 TAGTATATAAATATAAACTATAATTTATATA-AATAGTA-TA-AAATATAATATATA-AATATAA
172822 ATA
62 ATA
172825 GTTTATATAG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
72 32 0.55
73 5 0.09
74 14 0.24
75 7 0.12
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (71 bp):
TAGTATATAAATATAAACTATAATTTATATAAATAGTATAAAATATAATATATAAATATAAATAT
AGTATG
Found at i:172901 original size:13 final size:13
Alignment explanation
Indices: 172883--172952 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
172873 ATATAATTAC
172883 ATAGTTTATATAT
1 ATAGTTTATATAT
*
172896 ATAGTTTATACAT
1 ATAGTTTATATAT
* *
172909 ATAGTTCATATGT
1 ATAGTTTATATAT
* *
172922 AAACTATATAGTATAT
1 ATAGT-T-TA-TATAT
*
172938 ATAGTTTACATAT
1 ATAGTTTATATAT
172951 AT
1 AT
172953 TATAAGTTAT
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
13 31 0.72
14 3 0.07
15 2 0.05
16 7 0.16
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:172918 original size:54 final size:55
Alignment explanation
Indices: 172848--172952 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 55
172838 ACTAATAAAC
* *
172848 TATATATATAGGTCATATGTAAACTATATAAT-TACATAGTTTATATATATAGTT
1 TATACATATAGGTCATATGTAAACTATATAATATACATAGTTTACATATATAGTT
* * *
172902 TATACATATAGTTCATATGTAAACTATATAGTATATATAGTTTACATATAT
1 TATACATATAGGTCATATGTAAACTATATAATATACATAGTTTACATATAT
172953 TATAAGTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 29 0.64
55 16 0.36
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.44
Consensus pattern (55 bp):
TATACATATAGGTCATATGTAAACTATATAATATACATAGTTTACATATATAGTT
Found at i:172929 original size:24 final size:24
Alignment explanation
Indices: 172843--172929 Score: 57
Period size: 24 Copynumber: 3.4 Consensus size: 24
172833 AGTTTACTAA
* *
172843 TAAACTATATATATAGGTCATATG
1 TAAACTATAAATATAGTTCATATG
* *
172867 TAAACTATATAATTACATAGTTTATATA
1 TAAACTATA-AA-T--ATAGTTCATATG
** *
172895 TATAGTTTATACATATAGTTCATATG
1 TA-A-ACTATAAATATAGTTCATATG
172921 TAAACTATA
1 TAAACTATA
172930 TAGTATATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
24 13 0.28
25 2 0.04
26 13 0.28
28 12 0.26
29 2 0.04
30 4 0.09
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (24 bp):
TAAACTATAAATATAGTTCATATG
Found at i:173099 original size:22 final size:24
Alignment explanation
Indices: 173065--173123 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
173055 CTAAGCTATA
* * *
173065 TATATATATATAAATTATATAGTT
1 TATATATATATAAACTAGATAATT
173089 TATAT-TA-ATAAACTAGATAATT
1 TATATATATATAAACTAGATAATT
*
173111 TATACAATATATA
1 TATA-TATATATA
173124 TTATTTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
22 16 0.57
23 2 0.07
24 7 0.25
25 3 0.11
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (24 bp):
TATATATATATAAACTAGATAATT
Found at i:173193 original size:9 final size:10
Alignment explanation
Indices: 173117--173198 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
173107 AATTTATACA
173117 ATATAT-ATT
1 ATATATAATT
*
173126 ATTTATAATT
1 ATATATAATT
*
173136 ATACATAATAT
1 ATATATAAT-T
173147 ATAAATATAAATT
1 AT--ATAT-AATT
*
173160 GTATAGT--TT
1 ATATA-TAATT
173169 ATATATAATT
1 ATATATAATT
173179 CATATATAATTT
1 -ATATATAA-TT
173191 ATATATAA
1 ATATATAA
173199 ACTATTTAGT
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 12 0.21
11 22 0.39
12 3 0.05
13 5 0.09
14 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:173196 original size:13 final size:11
Alignment explanation
Indices: 173161--173198 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
173151 ATATAAATTG
*
173161 TATAGTTTATA
1 TATAATTTATA
*
173172 TATAATTCATA
1 TATAATTTATA
173183 TATAATTTATA
1 TATAATTTATA
173194 TATAA
1 TATAA
173199 ACTATTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:173672 original size:50 final size:50
Alignment explanation
Indices: 173613--173712 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
173603 TTTTATTTGT
*
173613 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTTCATCTGAAA
1 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAA
*
173663 AATTTCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCATCTGAAA
1 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAA
173713 TTGACCCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (50 bp):
AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAA
Found at i:173871 original size:266 final size:265
Alignment explanation
Indices: 173397--173928 Score: 922
Period size: 266 Copynumber: 2.0 Consensus size: 265
173387 TTTTATTTGT
*
173397 AATTTCATATTTGTCTAATTTAGTCCTCCAAATTTTATTTGCATATAAAATTGACCCCTACTTAT
1 AATTTCATATTTGTCTAATTTAGTCCTCCAAATTTTATTTGCATATAAAATTGACCCATACTTAT
* *
173462 TACTTTTTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGT
66 TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTGT
173527 ATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGCATTGTTTAA
131 ATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGCATTGTTTAA
* *
173592 TTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTTCAT
196 TTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCAT
173657 CTGAAA
261 CT-AAA
* * *
173663 AATTTCATATTTGT-TCAATTTAGTCTTCCAAATTTTATTTGCATCTGAAATTGACCCATACTTA
1 AATTTCATATTTGTCT-AATTTAGTCCTCCAAATTTTATTTGCATATAAAATTGACCCATACTTA
173727 TTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTG
65 TTACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTG
* ** *
173792 TATTAATTTCAACCTCACAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTGTTTG
130 TATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGCATTGTTTA
*
173857 ATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCA
195 ATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCA
173922 TCTAAA
260 TCTAAA
173928 A
1 A
173929 TTGACCTATA
Statistics
Matches: 252, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
265 5 0.02
266 247 0.98
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (265 bp):
AATTTCATATTTGTCTAATTTAGTCCTCCAAATTTTATTTGCATATAAAATTGACCCATACTTAT
TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTGT
ATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGCATTGTTTAA
TTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCAT
CTAAA
Found at i:174068 original size:216 final size:216
Alignment explanation
Indices: 173663--174116 Score: 804
Period size: 216 Copynumber: 2.1 Consensus size: 216
173653 TCATCTGAAA
*
173663 AATTTCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCATCTGAAATTGACCCATACTTAT
1 AATTTCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCATCTAAAATTGACCCATACTTAT
173728 TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTGT
66 TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTGT
* *
173793 ATTAATTTCAACCTCACAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTGTTTGA
131 ATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAA
*
173858 TTTATTTAAATTTTAATTTGT
196 TTTAATTAAATTTTAATTTGT
*
173879 AATTTCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCATCTAAAATTGACCTATACTTAT
1 AATTTCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCATCTAAAATTGACCCATACTTAT
173944 TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAAT-GAGTATAATTTAGTACTTTTTTG
66 TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGA-TATAATTTAGTACTTTTTTG
174008 TATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGAT-CCTACATCAATGTGTGTTGTTT
130 TATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCT-CATCAATGTGTGTTGTTT
*
174072 AATTTAATTAAATTTTTATTTGT
194 AATTTAATTAAATTTTAATTTGT
* *
174095 AATTTAATATTTGCTCAATTTA
1 AATTTCATATTTGTTCAATTTA
174117 ATTCTTAAAT
Statistics
Matches: 228, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
215 5 0.02
216 223 0.98
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (216 bp):
AATTTCATATTTGTTCAATTTAGTCTTCCAAATTTTATTTGCATCTAAAATTGACCCATACTTAT
TACTTATTTCTATTTTTTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTGT
ATTAATTTCAACCTCACAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAA
TTTAATTAAATTTTAATTTGT
Found at i:174848 original size:25 final size:26
Alignment explanation
Indices: 174812--174869 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
174802 TTTGTAATTT
* *
174812 AAAAA-AAGTTTAAGT-TTTTTTAAT
1 AAAAATAACTTTAAGTATTTTTTAAA
*
174836 AATAATAACTTTAAGTATTTTTTAAA
1 AAAAATAACTTTAAGTATTTTTTAAA
174862 AAAAATAA
1 AAAAATAA
174870 ATAATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 4 0.14
25 9 0.32
26 15 0.54
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (26 bp):
AAAAATAACTTTAAGTATTTTTTAAA
Found at i:183750 original size:84 final size:83
Alignment explanation
Indices: 183499--183985 Score: 405
Period size: 84 Copynumber: 5.8 Consensus size: 83
183489 CTGAGATTAA
* ** * *
183499 TGAAATCGAACTCGAAA-GTCTTGATGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGTAA
1 TGAAATCGAACTC-AAAGGTCTT--TGATGACAGATAACCCTTCTAGCCTTGAGTTATACTG-CA
* *
183563 AAT-ATGTGTCTTTAAGCTGAG
62 AATGATGTGCCTTTGAGCTGAG
* * * * **
183584 TGTAA--GAACTCAAAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTTTGCTATAAA
1 TGAAATCGAACTC-AAAGGTC-TTTGATGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAA
* * *
183647 TGACGTGCCTTGGAGCTGAA
64 TGATGTGCCTTTGAGCTGAG
* * * *
183667 TGAAATCGAATCTCAAAGGTATTTGATGACAGATAGCTCTTCTCGCCTTGAGTTATACTGCAAAT
1 TGAAATCGAA-CTCAAAGGTCTTTGATGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAAT
*
183732 GATGTGCCTTTGAGCTGAA
65 GATGTGCCTTTGAGCTGAG
* ** * *
183751 T-ATAATTGAACTTGAAGGTCTTTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA
1 TGA-AATCGAACTCAAAGGTCTTTGA-TGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAA
* *
183815 TGACGTGCCTTGGAGCTGAG
64 TGATGTGCCTTTGAGCTGAG
* * * * * * * * * * *
183835 CGTAGTCAAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATACTACAAAT
1 TGAAATCGAACTCAAAGGTCTTT-GATGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAAT
183900 GATGTGCCTTTGAGCTGAG
65 GATGTGCCTTTGAGCTGAG
* * * *
183919 T-ATAATCGAACTCGAAGGTCTTTTG-TTAGCAGATAACCCTTCTTGCCTTGAGCTA-AGCTGCA
1 TGA-AATCGAACTCAAAGGTC-TTTGATGA-CAGATAACCCTTCTAGCCTTGAGTTATA-CTGCA
183981 AATGA
62 AATGA
183986 GCACGATATC
Statistics
Matches: 323, Mismatches: 65, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
82 4 0.01
83 73 0.23
84 225 0.70
85 18 0.06
86 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (83 bp):
TGAAATCGAACTCAAAGGTCTTTGATGACAGATAACCCTTCTAGCCTTGAGTTATACTGCAAATG
ATGTGCCTTTGAGCTGAG
Found at i:183787 original size:168 final size:168
Alignment explanation
Indices: 183597--183985 Score: 521
Period size: 168 Copynumber: 2.3 Consensus size: 168
183587 AAGAACTCAA
* *
183597 AAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTTTGCTATAAATGACGTGCCTTGGAG
1 AAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGACGTGCCTTGGAG
* * * * * * *
183662 CTGAATGAAATCGAATCTCAAAGGTATTT-GATGACAGATAGCTCTTCTCGCCTTGAGTTATACT
66 CTGAACGAAATC-AAACTCAAAGGTATTTGGATGACAGATAACCCTTCTCGACTTAAGCTATACT
* * *
183726 GCAAATGATGTGCCTTTGAGCTGAATATAATTGAACTTG
130 ACAAATGATGTGCCTTTGAGCTGAATATAATCGAACTCG
* *
183765 AAGGTCTTTTATTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGACGTGCCTTGGAG
1 AAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGACGTGCCTTGGAG
* * * * * *
183830 CTGAGCGTAGTCAAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATACTA
66 CTGAACGAAATCAAACTCAAAGGTATTTGGATGACAGATAACCCTTCTCGACTTAAGCTATACTA
*
183895 CAAATGATGTGCCTTTGAGCTGAGTATAATCGAACTCG
131 CAAATGATGTGCCTTTGAGCTGAATATAATCGAACTCG
* * * *
183933 AAGGTCTTTTGTT-AGCAGATAACCCTTCTTGCCTTGAGCTAAGCTGCAAATGA
1 AAGGTCTTTTGTTGA-CAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGA
183986 GCACGATATC
Statistics
Matches: 194, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
167 15 0.08
168 179 0.92
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (168 bp):
AAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGACGTGCCTTGGAG
CTGAACGAAATCAAACTCAAAGGTATTTGGATGACAGATAACCCTTCTCGACTTAAGCTATACTA
CAAATGATGTGCCTTTGAGCTGAATATAATCGAACTCG
Found at i:183909 original size:252 final size:251
Alignment explanation
Indices: 183530--183985 Score: 566
Period size: 252 Copynumber: 1.8 Consensus size: 251
183520 TGATGTTGGT
* * *
183530 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAATATGTGTCTTTAAGCTGAGTGTAAGAACTC
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAATACGTGCCTTGAAGCTGAGTGTAAGAACTC
* * * * * * *
183595 AAAAGGTCTTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTTTGCTATAAATGACGTGCCTTGG
66 AAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGCTATACTACAAATGACGTGCCTTGG
* * *
183660 AGCTGAATGA-AATCGAATCTCAAAGGT-ATTTGATGA-CAGATAGCTCTTCTCGCCTTGAGTTA
131 AGCTGAAT-ATAATCGAA-CTCAAAGGTCATTTG-TGAGCAGATAACCCTTCTCGCCTTGAGCTA
183722 TA-CTGCAAATGATGTGCCTTTGAGCTGAATATAATTGAACTTGAAGGTCTTTTATTGAC
193 -AGCTGCAAATGATGTGCCTTTGAGCTGAATATAATTGAACTTGAAGGTCTTTTATTGAC
* * *
183781 AGATAACCCTTCTAGCCTTGAGTTATGCTG-CAAATGACGTGCCTTGGAGCTGAGCGT-AGTCAA
1 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAAT-ACGTGCCTTGAAGCTGAGTGTAAG---A
* * *
183844 ACTC-AAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATGTGCC
62 ACTCAAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGCTATACTACAAATGACGTGCC
* * * * * *
183908 TTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTTGTTAGCAGATAACCCTTCTTGCCTTGAGCT
127 TTGGAGCTGAATATAATCGAACTCAAAGGTCATTTGTGAGCAGATAACCCTTCTCGCCTTGAGCT
183973 AAGCTGCAAATGA
192 AAGCTGCAAATGA
183986 GCACGATATC
Statistics
Matches: 172, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
250 6 0.03
251 58 0.34
252 103 0.60
253 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (251 bp):
AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAATACGTGCCTTGAAGCTGAGTGTAAGAACTC
AAAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGCTATACTACAAATGACGTGCCTTGG
AGCTGAATATAATCGAACTCAAAGGTCATTTGTGAGCAGATAACCCTTCTCGCCTTGAGCTAAGC
TGCAAATGATGTGCCTTTGAGCTGAATATAATTGAACTTGAAGGTCTTTTATTGAC
Found at i:184201 original size:121 final size:121
Alignment explanation
Indices: 183987--184207 Score: 381
Period size: 121 Copynumber: 1.8 Consensus size: 121
183977 TGCAAATGAG
* *
183987 CACGATATCCTTCGTCGTGAAGTTGAAATCGGGAATGACCCATTCATTGTGAAGTTGAGCCTCGA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGGGAATGACCCATTCATCGTGAAGTTGAACCTCGA
*
184052 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGA
66 ATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGA
* *
184108 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGG-ATGACCCATTCGTCGTGAAGTTGAACCTTG
1 CACGATATCCTTCGTCGTGAAGTTGAAATCG-GGAATGACCCATTCATCGTGAAGTTGAACCTCG
184172 AATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAG
65 AATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAG
184208 TTAAGTTGCA
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
121 92 0.98
122 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (121 bp):
CACGATATCCTTCGTCGTGAAGTTGAAATCGGGAATGACCCATTCATCGTGAAGTTGAACCTCGA
ATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAGGGTTGCATTGATGCTGGTGGA
Found at i:184483 original size:43 final size:43
Alignment explanation
Indices: 184382--184483 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
184372 TTCGTCATGA
* *
184382 AGTTGAAACCGTGGATATGTGGGCATGATATCCTCCGTCGTGG
1 AGTTGAAATCGTGGATATGTGGGCACGATATCCTCCGTCGTGG
* * * *
184425 AGTTAAAATCATGGAT-TCGTGGGTACGATATCCTCCGTTGTGG
1 AGTTGAAATCGTGGATAT-GTGGGCACGATATCCTCCGTCGTGG
*
184468 AGTTGAAATTGTGGAT
1 AGTTGAAATCGTGGAT
184484 GGCCCATTCG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 48 0.98
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (43 bp):
AGTTGAAATCGTGGATATGTGGGCACGATATCCTCCGTCGTGG
Done.