Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 207 of 221
Found at i:60858381 original size:16 final size:17
Alignment explanation
Indices: 60858355--60858401 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
60858345 TCCAAGTTAC
60858355 ATAATATATAAAAATAAT
1 ATAA-ATATAAAAATAAT
*
60858373 AT-AATAT-AAAATATT
1 ATAAATATAAAAATAAT
*
60858388 ATAAATTTAAAAAT
1 ATAAATATAAAAAT
60858402 GGGCCGGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 6 0.24
18 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAATATAAAAATAAT
Found at i:60861989 original size:45 final size:45
Alignment explanation
Indices: 60861889--60861990 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
60861879 AACGGTAGCA
60861889 GTAACAGTAACAATAATAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAATAATAGTATTCAACACACAAAGTGCTGAATCT
* **
60861934 GTAACTGTAACGGTAATAGTATTCAACACACAAAGTG-TCGAATC-
1 GTAACAGTAACAATAATAGTATTCAACACACAAAGTGCT-GAATCT
60861978 GATAACAGTAACA
1 G-TAACAGTAACA
60861991 GTAGTTGGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 2 0.04
45 48 0.96
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (45 bp):
GTAACAGTAACAATAATAGTATTCAACACACAAAGTGCTGAATCT
Found at i:60862236 original size:40 final size:41
Alignment explanation
Indices: 60862192--60862279 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 41
60862182 AATTCATTAC
* * *
60862192 TTCAGTAATTTCACAGTTCAATGCAGTACAC-ATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
** *
60862232 TTCAGTAACTTCACAATTCAATTTAGTACTCAAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
60862273 TTCAGTA
1 TTCAGTA
60862280 TTCCATAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 26 0.63
41 15 0.37
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (41 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
Found at i:60863116 original size:25 final size:25
Alignment explanation
Indices: 60863086--60863144 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
60863076 TATAATTAAG
60863086 TTAATTAATAATTATAAAATATCTA
1 TTAATTAATAATTATAAAATATCTA
60863111 TTAATTAATAATTATAAAATATCTA
1 TTAATTAATAATTATAAAATATCTA
60863136 TT--TTAATAA
1 TTAATTAATAA
60863145 CAAATATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 7 0.21
25 27 0.79
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAATTAATAATTATAAAATATCTA
Found at i:60863250 original size:30 final size:28
Alignment explanation
Indices: 60863216--60863271 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
60863206 TTATCAAATA
60863216 AATAAAATCTTTTAATATAATAATTTAATT
1 AATAAAATCTTTTAAT-TAA-AATTTAATT
* *
60863246 AATAATATCTTTTACTTAAAATTTAA
1 AATAAAATCTTTTAATTAAAATTTAA
60863272 GAAAATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 3 0.12
30 14 0.58
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (28 bp):
AATAAAATCTTTTAATTAAAATTTAATT
Found at i:60865469 original size:236 final size:236
Alignment explanation
Indices: 60865042--60865496 Score: 635
Period size: 236 Copynumber: 1.9 Consensus size: 236
60865032 ATAGTACTGC
* * * * *
60865042 ATTATTATTTATTATTATACCTGTTGAATTATGCTCCAACTCTCTATACTTTTCGTACATTTGAA
1 ATTATTATTTATTATTATACCTGTTAAAATATGCTCCAACTCCCTATACTTTTCATACATTTAAA
* * **
60865107 AGGTAACCTTCTTACTATATTATATAATGTTATATCATATCATAACATATAATATACTAATAGTT
66 AGGTAACCCTCCTACTATATTATATAATACTATATCATATCATAACATATAATATACTAATAGTT
* * *
60865172 TATATATAGGCATTAATTATTAAACATCATAATATAATGTAATATTATATCTTTGATTATAATCT
131 TATATATAGGCATCAATGATTAAACATCATAATATAATGTAATACTATATCTTTGATTATAATCT
*
60865237 ATATTACAATAACATTTATATATAATAGTAGTACATTATAT
196 ATATTACAATAACAGTTATATATAATAGTAGTACATTATAT
* *
60865278 ATTA-TATATTATTATTATA-CTAGTTAAAATATGCTCTAAGTCCCTATACTTTTCATACATTTA
1 ATTATTAT-TTATTATTATACCT-GTTAAAATATGCTCCAACTCCCTATACTTTTCATACATTTA
* * ** *
60865341 AAAGTTAGCCCTCCTACTATATTATATAATACTATATCATATCATATGATATAATATACTTATAG
64 AAAGGTAACCCTCCTACTATATTATATAATACTATATCATATCATAACATATAATATACTAATAG
* * * * *
60865406 TTTATATATATGCATCGATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAAT
129 TTTATATATAGGCATCAATGATTAAACATCATAATATAATGTAATACTATATCTTTGATTATAAT
* *
60865471 CTATATTATAATAATAGTTATATATA
194 CTATATTACAATAACAGTTATATATA
60865497 TTAATATTTT
Statistics
Matches: 190, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
235 5 0.03
236 185 0.97
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (236 bp):
ATTATTATTTATTATTATACCTGTTAAAATATGCTCCAACTCCCTATACTTTTCATACATTTAAA
AGGTAACCCTCCTACTATATTATATAATACTATATCATATCATAACATATAATATACTAATAGTT
TATATATAGGCATCAATGATTAAACATCATAATATAATGTAATACTATATCTTTGATTATAATCT
ATATTACAATAACAGTTATATATAATAGTAGTACATTATAT
Found at i:60868797 original size:51 final size:51
Alignment explanation
Indices: 60868721--60868822 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
60868711 AATTCCCGAG
60868721 ATTATTTAAAACTTGAGAAAAAAAAATCATGTCCAGTATATTAGGACATGA
1 ATTATTTAAAACTTGAGAAAAAAAAATCATGTCCAGTATATTAGGACATGA
60868772 ATTATTTAAAACTTGAGAAAAAAAAATCATGTCCAGTATATTAGGACATGA
1 ATTATTTAAAACTTGAGAAAAAAAAATCATGTCCAGTATATTAGGACATGA
60868823 TCTCTTAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (51 bp):
ATTATTTAAAACTTGAGAAAAAAAAATCATGTCCAGTATATTAGGACATGA
Found at i:60869346 original size:4 final size:4
Alignment explanation
Indices: 60869339--60869393 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
60869329 GTATATATAT
60869339 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
60869387 ATAG ATA
1 ATAG ATA
60869394 TGTAAACAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:60869701 original size:9 final size:9
Alignment explanation
Indices: 60869687--60869711 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
60869677 AAACAAAAAG
60869687 ATAATAACA
1 ATAATAACA
60869696 ATAATAACA
1 ATAATAACA
60869705 ATAATAA
1 ATAATAA
60869712 TTTATTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:60871251 original size:113 final size:113
Alignment explanation
Indices: 60871048--60871323 Score: 428
Period size: 113 Copynumber: 2.4 Consensus size: 113
60871038 GGAGATAAGG
* * * * *
60871048 TTTGATATCTTCAGTTTGCTCCACTGCAA-CTCTAGGGAGATAATACTTGTTATGGTGTGATCCA
1 TTTGCTATCTTCAGTCTGCTACACTGCAACCTC-AGTGAGATAAAACTTGTTATGGTGTGATCCA
60871112 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGCTCTTCGAGAAAACA
65 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGCTCTTCGAGAAAACA
* * *
60871161 TTTGCTATCTTCAGTCTACTACACTGCAACCTCAGTGAGATAAGACTTGTTATGGTGTGATCCGC
1 TTTGCTATCTTCAGTCTGCTACACTGCAACCTCAGTGAGATAAAACTTGTTATGGTGTGATCCAC
* *
60871226 TCTATTGCAACTTCAGAGAGATAAGATCTGTGGCTCTTGGAGAAAACA
66 TCTACTGCAACTTCAGAGAGATAAGATCTGTGGCTCTTCGAGAAAACA
* *
60871274 TTTACTATCTTCAGTCTGCTACATTGCAACCTCAGTGAGATAAAACTTGT
1 TTTGCTATCTTCAGTCTGCTACACTGCAACCTCAGTGAGATAAAACTTGT
60871324 AGCTTCAACT
Statistics
Matches: 149, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
113 146 0.98
114 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (113 bp):
TTTGCTATCTTCAGTCTGCTACACTGCAACCTCAGTGAGATAAAACTTGTTATGGTGTGATCCAC
TCTACTGCAACTTCAGAGAGATAAGATCTGTGGCTCTTCGAGAAAACA
Found at i:60871724 original size:51 final size:50
Alignment explanation
Indices: 60871665--60871887 Score: 196
Period size: 51 Copynumber: 4.6 Consensus size: 50
60871655 TCGGGGAAGC
* *
60871665 AAGATTCGCGGTTGTGGCTTCAATCTGTTCCACTGCACTACCAAGGAAAGT
1 AAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCACT-CCAGGGAAAGT
* * * *
60871716 AAGATTCGCCGTTATGGCTTCAAT-TG---CAATG---T-CGGGGAAA-C
1 AAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCACTCCAGGGAAAGT
*
60871757 AAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCACTGCCAGGGAAAGT
1 AAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCACT-CCAGGGAAAGT
* ** * * *** * *
60871808 AAGATTTGCCGTTGTGGCTTCAATCT-TCTTAATTGCAATGTTGGGGAAGC
1 AAGATTCGCCGTTGTGGCTTCAATCTGT-TCCACTGCACTCCAGGGAAAGT
60871858 AAGATTCGCCGTTGTGGCTTCAATCTGTTC
1 AAGATTCGCCGTTGTGGCTTCAATCTGTTC
60871888 TACTACACCG
Statistics
Matches: 136, Mismatches: 24, Indels: 25
0.74 0.13 0.14
Matches are distributed among these distances:
41 22 0.16
42 8 0.06
44 1 0.01
45 4 0.03
47 4 0.03
48 1 0.01
50 42 0.31
51 54 0.40
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (50 bp):
AAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCACTCCAGGGAAAGT
Found at i:60871760 original size:92 final size:94
Alignment explanation
Indices: 60871644--60871887 Score: 330
Period size: 92 Copynumber: 2.5 Consensus size: 94
60871634 TTCAATATTT
* *
60871644 TAATTGTAATGTCGGGGAAGCAAGATTCGCGGTTGTGGCTTCAATCTGTTCCACTGCACTACCAA
1 TAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCACTACCAA
60871709 GGAAAGTAAGATTCGCCGTTATGG-CTTC
66 GGAAAGTAAGATTCGCCGTTATGGTCTTC
* * * *
60871737 -AATTGCAATGTCGGGGAAACAAGATTCACCGTTGTGGCTTCAATCTGTTCCACTGCACTGCCAG
1 TAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCACTACCAA
* *
60871801 GGAAAGTAAGATTTGCCGTTGTGGCTTCAATCTTC
66 GGAAAGTAAGATTCGCCGTTATGG------TCTTC
*
60871836 TTAATTGCAATGTTGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTC
1 -TAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTC
60871888 TACTACACCG
Statistics
Matches: 131, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
92 80 0.61
99 4 0.03
101 47 0.36
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (94 bp):
TAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCACTACCAA
GGAAAGTAAGATTCGCCGTTATGGTCTTC
Found at i:60871883 original size:50 final size:50
Alignment explanation
Indices: 60871734--60871887 Score: 175
Period size: 50 Copynumber: 3.1 Consensus size: 50
60871724 CCGTTATGGC
* * *
60871734 TTCAATTGCAATGTCGGGGAAACAAGATTCACCGTTGTGGCTTCAATCTG
1 TTCAATTGCAATGTAGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTG
* * * * * * *
60871784 TTCCACTGCACTGCCAGGGAAAGTAAGATTTGCCGTTGTGGCTTCAATCT-
1 TTCAATTGCAATG-TAGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTG
* *
60871834 TCTTAATTGCAATGTTGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTG
1 T-TCAATTGCAATGTAGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTG
60871885 TTC
1 TTC
60871888 TACTACACCG
Statistics
Matches: 81, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
50 43 0.53
51 38 0.47
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (50 bp):
TTCAATTGCAATGTAGGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTG
Found at i:60872083 original size:132 final size:132
Alignment explanation
Indices: 60871920--60872744 Score: 1436
Period size: 132 Copynumber: 6.2 Consensus size: 132
60871910 ATATTTGTTG
*
60871920 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACT
* * * *
60871985 GCCTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGGTTCAC
66 GCTTAGAGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCAC
60872050 CA
131 CA
* * * * *
60872052 TATTCGATCTGCTCCACTACTGCTTAAGGAGACAGAATCTGCAATTTTCAACCTACTCTACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACT
*
60872117 GCTTAGAGAGATAGGACTAATGGCTTAAATTTACTTCTCCACTATCTTGGGAAGATAAGATTCAC
66 GCTTAGAGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCAC
60872182 CA
131 CA
*
60872184 TCTTCGATCTGCTCCACTACTGCTTAGAGAGACAGAATCTGCAATCTTCAACCTACTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACT
* *
60872249 ACTTAGAGAGATAAGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGG-AGATAAGATTCAC
66 GCTTAGAGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCAC
60872313 CA
131 CA
*
60872315 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACCTCCACTAC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA-CTCCACTAC
*
60872380 TGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCA
65 TGCTTAGAGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCA
60872445 CCA
130 CCA
*
60872448 TCTTCGATCTGCTCCACTACTGCTTAGAGAGACAGAATCTGCAATCTTCAACCTACTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACT
* *
60872513 ACTTAGAGAGATAAGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCAC
66 GCTTAGAGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCAC
60872578 CA
131 CA
*
60872580 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACCTCCACTAC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA-CTCCACTAC
*
60872645 TGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCA
65 TGCTTAGAGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCA
60872710 CCA
130 CCA
60872713 TCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGA
60872745 TAAGATTTGT
Statistics
Matches: 654, Mismatches: 36, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
131 68 0.10
132 413 0.63
133 173 0.26
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACT
GCTTAGAGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGATAAGATTCAC
CA
Found at i:60872934 original size:89 final size:89
Alignment explanation
Indices: 60872783--60873194 Score: 581
Period size: 89 Copynumber: 4.6 Consensus size: 89
60872773 CTGCAAACTA
* * * *
60872783 TGGTGTCTTCGATCTACTTCACTGTCAGTATAGGAAGGCAAGATCTGCTATCTTCAATCTGCTCC
1 TGGTGTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
60872848 GCTGTTAATACAGGAAGGCATGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* **
60872872 TGGTGTCTTCGATCTACTTTGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
60872937 GCTGTCAGTACAGTAAGGCAAGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* * *
60872961 AGGTGTCTTCGATCTGCTTCACCGTCAGTACAGGAATGCAAGATCTGCTATCTTCAGTCTGCTCT
1 TGGTGTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
60873026 ACTGTCAGTATAGGAAGGCAAAGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* *
60873050 TGGTGTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCT
1 TGGTGTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* *
60873115 GCTGTCAGTATAGGAAGGCAATGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* ** * * *
60873139 TAGTGTCTTCGATCTGCTTCATTGTCAATACAAGAAGGCAAAATCTGCTATCTTCA
1 TGGTGTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
60873195 TTGATCTGTT
Statistics
Matches: 292, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 292 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCTGTCAGTACAGGAAGGCAAGGC
Found at i:60873480 original size:24 final size:24
Alignment explanation
Indices: 60873433--60873490 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
60873423 ATTGCCCCTA
*
60873433 CTGTAATCTTCAAGGTTCAATCCG
1 CTGTAATTTTCAAGGTTCAATCCG
* * * *
60873457 TTGTGATTTTCAAGGTTGAGTCCG
1 CTGTAATTTTCAAGGTTCAATCCG
60873481 CTGTAATTTT
1 CTGTAATTTT
60873491 GGGACATAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (24 bp):
CTGTAATTTTCAAGGTTCAATCCG
Found at i:60874524 original size:14 final size:15
Alignment explanation
Indices: 60874501--60874533 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
60874491 ATCGACGTTT
*
60874501 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
60874515 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
60874530 TTCC
1 TTCC
60874534 CAGCTTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:60877315 original size:19 final size:20
Alignment explanation
Indices: 60877286--60877337 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
60877276 TCATTTTGTA
* *
60877286 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
60877305 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
60877325 AAATG-AATGCAAA
1 AAATGTAATGCAAA
60877338 AAGAGACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:60878892 original size:106 final size:106
Alignment explanation
Indices: 60878745--60878948 Score: 286
Period size: 106 Copynumber: 1.9 Consensus size: 106
60878735 TGACATGGAT
* * **
60878745 TAAAATTTAAGAGAATATTTGGCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACATTAGGGT
1 TAAAATTTAAGAGAATATTTGGCTATTTGGTCAAACAAAAAAATCGAAACCCAACACATTAGGAC
* *
60878810 ACG-TTTCCTTGAATTGCCAAACGCAAAATATTGCCTTACTC
66 ACGCTTT-CTCGAATTCCCAAACGCAAAATATTGCCTTACTC
* * *
60878851 TAAAATTTTAA-AGGATATTTGGCTATTTGGTCGAACAAAAAATTCGAAACCCAACACATTAGGA
1 TAAAA-TTTAAGAGAATATTTGGCTATTTGGTCAAACAAAAAAATCGAAACCCAACACATTAGGA
*
60878915 CACGCTTTCTCGAATTCCCAAATGCAAAATATTG
65 CACGCTTTCTCGAATTCCCAAACGCAAAATATTG
60878949 ACTTTATTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
106 78 0.91
107 8 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (106 bp):
TAAAATTTAAGAGAATATTTGGCTATTTGGTCAAACAAAAAAATCGAAACCCAACACATTAGGAC
ACGCTTTCTCGAATTCCCAAACGCAAAATATTGCCTTACTC
Found at i:60879242 original size:70 final size:68
Alignment explanation
Indices: 60879104--60879232 Score: 181
Period size: 70 Copynumber: 1.9 Consensus size: 68
60879094 AGAAAAATGG
*
60879104 ATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCTGAGATTATTTAAAACTTGAGAAA
1 ATCATGCCCAGTAAGTTAGGACACGATC--TTCTTAATTCCTGAGATCATTTAAAACTTGAGAAA
60879169 AAAAA
64 AAAAA
* * *
60879174 ATCATGTCCAGTATGTTAGGACACGATC-TCTTAATATCC-GAGATCGTTTAAAACTTGAG
1 ATCATGCCCAGTAAGTTAGGACACGATCTTCTTAAT-TCCTGAGATCATTTAAAACTTGAG
60879233 TTTAAAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
67 25 0.46
68 3 0.06
70 26 0.48
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (68 bp):
ATCATGCCCAGTAAGTTAGGACACGATCTTCTTAATTCCTGAGATCATTTAAAACTTGAGAAAAA
AAA
Found at i:60879726 original size:8 final size:8
Alignment explanation
Indices: 60879713--60879747 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
60879703 TAAAAATACG
60879713 TATATAGA
1 TATATAGA
60879721 TATATAGA
1 TATATAGA
60879729 TATATAGA
1 TATATAGA
*
60879737 TAGATAGA
1 TATATAGA
60879745 TAT
1 TAT
60879748 GTAAACAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (8 bp):
TATATAGA
Found at i:60880049 original size:9 final size:9
Alignment explanation
Indices: 60880035--60880059 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
60880025 GAAACAAAAC
60880035 ATAATAACA
1 ATAATAACA
60880044 ATAATAACA
1 ATAATAACA
60880053 ATAATAA
1 ATAATAA
60880060 TTTATTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:60886478 original size:27 final size:25
Alignment explanation
Indices: 60886447--60886531 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 25
60886437 AAAATGAAAA
*
60886447 ATGAAAAGAGTAAATGGAAATGGTTAT
1 ATGAAAAGA-TATAT-GAAATGGTTAT
* * *
60886474 ATGAAGAGTTTATATGAATTGGTTAT
1 ATGAAAAG-ATATATGAAATGGTTAT
*
60886500 ATGGAAATAGATATATGAAATGGTGAT
1 AT-GAAA-AGATATATGAAATGGTTAT
60886527 ATGAA
1 ATGAA
60886532 TCGATTATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
26 15 0.32
27 30 0.64
28 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.32
Consensus pattern (25 bp):
ATGAAAAGATATATGAAATGGTTAT
Found at i:60886499 original size:13 final size:13
Alignment explanation
Indices: 60886463--60886531 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
60886453 AGAGTAAATG
60886463 GAAATGGTTATAT
1 GAAATGGTTATAT
*
60886476 GAAGA-GTTTATAT
1 GAA-ATGGTTATAT
*
60886489 GAATTGGTTATAT
1 GAAATGGTTATAT
* *
60886502 GGAAATAGATATAT
1 -GAAATGGTTATAT
*
60886516 GAAATGGTGATAT
1 GAAATGGTTATAT
60886529 GAA
1 GAA
60886532 TCGATTATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
13 33 0.75
14 11 0.25
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.35
Consensus pattern (13 bp):
GAAATGGTTATAT
Found at i:60886504 original size:40 final size:40
Alignment explanation
Indices: 60886485--60886561 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
60886475 TGAAGAGTTT
* *
60886485 ATATGAATTGGTTATATGGAAATAGATATATGAAATGGTG
1 ATATGAATCGATTATATGGAAATAGATATATGAAATGGTG
*
60886525 ATATGAATCGATTATATGGAAATAGATATATTAAATG
1 ATATGAATCGATTATATGGAAATAGATATATGAAATG
60886562 AAACATTGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (40 bp):
ATATGAATCGATTATATGGAAATAGATATATGAAATGGTG
Found at i:60890845 original size:23 final size:23
Alignment explanation
Indices: 60890819--60890986 Score: 255
Period size: 23 Copynumber: 7.3 Consensus size: 23
60890809 ATAAGTGCCA
60890819 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
60890842 CACTGATACGTAGCCGAAGATAC
1 CACTGATATGTAGCCGAAGCTAC
*
60890865 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
60890888 CACTGATATGTAGCCAAAACTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
60890911 CGCTGAAATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
60890934 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
60890957 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
60890980 CACTGAT
1 CACTGAT
60890987 CAATAACACT
Statistics
Matches: 127, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 127 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:60892425 original size:18 final size:18
Alignment explanation
Indices: 60892394--60892441 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
60892384 TGTTACTCGT
**
60892394 TTTCAAAATATTATTC-A
1 TTTCAAAACGTTATTCAA
*
60892411 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
60892430 TTTCAAAACGTT
1 TTTCAAAACGTT
60892442 TTTTCTATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.44
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:60892809 original size:9 final size:9
Alignment explanation
Indices: 60892795--60892880 Score: 109
Period size: 9 Copynumber: 9.4 Consensus size: 9
60892785 TTTTGTTAAA
60892795 AATTAACCG
1 AATTAACCG
60892804 AATTAACCG
1 AATTAACCG
60892813 AATTAACCG
1 AATTAACCG
*
60892822 AATTACCCG
1 AATTAACCG
*
60892831 AATTACCCG
1 AATTAACCG
60892840 AATTAACCG
1 AATTAACCG
*
60892849 AATTACCCG
1 AATTAACCG
* *
60892858 AATTTATCTG
1 AA-TTAACCG
*
60892868 AATTAACCA
1 AATTAACCG
60892877 AATT
1 AATT
60892881 GAATCACTAC
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
9 61 0.90
10 7 0.10
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:60893027 original size:18 final size:18
Alignment explanation
Indices: 60892987--60893030 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
60892977 TAATTTTATG
**
60892987 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
60893005 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
60893023 CTTGGGTT
1 ATTGGGTT
60893031 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:60899936 original size:10 final size:10
Alignment explanation
Indices: 60899921--60899959 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
60899911 TTATTTGCAC
60899921 TAAAAAAATT
1 TAAAAAAATT
*
60899931 TAAAAAAAGT
1 TAAAAAAATT
* *
60899941 TGAAATAATT
1 TAAAAAAATT
60899951 TAAAAAAAT
1 TAAAAAAAT
60899960 ATATTTTGTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:60902139 original size:13 final size:13
Alignment explanation
Indices: 60902123--60902148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60902113 CTTTGCACAT
60902123 TGTCTTCAACAGG
1 TGTCTTCAACAGG
60902136 TGTCTTCAACAGG
1 TGTCTTCAACAGG
60902149 CTCGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:60905274 original size:25 final size:24
Alignment explanation
Indices: 60905241--60905364 Score: 113
Period size: 25 Copynumber: 5.0 Consensus size: 24
60905231 GAAGCTCCCC
*
60905241 CGAGATGAATAATAGGAAGCTCATG
1 CGAGCTGAAT-ATAGGAAGCTCATG
* * **
60905266 TGAGCTGAATAACAAAAAGCTCATG
1 CGAGCTGAAT-ATAGGAAGCTCATG
*
60905291 CGAGCTGAATATCGAGAAGCTCATG
1 CGAGCTGAATATAG-GAAGCTCATG
* *
60905316 CGAGTTGAATATCGAGAAGCTCATG
1 CGAGCTGAATATAG-GAAGCTCATG
* *
60905341 CGAGCTGTATTACAGGAAGCTCAT
1 CGAGCTG-AATATAGGAAGCTCAT
60905365 ATGAGCTGTG
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
24 1 0.01
25 77 0.94
26 4 0.05
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (24 bp):
CGAGCTGAATATAGGAAGCTCATG
Found at i:60905300 original size:50 final size:49
Alignment explanation
Indices: 60905241--60905372 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 49
60905231 GAAGCTCCCC
*
60905241 CGAGATGAATAATAGGAAGCTCATGTGAGCTGAATAACAAAAAGCTCATG
1 CGAGCTGAAT-ATAGGAAGCTCATGTGAGCTGAATAACAAAAAGCTCATG
* * * * * *
60905291 CGAGCTGAATATCGAGAAGCTCATGCGAGTTGAATATCGAGAAGCTCATG
1 CGAGCTGAATATAG-GAAGCTCATGTGAGCTGAATAACAAAAAGCTCATG
* * *
60905341 CGAGCTGTATTACAGGAAGCTCATATGAGCTG
1 CGAGCTG-AATATAGGAAGCTCATGTGAGCTG
60905373 TGGTGTATCC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.04
50 60 0.90
51 4 0.06
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (49 bp):
CGAGCTGAATATAGGAAGCTCATGTGAGCTGAATAACAAAAAGCTCATG
Found at i:60907434 original size:28 final size:28
Alignment explanation
Indices: 60907399--60907478 Score: 142
Period size: 28 Copynumber: 2.9 Consensus size: 28
60907389 TGTAATGTTG
60907399 GCCTTAGCCCAATACAGTAACAGTGTGA
1 GCCTTAGCCCAATACAGTAACAGTGTGA
* *
60907427 GCTTTAGCCCAATACAGTAACAGTGTGG
1 GCCTTAGCCCAATACAGTAACAGTGTGA
60907455 GCCTTAGCCCAATACAGTAACAGT
1 GCCTTAGCCCAATACAGTAACAGT
60907479 ACAGTGCAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (28 bp):
GCCTTAGCCCAATACAGTAACAGTGTGA
Found at i:60907895 original size:27 final size:27
Alignment explanation
Indices: 60907865--60907925 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
60907855 TCGACTCATA
60907865 AGGGTATATC-AGACATTTTACCCTACG
1 AGGGTATATCTA-ACATTTTACCCTACG
* * *
60907892 AGGGTATTTCTATCATTTTACCCTTCG
1 AGGGTATATCTAACATTTTACCCTACG
*
60907919 TGGGTAT
1 AGGGTAT
60907926 TTCGGTCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATATCTAACATTTTACCCTACG
Found at i:60907926 original size:27 final size:26
Alignment explanation
Indices: 60907878--60908098 Score: 151
Period size: 27 Copynumber: 8.2 Consensus size: 26
60907868 GTATATCAGA
* *
60907878 CATTTTACCCTACGAGGGTATTTCTAT
1 CATTTTACCCTTCGAGGGTATTT-TGT
* *
60907905 CATTTTACCCTTCGTGGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTT-TGT
* *
60907932 CATTTTATCC-TCTAGGGGTATTTTGGT
1 CATTTTACCCTTCGA-GGGTATTTT-GT
* ** *
60907959 TATTTTACCCTTTAAGGGTATTTAAGT
1 CATTTTACCCTTCGAGGGTATTT-TGT
60907986 CATTTTACCCTTCGAGGGTATTTTGGT
1 CATTTTACCCTTCGAGGGTATTTT-GT
* * * * *
60908013 CATTTTACCATTTGGGGGTATTTCGGC
1 CATTTTACCCTTCGAGGGTATTT-TGT
* *
60908040 CATTTTACCCTTCG-GGAGTGTTTCGGT
1 CATTTTACCCTTCGAGG-GTATTT-TGT
* *
60908067 CATTTTATCCTAT-GGGGGTATTTTAGT
1 CATTTTACCCT-TCGAGGGTATTTT-GT
60908094 CATTT
1 CATTT
60908099 ATCAACCTCT
Statistics
Matches: 155, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
26 4 0.03
27 146 0.94
28 5 0.03
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.45
Consensus pattern (26 bp):
CATTTTACCCTTCGAGGGTATTTTGT
Found at i:60907951 original size:54 final size:54
Alignment explanation
Indices: 60907878--60908098 Score: 198
Period size: 54 Copynumber: 4.1 Consensus size: 54
60907868 GTATATCAGA
* * *
60907878 CATTTTACCC-TACGAGGGTATTTCT-ATCATTTTACCCTTCGTGGGTATTTCGGT
1 CATTTTACCCTTA-GAGGGTATTT-TGGTCATTTTACCCTTTGAGGGTATTTCGGT
* * * **
60907932 CATTTTATCCTCTAG-GGGTATTTTGGTTATTTTACCCTTTAAGGGTATTTAAGT
1 CATTTTACCCT-TAGAGGGTATTTTGGTCATTTTACCCTTTGAGGGTATTTCGGT
* * * *
60907986 CATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCATTTGGGGGTATTTCGGC
1 CATTTTACCCTTAGAGGGTATTTTGGTCATTTTACCCTTTGAGGGTATTTCGGT
* * * * * * **
60908040 CATTTTACCCTTCG-GGAGTGTTTCGGTCATTTTATCCTATGGGGGTATTTTAGT
1 CATTTTACCCTTAGAGG-GTATTTTGGTCATTTTACCCTTTGAGGGTATTTCGGT
60908094 CATTT
1 CATTT
60908099 ATCAACCTCT
Statistics
Matches: 137, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
53 5 0.04
54 129 0.94
55 1 0.01
56 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.45
Consensus pattern (54 bp):
CATTTTACCCTTAGAGGGTATTTTGGTCATTTTACCCTTTGAGGGTATTTCGGT
Found at i:60908069 original size:81 final size:80
Alignment explanation
Indices: 60907878--60908098 Score: 223
Period size: 81 Copynumber: 2.7 Consensus size: 80
60907868 GTATATCAGA
* * *
60907878 CATTTTACCCTACGAGGGTATTTCTA-TCATTTTACCCTTCGTGGGTATTTCGGTCATTTTATCC
1 CATTTTACCCTTCG-GGGTATTTC-AGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTATCC
* *
60907942 TCTAGGGGTATTTTGGT
64 TCTAGGGGTATTTCGGC
* ** *
60907959 TATTTTACCCTTTAAGGGTATTTAAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTA-CCA
1 CATTTTACCC-TTCGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTATCC-
* *
60908023 TTTGGGGGTATTTCGGC
64 TCTAGGGGTATTTCGGC
* * * * *
60908040 CATTTTACCCTTCGGGAGTGTTTCGGTCATTTTATCCTAT-GGGGGTATTTTAGTCATTT
1 CATTTTACCCTTCGGG-GTATTTCAGTCATTTTACCCT-TCGAGGGTATTTTGGTCATTT
60908099 ATCAACCTCT
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
80 7 0.06
81 106 0.92
82 2 0.02
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.45
Consensus pattern (80 bp):
CATTTTACCCTTCGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTATCCTC
TAGGGGTATTTCGGC
Found at i:60911573 original size:17 final size:17
Alignment explanation
Indices: 60911551--60911585 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60911541 TGTTAAGTGA
60911551 TCTTATTATGT-TATAAG
1 TCTTA-TATGTATATAAG
60911568 TCTTATATGTATATAAG
1 TCTTATATGTATATAAG
60911585 T
1 T
60911586 GTATGCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (17 bp):
TCTTATATGTATATAAG
Found at i:60913980 original size:32 final size:33
Alignment explanation
Indices: 60913917--60913986 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
60913907 ACCTAAAAGT
60913917 TATGCATTGAAATAGTAAGTGCCTAAATAGAAA
1 TATGCATTGAAATAGTAAGTGCCTAAATAGAAA
60913950 TATGCATTGAAATAGTAAGTG-CTAAATAGAAA
1 TATGCATTGAAATAGTAAGTGCCTAAATAGAAA
60913982 TATGC
1 TATGC
60913987 TTGTGATCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.43
33 21 0.57
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.29
Consensus pattern (33 bp):
TATGCATTGAAATAGTAAGTGCCTAAATAGAAA
Found at i:60914449 original size:46 final size:46
Alignment explanation
Indices: 60914377--60914469 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
60914367 CATGGCAAAG
* *
60914377 TGTGGAAAGTAGGTATGGTATTTCAATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACAATACTGAGT
60914423 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACAATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACAATACTGAGT
60914469 T
1 T
60914470 ATACTATTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAATAAAGAAAACAATACTGAGT
Found at i:60916923 original size:37 final size:37
Alignment explanation
Indices: 60916882--60917057 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
60916872 TTTGAGTACT
60916882 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
60916919 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
60916956 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
60916993 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
60917030 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
60917058 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:60917129 original size:45 final size:46
Alignment explanation
Indices: 60917020--60917143 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
60917010 GTGATAAGTG
* *
60917020 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
60917066 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
60917111 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
60917144 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:60920201 original size:9 final size:10
Alignment explanation
Indices: 60920187--60920229 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
60920177 ATTAATATCC
60920187 AAAT-AAGTA
1 AAATAAAGTA
*
60920196 AAATAAAATA
1 AAATAAAGTA
60920206 AAATAAAGTAA
1 AAATAAAGT-A
60920217 TAAATAAAGTA
1 -AAATAAAGTA
60920228 AA
1 AA
60920230 CAAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 14 0.48
11 2 0.07
12 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:60925519 original size:5 final size:5
Alignment explanation
Indices: 60925509--60925575 Score: 109
Period size: 5 Copynumber: 13.6 Consensus size: 5
60925499 TCTTAAACCT
* *
60925509 TATAA TATAA TATAA TATAA TATAA TATAA TATTA TATTA TAT-A TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
60925558 TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TAT
60925576 GTTTAAAAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
4 4 0.07
5 56 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
TATAA
Found at i:60925597 original size:34 final size:34
Alignment explanation
Indices: 60925509--60925603 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 34
60925499 TCTTAAACCT
*
60925509 TATAATATAATATAATATAATATAATATAATATTA
1 TATAAAATAA-ATAATATAATATAATATAATATTA
* * * *
60925544 TATTATATATATAATATAATATAATATAATATGTT
1 TATAAAATAAATAATATAATATAATATAATAT-TA
*
60925579 TA-AAAATAAATAAAATAAT-TAATAT
1 TATAAAATAAATAATATAATATAATAT
60925604 TCATGTGTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 6 0.12
34 35 0.67
35 11 0.21
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (34 bp):
TATAAAATAAATAATATAATATAATATAATATTA
Found at i:60932653 original size:11 final size:11
Alignment explanation
Indices: 60932637--60932661 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60932627 TTAAAAATAA
60932637 AAAAATATTTT
1 AAAAATATTTT
60932648 AAAAATATTTT
1 AAAAATATTTT
60932659 AAA
1 AAA
60932662 TTTTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:60936875 original size:42 final size:42
Alignment explanation
Indices: 60936828--60936913 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
60936818 ATGAAAAAGA
*
60936828 GAGGATTAGGTTATTAATTTATATTTATTTTATAATCTTTGT
1 GAGGATTAGGATATTAATTTATATTTATTTTATAATCTTTGT
* *
60936870 GAGGATTGGGATATTAATTTATGTTTATTTTATAATCTTTGT
1 GAGGATTAGGATATTAATTTATATTTATTTTATAATCTTTGT
60936912 GA
1 GA
60936914 TATTCTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.52
Consensus pattern (42 bp):
GAGGATTAGGATATTAATTTATATTTATTTTATAATCTTTGT
Found at i:60938823 original size:22 final size:22
Alignment explanation
Indices: 60938770--60938823 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
60938760 ACTAATATTA
* * *
60938770 TATTACTATTTTATTATTTTTT
1 TATTAATATTGTATAATTTTTT
60938792 T-TTAAATATTGTATAATTTTTT
1 TATT-AATATTGTATAATTTTTT
*
60938814 TATTATTATT
1 TATTAATATT
60938824 AATTTATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TATTAATATTGTATAATTTTTT
Found at i:60947995 original size:21 final size:21
Alignment explanation
Indices: 60947969--60948009 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60947959 ATCTGCTCAA
* *
60947969 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
60947990 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
60948010 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:60962903 original size:152 final size:151
Alignment explanation
Indices: 60961930--60962895 Score: 1332
Period size: 152 Copynumber: 6.3 Consensus size: 151
60961920 TTTAGTGTGT
** *
60961930 TTTTTATTGAAAGTAATAAAAT-TCGAG-AAAAAATACGAACAAAGGGCTAAAATTAGGATTTTT
1 TTTTT-TT-AAAGTAATAAAATCT-GAGAAAAAAATACGAACAAAGGGCCGAAATAAGGA-TTTT
*
60961993 TTTAATTTATTTAAAAAATACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
62 TTTAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
* *
60962058 AATAAAAAAATTATAAAATAGTATA
127 AATAATAAAATTAGAAAATAGTATA
* * * * * * *
60962083 TTTTTTAAAAGTAATAAAATCCGGGGAAAAAAATATGAACAGATGGACGAAATAAGGATTTTTTT
1 TTTTTTTAAAGTAATAAAAT-CTGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTT
* * * *
60962148 AATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACAGAATGCACTAAAATAATGTAAAAT
65 AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
60962213 AATAAAATTAGAAAATAGTATA
130 AATAAAATTAGAAAATAGTATA
* * *
60962235 TTTTTTTAAAGTAATAAAATCTGGGAAAAAAATAAGAACAAATGGCCGAAATAAGG-TTTTTTTA
1 TTTTTTTAAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTT-
* * *
60962299 AAATTTATTTAAAAAACACAGTAAATTAATATATTTCAAACATAATGTACTAAAATAATGTAAAA
65 -AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
* *
60962364 TAACAAAATTAGAAAATAATATA
129 TAATAAAATTAGAAAATAGTATA
* * * *
60962387 TTTTTATTGAAAGTAATAAAAT-TCGCGAAAAAAATACGAATAAATGGCCGAAATAAGGGTTTTT
1 TTTTT-TT-AAAGTAATAAAATCT-GAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTT
*
60962451 TTAAAAAAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTTCTAAAATAA
63 TT-----AATTTATTT-AAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAA
60962516 TGTAAAATAATAAAATTAGAAAATAGTATA
122 TGTAAAATAATAAAATTAGAAAATAGTATA
* * * *
60962546 TTTTTTAAAAGTAATAAATTCTGGGAAAAAAATACGAACAAAGGGTCGAAATAAGGATTTTTTTA
1 TTTTTTTAAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTA
* *
60962611 ATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATA
66 ATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATA
* *
60962676 ATAAAA-TACGGAAATAATATA
131 ATAAAATTA-GAAAATAGTATA
60962697 TTTTTATTGAAAGTAATAAAAT-TCGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTT
1 TTTTT-TT-AAAGTAATAAAATCT-GAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTT
* *
60962761 TTAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATATACTAAAATAATATAAA
63 TTAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
60962826 ATAATAAAATTAGAAAATAGTATA
128 ATAATAAAATTAGAAAATAGTATA
*
60962850 TTTTTTGTTAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGG
1 TTTTTT-TAAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGG
60962896 TCAAAATACT
Statistics
Matches: 733, Mismatches: 59, Indels: 43
0.88 0.07 0.05
Matches are distributed among these distances:
150 9 0.01
151 120 0.16
152 243 0.33
153 169 0.23
154 46 0.06
155 7 0.01
157 49 0.07
158 13 0.02
159 77 0.11
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (151 bp):
TTTTTTTAAAGTAATAAAATCTGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTTTA
ATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATA
ATAAAATTAGAAAATAGTATA
Found at i:60963021 original size:18 final size:19
Alignment explanation
Indices: 60962994--60963029 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
60962984 AAATATACTA
*
60962994 TTTTAGTATTTTTTTAATT
1 TTTTAGTATTATTTTAATT
60963013 TTTTA-TATTATTTTAAT
1 TTTTAGTATTATTTTAAT
60963030 AAAAACCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTAGTATTATTTTAATT
Found at i:60963195 original size:47 final size:47
Alignment explanation
Indices: 60963104--60963195 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
60963094 AACATTTTAC
* * * *
60963104 ATTAAATCAAACTCAAACTTTAAATATTAAAAGTTAAATTTAACCAG
1 ATTAAATCAAACTCAAACTTTAAATATAAAAACTCAAATCTAACCAG
* * *
60963151 ATTAAATCAAACTCGAATTTTAGATATAAAAACTCAAATCTAACC
1 ATTAAATCAAACTCAAACTTTAAATATAAAAACTCAAATCTAACC
60963196 CATATTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.30
Consensus pattern (47 bp):
ATTAAATCAAACTCAAACTTTAAATATAAAAACTCAAATCTAACCAG
Found at i:60979002 original size:16 final size:16
Alignment explanation
Indices: 60978964--60979003 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
60978954 AATATGTGAA
60978964 TAATATTATTTAAAAT
1 TAATATTATTTAAAAT
*
60978980 TATTATT-TTTAAAATT
1 TAATATTATTTAAAA-T
60978996 TAATATTA
1 TAATATTA
60979004 AAATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTATTTAAAAT
Found at i:60979012 original size:18 final size:19
Alignment explanation
Indices: 60978989--60979024 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
60978979 TTATTATTTT
60978989 TAAAATTT-AATATTAAAA
1 TAAAATTTAAATATTAAAA
60979007 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
60979025 TAATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATTTAAATATTAAAA
Found at i:60980655 original size:125 final size:124
Alignment explanation
Indices: 60980348--60980761 Score: 580
Period size: 126 Copynumber: 3.3 Consensus size: 124
60980338 AGCCAAACAT
* * *
60980348 GAGCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTATTTCAGTACTTTTGCTGAAAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTATTTCAGTACTTTTGCTGACAAAGCATC
* * *
60980413 CTGCTTAAAACG-TTCTAACACTATTTGCTCAGAAACGTTTACTCGAAATTATTTTTTTCAA
66 CTGCTT-AAA-GTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTA-TTTTTTCAA
60980474 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTATTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTATTTCAGTACTTTTGCTGACAAAGCATC
* * *
60980539 CTGCTTAAAGTATTTTGACACTATTTGCTCAGAAACATCTACTCGAAATTAATTTTTCAG
66 CTGCTTAAAGT-TTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* * * * *
60980599 GAGCTACTGTAGTAAAAACGCATCCACGTGGGAGATTCTTTCAGTACTTTTACTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTATTTCAGTACTTTTGCTGACAAAGCATC
* * *
60980664 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTTGAATTTATTTTTTCAA
66 CTGCTTAAA--GTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* *
60980725 GACCTACTGTAGCAAAAGA-GCGTCCTCGTGGGAGCTT
1 GAGCTACTGTAGCAAAA-ACGCGTCCACGTGGGAGCTT
60980762 TTTTAAATTA
Statistics
Matches: 258, Mismatches: 25, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
124 1 0.00
125 79 0.31
126 175 0.68
127 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (124 bp):
GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTATTTCAGTACTTTTGCTGACAAAGCATC
CTGCTTAAAGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
Found at i:60990772 original size:7 final size:7
Alignment explanation
Indices: 60990760--60990792 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
60990750 AAGCTCAATT
60990760 AAATATA
1 AAATATA
60990767 AAATATA
1 AAATATA
60990774 AAATATA
1 AAATATA
60990781 AAATATA
1 AAATATA
60990788 AAATA
1 AAATA
60990793 GGTAATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATATA
Found at i:60993455 original size:222 final size:221
Alignment explanation
Indices: 60993069--60993511 Score: 850
Period size: 222 Copynumber: 2.0 Consensus size: 221
60993059 ATTTTTTTTG
*
60993069 GGCCGGGCCCGAGCCTAGGATGCGGGTCAAAAATTTTTTGGGCCCAGCCTAACCCATGAGCACCT
1 GGCCGGGCCCAAGCCTAGGATGCGGGTCAAAAATTTTTTGGGCCCAGCCTAACCCATGAGCACCT
60993134 CTACAACAGAGTGACAAAAAATAATTTTAAAAAGTTTAGTGACTAAATCGTAACTTTTTTCATTA
66 CTACAACAGAGTGACAAAAAATAATTTTAAAAAGTTTAGTGACTAAATCGTAACTTTTTTCATTA
*
60993199 AATGACCAAAGCCAAAACTAACTCATACTAATTAACGATGTAGTTTACCATTGAATAAAAAAATA
131 AATGACCAAAGCCAAAACTAACCCATACTAATTAACGATGTAGTTTACCATTGAATAAAAAAATA
60993264 GTAGACTTGTAAATAAATATTAATAA
196 GTAGACTTGTAAATAAATATTAATAA
*
60993290 GGCCGGGCCCAAGCCTAGGATGCGGGTCAAAAATTTTTTGGGCCCAGCCTGACCCATGAGCACCT
1 GGCCGGGCCCAAGCCTAGGATGCGGGTCAAAAATTTTTTGGGCCCAGCCTAACCCATGAGCACCT
60993355 CTACAACAGAGTGACAAAAAAATAATTTTAAAAAGTTTAGTGACTAAATCGTAACTTTTTTCATT
66 CTACAACAGAGTGAC-AAAAAATAATTTTAAAAAGTTTAGTGACTAAATCGTAACTTTTTTCATT
60993420 AAATGACCAAAGCCAAAACTAACCCATACTAATTAACGATGTAGTTTACCATTGAATAAAAAAAT
130 AAATGACCAAAGCCAAAACTAACCCATACTAATTAACGATGTAGTTTACCATTGAATAAAAAAAT
60993485 AGTAGACTTGTAAATAAATATTAATAA
195 AGTAGACTTGTAAATAAATATTAATAA
60993512 TTTTATTTAA
Statistics
Matches: 218, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
221 78 0.36
222 140 0.64
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (221 bp):
GGCCGGGCCCAAGCCTAGGATGCGGGTCAAAAATTTTTTGGGCCCAGCCTAACCCATGAGCACCT
CTACAACAGAGTGACAAAAAATAATTTTAAAAAGTTTAGTGACTAAATCGTAACTTTTTTCATTA
AATGACCAAAGCCAAAACTAACCCATACTAATTAACGATGTAGTTTACCATTGAATAAAAAAATA
GTAGACTTGTAAATAAATATTAATAA
Found at i:60996722 original size:454 final size:454
Alignment explanation
Indices: 60995309--60996838 Score: 2200
Period size: 454 Copynumber: 3.4 Consensus size: 454
60995299 TAATGGGCAA
* * * * *
60995309 CATAATGTTGTC-GAAGTGACCGAAGTTGGTTACGATG-CTTGCAACGCTGCAAAT-CCTGTATC
1 CATAATGTTG-CAGAGGTGACTGAAGATGGTTACGACGAC-TGCAACGCTGCAAATGCC-ATATC
** * * * * * * * ** * **
60995371 TACGGTGAGCACCGGACCGGCGAGGATTACGCTTAACAGGACAGGGGAGTACTACTTTATTTGTG
63 TACTTTGACCACCGGTCCGGCAAGGATTACCCTTAACAAGACCGGTGACCACTACTTCATTTGCA
* * * * * * * * *
60995436 GTATCCCTGGTCACTGTTCTGCCGGCCAGAAGCTAAACGTGGAAGTACGAAATGGTAACACCACC
128 GTATCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTTGAAGTTCGAACTGGTAACACCACC
* * * * * * *
60995501 GGCGGTGTTACTCCGTCGACGCCTGTAACTCCAACCACCACCACTTATACGGTGGGTGACTCCAC
193 GGTGGCGTTGCTCCGTCGCCGCCTGTAACTCCAAGCACCACCACTTTTACGGTGGGTGACTCTAC
* * *
60995566 TGGTTGGCGAGTCCCTACTAATAATGATGATTTTTATGAGGATTGGGCTGATAATAAACACTTCG
258 TGGTTGGCGTGTCCCTACCAATAATGATGATTTTTATGAGGATTGGGCTGATCATAAACACTTCG
* * * * * * * * *
60995631 TTGTCGGAGACGTTTTAGGTCAG-TTTCTTAA-GTCAACA-TTTGA-ATCGAAATT-TG--ATGC
323 TTGTTGGGGATGTTTTAGGTGAGCTTT-TAAATTTAAAAATTTTGATAT--TAATTATGATATG-
* *
60995689 T---T-TT-TTTTATCCAACTGTTTGATGTTTTTCTT-TTCTT-TTTGCAGTGTTTAATTTTACG
384 TAAATGTTGTTTGATCTAACTGTTTGAT-TTTTTCTTCTT-TTCTTT-CAGTGTTTAATTTTACG
60995747 ACCGGACAG
446 ACCGGACAG
* * * *
60995756 CATAATGTTGCAGAGGTGACGGAAGATGCTTACGATGACTGCAACACTGCAAATGCCATATCTAC
1 CATAATGTTGCAGAGGTGACTGAAGATGGTTACGACGACTGCAACGCTGCAAATGCCATATCTAC
* *
60995821 TTTGACCACCGGTCCGGCAAGGATTACCCTTAACAAGACCGGTGACCATTACTTCATTTGCAGTG
66 TTTGACCACCGGTCCGGCAAGGATTACCCTTAACAAGACCGGTGACCACTACTTCATTTGCAGTA
60995886 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTTGAAGTTCGAACTGGTAACACCACCGGT
131 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTTGAAGTTCGAACTGGTAACACCACCGGT
*
60995951 GGCGTTGCTCCGTCGCCGCCTGTAACTCCAAGCACCACCACTTTTACAGTGGGTGACTCTACTGG
196 GGCGTTGCTCCGTCGCCGCCTGTAACTCCAAGCACCACCACTTTTACGGTGGGTGACTCTACTGG
60996016 TTGGCGTGTCCCTACC---AATGATGATTTTTATGAGGATTGGGCTGATCATAAACACTTCGTTG
261 TTGGCGTGTCCCTACCAATAATGATGATTTTTATGAGGATTGGGCTGATCATAAACACTTCGTTG
*
60996078 TTGGGGATGTTTTAGGTGAGCTTTTAAATTTAAAATTTTTGATATTAATTATGATATGTAAATGT
326 TTGGGGATGTTTTAGGTGAGCTTTTAAATTTAAAAATTTTGATATTAATTATGATATGTAAATGT
* * * *
60996143 AGTTTGATATAACTGTTTGATGTTTTCTTCTTTTCTTGCAGTGTTTAATTTTACGACCGGACAG
391 TGTTTGATCTAACTGTTTGATTTTTTCTTCTTTTCTTTCAGTGTTTAATTTTACGACCGGACAG
60996207 CATAATGTTGCAGAGGTGACTGAAGATGGTTACGACGACTGCAACGCTGCAAATGCCATATCTAC
1 CATAATGTTGCAGAGGTGACTGAAGATGGTTACGACGACTGCAACGCTGCAAATGCCATATCTAC
* * *
60996272 TTTGACCACCGGTCCGGCAAGGATTACCCTTAACAAGACCGGTGACAATTACTTCATTTGCAGTG
66 TTTGACCACCGGTCCGGCAAGGATTACCCTTAACAAGACCGGTGACCACTACTTCATTTGCAGTA
60996337 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTTGAAGTTCGAACTGGTAACACCACCGGT
131 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTTGAAGTTCGAACTGGTAACACCACCGGT
60996402 GGCGTTGCTCCGTCGCCGCCTGTAACTCCAAGCACCACCACTTTTACGGTGGGTGACTCTACTGG
196 GGCGTTGCTCCGTCGCCGCCTGTAACTCCAAGCACCACCACTTTTACGGTGGGTGACTCTACTGG
*
60996467 TTGGCGTGTCCCTACCAATAATGATGATTTTTATGAGGATTGGGCTGATCATAAAGACTTCGTTG
261 TTGGCGTGTCCCTACCAATAATGATGATTTTTATGAGGATTGGGCTGATCATAAACACTTCGTTG
60996532 TTGGGGATGTTTTAGGTGAGCTTTTAAATTTAAAAATTTTGATATTAATTATGATATGTAAATGT
326 TTGGGGATGTTTTAGGTGAGCTTTTAAATTTAAAAATTTTGATATTAATTATGATATGTAAATGT
60996597 TGTTTGATCTAACTGTTTGATTTTTTCTTCTTTTCTTTCAGTGTTTAATTTTACGACCGGACAG
391 TGTTTGATCTAACTGTTTGATTTTTTCTTCTTTTCTTTCAGTGTTTAATTTTACGACCGGACAG
60996661 CATAATGTTGCAGAGGTGACTGAAGATGGTTACGACGACTGCAACGCTGCAAATGCCATATCTAC
1 CATAATGTTGCAGAGGTGACTGAAGATGGTTACGACGACTGCAACGCTGCAAATGCCATATCTAC
* *
60996726 TTTGACCACCGGTCCGGCAAGGATTACCCTCAACAGGACCGGTGACCACTACTTCATTTGCAGTA
66 TTTGACCACCGGTCCGGCAAGGATTACCCTTAACAAGACCGGTGACCACTACTTCATTTGCAGTA
* * *
60996791 TCCCCGGTCATTGTTCCGCCGGCCAAAAACTCAAGGTCGAAGTCCGAA
131 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTTGAAGTTCGAA
60996839 ATGGCAACCG
Statistics
Matches: 985, Mismatches: 78, Indels: 33
0.90 0.07 0.03
Matches are distributed among these distances:
444 64 0.06
445 10 0.01
446 8 0.01
447 231 0.23
448 6 0.01
450 1 0.00
451 306 0.31
452 20 0.02
454 339 0.34
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (454 bp):
CATAATGTTGCAGAGGTGACTGAAGATGGTTACGACGACTGCAACGCTGCAAATGCCATATCTAC
TTTGACCACCGGTCCGGCAAGGATTACCCTTAACAAGACCGGTGACCACTACTTCATTTGCAGTA
TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTTGAAGTTCGAACTGGTAACACCACCGGT
GGCGTTGCTCCGTCGCCGCCTGTAACTCCAAGCACCACCACTTTTACGGTGGGTGACTCTACTGG
TTGGCGTGTCCCTACCAATAATGATGATTTTTATGAGGATTGGGCTGATCATAAACACTTCGTTG
TTGGGGATGTTTTAGGTGAGCTTTTAAATTTAAAAATTTTGATATTAATTATGATATGTAAATGT
TGTTTGATCTAACTGTTTGATTTTTTCTTCTTTTCTTTCAGTGTTTAATTTTACGACCGGACAG
Found at i:60997256 original size:20 final size:20
Alignment explanation
Indices: 60997233--60997278 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
60997223 TTTAATTATT
* * *
60997233 AATATTAATATTTTTATTTA
1 AATATTAACATATTTATTAA
*
60997253 AATATGAACATATTTATTAA
1 AATATTAACATATTTATTAA
60997273 AATATT
1 AATATT
60997279 TTATTAATTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
AATATTAACATATTTATTAA
Found at i:60998185 original size:30 final size:30
Alignment explanation
Indices: 60998150--60998225 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
60998140 ATTTGAATAT
*
60998150 TTTTATTATTTTTAAATGA-TTAAATTAAAA
1 TTTTATTATTTTTAAA-GAGTTAAAATAAAA
* * *
60998180 TTTTATCATTTTCAGAAGAGTTAAAATACAA
1 TTTTATTATTTTTA-AAGAGTTAAAATAAAA
60998211 TTTTATT-TTTATTAA
1 TTTTATTATTT-TTAA
60998226 TTTAAACTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
30 18 0.49
31 19 0.51
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.51
Consensus pattern (30 bp):
TTTTATTATTTTTAAAGAGTTAAAATAAAA
Found at i:60998684 original size:16 final size:16
Alignment explanation
Indices: 60998637--60998688 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
60998627 TCATAATAAA
60998637 TATTATTTATTATTAAG
1 TATTA-TTATTATTAAG
*
60998654 T-TTATATATGATATTAAT
1 TATTAT-TAT--TATTAAG
60998672 TATTATTATTATTAAG
1 TATTATTATTATTAAG
60998688 T
1 T
60998689 TTAAGGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
15 1 0.03
16 13 0.45
17 1 0.03
18 10 0.34
19 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TATTATTATTATTAAG
Found at i:61005427 original size:38 final size:39
Alignment explanation
Indices: 61005323--61005482 Score: 229
Period size: 39 Copynumber: 4.2 Consensus size: 39
61005313 CACCGCCACG
* * *
61005323 CCGAGCCCCACCCCGCGTGGAACTTCAAG---TCCTCGT
1 CCGAGCGCTACCCCGCGTGGAACTTCAAGTCCTCCTCCT
* *
61005359 CCGAGCGCCACCCCTCGTGGAACTTCAAGTCCTCCTCCT
1 CCGAGCGCTACCCCGCGTGGAACTTCAAGTCCTCCTCCT
*
61005398 CCGAGAGCTACCCCGC-TGGAACTTCAAGTCCTCCTCCT
1 CCGAGCGCTACCCCGCGTGGAACTTCAAGTCCTCCTCCT
*
61005436 CCGAGCGCTACCCCGCCTGGAACTTCAAGTCCTCCTCCT
1 CCGAGCGCTACCCCGCGTGGAACTTCAAGTCCTCCTCCT
61005475 CCGAGCGC
1 CCGAGCGC
61005483 CGCTACGCCT
Statistics
Matches: 113, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
36 27 0.24
38 37 0.33
39 49 0.43
ACGTcount: A:0.16, C:0.45, G:0.20, T:0.19
Consensus pattern (39 bp):
CCGAGCGCTACCCCGCGTGGAACTTCAAGTCCTCCTCCT
Found at i:61005449 original size:77 final size:75
Alignment explanation
Indices: 61005332--61005479 Score: 226
Period size: 77 Copynumber: 1.9 Consensus size: 75
61005322 GCCGAGCCCC
* * *
61005332 ACCCCGCGTGGAACTTCAAGTCCTCGTCCGAGCGCCACCCCTCGTGGAACTTCAAGTCCTCCTCC
1 ACCCCGCGTGGAACTTCAAGTCCTCCTCCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCC
61005397 TCCGAGAGCT
66 TCCGAGAGCT
*
61005407 ACCCCGC-TGGAACTTCAAGTCCTCCTCCTCCGAGCGCTACCCCGCCTGGAACTTCAAGTCCTCC
1 ACCCCGCGTGGAACTTCAAG---TCCTCCTCCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCC
61005471 TCCTCCGAG
63 TCCTCCGAG
61005480 CGCCGCTACG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
74 12 0.18
75 7 0.11
77 47 0.71
ACGTcount: A:0.17, C:0.43, G:0.20, T:0.20
Consensus pattern (75 bp):
ACCCCGCGTGGAACTTCAAGTCCTCCTCCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCC
TCCGAGAGCT
Found at i:61005519 original size:24 final size:24
Alignment explanation
Indices: 61005473--61005522 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
61005463 AGTCCTCCTC
61005473 CTCCGAGCGCCGCTACGCCTGGAA
1 CTCCGAGCGCCGCTACGCCTGGAA
* *
61005497 CTCCGAGCTCCAGCT-CGCGTGGAA
1 CTCCGAGCGCC-GCTACGCCTGGAA
61005521 CT
1 CT
61005523 TCAAGTCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (24 bp):
CTCCGAGCGCCGCTACGCCTGGAA
Found at i:61007564 original size:18 final size:20
Alignment explanation
Indices: 61007541--61007578 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
61007531 TCAATTGTAC
61007541 AATTAAAAAT-TAT-TAAAA
1 AATTAAAAATATATATAAAA
61007559 AATTAAAAATATATATAAAA
1 AATTAAAAATATATATAAAA
61007579 TTAGTTCAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTAAAAATATATATAAAA
Found at i:61007898 original size:50 final size:50
Alignment explanation
Indices: 61007823--61007984 Score: 234
Period size: 50 Copynumber: 3.2 Consensus size: 50
61007813 CGTAATTGAT
61007823 TGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
1 TGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
**
61007873 TGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACA
1 TGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
* * * ** *
61007923 TGGCATGGGCACCGATATGAGAACATCCCATGTAAGACCATGTTTGGGACA
1 TGGCGTTGGCACCGAGATGAG-AGGTCCCATGTAAGACCATGTCTGGGACA
*
61007974 TGGCTTTGGCA
1 TGGCGTTGGCA
61007985 TGTTATGATC
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 66 0.67
51 33 0.33
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.21
Consensus pattern (50 bp):
TGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
Found at i:61010050 original size:14 final size:14
Alignment explanation
Indices: 61010031--61010058 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61010021 CAATTTTCGG
61010031 TGCCTTAAATGCTC
1 TGCCTTAAATGCTC
61010045 TGCCTTAAATGCTC
1 TGCCTTAAATGCTC
61010059 AGATTTTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (14 bp):
TGCCTTAAATGCTC
Found at i:61011890 original size:14 final size:14
Alignment explanation
Indices: 61011871--61011897 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61011861 TTAAAATTTT
61011871 ATATTTTCATTCTC
1 ATATTTTCATTCTC
61011885 ATATTTTCATTCT
1 ATATTTTCATTCT
61011898 TTAAAGCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTTTCATTCTC
Found at i:61014167 original size:9 final size:9
Alignment explanation
Indices: 61014148--61014196 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
61014138 GTAGTGATTC
*
61014148 AATTTGGTT
1 AATTCGGTT
*
61014157 AATACGGTT
1 AATTCGGTT
*
61014166 AATTCGGGT
1 AATTCGGTT
61014175 AATTCGGTT
1 AATTCGGTT
*
61014184 AATTCGGGT
1 AATTCGGTT
61014193 AATT
1 AATT
61014197 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:61014196 original size:18 final size:18
Alignment explanation
Indices: 61014156--61014196 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
61014146 TCAATTTGGT
*
61014156 TAATACGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
61014174 TAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
61014192 TAATT
1 TAATT
61014197 TTTAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (18 bp):
TAATTCGGTTAATTCGGG
Found at i:61019381 original size:29 final size:29
Alignment explanation
Indices: 61019347--61019403 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
61019337 TTTGATTCTT
*
61019347 CTTAATAATATAAAGGCTAAATTGATCCA
1 CTTAATAATAGAAAGGCTAAATTGATCCA
* *
61019376 CTTAATAATGGAATGGCTAAATTGATCC
1 CTTAATAATAGAAAGGCTAAATTGATCC
61019404 CATCCCAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (29 bp):
CTTAATAATAGAAAGGCTAAATTGATCCA
Found at i:61021137 original size:3 final size:3
Alignment explanation
Indices: 61021129--61021156 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
61021119 TTTCTTTACC
61021129 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
61021157 TTACTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:61025082 original size:23 final size:24
Alignment explanation
Indices: 61025046--61025092 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
61025036 AATTTAAAAC
61025046 AAATTAAAGTATATCTTT-TTTTAT
1 AAATTAAAGTATAT-TTTATTTTAT
*
61025070 AAATTTAA-TATATTTTATTTTAT
1 AAATTAAAGTATATTTTATTTTAT
61025093 GATATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 11 0.52
24 7 0.33
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
AAATTAAAGTATATTTTATTTTAT
Found at i:61028012 original size:31 final size:31
Alignment explanation
Indices: 61027977--61028035 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
61027967 CGCTACAATA
61027977 ACTTAAAT-AAACACTTT-AGAATAGTTCAGTG
1 ACTTAAATGAAA-ACTTTCA-AATAGTTCAGTG
*
61028008 ACTTAAGTGAAAACTTTCAAATAGTTCA
1 ACTTAAATGAAAACTTTCAAATAGTTCA
61028036 ATAACCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTCAAATAGTTCAGTG
Found at i:61028823 original size:25 final size:25
Alignment explanation
Indices: 61028768--61028824 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
61028758 TTTACATTTT
*
61028768 TATATTACATATACAAATAATTATA
1 TATATTACATATAAAAATAATTATA
*
61028793 TTTATTGAC-TATAAAAATAAATTA-A
1 TATATT-ACATATAAAAAT-AATTATA
61028818 TATATTA
1 TATATTA
61028825 ATTTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.04
25 19 0.70
26 7 0.26
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (25 bp):
TATATTACATATAAAAATAATTATA
Found at i:61029057 original size:11 final size:11
Alignment explanation
Indices: 61029041--61029067 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
61029031 TTTTTTATCG
61029041 AAATAATATAA
1 AAATAATATAA
61029052 AAATAATATAA
1 AAATAATATAA
61029063 AAATA
1 AAATA
61029068 GGAAATGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATAATATAA
Found at i:61031332 original size:3 final size:3
Alignment explanation
Indices: 61031324--61031352 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61031314 GCTTCAAGAA
61031324 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
61031353 TCAACAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:61059117 original size:28 final size:28
Alignment explanation
Indices: 61059086--61059170 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 28
61059076 TAATGGACCA
61059086 AAAAATAAACATA-TAAAAAAATTTAAAT
1 AAAAATAAA-ATATTAAAAAAATTTAAAT
*
61059114 AAAATATAAAATATCTAAAAATCAATTTAATT
1 AAAA-ATAAAATAT-TAAAAA--AATTTAAAT
* *
61059146 AACAATTAAATATTAAAAAAATTTA
1 AAAAATAAAATATTAAAAAAATTTA
61059171 TTCGATTTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 13 0.27
29 5 0.10
30 12 0.24
31 8 0.16
32 11 0.22
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATAAAATATTAAAAAAATTTAAAT
Found at i:61059165 original size:31 final size:32
Alignment explanation
Indices: 61059105--61059164 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
61059095 CATATAAAAA
61059105 AATTTAAATAAAATATAAAATATCTAAAAATC
1 AATTTAAATAAAATATAAAATATCTAAAAATC
*
61059137 AATTTAATTAACAAT-T-AAATAT-TAAAAA
1 AATTTAAATAA-AATATAAAATATCTAAAAA
61059165 AATTTATTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 6 0.23
32 11 0.42
33 3 0.12
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (32 bp):
AATTTAAATAAAATATAAAATATCTAAAAATC
Found at i:61060293 original size:19 final size:21
Alignment explanation
Indices: 61060251--61060296 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
61060241 TTTATTATTT
* *
61060251 AAAATATTATTATTTTTTATA
1 AAAATATTATTATATTTTAAA
61060272 AAAATA-TA-TATATTTTAAA
1 AAAATATTATTATATTTTAAA
61060291 AAAATA
1 AAAATA
61060297 GACTTACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 2 0.09
21 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAATATTATTATATTTTAAA
Found at i:61062994 original size:12 final size:12
Alignment explanation
Indices: 61062977--61063003 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61062967 ATCAAATAAA
61062977 AAATATTAAAAC
1 AAATATTAAAAC
61062989 AAATATTAAAAC
1 AAATATTAAAAC
61063001 AAA
1 AAA
61063004 AACAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:61063067 original size:40 final size:39
Alignment explanation
Indices: 61062969--61063067 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 39
61062959 CTTATTTCAT
*
61062969 CAAA-TAAAAA-ATATTAAAACAAATATTAAAACAAAAA
1 CAAATTAAAAATATAATAAAACAAATATTAAAACAAAAA
* * * * * *
61063006 CAAATAAAAAATGAGACTAAAACAATTCTTAAAACAATACA
1 CAAATTAAAAAT-ATAATAAAACAAATATTAAAACAA-AAA
61063047 CAAATTAAAAATATAATAAAA
1 CAAATTAAAAATATAATAAAA
61063068 AGTAGTTATA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
37 4 0.08
38 5 0.10
40 27 0.55
41 13 0.27
ACGTcount: A:0.68, C:0.10, G:0.02, T:0.20
Consensus pattern (39 bp):
CAAATTAAAAATATAATAAAACAAATATTAAAACAAAAA
Found at i:61090176 original size:30 final size:31
Alignment explanation
Indices: 61090132--61090189 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
61090122 TCCGAGCCTT
*
61090132 GGGTCAAAAATGTAATTATGTAAAAGTTTAG
1 GGGTCAAAAATGTAATTATGAAAAAGTTTAG
* *
61090163 GGGT-AAAATTGTAATTTTGAAAAAGTT
1 GGGTCAAAAATGTAATTATGAAAAAGTT
61090190 AGAGTCAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.34
Consensus pattern (31 bp):
GGGTCAAAAATGTAATTATGAAAAAGTTTAG
Found at i:61090420 original size:13 final size:13
Alignment explanation
Indices: 61090402--61090432 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
61090392 TTCCAGCAAC
61090402 TATGAATTTATTT
1 TATGAATTTATTT
61090415 TATGAATTTATTT
1 TATGAATTTATTT
*
61090428 GATGA
1 TATGA
61090433 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:61090602 original size:50 final size:50
Alignment explanation
Indices: 61090527--61090719 Score: 291
Period size: 50 Copynumber: 3.8 Consensus size: 50
61090517 ATTTGGGTAA
61090527 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
61090577 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
61090627 AGAGGTCACC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCG-GTATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG-ATG
** *
61090677 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
61090720 TGTTATTATC
Statistics
Matches: 130, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
49 1 0.01
50 95 0.73
51 34 0.26
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:61097955 original size:13 final size:13
Alignment explanation
Indices: 61097937--61097967 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
61097927 TTCCAGCAAC
61097937 TATGAATTTATTT
1 TATGAATTTATTT
61097950 TATGAATTTATTT
1 TATGAATTTATTT
*
61097963 GATGA
1 TATGA
61097968 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:61098137 original size:50 final size:50
Alignment explanation
Indices: 61098062--61098354 Score: 478
Period size: 50 Copynumber: 5.8 Consensus size: 50
61098052 ATTTGGGTAA
61098062 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
61098112 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
61098162 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
61098212 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
61098262 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCGCCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
61098312 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
61098355 TGTTATTATC
Statistics
Matches: 224, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
50 191 0.85
51 33 0.15
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:61099933 original size:14 final size:14
Alignment explanation
Indices: 61099914--61099943 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61099904 AAGATACTGC
61099914 TTCCAGTAAAGGAG
1 TTCCAGTAAAGGAG
*
61099928 TTCCAGTAATGGAG
1 TTCCAGTAAAGGAG
61099942 TT
1 TT
61099944 AACCAAGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (14 bp):
TTCCAGTAAAGGAG
Found at i:61108560 original size:22 final size:24
Alignment explanation
Indices: 61108534--61108577 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
61108524 GAAAAATATT
61108534 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
61108556 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
61108578 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:61108786 original size:16 final size:16
Alignment explanation
Indices: 61108765--61108806 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
61108755 AATAATTTGA
*
61108765 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
61108781 TAATTTTAATATCAAT
1 TAATTTTAATAACAAT
*
61108797 TAGTTTTAAT
1 TAATTTTAAT
61108807 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:61108790 original size:22 final size:21
Alignment explanation
Indices: 61108765--61108832 Score: 56
Period size: 22 Copynumber: 3.4 Consensus size: 21
61108755 AATAATTTGA
61108765 TAATTTTACTAACAATTAATTT
1 TAATTTTA-TAACAATTAATTT
*
61108787 TAA---TAT--CAATTAGTTT
1 TAATTTTATAACAATTAATTT
* *
61108803 TAATTTTATTAAAAAATAATTT
1 TAATTTTA-TAACAATTAATTT
61108825 TAATTTTA
1 TAATTTTA
61108833 ATTTTAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
16 12 0.33
18 1 0.03
19 4 0.11
20 1 0.03
22 18 0.50
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (21 bp):
TAATTTTATAACAATTAATTT
Found at i:61111097 original size:14 final size:14
Alignment explanation
Indices: 61111078--61111107 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61111068 AAGATACTGC
61111078 TTCCAGTAAAGGAG
1 TTCCAGTAAAGGAG
*
61111092 TTCCAGTAATGGAG
1 TTCCAGTAAAGGAG
61111106 TT
1 TT
61111108 AACCAAGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (14 bp):
TTCCAGTAAAGGAG
Found at i:61122261 original size:12 final size:12
Alignment explanation
Indices: 61122246--61122272 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61122236 AAATACGTAT
61122246 ATAGATACATAC
1 ATAGATACATAC
61122258 ATAGATACATAC
1 ATAGATACATAC
61122270 ATA
1 ATA
61122273 CATATATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (12 bp):
ATAGATACATAC
Found at i:61122945 original size:3 final size:3
Alignment explanation
Indices: 61122939--61122980 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
61122929 ACAACAGGTC
61122939 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
61122981 ATAGAAGAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:61123285 original size:20 final size:21
Alignment explanation
Indices: 61123248--61123287 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61123238 GTCCCTTTAT
*
61123248 TTATTCTAAAATTTACAATTA
1 TTATACTAAAATTTACAATTA
61123269 TTATACTAAAA-TTACAATT
1 TTATACTAAAATTTACAATT
61123288 TAATCCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
TTATACTAAAATTTACAATTA
Found at i:61130935 original size:17 final size:17
Alignment explanation
Indices: 61130901--61130950 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
61130891 ATTTCAAAGC
*
61130901 TTAATTTCTTTTAAAAAT
1 TTAATTT-TTTAAAAAAT
61130919 TTAATTTTTTAAAAAAT
1 TTAATTTTTTAAAAAAT
* *
61130936 TATAAATTTGTAAAA
1 T-TAATTTTTTAAAA
61130951 CGTTATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAATTTTTTAAAAAAT
Found at i:61131647 original size:9 final size:9
Alignment explanation
Indices: 61131628--61131670 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
61131618 TTTTAAATGG
61131628 TTTTTAA-T
1 TTTTTAATT
61131636 TTTTTAATT
1 TTTTTAATT
61131645 TTTTTAAAATT
1 TTTTT--AATT
61131656 TTTTTAATAT
1 TTTTTAAT-T
61131666 TTTTT
1 TTTTT
61131671 TATAAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.23
9 9 0.29
10 6 0.19
11 9 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTAATT
Found at i:61131680 original size:11 final size:10
Alignment explanation
Indices: 61131618--61131672 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
61131608 TGAACTTAAC
*
61131618 TTTTAAATGGT
1 TTTTAAAT-TT
61131629 TTTT-AA-TT
1 TTTTAAATTT
61131637 TTTT-AATTT
1 TTTTAAATTT
61131646 TTTTAAAATTT
1 TTTT-AAATTT
61131657 TTTTAATATTT
1 TTTTAA-ATTT
61131668 TTTTA
1 TTTTA
61131673 TAAATTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
8 7 0.18
9 6 0.15
10 4 0.10
11 22 0.56
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:61131681 original size:20 final size:20
Alignment explanation
Indices: 61131657--61131699 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
61131647 TTTAAAATTT
* *
61131657 TTTTAATATTTTTTTATAAA
1 TTTTAATAATGTTTTATAAA
*
61131677 TTTTAATAATGTTTTATGAA
1 TTTTAATAATGTTTTATAAA
61131697 TTT
1 TTT
61131700 ATAAAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTAATAATGTTTTATAAA
Found at i:61131686 original size:23 final size:22
Alignment explanation
Indices: 61131642--61131691 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
61131632 TAATTTTTTA
**
61131642 ATTTTTTTAAAATTTTTTTAAT
1 ATTTTTTTAAAATTTTAATAAT
61131664 ATTTTTTTATAAATTTTAATAAT
1 ATTTTTTTA-AAATTTTAATAAT
*
61131687 GTTTT
1 ATTTT
61131692 ATGAATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTTTTTTAAAATTTTAATAAT
Found at i:61143893 original size:42 final size:42
Alignment explanation
Indices: 61143823--61143981 Score: 264
Period size: 42 Copynumber: 3.8 Consensus size: 42
61143813 CCAAAGTGCT
*
61143823 TTTTGTTTTCTCCGAAACGTGTTAAGTTGAATGAAATTAGCA
1 TTTTGTTTTCTCCGAAACGTGTTAAGTTGAATTAAATTAGCA
* * *
61143865 TTTTGTTTTCTCCAAAACATGTTGAGTTGAATTAAATTAGCA
1 TTTTGTTTTCTCCGAAACGTGTTAAGTTGAATTAAATTAGCA
*
61143907 TTTTGTTTTCTCCGAAACGTGTTAATTTGAATTAAATTAGCA
1 TTTTGTTTTCTCCGAAACGTGTTAAGTTGAATTAAATTAGCA
*
61143949 TTTTGTTTTCTCCGCAACGTGTTAAGTTGAATT
1 TTTTGTTTTCTCCGAAACGTGTTAAGTTGAATT
61143982 CAAAGAAAAA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 107 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTTGTTTTCTCCGAAACGTGTTAAGTTGAATTAAATTAGCA
Found at i:61145415 original size:29 final size:28
Alignment explanation
Indices: 61145370--61145426 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
61145360 AAGTCAAAAA
* * *
61145370 AATTAAATTAAATTTTTATTATTTTAGAG
1 AATTAAAGTAAAATTTTA-CATTTTAGAG
61145399 AATTAAAGTAAAATTTTACATTTTAGAG
1 AATTAAAGTAAAATTTTACATTTTAGAG
61145427 GGACCGAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.46
Consensus pattern (28 bp):
AATTAAAGTAAAATTTTACATTTTAGAG
Found at i:61152585 original size:22 final size:22
Alignment explanation
Indices: 61152541--61152585 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
61152531 TTGTCTTAAC
* *
61152541 AAAACATTGTTCTTCTTGTCTA
1 AAAACATTGTTCTGCTTGGCTA
*
61152563 AAAACATTGTTCTGGTTGGCTA
1 AAAACATTGTTCTGCTTGGCTA
61152585 A
1 A
61152586 GATTGTATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (22 bp):
AAAACATTGTTCTGCTTGGCTA
Found at i:61153100 original size:26 final size:26
Alignment explanation
Indices: 61153037--61153100 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
61153027 AGTTTTTCAT
61153037 TACTTTTGAAAAATATTTTTAAAAAG
1 TACTTTTGAAAAATATTTTTAAAAAG
* * *
61153063 TGC-TGTGAAAAAATATTTTTAAGAAG
1 TACTTTTG-AAAAATATTTTTAAAAAG
61153089 TACTTTTGAAAA
1 TACTTTTGAAAA
61153101 GTTTGGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 3 0.10
26 25 0.81
27 3 0.10
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (26 bp):
TACTTTTGAAAAATATTTTTAAAAAG
Found at i:61154897 original size:15 final size:15
Alignment explanation
Indices: 61154877--61154907 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61154867 ACTAGAAGCC
61154877 TCGGTTTAAGATTGT
1 TCGGTTTAAGATTGT
61154892 TCGGTTTAAGATTGT
1 TCGGTTTAAGATTGT
61154907 T
1 T
61154908 TGAGTATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.48
Consensus pattern (15 bp):
TCGGTTTAAGATTGT
Found at i:61155078 original size:20 final size:19
Alignment explanation
Indices: 61155044--61155108 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
61155034 TGTTCAGAGA
61155044 TTTTAATTCAATTTATAAT
1 TTTTAATTCAATTTATAAT
** * *
61155063 TTTTTTTTGCAGTTTATAAA
1 TTTTAATT-CAATTTATAAT
61155083 TTTTAATTCAATTTATAAT
1 TTTTAATTCAATTTATAAT
61155102 TTTTAAT
1 TTTTAAT
61155109 ATGTGCTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 22 0.59
20 15 0.41
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTAATTCAATTTATAAT
Found at i:61155119 original size:39 final size:39
Alignment explanation
Indices: 61155043--61155119 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
61155033 TTGTTCAGAG
* * *
61155043 ATTTTAATTCAATTTATAATTTTTTTTTGCAGTTTATAA
1 ATTTTAATTCAATTTATAATTTTTATATGCAGCTTATAA
*
61155082 ATTTTAATTCAATTTATAATTTTTAATATG-TGCTTATA
1 ATTTTAATTCAATTTATAATTTTT-ATATGCAGCTTATA
61155120 TAGAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 30 0.91
40 3 0.09
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (39 bp):
ATTTTAATTCAATTTATAATTTTTATATGCAGCTTATAA
Found at i:61156265 original size:26 final size:24
Alignment explanation
Indices: 61156201--61156266 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 24
61156191 AAATATTTAT
* *
61156201 AAAA-ATGCATATATATATTATAA
1 AAAACATGCATATATATAATAAAA
61156224 AAAACATGCA-AGTATACTAGATAAAA
1 AAAACATGCATA-TATA-TA-ATAAAA
61156250 AAAACATGCATATATAT
1 AAAACATGCATATATAT
61156267 GTATTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
23 5 0.14
24 9 0.25
25 3 0.08
26 18 0.50
27 1 0.03
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (24 bp):
AAAACATGCATATATATAATAAAA
Found at i:61156274 original size:26 final size:26
Alignment explanation
Indices: 61156201--61156279 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
61156191 AAATATTTAT
*
61156201 AAAA-ATGCATATATA--TATTATAA
1 AAAACATGCATATATATGTATTAAAA
61156224 AAAACATGCA-AGTATACTAG-A-TAAAA
1 AAAACATGCATA-TATA-T-GTATTAAAA
*
61156250 AAAACATGCATATATATGTATTAAAT
1 AAAACATGCATATATATGTATTAAAA
61156276 AAAA
1 AAAA
61156280 GAACGTCGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
23 5 0.11
24 10 0.22
25 2 0.04
26 26 0.58
27 2 0.04
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAACATGCATATATATGTATTAAAA
Found at i:61156347 original size:3 final size:3
Alignment explanation
Indices: 61156300--61156331 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61156290 TGTATGAATA
61156300 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61156332 AACATATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61157890 original size:44 final size:44
Alignment explanation
Indices: 61157837--61158371 Score: 556
Period size: 44 Copynumber: 12.1 Consensus size: 44
61157827 AAGACTTATA
* * *
61157837 TCTTCGATCTACTTCACACTAATACATGAAGACAAGA-CTTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC-TGCTT
* *
61157881 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCGGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
61157925 TCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCCGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * ***
61157969 TCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTAT
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCT-T
* *
61158015 T-TTTGATCTACTTCACGCCAATACATGAGGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
61158058 TCTTCGATCTACTTCATGCCAATACATGAAAACAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * ***
61158102 TCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTAT
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCT-T
**
61158148 T-TTTTATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * *
61158191 TCTTCGATCTACTTCACGTCAATTCATGAAGGCAAGATCTGTTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * * * *** *
61158235 TCTTCAATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCTAT
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCT-T
* *
61158281 T-TTTGATCTGCTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* * *
61158324 TCTTCGATCCACTTCACGCCAATCCATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
61158368 TCTT
1 TCTT
61158372 TGCAACCTGC
Statistics
Matches: 397, Mismatches: 84, Indels: 20
0.79 0.17 0.04
Matches are distributed among these distances:
43 6 0.02
44 297 0.75
45 88 0.22
46 6 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:61158029 original size:89 final size:88
Alignment explanation
Indices: 61157842--61158366 Score: 440
Period size: 89 Copynumber: 5.9 Consensus size: 88
61157832 TTATATCTTC
* * * * ** * * *
61157842 GATCTACTTCACACTAATACATGAAGACAAGA-CTTGCTATCTTTGATCTACTTC-ACGCCAATA
1 GATCTACTTCACGCCAATACATGAAGACAAGATC-TGTTTTCTTCAATCTACTTCGCCACCAGTA
* *
61157905 CATGAAGACAAGATCGGCTTTCTTT
65 CAGGAAGACAAGATCTGCTTT-TTT
* * *
61157930 GATCTACTTCATGCCAATACATGAAGACAAGATCCGTTTTCTTCAATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTAC
*
61157995 GGGAAGACAAGATCTGCTATTTTT
66 AGGAAGACAAGATCTGCT-TTTTT
* * *
61158019 GATCTACTTCACGCCAATACATGAGGACAAGATCTGCTTTCTTCGATCTACTTCATGCCA--A-T
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTC--GCCACCAGT
* *
61158081 ACATGAAAACAAGATCTG-TTTTCTT
64 ACAGGAAGACAAGATCTGCTTTT-TT
* * * * *** * * *
61158106 CAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATTT-TT-TATCTACTTC-ACGCCA
1 -GATCTACTTC-ACGCCAATACATGAAGACAAGATCTG-T-TTTCTTCAATCTACTTCGCCACCA
* * *
61158168 ATACATGAAGACAAGATCTGCTTTCTTC
62 GTACAGGAAGACAAGATCTGCTTT-TTT
* * * *
61158196 GATCTACTTCACGTCAATTCATGAAGGCAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTAC
* *
61158261 GGGAAGATAAGATCTGCTATTTTT
66 AGGAAGACAAGATCTGCT-TTTTT
* * * * * * * *
61158285 GATCTGCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTC-ACGCCAATCC
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTAC
*
61158349 ATGAAGACAAGATCTGCT
66 AGGAAGACAAGATCTGCT
61158367 ATCTTTGCAA
Statistics
Matches: 346, Mismatches: 72, Indels: 38
0.76 0.16 0.08
Matches are distributed among these distances:
86 7 0.02
87 6 0.02
88 115 0.33
89 200 0.58
90 10 0.03
91 8 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (88 bp):
GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTAC
AGGAAGACAAGATCTGCTTTTTT
Found at i:61158102 original size:133 final size:133
Alignment explanation
Indices: 61157864--61158364 Score: 842
Period size: 133 Copynumber: 3.8 Consensus size: 133
61157854 ACTAATACAT
* *
61157864 GAAGACAAGA-CTTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCGGCTTTCT
1 GAAGACAAGATC-TGCTATTTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
* * *
61157928 TTGATCTACTTCATGCCAATACATGAAGACAAGATCCGTTTTCTTCAATCTACTTCGCCACCAGT
65 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGT
61157993 ATGG
130 ATGG
*
61157997 GAAGACAAGATCTGCTATTTTTGATCTACTTCACGCCAATACATGAGGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATTTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* *
61158062 CGATCTACTTCATGCCAATACATGAAAACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTA
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTA
61158127 TGG
131 TGG
*
61158130 GAAGACAAGATCTGCTATTTTTTATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATTTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* * *
61158195 CGATCTACTTCACGTCAATTCATGAAGGCAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTA
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTA
61158260 TGG
131 TGG
* *
61158263 GAAGATAAGATCTGCTATTTTTGATCTGCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATTTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* *
61158328 CGATCCACTTCACGCCAATCCATGAAGACAAGATCTG
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTG
61158365 CTATCTTTGC
Statistics
Matches: 347, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
133 346 1.00
134 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (133 bp):
GAAGACAAGATCTGCTATTTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCGCCACCAGTA
TGG
Found at i:61158180 original size:177 final size:176
Alignment explanation
Indices: 61157837--61158371 Score: 467
Period size: 177 Copynumber: 3.0 Consensus size: 176
61157827 AAGACTTATA
* * * * *
61157837 TCTTCGATCTACTTCACACTAATACATGAAGACAAGA-CTTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCACGCCAATACATGAGGACAAGATC-TGCTTTCTTCGATCTACTTCACGCC
* ** *
61157901 AATACATGAAGACAAGATCGGCTTTCTTTGATCTACTTCATGCCAATACATGAAGACAAGATCCG
65 AATACATGAAAACAAGATCGGCTTTCTTCAATCTACTTCA-GCCAATACAGGAAGACAAGATCCG
* * **
61157966 TTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTAT
129 TTTTCTTCAATCTACTTCGACACCAATACAGGAAGACAAGATCTGCT-T
* *
61158015 T-TTTGATCTACTTCACGCCAATACATGAGGACAAGATCTGCTTTCTTCGATCTACTTCATGCCA
1 TCTTCGATCTACTTCACGCCAATACATGAGGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
* * ** *
61158079 ATACATGAAAACAAGATCTGTTTTCTTCAATCTACTTC-GCCACCAGTATGGGAAGACAAGATCT
66 ATACATGAAAACAAGATCGGCTTTCTTCAATCTACTTCAGCCA--A-TACAGGAAGACAAGATCC
* * *
61158143 GCTATTT-TT-TATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
128 G-T-TTTCTTCAATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTT
* * * * * *
61158191 TCTTCGATCTACTTCACGTCAATTCATGAAGG-CAAGATCTGTTTTCTTCAATCTACTTCGCCAC
1 TCTTCGATCTACTTCACGCCAATACATG-AGGACAAGATCTGCTTTCTTCGATCTACTTC-ACGC
* *** * * * ** * *
61158255 CAGTATGGGAAGATAAGATCTGCTATT-TTTGATCTGCTTCACGCCAATACATGAAGACAAGATC
64 CAATACATGAAAACAAGATCGGCT-TTCTTCAATCTACTTCA-GCCAATACAGGAAGACAAGATC
* * * * * * * *
61158319 TGCTTTCTTCGATCCACTTC-ACGCCAATCCATGAAGACAAGATCTGCTA
127 CGTTTTCTTCAATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTT
61158368 TCTT
1 TCTT
61158372 TGCAACCTGC
Statistics
Matches: 294, Mismatches: 49, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
175 7 0.02
176 4 0.01
177 213 0.72
178 58 0.20
179 5 0.02
180 7 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (176 bp):
TCTTCGATCTACTTCACGCCAATACATGAGGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
ATACATGAAAACAAGATCGGCTTTCTTCAATCTACTTCAGCCAATACAGGAAGACAAGATCCGTT
TTCTTCAATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTT
Found at i:61161204 original size:129 final size:129
Alignment explanation
Indices: 61160974--61161221 Score: 496
Period size: 129 Copynumber: 1.9 Consensus size: 129
61160964 TATGCCAAGA
61160974 AATATATTTTTACATCTTATGCAATTAAATTGAAATTTTAAGTCCCTAATAAACTTTCTTTTCTT
1 AATATATTTTTACATCTTATGCAATTAAATTGAAATTTTAAGTCCCTAATAAACTTTCTTTTCTT
61161039 TCTTTTTTTTGTTAACAATTAAATTAAGTTTCTTAAATCTAAATTAAATAACTTAATTTAATTT
66 TCTTTTTTTTGTTAACAATTAAATTAAGTTTCTTAAATCTAAATTAAATAACTTAATTTAATTT
61161103 AATATATTTTTACATCTTATGCAATTAAATTGAAATTTTAAGTCCCTAATAAACTTTCTTTTCTT
1 AATATATTTTTACATCTTATGCAATTAAATTGAAATTTTAAGTCCCTAATAAACTTTCTTTTCTT
61161168 TCTTTTTTTTGTTAACAATTAAATTAAGTTTCTTAAATCTAAATTAAATAACTT
66 TCTTTTTTTTGTTAACAATTAAATTAAGTTTCTTAAATCTAAATTAAATAACTT
61161222 GTTTTGGACT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.49
Consensus pattern (129 bp):
AATATATTTTTACATCTTATGCAATTAAATTGAAATTTTAAGTCCCTAATAAACTTTCTTTTCTT
TCTTTTTTTTGTTAACAATTAAATTAAGTTTCTTAAATCTAAATTAAATAACTTAATTTAATTT
Found at i:61168361 original size:21 final size:19
Alignment explanation
Indices: 61168320--61168362 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
61168310 TTTAGTTAAC
**
61168320 AATCCTCATTTTTTGTCTA
1 AATCCTCATTTTTTGAATA
61168339 AATCCTTCGATTTTTTGAATA
1 AATCC-TC-ATTTTTTGAATA
61168360 AAT
1 AAT
61168363 TTTCAAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 2 0.10
21 13 0.65
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (19 bp):
AATCCTCATTTTTTGAATA
Found at i:61171632 original size:28 final size:28
Alignment explanation
Indices: 61171596--61171665 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
61171586 AATAAAAAAA
* *
61171596 TTACCAAAATGT-TATACATTTTTTTTAT
1 TTACCAAAATATATATA-AATTTTTTTAT
61171624 TTACCAAAATATATATAAATTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTAT
61171652 TTACCAAAATATAT
1 TTACCAAAATATAT
61171666 CAAAAAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 35 0.90
29 4 0.10
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAAATTTTTTTAT
Found at i:61171680 original size:10 final size:10
Alignment explanation
Indices: 61171667--61171699 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
61171657 AAAATATATC
61171667 AAAAAAAACA
1 AAAAAAAACA
61171677 AAAAAAAACA
1 AAAAAAAACA
61171687 GAAAAAAAA-A
1 -AAAAAAAACA
61171697 AAA
1 AAA
61171700 TCTGGATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 11 0.50
11 8 0.36
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:61171768 original size:27 final size:27
Alignment explanation
Indices: 61171728--61171860 Score: 203
Period size: 27 Copynumber: 4.9 Consensus size: 27
61171718 TTCCCTGGGT
*
61171728 CAAGGGAACACTGTTGGCGGCACCAAA
1 CAAGGGAACCCTGTTGGCGGCACCAAA
*
61171755 GAAGGGAACCCTGTTGGCGGCACCAAA
1 CAAGGGAACCCTGTTGGCGGCACCAAA
*
61171782 GAAGGGAACCCTGTTGGCGGCACCAAA
1 CAAGGGAACCCTGTTGGCGGCACCAAA
**
61171809 CAAGGGTTCCCTGTTGGCGGCACCAAA
1 CAAGGGAACCCTGTTGGCGGCACCAAA
**
61171836 CAAGGGTTCCCTGTTGGCGGCACCA
1 CAAGGGAACCCTGTTGGCGGCACCA
61171861 CTCATGTTAT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.14
Consensus pattern (27 bp):
CAAGGGAACCCTGTTGGCGGCACCAAA
Done.