Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 115 of 144
Found at i:35639287 original size:132 final size:132
Alignment explanation
Indices: 35639048--35640887 Score: 3168
Period size: 132 Copynumber: 13.9 Consensus size: 132
35639038 CTGCAACTGC
* * * * * * *
35639048 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACTAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TAGAATTACTGG
* ** *
35639111 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
35639176 GCTT
129 GCTT
* *
35639180 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCATGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
*
35639245 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35639310 TT
131 TT
** *
35639312 AGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
35639377 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35639442 TT
131 TT
*
35639444 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * * *
35639509 TCAATGTACTCCACTATAACCACAGGGAGGTAAAACCCGTCATCTCCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35639574 TT
131 TT
35639576 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* *
35639641 TCAATGTACTCCACTATAACCACAAGGAGGTAAAATCCACCATCTTCGATCTGCTCCAC-ACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35639705 TT
131 TT
* * *
35639707 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGTGAAGTAGAATTATTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * *
35639772 TCAATGTACTCCAATATAAACACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35639837 TT
131 TT
* *
35639839 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGACT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
35639904 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35639969 TT
131 TT
*
35639971 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
35640036 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35640101 TT
131 TT
35640103 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGG-AGATAGAATTACTGGC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TAGAATTACTGGC
35640167 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
35640232 CTT
130 CTT
35640235 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
35640300 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35640365 TT
131 TT
* *
35640367 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAAAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* * * *
35640432 TCAATGTAGTCCACTATAACCACAAGGAGGTAAAA-CCTGTCATCTCCGATCTGCTCCACTACTG
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCC-GCCATCTTCGATCTGCTCCACTACTG
35640496 CTT
130 CTT
35640499 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* *
35640564 TCAATGTACTCCACTATAACCATAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35640629 TT
131 TT
*
35640631 AGGGAGATAAGATCTGAAATTTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* *
35640696 TTAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
35640761 TT
131 TT
* * *
35640763 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCCAAGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
* *
35640828 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACT
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
35640888 GTCAATGCAG
Statistics
Matches: 1627, Mismatches: 74, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
131 129 0.08
132 1489 0.92
133 9 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:35642249 original size:5 final size:5
Alignment explanation
Indices: 35642248--35642291 Score: 65
Period size: 5 Copynumber: 9.0 Consensus size: 5
35642238 TTTTTTTGTT
35642248 TTTTG TTTTG TTTTG TTTTG TTTTTG TTTTG TTTT- TTTT- TTTTG
1 TTTTG TTTTG TTTTG TTTTG -TTTTG TTTTG TTTTG TTTTG TTTTG
35642292 AATCTGAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.22
5 24 0.65
6 5 0.14
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:35642256 original size:16 final size:15
Alignment explanation
Indices: 35642236--35642290 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
35642226 CCATTTTTGC
35642236 TTTTTTTTTGTTTTT
1 TTTTTTTTTGTTTTT
35642251 TGTTTTGTTTTGTTTTGT
1 T-TTTT-TTTTGTTTT-T
*
35642269 TTTTGTTTTGTTTTT
1 TTTTTTTTTGTTTTT
35642284 TTTTTTT
1 TTTTTTT
35642291 GAATCTGAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 8 0.23
16 13 0.37
17 12 0.34
18 2 0.06
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTGTTTTT
Found at i:35642288 original size:11 final size:11
Alignment explanation
Indices: 35642229--35642288 Score: 77
Period size: 11 Copynumber: 5.5 Consensus size: 11
35642219 GGCCTCTCCA
*
35642229 TTTTTGCTTTT
1 TTTTTGTTTTT
35642240 TTTTTGTTTTT
1 TTTTTGTTTTT
35642251 TGTTTTG-TTTT
1 T-TTTTGTTTTT
*
35642262 GTTTTGTTTTT
1 TTTTTGTTTTT
*
35642273 GTTTTGTTTTT
1 TTTTTGTTTTT
35642284 TTTTT
1 TTTTT
35642289 TTGAATCTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
10 5 0.11
11 34 0.77
12 5 0.11
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:35646124 original size:98 final size:98
Alignment explanation
Indices: 35645952--35646146 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
35645942 ACAATAAAAT
*
35645952 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
35646017 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
35646050 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
35646115 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
35646147 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:35647529 original size:23 final size:22
Alignment explanation
Indices: 35647486--35647543 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
35647476 AAAGGGTATC
* *
35647486 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
35647507 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
35647530 TACATATCATATCT
1 TACAAATCATATCT
35647544 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:35647546 original size:19 final size:19
Alignment explanation
Indices: 35647499--35647577 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 19
35647489 AAATTAAATC
*
35647499 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
35647519 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
35647541 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
35647562 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
35647578 TTCAAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 14 0.28
21 18 0.36
22 7 0.14
23 11 0.22
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:35647559 original size:21 final size:21
Alignment explanation
Indices: 35647533--35647576 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
35647523 CTAAGATTAC
35647533 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
35647554 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
35647575 AT
1 AT
35647577 CTTCAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:35647876 original size:15 final size:15
Alignment explanation
Indices: 35647824--35647879 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
35647814 ATATACTAAA
35647824 TTAATTTTTTCAATAC
1 TTAA-TTTTTCAATAC
* * * *
35647840 TAAAATATT-AATAT
1 TTAATTTTTCAATAC
35647854 TTAATTTTTCAATAC
1 TTAATTTTTCAATAC
*
35647869 TTATTTTTTCA
1 TTAATTTTTCA
35647880 TTTTATCAAC
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
14 10 0.33
15 17 0.57
16 3 0.10
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATTTTTCAATAC
Found at i:35662827 original size:27 final size:27
Alignment explanation
Indices: 35662786--35662847 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
35662776 TTAAGCAACA
* *
35662786 CCTTTGTGGCGAAATAAGAAA-GAGTAG
1 CCTTTGTGACAAAATAAGAAATGA-TAG
*
35662813 CCTTTGTGACAAAATATGAAATGATAG
1 CCTTTGTGACAAAATAAGAAATGATAG
*
35662840 CCTCTGTG
1 CCTTTGTG
35662848 GTGAATTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (27 bp):
CCTTTGTGACAAAATAAGAAATGATAG
Found at i:35674641 original size:50 final size:50
Alignment explanation
Indices: 35674576--35674862 Score: 265
Period size: 50 Copynumber: 5.6 Consensus size: 50
35674566 TCTTGTACTA
* * ** * *
35674576 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTG
* ** * * *
35674626 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCACATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTG
*
35674676 CCAACGCCATGTCCCAGACATGGTCTTACAT-AGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGA-GACCTCTCATCTCGGTG
* * * * *
35674726 CCAACGCTATGTCCCAGACATGGTCTTACATG-GAACATTTCATCTCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAG-ACCTCTCATCTCGGTG
* * * * *
35674776 CCAATGCCATCTCCCAGATATGGTCTTACATGGGATCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGA-C-CTC-TCATCTC---GGTG
*
35674832 CCAATGTCATGTCCCAGACA-GGTCTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
35674863 GGATCTCTTT
Statistics
Matches: 195, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
49 1 0.01
50 153 0.78
51 2 0.01
52 1 0.01
53 6 0.03
55 11 0.06
56 21 0.11
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTG
Found at i:35679245 original size:20 final size:20
Alignment explanation
Indices: 35679220--35679258 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
35679210 ATTCATACTG
35679220 AATATTCCAAGAACCGACTA
1 AATATTCCAAGAACCGACTA
35679240 AATATTCCAAGAACCGACT
1 AATATTCCAAGAACCGACT
35679259 GAACCTGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.21
Consensus pattern (20 bp):
AATATTCCAAGAACCGACTA
Found at i:35680169 original size:40 final size:39
Alignment explanation
Indices: 35680124--35680251 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
35680114 AAACAGGCTT
*
35680124 TTAGCGGTGTTTTGACAAAAACGCCACTAAAAATCGAGCA
1 TTAGCGGTGCTTT-ACAAAAACGCCACTAAAAATCGAGCA
* * *
35680164 TTAGCGGTGCTTTACATAAAACACCGCTAAAGATCGAGCA
1 TTAGCGGTGCTTTACA-AAAACGCCACTAAAAATCGAGCA
* **
35680204 TTAGCGGCGCTTT-CAGGAAAGTGCCACTAAAAAT-GAGCA
1 TTAGCGGTGCTTTACA--AAAACGCCACTAAAAATCGAGCA
35680243 TTAGCGGTG
1 TTAGCGGTG
35680252 TTTTTTGGAA
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
39 18 0.24
40 56 0.76
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (39 bp):
TTAGCGGTGCTTTACAAAAACGCCACTAAAAATCGAGCA
Found at i:35680409 original size:41 final size:41
Alignment explanation
Indices: 35680322--35680466 Score: 127
Period size: 41 Copynumber: 3.5 Consensus size: 41
35680312 GGGCTCTGAC
* * * *
35680322 GGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCT
1 GGCGTTTTT-AAAAAGCGCCGCTAATGCTCAGGGATTCAGAT
*
35680364 -GCGTTTTTAAAAATGCACCGCTAATGCTCAGGGATTCA-AT
1 GGCGTTTTTAAAAA-GCGCCGCTAATGCTCAGGGATTCAGAT
* * * *
35680404 GGCGTTTTCCAAGAAGCGCCGCTAATGCT-AGGGGATTTAG-C
1 GGCGTTTT-TAAAAAGCGCCGCTAATGCTCA-GGGATTCAGAT
*
35680445 CGCGTTTTTGAAAAAGCGCCGC
1 GGCGTTTTT-AAAAAGCGCCGC
35680467 AAAAACATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
40 7 0.08
41 73 0.87
42 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (41 bp):
GGCGTTTTTAAAAAGCGCCGCTAATGCTCAGGGATTCAGAT
Found at i:35680501 original size:20 final size:19
Alignment explanation
Indices: 35680473--35680514 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
35680463 CCGCAAAAAC
*
35680473 ATTTTATTTGTCTATTTACT
1 ATTTAATTTGTCTATTTA-T
*
35680493 ATTTAATTTGTTTATTTAT
1 ATTTAATTTGTCTATTTAT
35680512 ATT
1 ATT
35680515 AGTTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTAATTTGTCTATTTAT
Found at i:35681145 original size:21 final size:21
Alignment explanation
Indices: 35681120--35681171 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
35681110 TAGTAGTTCG
*
35681120 GGGTTTAGGGTTAGGGA-TTA
1 GGGTTTAGAGTTAGGGATTTA
* *
35681140 GAGGTTAAGAGTTAGTGATTTA
1 G-GGTTTAGAGTTAGGGATTTA
35681162 GGGTTTAGAG
1 GGGTTTAGAG
35681172 ATTTAGGGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.81
22 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (21 bp):
GGGTTTAGAGTTAGGGATTTA
Found at i:35681174 original size:15 final size:15
Alignment explanation
Indices: 35681151--35681180 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35681141 AGGTTAAGAG
*
35681151 TTAGTGATTTAGGGT
1 TTAGAGATTTAGGGT
35681166 TTAGAGATTTAGGGT
1 TTAGAGATTTAGGGT
35681181 CGGGTTAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
TTAGAGATTTAGGGT
Found at i:35683157 original size:24 final size:24
Alignment explanation
Indices: 35683115--35683174 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
35683105 AGAGACTACT
*
35683115 GTTATCTA-GTCTAAGTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
* *
35683138 TTTATCTATTTCTAATTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
35683162 GTTATCTATTTCT
1 GTTATCTATTTCT
35683175 GCCTTCAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 7 0.22
24 25 0.78
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (24 bp):
GTTATCTATTTCTAAGTTGTTTAA
Found at i:35685361 original size:43 final size:43
Alignment explanation
Indices: 35685262--35685525 Score: 260
Period size: 43 Copynumber: 6.2 Consensus size: 43
35685252 GAACCGTATT
**
35685262 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCA-GTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
** ** * *
35685304 TTTAGCAACGTTTGTGGGGTAAGCACCGCTAAAGTTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
* * *
35685347 TTTAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
* * * * * *
35685390 TTTAGCGGCGTTTGTGGAAAAAGTGCCGCTCAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
* ** * * *
35685433 TTTAACGGCGTTTGTGGGAAAAGCGCTACTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
* * * * * *
35685476 TTTAGCGGCGTTTTTGGGAAGAGAGCCGTTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
35685519 TTTAGCG
1 TTTAGCG
35685526 ACATTTAGTT
Statistics
Matches: 186, Mismatches: 35, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
42 30 0.16
43 156 0.84
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
Found at i:35685446 original size:86 final size:86
Alignment explanation
Indices: 35685262--35685525 Score: 307
Period size: 86 Copynumber: 3.1 Consensus size: 86
35685252 GAACCGTATT
** * * ** **
35685262 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCA-GTTCTTTAGCAACGTTTGTGGGGTAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAA
* *
35685326 GCA-CCGCTAAAGTTCATGTTC
66 G-AGCCGCTAAAGGTCATGGTC
* *
35685347 TTTAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAA
* * *
35685412 GTGCCGCTCAAGGTCTTGGTC
66 GAGCCGCTAAAGGTCATGGTC
* ** * * *
35685433 TTTAACGGCGTTTGTGGGAAAAGCGCTACTAAAGGTCTTGGTCTTTAGCGGCGTTTTTGGGAAGA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAA
*
35685498 GAGCCGTTAAAGGTCATGGTC
66 GAGCCGCTAAAGGTCATGGTC
35685519 TTTAGCG
1 TTTAGCG
35685526 ACATTTAGTT
Statistics
Matches: 149, Mismatches: 28, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
85 34 0.23
86 115 0.77
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAA
GAGCCGCTAAAGGTCATGGTC
Found at i:35686019 original size:50 final size:50
Alignment explanation
Indices: 35685965--35686183 Score: 231
Period size: 50 Copynumber: 4.3 Consensus size: 50
35685955 TATCTTAGAT
** * * *
35685965 ATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAAC
** * * * *
35686015 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAAC
* * * *
35686065 ATGATCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAAAC
1 ATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAAC
* *
35686115 ATGGTCTTACATGAGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACATGAGACCTCTCAT-A--T--A-GGTGCCAACGCCATGTCCCAAAC
35686171 ATGGTCTTACATG
1 ATGGTCTTACATG
35686184 GGATCTCTTT
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
50 108 0.76
53 1 0.01
56 34 0.24
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAAAC
Found at i:35694356 original size:14 final size:13
Alignment explanation
Indices: 35694315--35694360 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
35694305 GAGCTCGCAT
* *
35694315 AAAACATATCTTT
1 AAAACATAACTTG
35694328 AAAACATAACTTG
1 AAAACATAACTTG
*
35694341 AAAACTTAACCTTG
1 AAAACATAA-CTTG
35694355 AAAACA
1 AAAACA
35694361 AATATCAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.26
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:35695099 original size:53 final size:54
Alignment explanation
Indices: 35694953--35695115 Score: 274
Period size: 54 Copynumber: 3.0 Consensus size: 54
35694943 CTGGTTTGCT
*
35694953 AAATAGACTGGTGAACCCCCAGTCGACACCTTACCTGGAGAACATCGGTTCACC
1 AAATAGACTGGTGAACCCCCAGTCGACACCTTACCTGGAGAACACCGGTTCACC
* *
35695007 AAATAGACTGGTGAACCCCCAGTCGACACTTTACCTGGAGAACACCGGTTCGCC
1 AAATAGACTGGTGAACCCCCAGTCGACACCTTACCTGGAGAACACCGGTTCACC
* *
35695061 AAATAGACTGG-GAACCCCCAATCGACACCTTACCTGGAGAACACCGGTTTACC
1 AAATAGACTGGTGAACCCCCAGTCGACACCTTACCTGGAGAACACCGGTTCACC
35695114 AA
1 AA
35695116 CTACACTAGC
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 40 0.39
54 62 0.61
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (54 bp):
AAATAGACTGGTGAACCCCCAGTCGACACCTTACCTGGAGAACACCGGTTCACC
Found at i:35696902 original size:22 final size:22
Alignment explanation
Indices: 35696877--35696920 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
35696867 TCTAATACTC
*
35696877 CTTTAGGTTGTACTAACGACCT
1 CTTTAGGTTGTACTAACCACCT
35696899 CTTTAGGTTGTACTAACCACCT
1 CTTTAGGTTGTACTAACCACCT
35696921 ATCGGCTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (22 bp):
CTTTAGGTTGTACTAACCACCT
Found at i:35698359 original size:147 final size:146
Alignment explanation
Indices: 35698093--35698385 Score: 541
Period size: 147 Copynumber: 2.0 Consensus size: 146
35698083 CCACTGGCAA
* *
35698093 GAGTTCATCGCCATGTTTTCTATCGTTTCATATGCGTCCTCATATGTCCTATTCATAAAGCTCCT
1 GAGTTCATCGCCATGTTTTCTATCATTTCATATGCGTCCTCATATGTCCAATTCATAAAGCTCCT
*
35698158 CCTGTTGCTCTATCTAACCCAGACTGTGCATATGCATCCAACTCATTATAAAATATCTACAATCG
66 CCTGTTGCTCTATCTAACCCAGACTGTGCATATGCATCCAAATCATTATAAAATATCTACAATCG
35698223 TATCCACTCAGGAAGT
131 TATCCACTCAGGAAGT
*
35698239 GAGTTCATTGCCATGTTTTCTATCATTTCATATGCGTCCTCATATGTCCAATTCATTAAAGCTCC
1 GAGTTCATCGCCATGTTTTCTATCATTTCATATGCGTCCTCATATGTCCAATTCA-TAAAGCTCC
35698304 TCCTGTTGCTCTATCTAACCCAGACTGTGCATATGCATCCAAATCATTATAAAATATCTACAATC
65 TCCTGTTGCTCTATCTAACCCAGACTGTGCATATGCATCCAAATCATTATAAAATATCTACAATC
35698369 GTATCCACTCAGGAAGT
130 GTATCCACTCAGGAAGT
35698386 CCGTGGTGTG
Statistics
Matches: 142, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
146 52 0.37
147 90 0.63
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (146 bp):
GAGTTCATCGCCATGTTTTCTATCATTTCATATGCGTCCTCATATGTCCAATTCATAAAGCTCCT
CCTGTTGCTCTATCTAACCCAGACTGTGCATATGCATCCAAATCATTATAAAATATCTACAATCG
TATCCACTCAGGAAGT
Found at i:35723937 original size:23 final size:23
Alignment explanation
Indices: 35723906--35723956 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
35723896 ACCTACTTTC
* * *
35723906 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
35723929 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
35723952 TTACA
1 TTACA
35723957 TTTCTCTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:35725492 original size:50 final size:50
Alignment explanation
Indices: 35725431--35725625 Score: 266
Period size: 50 Copynumber: 3.9 Consensus size: 50
35725421 GATAACAACA
* *
35725431 TGCCAAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCCCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCCCGG
* * *
35725481 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTATCATCTCC-G
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATC-CCGG
* * * *
35725531 TGCCAACGCCATGTCCCATACATGGTCTTACGTCGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCCCGG
* * *
35725581 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGATCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT
35725626 AATCTCAATG
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 123 0.98
51 2 0.02
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.24
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCCCGG
Found at i:35725604 original size:100 final size:100
Alignment explanation
Indices: 35725431--35725667 Score: 312
Period size: 100 Copynumber: 2.3 Consensus size: 100
35725421 GATAACAACA
*
35725431 TGCCAAAGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCCCGGTGCCAACGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACGGCGGACCTCTCATCCCGGTGCCAACGCCATGTC
35725496 CCAAACATGGTCTTACATGGGACCTATCATCTCCG
66 CCAAACATGGTCTTACATGGGACCTATCATCTCCG
* * * * *
35725531 TGCCAACGCCATGTCCCATACATGGTCTTACGTCGGACCTCTCGTCTCGGTGCCAACGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACGGCGGACCTCTCATCCCGGTGCCAACGCCATGTC
* * * *
35725596 CCAGACATGGTCTTACATGAGATCTCTCATAATCTCAATG
66 CCAAACATGGTCTTACATGGGA-C-CT-ATCATCTC--CG
* *
35725636 ATGCCAATGCCATGTCCCAGACATGATCTTAC
1 -TGCCAAAGCCATGTCCCAGACATGGTCTTAC
35725668 ACTGGCTCAC
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
100 79 0.67
101 1 0.01
102 2 0.02
103 7 0.06
105 1 0.01
106 28 0.24
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (100 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACGGCGGACCTCTCATCCCGGTGCCAACGCCATGTC
CCAAACATGGTCTTACATGGGACCTATCATCTCCG
Found at i:35728720 original size:23 final size:23
Alignment explanation
Indices: 35728689--35728736 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
35728679 ACCTACTTTC
* *
35728689 TTACTGTAGTAATTTTTAGGGTA
1 TTACAGTAGTAATTTTCAGGGTA
*
35728712 TTACAGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCAGGGTA
35728735 TT
1 TT
35728737 GGACATCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGGTA
Found at i:35729150 original size:52 final size:52
Alignment explanation
Indices: 35729086--35729190 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
35729076 TTTCAAGTAC
*
35729086 TAATTAGCTCTATTTATACTTAGGTTAGGATTAATTTAGTATTATCCTCCCT
1 TAATTACCTCTATTTATACTTAGGTTAGGATTAATTTAGTATTATCCTCCCT
* *
35729138 TAATTACCTCTATTTATGCTTAGGTTAGGATTAATTTAGTATTCTCCTCCCT
1 TAATTACCTCTATTTATACTTAGGTTAGGATTAATTTAGTATTATCCTCCCT
35729190 T
1 T
35729191 GGGTATGATC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (52 bp):
TAATTACCTCTATTTATACTTAGGTTAGGATTAATTTAGTATTATCCTCCCT
Found at i:35735034 original size:50 final size:51
Alignment explanation
Indices: 35734978--35735103 Score: 150
Period size: 50 Copynumber: 2.5 Consensus size: 51
35734968 GATGGTCATG
* * *
35734978 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGT-ATAGATCACA
* * * * *
35735028 TGTGTAGTACTATGTGCAGGCTA-TATGCGTACCTGATAGTTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGTATAGATCACA
35735078 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
35735104 TGTGAACCGA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
49 10 0.15
50 52 0.80
51 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGTATAGATCACA
Found at i:35740083 original size:18 final size:18
Alignment explanation
Indices: 35740060--35740097 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
35740050 TTTTAAAATA
35740060 TTTATTTTTA-GTTCTATT
1 TTTATTTTTATGTTC-ATT
35740078 TTTATTTTTATGTTCATT
1 TTTATTTTTATGTTCATT
35740096 TT
1 TT
35740098 CATTCTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTATTTTTATGTTCATT
Found at i:35740940 original size:40 final size:40
Alignment explanation
Indices: 35740886--35740994 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 40
35740876 CGTTTGGACA
*
35740886 AAAAACACCACTAAAAATCAAGCATTAGCGACAC-TTTTAC
1 AAAAACGCCACTAAAAATCAAGCATTAGCGACACATTTT-C
* * * * * *
35740926 AAAAATGCCACTAAAGATCGAGCATTAGCGGCTCATTTTG
1 AAAAACGCCACTAAAAATCAAGCATTAGCGACACATTTTC
* *
35740966 GAAAACGCCGCTAAAAAT-AAGCATTAGCG
1 AAAAACGCCACTAAAAATCAAGCATTAGCG
35740995 GCGTTTTCCA
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
39 10 0.18
40 42 0.75
41 4 0.07
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (40 bp):
AAAAACGCCACTAAAAATCAAGCATTAGCGACACATTTTC
Found at i:35741128 original size:41 final size:41
Alignment explanation
Indices: 35741062--35741157 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
35741052 TTTTGGGGCA
35741062 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTACC
* * *
35741103 TTTAACGGTGTTTTTGAAGAAGCGCCGCTAATGCTCGTACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTACC
35741144 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
35741158 AGCAGCGTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTACC
Found at i:35742299 original size:13 final size:13
Alignment explanation
Indices: 35742281--35742314 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
35742271 TTTGAGTTCA
*
35742281 AGGTTTAGGGTTT
1 AGGTTTAAGGTTT
35742294 AGGTTTAAGGTTT
1 AGGTTTAAGGTTT
35742307 AGAGTTTA
1 AG-GTTTA
35742315 CATTTTAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (13 bp):
AGGTTTAAGGTTT
Found at i:35742728 original size:12 final size:11
Alignment explanation
Indices: 35742711--35742811 Score: 60
Period size: 10 Copynumber: 9.8 Consensus size: 11
35742701 CGTGATTTAA
35742711 AATTTTAAAATG
1 AATTTTAAAA-G
35742723 AATTTTAAAAG
1 AATTTTAAAAG
35742734 -ATTTT-AAA-
1 AATTTTAAAAG
**
35742742 TTTTTTAAAA-
1 AATTTTAAAAG
35742752 AATTTTAAAA-
1 AATTTTAAAAG
35742762 AGATTTT-AAA-
1 A-ATTTTAAAAG
**
35742772 TTTTTTAAAA-
1 AATTTTAAAAG
*
35742782 ATTTTTAAAA-
1 AATTTTAAAAG
35742792 AATTTTAAAA-
1 AATTTTAAAAG
35742802 AGATTTTAAA
1 A-ATTTTAAA
35742812 CTTTTATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
9 11 0.14
10 42 0.55
11 14 0.18
12 10 0.13
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (11 bp):
AATTTTAAAAG
Found at i:35742737 original size:29 final size:28
Alignment explanation
Indices: 35742704--35742801 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 28
35742694 TATTTTTCGT
35742704 GATTTAAAATTTTAAAATGAATTTT-AAAA
1 GATTTAAAATTTTAAAA--AATTTTAAAAA
*
35742733 GATTTTAAATTTTTTAAAAAATTTTAAAAA
1 GA-TTTAAA-ATTTTAAAAAATTTTAAAAA
* *
35742763 GATTTTAAATTTTTTAAAAATTTTTAAAAA
1 GA-TTTAAA-ATTTTAAAAAATTTTAAAAA
35742793 -ATTTTAAAA
1 GA-TTTAAAA
35742802 AGATTTTAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
29 16 0.25
30 39 0.62
31 8 0.13
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
GATTTAAAATTTTAAAAAATTTTAAAAA
Found at i:35742763 original size:30 final size:30
Alignment explanation
Indices: 35742713--35742800 Score: 135
Period size: 30 Copynumber: 2.9 Consensus size: 30
35742703 TGATTTAAAA
35742713 TTTTAAAATGAATTTT-AAAAGATTTTAAATT
1 TTTTAAAA--AATTTTAAAAAGATTTTAAATT
35742744 TTTTAAAAAATTTTAAAAAGATTTTAAATT
1 TTTTAAAAAATTTTAAAAAGATTTTAAATT
*
35742774 TTTTAAAAATTTTTAAAAA-ATTTTAAA
1 TTTTAAAAAATTTTAAAAAGATTTTAAA
35742801 AAGATTTTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
29 14 0.25
30 33 0.60
31 8 0.15
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTTAAAAAATTTTAAAAAGATTTTAAATT
Found at i:35742787 original size:40 final size:39
Alignment explanation
Indices: 35742709--35742816 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 39
35742699 TTCGTGATTT
* ** *
35742709 AAAATTTTAAAATGAATTTTAAAAGATTTTAAATTTTTTAA
1 AAAATTTTAAAAAG-ATTTT-AAACTTTTTAAAATTTTTAA
*
35742750 AAAATTTTAAAAAGATTTTAAATTTTTTAAAAATTTTTAA
1 AAAATTTTAAAAAGATTTTAAACTTTTT-AAAATTTTTAA
35742790 AAAATTTTAAAAAGATTTTAAACTTTT
1 AAAATTTTAAAAAGATTTTAAACTTTT
35742817 ATTTTTATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
39 7 0.11
40 41 0.67
41 13 0.21
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (39 bp):
AAAATTTTAAAAAGATTTTAAACTTTTTAAAATTTTTAA
Found at i:35747333 original size:43 final size:43
Alignment explanation
Indices: 35747242--35747654 Score: 311
Period size: 43 Copynumber: 9.6 Consensus size: 43
35747232 ATAATTTTTT
* * * *
35747242 TAAAGGTTATG-TTTTTAGCGGCGTTTTTGCG-AGAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTG-GAAAAAGCGCCGC
* * * * *
35747284 TAAAGGT-TTGTTCTTTACCGGCGTTTGTGATAAAAAGCGCCAC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTG-GAAAAAGCGCCGC
* *
35747327 TAAAGGTCATGATCTTTAGCGGCATTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
* * * *
35747370 TAAAGGTCATGGTCTATAGCGGCGTTTGTGGCAAAAGCGTCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
* * * * *
35747413 TAAAGGTCGTGGT-TTATAGCAGCGTTTGTGGGAAAAGCGCTGC
1 TAAAGGTCATGATCTT-TAGCGGCGTTTGTGGAAAAAGCGCCGC
* * * * **
35747456 TAAAGGTCGTGGTCTATAGCGGCGTTTGTGGGAAAAGCATCG-
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
* * * * * *
35747498 TAAAAGGTCGTGGTCTATAGCGGTGTTTGTGGGAAAAGCGTCGC
1 T-AAAGGTCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
* * * ** *
35747542 TAAAGGTCGTGGTCTATAGCGGCGCTTTCAGG-AAAAGCGCTGC
1 TAAAGGTCATGATCTTTAGCGGCG-TTTGTGGAAAAAGCGCCGC
* ** * * *
35747585 CAAAGGTCGCGGTCTATAGCGGCGTTTG-CGAGAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGA-AAAAGCGCCGC
35747628 TAAAGGTCATGA-CTTTTAGCGGCGTTT
1 TAAAGGTCATGATC-TTTAGCGGCGTTT
35747655 ATTTCTAAAA
Statistics
Matches: 312, Mismatches: 48, Indels: 21
0.82 0.13 0.06
Matches are distributed among these distances:
41 3 0.01
42 28 0.09
43 256 0.82
44 25 0.08
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
Found at i:35747373 original size:86 final size:85
Alignment explanation
Indices: 35747242--35747638 Score: 390
Period size: 86 Copynumber: 4.6 Consensus size: 85
35747232 ATAATTTTTT
* * * * * * * * *
35747242 TAAAGGTTAT-GTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGT-TTGTTCTTTACCGG
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGG
* *
35747305 CGTTTGTGATAAAAAGCGCCAC
66 CGTTTGTG-GAAAAAGCGTC-C
* *
35747327 TAAAGGTCATGATCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGG
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGG
*
35747392 CGTTTGTGGCAAAAGCGTCGC
66 CGTTTGTGGAAAAAGCGTC-C
* * * *
35747413 TAAAGGTCGTGGT-TTATAGCAGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCGTGGTCTATAGCG
1 TAAAGGTCATGGTCTT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCG
* * *
35747477 GCGTTTGTGGGAAAAGCATCG
65 GCGTTTGTGGAAAAAGCGTCC
* * * * *
35747498 TAAAAGGTCGTGGTCTATAGCGGTGTTTGTGGGAAAAGCGTCGCTAAAGGTCGTGGTCTATAGCG
1 T-AAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCG
**
35747563 GCGCTTTCAGG-AAAAGCGCTGCC
65 GCG-TTTGTGGAAAAAGCG-T-CC
** * * *
35747586 -AAAGGTCGCGGTCTATAGCGGCGTTTGCGAGAAAAGCGCCGCTAAAGGTCATG
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
35747639 ACTTTTAGCG
Statistics
Matches: 265, Mismatches: 39, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
85 12 0.05
86 227 0.86
87 25 0.09
88 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (85 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGG
CGTTTGTGGAAAAAGCGTCC
Found at i:35747451 original size:129 final size:129
Alignment explanation
Indices: 35747316--35747638 Score: 443
Period size: 129 Copynumber: 2.5 Consensus size: 129
35747306 GTTTGTGATA
** * * * *
35747316 AAAAGCGCCACTAAAGGTCATGATCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATG
1 AAAAGCGCTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
* **
35747381 GTCTATAGCGGCGTTTGTGGCAAAAGCGTCGCTAAAGGTCGTGGTTTATAGCAGCG-TTTGTGGG
66 GTCTATAGCGGCGTTTGTGGCAAAAGCGTCGCTAAAGGTCGTGGTCTATAGCAGCGCTTT-CAGG
** *
35747445 AAAAGCGCTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTGGGAAAAGCATCG-TAAAAGGTCGT
1 AAAAGCGCTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGGTCAT
* * *
35747509 GGTCTATAGCGGTGTTTGTGGGAAAAGCGTCGCTAAAGGTCGTGGTCTATAGCGGCGCTTTCAGG
65 GGTCTATAGCGGCGTTTGTGGCAAAAGCGTCGCTAAAGGTCGTGGTCTATAGCAGCGCTTTCAGG
* * * *
35747574 AAAAGCGCTGCCAAAGGTCGCGGTCTATAGCGGCGTTTGCGAGAAAAGCGCCGCTAAAGGTCATG
1 AAAAGCGCTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
35747639 ACTTTTAGCG
Statistics
Matches: 169, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
128 1 0.01
129 164 0.97
130 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (129 bp):
AAAAGCGCTGCTAAAGGTCGTGGTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
GTCTATAGCGGCGTTTGTGGCAAAAGCGTCGCTAAAGGTCGTGGTCTATAGCAGCGCTTTCAGG
Found at i:35749348 original size:20 final size:20
Alignment explanation
Indices: 35749324--35749389 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
35749314 CACATATGTG
35749324 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
* ** * * *
35749344 TCCCTGAATGCACATACG-TG
1 CCCCTGTTTGTAC-TTCGATA
35749364 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
35749384 CCCCTG
1 CCCCTG
35749390 AATGCACATA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGATA
Found at i:35749350 original size:40 final size:40
Alignment explanation
Indices: 35749306--35749524 Score: 291
Period size: 40 Copynumber: 5.5 Consensus size: 40
35749296 ATAACTATTA
*
35749306 CCTGAATGCACATATGTGCCCCTGTTTGTACTTCGATATC
1 CCTGAATGCACATACGTGCCCCTGTTTGTACTTCGATATC
*
35749346 CCTGAATGCACATACGTGCCCCTGTTTGTACTTCGATACC
1 CCTGAATGCACATACGTGCCCCTGTTTGTACTTCGATATC
* *
35749386 CCTGAATGCACATACGTGCCACTGTTTGTACTCCGATATC
1 CCTGAATGCACATACGTGCCCCTGTTTGTACTTCGATATC
* * * *
35749426 CCTGAACT-CACAGACATGCCCCTGTTTGCACTTC-AGTATG
1 CCTGAA-TGCACATACGTGCCCCTGTTTGTACTTCGA-TATC
* *
35749466 CCTGAATGCACATATGTGCCCCTGTTTGTACTTTGATA-C
1 CCTGAATGCACATACGTGCCCCTGTTTGTACTTCGATATC
*
35749505 CTCTGAATGCATATACGTGC
1 C-CTGAATGCACATACGTGC
35749525 TCATGATTGT
Statistics
Matches: 155, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 150 0.97
41 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (40 bp):
CCTGAATGCACATACGTGCCCCTGTTTGTACTTCGATATC
Found at i:35754441 original size:26 final size:26
Alignment explanation
Indices: 35754397--35754446 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
35754387 TGAAGAGGGC
* **
35754397 CCATTTCACAGCTTGTGTGAGCAAGT
1 CCATTTCACAACTCATGTGAGCAAGT
35754423 CCATTTCACAACTCATGTGAGCAA
1 CCATTTCACAACTCATGTGAGCAA
35754447 CGATGTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (26 bp):
CCATTTCACAACTCATGTGAGCAAGT
Found at i:35757607 original size:43 final size:43
Alignment explanation
Indices: 35757559--35757829 Score: 386
Period size: 43 Copynumber: 6.3 Consensus size: 43
35757549 GCGTCGATAA
**
35757559 CTTTAGCGGCGTCTTTT-CCA-AAAGCGCCGCTAAAGGTCATGAC
1 CTTTAGCGGCG-CTTTTCCCACAAA-CGCCGCTAAAGACCATGAC
*
35757602 CTTTAGCGGCAC-TTTCCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* *
35757644 CTTTAGCGGCGCTTTTACCACAACCGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
35757687 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
35757730 CTTTAGCGGCGCTTTTTCGACAAACGCCGCTAAAGACCCTGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
35757773 CTTTAGCGACGCTTTTCCCAAAAATGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* *
35757816 CTGTAGCGACGCTT
1 CTTTAGCGGCGCTT
35757830 AAACAACAAA
Statistics
Matches: 207, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
41 3 0.01
42 32 0.15
43 172 0.83
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
Found at i:35757788 original size:129 final size:128
Alignment explanation
Indices: 35757559--35757890 Score: 384
Period size: 129 Copynumber: 2.6 Consensus size: 128
35757549 GCGTCGATAA
** * * *
35757559 CTTTAGCGGCGTCTTTTCCA-AAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCAC-TTTCCCAC
1 CTTTAGCGGCG-CTTTTCCACAAA-CGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCAAC
* * *
35757622 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTACCACAACCGCCGCTAAAGACCATGAC
64 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTACCAAAAACGCCGCTAAAGACCATGAC
* *
35757687 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCGACA
1 CTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCAACA
* * *
35757752 AACGCCGCTAAAGACCCTGACCTTTAGCGACGCTTTTCCCAAAAATGCCGCTAAAGACCATGAC
65 AACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTACCAAAAACGCCGCTAAAGACCATGAC
* * ** * * * * **
35757816 CTGTAGCGACGCTTAAACAACAAACGCCAC-AATGAAGATGAGTTTTAGCGGCGCTTTTT-AACA
1 CTTTAGCGGCGCTT-TTCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCAACA
*
35757879 AACACCGCTAAA
65 AACGCCGCTAAA
35757891 ACATGGCTTT
Statistics
Matches: 176, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
127 19 0.11
128 66 0.38
129 91 0.52
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (128 bp):
CTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCAACAA
ACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTACCAAAAACGCCGCTAAAGACCATGAC
Found at i:35762860 original size:38 final size:39
Alignment explanation
Indices: 35762817--35762901 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
35762807 TGGGCCTAGT
*
35762817 TTTTTTGCGGCGCTTTTCT-AAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCG-TTTTCTGAAAAACGCCACTAATGCTCA
* * ** *
35762856 TTTTTAGTGGCGTTTTCTGAAAAGCGCTGCTAATGCTTA
1 TTTTTAGCGGCGTTTTCTGAAAAACGCCACTAATGCTCA
35762895 TTTTTAG
1 TTTTTAG
35762902 TGATTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 6 0.15
39 33 0.85
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCTGAAAAACGCCACTAATGCTCA
Found at i:35763568 original size:16 final size:17
Alignment explanation
Indices: 35763535--35763573 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
35763525 AAGAACACTA
35763535 TATTTAATATATTAAAT
1 TATTTAATATATTAAAT
35763552 TATTTAATATA-TAAAT
1 TATTTAATATATTAAAT
35763568 TATTTA
1 TATTTA
35763574 TAAAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTAATATATTAAAT
Found at i:35763697 original size:7 final size:7
Alignment explanation
Indices: 35763681--35763826 Score: 50
Period size: 7 Copynumber: 20.9 Consensus size: 7
35763671 ACTAATTAAT
35763681 CTAAACC
1 CTAAACC
*
35763688 CTAAATC
1 CTAAACC
35763695 CTAAACCC
1 CTAAA-CC
*
35763703 CT-AACT
1 CTAAACC
*
35763709 CTTAACC
1 CTAAACC
*
35763716 CTCAACC
1 CTAAACC
35763723 CTTAAACC
1 C-TAAACC
*
35763731 TTAAACC
1 CTAAACC
*
35763738 C-CAACC
1 CTAAACC
* *
35763744 CTTAA-T
1 CTAAACC
35763750 CTATAACC
1 CTA-AACC
*
35763758 TTAAACC
1 CTAAACC
* *
35763765 ATAAATCG
1 CTAAA-CC
35763773 C--AACC
1 CTAAACC
35763778 CTTAAACC
1 C-TAAACC
*
35763786 CTAAATC
1 CTAAACC
*
35763793 TTAAACC
1 CTAAACC
* *
35763800 ATAAACT
1 CTAAACC
*
35763807 GTAAACC
1 CTAAACC
* *
35763814 ATAACCC
1 CTAAACC
35763821 CTAAAC
1 CTAAAC
35763827 TCATAATCCA
Statistics
Matches: 100, Mismatches: 29, Indels: 20
0.67 0.19 0.13
Matches are distributed among these distances:
5 2 0.02
6 12 0.12
7 70 0.70
8 16 0.16
ACGTcount: A:0.40, C:0.36, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:35763722 original size:21 final size:20
Alignment explanation
Indices: 35763698--35763757 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
35763688 CTAAATCCTA
*
35763698 AACCCCTAACTCTTAACCCTC
1 AACCCTTAACTCTTAACCC-C
35763719 AACCCTTAAAC-CTTAAACCCC
1 AACCCTT-AACTCTT-AACCCC
35763740 AACCCTTAA-TCTATAACC
1 AACCCTTAACTCT-TAACC
35763758 TTAAACCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 8 0.24
21 18 0.53
22 8 0.24
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (20 bp):
AACCCTTAACTCTTAACCCC
Found at i:35763847 original size:22 final size:23
Alignment explanation
Indices: 35763822--35763872 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
35763812 CCATAACCCC
35763822 TAAACTCA-TAA-TCCATAAACCT
1 TAAACTCAGTAACTCC-TAAACCT
*
35763844 TAAAAT-AGTAACTCCTAAACCT
1 TAAACTCAGTAACTCCTAAACCT
35763866 TAAACTC
1 TAAACTC
35763873 TAAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAACTCAGTAACTCCTAAACCT
Found at i:35764187 original size:19 final size:20
Alignment explanation
Indices: 35764161--35764206 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
35764151 ATAGAATTTT
35764161 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
35764179 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
35764199 AATAAAAT
1 AATTAAAT
35764207 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:35764270 original size:41 final size:41
Alignment explanation
Indices: 35764213--35764446 Score: 351
Period size: 41 Copynumber: 5.7 Consensus size: 41
35764203 AAATGTTTTT
35764213 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
35764254 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCTTTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
35764295 GCGGCGCTTTCCCAGAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * * *
35764336 GCGGCGCTTCTCCAAAAATGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
35764377 GCGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* ** *
35764418 GCAGCGCTTTTATAAAAACGCCTCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
35764447 CCCCGAAAGG
Statistics
Matches: 173, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 173 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:35764485 original size:38 final size:40
Alignment explanation
Indices: 35764442--35764516 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
35764432 AAAACGCCTC
*
35764442 TAAAGC-CC-CGAAAGGTCGATCTTTAGCGGCGTTTTATT
1 TAAAGCGCCGCGAAAGCTCGATCTTTAGCGGCGTTTTATT
* * *
35764480 TAAAGCGCCGCTAATGCTCGATTTTTAGCGGCGTTTT
1 TAAAGCGCCGCGAAAGCTCGATCTTTAGCGGCGTTTT
35764517 TTACCCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 6 0.19
39 2 0.06
40 23 0.74
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (40 bp):
TAAAGCGCCGCGAAAGCTCGATCTTTAGCGGCGTTTTATT
Found at i:35765836 original size:40 final size:40
Alignment explanation
Indices: 35765781--35766077 Score: 382
Period size: 40 Copynumber: 7.4 Consensus size: 40
35765771 AATTATTGCT
* *
35765781 TGAATGCACATACGTGCCCCTTTTTCTACTTCGATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* * *
35765821 TGAATGCACACACGTGCCCCTGTTTATACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* * **
35765861 TAAATGCACATACATGCTGCTGTTTGTACTTC-AGTACCCTC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGA-TACCC-C
*
35765902 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
*
35765942 TGAATGCACAT-CGTGCCCCTGTTTGTACTTCGATACCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* * *
35765981 TGAATGCACATATGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* * ***
35766021 TGAATGCACATATGCGCCCCTGTTTGTACTTCGATACTTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
*
35766061 TGAATGCATATACGTGC
1 TGAATGCACATACGTGC
35766078 TCGCTCGATA
Statistics
Matches: 222, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
39 37 0.17
40 151 0.68
41 34 0.15
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
Found at i:35787190 original size:21 final size:20
Alignment explanation
Indices: 35787164--35787204 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
35787154 GATTTAGAAA
* *
35787164 TTATTATTAATTTTATTGTTT
1 TTATTATAAATTCTA-TGTTT
35787185 TTATTATAAATTCTATGTTT
1 TTATTATAAATTCTATGTTT
35787205 GAATATGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATTATAAATTCTATGTTT
Found at i:35787570 original size:19 final size:19
Alignment explanation
Indices: 35787529--35787570 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
35787519 TTTCAAAAAG
**
35787529 AAAAAATAAAAATAATTTT
1 AAAAAATAAAAATAATTCC
35787548 AAAAATATAAAAAT-ATTCC
1 AAAAA-ATAAAAATAATTCC
35787567 AAAA
1 AAAA
35787571 TTCAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAATAAAAATAATTCC
Found at i:35788297 original size:25 final size:27
Alignment explanation
Indices: 35788260--35788314 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
35788250 TGAACCAGTT
35788260 TTTTTATAATTTT-ATAATATC-TTTTA
1 TTTTTATAATTTTAATAAT-TCATTTTA
*
35788286 TTTTTAT-TTTTTAATAATTCATTTTA
1 TTTTTATAATTTTAATAATTCATTTTA
35788312 TTT
1 TTT
35788315 GAACTAGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTTATAATTTTAATAATTCATTTTA
Found at i:35791455 original size:106 final size:106
Alignment explanation
Indices: 35791149--35791580 Score: 670
Period size: 106 Copynumber: 4.1 Consensus size: 106
35791139 ATAACATGGA
* *
35791149 TTGAAA-TTTAAGAGGATATTTGGCTATTTGGTTGAACGAGAAATAGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
* * *
35791213 CACGTTTTCTCAAATTTCCAAACGCAAAATATTACCTTGCT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACT
*
35791254 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCG-AACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
* * * *
35791318 CACGTTTTCTTGATTTTCCAAATGCAAAATATTGCCTTACG
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACT
*
35791359 TTCAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
35791424 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACT
* * * * * *
35791465 TTGAAATTTTAAAAGGATATTTGGGTATTTGGTCGAATGAGAAATCGAAAACCAGCATGTTAGGC
1 TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
* * *
35791530 CACGTTTTCTCGATTTTCCAAATGCAAAATATTGTCTTACT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACT
35791571 TTGAAATTTT
1 TTGAAATTTT
35791581 TGAATTAGAA
Statistics
Matches: 299, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
105 102 0.34
106 197 0.66
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (106 bp):
TTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATAGAAACCCAGCACGTTAGGG
CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACT
Found at i:35793575 original size:67 final size:66
Alignment explanation
Indices: 35793438--35793575 Score: 161
Period size: 66 Copynumber: 2.1 Consensus size: 66
35793428 AGGTGGCCTC
* * * * * * *
35793438 CTTCAGTCCACTGTGTCTTGTTACTTCGATCCATTCCATTGCACTTCAGAGAGATACAGCTTGTA
1 CTTCAATCCACCGCGTCTTCTTACTTCGATCCACTCCACTGCACTTCAGAGAGATACAGCTGGTA
35793503 G
66 G
* *
35793504 CTTCAATCCACCGCGTCTTCTTCCTTCGATTCACTCCACTGCAACTTCAGAGAGATAC-GACTGG
1 CTTCAATCCACCGCGTCTTCTTACTTCGATCCACTCCACTGC-ACTTCAGAGAGATACAG-CTGG
*
35793568 TAT
64 TAG
35793571 CTTCA
1 CTTCA
35793576 GCCTGCTCCA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 35 0.58
67 25 0.42
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.33
Consensus pattern (66 bp):
CTTCAATCCACCGCGTCTTCTTACTTCGATCCACTCCACTGCACTTCAGAGAGATACAGCTGGTA
G
Found at i:35793869 original size:129 final size:129
Alignment explanation
Indices: 35793665--35794303 Score: 879
Period size: 129 Copynumber: 5.0 Consensus size: 129
35793655 GGATTCATCA
* * * ** * * *
35793665 TTTTAATCCGCTCCATTACAGCTTCAGGGAGATAGGATT-AATAGCTT-TAATCTGCTCCGCTGC
1 TTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGGCT-TCTTCT-GTCTGCTCCACTGC
* * * * *
35793728 AACTTCAAGGAGATAA-AGCTTGATGCGAACTGCTCTACTGCAACTTCAAAAAGATAAGATCTGT
64 AACTTCAGGGAGATAAGA-CTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
*
35793792 CG
128 GG
* ** * * *
35793794 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATATGATTGGTTTCTTCTGTCTCCTCCACTGCAA
1 TTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAA
* * * * *
35793859 CTTCAGGGAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTTATAGAGATAAGACCTGTGG
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* * *
35793923 TTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTGCAA
1 TTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAA
* *
35793988 CTTCAGGTAGATAAGACTGGATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
* * *
35794052 TTTTAATTCACTCCACTACAATTTCAGGGAGAGAGGATTGGCTTCTTCTGTCTGCTCCACTGCAA
1 TTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAA
* * *
35794117 CTTCAAGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATGG
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
*
35794181 TTTTAATCCACTCCACTACAATTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAA
1 TTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAA
* *
35794246 CTTTAGGGAGATAAGACTGGATGCGATCTGTTCTACTGCAACTTCAGAGAGATAAGAT
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
35794304 TCGTAGTTTT
Statistics
Matches: 461, Mismatches: 46, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
129 458 0.99
130 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
TTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAA
CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
Found at i:35793955 original size:44 final size:43
Alignment explanation
Indices: 35793665--35794264 Score: 212
Period size: 44 Copynumber: 13.9 Consensus size: 43
35793655 GGATTCATCA
* * * * * * *
35793665 TTTTAATCCGCTCCATTACAGCTTCAGGGAGATAGGATTAATAG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACT-GTGG
* * * * *
35793709 CTTTAATCTGCTCCGCTGCAACTTCAAGGAGATAA-AGCT-TGA
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-CTGTGG
*** * * *** *
35793751 TGCGAA-CTGCTCTACTGCAACTTCAAAAAGATAAGATCTGTCG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-CTGTGG
* *
35793794 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATATGA-T-TGG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGTGG
**
35793835 TTTCTTCTGTCTC-CTCCACTGCAACTTCAGGGAGATAAGACT-T-G
1 -TT-TT-AATC-CGCTCCACTGCAACTTCAGGGAGATAAGACTGTGG
* *** ** * * **
35793879 ATGCGATTTGCTCTACTGCAACTTTATAGAGATAAGACCTGTGG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-CTGTGG
* *
35793923 TTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGA-T-TGG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGTGG
** ** * *
35793964 TTTCTTCTGTCTACTCCACTGCAACTTCAGGTAGATAAGACTG-GA
1 -TT-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGTGG
*** * *
35794009 TGCGATAT--GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
1 TTTTA-ATCCGCTCCACTGCAACTTCAGGGAGATAAGA-CTGTGG
* * * * * *
35794052 TTTTAATTCACTCCACTACAATTTCAGGGAGAGAGGA-T-TGG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGTGG
** * *
35794093 CTTCTTCTGTCTGCTCCACTGCAACTTCAAGGAGATAAGAC--TGG
1 -TT-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGTGG
* *** * * * * *
35794137 ATGCGATCTGCTCTACTGCAACTCCAGAGAGATAAGATCTATGG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-CTGTGG
* * * *
35794181 TTTTAATCCACTCCACTACAATTTCAGGGAGATAGGA-T-TGG
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGTGG
** * *
35794222 CTTCTTCTGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTG
1 -TT-TT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGACTG
35794265 GATGCGATCT
Statistics
Matches: 394, Mismatches: 127, Indels: 68
0.67 0.22 0.12
Matches are distributed among these distances:
41 110 0.28
42 26 0.07
43 20 0.05
44 232 0.59
45 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGTGG
Found at i:35794030 original size:85 final size:85
Alignment explanation
Indices: 35793932--35794304 Score: 258
Period size: 85 Copynumber: 4.4 Consensus size: 85
35793922 GTTTTAATCC
* * *
35793932 GCTCCACTACAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGTA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGGA
*
35793997 GATAAGACTGGATGCGATAT
66 GATAAGACTGGATGCGATCT
* * ** * *
35794017 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTT-TAAT-TC-ACTCCACTACAATTTCAG
1 GCTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTTCTTCTGTCTACTCCACTGCAACTTCAG
* * * * *
35794079 GGAGAGAGGATTGGCTTCTTCTG-TCT
63 GGAGATAAGACTGG---ATGC-GATCT
* * * * * * *
35794105 GCTCCACTGCAACTTCAAGGAGATAAGACTGGATGCGATCTG-CT-CT--ACTGCAACTCCAGAG
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTC-TTCTGTCTACTCCACTGCAACTTCAGGG
* *** *
35794166 AGATAAGATCTATGGTTTTAATCC
65 AGATAAGA-C--TGGATGCGATCT
* * * * * * *
35794190 ACTCCACTACAATTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGGA
35794255 GATAAGACTGGATGCGATCT
66 GATAAGACTGGATGCGATCT
* * *
35794275 GTTCTACTGCAACTTCAGAGAGATAAGATT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT
35794305 CGTAGTTTTA
Statistics
Matches: 210, Mismatches: 59, Indels: 38
0.68 0.19 0.12
Matches are distributed among these distances:
84 4 0.02
85 135 0.64
86 4 0.02
87 8 0.04
88 58 0.28
89 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (85 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTCTTCTGTCTACTCCACTGCAACTTCAGGGA
GATAAGACTGGATGCGATCT
Found at i:35805751 original size:106 final size:106
Alignment explanation
Indices: 35805559--35805985 Score: 640
Period size: 106 Copynumber: 4.0 Consensus size: 106
35805549 ATGGATTGAA
* * * *
35805559 TTTAAAAGGATATTTAGCTATTTGGTCAAACAAGAAATCTAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAACACGTTAGGGCACGTTT
* * * *
35805624 TCTCGAATTTCGC-AACACAAAATATTACCTTGCTTTGAAAT
66 TCTCAAATTTC-CAAACGCAAAATATTGCCTTACTTTGAAAT
* *
35805665 TTTAAAAGGATATTTGGCTATTTGGTCGAACCAGAAATCGAAACCCAACATGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAACACGTTAGGGCACGTTT
* *
35805730 TCTCGATTTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
66 TCTCAAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
* * * *
35805771 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCATGTTAGGGCACATTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAACACGTTAGGGCACGTTT
* *
35805836 TCTCAAATTTCCAAACGTAAAATATTGCCTTGCTTTGAAAT
66 TCTCAAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
* * *
35805877 TTTAAAAGGATATTTGACTATTTGGTCGAACAAGAAATCAAAACCCAACACGTTAGGGCATGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAACACGTTAGGGCACGTTT
*
35805942 TCTCAATTTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
66 TCTCAAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
35805983 TTT
1 TTT
35805986 TTAATTAGAA
Statistics
Matches: 293, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
105 1 0.00
106 292 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAACACGTTAGGGCACGTTT
TCTCAAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAT
Found at i:35814616 original size:40 final size:40
Alignment explanation
Indices: 35814563--35814752 Score: 308
Period size: 40 Copynumber: 4.8 Consensus size: 40
35814553 ATAACCGCAA
* * * *
35814563 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
35814603 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
35814643 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
35814683 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
35814723 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
35814753 TATAGGCTTT
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:35819350 original size:16 final size:16
Alignment explanation
Indices: 35819329--35819386 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
35819319 TAGTAAGATT
35819329 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* *
35819345 TAATATTTATATTGATA
1 TAATA-TTAAATTAATA
*
35819362 -AATATTATATTAAT-
1 TAATATTAAATTAATA
35819376 TCAATATTAAA
1 T-AATATTAAA
35819387 ATGATTAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 9 0.26
16 17 0.49
17 9 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:35825155 original size:48 final size:47
Alignment explanation
Indices: 35825092--35825183 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 47
35825082 AACACAACAT
* *
35825092 TTGTGGACAAGCCACCACATAAATGCCGATAAATGGCCACATAACACA
1 TTGTGGACAAACCACCACATAAATGCCGAT-AACGGCCACATAACACA
* ** *
35825140 TTGTGTACAAACCACCACATATTTGCTGATAACGGCCACATAAC
1 TTGTGGACAAACCACCACATAAATGCCGATAACGGCCACATAAC
35825184 TTCCACCTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 13 0.34
48 25 0.66
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (47 bp):
TTGTGGACAAACCACCACATAAATGCCGATAACGGCCACATAACACA
Found at i:35828638 original size:17 final size:18
Alignment explanation
Indices: 35828608--35828643 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
35828598 TACGTTCTTG
*
35828608 ATATGTTGTTGAATACAA
1 ATATGTTGTAGAATACAA
35828626 ATAT-TTGTAGAATACAA
1 ATATGTTGTAGAATACAA
35828643 A
1 A
35828644 AATAGTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (18 bp):
ATATGTTGTAGAATACAA
Found at i:35831659 original size:50 final size:50
Alignment explanation
Indices: 35831546--35831794 Score: 245
Period size: 50 Copynumber: 4.9 Consensus size: 50
35831536 ACATTTGGGT
*
35831546 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
*
35831597 GACTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** *
35831650 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * *
35831700 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A
* * * ** * * *
35831749 CAGGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35831795 TGTTATATTC
Statistics
Matches: 168, Mismatches: 24, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 37 0.22
50 83 0.49
51 1 0.01
53 3 0.02
54 6 0.04
55 1 0.01
56 36 0.21
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:35832046 original size:20 final size:20
Alignment explanation
Indices: 35832008--35832046 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35831998 TAAGCAAGCA
*
35832008 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
35832028 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
35832047 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:35833602 original size:60 final size:59
Alignment explanation
Indices: 35833523--35833687 Score: 163
Period size: 60 Copynumber: 2.8 Consensus size: 59
35833513 GTTACTCCAA
** * * * * *
35833523 CCCTTTTCATAGCTCGATAGCTGAAGCTATCCCTTTTCATTATTTGAT-GGT-CGTTAC
1 CCCTTTTCATAATTGGATAGCCGAAGCTATCCCTTTTCATTATTTGATAGCTAAGCTAC
* * *
35833580 CATCCATTTTCATAATTGGATAGCCGAAGCTATCCCTTTCCATGATTCGATAGCTAAAGCTAC
1 C--CC-TTTTCATAATTGGATAGCCGAAGCTATCCCTTTTCATTATTTGATAGCT-AAGCTAC
* * *
35833643 CCCTTTTCATAATTTGATAGCCAAAACTATCCCTTTTCATTATTT
1 CCCTTTTCATAATTGGATAGCCGAAGCTATCCCTTTTCATTATTT
35833688 TGAAAGCCAT
Statistics
Matches: 86, Mismatches: 16, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
57 1 0.01
59 2 0.02
60 74 0.86
61 4 0.05
63 5 0.06
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (59 bp):
CCCTTTTCATAATTGGATAGCCGAAGCTATCCCTTTTCATTATTTGATAGCTAAGCTAC
Found at i:35833632 original size:30 final size:30
Alignment explanation
Indices: 35833523--35833713 Score: 134
Period size: 30 Copynumber: 6.3 Consensus size: 30
35833513 GTTACTCCAA
** *
35833523 CCCTTTTCATAGCTCGATAGCTGAAGCTAT
1 CCCTTTTCATAATTCGATAGCCGAAGCTAT
* * * * * *
35833553 CCCTTTTCATTATTTGATGGTCGTTA-CCAT
1 CCCTTTTCATAATTCGATAGCCG-AAGCTAT
* *
35833583 CCATTTTCATAATTGGATAGCCGAAGCTAT
1 CCCTTTTCATAATTCGATAGCCGAAGCTAT
* * ** *
35833613 CCCTTTCCATGATTCGATAGCTAAAGCTAC
1 CCCTTTTCATAATTCGATAGCCGAAGCTAT
* * *
35833643 CCCTTTTCATAATTTGATAGCCAAAACTAT
1 CCCTTTTCATAATTCGATAGCCGAAGCTAT
* * *
35833673 CCCTTTTCATTATTTTGAAAGCC-ATAGCTAT
1 CCCTTTTCA-TAATTCGATAGCCGA-AGCTAT
*
35833704 CTCTTTTCAT
1 CCCTTTTCAT
35833714 TAGCCGAGGA
Statistics
Matches: 124, Mismatches: 33, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
29 1 0.01
30 98 0.79
31 25 0.20
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (30 bp):
CCCTTTTCATAATTCGATAGCCGAAGCTAT
Found at i:35835811 original size:45 final size:45
Alignment explanation
Indices: 35835742--35835900 Score: 196
Period size: 45 Copynumber: 3.6 Consensus size: 45
35835732 TACACAGTGG
* * * *
35835742 ATCAGCACACAGC-ACCACCCTTATAGTCAATAGTACTCGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGTGAA
* *
35835786 ATCAGTACATAGCAACCACCTTTATACTCAATGGTAC-CGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTC-GGTGAA
* * * * *
35835831 ATAAGCACATAGCAACCACCTATATAACCATTGGTATTCGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGTGAA
35835876 ATCAGCACATAGCAACCACCTTTAT
1 ATCAGCACATAGCAACCACCTTTAT
35835901 TTTCATTAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
44 12 0.12
45 85 0.87
46 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.23
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGTGAA
Found at i:35835929 original size:45 final size:45
Alignment explanation
Indices: 35835778--35835945 Score: 126
Period size: 45 Copynumber: 3.7 Consensus size: 45
35835768 TCAATAGTAC
* * * **
35835778 TCGGTGAAATCAGTACATAGCAACCACCTTTAT-ACTCAATGGTA-
1 TCGGTGAAATCAGCACATAGCAACCACCTATATAAC-CATTAATAT
* * **
35835822 CCGGGTGAAATAAGCACATAGCAACCACCTATATAACCATTGGTAT
1 TC-GGTGAAATCAGCACATAGCAACCACCTATATAACCATTAATAT
* ***
35835868 TCGGTGAAATCAGCACATAGCAACCACCTTTATTTTCATTAATA-
1 TCGGTGAAATCAGCACATAGCAACCACCTATATAACCATTAATAT
* * * * *
35835912 TCAGGTGGAATCGGCACATAACATCCATCTATAT
1 TC-GGTGAAATCAGCACATAGCAACCACCTATAT
35835946 TTCCAACGAT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
44 3 0.03
45 95 0.94
46 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (45 bp):
TCGGTGAAATCAGCACATAGCAACCACCTATATAACCATTAATAT
Found at i:35835929 original size:90 final size:90
Alignment explanation
Indices: 35835778--35835945 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 90
35835768 TCAATAGTAC
* ** * *
35835778 TCGGTGAAATCAGTACATAGCAACCACCTTTATACTCAATGGTACCGGGTGAAATAAGCACATAG
1 TCGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCAGGTGAAATAAGCACATAA
35835843 CAACCACCTATATAACCATTGGTAT
66 CAACCACCTATATAACCATTGGTAT
** * * * **
35835868 TCGGTGAAATCAGCACATAGCAACCACCTTTATTTTCATTAATATCAGGTGGAATCGGCACATAA
1 TCGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCAGGTGAAATAAGCACATAA
* *
35835933 CATCCATCTATAT
66 CAACCACCTATAT
35835946 TTCCAACGAT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (90 bp):
TCGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCAGGTGAAATAAGCACATAA
CAACCACCTATATAACCATTGGTAT
Found at i:35843828 original size:29 final size:30
Alignment explanation
Indices: 35843790--35844048 Score: 235
Period size: 30 Copynumber: 8.7 Consensus size: 30
35843780 ATAGCCTAAG
35843790 CCATCCCTTTTCATTATTTGATGGTCATCA
1 CCATCCCTTTTCATTATTTGATGGTCATCA
* *
35843820 CCATCCTTTTTCATT-GTTGATGGTCATCA
1 CCATCCCTTTTCATTATTTGATGGTCATCA
*
35843849 CCATCCCTTTTCATTATTTGATGGTCGTCA
1 CCATCCCTTTTCATTATTTGATGGTCATCA
* * *
35843879 CCATCCTTTTTCATT-GTTGATGGTCGTCA
1 CCATCCCTTTTCATTATTTGATGGTCATCA
* * * * *
35843908 CTATCCCTTTTCATAATTTAATAGCCGA--A
1 CCATCCCTTTTCATTATTTGATGGTC-ATCA
* * ** *
35843937 CCTATCCCTTTTCATAATTAGACAG-C-TGAA
1 CC-ATCCCTTTTCATTATTTGATGGTCAT-CA
* * * *
35843967 GCTATCCATTTTCATTGTTCGATGGTCATCA
1 -CCATCCCTTTTCATTATTTGATGGTCATCA
*
35843998 CCATCCCTTTTCATTA-TTGATGGTCGTCA
1 CCATCCCTTTTCATTATTTGATGGTCATCA
*
35844027 CCATCCCTTTTCATAATTTGAT
1 CCATCCCTTTTCATTATTTGAT
35844049 AGCCGAAACT
Statistics
Matches: 185, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
29 81 0.44
30 100 0.54
31 3 0.02
32 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (30 bp):
CCATCCCTTTTCATTATTTGATGGTCATCA
Found at i:35843999 original size:119 final size:120
Alignment explanation
Indices: 35843851--35844103 Score: 364
Period size: 119 Copynumber: 2.1 Consensus size: 120
35843841 GGTCATCACC
* * * * *
35843851 ATCCCTTTTCATTATTTGATGGTCGTCACCATCCTTTTTCATTGTTGATGGTCGTCACTATCCCT
1 ATCCCTTTTCATTATTCGATGGTCATCACCATCCCTTTTCATTATTGATGGTCGTCACCATCCCT
* * *
35843916 TTTCATAATTTAATAGCCGAACCTATCCCTTTTCA-TAATTAGACAGCTGAAGCT
66 TTTCATAATTTAATAGCCGAAACTATCCCTTTTCATTAATTACACAGCCGAAGCT
* *
35843970 ATCCATTTTCATTGTTCGATGGTCATCACCATCCCTTTTCATTATTGATGGTCGTCACCATCCCT
1 ATCCCTTTTCATTATTCGATGGTCATCACCATCCCTTTTCATTATTGATGGTCGTCACCATCCCT
* * * * *
35844035 TTTCATAATTTGATAGCCGAAACTATCCTTTTTCATTATTTTCATAGCCGAAGCT
66 TTTCATAATTTAATAGCCGAAACTATCCCTTTTCATTAATTACACAGCCGAAGCT
35844090 ATCCCTTTTCATTA
1 ATCCCTTTTCATTA
35844104 GCCGAGGATT
Statistics
Matches: 116, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
119 90 0.78
120 26 0.22
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (120 bp):
ATCCCTTTTCATTATTCGATGGTCATCACCATCCCTTTTCATTATTGATGGTCGTCACCATCCCT
TTTCATAATTTAATAGCCGAAACTATCCCTTTTCATTAATTACACAGCCGAAGCT
Found at i:35844068 original size:30 final size:30
Alignment explanation
Indices: 35843907--35844101 Score: 142
Period size: 30 Copynumber: 6.5 Consensus size: 30
35843897 GATGGTCGTC
*
35843907 ACTATCCCTTTTCATAATTTAATAGCCGAA
1 ACTATCCCTTTTCATAATTTGATAGCCGAA
* * * *
35843937 CCTATCCCTTTTCATAATTAGACAGCTGAA
1 ACTATCCCTTTTCATAATTTGATAGCCGAA
* * ** * * * *
35843967 GCTATCCATTTTCATTGTTCGATGGTC-ATC
1 ACTATCCCTTTTCATAATTTGATAGCCGA-A
* * * * **
35843997 ACCATCCCTTTTCATTA-TTGATGGTCGTC
1 ACTATCCCTTTTCATAATTTGATAGCCGAA
*
35844026 ACCATCCCTTTTCATAATTTGATAGCCGAA
1 ACTATCCCTTTTCATAATTTGATAGCCGAA
* * *
35844056 ACTATCCTTTTTCATTATTTTCATAGCCGAA
1 ACTATCCCTTTTCA-TAATTTGATAGCCGAA
*
35844087 GCTATCCCTTTTCAT
1 ACTATCCCTTTTCAT
35844102 TAGCCGAGGA
Statistics
Matches: 129, Mismatches: 32, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
29 26 0.20
30 77 0.60
31 26 0.20
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.39
Consensus pattern (30 bp):
ACTATCCCTTTTCATAATTTGATAGCCGAA
Found at i:35844068 original size:59 final size:59
Alignment explanation
Indices: 35843790--35844074 Score: 265
Period size: 59 Copynumber: 4.8 Consensus size: 59
35843780 ATAGCCTAAG
* *
35843790 CCATCCCTTTTCATTATTTGATGGTC-ATCACCATCCTTTTTCATTGTTGATGGTCATCA
1 CCATCCCTTTTCATTATTTGATGGTCGA-CACCATCCTTTTTCATTATTGATGGTCGTCA
* *
35843849 CCATCCCTTTTCATTATTTGATGGTCGTCACCATCCTTTTTCATTGTTGATGGTCGTCA
1 CCATCCCTTTTCATTATTTGATGGTCGACACCATCCTTTTTCATTATTGATGGTCGTCA
* * * * * * * ** *
35843908 CTATCCCTTTTCATAATTTAATAGCCGA-ACCTATCCCTTTTCATAATTAGACAG-C-TGAA
1 CCATCCCTTTTCATTATTTGATGGTCGACACC-ATCCTTTTTCATTATT-GATGGTCGT-CA
* * * * *
35843967 GCTATCCATTTTCATTGTTCGATGGTC-ATCACCATCCCTTTTCATTATTGATGGTCGTCA
1 -CCATCCCTTTTCATTATTTGATGGTCGA-CACCATCCTTTTTCATTATTGATGGTCGTCA
* * * * *
35844027 CCATCCCTTTTCATAATTTGATAGCCGAAACTATCCTTTTTCATTATT
1 CCATCCCTTTTCATTATTTGATGGTCGACACCATCCTTTTTCATTATT
35844075 TTCATAGCCG
Statistics
Matches: 181, Mismatches: 35, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
58 4 0.02
59 133 0.73
60 40 0.22
61 4 0.02
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (59 bp):
CCATCCCTTTTCATTATTTGATGGTCGACACCATCCTTTTTCATTATTGATGGTCGTCA
Found at i:35847833 original size:26 final size:26
Alignment explanation
Indices: 35847793--35847844 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
35847783 CAGTCGACTG
*
35847793 TATCAGGTTCTCATTTTTCTTAAGAT
1 TATCAGGTTCCCATTTTTCTTAAGAT
35847819 TATCAGGTTCCCATTTTTCTTAAGAT
1 TATCAGGTTCCCATTTTTCTTAAGAT
35847845 GACTATCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (26 bp):
TATCAGGTTCCCATTTTTCTTAAGAT
Found at i:35848643 original size:15 final size:15
Alignment explanation
Indices: 35848623--35848654 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35848613 CATTTCATTA
*
35848623 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
35848638 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
35848653 TT
1 TT
35848655 TGAATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:35854597 original size:43 final size:43
Alignment explanation
Indices: 35854518--35854652 Score: 127
Period size: 43 Copynumber: 3.3 Consensus size: 43
35854508 GCAGAAAGTA
* * * *
35854518 ATGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGACC
1 ATGACCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGACC
* *
35854561 ATGACCTTTAGCGGCACTTTACCCACAAACGTCGCTAAAGACA
1 ATGACCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGACC
* * ****
35854604 ACGAGC-TT---NNNTCTTT-CCCACAAACGCCGCTAAAGACC
1 ATGACCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGACC
35854642 ATGACCTTTAG
1 ATGACCTTTAG
35854653 TGACGCTTTT
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
38 24 0.33
39 6 0.08
42 2 0.03
43 41 0.56
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGACCTTTAGCGGCACTTTACCCACAAACGCCGCTAAAGACC
Found at i:35859589 original size:19 final size:17
Alignment explanation
Indices: 35859535--35859592 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 17
35859525 TATTAATTTT
*
35859535 AAATAAATAAATTTTGAA
1 AAATTAATAAATTTT-AA
35859553 AAATTAAGTAATATTTTAA
1 AAATTAA-TAA-ATTTTAA
35859572 AGAATTAGATAAATTTTAA
1 A-AATTA-ATAAATTTTAA
35859591 AA
1 AA
35859593 TTTTTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 7 0.20
19 14 0.40
20 13 0.37
21 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (17 bp):
AAATTAATAAATTTTAA
Found at i:35860791 original size:15 final size:15
Alignment explanation
Indices: 35860768--35860797 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35860758 CCCTAACTCG
35860768 ACCCCAAATCTCTAA
1 ACCCCAAATCTCTAA
*
35860783 ACCCTAAATCTCTAA
1 ACCCCAAATCTCTAA
35860798 CTCAAAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (15 bp):
ACCCCAAATCTCTAA
Found at i:35860813 original size:21 final size:20
Alignment explanation
Indices: 35860770--35860832 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
35860760 CTAACTCGAC
*
35860770 CCCAAATCTCTAAACCCTAAAT
1 CCCAAA-CTCAAAACCCT-AAT
* *
35860792 CTCTAACTCAAAACCTCTAAT
1 CCCAAACTCAAAACC-CTAAT
*
35860813 CCCAAACTCATAACCCTAAT
1 CCCAAACTCAAAACCCTAAT
35860833 TACCCCAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 5 0.15
21 23 0.68
22 6 0.18
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.24
Consensus pattern (20 bp):
CCCAAACTCAAAACCCTAAT
Found at i:35860852 original size:7 final size:7
Alignment explanation
Indices: 35860842--35860879 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
35860832 TTACCCCAAT
*
35860842 TAACCAT
1 TAACCAC
35860849 TAACCAC
1 TAACCAC
35860856 TAACCAC
1 TAACCAC
35860863 TAACCAC
1 TAACCAC
*
35860870 TAACTAC
1 TAACCAC
35860877 TAA
1 TAA
35860880 TCCTTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (7 bp):
TAACCAC
Found at i:35861014 original size:14 final size:14
Alignment explanation
Indices: 35860950--35861014 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
35860940 ACCCGACCCT
35860950 TAACCCTTAAATCCTA
1 TAACCC-TAAA-CCTA
*
35860966 -AACCCTAAACCTT
1 TAACCCTAAACCTA
*
35860979 TAACCCTGAACCTTA
1 TAACCCTAAACC-TA
* *
35860994 AAACCCTAAACCCA
1 TAACCCTAAACCTA
35861008 TAACCCT
1 TAACCCT
35861015 CAGCCTCTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
13 3 0.08
14 21 0.52
15 16 0.40
ACGTcount: A:0.38, C:0.37, G:0.02, T:0.23
Consensus pattern (14 bp):
TAACCCTAAACCTA
Found at i:35861771 original size:41 final size:41
Alignment explanation
Indices: 35861663--35861801 Score: 188
Period size: 41 Copynumber: 3.3 Consensus size: 41
35861653 GCTTTACCAA
* ** *
35861663 AAACACCGCTAAAGGTCTGCGCATTAGGCGGCACTTCATGAAA
1 AAACACCGCTAAAGGTCTGCGCATTA-GCGGCGCTTC-TTTAC
* *
35861706 AAACACCGCTAAAGGTCTGTGCATTAGCGACGCTTCTTTAC
1 AAACACCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTTAC
*
35861747 AAACGCCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTTAC
1 AAACACCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTTAC
*
35861788 AAACGCCGCTAAAG
1 AAACACCGCTAAAG
35861802 ACCCACAAGG
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 54 0.62
42 8 0.09
43 25 0.29
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (41 bp):
AAACACCGCTAAAGGTCTGCGCATTAGCGGCGCTTCTTTAC
Found at i:35861917 original size:40 final size:40
Alignment explanation
Indices: 35861873--35861949 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
35861863 GCTTTCCTAA
35861873 AAGCGCCACTAATACTCGATCTTTAGCGCCGTTTTTGGGG
1 AAGCGCCACTAATACTCGATCTTTAGCGCCGTTTTTGGGG
** * * *
35861913 AAGCGCTGCTAATGCTCGATTTTTAGCGGCGTTTTTG
1 AAGCGCCACTAATACTCGATCTTTAGCGCCGTTTTTG
35861950 TACAAACGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (40 bp):
AAGCGCCACTAATACTCGATCTTTAGCGCCGTTTTTGGGG
Found at i:35863917 original size:22 final size:22
Alignment explanation
Indices: 35863892--35863933 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
35863882 AATTAAAGAA
35863892 ATGTAAAT-AAAATTAATTAAAT
1 ATGT-AATCAAAATTAATTAAAT
35863914 ATGTAATCAAAATTAATTAA
1 ATGTAATCAAAATTAATTAA
35863934 GTATAATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
ATGTAATCAAAATTAATTAAAT
Found at i:35865093 original size:49 final size:49
Alignment explanation
Indices: 35865040--35865169 Score: 118
Period size: 49 Copynumber: 2.7 Consensus size: 49
35865030 GGTAATCTGG
* * *
35865040 GATGGTAAAATATGCAAATTGTGAAAACCATCATTGTTGGGCCACCCTA
1 GATGGTAAAATATGCAAATTGTGAAAACCATCATTCTCGGGCCACCCGA
* * * * * **
35865089 GATGGTAAATTGA-GTAAATAGTGAAAATCATCCTTCTCGGGCCATTCGA
1 GATGGTAAAAT-ATGCAAATTGTGAAAACCATCATTCTCGGGCCACCCGA
* * * *
35865138 GATGATAGAATATGCAAATTATGAGAACCATC
1 GATGGTAAAATATGCAAATTGTGAAAACCATC
35865170 GTTACCAAGC
Statistics
Matches: 61, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
48 1 0.02
49 59 0.97
50 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (49 bp):
GATGGTAAAATATGCAAATTGTGAAAACCATCATTCTCGGGCCACCCGA
Found at i:35881224 original size:15 final size:15
Alignment explanation
Indices: 35881206--35881247 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
35881196 GTATATCAAC
*
35881206 TCATAATATAAGGTT
1 TCATAATATAAAGTT
*
35881221 TCATAATCTAAAGTT
1 TCATAATATAAAGTT
35881236 TCA-AATATAAAG
1 TCATAATATAAAG
35881248 AGTACTGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (15 bp):
TCATAATATAAAGTT
Found at i:35882249 original size:43 final size:44
Alignment explanation
Indices: 35882193--35882328 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
35882183 ATGAAGCCAT
* *
35882193 CAATATTCGCAGACAAGCTGCCATGGAGGTTGTGGATAAACCAC
1 CAATATTTGCAGACAAGCTGCCATGTAGGTTGTGGATAAACCAC
* *
35882237 CAA-ATTTGCAGACAAGCTACTATGTAGGTTGTGGATAAACCAC
1 CAATATTTGCAGACAAGCTGCCATGTAGGTTGTGGATAAACCAC
* * * **
35882280 CAATTTTTGCAGGCAAGTTGCCATGTAGGTTGTGGGCAAAGCCAC
1 CAATATTTGCAGACAAGCTGCCATGTAGGTTGTGGATAAA-CCAC
35882325 CAAT
1 CAAT
35882329 TCTTCTTACA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
43 39 0.49
44 32 0.41
45 8 0.10
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (44 bp):
CAATATTTGCAGACAAGCTGCCATGTAGGTTGTGGATAAACCAC
Found at i:35884253 original size:17 final size:17
Alignment explanation
Indices: 35884231--35884265 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
35884221 TTTACATTCT
35884231 AGTTCGCCAAAGTAATG
1 AGTTCGCCAAAGTAATG
*
35884248 AGTTCGTCAAAGTAATG
1 AGTTCGCCAAAGTAATG
35884265 A
1 A
35884266 TCTCGCCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (17 bp):
AGTTCGCCAAAGTAATG
Found at i:35891990 original size:16 final size:17
Alignment explanation
Indices: 35891969--35892000 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
35891959 ATAAATTAAA
35891969 GTGAATAATT-ATGTTG
1 GTGAATAATTAATGTTG
35891985 GTGAATAATTAATGTT
1 GTGAATAATTAATGTT
35892001 TAAATTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (17 bp):
GTGAATAATTAATGTTG
Found at i:35895352 original size:42 final size:41
Alignment explanation
Indices: 35895288--35895437 Score: 149
Period size: 42 Copynumber: 3.6 Consensus size: 41
35895278 CATTGAATGT
** * * * *
35895288 AAGGGGTTGCTAAGTGCAGATTCCCTGAATTATTGATTCTA
1 AAGGGGTTGCTAAGTGTTGATTCCCCGTATCATTGATTATA
* *
35895329 AAGGTGGTTGCTAATTGTTGATTCCACCGTATCCTTGATTATGA
1 AAGG-GGTTGCTAAGTGTTGATTCC-CCGTATCATTGATTAT-A
* * *
35895373 AAGGGGTTGCTATGTGTTGATTCCCCGTATCACTGAATAT-
1 AAGGGGTTGCTAAGTGTTGATTCCCCGTATCATTGATTATA
*
35895413 AAGTTGGTTGCTAAGTGTTGATTCC
1 AAG-GGGTTGCTAAGTGTTGATTCC
35895438 ACCGAGTAAC
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 3 0.03
41 23 0.26
42 30 0.33
43 29 0.32
44 5 0.06
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGTATCATTGATTATA
Found at i:35895431 original size:41 final size:42
Alignment explanation
Indices: 35895327--35895441 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 42
35895317 TTATTGATTC
* *
35895327 TAAAGGTGGTTGCTAATTGTTGATTCCACCGTATCCTTGATTA
1 TAAA-GTGGTTGCTAAGTGTTGATTCCACCGTATCCTTGAATA
* *
35895370 TGAAAGGGGTTGCTATGTGTTGATTCC-CCGTATCAC-TGAATA
1 T-AAAGTGGTTGCTAAGTGTTGATTCCACCGTATC-CTTGAATA
35895412 T-AAGTTGGTTGCTAAGTGTTGATTCCACCG
1 TAAAG-TGGTTGCTAAGTGTTGATTCCACCG
35895442 AGTAACGGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
40 3 0.05
41 19 0.31
42 16 0.26
43 21 0.34
44 3 0.05
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (42 bp):
TAAAGTGGTTGCTAAGTGTTGATTCCACCGTATCCTTGAATA
Found at i:35903275 original size:27 final size:27
Alignment explanation
Indices: 35903237--35903290 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
35903227 AATAATTATC
35903237 CTTTAATCCTCCTCCTCATTTCCCTAG
1 CTTTAATCCTCCTCCTCATTTCCCTAG
35903264 CTTTAATCCTCCTCCTCATTTCCCTAG
1 CTTTAATCCTCCTCCTCATTTCCCTAG
35903291 TCGTTCCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.41, G:0.04, T:0.41
Consensus pattern (27 bp):
CTTTAATCCTCCTCCTCATTTCCCTAG
Found at i:35916058 original size:51 final size:51
Alignment explanation
Indices: 35915983--35916183 Score: 203
Period size: 51 Copynumber: 4.0 Consensus size: 51
35915973 ATTAATGATA
* * * *
35915983 CTGGTTCACATAGTAGCCTGCACATAGCACTACACATGTGACCATCACTAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* * * *
35916034 CCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCGA--AGCTAT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * * *
35916085 CTGGTACGCATAGTAGCCTCCACATAGTACTACACATGCGACTTATCA-T-T
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC-CATCACTAT
* *
35916135 CTGGCACACGTAGTAGCCTGCACATCGTACTACACACGTGACCATCACT
1 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
35916184 TTCAGTTTCA
Statistics
Matches: 120, Mismatches: 24, Indels: 13
0.76 0.15 0.08
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 74 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (51 bp):
CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:35916174 original size:101 final size:102
Alignment explanation
Indices: 35915991--35916175 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
35915981 TACTGGTTCA
* * * *
35915991 CATAGTAGCCTGCACATAGCACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTTCA
1 CATAGTAGCCTCCACATAGCACTACACATGCGACCATCACTATCCGACACACGTAGTAGCCTGCA
35916056 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
* * * *
35916093 CATAGTAGCCTCCACATAGTACTACACATGCGACTTATCA-T-TCTGGCACACGTAGTAGCCTGC
1 CATAGTAGCCTCCACATAGCACTACACATGCGAC-CATCACTATCCGACACACGTAGTAGCCTGC
*
35916156 ACATCGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
35916176 CCATCACTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 37 0.51
102 32 0.44
103 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTCCACATAGCACTACACATGCGACCATCACTATCCGACACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:35916198 original size:101 final size:102
Alignment explanation
Indices: 35915985--35916209 Score: 242
Period size: 101 Copynumber: 2.2 Consensus size: 102
35915975 TAATGATACT
* * *
35915985 GGTTCACATAGTAGCCTGCACATAGCACTACACATGTGACCATCACTATCCGATACACGTAGTAG
1 GGTTCACATAGTAGCCTACACATAGCACTACACATGCGACCATCACTATCCGACACACGTAGTAG
* * *
35916050 CCTTCACATAGTACTACACACGTGATCGAAGCTATCT
66 CCTGCACATAGTACTACACACGTGATCCAAGCTATCA
* * * * * * *
35916087 GGTACGCATAGTAGCCTCCACATAGTACTACACATGCGACTTATCA-T-TCTGGCACACGTAGTA
1 GGTTCACATAGTAGCCTACACATAGCACTACACATGCGAC-CATCACTATCCGACACACGTAGTA
* *
35916150 GCCTGCACATCGTACTACACACGTGA-CCATCA-CTTTCA
65 GCCTGCACATAGTACTACACACGTGATCCA--AGCTATCA
* *
35916188 GTTTCACATAGTGGCCTACACA
1 GGTTCACATAGTAGCCTACACA
35916210 CAATCCATGC
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
100 2 0.02
101 58 0.57
102 37 0.37
103 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (102 bp):
GGTTCACATAGTAGCCTACACATAGCACTACACATGCGACCATCACTATCCGACACACGTAGTAG
CCTGCACATAGTACTACACACGTGATCCAAGCTATCA
Found at i:35916422 original size:16 final size:16
Alignment explanation
Indices: 35916401--35916431 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35916391 AATCCAGTCC
35916401 AAAAATCACATTTTGG
1 AAAAATCACATTTTGG
*
35916417 AAAAATTACATTTTG
1 AAAAATCACATTTTG
35916432 CCCCTAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (16 bp):
AAAAATCACATTTTGG
Found at i:35918698 original size:20 final size:20
Alignment explanation
Indices: 35918650--35918696 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
35918640 TTATTTAAAT
*
35918650 TAATGAAATGCAAAGGAATG
1 TAATGAAATGCAAAGGAAAG
*
35918670 TAATGAAATGCAAATGAAAG
1 TAATGAAATGCAAAGGAAAG
35918690 TAA-GAAA
1 TAATGAAA
35918697 ATTTGGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.55, C:0.04, G:0.21, T:0.19
Consensus pattern (20 bp):
TAATGAAATGCAAAGGAAAG
Found at i:35922249 original size:16 final size:16
Alignment explanation
Indices: 35922202--35922260 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
35922192 TAGTTTTTTT
35922202 TTATTTTTTAAAT-TAA
1 TTATTTTTT-AATGTAA
*
35922218 TTAATTTCTATAATGTAA
1 TT-ATTT-TTTAATGTAA
35922236 TTATTTTTTAATGTAA
1 TTATTTTTTAATGTAA
35922252 TTATTTTTT
1 TTATTTTTT
35922261 TATTATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
16 20 0.53
17 11 0.29
18 7 0.18
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (16 bp):
TTATTTTTTAATGTAA
Found at i:35922792 original size:11 final size:11
Alignment explanation
Indices: 35922776--35922818 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
35922766 TTTGCATGTC
35922776 ATTATTTATTT
1 ATTATTTATTT
35922787 ATTATTTATTT
1 ATTATTTATTT
*
35922798 ATGTATTCATATT
1 AT-TATTTAT-TT
35922811 ATT-TTTAT
1 ATTATTTAT
35922819 ACAATTGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 17 0.61
12 7 0.25
13 4 0.14
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTATTTATTT
Found at i:35923914 original size:27 final size:27
Alignment explanation
Indices: 35923853--35923987 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
35923843 AGGGGTATAA
* **
35923853 CAGTCATTTTA-CCATATAGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
** *
35923879 TGGTAATTTTTCCCATCGAGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
* ** *
35923906 CAGTCATTTTACCTTTCGGGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
*
35923933 CAGTAATTTTACCCATTGAGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
35923960 C-GATAATTTTACCCATCGAGGGTATTT
1 CAG-TAATTTTACCCATCGAGGGTATTT
35923987 C
1 C
35923988 GAACATTTAA
Statistics
Matches: 88, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
26 8 0.09
27 80 0.91
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
CAGTAATTTTACCCATCGAGGGTATTT
Found at i:35923988 original size:27 final size:28
Alignment explanation
Indices: 35923870--35923989 Score: 149
Period size: 27 Copynumber: 4.4 Consensus size: 28
35923860 TTTACCATAT
* *
35923870 AGGGTATTTTG-GTAATTTTTCCCATCG
1 AGGGTATTTCGAGTAATTTTACCCATCG
* **
35923897 AGGGTATTTC-AGTCATTTTACCTTTCG
1 AGGGTATTTCGAGTAATTTTACCCATCG
* *
35923924 GGGGTATTTC-AGTAATTTTACCCATTG
1 AGGGTATTTCGAGTAATTTTACCCATCG
35923951 AGGGTATTTCGA-TAATTTTACCCATCG
1 AGGGTATTTCGAGTAATTTTACCCATCG
35923978 AGGGTATTTCGA
1 AGGGTATTTCGA
35923990 ACATTTAACC
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
27 78 0.99
28 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (28 bp):
AGGGTATTTCGAGTAATTTTACCCATCG
Found at i:35923995 original size:81 final size:80
Alignment explanation
Indices: 35923844--35924009 Score: 201
Period size: 81 Copynumber: 2.1 Consensus size: 80
35923834 TCATCTCCTA
* * * *
35923844 GGGGTATAACAGTCATTTTACCATATAGGGTATTTTGGTAATTTTTCCCATCGAGGGTATTTCAG
1 GGGGTATAACAGTAATTTTACCATATAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAG
* * * *
35923909 TCATTTTACCTTTCG
66 ACATTTAACCCTACG
**
35923924 GGGGTATTTCAGTAATTTTACCCAT-TGAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTC
1 GGGGTATAACAGTAATTTTA-CCATAT-AGGGTATTTCGATAATTTTACCCATCGAGGGTATTTC
35923988 -GAACATTTAACCCTACG
64 AG-ACATTTAACCCTACG
35924005 GGGGT
1 GGGGT
35924010 CTCGGTGCAG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
80 19 0.26
81 54 0.74
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (80 bp):
GGGGTATAACAGTAATTTTACCATATAGGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAG
ACATTTAACCCTACG
Found at i:35925896 original size:40 final size:41
Alignment explanation
Indices: 35925836--35925985 Score: 128
Period size: 40 Copynumber: 3.7 Consensus size: 41
35925826 CTATCACTTT
* * *
35925836 AGCTTACATAGGGAGCTTTGCTGAAACAAAGCTTATCTATA
1 AGCTCACATGGGGAGCTTTGCTGATACAAAGCTTATCTATA
* * *
35925877 AGCTTACA-GGGGAGGTTTGCTGATACATAGCTTCAT-TACTTA
1 AGCTCACATGGGGAGCTTTGCTGATACAAAGCTT-ATCTA--TA
* ** ** *
35925919 AGCTCACATGGGG-GATTTATTGATACGCAGCTTATCCATA
1 AGCTCACATGGGGAGCTTTGCTGATACAAAGCTTATCTATA
*
35925959 AGCTCACA-GGGGAGCTTTGCTAATACA
1 AGCTCACATGGGGAGCTTTGCTGATACA
35925986 CAACTTTTAA
Statistics
Matches: 87, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
39 4 0.05
40 42 0.48
41 12 0.14
42 25 0.29
43 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (41 bp):
AGCTCACATGGGGAGCTTTGCTGATACAAAGCTTATCTATA
Found at i:35931875 original size:15 final size:15
Alignment explanation
Indices: 35931855--35931884 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35931845 CCTATAGAAA
35931855 TTAAATAAAACTAAT
1 TTAAATAAAACTAAT
*
35931870 TTAAATAAAGCTAAT
1 TTAAATAAAACTAAT
35931885 GGAATTAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (15 bp):
TTAAATAAAACTAAT
Found at i:35933438 original size:21 final size:20
Alignment explanation
Indices: 35933412--35933452 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35933402 CGTAAAATGA
*
35933412 TTTCTGGAAAAATGTTTTACT
1 TTTCT-GAAAAATGATTTACT
*
35933433 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
35933453 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:35933443 original size:35 final size:35
Alignment explanation
Indices: 35933397--35933464 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
35933387 CAGTAAAATG
*
35933397 TTTTCCGTAAAATGATTT-CTGGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACT-GAAAAATATTTTAC
*
35933432 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
35933465 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:35936280 original size:18 final size:18
Alignment explanation
Indices: 35936257--35936292 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35936247 GGAAATTTGA
35936257 AAGAATGAAGGAAGGGAG
1 AAGAATGAAGGAAGGGAG
* *
35936275 AAGAATGGATGAAGGGAG
1 AAGAATGAAGGAAGGGAG
35936293 CTTACTGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.44, T:0.08
Consensus pattern (18 bp):
AAGAATGAAGGAAGGGAG
Found at i:35937618 original size:50 final size:50
Alignment explanation
Indices: 35937509--35937803 Score: 292
Period size: 50 Copynumber: 5.8 Consensus size: 50
35937499 ATTTGGGTAA
* *
35937509 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
35937565 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
35937615 AGAGGTCCCATGTAAG--CATGTCTGGGACATGGCGTTGGCACCGAGAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
*** * * *
35937663 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** ** * * * * *
35937713 AGAATTCTGATGTAAGACCATATCTAGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGACG
* ** *
35937762 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35937804 TGTTATTATC
Statistics
Matches: 204, Mismatches: 32, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
48 44 0.22
49 37 0.18
50 76 0.37
52 1 0.00
53 4 0.02
55 2 0.01
56 40 0.20
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:35937686 original size:98 final size:102
Alignment explanation
Indices: 35937509--35937708 Score: 264
Period size: 98 Copynumber: 2.0 Consensus size: 102
35937499 ATTTGGGTAA
*
35937509 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGA-CATGTATGGGACATGGCATTGGCATCC-TGAGA--AGGAGAGGTCCC
** *
35937574 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
62 ACATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
35937615 AGAGGTCCCATGTAAG-CATGTCTGGGACATGGCGTTGGCA-CC-GAG-AGGAGAGGTCCCCCAT
1 AGAGATCCCATGTAAGACATGTATGGGACATGGCATTGGCATCCTGAGAAGGAGAGGTCCCACAT
35937676 AAGACCATGTCTGGGACATGGCATGGGCACCGA
66 AAGACCATGTCTGGGACATGGCATGGGCACCGA
35937709 TATGAGAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
98 44 0.51
101 3 0.03
103 2 0.02
104 22 0.26
106 15 0.17
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.20
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACATGTATGGGACATGGCATTGGCATCCTGAGAAGGAGAGGTCCCACAT
AAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:35944968 original size:16 final size:16
Alignment explanation
Indices: 35944947--35944979 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
35944937 CTTTTCCCCC
35944947 AATAAAAATTCATCCA
1 AATAAAAATTCATCCA
35944963 AATAAAAATTCATCCA
1 AATAAAAATTCATCCA
35944979 A
1 A
35944980 TTTTTTCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAAAAATTCATCCA
Found at i:35945724 original size:3 final size:3
Alignment explanation
Indices: 35945716--35945748 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
35945706 ATTCAACCGT
35945716 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35945749 AAGACGAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35946500 original size:3 final size:3
Alignment explanation
Indices: 35946492--35946516 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35946482 TTTAGGCAAT
35946492 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
35946517 ATGAAGATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:35946838 original size:3 final size:3
Alignment explanation
Indices: 35946830--35946893 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
35946820 GCTTATGTGA
35946830 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* *
35946878 TTA TTG TTG CTG TTG T
1 TTG TTG TTG TTG TTG T
35946894 AGCTGTTGGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.02, C:0.02, G:0.31, T:0.66
Consensus pattern (3 bp):
TTG
Done.