Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 112 of 204
Found at i:34770726 original size:110 final size:110
Alignment explanation
Indices: 34770523--34771623 Score: 724
Period size: 110 Copynumber: 10.0 Consensus size: 110
34770513 GTATACAGGG
* * * ** **
34770523 AAAAAAAA-TTTTGGGTGTTGGCCTGTCAATGGCCGGCACCACCTTTATGT---AATTTTTTTTA
1 AAAAAAAATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAATAATTTA
* * *
34770584 CATTTTGAGTTGTCATTGGCTGGCACCAGTATAC-AAAAAATTCA
66 CATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
* * ** *
34770628 AAAAAAGAATATTTTGTTGGTGGCCTGGCAATGGTTGGCACCACCTTTATGTAAAAAAAGAATTT
1 AAAAAA-AATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAATAATTT
* *
34770693 ACATTTTGGGTTATCATTGGCCGGCACCAGTATACGAAAAAATTCA
65 ACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
*** * * **
34770739 AAAAAAAA-----AAAT--T----TGGCAATGGCCGGCACCACCTTTATG----CAATTTTTTTA
1 AAAAAAAATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAATAATTT-
* * * *
34770789 ACATTTTGGTCTGTCATTAGCCGGCACCAGTATACAAAAAAATTTAA
65 ACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAA-TTCA
* ***
34770836 AAAAAAAATTTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAATTTCTTTTTTT
1 AAAAAAAATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAA--------AAA
* ** **
34770901 TTTTTTTACATTTTGGGCTGTCATTGGCCAACACCAGTATACGAAAACAATTC-
58 ATAATTTACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAA-AATTCA
** *** **
34770954 --AAAATTTTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAATTTTTTTTTT
1 AAAAAAAATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAA-AAATAATTT
* ** *
34771017 ACATTTTGGGCTATCATTGGTTGGCACCAGTATACAAAAAAATTCA
65 ACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
* * * * * ***** **
34771063 AAAAAAAATTTTTT-GAGGTGGCCAGGCAATGGCCTGCACCACATTTAAGTAATTTTTTTTTTTT
1 AAAAAAAATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAA-AAAAATAATTT
* ** * *
34771127 ACATTTTGGGATGTCATTGGTTGGCACTAGTATACGAAAAAATTAAA
65 ACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATT-CA
* * * * *
34771174 AAAAAAAATTTTTTTGGTGGTGGCTTGACAATGGACAGCATCACCTTTATGTAAAAAAAAATATT
1 AAAAAAAA-TTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGT--AAAAAAATA--
* * * * *
34771239 TTTTTACATTTTGGGCTATCATTTGCAGGCACC-----A-GAAAAAGTTCAA
61 -ATTTACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTC-A
* *
34771285 AAAAAATAAATTTTTGGTGGTGGCCTGGCAATGGCTGGCACCACCTTTATGTAAAAAAATTATAT
1 AAAAAA-AATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAA-TA-A-
* * * *
34771350 TTTTTACATTTTGAGCTGTCATTGGCCTGCACTAGTATATGAAAAAAATT--
62 --TTTACATTTTGGGCTGTCATTGGCCGGCACCAGTATACG-AAAAAATTCA
**** ** * * *
34771400 -AAATTTTTTTTTTCATGGTGGCCCGGCAATGGCCGACACCACTTTTATGT-AAAAAA-AATTTA
1 AAAAAAAATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAATAATTTA
* * * *
34771462 CATTTTGGGCTATCATTGGCCAGCATCAATATACGAAAAAATTCA
66 CATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
* * * ***** **
34771507 AAAAAAAATTTTTTTGTGGTGGCTTGGCAATGGCCGGCACCACCTTTATGGAATTTTTTTTCTTT
1 AAAAAAAATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAA--AAAAAT-AAT
*
34771572 TTACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTGA
63 TTACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
34771620 AAAA
1 AAAA
34771624 TTTTTTTTTT
Statistics
Matches: 783, Mismatches: 147, Indels: 124
0.74 0.14 0.12
Matches are distributed among these distances:
95 5 0.01
96 37 0.05
97 11 0.01
99 24 0.03
102 1 0.00
103 1 0.00
104 1 0.00
105 15 0.02
106 34 0.04
107 35 0.04
108 70 0.09
109 52 0.07
110 124 0.16
111 111 0.14
112 15 0.02
113 111 0.14
114 4 0.01
115 2 0.00
116 50 0.06
117 27 0.03
118 7 0.01
119 37 0.05
120 9 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (110 bp):
AAAAAAAATTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAAAAATAATTTA
CATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTCA
Found at i:34771307 original size:111 final size:110
Alignment explanation
Indices: 34771162--34771372 Score: 284
Period size: 111 Copynumber: 1.9 Consensus size: 110
34771152 ACTAGTATAC
* *
34771162 GAAAAAATTAAAAAAAAAAATTTTTTTGGTGGTGGCTTGACAATGGAC-AGCATCACCTTTATGT
1 GAAAAAATTAAAAAAAAAAA-TTTTTTGGTGGTGGCCTGACAATGG-CTAGCACCACCTTTATGT
*
34771226 AAAAAAAA-ATATTTTTTTACATTTTGGGCTATCATTTGCAGGCACCA
64 AAAAAAAATATA-TTTTTTACATTTTGAGCTATCATTTGCAGGCACCA
* * *
34771273 GAAAAAGTTCAAAAAAAATAAA-TTTTTGGTGGTGGCCTGGCAATGGCTGGCACCACCTTTATGT
1 GAAAAAATT-AAAAAAAA-AAATTTTTTGGTGGTGGCCTGACAATGGCTAGCACCACCTTTATGT
* *
34771337 AAAAAAATTATATTTTTTACATTTTGAGCTGTCATT
64 AAAAAAAATATATTTTTTACATTTTGAGCTATCATT
34771373 GGCCTGCACT
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
110 1 0.01
111 73 0.83
112 11 0.12
113 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (110 bp):
GAAAAAATTAAAAAAAAAAATTTTTTGGTGGTGGCCTGACAATGGCTAGCACCACCTTTATGTAA
AAAAAATATATTTTTTACATTTTGAGCTATCATTTGCAGGCACCA
Found at i:34771575 original size:447 final size:445
Alignment explanation
Indices: 34770825--34771652 Score: 1095
Period size: 447 Copynumber: 1.8 Consensus size: 445
34770815 CCAGTATACA
* *
34770825 AAAAAATTTAAAAAAAAAATTTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAA
1 AAAAAATTCAAAAAAAAAAATTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAA
**** * * * *
34770890 TTTCTTTTTTTTTTTTTTACATTTTGGGCTGTCATTGGCCAACACCAGTATACGAAAACAATTCA
66 --TAAAATTATATTTTTTACATTTTGAGCTGTCATTGGCCAACACCAGTATACGAAAAAAATTCA
** * * ****
34770955 AAATTTTTTTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTATGTAAAATTTTTTTTTTACA
129 AAATTTTTTTTCATGGTGGCCCGGCAATGGCCGACACCACCTTTATGTAAAA--TAAAATTTACA
*** *
34771020 TTTTGGGCTATCATTGGTTGGCACCAGTATACAAAAAAATTCAAAAAAAAATTTTTTGAGGTGGC
192 TTTTGGGCTATCATTGGCCAGCACCAATATACAAAAAAATTCAAAAAAAAATTTTTTGAGGTGGC
* * **
34771085 CAGGCAATGGCCTGCACCACATTTAAGTAATTTTTTTTTTTTACATTTTGGGATGTCATTGGTTG
257 CAGGCAATGGCCGGCACCACATTTAAGGAATTTTTTTTTTTTACATTTTGGGATGTCATTGGCCG
* *
34771150 GCACTAGTATACGAAAAAATTAAAAAAAAAAATTTTTTTGGTGGTGGCTTGACAATGGACAGCAT
322 GCACCAGTATACGAAAAAATTAAAAAAAAAAATTTTTTTGGTGGTGGCCTGACAATGGACAGCAT
34771215 CACCTTTATGTAAAAAAAAATATTTTTTTACATTTTGGGCTATCATTTGCAGGCACCAG
387 CACCTTTATGTAAAAAAAAATATTTTTTTACATTTTGGGCTATCATTTGCAGGCACCAG
* * *
34771274 AAAAAGTTCAAAAAAAATAAATTTTTGGTGGTGGCCTGGCAATGGCTGGCACCACCTTTATGTAA
1 AAAAAATTCAAAAAAAA-AAATTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAA
** * *
34771339 A-AAAATTATATTTTTTACATTTTGAGCTGTCATTGGCCTGCACTAGTATATGAAAAAAATT-AA
65 ATAAAATTATATTTTTTACATTTTGAGCTGTCATTGGCCAACACCAGTATACGAAAAAAATTCAA
* *
34771402 ATTTTTTTTTTCATGGTGGCCCGGCAATGGCCGACACCACTTTTATGTAAAA-AAAATTTACATT
130 A-ATTTTTTTTCATGGTGGCCCGGCAATGGCCGACACCACCTTTATGTAAAATAAAATTTACATT
* * * *
34771466 TTGGGCTATCATTGGCCAGCATCAATATACGAAAAAATTCAAAAAAAAATTTTTTTGTGGTGGCT
194 TTGGGCTATCATTGGCCAGCACCAATATACAAAAAAATTCAAAAAAAAA-TTTTTTGAGGTGGCC
* * * *
34771531 TGGCAATGGCCGGCACCACCTTTATGGAATTTTTTTTCTTTTTACATTTTGGGCTGTCATTGGCC
258 AGGCAATGGCCGGCACCACATTTAAGGAA-TTTTTTT-TTTTTACATTTTGGGATGTCATTGGCC
* *****
34771596 GGCACCAGTATACGAAAAAATTGAAAAATTTTTTTTTTTTGGTGGTGGCCTGACAAT
321 GGCACCAGTATACGAAAAAATTAAAAAAAAAAATTTTTTTGGTGGTGGCCTGACAAT
34771653 TGCCGACACC
Statistics
Matches: 323, Mismatches: 51, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
444 51 0.16
445 37 0.11
446 10 0.03
447 165 0.51
449 15 0.05
450 45 0.14
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (445 bp):
AAAAAATTCAAAAAAAAAAATTTTTGGTGGTGGCCTGGCAATAGCCGGCACCACCTTTATGTAAA
TAAAATTATATTTTTTACATTTTGAGCTGTCATTGGCCAACACCAGTATACGAAAAAAATTCAAA
ATTTTTTTTCATGGTGGCCCGGCAATGGCCGACACCACCTTTATGTAAAATAAAATTTACATTTT
GGGCTATCATTGGCCAGCACCAATATACAAAAAAATTCAAAAAAAAATTTTTTGAGGTGGCCAGG
CAATGGCCGGCACCACATTTAAGGAATTTTTTTTTTTTACATTTTGGGATGTCATTGGCCGGCAC
CAGTATACGAAAAAATTAAAAAAAAAAATTTTTTTGGTGGTGGCCTGACAATGGACAGCATCACC
TTTATGTAAAAAAAAATATTTTTTTACATTTTGGGCTATCATTTGCAGGCACCAG
Found at i:34771634 original size:113 final size:109
Alignment explanation
Indices: 34770752--34771623 Score: 685
Period size: 113 Copynumber: 7.8 Consensus size: 109
34770742 AAAAAAAATT
* * * *
34770752 TGGCAATGGCCGGCACCACCTTTATG-CAA---TTTTTTTAACATTTTGGTCTGTCATTAGCCGG
1 TGGCAATGGCCGGCACCACCTTTATGAAAATTTTTTTTTTTACATTTTGGGCTGTCATTGGCCGG
*
34770813 CACCAGTATACAAAAAAATTTAAAAAAAAAATTTTTTGGTGGTGGCC
66 CACCAGTATACGAAAAAA-TT--AAAAAAAATTTTTTGGTGGTGGCC
* *
34770860 TGGCAATAGCCGGCACCACCTTTATGTAAATTTCTTTTTTTTTTTTTTACATTTTGGGCTGTCAT
1 TGGCAATGGCCGGCACCACCTTTATG-AAA------ATTTTTTTTTTTACATTTTGGGCTGTCAT
** * **
34770925 TGGCCAACACCAGTATACGAAAACAATT-CAAAATTTTTTTTGGTGGTGGCC
59 TGGCCGGCACCAGTATACGAAAA-AATTAAAAAAAATTTTTTGGTGGTGGCC
* **
34770976 TGGCAATGGCCGGCACCACCTTTATGTAAAA-TTTTTTTTTTACATTTTGGGCTATCATTGGTTG
1 TGGCAATGGCCGGCACCACCTTTATG-AAAATTTTTTTTTTTACATTTTGGGCTGTCATTGGCCG
* *
34771040 GCACCAGTATACAAAAAAATTCAAAAAAAAATTTTTT-GAGGTGGCC
65 GCACCAGTATACGAAAAAATT--AAAAAAAATTTTTTGGTGGTGGCC
* * * * * * * **
34771086 AGGCAATGGCCTGCACCACATTTAAGTAATTTTTTTTTTTTACATTTTGGGATGTCATTGGTTGG
1 TGGCAATGGCCGGCACCACCTTTATGAAAATTTTTTTTTTTACATTTTGGGCTGTCATTGGCCGG
* *
34771151 CACTAGTATACGAAAAAATTAAAAAAAAAAATTTTTTTGGTGGTGGCT
66 CACCAGTATACGAAAAAATT---AAAAAAAA-TTTTTTGGTGGTGGCC
* * * * ** * * *
34771199 TGACAATGGACAGCATCACCTTTATGTAAAAAAAAATATTTTTTTACATTTTGGGCTATCATTTG
1 TGGCAATGGCCGGCACCACCTTTATG----AAAATTTTTTTTTTTACATTTTGGGCTGTCATTGG
* * * * ** *
34771264 CAGGCACCAGAAAAAGTTCAAAA--AAAATAAA-TTTTTGGTGGTGGCC
62 CCGGCACCAGTATACG-AAAAAATTAAAAAAAATTTTTTGGTGGTGGCC
* * * *
34771310 TGGCAATGGCTGGCACCACCTTTATGTAAAAAAATTATATTTTTTACATTTTGAGCTGTCATTGG
1 TGGCAATGGCCGGCACCACCTTTATG----AAAATTTTTTTTTTTACATTTTGGGCTGTCATTGG
* * * **** **
34771375 CCTGCACTAGTATATGAAAAAAATT-AAATTTTTTTTTTCATGGTGGCC
62 CCGGCACCAGTATACG-AAAAAATTAAAAAAAATTTTTTGGTGGTGGCC
* * * **** * *
34771423 CGGCAATGGCCGACACCACTTTTATGTAAAA----AAAATTTACATTTTGGGCTATCATTGGCCA
1 TGGCAATGGCCGGCACCACCTTTATG-AAAATTTTTTTTTTTACATTTTGGGCTGTCATTGGCCG
* * * *
34771484 GCATCAATATACGAAAAAATTCAAAAAAAAATTTTTTTGTGGTGGCT
65 GCACCAGTATACGAAAAAATT--AAAAAAAATTTTTTGGTGGTGGCC
**
34771531 TGGCAATGGCCGGCACCACCTTTATGGAATTTTTTTTCTTTTTACATTTTGGGCTGTCATTGGCC
1 TGGCAATGGCCGGCACCACCTTTAT-GAAAATTTTTT-TTTTTACATTTTGGGCTGTCATTGGCC
*
34771596 GGCACCAGTATACGAAAAAATTGAAAAA
64 GGCACCAGTATACGAAAAAATTAAAAAA
34771624 TTTTTTTTTT
Statistics
Matches: 603, Mismatches: 125, Indels: 69
0.76 0.16 0.09
Matches are distributed among these distances:
105 8 0.01
106 33 0.05
108 69 0.11
109 47 0.08
110 85 0.14
111 104 0.17
112 10 0.02
113 111 0.18
116 49 0.08
117 37 0.06
118 4 0.01
119 44 0.07
120 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (109 bp):
TGGCAATGGCCGGCACCACCTTTATGAAAATTTTTTTTTTTACATTTTGGGCTGTCATTGGCCGG
CACCAGTATACGAAAAAATTAAAAAAAATTTTTTGGTGGTGGCC
Found at i:34774617 original size:54 final size:55
Alignment explanation
Indices: 34774538--34774656 Score: 152
Period size: 56 Copynumber: 2.2 Consensus size: 55
34774528 ATATTCTTGT
* *
34774538 AAAAATAAATTTGCATTGAAAATAG-AAAT-TTTAAATATAAAATGAAATGAGAA
1 AAAAATAAATTTCCATTGAAAATAGAAAATATGTAAATATAAAATGAAATGAGAA
* * * **
34774591 AAAAATTAAATTTCCTTTGGAAATAGAAAATATGTAGATATAAAATGAAATGAGGT
1 AAAAA-TAAATTTCCATTGAAAATAGAAAATATGTAAATATAAAATGAAATGAGAA
34774647 AAAAATAAAT
1 AAAAATAAAT
34774657 GTTATCAGGC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 5 0.09
54 17 0.30
55 9 0.16
56 25 0.45
ACGTcount: A:0.56, C:0.03, G:0.13, T:0.29
Consensus pattern (55 bp):
AAAAATAAATTTCCATTGAAAATAGAAAATATGTAAATATAAAATGAAATGAGAA
Found at i:34778860 original size:33 final size:33
Alignment explanation
Indices: 34778813--34778880 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
34778803 AAGCTGCACA
*
34778813 TAAGGTATCTGGGCACCAAAGACCTGACGAGCC
1 TAAGGTATCCGGGCACCAAAGACCTGACGAGCC
34778846 TAAGGTATCCGGGCACCAAAGACCTGACGAGCC
1 TAAGGTATCCGGGCACCAAAGACCTGACGAGCC
34778879 TA
1 TA
34778881 TTCGGAGTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (33 bp):
TAAGGTATCCGGGCACCAAAGACCTGACGAGCC
Found at i:34782271 original size:27 final size:27
Alignment explanation
Indices: 34782233--34782285 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
34782223 TTTTTTTTAC
*
34782233 TTTTTTTTATAATTGGATATAAGTAGA
1 TTTTTTTTATAATGGGATATAAGTAGA
*
34782260 TTTTTTTTATAATGGGTTATAAGTAG
1 TTTTTTTTATAATGGGATATAAGTAG
34782286 TGAGATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (27 bp):
TTTTTTTTATAATGGGATATAAGTAGA
Found at i:34793835 original size:32 final size:32
Alignment explanation
Indices: 34793799--34793863 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
34793789 TTTGTTAGAT
*
34793799 ATTTATTATGTTTTAAGCTTGTTAGATTTTGA
1 ATTTATTATGTTTTAAGCTTGTTAGATATTGA
*
34793831 ATTTATTATGTTTTAAGCTTGTTGGATATTGA
1 ATTTATTATGTTTTAAGCTTGTTAGATATTGA
34793863 A
1 A
34793864 ATGATTGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.03, G:0.17, T:0.54
Consensus pattern (32 bp):
ATTTATTATGTTTTAAGCTTGTTAGATATTGA
Found at i:34795281 original size:20 final size:20
Alignment explanation
Indices: 34795252--34795291 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34795242 AAATATTTTC
* *
34795252 AGTAAGTCATTTTTCAGAAA
1 AGTAAATCATTTTCCAGAAA
34795272 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
34795292 TTATTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:34799373 original size:12 final size:12
Alignment explanation
Indices: 34799356--34799389 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34799346 ATATATTTTT
34799356 TAAAAAATTATA
1 TAAAAAATTATA
*
34799368 TAAAAAATAATA
1 TAAAAAATTATA
*
34799380 TAATAAATTA
1 TAAAAAATTA
34799390 ATATGGGGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
TAAAAAATTATA
Found at i:34800624 original size:9 final size:9
Alignment explanation
Indices: 34800596--34800635 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
34800586 CATCCATCTT
34800596 TCAACTCTC
1 TCAACTCTC
*
34800605 TCAAACCCTC
1 TC-AACTCTC
*
34800615 TCAAGTCTC
1 TCAACTCTC
34800624 TCAACTCTC
1 TCAACTCTC
34800633 TCA
1 TCA
34800636 TTTTAAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.25, C:0.42, G:0.03, T:0.30
Consensus pattern (9 bp):
TCAACTCTC
Found at i:34802569 original size:37 final size:33
Alignment explanation
Indices: 34802527--34802634 Score: 90
Period size: 37 Copynumber: 3.0 Consensus size: 33
34802517 CAAGATAAAC
34802527 ATTAAATTTAATTTAATATTAAGATAATCACATTAA
1 ATTAAATTTAATTTAATATTAAGATAAT---ATTAA
** *
34802563 TATTAAATTAATAAAATACTATTAAGATAAGTATTAA
1 -ATTAAATT--TAATTTAATATTAAGATAA-TATTAA
*
34802600 ATTAAATTTAATATTAAACTATTAAAATAATATTA
1 ATTAAATTTAAT-TT-AA-TATTAAGATAATATTA
34802635 TTTTTGGAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
34 3 0.05
35 1 0.02
36 14 0.24
37 23 0.40
39 16 0.28
40 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (33 bp):
ATTAAATTTAATTTAATATTAAGATAATATTAA
Found at i:34802574 original size:31 final size:29
Alignment explanation
Indices: 34802518--34802575 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
34802508 ATTTATATAC
*
34802518 AAGATAAACATTAAATTTAATTTAATATT
1 AAGATAAACATTAAATTTAAATTAATATT
34802547 AAGATAATCACATT-AATATTAAATTAATA
1 AAGATAA--ACATTAAAT-TTAAATTAATA
34802576 AAATACTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 7 0.28
30 3 0.12
31 15 0.60
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (29 bp):
AAGATAAACATTAAATTTAAATTAATATT
Found at i:34803540 original size:11 final size:11
Alignment explanation
Indices: 34803525--34803574 Score: 82
Period size: 11 Copynumber: 4.4 Consensus size: 11
34803515 AAAAATGAAA
34803525 AAAAAGTATTTT
1 AAAAA-TATTTT
34803537 AAAAATATTTT
1 AAAAATATTTT
34803548 AAAAAGTATTTT
1 AAAAA-TATTTT
34803560 AAAAATATTTT
1 AAAAATATTTT
34803571 AAAA
1 AAAA
34803575 TTAAAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
11 21 0.57
12 16 0.43
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:34803551 original size:23 final size:23
Alignment explanation
Indices: 34803525--34803615 Score: 102
Period size: 23 Copynumber: 4.2 Consensus size: 23
34803515 AAAAATGAAA
34803525 AAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTT
34803548 AAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTT
* * **
34803571 --AAA--A-TTAAAAAATAATAA
1 AAAAAGTATTTTAAAAATATTTT
*
34803589 AAAAAGGATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTT
34803612 AAAA
1 AAAA
34803616 TTAAAAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
18 10 0.18
19 1 0.02
20 3 0.05
21 3 0.05
22 1 0.02
23 37 0.67
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAAAGTATTTTAAAAATATTTT
Found at i:34803552 original size:12 final size:12
Alignment explanation
Indices: 34803524--34803574 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
34803514 TAAAAATGAA
34803524 AAAAAAGTATTTT
1 AAAAAA-TATTTT
34803537 -AAAAATATTTT
1 AAAAAATATTTT
*
34803548 AAAAAGTATTTT
1 AAAAAATATTTT
34803560 -AAAAATATTTT
1 AAAAAATATTTT
34803571 AAAA
1 AAAA
34803575 TTAAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 16 0.47
12 18 0.53
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (12 bp):
AAAAAATATTTT
Found at i:34803621 original size:17 final size:17
Alignment explanation
Indices: 34803599--34803644 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
34803589 AAAAAGGATT
34803599 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
* *
34803616 TTAAAAAAAATTTAAAA
1 TTAAAAATATTTTAAAA
* *
34803633 ATAAATATATTT
1 TTAAAAATATTT
34803645 ATTATATCGG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:34803633 original size:41 final size:41
Alignment explanation
Indices: 34803537--34803633 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
34803527 AAAGTATTTT
* * *
34803537 AAAAATATTTTAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAAATTTAAAAAAGGATTTTAAAAATATTTTAAAATTA
*
34803578 AAAAATAA-TAAAAAAAGGATTTTAAAAATATTTTAAAATTA
1 AAAAA-AATTTAAAAAAGGATTTTAAAAATATTTTAAAATTA
34803619 AAAAAAATTTAAAAA
1 AAAAAAATTTAAAAA
34803634 TAAATATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 2 0.04
41 46 0.94
42 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (41 bp):
AAAAAAATTTAAAAAAGGATTTTAAAAATATTTTAAAATTA
Found at i:34804994 original size:20 final size:20
Alignment explanation
Indices: 34804969--34805008 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34804959 GAGGAGCACA
*
34804969 TCGTAGGATGTAACATTTAC
1 TCGTAGGATGCAACATTTAC
*
34804989 TCGTAGGATGCAACCTTTAC
1 TCGTAGGATGCAACATTTAC
34805009 CCGTTTGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGTAGGATGCAACATTTAC
Found at i:34808687 original size:52 final size:52
Alignment explanation
Indices: 34808609--34808709 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
34808599 CATGTACATA
* * *
34808609 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGTTGCTGTCTATTATTG
1 TTTGAGCTTCAACCAAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTATTG
*
34808661 TTTGAGCTTCAACCAAGCTGGAAATGAGGTCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCAAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTA
34808710 CGTTTCCTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (52 bp):
TTTGAGCTTCAACCAAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTATTG
Found at i:34822395 original size:14 final size:14
Alignment explanation
Indices: 34822376--34822426 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
34822366 ACTTAAAATT
34822376 TAAAATTTTAAAAA
1 TAAAATTTTAAAAA
34822390 TAAAATTTATAAAAA
1 TAAAATTT-TAAAAA
*
34822405 TAAGAA-TATAAAAA
1 TAA-AATTTTAAAAA
*
34822419 TTAAATTT
1 TAAAATTT
34822427 CAAATATGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.06
14 17 0.55
15 10 0.32
16 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
TAAAATTTTAAAAA
Found at i:34822761 original size:29 final size:29
Alignment explanation
Indices: 34822695--34822762 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
34822685 AAAAAATAAT
34822695 CAAAATATTAT-A--ATTTTTTTATTTAC
1 CAAAATATTATAATTATTTTTTTATTTAC
34822721 CAAAATATTATAATTATTTTTATTATTTAC
1 CAAAATATTATAATTATTTTT-TTATTTAC
*
34822751 TAAAATA-TATAA
1 CAAAATATTATAA
34822763 AAAAAACAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 11 0.30
27 1 0.03
29 11 0.30
30 14 0.38
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (29 bp):
CAAAATATTATAATTATTTTTTTATTTAC
Found at i:34822864 original size:27 final size:27
Alignment explanation
Indices: 34822834--34822931 Score: 180
Period size: 27 Copynumber: 3.6 Consensus size: 27
34822824 AGGCCAATGG
34822834 CATTGGCGGCACCAGA-GGTGCCAAAGC
1 CATTGGCGGCACCA-ATGGTGCCAAAGC
34822861 CATTGGCGGCACCAATGGTGCCAAAGC
1 CATTGGCGGCACCAATGGTGCCAAAGC
34822888 CATTGGCGGCACCAATGGTGCCAAAGC
1 CATTGGCGGCACCAATGGTGCCAAAGC
34822915 CATTGGCGGCACCAATG
1 CATTGGCGGCACCAATG
34822932 CCATAATAGG
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
26 1 0.01
27 69 0.99
ACGTcount: A:0.26, C:0.30, G:0.31, T:0.14
Consensus pattern (27 bp):
CATTGGCGGCACCAATGGTGCCAAAGC
Found at i:34822982 original size:4 final size:4
Alignment explanation
Indices: 34822973--34823122 Score: 59
Period size: 4 Copynumber: 37.0 Consensus size: 4
34822963 GAAGGAGAGG
* * * *
34822973 GAAA GAAA GAAA GAAA GGAAG GAAG GAAG GAGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA -GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA
* *
34823021 GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAGA GAAGA GAAA -AAA -AAA
1 GAAA GAAA G-AAA -GAAA GAAA GAA-A GAA-A GAA-A GAAA GAAA GAAA
34823067 GGAAA G-AA GAAA -AAGA GGAAA GGAGAA GAAA -AAA GAAA G-AA -AAA
1 -GAAA GAAA GAAA GAA-A -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA
*
34823111 GAAG GAAA GAAA
1 GAAA GAAA GAAA
34823123 AGGAAAGGAG
Statistics
Matches: 120, Mismatches: 8, Indels: 36
0.73 0.05 0.22
Matches are distributed among these distances:
3 24 0.20
4 55 0.46
5 36 0.30
6 5 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:34823022 original size:44 final size:45
Alignment explanation
Indices: 34822974--34823127 Score: 142
Period size: 44 Copynumber: 3.4 Consensus size: 45
34822964 AAGGAGAGGG
34822974 AAAGAAAGAAAG-AAAGGAAGGAAGGAAGGAGAGGAAAGAAAGAA
1 AAAGAAAGAAAGAAAAGGAAGGAAGGAAGGAGAGGAAAGAAAGAA
* *
34823018 AAAGAAGGAAAGAAAAGGAAAGG-A-GAA-GAGAAGAGAAGAGAAAAAA
1 AAAGAAAGAAAGAAAAGG-AAGGAAGGAAGGAG-AG-GAA-AGAAAGAA
* * **
34823064 AAAGGAAAG-AAGAAAAAG-AGGAAAGG-AGAAGAAAAAAGAAAGAA
1 AAA-GAAAGAAAGAAAAGGAAGG-AAGGAAGGAGAGGAAAGAAAGAA
*
34823108 AAAGAAGGAAAGAAAAGGAA
1 AAAGAAAGAAAGAAAAGGAA
34823128 AGGAGAAGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
43 7 0.08
44 37 0.42
45 12 0.14
46 25 0.28
47 7 0.08
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (45 bp):
AAAGAAAGAAAGAAAAGGAAGGAAGGAAGGAGAGGAAAGAAAGAA
Found at i:34823023 original size:10 final size:10
Alignment explanation
Indices: 34823008--34823154 Score: 54
Period size: 10 Copynumber: 14.5 Consensus size: 10
34822998 GAAGGAGAGG
34823008 AAAGAAAGAA
1 AAAGAAAGAA
*
34823018 AAAGAAGGAA
1 AAAGAAAGAA
* *
34823028 AGA-AAAGGA
1 AAAGAAAGAA
*
34823037 AAGGAGAAGAGA
1 AAAGA-AAGA-A
*
34823049 AGAGAAGAGAA
1 AAAGAA-AGAA
* *
34823060 AAAAAAAG-G
1 AAAGAAAGAA
34823069 AAAG-AAGAA
1 AAAGAAAGAA
*
34823078 AAAG--AGGA
1 AAAGAAAGAA
*
34823086 AAGGAGAAGAAA
1 AAAGA-AAG-AA
34823098 AAAGAAAGAA
1 AAAGAAAGAA
*
34823108 AAAGAAGGAA
1 AAAGAAAGAA
*
34823118 AGAA-AAGGAA
1 A-AAGAAAGAA
*
34823128 AGGAGAAGAGAA
1 A-AAGAA-AGAA
*
34823140 AAAAAAAGAA
1 AAAGAAAGAA
*
34823150 GAAGA
1 AAAGA
34823155 GGGAAGGAAG
Statistics
Matches: 100, Mismatches: 25, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
8 9 0.09
9 12 0.12
10 42 0.42
11 21 0.21
12 16 0.16
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:34823099 original size:36 final size:36
Alignment explanation
Indices: 34823059--34823174 Score: 102
Period size: 41 Copynumber: 3.3 Consensus size: 36
34823049 AGAGAAGAGA
34823059 AAAAAAAAGGAAAGAAGAAAAAGAGGAAAGGAGAAG
1 AAAAAAAAGGAAAGAAGAAAAAGAGGAAAGGAGAAG
* *
34823095 AAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG
1 -AAAAA-AAAG-GAAAGAA-GAAA-AAGAGGAAAGGAGAAG
* *
34823136 AGAAAAAA--AAAGAAG---AAGAGGGAA-G-GAAG
1 AAAAAAAAGGAAAGAAGAAAAAGAGGAAAGGAGAAG
34823165 AAAAAAAAGG
1 AAAAAAAAGG
34823175 TAATTTTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
29 11 0.16
30 1 0.01
31 7 0.10
35 1 0.01
36 6 0.09
37 5 0.07
38 4 0.06
39 9 0.13
40 8 0.12
41 15 0.22
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (36 bp):
AAAAAAAAGGAAAGAAGAAAAAGAGGAAAGGAGAAG
Found at i:34823112 original size:39 final size:42
Alignment explanation
Indices: 34823050--34823159 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
34823040 GAGAAGAGAA
* *
34823050 GAGAAGAGAAAAAAAAAG-GAAAGAA-GAAA-AAGAGGAAAG
1 GAGAAGAGAAAAAAAAAGAAAAAGAAGGAAAGAAAAGGAAAG
*
34823089 GAGAAGA-AAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAG
1 GAGAAGAGAAAAAAAAAGAAAAAGAAGGAAAGAAAAGGAAAG
* *
34823130 GAGAAGAGAAAAAAAAAGAAGAAGAGGGAA
1 GAGAAGAGAAAAAAAAAGAAAAAGAAGGAA
34823160 GGAAGAAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
38 9 0.15
39 13 0.21
40 4 0.07
41 16 0.26
42 19 0.31
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (42 bp):
GAGAAGAGAAAAAAAAAGAAAAAGAAGGAAAGAAAAGGAAAG
Found at i:34823162 original size:31 final size:31
Alignment explanation
Indices: 34823010--34823172 Score: 92
Period size: 31 Copynumber: 5.4 Consensus size: 31
34823000 AGGAGAGGAA
* *
34823010 AGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAAGAAAAAAAAAGAAAGAAAAGGAAAGG
* * *
34823041 AG-AAGAGAAGAGAAGAGAA-AAAA--AAA-G
1 AGAAAGAAAAAAAAAGA-AAGAAAAGGAAAGG
* * **
34823068 -GAAAGAAGAAAAAGAGGAAAGGAGAA-GAAAAA
1 AGAAAGAA-AAAAA-AAGAAA-GAAAAGGAAAGG
* *
34823100 AGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAAGAAAAAAAAAGAAAGAAAAGGAAAGG
* *
34823131 AGAAGAGAAAAAAAAAG-AAGAAGAGGGAAGG
1 AGAA-AGAAAAAAAAAGAAAGAAAAGGAAAGG
34823162 AAGAAA-AAAAA
1 -AGAAAGAAAAA
34823173 GGTAATTTTT
Statistics
Matches: 101, Mismatches: 19, Indels: 25
0.70 0.13 0.17
Matches are distributed among these distances:
26 1 0.01
27 5 0.05
28 8 0.08
29 3 0.03
30 25 0.25
31 34 0.34
32 18 0.18
33 7 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (31 bp):
AGAAAGAAAAAAAAAGAAAGAAAAGGAAAGG
Found at i:34828997 original size:18 final size:19
Alignment explanation
Indices: 34828957--34828998 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
34828947 CCAATGATCG
34828957 CCACCACCTTCTTCTTCGA
1 CCACCACCTTCTTCTTCGA
34828976 -CACCACCTTCTTCTTC-A
1 CCACCACCTTCTTCTTCGA
34828993 CCACCA
1 CCACCA
34828999 ACCATATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.19, C:0.50, G:0.02, T:0.29
Consensus pattern (19 bp):
CCACCACCTTCTTCTTCGA
Found at i:34829771 original size:3 final size:3
Alignment explanation
Indices: 34829763--34829866 Score: 106
Period size: 3 Copynumber: 34.7 Consensus size: 3
34829753 TCTTAATACT
* *
34829763 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC TAA- AAC TAT AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC -AAC AAC AAC AAC AAC
* * *
34829808 AAT ATA- ATC AAC AAT ATA- AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC A-AC AAC AAC AAC A-AC AAC AAC AAC AAC AAC AAC AAC AAC AAC
*
34829853 AGC AAC AAC AAC AA
1 AAC AAC AAC AAC AA
34829867 TAATAATAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
2 3 0.04
3 78 0.92
4 4 0.05
ACGTcount: A:0.64, C:0.27, G:0.01, T:0.08
Consensus pattern (3 bp):
AAC
Found at i:34830164 original size:27 final size:27
Alignment explanation
Indices: 34830118--34830210 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
34830108 AACACGAGTA
34830118 GTGCCGCCAAT--CTGTATGGCACCATTG
1 GTGCCGCCAATGGCT-T-TGGCACCATTG
*
34830145 GTGTCGCCAATGGCTTTGGCACCATTG
1 GTGCCGCCAATGGCTTTGGCACCATTG
** *
34830172 GTGCCGCCAATGGCTTTGGTGCCTTTG
1 GTGCCGCCAATGGCTTTGGCACCATTG
*
34830199 GTGCCGGCAATG
1 GTGCCGCCAATG
34830211 CCATTGGCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
27 55 0.95
28 1 0.02
29 2 0.03
ACGTcount: A:0.14, C:0.27, G:0.31, T:0.28
Consensus pattern (27 bp):
GTGCCGCCAATGGCTTTGGCACCATTG
Found at i:34830324 original size:26 final size:29
Alignment explanation
Indices: 34830266--34830335 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 29
34830256 CAGGTTTTTT
34830266 TTAT-ATATTTTGGTAAATAATAAAAATAA
1 TTATAATATTTTGGT-AATAATAAAAATAA
*
34830295 TTATAATATTTTGGT-A-AATAAAAA-AG
1 TTATAATATTTTGGTAATAATAAAAATAA
34830321 TTATAATATTTTGGT
1 TTATAATATTTTGGT
34830336 TATTTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 16 0.41
27 8 0.21
28 1 0.03
29 4 0.10
30 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (29 bp):
TTATAATATTTTGGTAATAATAAAAATAA
Found at i:34833056 original size:20 final size:19
Alignment explanation
Indices: 34833025--34833078 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
34833015 TCTCTCAACA
34833025 AAAAATTACAAAATAATTTT
1 AAAAATT-CAAAATAATTTT
*
34833045 CAAAAATTCAAAATCATTTT
1 -AAAAATTCAAAATAATTTT
*
34833065 TAAAATTCAAAATA
1 AAAAATTCAAAATA
34833079 TTTATATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 12 0.40
20 11 0.37
21 7 0.23
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:34836602 original size:30 final size:28
Alignment explanation
Indices: 34836563--34836651 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 28
34836553 ACAGGCTGGC
*
34836563 ACATGGGCGTGTGTCCAGCCTGTGTGGCTT
1 ACAT-GGCGTGTG-CCAGCCCGTGTGGCTT
* * *
34836593 ACATAGGCGTGTGCCTAACCCCTGTGGGTT
1 ACAT-GGCGTGTGCC-AGCCCGTGTGGCTT
34836623 ACATGAGCGTGTGCCCAGCCCGTGTGGCT
1 ACATG-GCGTGTG-CCAGCCCGTGTGGCT
34836652 CTTGAAATCT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 3 0.06
30 43 0.90
31 2 0.04
ACGTcount: A:0.13, C:0.27, G:0.34, T:0.26
Consensus pattern (28 bp):
ACATGGCGTGTGCCAGCCCGTGTGGCTT
Found at i:34838398 original size:6 final size:6
Alignment explanation
Indices: 34838387--34838444 Score: 93
Period size: 6 Copynumber: 10.0 Consensus size: 6
34838377 AGAAACAACC
*
34838387 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA CT-AAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
34838434 A-AAAA ATAAAA
1 ATAAAA ATAAAA
34838445 CAAATAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
5 7 0.15
6 41 0.85
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:34838453 original size:18 final size:17
Alignment explanation
Indices: 34838390--34838453 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
34838380 AACAACCATA
* *
34838390 AAAATAAAAATAAAAAT
1 AAAACAAAAAAAAAAAT
34838407 AAAA-ATAAAAATAAAAAT
1 AAAACA-AAAAA-AAAAAT
*
34838425 AAAAC-TAAAAAAAAAT
1 AAAACAAAAAAAAAAAT
*
34838441 AAAACAAATAAAA
1 AAAACAAAAAAAA
34838454 TCAATAATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 12 0.31
17 17 0.44
18 10 0.26
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAACAAAAAAAAAAAT
Found at i:34840121 original size:22 final size:21
Alignment explanation
Indices: 34840073--34840192 Score: 73
Period size: 22 Copynumber: 5.2 Consensus size: 21
34840063 GTTAAATAAC
* *
34840073 ATAACAATAATAAGAACAAAAATA
1 ATAA-AATAATAATAA-AAACA-A
34840097 ATAAACATAATAATAAAAACAA
1 ATAAA-ATAATAATAAAAACAA
*
34840119 ATAGAAAGAATAATAATAAAACAA
1 ATA-AAATAATAAT-A-AAAACAA
*
34840143 ATGATAATAAATAAT-AAAACAA
1 AT-AAAAT-AATAATAAAAACAA
*
34840165 ATAATAATTAA-AATAAAATAAAA
1 ATAA-AA-TAATAATAAAA-ACAA
34840188 ATAAA
1 ATAAA
34840193 GAGCAAGGGT
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
21 4 0.05
22 28 0.35
23 16 0.20
24 24 0.30
25 7 0.09
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (21 bp):
ATAAAATAATAATAAAAACAA
Found at i:34840137 original size:37 final size:36
Alignment explanation
Indices: 34840081--34840188 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 36
34840071 ACATAACAAT
34840081 AATAAGAACAAA-AATAATAAACATAATAATAAAAACA
1 AATAA-AACAAATAATAATAAACATAATAATAAAAA-A
* * *
34840118 AATAGAAA-GAATAATAATAAAACA-AATGATAATAAAT
1 AATA-AAACAAATAATAAT-AAACATAATAATAA-AAAA
34840155 AATAAAACAAATAATAATTAAA-ATAA-AATAAAAA
1 AATAAAACAAATAATAA-TAAACATAATAATAAAAA
34840189 TAAAGAGCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
35 3 0.05
36 10 0.17
37 36 0.61
38 10 0.17
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (36 bp):
AATAAAACAAATAATAATAAACATAATAATAAAAAA
Found at i:34840149 original size:12 final size:12
Alignment explanation
Indices: 34840078--34840171 Score: 63
Period size: 12 Copynumber: 7.7 Consensus size: 12
34840068 ATAACATAAC
34840078 AATAATAAGAACA
1 AATAATAA-AACA
34840091 AA-AATAATAAACA
1 AATAAT-A-AAACA
34840104 TAATAATAAAAACA
1 -AATAAT-AAAACA
*
34840118 AATAGA-AAGAA-T
1 AATA-ATAA-AACA
34840130 AATAATAAAACA
1 AATAATAAAACA
* *
34840142 AATGAT--AATA
1 AATAATAAAACA
34840152 AATAATAAAACA
1 AATAATAAAACA
34840164 AATAATAA
1 AATAATAA
34840172 TTAAAATAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 21
0.71 0.07 0.23
Matches are distributed among these distances:
10 8 0.12
11 3 0.05
12 27 0.42
13 13 0.20
14 9 0.14
15 5 0.08
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.19
Consensus pattern (12 bp):
AATAATAAAACA
Found at i:34843981 original size:5 final size:5
Alignment explanation
Indices: 34843973--34844009 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
34843963 AACTAAAAAC
34843973 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
34844010 ATGGCTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:34847305 original size:3 final size:3
Alignment explanation
Indices: 34847297--34847330 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
34847287 CCAATGTCAG
34847297 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
34847331 AGATGGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:34848640 original size:19 final size:19
Alignment explanation
Indices: 34848608--34848649 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
34848598 TCTTATTTAT
34848608 TATATGTTATTTTTAAATA
1 TATATGTTATTTTTAAATA
*
34848627 TATAT-TTATATTTTAAATT
1 TATATGTTAT-TTTTAAATA
34848646 TATA
1 TATA
34848650 ATTTCAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TATATGTTATTTTTAAATA
Found at i:34849176 original size:14 final size:16
Alignment explanation
Indices: 34849157--34849189 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
34849147 GAAGTTGAGG
34849157 TTTGTAA-ATTTTT-T
1 TTTGTAATATTTTTAT
34849171 TTTGTAATATTTTTAT
1 TTTGTAATATTTTTAT
34849187 TTT
1 TTT
34849190 TCATTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 6 0.35
16 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTGTAATATTTTTAT
Found at i:34849196 original size:12 final size:13
Alignment explanation
Indices: 34849181--34849213 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
34849171 TTTGTAATAT
34849181 TTTTATTTTTC-A
1 TTTTATTTTTCTA
34849193 TTTTATTTTTCTA
1 TTTTATTTTTCTA
*
34849206 TTTAATTT
1 TTTTATTT
34849214 CTAATTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTCTA
Found at i:34851086 original size:18 final size:18
Alignment explanation
Indices: 34851065--34851105 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
34851055 TCGTGAGGCA
34851065 TTGGAGGATTGCAATCTC
1 TTGGAGGATTGCAATCTC
34851083 TTGGAGGATTGCAATCTC
1 TTGGAGGATTGCAATCTC
34851101 TTGGA
1 TTGGA
34851106 TTTGGGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (18 bp):
TTGGAGGATTGCAATCTC
Found at i:34856708 original size:28 final size:28
Alignment explanation
Indices: 34856668--34856721 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
34856658 TGTATACTTT
*
34856668 TATTTTTTGAACAAATTGGTTTAACATG
1 TATTTTTTGAACAAATTAGTTTAACATG
34856696 TATTTTTTGAACAAATTAGTTTAACA
1 TATTTTTTGAACAAATTAGTTTAACA
34856722 ATAACATCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (28 bp):
TATTTTTTGAACAAATTAGTTTAACATG
Found at i:34858973 original size:18 final size:21
Alignment explanation
Indices: 34858950--34858987 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
34858940 TGGGAGTAAA
34858950 TTTAGG-TTT-TA-TTAAATT
1 TTTAGGATTTGTAGTTAAATT
34858968 TTTAGGATTTGTAGTTAAAT
1 TTTAGGATTTGTAGTTAAAT
34858988 CATGGACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 2 0.12
21 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTAGGATTTGTAGTTAAATT
Found at i:34861854 original size:3 final size:3
Alignment explanation
Indices: 34861839--34861873 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
34861829 TTGTCGAAAG
*
34861839 CAA CAA TAA CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
34861874 GTTAGTGCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.31, G:0.00, T:0.03
Consensus pattern (3 bp):
CAA
Found at i:34867835 original size:80 final size:77
Alignment explanation
Indices: 34867697--34867947 Score: 306
Period size: 80 Copynumber: 3.1 Consensus size: 77
34867687 CCCTAAAATA
34867697 GGTAAAAT-AACTGAAATACCCCTATAGGGTAAAATAACCGAAATATCCCCATAGGGTAAAATGA
1 GGTAAAATGAAC-GAAATACCCCTATAGGGTAAAATAACCGAAATA-CCCCATAGGGTAAAATGA
*
34867761 CTAAAATAGCCCGTAG
64 CT-AAATA-CCCATAG
* * * *
34867777 GGTAAAATGAACAAAATACCCCTATAGGGTAAAATAATCGAAGTACCCCTATATGGTAAAATGAC
1 GGTAAAATGAACGAAATACCCCTATAGGGTAAAATAACCGAAATACCCC-ATAGGGTAAAATGA-
34867842 CTAAATAACCCCATAG
64 CTAAAT-A-CCCATAG
* * * *
34867858 GATAAAATGAACGAAATACCCTTATAGGGTAAAATGACCGAAATTCCCCCATAGGGTAAAATGAC
1 GGTAAAATGAACGAAATACCCCTATAGGGTAAAATAACCGAAA-TACCCCATAGGGTAAAATGA-
*
34867923 CGAAATACCCTATAG
64 CTAAATACCC-ATAG
34867938 GGTAAAATGA
1 GGTAAAATGA
34867948 CTGTTATACC
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
79 7 0.05
80 69 0.46
81 68 0.46
82 5 0.03
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (77 bp):
GGTAAAATGAACGAAATACCCCTATAGGGTAAAATAACCGAAATACCCCATAGGGTAAAATGACT
AAATACCCATAG
Found at i:34867848 original size:54 final size:52
Alignment explanation
Indices: 34867697--34867948 Score: 283
Period size: 54 Copynumber: 4.7 Consensus size: 52
34867687 CCCTAAAATA
*
34867697 GGTAAAATAACTGAAATACCCCTATAGGGTAAAATAACCGAAATATCCCCATAG
1 GGTAAAATAAC-GAAATACCCCTATAGGGTAAAATGACCGAAATA-CCCCATAG
* * * * * *
34867751 GGTAAAATGACTAAAATAGCCC-GTAGGGTAAAATGAACAAAATACCCCTATAG
1 GGTAAAATAAC-GAAATACCCCTATAGGGTAAAATGACCGAAATACCCC-ATAG
* * *
34867804 GGTAAAATAATCGAAGTACCCCTATATGGTAAAATGACCTAAATAACCCCATAG
1 GGTAAAATAA-CGAAATACCCCTATAGGGTAAAATGACCGAAAT-ACCCCATAG
* * *
34867858 GATAAAATGAACGAAATACCCTTATAGGGTAAAATGACCGAAATTCCCCCATAG
1 GGTAAAAT-AACGAAATACCCCTATAGGGTAAAATGACCGAAA-TACCCCATAG
*
34867912 GGTAAAATGACCGAAATA-CCCTATAGGGTAAAATGAC
1 GGTAAAAT-AACGAAATACCCCTATAGGGTAAAATGAC
34867949 TGTTATACCC
Statistics
Matches: 168, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.02
53 56 0.33
54 100 0.60
55 8 0.05
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (52 bp):
GGTAAAATAACGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCATAG
Found at i:34867959 original size:26 final size:26
Alignment explanation
Indices: 34867697--34867948 Score: 254
Period size: 27 Copynumber: 9.4 Consensus size: 26
34867687 CCCTAAAATA
* *
34867697 GGTAAAATAACTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATA-CCCTATAG
* *
34867724 GGTAAAATAACCGAAATATCCCCATAG
1 GGTAAAATGACCGAAATA-CCCTATAG
** *
34867751 GGTAAAATGACTAAAATAGCCC-GTAG
1 GGTAAAATGACCGAAATA-CCCTATAG
* *
34867777 GGTAAAATGAACAAAATACCCCTATAG
1 GGTAAAATGACCGAAATA-CCCTATAG
* * * *
34867804 GGTAAAATAATCGAAGTACCCCTATAT
1 GGTAAAATGACCGAAATA-CCCTATAG
* *
34867831 GGTAAAATGACCTAAATAACCCCATAG
1 GGTAAAATGACCGAAAT-ACCCTATAG
* *
34867858 GATAAAATGAACGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCC-TATAG
* *
34867885 GGTAAAATGACCGAAATTCCCCCATAG
1 GGTAAAATGACCGAAA-TACCCTATAG
34867912 GGTAAAATGACCGAAATACCCTATAG
1 GGTAAAATGACCGAAATACCCTATAG
34867938 GGTAAAATGAC
1 GGTAAAATGAC
34867949 TGTTATACCC
Statistics
Matches: 188, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
26 45 0.24
27 138 0.73
28 5 0.03
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCTATAG
Found at i:34874967 original size:59 final size:59
Alignment explanation
Indices: 34874904--34875052 Score: 183
Period size: 59 Copynumber: 2.5 Consensus size: 59
34874894 GCCACAAACA
* * * *
34874904 CATCATTTTCTTTCAATACTCGCCATAAAGGCTTTCCATTAAAAAAGTTTCTATAAAGG
1 CATCATTTTCTTTCAGTACTCGCCACAAAGGCTTTCCATTAAAAAAGTTTCAATAAAAG
* * * *
34874963 CATCATTTTCATTT-AGTACTCGCCACAAAGGCTTTCCTTTTAAAGATTTTCAATAAAAG
1 CATCATTTTC-TTTCAGTACTCGCCACAAAGGCTTTCCATTAAAAAAGTTTCAATAAAAG
* **
34875022 AATCATTTTCTTTCAGTACTCGAAACAAAGG
1 CATCATTTTCTTTCAGTACTCGCCACAAAGG
34875053 TATCTTTCTG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 3 0.04
59 71 0.92
60 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (59 bp):
CATCATTTTCTTTCAGTACTCGCCACAAAGGCTTTCCATTAAAAAAGTTTCAATAAAAG
Found at i:34878889 original size:19 final size:21
Alignment explanation
Indices: 34878865--34878907 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
34878855 GCACCTAGGA
34878865 TGATTGT-TTTGA-CATGTTT
1 TGATTGTATTTGATCATGTTT
*
34878884 TGATTGTATTTGATCGTGTTT
1 TGATTGTATTTGATCATGTTT
34878905 TGA
1 TGA
34878908 ACTGGTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.56
Consensus pattern (21 bp):
TGATTGTATTTGATCATGTTT
Found at i:34882013 original size:11 final size:11
Alignment explanation
Indices: 34881997--34882021 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34881987 ACATTTCCAT
34881997 CAACCAACCAC
1 CAACCAACCAC
34882008 CAACCAACCAC
1 CAACCAACCAC
34882019 CAA
1 CAA
34882022 GCATAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (11 bp):
CAACCAACCAC
Found at i:34887888 original size:10 final size:10
Alignment explanation
Indices: 34887873--34887901 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
34887863 TGTTTCACTT
34887873 ACTCTCTCAA
1 ACTCTCTCAA
34887883 ACTCTCTCAA
1 ACTCTCTCAA
34887893 A-TCTCTCAA
1 ACTCTCTCAA
34887902 TACCTCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (10 bp):
ACTCTCTCAA
Found at i:34889093 original size:12 final size:12
Alignment explanation
Indices: 34889076--34889103 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34889066 AGAGATGGAC
34889076 GATGATTCAATG
1 GATGATTCAATG
34889088 GATGATTCAATG
1 GATGATTCAATG
34889100 GATG
1 GATG
34889104 TAAGAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (12 bp):
GATGATTCAATG
Found at i:34897377 original size:21 final size:21
Alignment explanation
Indices: 34897353--34897393 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
34897343 ATTGATACTT
34897353 TTTAAAAAGTATCAGTACTCA
1 TTTAAAAAGTATCAGTACTCA
*
34897374 TTTAAAAAGTATCGGTACTC
1 TTTAAAAAGTATCAGTACTC
34897394 GTTGGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (21 bp):
TTTAAAAAGTATCAGTACTCA
Found at i:34902788 original size:14 final size:15
Alignment explanation
Indices: 34902771--34902803 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
34902761 ATTTTACATG
34902771 TTTTAT-TTCAAAAT
1 TTTTATATTCAAAAT
34902785 TTTTATATTCAAAAT
1 TTTTATATTCAAAAT
34902800 TTTT
1 TTTT
34902804 CATACTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTATATTCAAAAT
Found at i:34911248 original size:24 final size:25
Alignment explanation
Indices: 34911212--34911259 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
34911202 TTTCTTTCCA
34911212 TTTTCTTTCTATT-TCTTTATTATG
1 TTTTCTTTCTATTATCTTTATTATG
34911236 TTTTCATTT-TATTATCTTTATTAT
1 TTTTC-TTTCTATTATCTTTATTAT
34911260 TATCATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTCTTTCTATTATCTTTATTATG
Found at i:34911261 original size:12 final size:12
Alignment explanation
Indices: 34911239--34911273 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
34911229 TATTATGTTT
34911239 TCATT-TTATTA
1 TCATTATTATTA
*
34911250 TCTTTATTATTA
1 TCATTATTATTA
34911262 TCATTATTATTA
1 TCATTATTATTA
34911274 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:34911813 original size:100 final size:103
Alignment explanation
Indices: 34911637--34911836 Score: 298
Period size: 100 Copynumber: 2.0 Consensus size: 103
34911627 CTAATGGTAT
* * * *
34911637 TTCTTATATTTTTAATTAACTTGGAGAAAAGGGGATGAGAGTTTGAGTTGTTCAAGAACTTTTTC
1 TTCTTATATATTTAATTAACTTGGAGAAAAGGGGAGGAGAGTTTGAGTTGTTAAAGAACTTTATC
* *
34911702 CTTATCTTTTAAGAGAGCTTGAAGTTATTGGAAAGCTA
66 CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAAGCTA
* * *
34911740 TTCTTATATATTTGATTGACTT-G-GAAAA-GGGAGGAGAGTTTGAGTTGTTAAATAACTTTATC
1 TTCTTATATATTTAATTAACTTGGAGAAAAGGGGAGGAGAGTTTGAGTTGTTAAAGAACTTTATC
34911802 CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAAG
66 CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAAG
34911837 TTGTTTTCTA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 63 0.72
101 5 0.06
102 1 0.01
103 19 0.22
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (103 bp):
TTCTTATATATTTAATTAACTTGGAGAAAAGGGGAGGAGAGTTTGAGTTGTTAAAGAACTTTATC
CTTATCTTTTAAAAGAGCTTGAAGCTATTGGAAAGCTA
Found at i:34914323 original size:33 final size:31
Alignment explanation
Indices: 34914286--34914354 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 31
34914276 TGTTACTGTC
34914286 ACTGTAATGGGCTAAGG-CCACACTGATACTGA
1 ACTGTAATGGGCTAAGGCCCA-ACTGA-ACTGA
34914318 TACTGTAATGGGCTAAGGCCCAACTGAACTGA
1 -ACTGTAATGGGCTAAGGCCCAACTGAACTGA
34914350 ACTGT
1 ACTGT
34914355 TATTGAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
31 5 0.14
32 5 0.14
33 22 0.63
34 3 0.09
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (31 bp):
ACTGTAATGGGCTAAGGCCCAACTGAACTGA
Found at i:34921123 original size:17 final size:17
Alignment explanation
Indices: 34921076--34921124 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
34921066 GGGTCGAAAT
*
34921076 GGGCTGTGTGGGCCCAAC
1 GGGCT-TGTGGACCCAAC
* * *
34921094 GGGTTTATAGACCCAAC
1 GGGCTTGTGGACCCAAC
34921111 GGGCTTGTGGACCC
1 GGGCTTGTGGACCC
34921125 CACACGGGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.16, C:0.27, G:0.37, T:0.20
Consensus pattern (17 bp):
GGGCTTGTGGACCCAAC
Found at i:34921736 original size:32 final size:31
Alignment explanation
Indices: 34921676--34921741 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 31
34921666 TTACTGTCAT
34921676 TGTAATGGGCTAAGGCCACATGATACTGATAC
1 TGTAATGGGCTAAGGCCACATGATACTGA-AC
34921708 TGTAATGGGCTAAGGCC-CAACTGA-ACTGAAC
1 TGTAATGGGCTAAGGCCAC-A-TGATACTGAAC
34921739 TGT
1 TGT
34921742 TATTGAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 6 0.19
32 23 0.72
33 3 0.09
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (31 bp):
TGTAATGGGCTAAGGCCACATGATACTGAAC
Found at i:34927651 original size:13 final size:14
Alignment explanation
Indices: 34927625--34927658 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
34927615 TCAAACAAAC
34927625 AAAAAATTAGAATT
1 AAAAAATTAGAATT
*
34927639 TAAAAATTA-AATT
1 AAAAAATTAGAATT
34927652 AAAAAAT
1 AAAAAAT
34927659 ATTAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AAAAAATTAGAATT
Found at i:34933077 original size:24 final size:24
Alignment explanation
Indices: 34933040--34933086 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
34933030 GAACACACCA
34933040 TAGCTTGTATGAGCTTACCAATTT
1 TAGCTTGTATGAGCTTACCAATTT
34933064 TAGCTTGTGA-GAGCTTACCAATT
1 TAGCTTGT-ATGAGCTTACCAATT
34933087 CTCAACTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (24 bp):
TAGCTTGTATGAGCTTACCAATTT
Found at i:34933127 original size:25 final size:25
Alignment explanation
Indices: 34933050--34933136 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
34933040 TAGCTTGTAT
* * *
34933050 GAGCTTACCAATTT-TAGCTTGTGA
1 GAGCTTACCGATTTCCAGCTCGTGA
* * *
34933074 GAGCTTACC-AATTCTCAACTCAT-A
1 GAGCTTACCGATTTC-CAGCTCGTGA
34933098 TGAGCTTACCGATTTCCAGCTCGTGA
1 -GAGCTTACCGATTTCCAGCTCGTGA
*
34933124 GAGCATACCGATT
1 GAGCTTACCGATT
34933137 CATAGCTCGT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
23 3 0.06
24 10 0.20
25 31 0.63
26 5 0.10
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGATTTCCAGCTCGTGA
Found at i:34933150 original size:50 final size:49
Alignment explanation
Indices: 34933038--34933152 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 49
34933028 GCGAACACAC
* * * *
34933038 CATAGCTTGTATGAGCTTACCAATTTTAGCTTGTGAGAGCTTACCAATT
1 CATAGCTCGTATGAGCTTACCAATTTCAGCTCGTGAGAGCATACCAATT
* * * *
34933087 C-TCAACTCATATGAGCTTACCGATTTCCAGCTCGTGAGAGCATACCGATT
1 CAT-AGCTCGTATGAGCTTACCAATTT-CAGCTCGTGAGAGCATACCAATT
34933137 CATAGCTCGTATGAGC
1 CATAGCTCGTATGAGC
34933153 ATACATGTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
48 1 0.02
49 20 0.38
50 31 0.58
51 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (49 bp):
CATAGCTCGTATGAGCTTACCAATTTCAGCTCGTGAGAGCATACCAATT
Found at i:34941599 original size:25 final size:25
Alignment explanation
Indices: 34941535--34941601 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
34941525 GATACTCCAC
*
34941535 AGCTTGTGTGAGCACACCGATTCAT
1 AGCTTGTGTGAGCATACCGATTCAT
** *
34941560 AGCTCATGTGAGCATATCGATTCAT
1 AGCTTGTGTGAGCATACCGATTCAT
*
34941585 AGCTTGTGTAAGCATAC
1 AGCTTGTGTGAGCATAC
34941602 ATGTACAGGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCTTGTGTGAGCATACCGATTCAT
Found at i:34944665 original size:23 final size:23
Alignment explanation
Indices: 34944635--34944679 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
34944625 TGCCTAGCAA
34944635 TACCGAAACTAACCCAAGGGAGC
1 TACCGAAACTAACCCAAGGGAGC
34944658 TACCGAAACTAACCCAAGGGAG
1 TACCGAAACTAACCCAAGGGAG
34944680 TAGCTTCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.29, G:0.22, T:0.09
Consensus pattern (23 bp):
TACCGAAACTAACCCAAGGGAGC
Found at i:34950184 original size:41 final size:41
Alignment explanation
Indices: 34950113--34950233 Score: 120
Period size: 41 Copynumber: 3.0 Consensus size: 41
34950103 CTAATAAAAT
* *
34950113 ACACCAACACGAAGCTTGCTAGGCTCAAAGCTTGATATAAC
1 ACACCAACACGAAGCCTGCTAGGCTCAAAGCCTGATATAAC
* * *
34950154 ACACCAGCACGAAGCCTGCTTGGCAT-AAAGCCTGATATAAT
1 ACACCAACACGAAGCCTGCTAGGC-TCAAAGCCTGATATAAC
*** * *
34950195 ACATTGGA-ACGAAGCTTGCTAGGCACAAAGCCTGATATA
1 ACA-CCAACACGAAGCCTGCTAGGCTCAAAGCCTGATATA
34950234 GTACACCACA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
41 64 0.98
42 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (41 bp):
ACACCAACACGAAGCCTGCTAGGCTCAAAGCCTGATATAAC
Found at i:34951729 original size:29 final size:29
Alignment explanation
Indices: 34951684--34951882 Score: 209
Period size: 29 Copynumber: 6.8 Consensus size: 29
34951674 ATCAAATAAA
* **
34951684 GAAAAGGGATGGTTTCGACCATTTAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
34951713 GAAAAGGGATGGCTTCGACCATCGAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
** * *
34951742 GAGTAGGGATGACTTCGACCAACGAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
* * *
34951771 GAAAAGGGATGACTTCAACCATCTAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
* *
34951800 GAAAGGGGATGGCTTTGACCATCGAATAT
1 GAAAAGGGATGGCTTCGACCATCGAATAT
* * * * *
34951829 GAAAATGGATGGTTTCAACCATCGATTAAA
1 GAAAAGGGATGGCTTCGACCATCGAAT-AT
* * *
34951859 GAGAAGGGATGGTTTCGACTATCG
1 GAAAAGGGATGGCTTCGACCATCG
34951883 TTTAGCACAC
Statistics
Matches: 141, Mismatches: 28, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 120 0.85
30 21 0.15
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (29 bp):
GAAAAGGGATGGCTTCGACCATCGAATAT
Found at i:34955357 original size:40 final size:40
Alignment explanation
Indices: 34955215--34955350 Score: 191
Period size: 40 Copynumber: 3.4 Consensus size: 40
34955205 TTCTTTATAA
* * ** *
34955215 TAGATTCAGTTGGTATGGCTTGAGGGCACATACGTTTCAG
1 TAGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAG
*
34955255 TAGATTCAGTAGGTATGGCTCGAAAGCGCATACATTTCAG
1 TAGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAG
*
34955295 TAGATTCAGTAGGTATGGCTCGAAAGTGCATACGTTTCAG
1 TAGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAG
**
34955335 TAGATTTGGTAGGTAT
1 TAGATTCAGTAGGTAT
34955351 CACTCGATGA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (40 bp):
TAGATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAG
Found at i:34957431 original size:45 final size:45
Alignment explanation
Indices: 34957336--34957489 Score: 143
Period size: 45 Copynumber: 3.4 Consensus size: 45
34957326 ATGTCATGGT
* * * **
34957336 GTCTTTCAACCATTGTCTTATTCATTT-CTCGTCATGTTGCCATAGC
1 GTCTTTCAACTATGGTCTTATTCATTTGAT--TCATGACGCCATAGC
*
34957382 GTCTTTCAACTATGGTCTTATTCATTTGATTCATGACGTCATAGC
1 GTCTTTCAACTATGGTCTTATTCATTTGATTCATGACGCCATAGC
* * * * * *
34957427 GTCTTTCAGCTATGGTCTTACTCGA-TAGAATCGTGATC-CCATAAC
1 GTCTTTCAACTATGGTCTTATTC-ATTTGATTCATGA-CGCCATAGC
34957472 GTCTTTCAACTATGGTCT
1 GTCTTTCAACTATGGTCT
34957490 CACTCGTTTC
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
45 63 0.69
46 27 0.30
47 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTATTCATTTGATTCATGACGCCATAGC
Found at i:34957530 original size:24 final size:23
Alignment explanation
Indices: 34957466--34957534 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 23
34957456 ATCGTGATCC
34957466 CATAACGTCTTTCAACTATGGTCT
1 CATAA-GTCTTTCAACTATGGTCT
* * *
34957490 C---ACTCGTTTCTAGTATGGTCT
1 CATAAGTC-TTTCAACTATGGTCT
34957511 CATAATGTCTTTCAACTATGGTCT
1 CATAA-GTCTTTCAACTATGGTCT
34957535 TATTTATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
20 2 0.06
21 15 0.44
24 15 0.44
25 2 0.06
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (23 bp):
CATAAGTCTTTCAACTATGGTCT
Found at i:34963018 original size:41 final size:41
Alignment explanation
Indices: 34962956--34963082 Score: 130
Period size: 41 Copynumber: 3.1 Consensus size: 41
34962946 TTACAACTTA
* ** *
34962956 CCTGATACAACACACTGGCACGAAGCCTGATAAGCTCAAAG
1 CCTGATATAACACACAAGCACGAAGCCTGATAAGCACAAAG
* * *
34962997 CTTGATATAACACACAAGCACGAAGCCTGCTAGGCACAAAG
1 CCTGATATAACACACAAGCACGAAGCCTGATAAGCACAAAG
* * * * *
34963038 CCTGATATAATACTTC-AGCATGAAGCCTGCTAGGCACAAAG
1 CCTGATATAACAC-ACAAGCACGAAGCCTGATAAGCACAAAG
34963079 CCTG
1 CCTG
34963083 CTATGCACAA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 73 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (41 bp):
CCTGATATAACACACAAGCACGAAGCCTGATAAGCACAAAG
Found at i:34963081 original size:16 final size:16
Alignment explanation
Indices: 34963060--34963097 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
34963050 CTTCAGCATG
34963060 AAGCCTGCTAGGCACA
1 AAGCCTGCTAGGCACA
*
34963076 AAGCCTGCTATGCACA
1 AAGCCTGCTAGGCACA
34963092 AAGCCT
1 AAGCCT
34963098 AATATACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.21, T:0.16
Consensus pattern (16 bp):
AAGCCTGCTAGGCACA
Found at i:34963488 original size:45 final size:45
Alignment explanation
Indices: 34963366--34963488 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 45
34963356 TTGATTTGTT
* * *
34963366 ATGCTATAGCATCTTTCAGCTATGGTCTTACTCGATAGAATCGTA
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTA
* * * *
34963411 ATGCCATTACATCTTTCAGCTATAGTCTTACTTGATATAATCGTG
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTA
*
34963456 ATGCCATAACGTCTTTCAGCTATGGTCTTACTT
1 ATGCCATAACATCTTTCAGCTATGGTCTTACTT
34963489 ATTTCTAGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
ATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTA
Found at i:34963561 original size:45 final size:45
Alignment explanation
Indices: 34963456--34963575 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 45
34963446 TATAATCGTG
** * * *
34963456 ATGCCATAACGTCTTTCAGCTATGGTCTTACTTATTTCTAGTATG
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTCGAGTATA
* *
34963501 GTGCCATAGTGTCTTTCAACTATGGTCTTATTTATTTCCGA-TATA
1 ATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTT-CGAGTATA
*
34963546 ATGCTATAGAT-TCTTTCAACTATGGTCTTA
1 ATGCCATAG-TGTCTTTCAACTATGGTCTTA
34963576 ATCATTTTCT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 61 0.95
46 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.43
Consensus pattern (45 bp):
ATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTCGAGTATA
Found at i:34967390 original size:29 final size:30
Alignment explanation
Indices: 34967332--34967401 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
34967322 ATAGAATAGC
*
34967332 CAAACCTTTATGAAAATGCTCAAATGAAGAT
1 CAAACCTTT-TGAAAATGCTCAAATAAAGAT
* *
34967363 CAAACCTTTT-AAAGTGGTCAAATAAAGAT
1 CAAACCTTTTGAAAATGCTCAAATAAAGAT
* *
34967392 AAAATCTTTT
1 CAAACCTTTT
34967402 TTAATGTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 24 0.71
30 1 0.03
31 9 0.26
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (30 bp):
CAAACCTTTTGAAAATGCTCAAATAAAGAT
Found at i:34973296 original size:74 final size:75
Alignment explanation
Indices: 34973175--34973322 Score: 235
Period size: 74 Copynumber: 2.0 Consensus size: 75
34973165 CCATATAAGC
* * *
34973175 ACTAATTAAATAGAAGTTTGAACCCCTTTAGACTTAATAAATATTTTT-TAATTTTTCATACCTA
1 ACTAATCAAATAGAAGTTTAAACCCCTTTAGACTAAATAAATATTTTTCTAATTTTTCATACCTA
*
34973239 AGTTAAAAAG
66 AGTAAAAAAG
* *
34973249 ACTAATCAAATAGAAGTTTAAACCCCTTTAGACTAAATAACTATTTTTCTAGTTTTTCATACCTA
1 ACTAATCAAATAGAAGTTTAAACCCCTTTAGACTAAATAAATATTTTTCTAATTTTTCATACCTA
34973314 AGTAAAAAA
66 AGTAAAAAA
34973323 AGGGTATCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
74 44 0.66
75 23 0.34
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.37
Consensus pattern (75 bp):
ACTAATCAAATAGAAGTTTAAACCCCTTTAGACTAAATAAATATTTTTCTAATTTTTCATACCTA
AGTAAAAAAG
Found at i:34975794 original size:6 final size:6
Alignment explanation
Indices: 34975780--34975813 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
34975770 AGGATTGCAA
*
34975780 ATTTCC ATTTTC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
34975814 TCAGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:34975797 original size:12 final size:12
Alignment explanation
Indices: 34975780--34975816 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
34975770 AGGATTGCAA
34975780 ATTTCCATTTTC
1 ATTTCCATTTTC
*
34975792 ATTTCCATTTCC
1 ATTTCCATTTTC
34975804 ATTTCCATTTTC
1 ATTTCCATTTTC
34975816 A
1 A
34975817 GAAACCTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:34984707 original size:43 final size:43
Alignment explanation
Indices: 34984646--34984731 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
34984636 TATGTGATTG
* *
34984646 ATATTGGAATGACAAAGATAAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAAGATAAGAAACGAATATGAGATGAGAAA
* *
34984689 ATATTGAAATGGCAAAGATGAGAAACGAATATGAGATGAGAAA
1 ATATTGAAATGACAAAGATAAGAAACGAATATGAGATGAGAAA
34984732 TGAAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.52, C:0.03, G:0.24, T:0.20
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATAAGAAACGAATATGAGATGAGAAA
Found at i:34984740 original size:19 final size:19
Alignment explanation
Indices: 34984704--34984754 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
34984694 GAAATGGCAA
*
34984704 AGATGAGAAACG-AATATG
1 AGATGAGAAATGAAATATG
34984722 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
*
34984741 AAATGATGAAATGA
1 AGATGA-GAAATGA
34984755 GATGTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.38
19 11 0.38
20 7 0.24
ACGTcount: A:0.53, C:0.02, G:0.25, T:0.20
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:34984749 original size:27 final size:27
Alignment explanation
Indices: 34984719--34984773 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
34984709 AGAAACGAAT
*
34984719 ATGAGATGAGAAATGAAA-TATGAAATG
1 ATGAAATGAGAAATGAAACT-TGAAATG
**
34984746 ATGAAATGAGATGTGAAACTTGAAATG
1 ATGAAATGAGAAATGAAACTTGAAATG
34984773 A
1 A
34984774 ATTCAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.25, T:0.24
Consensus pattern (27 bp):
ATGAAATGAGAAATGAAACTTGAAATG
Found at i:34984763 original size:20 final size:19
Alignment explanation
Indices: 34984706--34984754 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
34984696 AATGGCAAAG
* *
34984706 ATGAGAAACG-AATATGAG
1 ATGAGAAATGAAATATGAA
34984724 ATGAGAAATGAAATATGAA
1 ATGAGAAATGAAATATGAA
34984743 ATGATGAAATGA
1 ATGA-GAAATGA
34984755 GATGTGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 9 0.33
19 11 0.41
20 7 0.26
ACGTcount: A:0.53, C:0.02, G:0.24, T:0.20
Consensus pattern (19 bp):
ATGAGAAATGAAATATGAA
Found at i:34985657 original size:54 final size:54
Alignment explanation
Indices: 34985565--34985704 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 54
34985555 TGTGTGTCAC
* * * *
34985565 ACACGGGCAACACACGCGGGCGTGTGACCCAAGCCAGTGAGTTACAAGAGCTGAG
1 ACACGGGCAA-AGACACGGCCGTGTGTCCCAAGCCAGTGAGTTACAAGAGCTGAG
*** * * * *
34985620 ACACGGGCTGGGACACGGCCGTGTGTCTCAAGTCAGTGAGTTACACGGGCTGAG
1 ACACGGGCAAAGACACGGCCGTGTGTCCCAAGCCAGTGAGTTACAAGAGCTGAG
*
34985674 ACATGGGCAAAGACACGGCCGTGTGTCCCAA
1 ACACGGGCAAAGACACGGCCGTGTGTCCCAA
34985705 CTCCGAGAGT
Statistics
Matches: 69, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
54 61 0.88
55 8 0.12
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.14
Consensus pattern (54 bp):
ACACGGGCAAAGACACGGCCGTGTGTCCCAAGCCAGTGAGTTACAAGAGCTGAG
Found at i:34997351 original size:42 final size:42
Alignment explanation
Indices: 34997293--34997383 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
34997283 ATAGTTGAAA
* * *
34997293 GATAGAACGTTGTTTCTACAACAAAT-CTGAGAGTTGCAAAAT
1 GATAGACCGTTATTTCTACAACAAATGC-AAGAGTTGCAAAAT
34997335 GATAGACCGTTATTTCTACAACAAATGCAAGAGTTGCAAAAT
1 GATAGACCGTTATTTCTACAACAAATGCAAGAGTTGCAAAAT
34997377 GAT-GACC
1 GATAGACC
34997384 CGAAGCTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 4 0.09
42 40 0.89
43 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (42 bp):
GATAGACCGTTATTTCTACAACAAATGCAAGAGTTGCAAAAT
Found at i:35000620 original size:28 final size:28
Alignment explanation
Indices: 35000579--35000714 Score: 175
Period size: 28 Copynumber: 4.9 Consensus size: 28
35000569 CTATTCAGTA
*
35000579 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* ** *
35000606 ACAGCAATGATGTGGGCCTTATCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
35000634 ACAGTAACAATATGGGCCTTAGCCCAAA
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
35000662 ACAGTAACAATGTGGACCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
35000690 ACAGTAACAATATAGGCCTTAGCCC
1 ACAGTAACAATGTGGGCCTTAGCCC
35000715 TAAACAATAT
Statistics
Matches: 91, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 4 0.04
28 87 0.96
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:35000865 original size:26 final size:26
Alignment explanation
Indices: 35000831--35000910 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
35000821 AACACACCAA
*
35000831 TATCGCAGCAAAGCTGCCAATAATAG
1 TATCGCAGCAAAGCTGCCAATAACAG
*
35000857 TATCACAGCAAAGCTGCCAATAACA-
1 TATCGCAGCAAAGCTGCCAATAACAG
* * *
35000882 TATCGCAACAAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTGCCAATAACAG
35000908 TAT
1 TAT
35000911 ACTTCCTCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 21 0.45
26 26 0.55
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATAACAG
Found at i:35001087 original size:27 final size:27
Alignment explanation
Indices: 35001057--35001466 Score: 289
Period size: 27 Copynumber: 15.3 Consensus size: 27
35001047 GGTTATAATA
35001057 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
35001084 GTCATTTTACCTTATGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
35001111 GTCATGTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
35001138 ATCATTTCACGCT-TCGAGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * ** *
35001165 GTCA-TTT-CACTTTCAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
35001190 GTCATTTTACCTTATGGGGGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
35001217 GTGATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
35001244 ATCATTTCT-CCCTTTAGGGGTATTTCA
1 GTCATTT-TACCCTATGGGGGTATTTCG
* * * * *
35001271 ATTATTTCACCCTTTGGGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * *
35001299 ATCATTTTACCC-ATCGAGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * *
35001326 GTCATTTTACCCT-TCGAGGGAATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
* * *
35001353 GTCATTTTACCTTGTAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*** *
35001380 GTCATTTTACCCTGCAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** *
35001407 GTCATTTTATCCT-TCAGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
35001433 GTCATTTT-CCCT-TCGGGGGCATTTCA
1 GTCATTTTACCCTAT-GGGGGTATTTCG
35001459 GTCATTTT
1 GTCATTTT
35001467 CCCACAAATC
Statistics
Matches: 311, Mismatches: 62, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
25 22 0.07
26 38 0.12
27 228 0.73
28 23 0.07
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:35005207 original size:11 final size:11
Alignment explanation
Indices: 35005164--35005298 Score: 52
Period size: 11 Copynumber: 12.0 Consensus size: 11
35005154 AATATTAAAT
35005164 TTAATTTAATA
1 TTAATTTAATA
*
35005175 CTTATTTTAATA
1 -TTAATTTAATA
*
35005187 GT-ATTT--TA
1 TTAATTTAATA
35005195 TTAATTTAATA
1 TTAATTTAATA
*
35005206 TTAAAGTCATT-ATC
1 TT-AA-T--TTAATA
35005220 TTAATATTAA-A
1 TTAAT-TTAATA
35005231 TTAAATTTAATA
1 TT-AATTTAATA
* *
35005243 TTTATCTTATAGA
1 TTAAT-TTA-ATA
* *
35005256 TAAATATT-CTA
1 TTAAT-TTAATA
35005267 TTAATTTAATA
1 TTAATTTAATA
35005278 --AGATTTAATA
1 TTA-ATTTAATA
35005288 TTAATTTAATA
1 TTAATTTAATA
35005299 AAATAATAAC
Statistics
Matches: 92, Mismatches: 15, Indels: 33
0.66 0.11 0.24
Matches are distributed among these distances:
8 3 0.03
9 5 0.05
10 13 0.14
11 31 0.34
12 24 0.26
13 10 0.11
14 4 0.04
15 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:35006848 original size:43 final size:43
Alignment explanation
Indices: 35006773--35006916 Score: 182
Period size: 43 Copynumber: 3.3 Consensus size: 43
35006763 TGTCCCATAC
* *
35006773 ATGGTCTTACATGGAAATCTCATATCGATGCCAATATCCCAGCT
1 ATGGTCTTACA-CGAAGTCTCATATCGATGCCAATATCCCAGCT
**
35006817 ATGGTCTTACACGAAGTCTCATATCGATGCCAATAGGCCAGCT
1 ATGGTCTTACACGAAGTCTCATATCGATGCCAATATCCCAGCT
* * * *
35006860 ATGGTCTTACACGAAGTTTCATATCAATGAC-ATATCCCAGAT
1 ATGGTCTTACACGAAGTCTCATATCGATGCCAATATCCCAGCT
* *
35006902 ATTGTCTTATACGAA
1 ATGGTCTTACACGAA
35006917 ATCTTAAATC
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 21 0.24
43 56 0.64
44 11 0.12
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGAAGTCTCATATCGATGCCAATATCCCAGCT
Found at i:35006961 original size:48 final size:48
Alignment explanation
Indices: 35006886--35007073 Score: 164
Period size: 48 Copynumber: 3.9 Consensus size: 48
35006876 TTTCATATCA
* *
35006886 ATGACATATCCCAGATATTGTCTTATAC-GAAATCTTAAATCAATGCTG
1 ATGACATATCCCAGATATGGTCTTATACAG-AATCTCAAATCAATGCTG
* * * * ** *
35006934 ATGCCATATCCTATATATGGTCTTATACAGGATCTCAAATGGATGTTG
1 ATGACATATCCCAGATATGGTCTTATACAGAATCTCAAATCAATGCTG
** * * * *
35006982 ATGACATATCCCAGATATGGTCTTATATGGGATCTCAAAACGATGCCG
1 ATGACATATCCCAGATATGGTCTTATACAGAATCTCAAATCAATGCTG
* ** * *
35007030 ATGCCATATTTCAGATATAGTCTTATA-TGAGATCTCAAATCAAT
1 ATGACATATCCCAGATATGGTCTTATACAGA-ATCTCAAATCAAT
35007074 TCGGCAATAT
Statistics
Matches: 112, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
47 1 0.01
48 110 0.98
49 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (48 bp):
ATGACATATCCCAGATATGGTCTTATACAGAATCTCAAATCAATGCTG
Found at i:35007053 original size:96 final size:96
Alignment explanation
Indices: 35006886--35007069 Score: 228
Period size: 96 Copynumber: 1.9 Consensus size: 96
35006876 TTTCATATCA
* * * * *
35006886 ATGACATATCCCAGATATTGTCTTATACGAAATCTTAAATCAATGCTGATGCCATATCCTATATA
1 ATGACATATCCCAGATATGGTCTTATACGAAATCTCAAAACAATGCCGATGCCATATCCTAGATA
*
35006951 TGGTCTTATACAG-GATCTCAAATGGATGTTG
66 TAGTCTTATA-AGAGATCTCAAATGGATGTTG
* ** * *
35006982 ATGACATATCCCAGATATGGTCTTATATGGGATCTCAAAACGATGCCGATGCCATAT-TTCAGAT
1 ATGACATATCCCAGATATGGTCTTATACGAAATCTCAAAACAATGCCGATGCCATATCCT-AGAT
*
35007046 ATAGTCTTATATGAGATCTCAAAT
65 ATAGTCTTATAAGAGATCTCAAAT
35007070 CAATTCGGCA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
95 2 0.03
96 72 0.97
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (96 bp):
ATGACATATCCCAGATATGGTCTTATACGAAATCTCAAAACAATGCCGATGCCATATCCTAGATA
TAGTCTTATAAGAGATCTCAAATGGATGTTG
Found at i:35007087 original size:30 final size:29
Alignment explanation
Indices: 35007064--35007156 Score: 107
Period size: 30 Copynumber: 3.0 Consensus size: 29
35007054 ATATGAGATC
35007064 TCAAATCAATTCGGCAATATATATACATA
1 TCAAATCAATTCGGCAATATATATACATA
**
35007093 TACAAATCAATTCGAAAATGTATATATCTACATA
1 T-CAAATCAATTCGGCAA--TATATA--TACATA
35007127 T-AAATCAATTCGGCAATATATAATACATA
1 TCAAATCAATTCGGCAATATAT-ATACATA
35007156 T
1 T
35007157 ACATTTGAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
29 8 0.15
30 19 0.35
31 1 0.02
32 19 0.35
34 7 0.13
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.32
Consensus pattern (29 bp):
TCAAATCAATTCGGCAATATATATACATA
Found at i:35016580 original size:9 final size:10
Alignment explanation
Indices: 35016560--35016588 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
35016550 ATTGCGTGTT
35016560 TGAATAGAAA
1 TGAATAGAAA
35016570 TGAAT-GAAA
1 TGAATAGAAA
35016579 TGAATAGAAA
1 TGAATAGAAA
35016589 ATGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:35016880 original size:25 final size:25
Alignment explanation
Indices: 35016836--35016884 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
35016826 ATGAATTTTC
**
35016836 TCAAAATTTTATCGTGGTAAAATCG
1 TCAAAATTTTATCGCAGTAAAATCG
*
35016861 TCAAAATTTTATTGCAGTAAAATC
1 TCAAAATTTTATCGCAGTAAAATC
35016885 AGGATGAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (25 bp):
TCAAAATTTTATCGCAGTAAAATCG
Found at i:35017334 original size:24 final size:24
Alignment explanation
Indices: 35017307--35017355 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
35017297 TGTTTCTATT
35017307 AAAGAAGAGAGAACTTTCATTTTC
1 AAAGAAGAGAGAACTTTCATTTTC
*
35017331 AAAGAAGAGAGAATTTTCATTTTC
1 AAAGAAGAGAGAACTTTCATTTTC
35017355 A
1 A
35017356 CCCTAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (24 bp):
AAAGAAGAGAGAACTTTCATTTTC
Found at i:35021886 original size:25 final size:25
Alignment explanation
Indices: 35021834--35021923 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
35021824 GTACACGTAT
* * *
35021834 GCTCATACGAGCTGTA-AATGGTAG
1 GCTCATACGAGCTGAATAACGGTAA
*
35021858 GCTCCT-CTGAGCTGAATAACGGTAA
1 GCTCATAC-GAGCTGAATAACGGTAA
* *
35021883 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
35021908 GCACATAAGAGCTGAA
1 GCTCATACGAGCTGAA
35021924 ATCGATAACC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
23 1 0.02
24 12 0.23
25 39 0.74
26 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:35036800 original size:21 final size:19
Alignment explanation
Indices: 35036744--35036804 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
35036734 TAATTATTTA
35036744 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
35036763 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
35036782 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
35036803 TT
1 TT
35036805 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:35042113 original size:30 final size:29
Alignment explanation
Indices: 35042055--35042111 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
35042045 CTCCAATTTC
35042055 ACCAGCAGAGGGAAAAGAACGTTTGGGGA
1 ACCAGCAGAGGGAAAAGAACGTTTGGGGA
35042084 ACCAGCAGAGGGGAAAA-AACGTTTGGGG
1 ACCAGCAGA-GGGAAAAGAACGTTTGGGG
35042112 GAGAAGACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.37, C:0.14, G:0.39, T:0.11
Consensus pattern (29 bp):
ACCAGCAGAGGGAAAAGAACGTTTGGGGA
Found at i:35042670 original size:40 final size:39
Alignment explanation
Indices: 35042625--35042713 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
35042615 GACTTTAGTA
*
35042625 AATTGGGTTGTCTTTTAATTTTAGTTTTATTGGATTGGGT
1 AATTGGGTTGAC-TTTAATTTTAGTTTTATTGGATTGGGT
** * *
35042665 AATTGGGTAAACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 AATTGGGTTGACTTTAATTTTAGTTTTATTGGATTGGGT
35042704 AATTGGGTTG
1 AATTGGGTTG
35042714 GGTAATTGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 33 0.79
40 9 0.21
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (39 bp):
AATTGGGTTGACTTTAATTTTAGTTTTATTGGATTGGGT
Found at i:35042710 original size:13 final size:13
Alignment explanation
Indices: 35042692--35042721 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
35042682 TTTTAGTTTT
35042692 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
35042705 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
35042718 ATTG
1 ATTG
35042722 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:35047357 original size:16 final size:17
Alignment explanation
Indices: 35047331--35047362 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
35047321 CATGCGCATG
35047331 AATATAAAAATAATAAA
1 AATATAAAAATAATAAA
35047348 AATA-AAAAATAATAA
1 AATATAAAAATAATAA
35047363 TAATGATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AATATAAAAATAATAAA
Found at i:35047876 original size:19 final size:19
Alignment explanation
Indices: 35047821--35047897 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
35047811 AAATTAAATC
*
35047821 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
* *
35047841 TCTTCTAATATTGCATATCATA
1 ---TCTAAGATTACATATCATA
35047863 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
35047882 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
35047898 CTTGAAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 32 0.67
22 7 0.15
23 9 0.19
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:35047894 original size:38 final size:40
Alignment explanation
Indices: 35047821--35047897 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 40
35047811 AAATTAAATC
*
35047821 TCTAAGATTACAAAATCATATCTTCTAATATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
35047863 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
35047898 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 15 0.45
41 7 0.21
42 11 0.33
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:35048498 original size:45 final size:44
Alignment explanation
Indices: 35048407--35048564 Score: 154
Period size: 44 Copynumber: 3.6 Consensus size: 44
35048397 AATCCACTCG
* * ** * * * * *
35048407 ACTGCAACTTTAGGGAGATGGGATTTGTTTATTTAGTCTTCCCC
1 ACTGCAACTTCAGGGGGATAAGACTTGATTACTTAGTCTGCTCC
* *
35048451 ACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTGCTCC
1 ACTGCAACTTCAGGGGGATAAGACTTGATTACTT-AGTCTGCTCC
* * *
35048496 ACTGCAACTTCAGGAGGATAAGGCTTGCTTACTTAGTCTGCTCC
1 ACTGCAACTTCAGGGGGATAAGACTTGATTACTTAGTCTGCTCC
** *
35048540 ACTATAACTTCAGGGAGATAAGACT
1 ACTGCAACTTCAGGGGGATAAGACT
35048565 AGATGCGATC
Statistics
Matches: 92, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 55 0.60
45 37 0.40
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (44 bp):
ACTGCAACTTCAGGGGGATAAGACTTGATTACTTAGTCTGCTCC
Found at i:35048912 original size:44 final size:44
Alignment explanation
Indices: 35048862--35048957 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
35048852 CACTGTTGCT
* * * * *
35048862 CAGGGAGACAAGG-TTTACAATCTTTAATCTATTCCATTGCTGAC
1 CAGGGAGA-AAGGATTCACAATCTTCAACCTATTCCACTACTGAC
* * *
35048906 CAGGGAGATAGGATTCACAATCTTCAGCCTATTCCACTACTGTC
1 CAGGGAGAAAGGATTCACAATCTTCAACCTATTCCACTACTGAC
35048950 CAGGGAGA
1 CAGGGAGA
35048958 TAGGGCTGGG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (44 bp):
CAGGGAGAAAGGATTCACAATCTTCAACCTATTCCACTACTGAC
Found at i:35049163 original size:88 final size:88
Alignment explanation
Indices: 35048961--35050244 Score: 1461
Period size: 88 Copynumber: 14.6 Consensus size: 88
35048951 AGGGAGATAG
* * * * * *
35048961 GGCTGGGGTCATCGATCTGCGTCGTTGTCAGTGCAGGAACGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
35049026 T-CACTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* * *
35049048 GGCTGGTGTCTTTGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
35049113 TCCGCTGTAACCTAAGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* * *
35049136 GGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTGACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
35049201 GCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* *
35049224 GGCTAGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
35049289 TCCGCTGCAACCTAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* * * *
35049312 CGCTAGTGTCTTCAATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *** * *
35049377 TTCGCTGTCGGTGC-AGGAAAGCAA
66 TCCGCTG-C-AACCTAGGGAGGCAA
* * * * ** * * * **** * * * * ** *
35049401 GATCTGCTATTTTTAACCTGCTCCGTTG-CAACCCA-GAGAGGCAAG-GCTGGTGTCTTCGATCT
1 G-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA-AGGCAAGATCTGCTATTTTTAACCT
* ** ** *
35049463 GTTTTGCTGTCGGTCC-AGGAAGGCAA
64 GCTCCGCTG-C-AACCTAGGGAGGCAA
* ** * * ** *
35049489 GATCTATTATTTTTAACCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
1 G-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
* * *
35049554 CTCTGTTGTAA-CTCAGGGAGGCAA
65 CTCCGCTGCAACCT-AGGGAGGCAA
*
35049578 GGCTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
35049643 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* *
35049666 GGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAAGATCTGCTATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC-AAGATCTGCTATTTTTAACCTG
* * *
35049731 CTCCACTACAACCCAGGGAGGCAA
65 CTCCGCTGCAACCTAGGGAGGCAA
* * * * * *
35049755 GGTTGGTGTCTTTGATCTGTTTCGCTGTCGGCGCATGAAGGCAAGATTTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
35049820 TCTGCTGCAACCCAGGGGGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* *
35049843 GGCTAGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
35049908 TCCGCTACAACCTAGGGATGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
*
35049931 GGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
35049996 TCCGCTAG-AACCCAGGGAGGCAC
66 TCCGCT-GCAACCTAGGGAGGCAA
* * * * * *
35050019 GGTTGGTGTCTTCGATCTGCTTCGCTATCGGTACAAGAAGGCAAGATCTGCAATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
35050084 TCCGCTGCAACCTAGGGAGGCAA
66 TCCGCTGCAACCTAGGGAGGCAA
* * * ** *
35050107 GGCTGGTGTCTTCAATCTGCTTCACTGTCGATATAGGAAAGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
35050172 T-CGACTGCAACCTAGGCAGGCAA
66 TCCG-CTGCAACCTAGGGAGGCAA
* *
35050195 GGCTGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCCAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
35050245 TTATCTTCAC
Statistics
Matches: 1024, Mismatches: 158, Indels: 29
0.85 0.13 0.02
Matches are distributed among these distances:
87 63 0.06
88 806 0.79
89 120 0.12
90 35 0.03
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCTAGGGAGGCAA
Found at i:35049405 original size:133 final size:132
Alignment explanation
Indices: 35048977--35049649 Score: 657
Period size: 133 Copynumber: 5.1 Consensus size: 132
35048967 GGTCATCGAT
* * * * *
35048977 CTGCGTCGTTGTCAGTGCAGGAACGCAAGATCTGCTATTTTTAACCTGCTCAC--TGCAACCCAG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTC-CGTTGCAACCTAG
* *
35049040 GGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTT
65 GGAGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTT
*
35049105 TAAT
129 TAAC
* * * * * * * ** * * ***
35049109 CTGCTCCGCTGTAAC-CT-AAGG-AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGC
1 CTGCTTCGCTGT--CGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGTTG-C-AACC
* * * * * * ** **** * *
35049170 -AGGAAGGCAAGATCTGTTATTTTTGACCTGCGCCGCTG-CAACCCAGGGAGGCAAG-GCTAG-T
62 TAGGGAGGCAAG-GCTG-TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT-GCT
* * * *
35049231 GTCTTTGAT
124 ATTTTTAAC
*
35049240 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCTAGG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCTAGG
* * *
35049305 GAGGCAACGCTAGTGTCTTCAATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
66 GAGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
35049370 AAC
130 AAC
* * *
35049373 CTGCTTCGCTGTCGGTGCAGGAAAGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCCAGA
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCTAGG
* * * **
35049438 GAGGCAAGGCTGGTGTCTTCGATCTGTTTTGCTGTCGGTCCAGGAAGGCAAGATCTATTATTTTT
66 GAGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
35049503 AAC
130 AAC
* *
35049506 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGTTGTAA-CTCAG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCT-AG
35049570 GGAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTT
65 GGAGGCAAGGCTG-TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTT
35049635 TAAC
129 TAAC
*
35049639 CTGCTCCGCTG
1 CTGCTTCGCTG
35049650 CAACCCAGGG
Statistics
Matches: 427, Mismatches: 94, Indels: 39
0.76 0.17 0.07
Matches are distributed among these distances:
129 2 0.00
130 14 0.03
131 47 0.11
132 70 0.16
133 293 0.69
134 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (132 bp):
CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCTAGG
GAGGCAAGGCTGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
AC
Found at i:35049600 original size:221 final size:221
Alignment explanation
Indices: 35049064--35049732 Score: 850
Period size: 221 Copynumber: 3.0 Consensus size: 221
35049054 TGTCTTTGAT
* * *
35049064 CTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGCTCCGCTGTAAC-CTAA
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGCTCTGCTGTAACTC-AG
* * *
35049128 GGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGTTATTTT
65 GGAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTT
* * *
35049193 TGACCTGCGCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGTCGGTGC
130 TAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGC
35049258 AGGAAGGCAAGATCTGCTATTTTTAAC
195 AGGAAGGCAAGATCTGCTATTTTTAAC
* *** * * * ***
35049285 CTGCTCCGCTG-C-AACCTAGGGAGGC-A-A-C-GCTAGTGTCTTCAATCTGCT-TCACTGTCGG
1 CTGCTTCGCTGTCGGTGC-AGGAAGGCAAGATCTGCTA-T-T-TTTAATCTGCTCT-GCTGTAAC
* * * * * ** * *
35049343 TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGTCGGTGCAGGAAAGCAAGATCTGC
61 T-CAGGGAGGCAAG-GCTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGC
* * * * *
35049408 TATTTTTAACCTGCTCCGTTGCAACCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGTTTTGCTGT
124 TATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGT
* **
35049473 CGGTCCAGGAAGGCAAGATCTATTATTTTTAAC
189 CGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
* *
35049506 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGTTGTAACTCAGG
1 CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGCTCTGCTGTAACTCAGG
35049571 GAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
66 GAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
35049636 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCA
131 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCA
*
35049701 AGAAGGCAAAGATCTGCTATTTTTAAC
196 GGAAGGC-AAGATCTGCTATTTTTAAC
35049728 CTGCT
1 CTGCT
35049733 CCACTACAAC
Statistics
Matches: 367, Mismatches: 65, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
216 4 0.01
217 2 0.01
218 2 0.01
219 16 0.04
220 17 0.05
221 261 0.71
222 41 0.11
223 15 0.04
224 3 0.01
225 2 0.01
226 4 0.01
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.29
Consensus pattern (221 bp):
CTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAATCTGCTCTGCTGTAACTCAGG
GAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT
AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCA
GGAAGGCAAGATCTGCTATTTTTAAC
Found at i:35050017 original size:44 final size:44
Alignment explanation
Indices: 35049876--35050017 Score: 101
Period size: 44 Copynumber: 3.2 Consensus size: 44
35049866 GCTGTCGGTG
*
35049876 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTAGAACC
* * * * * * * ** * * * *
35049920 TAGGGATGCAAGGT-TGGTGTCTTCGATCTGCTTCGCT-G-TCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTAGAAC---C
35049964 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTAGAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTAGAACC
*
35050008 CAGGGAGGCA
1 CAGGAAGGCA
35050018 CGGTTGGTGT
Statistics
Matches: 64, Mismatches: 28, Indels: 12
0.62 0.27 0.12
Matches are distributed among these distances:
41 1 0.02
43 16 0.25
44 29 0.45
45 16 0.25
46 1 0.02
47 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTAGAACC
Found at i:35050215 original size:43 final size:42
Alignment explanation
Indices: 35050088--35050215 Score: 103
Period size: 44 Copynumber: 3.0 Consensus size: 42
35050078 ACCTACTCCG
* *
35050088 CTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCA
1 CTGCAACCTAGGAAGGCAAGGCTGGTATCTTCAATCTGC-TCA
* ** * * * * * *
35050131 CTGTCGATATAGGAAAGCAAGATCTGCTATTTTTAACCTGCTCGA
1 CTG-CAACCTAGGAAGGCAAG-GCTGGTATCTTCAATCTGCTC-A
* *
35050176 CTGCAACCTAGGCAGGCAAGGCTGGTATCTTCGATCTGCT
1 CTGCAACCTAGGAAGGCAAGGCTGGTATCTTCAATCTGCT
35050216 TCGCTGTCGG
Statistics
Matches: 60, Mismatches: 22, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
43 17 0.28
44 26 0.43
45 17 0.28
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.27
Consensus pattern (42 bp):
CTGCAACCTAGGAAGGCAAGGCTGGTATCTTCAATCTGCTCA
Found at i:35052471 original size:25 final size:26
Alignment explanation
Indices: 35052420--35052486 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
35052410 AAGAAAATCC
**
35052420 AAAAGAATGAAAGAATAATGATTTCA
1 AAAAGAATGAAAGAATAATGAGCTCA
* *
35052446 AAAAGAATGAAATAATATTG-GCTCA
1 AAAAGAATGAAAGAATAATGAGCTCA
35052471 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
35052487 TGTATTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 7 0.21
26 23 0.68
27 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.21
Consensus pattern (26 bp):
AAAAGAATGAAAGAATAATGAGCTCA
Found at i:35056763 original size:19 final size:18
Alignment explanation
Indices: 35056736--35056775 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
35056726 GAATATAAAA
35056736 ATAAAAATAATAATAAATG
1 ATAAAAATAATAAT-AATG
*
35056755 ATAATAATAATAATAATG
1 ATAAAAATAATAATAATG
35056773 ATA
1 ATA
35056776 CAAGATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
ATAAAAATAATAATAATG
Found at i:35057248 original size:22 final size:21
Alignment explanation
Indices: 35057213--35057289 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
35057203 AAAAGGTATC
* *
35057213 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
35057234 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
35057257 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
35057276 TATATATCATATCT
1 TACAAATCATATCT
35057290 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.37
21 4 0.09
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:35057256 original size:23 final size:22
Alignment explanation
Indices: 35057213--35057270 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
35057203 AAAAGGTATC
* *
35057213 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
35057234 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
35057257 TGCATATCATATCT
1 TACAAATCATATCT
35057271 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Done.