Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold22
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: 1926927
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 314813 characters in sequence are not A, C, G, or T
File 1 of 11
Found at i:912 original size:28 final size:29
Alignment explanation
Indices: 880--934 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
870 TTTCATAATC
880 GGGGATACTCCAACCCC-GTTATTTTCGA
1 GGGGATACTCCAACCCCGGTTATTTTCGA
*
908 GGGGATACTCCAACCCCGGTTTTTTTC
1 GGGGATACTCCAACCCCGGTTATTTTC
935 TAAAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGGTTATTTTCGA
Found at i:923 original size:79 final size:79
Alignment explanation
Indices: 674--1137 Score: 742
Period size: 78 Copynumber: 5.9 Consensus size: 79
664 ATCGAGGGGC
* * *
674 GGGGATACTCCAACCCCGGTTTTATTTCT-AAATATTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
738 CCCGTTATTTCCGA
66 CCCGTTATTTTCGA
* * *
752 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTT--TTATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
815 CCCGTTA-TTTCTGA
66 CCCGTTATTTTC-GA
*
829 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
894 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * *
908 GGGGATACTCCAACCCCGGTTTT-TTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
972 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * *
986 GGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1051 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
*
1065 GGGGATACTCCAA-CCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1129 CCCGTTATT
66 CCCGTTATT
1138 ATCTCCAAAA
Statistics
Matches: 359, Mismatches: 21, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
76 3 0.01
77 67 0.19
78 158 0.44
79 127 0.35
80 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:1018 original size:157 final size:158
Alignment explanation
Indices: 674--1137 Score: 751
Period size: 157 Copynumber: 3.0 Consensus size: 158
664 ATCGAGGGGC
*
674 GGGGATACTCCAACCCCGGTTTTATTTCT-AAATATTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
* * *
738 CCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTT--TTATC
66 CCCGTTATTTTCGAGGGGATACTCCAACCCCGG-TTTTTTTCTAAAACATCAATTTTTCATAATC
*
801 GGGGATACTCCAATCCCGTTA-TTTCTGA
130 GGGGATACTCCAACCCCGTTATTTTCTGA
* **
829 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
* * *
894 CCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTTTTCTAAAATATTAATTTTTCACAATCG
66 CCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTTTTCTAAAACATCAATTTTTCATAATCG
959 GGGATACTCCAACCCCGTTATTTTC-GA
131 GGGATACTCCAACCCCGTTATTTTCTGA
*
986 GGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
1051 CCCGTTATTTTCGAGGGGATACTCCAA-CCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
66 CCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTT-TTTCTAAAACATCAATTTTTCATAATC
*
1115 GGGGATACTCTAACCCCGTTATT
130 GGGGATACTCCAACCCCGTTATT
1138 ATCTCCAAAA
Statistics
Matches: 285, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
155 50 0.18
156 72 0.25
157 159 0.56
158 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTTTTCTAAAACATCAATTTTTCATAATCG
GGGATACTCCAACCCCGTTATTTTCTGA
Found at i:3871 original size:13 final size:13
Alignment explanation
Indices: 3853--3878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3843 AATTTTTTTG
3853 TGTATCGATACAT
1 TGTATCGATACAT
3866 TGTATCGATACAT
1 TGTATCGATACAT
3879 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8090 original size:28 final size:28
Alignment explanation
Indices: 8058--8127 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
8048 GAATAAAGTT
8058 GGGTTGGAGTATCCCCTCAAAAG-TAACG
1 GGGTTGGAGTATCCCC-CAAAAGATAACG
* **
8086 GGGTTGGAGTATCCCCGATGAGATAACG
1 GGGTTGGAGTATCCCCCAAAAGATAACG
*
8114 AGGTTGGAGTATCC
1 GGGTTGGAGTATCC
8128 TCGATTGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 3 0.08
28 34 0.92
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCAAAAGATAACG
Found at i:8238 original size:105 final size:103
Alignment explanation
Indices: 8115--8336 Score: 252
Period size: 103 Copynumber: 2.1 Consensus size: 103
8105 GAGATAACGA
* * * *
8115 GGTTGGAGTATCCTCGATTGT-GAAAAATT-GTTATTTTTGGAAATAAAATCG-GAGTTGGGAGT
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTAG-T-GTTTTAGAAATAAAACCGAG-GTT-GGAGT
*** *
8177 ATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAACCGG
62 ATCCCCGATT-AAGAAAAATCAATATTTTGAAAATAAAACCGG
*
8220 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGAGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
* * * **
8285 CCGATTATGAAGAATCAATATTTTGGAAATAAAGTCGG
66 CCGATTAAGAAAAATCAATATTTTGAAAATAAAACCGG
8323 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
8337 TCAAAAATAA
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
103 37 0.37
104 15 0.15
105 37 0.37
106 10 0.10
107 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
CCGATTAAGAAAAATCAATATTTTGAAAATAAAACCGG
Found at i:8246 original size:52 final size:51
Alignment explanation
Indices: 8115--8336 Score: 214
Period size: 52 Copynumber: 4.3 Consensus size: 51
8105 GAGATAACGA
* * * * *
8115 GGTTGGAGTATCCTCGATTGTGAAAAATT-GTTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAG-T-GTTTTGAAAATAAAACCGG
* * *
8167 AGTTGGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTT-GGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * *
8220 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGA
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGA-AAATAAAACCGG
* * * * * **
8272 GGTTGGAGTATCCCCGATTATGAAGAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
8323 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
8337 TCAAAAATAA
Statistics
Matches: 141, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
51 35 0.25
52 63 0.45
53 33 0.23
54 9 0.06
55 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:8342 original size:263 final size:260
Alignment explanation
Indices: 8009--8503 Score: 757
Period size: 263 Copynumber: 1.9 Consensus size: 260
7999 AAAATAACGG
* *
8009 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGTTGGGTTGGAGTATCCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGTGGGGTTGGAGTATCCCC
*
8074 TCAAAAGTAACGGGGTTGGAGTATCCCCGATGAGATAACGAGGTTGGAGTAT-CCTCGATTGTGA
66 TCAAAAATAACGGGGTTGGAGTATCCCCGATGA-ATAACGAGGTTGGAGTATCCCT-GATTGTGA
*
8138 AAAATT-GT-TATTTTTGGAAATAAAATCGGAGTTGGGAGTATCCCCGATTAAAGAAAAATTGGT
129 AAAATTGGTGTATTTTTGGAAATAAAATCGGAGTT--GAGTATCCCCGATTAAAG-AAAATTAGT
* * *
8201 GTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
191 GTCTTGAAAATAAAACCGGAGTTGGAATATCCCCGA-TGTGGAAAAATTAGTGTTTTAGCAATAA
8266 AACCGA
255 AACCGA
*
8272 GGTTGGAGTATCCCCGATTATGA-AGAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT-C
1 GGTTGGAGTATCCCCAATTATGAGA-AATCAATATTTTGGAAATAAAGT-GGGGTTGGAGTATCC
* *
8335 CCTCAAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCTGATTGTGA
64 CCTCAAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCTGATTGTGA
* * *
8400 AAATTTGGTGTTTTTTTGGAAATAAAATCGGAGTTGAGTATCCCCGATTATAGAAAATTAGTGTC
129 AAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTGAGTATCCCCGATTAAAGAAAATTAGTGTC
*
8465 TTGAAAATAAAATCGGAGTTGGAATATCCCCGATGTGGA
194 TTGAAAATAAAACCGGAGTTGGAATATCCCCGATGTGGA
8504 GAATGAGAAC
Statistics
Matches: 213, Mismatches: 14, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
260 6 0.03
261 40 0.19
262 47 0.22
263 84 0.39
264 36 0.17
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (260 bp):
GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGTGGGGTTGGAGTATCCCC
TCAAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCTGATTGTGAAA
AATTGGTGTATTTTTGGAAATAAAATCGGAGTTGAGTATCCCCGATTAAAGAAAATTAGTGTCTT
GAAAATAAAACCGGAGTTGGAATATCCCCGATGTGGAAAAATTAGTGTTTTAGCAATAAAACCGA
Found at i:8352 original size:27 final size:28
Alignment explanation
Indices: 8320--8391 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
8310 GAAATAAAGT
8320 CGGGGTTGGAGTATCCCTC-AAAAATAA
1 CGGGGTTGGAGTATCCCTCGAAAAATAA
** *
8347 CGGGGTTGGAGTATCCC-CGATGATTAA
1 CGGGGTTGGAGTATCCCTCGAAAAATAA
8374 CGGGGTTGGAGTATCCCT
1 CGGGGTTGGAGTATCCCT
8392 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCTCGAAAAATAA
Found at i:10895 original size:13 final size:13
Alignment explanation
Indices: 10877--10902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10867 ACAAAGATCT
10877 ATGTATCGATACA
1 ATGTATCGATACA
10890 ATGTATCGATACA
1 ATGTATCGATACA
10903 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:10898 original size:33 final size:33
Alignment explanation
Indices: 10856--10922 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
10846 AAAATTTCCA
***
10856 AATGTATCGATACAAAGATCTATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
10889 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
10922 A
1 A
10923 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:10969 original size:19 final size:18
Alignment explanation
Indices: 10942--11009 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
10932 CAGTAGCTAA
*
10942 TTATATATCGATACAATAC
1 TTATGTATCGATACAA-AC
10961 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
10976 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
10993 TTACGTATCGATACAAA
1 TTATGTATCGATACAAA
11010 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 11 0.27
14 1 0.02
16 2 0.05
18 4 0.10
19 23 0.56
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:10982 original size:13 final size:13
Alignment explanation
Indices: 10964--10988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10954 ACAATACTTA
10964 TGTATCGATACAT
1 TGTATCGATACAT
10977 TGTATCGATACA
1 TGTATCGATACA
10989 AAACTTACGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:10988 original size:32 final size:32
Alignment explanation
Indices: 10947--11007 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
10937 GCTAATTATA
* *
10947 TATCGATACAATACTTATGTATCGATACATTG
1 TATCGATACAAAACTTACGTATCGATACATTG
10979 TATCGATACAAAACTTACGTATCGATACA
1 TATCGATACAAAACTTACGTATCGATACA
11008 AATTGTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (32 bp):
TATCGATACAAAACTTACGTATCGATACATTG
Found at i:11115 original size:21 final size:21
Alignment explanation
Indices: 11066--11120 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
11056 ATTTGTAGAT
11066 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
*
11087 TG-ATCGATACATTCTACAAA
1 TGTATCGATACATTCCACAAA
11107 TGTATCGATACATT
1 TGTATCGATACATT
11121 TGGATAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:16704 original size:33 final size:33
Alignment explanation
Indices: 16667--16733 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
16657 AGTAGCTTAA
16667 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
16700 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
16733 A
1 A
16734 AATCGTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:16707 original size:13 final size:13
Alignment explanation
Indices: 16689--16713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16679 CAAAAAAATA
16689 TGTATCGATACAT
1 TGTATCGATACAT
16702 TGTATCGATACA
1 TGTATCGATACA
16714 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:26491 original size:79 final size:80
Alignment explanation
Indices: 26396--26590 Score: 234
Period size: 79 Copynumber: 2.5 Consensus size: 80
26386 GGGGTTGGAG
* * * ** *
26396 TATCCCCTTGAAAATAATGGGGTTGGAGTATCCCCGGTTG-TGAAAAATCGATGA-TTGGGAAAT
1 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAATGATGAAAAATCAAT-ATTTGGGAAAT
*
26459 AAAATCGGGATTAGAA
65 AAAACCGGGATTAGAA
* *
26475 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCC-AATGATGAGAAATCAATATTTTGGAAATA
1 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAATGATGAAAAATCAATATTTGGGAAATA
* * *
26539 AAGCCGGGATTGGAG
66 AAACCGGGATTAGAA
**
26554 TATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGA
1 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGA
26591 TGAAATAACG
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
78 3 0.03
79 95 0.96
80 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (80 bp):
TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAATGATGAAAAATCAATATTTGGGAAATA
AAACCGGGATTAGAA
Found at i:26712 original size:51 final size:51
Alignment explanation
Indices: 26626--27301 Score: 393
Period size: 51 Copynumber: 12.9 Consensus size: 51
26616 CGATTGTGAA
* * *
26626 AAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
1 AAATTGGTG-TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
26678 AAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
1 AAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
* * *
26729 AAATTTGGTGCTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATT-ATGG
1 AAA-TTGGTGTTTTG-AAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
* * *
26781 AAAGTTAGTGTTTT-AGAAATGAAACCGGGGTTGGAGTATCCCCCATT-AAGAG
1 AAA-TTGGTGTTTTGA-AAATAAAACCGGGGTTGGAGTATCCCCGATTAAAG-G
*** * * * * *
26833 AAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGG
1 AAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTAT-CCC-C-GA-TTAAAGG
** * * ***** * * * * * *
26888 -GGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATT-ATGA
1 AAATTGGTGTTTTGAAAAT-AAA-ACCGGGGTTGGAGTATCCCCGATTAAAGG
* * *
26939 AAGATTGGTGTTTTTAAAATAAAACCGAGGTTGGAGTATCCCCAATTAAAGG
1 AA-ATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
* * *
26991 AAATTTAGTGTTTTGAAAAATAAAACCGGGGTTAGAGTATCCCCGATT-ATGG
1 AAA-TTGGTGTTTTG-AAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
* * * *
27043 AAAATTAGTGTTTT-AGAAATAAAATCGGGGTTGGAGTATCCCCCATT-ATGAG
1 -AAATTGGTGTTTTGA-AAATAAAACCGGGGTTGGAGTATCCCCGATTAAAG-G
*** * * * * * *
27095 AAATCAATATTTTGGAAATAAAGCCGTGGTTGGAGTATCCCCTCGGAGGTAACGG
1 AAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTAT-CCC-C-GA-TTAAAGG
** * * ***** * * * *
27150 -GGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAA--
1 AAATTGGTGTTTTGAAAAT-AAA-ACCGGGGTTGGAGTATCCCCGA-T-TAAAGG
* * * * *
27202 AAATTGGTGTTTTTTGGAAACAAAATCGGAGTTGGAGTATCCCTGATTAAAGG
1 AAATTGGTG--TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
*
27255 AAATTGGTGTTTTGAAAATAAAACCGGGGTTGAAGTATCCCCGATTA
1 AAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
27302 TGAGCAATTG
Statistics
Matches: 470, Mismatches: 120, Indels: 69
0.71 0.18 0.10
Matches are distributed among these distances:
50 2 0.00
51 219 0.47
52 75 0.16
53 109 0.23
54 19 0.04
55 17 0.04
56 29 0.06
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (51 bp):
AAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGG
Found at i:26767 original size:104 final size:102
Alignment explanation
Indices: 26642--27136 Score: 358
Period size: 104 Copynumber: 4.8 Consensus size: 102
26632 GTGTTTTTGG
* * *
26642 AAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAATTGGTGTTTTGAAAATAAAACCGGGG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAATTAGTGTTTTGAAAATAAAACCGGGG
* *
26707 TTGGAGTATCCCCGATTAAAGGAAATTTGGTGCTTTGAA
66 TTGGAGTATCCCCGATT-AAGGAAAATTAGTG-TTTGAA
* * *
26746 AAATAAAACCGGGGTTAGAGTATCCCCGATT-ATGGAAAGTTAGTGTTTT-AGAAATGAAACCGG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAA-TTAGTGTTTTGA-AAATAAAACCGG
* * *
26809 GGTTGGAGTATCCCCCATTAAGAGAAATCAATA-T-TTTG-G
64 GGTTGGAGTATCCCCGATTAAG-GAAA--ATTAGTGTTTGAA
* * * ** * * * *****
26848 AAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGG-GGTTGGAGTATCCCCGATGAAATA
1 AAATAAAACCGGGGTTGGAGTAT-CCC-C-GA-TTAAAGGAAATTAGTGTTTTGAAAAT-AAA-A
* * * * * * **
26912 ACGAGGTTGGAATATCCTCGATT-ATGAAAGATTGGTGTTTTTA
60 CCGGGGTTGGAGTATCCCCGATTAAGGAAA-ATTAGTGTTTGAA
* *
26955 AAATAAAACCGAGGTTGGAGTATCCCCAATTAAAGGAAATTTAGTGTTTTGAAAAATAAAACCGG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAA-TTAGTGTTTTG-AAAATAAAACCGG
* * * *
27020 GGTTAGAGTATCCCCGATTATGGAAAATTAGTGTTTTAG
64 GGTTGGAGTATCCCCGATTAAGGAAAATTAGTGTTTGAA
* * * * * * * * *
27059 AAATAAAATCGGGGTTGGAGTATCCCCCATT-ATGAGAAATCAATATTTTGGAAATAAAGCCGTG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTAAAG-GAAATTAGTGTTTTGAAAATAAAACCGGG
27123 GTTGGAGTATCCCC
65 GTTGGAGTATCCCC
27137 TCGGAGGTAA
Statistics
Matches: 298, Mismatches: 72, Indels: 44
0.72 0.17 0.11
Matches are distributed among these distances:
102 45 0.15
103 32 0.11
104 135 0.45
105 30 0.10
106 13 0.04
107 43 0.14
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (102 bp):
AAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAATTAGTGTTTTGAAAATAAAACCGGGG
TTGGAGTATCCCCGATTAAGGAAAATTAGTGTTTGAA
Found at i:26913 original size:28 final size:28
Alignment explanation
Indices: 26857--26933 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
26847 GAAATAAAGC
*** **
26857 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
26885 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
26913 CGAGGTTGGAATATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
26934 TATGAAAGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:26973 original size:262 final size:261
Alignment explanation
Indices: 26678--27303 Score: 1033
Period size: 262 Copynumber: 2.4 Consensus size: 261
26668 CGATTAAAGG
* *
26678 AAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGCTTT
1 AAATTGGTGTTTTTAAAATAAAACC-GGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTT
* *
26743 GAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAGTTAGTGTTTTAGAAATGAAACCG
65 GAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCG
26808 GGGTTGGAGTATCCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
130 GGGTTGGAGTATCCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
26873 CCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTATG
195 CCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTATG
26938 AA
260 AA
* * *
26940 AGATTGGTGTTTTTAAAATAAAACCGAGGTTGGAGTATCCCCAATTAAAGGAAATTTAGTGTTTT
1 AAATTGGTGTTTTTAAAATAAAACCG-GGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTT
*
27005 GAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAATCG
65 GAAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCG
* *
27070 GGGTTGGAGTATCCCCCATTATGAGAAATCAATATTTTGGAAATAAAGCCGTGGTTGGAGTATCC
130 GGGTTGGAGTATCCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCC
* *
27135 CCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
195 CCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTATG
27200 AA
260 AA
* * * *
27202 AAATTGGTGTTTTTTGGAAACAAAATCGGAGTTGGAGTATCCCTGATTAAAGGAAA-TTGGTGTT
1 AAATTGGTG-TTTTT-AAAATAAAACCGG-GTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTT
27266 TTG-AAAATAAAACCGGGGTT-GAAGTATCCCCGATTATG
63 TTGAAAAATAAAACCGGGGTTAG-AGTATCCCCGATTATG
27304 AGCAATTGAG
Statistics
Matches: 340, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
261 2 0.01
262 289 0.85
263 16 0.05
264 33 0.10
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (261 bp):
AAATTGGTGTTTTTAAAATAAAACCGGGTTGGAGTATCCCCGATTAAAGGAAATTTGGTGTTTTG
AAAAATAAAACCGGGGTTAGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCGG
GGTTGGAGTATCCCCCATTAAGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTATGA
A
Found at i:28249 original size:18 final size:18
Alignment explanation
Indices: 28226--28272 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
28216 TTGGTACCTA
*
28226 CTGGAGTTGCTG-CTCTCG
1 CTGGAGTTGCTGTCGCT-G
* *
28244 CTGGAGCTGCAGTCGCTG
1 CTGGAGTTGCTGTCGCTG
28262 CTGGAGTTGCT
1 CTGGAGTTGCT
28273 ACTGCTGTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.09, C:0.26, G:0.36, T:0.30
Consensus pattern (18 bp):
CTGGAGTTGCTGTCGCTG
Found at i:28291 original size:25 final size:24
Alignment explanation
Indices: 28260--28331 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 24
28250 CTGCAGTCGC
28260 TGCTGGAGTTGCTACTGCTGTTGCG
1 TGCTGGAGTTGCT-CTGCTGTTGCG
* *
28285 TGCTGGA---G--CTGCAGTCGC-
1 TGCTGGAGTTGCTCTGCTGTTGCG
28303 TGCTGGAGTTGCTGCTGCTGTTGCG
1 TGCTGGAGTTGCT-CTGCTGTTGCG
28328 TGCT
1 TGCT
28332 AGAGCTGTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
18 7 0.19
19 8 0.22
21 1 0.03
22 1 0.03
24 8 0.22
25 11 0.31
ACGTcount: A:0.07, C:0.22, G:0.38, T:0.33
Consensus pattern (24 bp):
TGCTGGAGTTGCTCTGCTGTTGCG
Found at i:28292 original size:43 final size:43
Alignment explanation
Indices: 28243--28338 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
28233 TGCTGCTCTC
28243 GCTGGAGCTGCAGTCGCTGCTGGAGTTGCTACTGCTGTTGCGT
1 GCTGGAGCTGCAGTCGCTGCTGGAGTTGCTACTGCTGTTGCGT
*
28286 GCTGGAGCTGCAGTCGCTGCTGGAGTTGCTGCTGCTGTTGCGT
1 GCTGGAGCTGCAGTCGCTGCTGGAGTTGCTACTGCTGTTGCGT
*
28329 GCTAGAGCTG
1 GCTGGAGCTG
28339 TCGCCGCCGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.09, C:0.23, G:0.39, T:0.29
Consensus pattern (43 bp):
GCTGGAGCTGCAGTCGCTGCTGGAGTTGCTACTGCTGTTGCGT
Found at i:28308 original size:18 final size:18
Alignment explanation
Indices: 28243--28310 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 18
28233 TGCTGCTCTC
28243 GCTGGAGCTGCAGTCGCT
1 GCTGGAGCTGCAGTCGCT
* *
28261 GCTGGAGTTGCTACTGCTGTTGCGT
1 GCTGGA---G---CTGCAGTCGC-T
28286 GCTGGAGCTGCAGTCGCT
1 GCTGGAGCTGCAGTCGCT
28304 GCTGGAG
1 GCTGGAG
28311 TTGCTGCTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
18 14 0.36
19 8 0.21
21 1 0.03
22 1 0.03
24 8 0.21
25 7 0.18
ACGTcount: A:0.10, C:0.24, G:0.40, T:0.26
Consensus pattern (18 bp):
GCTGGAGCTGCAGTCGCT
Found at i:28351 original size:43 final size:43
Alignment explanation
Indices: 28247--28372 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
28237 GCTCTCGCTG
* * * *
28247 GAGCTGCAGTCGCTGCTGGAGTTGCTACTGCTGTTGCGTGCTG
1 GAGCTGCAGCCGCCGCTGGAGTTGCTGCTGCTGTTGCGTGCTA
* *
28290 GAGCTGCAGTCGCTGCTGGAGTTGCTGCTGCTGTTGCGTGCTA
1 GAGCTGCAGCCGCCGCTGGAGTTGCTGCTGCTGTTGCGTGCTA
* ** *
28333 GAGCTGTC-GCCGCCGCTGGAGCTGGAGCTGCTTTTGCGTG
1 GAGCTG-CAGCCGCCGCTGGAGTTGCTGCTGCTGTTGCGTG
28373 TTGGAGTCGT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 73 0.99
44 1 0.01
ACGTcount: A:0.09, C:0.25, G:0.38, T:0.29
Consensus pattern (43 bp):
GAGCTGCAGCCGCCGCTGGAGTTGCTGCTGCTGTTGCGTGCTA
Found at i:28712 original size:25 final size:25
Alignment explanation
Indices: 28678--28804 Score: 218
Period size: 26 Copynumber: 5.0 Consensus size: 25
28668 TCCAATTGCA
28678 ATTTTTATTTCCTTTCCCATGCTGC
1 ATTTTTATTTCCTTTCCCATGCTGC
*
28703 ATTTTTATTTCCTTTCCTATGCTGC
1 ATTTTTATTTCCTTTCCCATGCTGC
28728 ATTTTTTATTTCCTTTCCCATGCTGC
1 A-TTTTTATTTCCTTTCCCATGCTGC
28754 ATTTTCTATTTCCTTTCCCATGCTGC
1 ATTTT-TATTTCCTTTCCCATGCTGC
28780 ATTTTCTATTTCCTTTCCCATGCTG
1 ATTTT-TATTTCCTTTCCCATGCTG
28805 TTCATGTTTT
Statistics
Matches: 98, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
25 29 0.30
26 69 0.70
ACGTcount: A:0.12, C:0.28, G:0.08, T:0.53
Consensus pattern (25 bp):
ATTTTTATTTCCTTTCCCATGCTGC
Found at i:28943 original size:6 final size:6
Alignment explanation
Indices: 28909--28935 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
28899 ATTATTATTT
28909 TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTT
28936 TTAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTGAA
Found at i:31326 original size:21 final size:21
Alignment explanation
Indices: 31291--31353 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
31281 GAAGGTGTTG
*
31291 AACATA-CTAAAAATGCATGA
1 AACATAGCTCAAAATGCATGA
31311 AACATAGCTCAAAATGCATGA
1 AACATAGCTCAAAATGCATGA
31332 AACATAGCTCAAAATGCATGA
1 AACATAGCTCAAAATGCATGA
31353 A
1 A
31354 CATGGGCTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
20 6 0.15
21 35 0.85
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.19
Consensus pattern (21 bp):
AACATAGCTCAAAATGCATGA
Found at i:32360 original size:13 final size:13
Alignment explanation
Indices: 32342--32366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32332 ACAAAACTTA
32342 TGTATCGATACAT
1 TGTATCGATACAT
32355 TGTATCGATACA
1 TGTATCGATACA
32367 ATTTATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34891 original size:21 final size:21
Alignment explanation
Indices: 34865--34906 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
34855 GAAAGGTTTA
34865 GTAAGAATGATACCAATATTG
1 GTAAGAATGATACCAATATTG
34886 GTAAGAATGATACCAATATTG
1 GTAAGAATGATACCAATATTG
34907 CCAAAACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
GTAAGAATGATACCAATATTG
Found at i:38834 original size:34 final size:35
Alignment explanation
Indices: 38796--38862 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
38786 CCTTACAACA
38796 CTATC-TTTT-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTTAAAGGCTAAGATAG-AACCTCTCTCT
38830 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATCTTTTT-AAAGGCTAAGATAGAACCTCTC
38863 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
35 4 0.13
36 8 0.27
37 13 0.43
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (35 bp):
CTATCTTTTTAAAGGCTAAGATAGAACCTCTCTCT
Found at i:39489 original size:21 final size:21
Alignment explanation
Indices: 39463--39504 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
39453 CCTATGAAAC
39463 AGTGATGTATCGATACATGAA
1 AGTGATGTATCGATACATGAA
39484 AGTGATGTATCGATACATGAA
1 AGTGATGTATCGATACATGAA
39505 CAGTTATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
AGTGATGTATCGATACATGAA
Found at i:39618 original size:53 final size:53
Alignment explanation
Indices: 39554--39690 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
39544 CTACTTTCAA
39554 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
39607 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
39660 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
39691 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:39723 original size:20 final size:20
Alignment explanation
Indices: 39660--39730 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
39650 GCCAATGTCC
**
39660 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
39680 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
39700 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
39720 TGTATCGATAC
1 TGTATCGATAC
39731 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:39796 original size:21 final size:21
Alignment explanation
Indices: 39770--39810 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39760 GTCAACCTTG
39770 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
39791 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
39811 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:41068 original size:3 final size:3
Alignment explanation
Indices: 41060--41094 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
41050 TCAACCATCA
* *
41060 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
41095 AAAGTTAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:41932 original size:29 final size:29
Alignment explanation
Indices: 41900--41958 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
41890 GGCAAAATTA
41900 GTAAGAAAATATGGATACCTAAAGGAATC
1 GTAAGAAAATATGGATACCTAAAGGAATC
*
41929 GTAAGAAAATGTGGATACCTAAAGGAATC
1 GTAAGAAAATATGGATACCTAAAGGAATC
41958 G
1 G
41959 AAACTTCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (29 bp):
GTAAGAAAATATGGATACCTAAAGGAATC
Found at i:48283 original size:32 final size:33
Alignment explanation
Indices: 48223--48284 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
48213 CACACCCAGA
*
48223 TGTATAGATACATATTGCTTAGTATCGATATAT
1 TGTATAGATACATATTGCATAGTATCGATATAT
* *
48256 TGTATCGATACATGTT-CATAGTATCGATA
1 TGTATAGATACATATTGCATAGTATCGATA
48285 CACCTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (33 bp):
TGTATAGATACATATTGCATAGTATCGATATAT
Found at i:50668 original size:209 final size:210
Alignment explanation
Indices: 50010--50843 Score: 1507
Period size: 209 Copynumber: 4.0 Consensus size: 210
50000 TGGATCCAAC
* *
50010 CTTGATGAATATTCATGCCTACAATAAAATTAAAATGGATCTAGCTTGCAAACAAC-GAAACAAA
1 CTTGGTGAATATTCATGCCTACAATAAAATTAAAATGGATCTAGCTTGCAAACAACAG-AATAAA
*
50074 GATGTTACATTTTGCCAACTGTAAAATAGCAAAAAAAAAAACCTTTAAATATTTGTAAAGGTTCT
65 GATGTTAAATTTTGCCAACTGTAAAATAGC--AAAAAAAAACCTTTAAATATTTGTAAAGGTTCT
50139 AATAAAAAA-ATTATAATGTTCGGTATTGGCTTACATTTTAAATTTAGTATATTCTTTCACAAGT
128 AATAAAAAATATTATAATGTTCGGTATTGGCTTACATTTTAAATTTAGTATATTCTTTCACAAGT
*
50203 TTTTTTAGACACTAAAAA
193 TTTTGTAGACACTAAAAA
*
50221 CTTGGTGAATATTCATGCCTACAATAAAATTAAAATGGATCTAGCTTGCAAGCAACAGAATAAAG
1 CTTGGTGAATATTCATGCCTACAATAAAATTAAAATGGATCTAGCTTGCAAACAACAGAATAAAG
*
50286 ATGTTAAATTTTGCCAACTGTAAAATA-CCAAAAAAAACCTTTAAATATTTGTAAAGGTTCTAAT
66 ATGTTAAATTTTGCCAACTGTAAAATAGCAAAAAAAAACCTTTAAATATTTGTAAAGGTTCTAAT
*
50350 AAAAAAATATTATAATGTTTGGTATTGGCTTACATTTTAAATTTAGTATATTCTTTCACAAGTTT
131 -AAAAAATATTATAATGTTCGGTATTGGCTTACATTTTAAATTTAGTATATTCTTTCACAAGTTT
*
50415 TTGTAAACACTAAAAA
195 TTGTAGACACTAAAAA
* *
50431 CTTGGTGAATATTCATGCCTATAATAAAATTAAAATGGTTCTAGCTTGCAAACAACAGAATAAAG
1 CTTGGTGAATATTCATGCCTACAATAAAATTAAAATGGATCTAGCTTGCAAACAACAGAATAAAG
50496 ATGTTAAATTTTGCCAACTGTAAAATAGCAAAAAAAAACCTTTAAATATTTGTAAAGGTTCTAAT
66 ATGTTAAATTTTGCCAACTGTAAAATAGCAAAAAAAAACCTTTAAATATTTGTAAAGGTTCTAAT
50561 AAAAAA-ATTATAATGTTCGGTATTGGCTTACATTTTAAATTTAGTATATTCTTTCACAAGTTTT
131 AAAAAATATTATAATGTTCGGTATTGGCTTACATTTTAAATTTAGTATATTCTTTCACAAGTTTT
50625 TGTAGACACTAAAAA
196 TGTAGACACTAAAAA
50640 CTTGGTGAATATTCATGCCTACAATAAAATTAAAATGGATCTAGCTTGCAAACAACAGAATAAAG
1 CTTGGTGAATATTCATGCCTACAATAAAATTAAAATGGATCTAGCTTGCAAACAACAGAATAAAG
50705 ATGTTAAATTTTGCCAACTGTAAAATAGC-AAAAAAAACCTTTAAATATTTGTAAAGGTTCTAAT
66 ATGTTAAATTTTGCCAACTGTAAAATAGCAAAAAAAAACCTTTAAATATTTGTAAAGGTTCTAAT
50769 AAAAAATATTATAATGTTCGGTATTGGCTTACATTTTAAATTTAGTATATTCTTTCACAAGTTTT
131 AAAAAATATTATAATGTTCGGTATTGGCTTACATTTTAAATTTAGTATATTCTTTCACAAGTTTT
50834 TGTAGACACT
196 TGTAGACACT
50844 TAATTTCGTT
Statistics
Matches: 602, Mismatches: 16, Indels: 12
0.96 0.03 0.02
Matches are distributed among these distances:
208 76 0.13
209 237 0.39
210 166 0.28
211 122 0.20
212 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (210 bp):
CTTGGTGAATATTCATGCCTACAATAAAATTAAAATGGATCTAGCTTGCAAACAACAGAATAAAG
ATGTTAAATTTTGCCAACTGTAAAATAGCAAAAAAAAACCTTTAAATATTTGTAAAGGTTCTAAT
AAAAAATATTATAATGTTCGGTATTGGCTTACATTTTAAATTTAGTATATTCTTTCACAAGTTTT
TGTAGACACTAAAAA
Found at i:51747 original size:167 final size:165
Alignment explanation
Indices: 51569--52126 Score: 605
Period size: 164 Copynumber: 3.4 Consensus size: 165
51559 ATTGATCCAA
* * *
51569 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGGTTTCAAAACTTTATTC
1 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTCATTC
*
51634 ATTTTCATGAGTTTTTTAATTTTTTTCTTGAAATTTTTCTATTTTCGAAATACAAAGTTTTCTAC
66 ATTTTCATGAG-TTTTTAATTTTTTTCTTGAAATTTTTCTATTTTCGAAATAC-GAGTTTTCTAC
51699 TCCGTAAATGTTTTCAGGGAGATTTTTCTTAGTTTTT
129 TCCGTAAATGTTTTCAGGGAGATTTTTCTTAGTTTTT
* * *
51736 AATTTTTAAAATTCATAAAATATTATTACTTAATTCTTATTAAATTAGTTTTCAAAAATTCATTC
1 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTCATTC
* * * * * *
51801 ATTTTCATGAGTTTTTCATTTTTTTCCAT-AAAATTTCCT-GTTTCTAAAATACGGAGTTTTCTA
66 ATTTTCATGAGTTTTTAATTTTTTT-CTTGAAATTTTTCTATTTTC-GAAATAC-GAGTTTTCTA
* *
51864 CTCCGTAAATG-TGTCGAGGGAG--TTTTCTTGGTTTTT
128 CTCCGTAAATGTTTTC-AGGGAGATTTTTCTTAGTTTTT
* *
51900 AATTTTTAAAATTCATCAAATA-TATTTATTTAATTCATATTAAATCATTTTTCAAAAATTCATT
1 AATTTTTAAAATTCATCAAATATTA-TTATTTAATTCATATTAAATTAGTTTTCAAAAATTCATT
* * * * * * *
51964 TATTTTCATGAGTTTTGAATTTTTCT-TTGAAATTTCTCTATTTTTGAAAAATCGAGTTTTCTAT
65 CATTTTCATGAGTTTTTAATTTTTTTCTTGAAATTTTTCTATTTTCGAAATA-CGAGTTTTCTAC
* * * * **
52028 TCCATAGATGTTTTCTGAGG-GATTTTTC-TCGATTTAA
129 TCCGTAAATGTTTTCAG-GGAGATTTTTCTTAG-TTTTT
* * * ** * * *
52065 AATTTTTAAAATTCATCTAACATT-TTCATTAAATTCACCTTAAATCAGTTTTGAAAACTTCA
1 AATTTTTAAAATTCATCAAATATTATT-ATTTAATTCATATTAAATTAGTTTTCAAAAATTCA
52127 AATTATTTCA
Statistics
Matches: 328, Mismatches: 49, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
162 1 0.00
163 33 0.10
164 104 0.32
165 64 0.20
166 54 0.16
167 72 0.22
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.49
Consensus pattern (165 bp):
AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTCAAAAATTCATTC
ATTTTCATGAGTTTTTAATTTTTTTCTTGAAATTTTTCTATTTTCGAAATACGAGTTTTCTACTC
CGTAAATGTTTTCAGGGAGATTTTTCTTAGTTTTT
Found at i:52625 original size:13 final size:13
Alignment explanation
Indices: 52607--52632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52597 GCAAGTGAGG
52607 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
52620 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
52633 GAAGAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:52635 original size:16 final size:17
Alignment explanation
Indices: 52607--52651 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 17
52597 GCAAGTGAGG
52607 AAAAAAA-AG-AGAA-A
1 AAAAAAAGAGAAGAAGA
52621 AAAAAAAGAGAAGAAGA
1 AAAAAAAGAGAAGAAGA
52638 AAGAAAAAGCAGAA
1 AA-AAAAAG-AGAA
52652 AAACTAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.27
15 2 0.08
16 4 0.15
17 3 0.12
18 6 0.23
19 4 0.15
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAGAAGAAGA
Found at i:56825 original size:51 final size:53
Alignment explanation
Indices: 56761--56891 Score: 169
Period size: 51 Copynumber: 2.5 Consensus size: 53
56751 AGTTTCTCAA
* * * *
56761 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTA-ATT
1 TTCTTCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAA-AATACAAT
* *
56814 TTC-T-ATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAAT
1 TTCTTCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAAATA-CAAT
56866 TTCTTCACAATCGGGGATATTCCAAC
1 TTCTTCACAATCGGGGATATTCCAAC
56892 CCCGTTATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
50 3 0.05
51 36 0.55
52 5 0.08
53 4 0.06
54 18 0.27
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAAATACAAT
Found at i:56966 original size:51 final size:52
Alignment explanation
Indices: 56906--57131 Score: 244
Period size: 51 Copynumber: 4.3 Consensus size: 52
56896 TTATTTCTGA
* * * * *
56906 GGGGATACTCCAACCCCGACTTTATTTTC-AAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACTAATTTTTCACAATC
* * *
56957 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACTAATTTTT-CACAATC
* * *
57009 GGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-TTTTCTATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACTAATTTTTC-ACAATC
* * * * *
57060 GGAGATACTCCAACTCCGATTTTATTTCCAAAAAAAACCAATTTCTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAAACACTAATTT-TTCACAATC
57114 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
57132 TTATTTCCGA
Statistics
Matches: 147, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
50 4 0.03
51 69 0.47
52 37 0.25
53 11 0.07
54 23 0.16
55 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACTAATTTTTCACAATC
Found at i:56982 original size:82 final size:81
Alignment explanation
Indices: 56824--56974 Score: 207
Period size: 82 Copynumber: 1.9 Consensus size: 81
56814 TTCTATAATC
* * *
56824 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGGGGATATTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTCTTCACAATCGGGGATACTCC
56889 AACCCCGTTATTTCTGA
65 AACCCCGTTATTTCTGA
* *** *
56906 GGGGATACTCCAACCCCGACTTTATTTTC-AAAATATTGATTT-TTCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTTCACAATCGGGGATACTCCA
56969 ACCCCG
66 ACCCCG
56975 GTTTTATTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 25 0.41
80 10 0.16
82 26 0.43
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (81 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTTCACAATCGGGGATACTCCA
ACCCCGTTATTTCTGA
Found at i:57085 original size:103 final size:105
Alignment explanation
Indices: 56906--57131 Score: 289
Period size: 103 Copynumber: 2.2 Consensus size: 105
56896 TTATTTCTGA
* * * *
56906 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTTTCATAATCGGAGATACTCCAAC
* * * * *
56971 CCCGGTTTTA-TTGC-TAAAACACTAATTT-TTCCACAATC
66 CCCGATTTTATTTCCAAAAAAAACCAATTTCTT-CACAATC
* * *
57009 GGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTTCTATAATCGGAGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTTTC-ATAATCGGAGATACTCCAA
*
57073 CTCCGATTTTATTTCCAAAAAAAACCAATTTCTTCACAATC
65 CCCCGATTTTATTTCCAAAAAAAACCAATTTCTTCACAATC
57114 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
57132 TTATTTCCGA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
102 5 0.05
103 60 0.58
104 3 0.03
105 34 0.33
106 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (105 bp):
GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTTTCATAATCGGAGATACTCCAAC
CCCGATTTTATTTCCAAAAAAAACCAATTTCTTCACAATC
Found at i:57177 original size:236 final size:236
Alignment explanation
Indices: 56764--57210 Score: 813
Period size: 236 Copynumber: 1.9 Consensus size: 236
56754 TTCTCAATTC
*
56764 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGAGA
* *
56829 TACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGGGGATATTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAAAACCAATTTCTTCACAATCGGGGATACTCCAACCC
* ** *
56894 CGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTTTCATAATCGG
131 CGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCATAATCGG
56959 GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
196 GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
57000 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGAGA
1 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGAGA
57065 TACTCCAACTCCGATTTTATTTCCAAAAAAAACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAAAACCAATTTCTTCACAATCGGGGATACTCCAACCC
* *
57130 CGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGG
131 CGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCATAATCGG
57195 GGATACTCCAACCCCG
196 GGATACTCCAACCCCG
57211 TTATTTTCGA
Statistics
Matches: 202, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
236 202 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (236 bp):
TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGAGA
TACTCCAACTCCGATTTTATTTCCAAAAAAAACCAATTTCTTCACAATCGGGGATACTCCAACCC
CGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCATAATCGG
GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
Found at i:57215 original size:79 final size:79
Alignment explanation
Indices: 57100--57295 Score: 250
Period size: 79 Copynumber: 2.5 Consensus size: 79
57090 AAAAAAACCA
* *
57100 ATTTCTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTT
1 ATTTC-TCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTT
*
57165 ATTCCCAAAAT-ATTG
65 ATTCCC-AAATCATCG
* * * * *
57180 ATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTT
1 ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA
** *
57245 TTTTCTAATCATCG
66 TTCCCAAATCATCG
* *
57259 ATTTCTCATAACCGGGGATACTCCAGCCCCGTTATTT
1 ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTT
57296 TCAAGAAAAC
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
78 3 0.03
79 93 0.92
80 5 0.05
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (79 bp):
ATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA
TTCCCAAATCATCG
Found at i:57296 original size:79 final size:79
Alignment explanation
Indices: 57063--57297 Score: 247
Period size: 79 Copynumber: 2.9 Consensus size: 79
57053 TATAATCGGA
* * * * * * * *
57063 GATACTCCAACTCCGATTTTATTTCCAAAAAAAACCAATTTCTTCACAATCGGGGATACTCCAAC
1 GATACTCCAACCCCGACTTTA-TTCC-CAAAATATCGATTTC-TCATAACCGGGGATACTCCAAC
*
57128 CCCGTTATTTCCGAGGG
63 CCCGTTATTTTCGAGGG
* * **
57145 GATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCC
1 GATACTCCAACCCCGACTTTATTCCCAAAATATCGATTTCTCATAACCGGGGATACTCCAACCCC
57210 GTTATTTTCGAGGG
66 GTTATTTTCGAGGG
* * * ** * *
57224 GATACTCCAATCCCGATTTTTTTTTC-TAATCATCGATTTCTCATAACCGGGGATACTCCAGCCC
1 GATACTCCAACCCCGACTTTATTCCCAAAAT-ATCGATTTCTCATAACCGGGGATACTCCAACCC
57288 CGTTATTTTC
65 CGTTATTTTC
57298 AAGAAAACAC
Statistics
Matches: 130, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
78 3 0.02
79 95 0.73
80 10 0.08
81 4 0.03
82 18 0.14
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (79 bp):
GATACTCCAACCCCGACTTTATTCCCAAAATATCGATTTCTCATAACCGGGGATACTCCAACCCC
GTTATTTTCGAGGG
Found at i:57332 original size:28 final size:28
Alignment explanation
Indices: 57278--57334 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
57268 AACCGGGGAT
* * *
57278 ACTCCAGCCCCGTTATTTTCAAGAAAAC
1 ACTCCAACCCCGTTATTATCAACAAAAC
**
57306 ACTCCAACCCCGTTATTATCTCCAAAAC
1 ACTCCAACCCCGTTATTATCAACAAAAC
57334 A
1 A
57335 TTAAATTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.35, G:0.07, T:0.25
Consensus pattern (28 bp):
ACTCCAACCCCGTTATTATCAACAAAAC
Found at i:63539 original size:55 final size:54
Alignment explanation
Indices: 63446--64574 Score: 1506
Period size: 55 Copynumber: 21.0 Consensus size: 54
63436 GACGCCTTTT
*
63446 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
* *
63501 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACC
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* *
63556 CCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
63611 CCTTTCAAAGCCCACACAAGTTGGTGG------CA-TCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
*
63658 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* *
63713 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
* *
63768 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACC
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
*
63823 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
63878 CCTTTCAAAGCCCACACAAGTTGGTGG------CA-TCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
* **
63925 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCATTCCTCAAAGAGCAGGATG
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* *
63980 CGTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGACA
* * * *
64035 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* * *
64090 CCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
*
64145 CCTTTCAAAGCCCACACAAGTTGGTGG------CA-TCCTCAAAGAGCAGGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
*
64192 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
*
64247 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
* *
64302 CCTCTT-AAAGCCTACACAAGTTGGTGACACCTTTCAGTCCTCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* *
64357 CCTATT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAAGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
*
64412 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
**
64467 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* *
64522 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGA
64575 TACACTTTAT
Statistics
Matches: 962, Mismatches: 61, Indels: 102
0.86 0.05 0.09
Matches are distributed among these distances:
47 124 0.13
48 12 0.01
54 43 0.04
55 760 0.79
56 23 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (54 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
Found at i:63921 original size:267 final size:267
Alignment explanation
Indices: 63446--64574 Score: 1913
Period size: 267 Copynumber: 4.2 Consensus size: 267
63436 GACGCCTTTT
63446 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
*
63511 CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCGAAGCCCACACAAG
66 CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAG
63576 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
131 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
63641 CCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAG
196 CCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAG
63706 CAGGACA
261 CAGGACA
*
63713 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTCTTAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
63778 CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAG
66 CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAG
63843 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
131 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
* *
63908 CCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCATTCCTCAAAGAG
196 CCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAG
**
63973 CAGGATG
261 CAGGACA
* * *
63980 CGTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTTAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
* *
64045 CCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACCCCTTTCGAAGCCCACACAAG
66 CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAG
*
64110 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAT
131 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
64175 CCTCAAAGAGCAGGGCACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAG
196 CCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAG
64240 CAGGACA
261 CAGGACA
64247 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
* * * *
64312 CCTACACAAGTTGGTGACACCTTTCAGTCCTCAAAGAGCAGGACACCTATT-AAAGCCCACACAA
66 CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCT-TTCAAAGCCCACACAA
* * *
64376 GTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGC
130 GTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGG-
64440 ATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
193 ------CA-TCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* **
64505 CCTCAAAGAGCAGGATG
251 CCCCAAAGAGCAGGACA
* *
64522 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
64575 TACACTTTAT
Statistics
Matches: 814, Mismatches: 37, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
267 688 0.85
268 5 0.01
274 2 0.00
275 115 0.14
276 4 0.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (267 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
CCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAG
TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
CCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAG
CAGGACA
Found at i:65353 original size:19 final size:19
Alignment explanation
Indices: 65329--65396 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
65319 AATTCAACAA
65329 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
65348 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
65363 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
65380 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
65397 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:65368 original size:13 final size:13
Alignment explanation
Indices: 65350--65374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65340 ACATAAGTTT
65350 TGTATCGATACAA
1 TGTATCGATACAA
65363 TGTATCGATACA
1 TGTATCGATACA
65375 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:65372 original size:32 final size:32
Alignment explanation
Indices: 65331--65393 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
65321 TTCAACAATT
*
65331 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
65363 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
65394 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:67943 original size:54 final size:51
Alignment explanation
Indices: 67811--67944 Score: 162
Period size: 51 Copynumber: 2.6 Consensus size: 51
67801 TTGAGTTTCT
* * *
67811 CAATTCTCCACAATCGGGGATATTCCAACTCTGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAACAC
* * * *
67862 TAATT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATAC
1 CAATTCTTC-ACAATCGGGGATATTCCAACTCCGATTTTATTTCC--AAAACAC
67915 CAATTTCTTCACAATCGGGGATATTCCAAC
1 CAA-TTCTTCACAATCGGGGATATTCCAAC
67945 CCTGTTATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
50 2 0.03
51 35 0.51
53 8 0.12
54 20 0.29
55 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (51 bp):
CAATTCTTCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:68019 original size:51 final size:51
Alignment explanation
Indices: 67959--68182 Score: 245
Period size: 51 Copynumber: 4.3 Consensus size: 51
67949 TTATTTCCGA
* * * *
67959 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATTAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATC
* *
68010 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACTAA-TTTTTCACAATC
* * * *
68062 GAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTTCTATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTC-ACAATC
* * * *
68113 GGGGATACTCCAACTCCGATTTTATTTCCAATAAAACCAATTTCTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAA-AACACTAATTT-TTCACAATC
* *
68166 GAGGATATTCCAACCCC
1 GGGGATACTCCAACCCC
68183 TTTAATCAAC
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
50 8 0.06
51 63 0.43
52 47 0.32
53 24 0.17
54 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTTCACAATC
Found at i:68035 original size:82 final size:81
Alignment explanation
Indices: 67877--68025 Score: 212
Period size: 82 Copynumber: 1.9 Consensus size: 81
67867 TTCTATAATC
* * *
67877 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGGGGATATTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTCTTCACAATCGGGGATACTCC
67942 AACCCTGTTATTTCCGA
65 AACCCTGTTATTTCCGA
* ** *
67959 GGGGATACTCCAACCCCGACTTTATTTTC-AAAATATTAATTT-TTCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTTCACAATCGGGGATACTCCA
68022 ACCC
66 ACCC
68026 CGGTTTTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
79 23 0.38
80 11 0.18
82 26 0.43
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (81 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTTCACAATCGGGGATACTCCA
ACCCTGTTATTTCCGA
Found at i:68085 original size:52 final size:51
Alignment explanation
Indices: 67961--68179 Score: 208
Period size: 52 Copynumber: 4.2 Consensus size: 51
67951 ATTTCCGAGG
* * * * * * *
67961 GGATACTCCAACCCCGACTTTATTTTCAAAATATTAA-TTTTTCATAATCGG
1 GGATACTCCAACTCCGATTTTATTCT-AAAACACTAATTTTTTCACAATCGA
* *
68012 GGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTTCACAATCGA
1 GGATACTCCAACTCCGATTTTATT-CTAAAACACTAATTTTTTCACAATCGA
* * * * *
68064 GGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCT-ATAATCGG
1 GGATACTCCAACTCCGATTTTATTCT-AAAACACTAATTTTTTCACAATCGA
* * * *
68115 GGATACTCCAACTCCGATTTTATTTCCAATAAAACCAATTTCTTCACAATCGA
1 GGATACTCCAACTCCGATTTTA-TTCTAA-AACACTAATTTTTTCACAATCGA
*
68168 GGATATTCCAAC
1 GGATACTCCAAC
68180 CCCTTTAATC
Statistics
Matches: 138, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
51 60 0.43
52 61 0.44
53 17 0.12
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (51 bp):
GGATACTCCAACTCCGATTTTATTCTAAAACACTAATTTTTTCACAATCGA
Found at i:68341 original size:79 final size:79
Alignment explanation
Indices: 68195--68375 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 79
68185 TAATCAACGA
*
68195 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGCTTTATTCCCAAAATATTGA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGCTTTATTCCCAAAATATCGA
* **
68260 TTTCTCATAATTGG
66 TTTCTCACAACCGG
* * * ** *
68274 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-TCCCGATTTTTTTTTC-TAATCATC
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCG-CTTTATTCCCAAAAT-ATC
68337 GATTTCTCACAACCGG
64 GATTTCTCACAACCGG
*
68353 GGATACTCCAGCCCCGTTATTTT
1 GGATACTCCAACCCCGTTATTTT
68376 TAAGAGAACA
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
78 7 0.08
79 82 0.92
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGCTTTATTCCCAAAATATCGA
TTTCTCACAACCGG
Found at i:72097 original size:21 final size:21
Alignment explanation
Indices: 72071--72126 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
72061 AGGGTGGTTT
72071 TGTATCGATACATTTCAAGCA
1 TGTATCGATACATTTCAAGCA
**
72092 TGTATCGATACA-TTCACTCA
1 TGTATCGATACATTTCAAGCA
*
72112 TGTATCGATATATTT
1 TGTATCGATACATTT
72127 ACTGTTTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTCAAGCA
Found at i:72113 original size:20 final size:20
Alignment explanation
Indices: 72071--72144 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
72061 AGGGTGGTTT
**
72071 TGTATCGATACATTTCAAGCA
1 TGTATCGATACA-TTCACTCA
72092 TGTATCGATACATTCACTCA
1 TGTATCGATACATTCACTCA
* * **
72112 TGTATCGATATATTTACTGTT
1 TGTATCGATACATTCACT-CA
72133 TGTATCGATACA
1 TGTATCGATACA
72145 ATTTGTTGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 22 0.49
21 23 0.51
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTCACTCA
Found at i:74220 original size:19 final size:19
Alignment explanation
Indices: 74198--74239 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
74188 GCATGAGAGA
74198 GAAAATAAGATTTTAAAAG
1 GAAAATAAGATTTTAAAAG
* *
74217 GAAAATAAGGTTTTAAAGG
1 GAAAATAAGATTTTAAAAG
74236 GAAA
1 GAAA
74240 GAAAATAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (19 bp):
GAAAATAAGATTTTAAAAG
Found at i:74671 original size:21 final size:21
Alignment explanation
Indices: 74647--74686 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
74637 TTTTAAAAAA
74647 TTAATATTT-TATATTATATTT
1 TTAAT-TTTATATATTATATTT
*
74668 TTAATTTTATCTATTATAT
1 TTAATTTTATATATTATAT
74687 ATTATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TTAATTTTATATATTATATTT
Found at i:74863 original size:20 final size:20
Alignment explanation
Indices: 74825--74864 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
74815 ATATAATACT
*
74825 TATTTTATGTTTTATATTTA
1 TATTTTATGTATTATATTTA
74845 TATTTTAT-TATTATAATTTA
1 TATTTTATGTATTAT-ATTTA
74865 AATTGTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTTTATGTATTATATTTA
Found at i:78222 original size:166 final size:165
Alignment explanation
Indices: 78044--78437 Score: 470
Period size: 166 Copynumber: 2.4 Consensus size: 165
78034 AATTTCATGA
** * * *
78044 GTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTTATGTTGAATCAGTTTTTAAGAAT
1 GTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTTACATTAAATCAGTTTTGAAAAAT
* * **
78109 TCACTCATCTTCAT-AGTTTTTGATTTTTTCCTT-GAAATTCTCCTA-TTTCTGAAATACGGAGT
66 TAACTCATCTTCATGAG-TTTTGATTTTTT-CTTCGAAATTCTCCTATTTTC-GAAAAACAAAGT
* **
78171 TTTCTACTCCGTAAATGTTTTCGGGAGAGATTTGTCTTG
128 TTTCTACTCCATAAATGTTTTCAAGAG-GATTTGTCTTG
** * * * *
78210 GTTTTTAATTTTTAAAATTCATCAAATATTATCATTTGATTCACATTAAATTAGTTTTGAAAAAT
1 GTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTTACATTAAATCAGTTTTGAAAAAT
* * * *
78275 TAATTTATTTTCATGAGTTTTGATTTTTTCTTCGAAATTTTCCTATTTTCGAAAAACAAAGTTTT
66 TAACTCATCTTCATGAGTTTTGATTTTTTCTTCGAAATTCTCCTATTTTCGAAAAACAAAGTTTT
* *
78340 CTACTCCATAAATGTTTTTAAGAGGATTTTTCTTG
131 CTACTCCATAAATGTTTTCAAGAGGATTTGTCTTG
* * * * *
78375 GTTTAAAATTTTTAAAATTCATCTAATATTGTTATTAAATTTCCATTAAATCAGATTTGAAAA
1 GTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTTACATTAAATCAGTTTTGAAAA
78438 TTTTAAATTA
Statistics
Matches: 190, Mismatches: 35, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
165 65 0.34
166 119 0.63
167 6 0.03
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.47
Consensus pattern (165 bp):
GTTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTTACATTAAATCAGTTTTGAAAAAT
TAACTCATCTTCATGAGTTTTGATTTTTTCTTCGAAATTCTCCTATTTTCGAAAAACAAAGTTTT
CTACTCCATAAATGTTTTCAAGAGGATTTGTCTTG
Found at i:78455 original size:165 final size:164
Alignment explanation
Indices: 78017--78469 Score: 468
Period size: 166 Copynumber: 2.7 Consensus size: 164
78007 TTCTTTTCCG
* * *
78017 TAAATTTTTTTGAGAGGA-ATTTCATGAGTTTAAAATTTTTAAAATTCATCAAATATTATTATTT
1 TAAATGTTTTTGAGAGGATTTTTCTTG-GTTTAAAATTTTTAAAATTCATCAAATATTATTATTT
*** * * * * * *
78081 AATTTATGTTGAATCAGTTTTTAAGAATTCACTCATCTTCAT-AGTTTTTGATTTTTTCCTTGAA
65 AATTTCCATTAAATCAGTTTTGAA-AATTAAATTATATTCATGAG-TTTTGATTTTTTCCTTGAA
* ** *
78145 ATTCTCCTATTTCTGAAATACGGAGTTTTCTACTCCG
128 ATTCTCCTATTTCTGAAAAACAAAGTTTTCTACTCCA
* * * ** *
78182 TAAATGTTTTCGGGAGAGATTTGTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATCATTT
1 TAAATGTTTTTGAGAG-GATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATTATTATTT
* * * *
78247 GA-TTCACATTAAATTAGTTTTGAAAAATTAATTTATTTTCATGAGTTTTGATTTTTT-CTTCGA
65 AATTTC-CATTAAATCAGTTTTG-AAAATTAAATTATATTCATGAGTTTTGATTTTTTCCTT-GA
*
78310 AATTTTCCTATTT-TCGAAAAACAAAGTTTTCTACTCCA
127 AATTCTCCTATTTCT-GAAAAACAAAGTTTTCTACTCCA
* * * *
78348 TAAATGTTTTTAAGAGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCTAATATTGTTATTAA
1 TAAATGTTTTTGAGAGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTA
* *
78413 ATTTCCATTAAATCAGATTTGAAAATTTTAAATTA-ATTCATGAATTTTGAATTTTTT
66 ATTTCCATTAAATCAGTTTTGAAAA--TTAAATTATATTCATGAGTTTTG-ATTTTTT
78470 TTGTATATAT
Statistics
Matches: 236, Mismatches: 41, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
164 4 0.02
165 87 0.37
166 136 0.58
167 9 0.04
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (164 bp):
TAAATGTTTTTGAGAGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTA
ATTTCCATTAAATCAGTTTTGAAAATTAAATTATATTCATGAGTTTTGATTTTTTCCTTGAAATT
CTCCTATTTCTGAAAAACAAAGTTTTCTACTCCA
Found at i:78983 original size:4 final size:4
Alignment explanation
Indices: 78956--79010 Score: 74
Period size: 4 Copynumber: 13.2 Consensus size: 4
78946 AGCTTCAGCT
* *
78956 AGAA AAAA AGAA AAAA AGGAA AGAA AGAA AGAA AGAA AGAA AGAAA AGAA
1 AGAA AGAA AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA AG-AA AGAA
79006 AGAA A
1 AGAA A
79011 AAAAATTAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
4 38 0.84
5 7 0.16
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:78990 original size:25 final size:25
Alignment explanation
Indices: 78956--79014 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
78946 AGCTTCAGCT
*
78956 AGAAAAAAAGAAAAAAAGGAAAGAA
1 AGAAAAAAAGAAAAAAAGAAAAGAA
* *
78981 AGAAAGAAAGAAAGAAAGAAAAGAA
1 AGAAAAAAAGAAAAAAAGAAAAGAA
79006 AGAAAAAAA
1 AGAAAAAAA
79015 ATTAAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (25 bp):
AGAAAAAAAGAAAAAAAGAAAAGAA
Found at i:79023 original size:17 final size:17
Alignment explanation
Indices: 78956--79010 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
78946 AGCTTCAGCT
*
78956 AGAAAAAAAGAAAA-AA
1 AGAAAGAAAGAAAAGAA
78972 AGGAAAGAAAG-AAAGAA
1 A-GAAAGAAAGAAAAGAA
78989 AGAAAGAAAGAAAAGAA
1 AGAAAGAAAGAAAAGAA
79006 AGAAA
1 AGAAA
79011 AAAAATTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 13 0.37
17 22 0.63
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGAAAAGAA
Found at i:80414 original size:3 final size:3
Alignment explanation
Indices: 80408--80437 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
80398 TATTCTATCC
80408 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
80438 AGATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:82064 original size:17 final size:17
Alignment explanation
Indices: 82039--82071 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
82029 TAAGAAACCA
*
82039 AAGTTTGCATAAAAATT
1 AAGTATGCATAAAAATT
82056 AAGTATGCATAAAAAT
1 AAGTATGCATAAAAAT
82072 CCTAAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (17 bp):
AAGTATGCATAAAAATT
Found at i:82900 original size:21 final size:21
Alignment explanation
Indices: 82876--82921 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
82866 TCTTGTGAAT
82876 TTCCATTCCCCTTTTACTCCA
1 TTCCATTCCCCTTTTACTCCA
* * *
82897 TTCCATTCCCTTTTTATTTCA
1 TTCCATTCCCCTTTTACTCCA
82918 TTCC
1 TTCC
82922 CTTTTCTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.37, G:0.00, T:0.50
Consensus pattern (21 bp):
TTCCATTCCCCTTTTACTCCA
Found at i:84589 original size:32 final size:31
Alignment explanation
Indices: 84547--84624 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 31
84537 CGAAATGATC
* * * *
84547 TAAATATAAAATGACTTGAAACTTAAATAATT
1 TAAATTTAAAATAACTCGAAAC-AAAATAATT
*
84579 TAAATTTAAAATAACTCGAATCAAAATAATT
1 TAAATTTAAAATAACTCGAAACAAAATAATT
*
84610 CAAATCTTAAAATAA
1 TAAAT-TTAAAATAA
84625 TCCAAATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 12 0.31
32 27 0.69
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (31 bp):
TAAATTTAAAATAACTCGAAACAAAATAATT
Found at i:84623 original size:17 final size:17
Alignment explanation
Indices: 84571--84638 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 17
84561 CTTGAAACTT
*
84571 AAATAATTTAAAT-TTA
1 AAATAATTCAAATCTTA
* *
84587 AAATAACTCGAATC--A
1 AAATAATTCAAATCTTA
84602 AAATAATTCAAATCTTA
1 AAATAATTCAAATCTTA
* *
84619 AAATAATCCAAATATTA
1 AAATAATTCAAATCTTA
84636 AAA
1 AAA
84639 ACTTAAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
15 13 0.31
16 10 0.24
17 19 0.45
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.31
Consensus pattern (17 bp):
AAATAATTCAAATCTTA
Found at i:84626 original size:26 final size:25
Alignment explanation
Indices: 84597--84645 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
84587 AAATAACTCG
* *
84597 AATCAAAATAATTCAAATCTTAAAAT
1 AATCAAAAT-ATTAAAAACTTAAAAT
*
84623 AATCCAAATATTAAAAACTTAAA
1 AATCAAAATATTAAAAACTTAAA
84646 TTTACTTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (25 bp):
AATCAAAATATTAAAAACTTAAAAT
Found at i:94296 original size:14 final size:14
Alignment explanation
Indices: 94277--94305 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94267 AAAAGTAAAT
94277 TATTTTT-TATTTA
1 TATTTTTATATTTA
94290 TATTTTTATATTTA
1 TATTTTTATATTTA
94304 TA
1 TA
94306 ATTAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTTTATATTTA
Found at i:94591 original size:65 final size:66
Alignment explanation
Indices: 94488--94617 Score: 178
Period size: 67 Copynumber: 2.0 Consensus size: 66
94478 AACGTGGCAA
*
94488 TGAATTGGAAAAATATATATGTTGAATTGAAATCCTTTC-A-TTTTTATCT-TCTTCAATTTTTC
1 TGAATTGGAAAAATATATATGTTGAATTAAAATCCTTTCAATTTTTTATCTCT-TTCAATTTTTC
94550 TC
65 TC
* *
94552 TGAATT-GAAAAATATATATATTATGAATTAAAATCCTTTCAATTTTTTATCTCTTTCTATTTTT
1 TGAATTGGAAAAATATATAT-GT-TGAATTAAAATCCTTTCAATTTTTTATCTCTTTCAATTTTT
94616 CT
64 CT
94618 TATACCTTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
63 13 0.22
64 7 0.12
65 16 0.28
66 1 0.02
67 20 0.34
68 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.50
Consensus pattern (66 bp):
TGAATTGGAAAAATATATATGTTGAATTAAAATCCTTTCAATTTTTTATCTCTTTCAATTTTTCT
C
Found at i:94628 original size:16 final size:16
Alignment explanation
Indices: 94609--94639 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
94599 TATCTCTTTC
94609 TATTTTTCTTATACCT
1 TATTTTTCTTATACCT
94625 TATTTTTCTTATACC
1 TATTTTTCTTATACC
94640 AATTGTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTTCTTATACCT
Found at i:104034 original size:19 final size:19
Alignment explanation
Indices: 104010--104051 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
104000 ATGCATTTTG
*
104010 ATGAACTTGCAAGAAAATA
1 ATGAACATGCAAGAAAATA
* *
104029 ATGAACATGCAATAAAATG
1 ATGAACATGCAAGAAAATA
104048 ATGA
1 ATGA
104052 GTGATATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (19 bp):
ATGAACATGCAAGAAAATA
Found at i:105382 original size:20 final size:21
Alignment explanation
Indices: 105346--105396 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
105336 CGATAGGGTC
* *
105346 TATCGATATATTTACTT-ATA
1 TATCGATACATTAACTTGATA
* *
105366 TATCGATACATTAACTTGTTG
1 TATCGATACATTAACTTGATA
105387 TATCGATACA
1 TATCGATACA
105397 AATTGTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (21 bp):
TATCGATACATTAACTTGATA
Found at i:107092 original size:16 final size:16
Alignment explanation
Indices: 107071--107117 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
107061 GCAGGTGCAA
107071 AATTAATTAATTTTTT
1 AATTAATTAATTTTTT
107087 AATTAATTAATTATTTT
1 AATTAATTAATT-TTTT
*
107104 ATTTAATT-ATTTTT
1 AATTAATTAATTTTT
107118 ATTTTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 3 0.10
16 15 0.52
17 11 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTAATTAATTTTTT
Found at i:107111 original size:13 final size:14
Alignment explanation
Indices: 107093--107121 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
107083 TTTTAATTAA
107093 TTAATTA-TTTTAT
1 TTAATTATTTTTAT
107106 TTAATTATTTTTAT
1 TTAATTATTTTTAT
107120 TT
1 TT
107122 TTATATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTAATTATTTTTAT
Found at i:115980 original size:7 final size:7
Alignment explanation
Indices: 115915--115977 Score: 108
Period size: 7 Copynumber: 8.9 Consensus size: 7
115905 TTATATTATA
115915 TGGCACT
1 TGGCACT
115922 TGGCACT
1 TGGCACT
115929 TGGCACT
1 TGGCACT
115936 TGGCACT
1 TGGCACT
115943 TGGCACT
1 TGGCACT
115950 TGGCACT
1 TGGCACT
115957 TGGCACT
1 TGGCACT
*
115964 TGGACACG
1 TGG-CACT
115972 TGGCAC
1 TGGCAC
115978 GTGCAGATGC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
7 48 0.89
8 6 0.11
ACGTcount: A:0.16, C:0.29, G:0.30, T:0.25
Consensus pattern (7 bp):
TGGCACT
Found at i:115999 original size:4 final size:4
Alignment explanation
Indices: 115990--116035 Score: 65
Period size: 4 Copynumber: 11.2 Consensus size: 4
115980 GCAGATGCAA
**
115990 AATT AATT AATT TTTT AATT AATT AATT AATT AATT AATT ATATT A
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT A-ATT A
116036 TTTTTATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
AATT
Found at i:116884 original size:19 final size:18
Alignment explanation
Indices: 116859--116923 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
116849 ATTTCAACGA
116859 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
116877 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
116893 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
116909 TTTTGTATCGATACA
1 -TTTGTATCGATACA
116924 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:116897 original size:32 final size:32
Alignment explanation
Indices: 116861--116931 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
116851 TTCAACGATT
116861 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
116893 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
116925 TGTATCG
1 TGTATCG
116932 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:116898 original size:13 final size:13
Alignment explanation
Indices: 116880--116904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116870 ACATAAGTGT
116880 TGTATCGATACAA
1 TGTATCGATACAA
116893 TGTATCGATACA
1 TGTATCGATACA
116905 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:117032 original size:52 final size:52
Alignment explanation
Indices: 116988--117116 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
116978 CACTGATCTT
116988 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
**
117040 TGTATCGATACAAACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
117092 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
117117 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:125199 original size:311 final size:307
Alignment explanation
Indices: 124625--125603 Score: 987
Period size: 311 Copynumber: 3.1 Consensus size: 307
124615 AAGGATTCCA
* *
124625 AAAAGG-ATGAACCTATCCTAAATACTCACATT-TGACATAAAAGCGGACCTGGTGATAACCTAA
1 AAAAGGAATGAACCTATCCTAAATAC-CACATTCAG-CATAAAAGCAGACCTGGTGATAACCTAA
* * * * *
124688 GACTCGGTTTTAAAAAATTACCAAAATGATCC-TATAGGTATACTTTCGACGTGAAAGTATCCCG
64 GACTTGGTTTTAAAAAATTACGAAAATG-CCCTTATAGGTATACCTTCGACGTGAAAGTATCTCG
* * *
124752 ATAACCCTAAA-AGACTGAAAAGGACTATAAAAGGGGTGAACCTATCCTAAATACCCATCTTCGG
128 -TAACCCTAAAGA-ACTTAAAAGGACTATAAAAGAGGTGAACCTATCCTAAATACCCACCTTCGG
** * * * * * *
124816 CATAAAAGCGAACCCGGTGATGACCAAGGAGTTGGTTCTAAAAATTATGAAAATACCCCTACGGG
191 CATAAAAGCGAACCCGGTGACAACTAA-GACTCGATTTTAAAAATTATGAAAATACCCCTAAGGG
* *
124881 TATACCTTCGATGTAAAAGTATCCCGGTAACCTTAAAGGACTTAAAAATACTCAT
255 -ATACCTTCGACGTAAAAGTATCTCGGTAACCTTAAAGGACTTAAAAATACT-AT
* * * * ** *
124936 AAAAAGG-ATGAACCTATCCTAAATGTCCACCTTCAGCATAAAAGCAAACCCGGTGACGACCCAA
1 -AAAAGGAATGAACCTATCCTAAAT-ACCACATTCAGCATAAAAGCAGACCTGGTGATAACCTAA
* * * *
125000 GAGTTGGTCTT-AAAAATTACGAAAATGCCCTTATAGGTAAACCTTCGACGTGAAAGTATCTTAG
64 GACTTGGTTTTAAAAAATTACGAAAATGCCCTTATAGGTATACCTTCGACGTGAAAGTATC-TCG
**
125064 TAACCCTAAAGAACTTAAAAGGACTATAAAAGAGGTGAATTTATCCTAAATACCCACCTTCGGCA
128 TAACCCTAAAGAACTTAAAAGGACTATAAAAGAGGTGAACCTATCCTAAATACCCACCTTCGGCA
* *
125129 TAAAAGTGAACCCGGTGACAACTTAAGACTCAATTTTAAAAAATTATGAAAATACCCCTAAGGGA
193 TAAAAGCGAACCCGGTGACAAC-TAAGACTCGATTTT-AAAAATTATGAAAATACCCCTAAGGGA
*
125194 TACCTTCGACATAAAAGTATCTCGGTACACC-TAATA-GACTTACAAAGA-ACTAT
256 TACCTTCGACGTAAAAGTATCTCGGTA-ACCTTAA-AGGACTTA-AAA-ATACTAT
* * * * *
125247 AAAAGGAAGTGAACCTATCCTAAATACCCACATTCGGCAT-AAAGTAGACCTGGGGATAAACTAG
1 AAAAGGAA-TGAACCTATCCTAAATA-CCACATTCAGCATAAAAGCAGACCTGGTGATAACCTAA
** * * * * *
125311 GACTTAATTTTTGAAAAATTACGAAAATACCCTTA-GGGGATACCTTCGATGTGAAAGTATCTCG
64 GACTT-GGTTTTAAAAAATTACGAAAATGCCCTTATAGGTATACCTTCGACGTGAAAGTATCTCG
* * * * *
125375 -ATACCCTTAATGGACTTAAAAAGAACTATAAAAGGAAGTGAACCTATCCTAAATACCTACCTTC
128 TA-ACCC-TAAAGAACTT-AAAAGGACTATAAAA-GAGGTGAACCTATCCTAAATACCCACCTTC
* * * * * * * *
125439 AGCATAAAAGCGGATCAGGTGACAACCTAGGACTCGATTTGGAAAAATTATGAAAATGCCCCTAG
189 GGCATAAAAGCGAACCCGGTGACAA-CTAAGACTCGATTT-TAAAAATTATGAAAATACCCCTAA
* * * * * * *
125504 GGGATACCATCGACGTGAAAGTATTTCGATACCCTTAATGGACTTAAAAGTAACTAT
252 GGGATACCTTCGACGTAAAAGTATCTCGGTAACCTTAAAGGACTTAAAAAT-ACTAT
125561 AAAAGGAATGAACCTATCCTAAATACCTA-ACTTCAG-ATAAAAG
1 AAAAGGAATGAACCTATCCTAAATACC-ACA-TTCAGCATAAAAG
125604 TGGACCTAGT
Statistics
Matches: 554, Mismatches: 84, Indels: 57
0.80 0.12 0.08
Matches are distributed among these distances:
310 9 0.02
311 187 0.34
312 162 0.29
313 69 0.12
314 126 0.23
315 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (307 bp):
AAAAGGAATGAACCTATCCTAAATACCACATTCAGCATAAAAGCAGACCTGGTGATAACCTAAGA
CTTGGTTTTAAAAAATTACGAAAATGCCCTTATAGGTATACCTTCGACGTGAAAGTATCTCGTAA
CCCTAAAGAACTTAAAAGGACTATAAAAGAGGTGAACCTATCCTAAATACCCACCTTCGGCATAA
AAGCGAACCCGGTGACAACTAAGACTCGATTTTAAAAATTATGAAAATACCCCTAAGGGATACCT
TCGACGTAAAAGTATCTCGGTAACCTTAAAGGACTTAAAAATACTAT
Found at i:125328 original size:157 final size:155
Alignment explanation
Indices: 124625--125587 Score: 819
Period size: 156 Copynumber: 6.2 Consensus size: 155
124615 AAGGATTCCA
* * * * * *
124625 AAAAGG-A-TGAACCTATCCTAAATACTCACATTTGACATAAAAGCGGACCTGGTGATAACCTAA
1 AAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGGTGATAACCTAA
** * * * * *
124688 GACTCGGTTTTAAAAAATTACCAAAATGA-TCCTATAGGTATACTTTCGACGTGAAAGTATCCCG
66 GACTTAGTTTT-AAAAATTACGAAAAT-ACCCCTA-AGGGATACCTTCGACGTGAAAGTATCTCG
* * * *
124752 ATAACCCTAAAAGACTGAAAAGGACTAT
128 ATAACCTTAATAGACTTAAAAGAACTAT
* * *
124780 AAAAGG-GGTGAACCTATCCTAAATACCCATCTTCGGCATAAAAGC-GAACCCGGTGATGACC-A
1 AAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAG-ACCCGGTGATAACCTA
* * * * * * * *
124842 AGGAGTTGGTTCTAAAAATTATGAAAATACCCCTACGGGTATACCTTCGATGTAAAAGTATCCCG
65 A-GACTTAGTTTTAAAAATTACGAAAATACCCCTAAGGG-ATACCTTCGACGTGAAAGTATCTCG
*
124907 GTAACCTTAA-AGGACTTAAAA-ATACTCAT
128 ATAACCTTAATA-GACTTAAAAGA-ACT-AT
** * * ** *
124936 AAAAAGG-A-TGAACCTATCCTAAATGTCCACCTTCAGCATAAAAGCAAACCCGGTGACGACCCA
1 -AAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGGTGATAACCTA
* * * * * * * *
124999 AGAGTTGGTCTTAAAAATTACGAAAATGCCCTTATAGGTAAACCTTCGACGTGAAAGTATCT-TA
65 AGACTTAGTTTTAAAAATTACGAAAATACCCCTA-AGGGATACCTTCGACGTGAAAGTATCTCGA
* *
125063 GTAACCCTAA-AGAACTTAAAAGGACTAT
129 -TAACCTTAATAG-ACTTAAAAGAACTAT
* ** * * *
125091 AAAA-GAGGTGAATTTATCCTAAATACCCACCTTCGGCATAAAAG-TGAACCCGGTGACAACTTA
1 AAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAG-ACCCGGTGATAACCTA
* * * * * *
125154 AGACTCAATTTTAAAAAATTATGAAAATACCCCTAAGGGATACCTTCGACATAAAAGTATCTCGG
65 AGACTTAGTTTT-AAAAATTACGAAAATACCCCTAAGGGATACCTTCGACGTGAAAGTATCTCGA
125219 TACACC-TAATAGACTTACAAAGAACTAT
129 TA-ACCTTAATAGACTTA-AAAGAACTAT
* * * * * *
125247 AAAAGGAAGTGAACCTATCCTAAATACCCACATTCGGCAT-AAAGTAGACCTGGGGATAAACTAG
1 AAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGGTGATAACCTAA
* * * *
125311 GACTTAATTTTTGAAAAATTACGAAAATACCCTTAGGGGATACCTTCGATGTGAAAGTATCTCGA
66 GACTT-AGTTTT-AAAAATTACGAAAATACCCCTAAGGGATACCTTCGACGTGAAAGTATCTCGA
* *
125376 TACCCTTAATGGACTTAAAAAGAACTAT
129 TAACCTTAATAGACTT-AAAAGAACTAT
* * * * * * *
125404 AAAAGGAAGTGAACCTATCCTAAATACCTACCTTCAGCATAAAAGCGGATCAGGTGACAACCTAG
1 AAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGGTGATAACCTAA
* * * * * * *
125469 GAC-TCGATTTGGAAAAATTATGAAAATGCCCCTAGGGGATACCATCGACGTGAAAGTATTTCGA
66 GACTTAG-TTT-TAAAAATTACGAAAATACCCCTAAGGGATACCTTCGACGTGAAAGTATCTCGA
* *
125533 TACCCTTAATGGACTTAAAAGTAACTAT
129 TAACCTTAATAGACTTAAAAG-AACTAT
125561 AAAAGGAA-TGAACCTATCCTAAATACC
1 AAAAGGAAGTGAACCTATCCTAAATACC
125588 TAACTTCAGA
Statistics
Matches: 663, Mismatches: 113, Indels: 63
0.79 0.13 0.08
Matches are distributed among these distances:
153 1 0.00
154 8 0.01
155 154 0.23
156 249 0.38
157 230 0.35
158 21 0.03
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (155 bp):
AAAAGGAAGTGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGGTGATAACCTAA
GACTTAGTTTTAAAAATTACGAAAATACCCCTAAGGGATACCTTCGACGTGAAAGTATCTCGATA
ACCTTAATAGACTTAAAAGAACTAT
Found at i:125644 original size:157 final size:155
Alignment explanation
Indices: 124727--125644 Score: 634
Period size: 157 Copynumber: 5.9 Consensus size: 155
124717 TCCTATAGGT
* * ** * * *
124727 ATACTTTCGACGTGAAAGTATCCCGATAACCC-TAAAAGACTGAAAAGGACTATAAAAGG-GGTG
1 ATACCTTCGACGTGAAAGTATCTCGAT-ACCCTTAATGGACTTAAAAGAACTATAAAAGGAAGTG
* * * * * ** * * * * * *
124790 AACCTATCCTAAATACCCATCTTCGGCATAAAAGCGAACCCGGTGATGACCAAGGAGTTG-GTTC
65 AACCTATCCTAAATACCTAACTTCAGCATAAAAGTGGACCTAGTGGT-AACTAGGACTTGATTTG
*
124854 TAAAAATTATGAAAATACCCCTACGGGT
129 TAAAAATTATGAAAATACCCCTA-GGGG
* * * * * *
124882 ATACCTTCGATGTAAAAGTATCCCGGTAACCTTAAAGGACTTAAAA-ATACTCATAAAAAGG-A-
1 ATACCTTCGACGTGAAAGTATCTCGATACCCTTAATGGACTTAAAAGA-ACT-AT-AAAAGGAAG
* * *** ** * * * * *
124944 TGAACCTATCCTAAATGTCC-ACCTTCAGCATAAAAGCAAACCCGGTGACG-ACCCAAGAGTTGG
63 TGAACCTATCCTAAAT-ACCTAACTTCAGCATAAAAGTGGACCTAGTG--GTAACTAGGACTTGA
* * * * * *
125007 TCT-TAAAAATTACGAAAATGCCCTTATAGGT
125 TTTGTAAAAATTATGAAAATACCCCTA-GGGG
* * * * * *
125038 AAACCTTCGACGTGAAAGTATCT-TAGTAACCC-TAAAGAACTTAAAAGGACTATAAAA-GAGGT
1 ATACCTTCGACGTGAAAGTATCTCGA-T-ACCCTTAATGGACTTAAAAGAACTATAAAAGGAAGT
** * * * * ** ** * **
125100 GAATTTATCCTAAATACCCACCTTCGGCATAAAAGTGAACCCGGTGACAACTTAAGACTCAATTT
64 GAACCTATCCTAAATACCTAACTTCAGCATAAAAGTGGACCTAGTGGTAAC-TAGGACTTGATTT
*
125165 -TAAAAAATTATGAAAATACCCCTAAGGG
128 GT-AAAAATTATGAAAATACCCCTAGGGG
* * * *
125193 ATACCTTCGACATAAAAGTATCTCGGTACACC-TAATAGACTTACAAAGAACTATAAAAGGAAGT
1 ATACCTTCGACGTGAAAGTATCTCGATAC-CCTTAATGGACTTA-AAAGAACTATAAAAGGAAGT
* * * * *
125257 GAACCTATCCTAAATACC-CACATTCGGCAT-AAAGTAGACCT-GGGGATAAACTAGGACTTAAT
64 GAACCTATCCTAAATACCTAAC-TTCAGCATAAAAGTGGACCTAGTGG-T-AACTAGGACTTGAT
* * *
125319 TTTTGAAAAATTACGAAAATACCCTTAGGGG
126 TTGT-AAAAATTATGAAAATACCCCTAGGGG
*
125350 ATACCTTCGATGTGAAAGTATCTCGATACCCTTAATGGACTTAAAAAGAACTATAAAAGGAAGTG
1 ATACCTTCGACGTGAAAGTATCTCGATACCCTTAATGGACTT-AAAAGAACTATAAAAGGAAGTG
* * * ** *
125415 AACCTATCCTAAATACCTACCTTCAGCATAAAAGCGGATC-AGGTGACAACCTAGGACTCGATTT
65 AACCTATCCTAAATACCTAACTTCAGCATAAAAGTGGACCTA-GTGGTAA-CTAGGACTTGATTT
* *
125479 GGAAAAATTATGAAAATGCCCCTAGGGG
128 GTAAAAATTATGAAAATACCCCTAGGGG
* *
125507 ATACCATCGACGTGAAAGTATTTCGATACCCTTAATGGACTTAAAAGTAACTATAAAAGGAA-TG
1 ATACCTTCGACGTGAAAGTATCTCGATACCCTTAATGGACTTAAAAG-AACTATAAAAGGAAGTG
* * *
125571 AACCTATCCTAAATACCTAACTTCAG-ATAAAAGTGGACCTAGTGGTTACTTAGGGCTTGGTTTC
65 AACCTATCCTAAATACCTAACTTCAGCATAAAAGTGGACCTAGTGGTAAC-TAGGACTTGATTT-
125635 GTAACAAATT
128 GTAA-AAATT
125645 GGCGATGTGT
Statistics
Matches: 615, Mismatches: 111, Indels: 72
0.77 0.14 0.09
Matches are distributed among these distances:
153 1 0.00
154 14 0.02
155 147 0.24
156 201 0.33
157 229 0.37
158 21 0.03
159 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (155 bp):
ATACCTTCGACGTGAAAGTATCTCGATACCCTTAATGGACTTAAAAGAACTATAAAAGGAAGTGA
ACCTATCCTAAATACCTAACTTCAGCATAAAAGTGGACCTAGTGGTAACTAGGACTTGATTTGTA
AAAATTATGAAAATACCCCTAGGGG
Found at i:126436 original size:129 final size:125
Alignment explanation
Indices: 126291--126521 Score: 347
Period size: 129 Copynumber: 1.8 Consensus size: 125
126281 AATTATTTCT
*
126291 AAAAAACCATTTCATACCTTAATGGATACCTGAAAAGGTA-CAAAAGTTTTTTGAAATCTTTTAT
1 AAAAAACCATTTCATACCTTAATGGATACCTGAAAAGATATCAAAAG-TTTTTGAAATCTTTTAT
* *
126355 ATCCCTATGGATACCCATAGGAATATAAAAGACTTGAAAAAAATTGATATTTATTTATATTTGAA
65 ACCCCTACGGATACCCATA--AATATAAAAGA-TT-AAAAAAATTGATATTTATTTATATTTGAA
* * * *
126420 AAAAAATCATTTCATACCTTAATGGATACCTGAAAAGATATGAAAAGTTTTTGAAGTTTTTTATA
1 AAAAAACCATTTCATACCTTAATGGATACCTGAAAAGATATCAAAAGTTTTTGAAATCTTTTATA
126485 CCCCTACGGATACCCATAAATATAAAAGATTAAAAAA
66 CCCCTACGGATACCCATAAATATAAAAGATTAAAAAA
126522 CGATTAATGT
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
125 6 0.06
126 2 0.02
127 11 0.12
129 70 0.74
130 5 0.05
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (125 bp):
AAAAAACCATTTCATACCTTAATGGATACCTGAAAAGATATCAAAAGTTTTTGAAATCTTTTATA
CCCCTACGGATACCCATAAATATAAAAGATTAAAAAAATTGATATTTATTTATATTTGAA
Found at i:126808 original size:164 final size:163
Alignment explanation
Indices: 126402--126858 Score: 708
Period size: 163 Copynumber: 2.8 Consensus size: 163
126392 AAAAAATTGA
* *
126402 TATTTATTTATATTTGAAAAAAAATCATTTCATACCTTAATGGATACCTGAAAAGATATGAAAAG
1 TATTTATTTATTTTTGAAAAAAAATCATTTCATACCTTAATGGATACCTGAAAAGATACGAAAAG
* * * *
126467 TTTTTGAAGTTTTTTATACCCCTACGGATACCCATA--AATATAAAAGATTAAAAAACGATTAAT
66 TTTTTGAAATATTTTATA-CCCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAAT
*
126530 GTTTGTTGTAATTAACGAGGAGTGAATTTAATAT
130 ATTTGTTGTAATTAACGAGGAGTGAATTTAATAT
* * *
126564 TATTTATTTATTTTTG-AAAAAAATCATTTCGTACCATAATAGATA-CTCGAAAAGATACGAAAA
1 TATTTATTTATTTTTGAAAAAAAATCATTTCATACCTTAATGGATACCT-GAAAAGATACGAAAA
* *
126627 GTTTTTAAAACATTTTATACCCTTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAA
65 GTTTTTGAAATATTTTATACCC-TACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAA
126692 TATTTGTTGTAATTAACGAGGAGTGAATTTAATAT
129 TATTTGTTGTAATTAACGAGGAGTGAATTTAATAT
*
126727 TATTTATTTATTTTTGAAAAAAAATCATTTCATACTTTAATGGATACCTGAAAAGATACGAAAAG
1 TATTTATTTATTTTTGAAAAAAAATCATTTCATACCTTAATGGATACCTGAAAAGATACGAAAAG
* *
126792 TTTTTGAAATATTTTATATCCCTACGGATACTCATAGGAATA-CAAAGATTTAAAAATGATTAAT
66 TTTTTGAAATATTTTATA-CCCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAAT
126856 ATT
130 ATT
126859 AAAATATATA
Statistics
Matches: 268, Mismatches: 20, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
160 5 0.02
161 69 0.26
162 15 0.06
163 98 0.37
164 76 0.28
165 5 0.02
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (163 bp):
TATTTATTTATTTTTGAAAAAAAATCATTTCATACCTTAATGGATACCTGAAAAGATACGAAAAG
TTTTTGAAATATTTTATACCCTACGGATACCCATAGGAATATAAAAGATTTAAAAATGATTAATA
TTTGTTGTAATTAACGAGGAGTGAATTTAATAT
Found at i:127671 original size:21 final size:20
Alignment explanation
Indices: 127637--127684 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
127627 ACTAATTTAG
*
127637 TTTTCTTGTTTTTCTATCTA
1 TTTTCTTATTTTTCTATCTA
* *
127657 TTTTCTCTATTTTTCTTTCTC
1 TTTTCT-TATTTTTCTATCTA
127678 TTTTCTT
1 TTTTCTT
127685 TCTTCTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTCTTATTTTTCTATCTA
Found at i:128549 original size:25 final size:25
Alignment explanation
Indices: 128521--128573 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
128511 CCGGTTACCC
128521 TCTTATGCTTTTTTTCATCTTTT-TT
1 TCTTAT-CTTTTTTTCATCTTTTCTT
* **
128546 TCTTCTCTTTTTTTTTTCTTTTCTT
1 TCTTATCTTTTTTTCATCTTTTCTT
128571 TCT
1 TCT
128574 CCCTTCCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (25 bp):
TCTTATCTTTTTTTCATCTTTTCTT
Found at i:128554 original size:13 final size:12
Alignment explanation
Indices: 128529--128567 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
128519 CCTCTTATGC
128529 TTTTTTTCATCTT
1 TTTTTTTC-TCTT
128542 TTTTTCTTCTCTT
1 TTTTT-TTCTCTT
128555 TTTTTTT-TCTT
1 TTTTTTTCTCTT
128566 TT
1 TT
128568 CTTTCTCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.24
12 2 0.08
13 14 0.56
14 3 0.12
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:128561 original size:16 final size:16
Alignment explanation
Indices: 128540--128571 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
128530 TTTTTTCATC
128540 TTTTTTTCTTCTCTTT
1 TTTTTTTCTTCTCTTT
*
128556 TTTTTTTCTTTTCTTT
1 TTTTTTTCTTCTCTTT
128572 CTCCCTTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTCTTCTCTTT
Found at i:129554 original size:19 final size:20
Alignment explanation
Indices: 129512--129582 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
129502 ACACCCAGAT
*
129512 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCATA
*
129532 GTATCGATACATGTT-CATA
1 GTATCGATACATATTGCATA
* * * *
129551 GTATCGTTACACATTGAATT
1 GTATCGATACATATTGCATA
129571 GTATCGATACAT
1 GTATCGATACAT
129583 GAAACTGGCA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 15 0.37
20 26 0.63
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATTGCATA
Found at i:138429 original size:33 final size:32
Alignment explanation
Indices: 138392--138453 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
138382 CACCCAGATG
**
138392 TATCGATACATATTGTTTAGTATCGATACATTA
1 TATCGATACATATT-CATAGTATCGATACATTA
* *
138425 TATCGATGCATGTTCATAGTATCGATACA
1 TATCGATACATATTCATAGTATCGATACA
138454 CATTGAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 13 0.52
33 12 0.48
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (32 bp):
TATCGATACATATTCATAGTATCGATACATTA
Found at i:140681 original size:82 final size:83
Alignment explanation
Indices: 140471--140682 Score: 216
Period size: 82 Copynumber: 2.6 Consensus size: 83
140461 ACCAGTAGGC
* * *
140471 CAACAGAGGATAAAAAGATTTACCCGGGACTAAGCTGACAGGTAAACACGGGATGAAAGATTGAC
1 CAACAGAGGAT-AAAAGATTTACCCGGGACTAAGCTGACAGGTAAACAAGAGAAGAAAGATTGAC
** **
140536 TGGGATTGAAATAATGAGT
65 TGGGACCGAAATAACAAGT
* ** * * *
140555 CAACA-ATGGATAAAATATTTACTTGGGACTGAGCTAACAAGTAAACAAGAGAAGAAAG-TTGA-
1 CAACAGA-GGATAAAAGATTTACCCGGGACTAAGCTGACAGGTAAACAAGAGAAGAAAGATTGAC
*
140617 TGGGGACCG-AATCGACAAGT
65 T-GGGACCGAAAT-AACAAGT
* *
140637 CAATAGAGGATAAAAGATTTACCCGAGACTAAGCTGACAGGTAAAC
1 CAACAGAGGATAAAAGATTTACCCGGGACTAAGCTGACAGGTAAAC
140683 GATGGATAAA
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
81 4 0.04
82 49 0.48
83 40 0.39
84 9 0.09
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (83 bp):
CAACAGAGGATAAAAGATTTACCCGGGACTAAGCTGACAGGTAAACAAGAGAAGAAAGATTGACT
GGGACCGAAATAACAAGT
Found at i:140868 original size:83 final size:83
Alignment explanation
Indices: 140713--140873 Score: 187
Period size: 83 Copynumber: 1.9 Consensus size: 83
140703 GGATTGCAAG
* * * * ** *** *
140713 GATAAAAGATTTACTTGGGACTAAGCCAATAGGTAAACAAAGGATGAGGGGTGGACCAGGGCTGA
1 GATAAAAGATTTACCTAGGACTAAGCCAATAAGTAAACAAAAGAAAAAAAGTGGACCAGGACTGA
*
140778 ACTGACAAGTCAACAATT
66 ACCGACAAGTCAACAATT
* * * *
140796 GATAAAAGATTTACCTAGGACTAAGCCAATAAGTAAACAAAAGAAAAAAAGTTGACCTGGATTGG
1 GATAAAAGATTTACCTAGGACTAAGCCAATAAGTAAACAAAAGAAAAAAAGTGGACCAGGACTGA
140861 ACCGACAAGTCAA
66 ACCGACAAGTCAA
140874 TGAAAGATAA
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
83 63 1.00
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (83 bp):
GATAAAAGATTTACCTAGGACTAAGCCAATAAGTAAACAAAAGAAAAAAAGTGGACCAGGACTGA
ACCGACAAGTCAACAATT
Found at i:141204 original size:84 final size:83
Alignment explanation
Indices: 140963--141385 Score: 325
Period size: 84 Copynumber: 5.1 Consensus size: 83
140953 GTTAATGAGG
* * * *
140963 GATAAAGGATTTAC-C-GAGACTAGGCCAACAGGTAAACAAAGGATTAAAAAGTTAACC-GAGAT
1 GATAAAGGATTTACTCAG-GACTAGGCCGACGGGTAAATAAAGGA-TAAAAAGTTGACCAG-GAT
* * *
141025 TGGACCGATAAGTCAATAAAA
63 TAGACCGACAAGTCAACAAAA
* ** * * * * **
141046 GATAAAAAGAAGTACT-AGGACCAAGCCGAC-GATGAACGAAGGATAAAAAGTTGACCAGGATTA
1 GAT-AAAGGATTTACTCAGGACTAGGCCGACGGGTAAATAAAGGATAAAAAGTTGACCAGGATTA
* * * *
141109 AACCGATAAGTCAACGAAG
65 GACCGACAAGTCAACAAAA
* *
141128 GATAAAGGATTTACTCAGGACTAGGCCGATGGGTAAATAAAGGATAAAGAAGTTGACCGGGATTA
1 GATAAAGGATTTACTCAGGACTAGGCCGACGGGTAAATAAAGGATAAA-AAGTTGACCAGGATTA
* *
141193 GATCGATAAGTCAACAAAA
65 GACCGACAAGTCAACAAAA
* ** ** * * ** * * *
141212 GATAAAAGAAAGTACTTGGGACCAAGCCGACAAGTGAATGAAGGATAAAAAGTTGACCAAGATTA
1 GAT-AAAGGATTTACTCAGGACTAGGCCGACGGGTAAATAAAGGATAAAAAGTTGACCAGGATTA
* * * **
141277 AACTGACAAGTCAACGAGG
65 GACCGACAAGTCAACAAAA
* * * * * *
141296 GATAAAGGATTTACCCCGAACTAGGCTGACGGGTAAACAAAGGATAAAAAATTTGACCAGGATTA
1 GATAAAGGATTTACTCAGGACTAGGCCGACGGGTAAATAAAGGAT-AAAAAGTTGACCAGGATTA
141361 GACCGACAAGTCAACAAAA
65 GACCGACAAGTCAACAAAA
141380 GATAAA
1 GATAAA
141386 AGCAAGTACT
Statistics
Matches: 258, Mismatches: 73, Indels: 17
0.74 0.21 0.05
Matches are distributed among these distances:
81 9 0.03
82 45 0.17
83 54 0.21
84 116 0.45
85 34 0.13
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.17
Consensus pattern (83 bp):
GATAAAGGATTTACTCAGGACTAGGCCGACGGGTAAATAAAGGATAAAAAGTTGACCAGGATTAG
ACCGACAAGTCAACAAAA
Found at i:141301 original size:168 final size:166
Alignment explanation
Indices: 140777--141605 Score: 769
Period size: 168 Copynumber: 5.0 Consensus size: 166
140767 ACCAGGGCTG
* ** * * ** *
140777 AACTGACAAGTCAACAATTGATAAAAGATTTACCTAGGACTAAGCCAATAAGTAAACAAAAGA-A
1 AACTGACAAGTCAACGAGGGATAAAGGATTTACC-AGGACTAGGCCAATGGGTAAACAAAGGATA
* ** *
140841 AAAAAGTTGACCTGGATTGGACCGACAAGTCAATGAAAGATAAAAGAAAGTACTTGGGACCAAGT
65 AAAAAGTTGACCGGGATTGGACCGACAAGTCAACAAAAGATAAAAGAAAGTACTTGGGACCAAGC
* **
140906 TGACAGGTGAATGAAGGATGAAAAGTTGACTGAGATTA
130 CGACAGGTGAATGAAGGAT-AAAAGTTGACCAAGATTA
* * * * ** *
140944 AACCGACGAGTTAATGAGGGATAAAGGATTTACC-GAGACTAGGCCAACAGGTAAACAAAGGATT
1 AACTGACAAGTCAACGAGGGATAAAGGATTTACCAG-GACTAGGCCAATGGGTAAACAAAGGATA
* * * * *
141008 AAAAAGTTAACCGAGATTGGACCGATAAGTCAATAAAAGATAAAA-AGAAGTAC-TAGGACCAAG
65 AAAAAGTTGACCGGGATTGGACCGACAAGTCAACAAAAGATAAAAGA-AAGTACTTGGGACCAAG
* * *
141071 CCGAC-GATGAACGAAGGATAAAAAGTTGACCAGGATTA
129 CCGACAGGTGAATGAAGGAT-AAAAGTTGACCAAGATTA
* * * * *
141109 AACCGATAAGTCAACGAAGGATAAAGGATTTACTCAGGACTAGGCCGATGGGTAAATAAAGGATA
1 AACTGACAAGTCAACGAGGGATAAAGGATTTAC-CAGGACTAGGCCAATGGGTAAACAAAGGATA
* * * *
141174 AAGAAGTTGACCGGGATTAGATCGATAAGTCAACAAAAGATAAAAGAAAGTACTTGGGACCAAGC
65 AAAAAGTTGACCGGGATTGGACCGACAAGTCAACAAAAGATAAAAGAAAGTACTTGGGACCAAGC
*
141239 CGACAAGTGAATGAAGGATAAAAAGTTGACCAAGATTA
130 CGACAGGTGAATGAAGGAT-AAAAGTTGACCAAGATTA
* * ** *
141277 AACTGACAAGTCAACGAGGGATAAAGGATTTACCCCGAACTAGGCTGACGGGTAAACAAAGGATA
1 AACTGACAAGTCAACGAGGGATAAAGGATTTA-CCAGGACTAGGCCAATGGGTAAACAAAGGATA
* * * * * *
141342 AAAAATTTGACCAGGATTAGACCGACAAGTCAACAAAAGATAAAAGCAAGTACTAGGGACGAAGC
65 AAAAAGTTGACCGGGATTGGACCGACAAGTCAACAAAAGATAAAAGAAAGTACTTGGGACCAAGC
* * * * ** * *
141407 TGATAGGTGAAT-AATGGATTAAGGTTGATCGGAGACTG
130 CGACAGGTGAATGAA-GGATAAAAGTTGA-CCAAGATTA
* ** ** * *
141445 AGCTGAC-AGATCACCATAAGGG-TAAAGGATTTACTTGAAACT-GGTCAATGGGTAAACAAAGG
1 AACTGACAAG-TCA--ACGAGGGATAAAGGATTTACCAG-GACTAGGCCAATGGGTAAACAAAGG
* * * * * ***
141507 ATAAAGAAGTTGACTGAGATTGGACTGACAAGTCAACAAAAGATAAAAGGAAGTACCAAGGACCA
62 ATAAAAAAGTTGACCGGGATTGGACCGACAAGTCAACAAAAGATAAAAGAAAGTACTTGGGACCA
* *
141572 AGCCAACAGGTGAAT-AATGGATAAAGGTTGACCA
127 AGCCGACAGGTGAATGAA-GGATAAAAGTTGACCA
141606 GAGACTGAGC
Statistics
Matches: 548, Mismatches: 99, Indels: 30
0.81 0.15 0.04
Matches are distributed among these distances:
165 56 0.10
166 104 0.19
167 100 0.18
168 267 0.49
169 16 0.03
170 5 0.01
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (166 bp):
AACTGACAAGTCAACGAGGGATAAAGGATTTACCAGGACTAGGCCAATGGGTAAACAAAGGATAA
AAAAGTTGACCGGGATTGGACCGACAAGTCAACAAAAGATAAAAGAAAGTACTTGGGACCAAGCC
GACAGGTGAATGAAGGATAAAAGTTGACCAAGATTA
Found at i:141377 original size:42 final size:42
Alignment explanation
Indices: 141084--141386 Score: 116
Period size: 42 Copynumber: 7.2 Consensus size: 42
141074 ACGATGAACG
* * *
141084 AAGGAT-AAAAAGTTGACCAGGATTAAACCGATAAGTCAACG
1 AAGGATAAAAAAGTTGACCAGGATTAGACCGACAAGTCAACA
** * * * *** * *
141125 AAGGATAAAGGA-TTTACTCAGGACTAGGCCGATGGGTAAATA
1 AAGGATAAAAAAGTTGAC-CAGGATTAGACCGACAAGTCAACA
* * * *
141167 AAGGATAAAGAAGTTGACCGGGATTAGATCGATAAGTCAACA
1 AAGGATAAAAAAGTTGACCAGGATTAGACCGACAAGTCAACA
* ** ** * **
141209 AAAGATAAAAGAAAG-T-ACTTGGGACCA-AGCCGACAAGTGAATG
1 AAGGAT-AAA-AAAGTTGAC-CAGGATTAGA-CCGACAAGTCAACA
* * * *
141252 AAGGAT-AAAAAGTTGACCAAGATTAAACTGACAAGTCAACG
1 AAGGATAAAAAAGTTGACCAGGATTAGACCGACAAGTCAACA
* ** * * * * * * ** *
141293 AGGGATAAAGGA-TTTACCCCGAACTAGGCTGACGGGTAAACA
1 AAGGATAAAAAAGTTGA-CCAGGATTAGACCGACAAGTCAACA
*
141335 AAGGATAAAAAATTTGACCAGGATTAGACCGACAAGTCAACA
1 AAGGATAAAAAAGTTGACCAGGATTAGACCGACAAGTCAACA
*
141377 AAAGATAAAA
1 AAGGATAAAA
141387 GCAAGTACTA
Statistics
Matches: 182, Mismatches: 67, Indels: 25
0.66 0.24 0.09
Matches are distributed among these distances:
40 4 0.02
41 35 0.19
42 110 0.60
43 30 0.16
44 3 0.02
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (42 bp):
AAGGATAAAAAAGTTGACCAGGATTAGACCGACAAGTCAACA
Found at i:142091 original size:42 final size:42
Alignment explanation
Indices: 141766--142626 Score: 334
Period size: 42 Copynumber: 20.6 Consensus size: 42
141756 ACAGTGGATG
* * * * * *
141766 AAGAAGTCTCTCGAGTTTAAGCCGATGGGCAGGCGAAAGATG
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * * **
141808 AAGAAGTCTCTCGGGTCTAAGTCGATGGGCAGACGATTGATA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * ** * * * *
141850 AATGAAATCTTTCAAGACTGAGCC-ATCGGGTAGATGAAAAATGA
1 AA-GAAGTCTCTCGGGTCTAAGCCGA-CGGGTAGACGAAAGAT-A
* * ** * ***
141894 AA-AAGTCTCCCGAGTCTAAATCAACGGGTAGACGGTTGATA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * * * * *** *
141935 AAGGAAGTCTCCCTGGTCTAAGCCAACGGGCAGAAGGTGGATG
1 AA-GAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * * * * *
141978 AAGAAGTCTCGCAGGTTTAAGCCGATGGGCAGATGAAAGATGA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGAT-A
* ***
142021 AA-AAGTCTCTCGGGTCTAAGCCAACGGGTAGACGGTTGATA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * *
142062 AAGAAGTCTCTTGGGTCTAAGCCGACGGGTAGATGAAAGATG
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * * * ** * ***
142104 AAGAAATTTCTCGGGTTTAAGCTGGTGGGCAGACGGTTGATA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * * *
142146 AAGGAAATCTCTCGGGACT-A----A---GTAGATGAAAAATGA
1 AA-GAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGAT-A
* * *
142182 AA-AAGTCTCCCGGGTCTAAGTCGACGGGTAGAC---TGATA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * ** * ** *
142220 AAGGAAGTCTCCCGGGTCTAAGTCGATAGGTAGA-TAGTGGATG
1 AA-GAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGA-AAGATA
* * *
142263 AAGAAGTCTCTTGGGTCTAAGCCGACGGGTAGACAAAAGATG
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * * ** *
142305 AAGAAGTCCCCCTGGTCTAAGTTGACGGGTAGACGAAAGATG
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
** * * * * *
142347 AAGAAGTCTCTCGGGTCTAAGTTGATGGGCAGCCAAAAGATG
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * * * ** * ***
142389 AGGAAGTTTCCCGAGTCTAAGCCGATAGGTAGATGGTGGATA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * *
142431 AAGAAATCTTTCGGGTCTAAGCCGACGGGCAGACGAAAGATGA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGAT-A
* * * * *** * * *
142474 AGGAAGTCTCCCGAGTCTAAGTCGATAAGCAGAAGAATGATAA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGAT-A
* * * * ***
142517 AATAAGTCTCTTGGGTCTAAGTCGACGGGCAGACGGTGGATA
1 AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
* * * * * *
142559 AAAAAGTCTC-CTGAGTCTAAGTCGACAGGCAGACAAAAGATTA
1 AAGAAGTCTCTC-GGGTCTAAGCCGACGGGTAGACGAAAGA-TA
* *
142602 AAGAAGTCTCCCGGGTTTAAGCCGA
1 AAGAAGTCTCTCGGGTCTAAGCCGA
142627 TGAGCAAACA
Statistics
Matches: 603, Mismatches: 187, Indels: 57
0.71 0.22 0.07
Matches are distributed among these distances:
34 12 0.02
35 8 0.01
36 3 0.00
38 3 0.00
39 3 0.00
40 28 0.05
41 6 0.01
42 375 0.62
43 161 0.27
44 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (42 bp):
AAGAAGTCTCTCGGGTCTAAGCCGACGGGTAGACGAAAGATA
Found at i:142388 original size:285 final size:285
Alignment explanation
Indices: 141762--142451 Score: 729
Period size: 285 Copynumber: 2.4 Consensus size: 285
141752 GAAGACAGTG
* * * *
141762 GATGAAGAAGTCTCTCGAGTTTAAGCCGATGGGCAGGCGAAAGATGAAGAAGTCTCTCGGGTCTA
1 GATGAAGAAGTCTCTCGGGTCTAAGCCGATGGGCAGACGAAAGATGAAGAAGTTTCTCGGGTCTA
* **
141827 AG-TCGATGGGCAGACGATTGATAAATGAAATCTTTCAAGACTGAGCCATCGGGTAGATGAAAAA
66 AGCT-GATGGGCAGACGGTTGATAAA-GAAATCTTTCGGGACT-A---A----GTAGATGAAAAA
*
141891 TGAAAAAGTCTCCCGAGTCTAAATCAACGGGTAGACGGTTGATAAAGGAAGTCTCCCTGGTCTAA
121 TGAAAAAGTCTCCCGAGTCTAAATCAACGGGTAGAC-G-TGATAAAGGAAGTCTCCCGGGTCTAA
* * * **
141956 GCCAACGGGCAGAAGGTGGATGAAGAAGTCTCGCAGGTTTAAGCCGATGGGCAGATGAAAGATGA
184 GCCAACAGGCAGAAGGTGGATGAAGAAGTCTCGCAGGTCTAAGCCGACGGGCAGACAAAAGATGA
* * ***
142021 AAAAGTCTCTCGGGTCTAAGCCAACGGGTAGACGGTT
249 AAAAGTCCCCCGGGTCTAAGCCAACGGGTAGACGAAA
* * * * * * *
142058 GATAAAGAAGTCTCTTGGGTCTAAGCCGACGGGTAGATGAAAGATGAAGAAATTTCTCGGGTTTA
1 GATGAAGAAGTCTCTCGGGTCTAAGCCGATGGGCAGACGAAAGATGAAGAAGTTTCTCGGGTCTA
* *
142123 AGCTGGTGGGCAGACGGTTGATAAAGGAAATCTCTCGGGACTAAGTAGATGAAAAATGAAAAAGT
66 AGCTGATGGGCAGACGGTTGATAAA-GAAATCTTTCGGGACTAAGTAGATGAAAAATGAAAAAGT
* * * * * * *
142188 CTCCCGGGTCTAAGTCGACGGGTAGAC-TGATAAAGGAAGTCTCCCGGGTCTAAGTCGATAGGTA
130 CTCCCGAGTCTAAATCAACGGGTAGACGTGATAAAGGAAGTCTCCCGGGTCTAAGCCAACAGGCA
*** * *
142252 GATA-GTGGATGAAGAAGTCTCTTGGGTCTAAGCCGACGGGTAGACAAAAGATGAAGAAGTCCCC
195 GA-AGGTGGATGAAGAAGTCTCGCAGGTCTAAGCCGACGGGCAGACAAAAGATGAAAAAGTCCCC
* ***
142316 CTGGTCTAAGTTGACGGGTAGACGAAA
259 CGGGTCTAAGCCAACGGGTAGACGAAA
** * * * * *
142343 GATGAAGAAGTCTCTCGGGTCTAAGTTGATGGGCAGCCAAAAGATGAGGAAGTTTCCCGAGTCTA
1 GATGAAGAAGTCTCTCGGGTCTAAGCCGATGGGCAGACGAAAGATGAAGAAGTTTCTCGGGTCTA
* * * * * *
142408 AGCCGATAGGTAGATGGTGGATAAAGAAATCTTTCGGGTCTAAG
66 AGCTGATGGGCAGACGGTTGATAAAGAAATCTTTCGGGACTAAG
142452 CCGACGGGCA
Statistics
Matches: 326, Mismatches: 66, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
284 17 0.05
285 172 0.53
286 1 0.00
288 45 0.14
292 1 0.00
295 1 0.00
296 88 0.27
297 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.22
Consensus pattern (285 bp):
GATGAAGAAGTCTCTCGGGTCTAAGCCGATGGGCAGACGAAAGATGAAGAAGTTTCTCGGGTCTA
AGCTGATGGGCAGACGGTTGATAAAGAAATCTTTCGGGACTAAGTAGATGAAAAATGAAAAAGTC
TCCCGAGTCTAAATCAACGGGTAGACGTGATAAAGGAAGTCTCCCGGGTCTAAGCCAACAGGCAG
AAGGTGGATGAAGAAGTCTCGCAGGTCTAAGCCGACGGGCAGACAAAAGATGAAAAAGTCCCCCG
GGTCTAAGCCAACGGGTAGACGAAA
Found at i:142725 original size:43 final size:43
Alignment explanation
Indices: 142678--142799 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 43
142668 ACAGCAGATA
*
142678 AAGGGTAAAAAAGTCTATAGGGTCAAAG-TCGACAGGAAAACTT
1 AAGGGTGAAAAAGTCTATAGGGTCAAAGCT-GACAGGAAAACTT
** **
142721 AAGGGTGAGGAAGTCTCA-AGGGTCAAAGCTGATGGGAAAACTT
1 AAGGGTGAAAAAGTCT-ATAGGGTCAAAGCTGACAGGAAAACTT
* *
142764 AAGGGTGAAAAAGTCTCTAGGATCAAAGCTGACAGG
1 AAGGGTGAAAAAGTCTATAGGGTCAAAGCTGACAGG
142800 CAGAGTTTAG
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
43 63 0.97
44 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.30, T:0.18
Consensus pattern (43 bp):
AAGGGTGAAAAAGTCTATAGGGTCAAAGCTGACAGGAAAACTT
Found at i:143236 original size:96 final size:96
Alignment explanation
Indices: 142984--143393 Score: 459
Period size: 96 Copynumber: 4.2 Consensus size: 96
142974 GTTTGACCAG
* ** * *
142984 GGGATAAAAAGAGTTTGAGC-AGGCCCTAACACCAATGTAGTCAAATGAGAGATGAAAAGAGTTT
1 GGGATGAAAAGAGTTTGA-CTAGGCCCTAACACCAATACAATCAAACGAGAGATGAAAAGAGTTT
* *
143048 GACCAGGTCTTAA-AGCCAATACAATCAAAC-A
65 GACCAGGCCTTAACA-CCAATACAGTCAAACGA
* * * *
143079 GGGGTGGAAAGAGTTTGAGTTTGACTAGGCCTTAACACCAATATAGTCAAACGAGAGATGAAAAG
1 GGGAT-GAAA-A----GAGTTTGACTAGGCCCTAACACCAATACAATCAAACGAGAGATGAAAAG
* * * *
143144 AGTTTGACCATGCCTTAACACCCATATAGCCAAACGA
60 AGTTTGACCAGGCCTTAACACCAATACAGTCAAACGA
*
143181 GGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATACAATCAAATGAG-GAATGAAAAGAGTTT
1 GGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATACAATCAAACGAGAG-ATGAAAAGAGTTT
* *
143245 GACCAGGCCTTAACACCCATGCAGTCAAACGA
65 GACCAGGCCTTAACACCAATACAGTCAAACGA
* * * * *
143277 GGAATGAAAAGAGTTTGACTAGACCCTAACACCAATACAATCAAACAAGGGTTGAAAAGAGTTTG
1 GGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATACAATCAAACGAGAGATGAAAAGAGTTTG
* * *
143342 ACTAAGCCTTAACACCAATACAGTCAAATGA
66 ACCAGGCCTTAACACCAATACAGTCAAACGA
* *
143373 GAGATGAAAAGAGTTTAACTA
1 GGGATGAAAAGAGTTTGACTA
143394 AGTCCTAATG
Statistics
Matches: 271, Mismatches: 33, Indels: 21
0.83 0.10 0.06
Matches are distributed among these distances:
95 5 0.02
96 181 0.67
97 2 0.01
100 2 0.01
101 75 0.28
102 6 0.02
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (96 bp):
GGGATGAAAAGAGTTTGACTAGGCCCTAACACCAATACAATCAAACGAGAGATGAAAAGAGTTTG
ACCAGGCCTTAACACCAATACAGTCAAACGA
Found at i:143395 original size:48 final size:48
Alignment explanation
Indices: 142990--143393 Score: 404
Period size: 48 Copynumber: 8.3 Consensus size: 48
142980 CCAGGGGATA
* ** *
142990 AAAAGAGTTTGAGC-AGGCCCTAACACCAATGTAGTCAAATGAGAGATG
1 AAAAGAGTTTGA-CTAGGCCTTAACACCAATACAGTCAAACGAGAGATG
* * * * *
143038 AAAAGAGTTTGACCAGGTCTTAA-AGCCAATACAATCAAAC-AGGGGTGG
1 AAAAGAGTTTGACTAGGCCTTAACA-CCAATACAGTCAAACGAGAGAT-G
*
143086 AAAGAGTTTGAGTTTGACTAGGCCTTAACACCAATATAGTCAAACGAGAGATG
1 AAA-A----GAGTTTGACTAGGCCTTAACACCAATACAGTCAAACGAGAGATG
* * * * * *
143139 AAAAGAGTTTGACCATGCCTTAACACCCATATAGCCAAACGAGGGATG
1 AAAAGAGTTTGACTAGGCCTTAACACCAATACAGTCAAACGAGAGATG
* * *
143187 AAAAGAGTTTGACTAGGCCCTAACACCAATACAATCAAATGAG-GAATG
1 AAAAGAGTTTGACTAGGCCTTAACACCAATACAGTCAAACGAGAG-ATG
* * *
143235 AAAAGAGTTTGACCAGGCCTTAACACCCATGCAGTCAAACGAG-GAATG
1 AAAAGAGTTTGACTAGGCCTTAACACCAATACAGTCAAACGAGAG-ATG
* * * * * *
143283 AAAAGAGTTTGACTAGACCCTAACACCAATACAATCAAACAAGGGTTG
1 AAAAGAGTTTGACTAGGCCTTAACACCAATACAGTCAAACGAGAGATG
* *
143331 AAAAGAGTTTGACTAAGCCTTAACACCAATACAGTCAAATGAGAGATG
1 AAAAGAGTTTGACTAGGCCTTAACACCAATACAGTCAAACGAGAGATG
*
143379 AAAAGAGTTTAACTA
1 AAAAGAGTTTGACTA
143394 AGTCCTAATG
Statistics
Matches: 294, Mismatches: 50, Indels: 24
0.80 0.14 0.07
Matches are distributed among these distances:
47 7 0.02
48 245 0.83
49 2 0.01
52 1 0.00
53 34 0.12
54 5 0.02
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (48 bp):
AAAAGAGTTTGACTAGGCCTTAACACCAATACAGTCAAACGAGAGATG
Found at i:144037 original size:21 final size:21
Alignment explanation
Indices: 144004--144044 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
143994 CTAAGTAAAA
144004 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
144025 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
144045 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:144215 original size:53 final size:53
Alignment explanation
Indices: 144124--144260 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
144114 AGATTGCATA
*
144124 GTATTGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
144178 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
144231 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
144261 TTGAAAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:144341 original size:13 final size:13
Alignment explanation
Indices: 144323--144348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
144313 ACATATTTGT
144323 GTGTATCGATACA
1 GTGTATCGATACA
144336 GTGTATCGATACA
1 GTGTATCGATACA
144349 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:144890 original size:34 final size:35
Alignment explanation
Indices: 144827--144893 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
144817 CTAAGTGATT
144827 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
144863 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
144894 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:145619 original size:89 final size:88
Alignment explanation
Indices: 145515--145721 Score: 227
Period size: 89 Copynumber: 2.3 Consensus size: 88
145505 TTGTTGCACA
* * * * * *
145515 TGAAATGATGTAAATGCAAGCATCCATAAAATGGCAAATGCATAT-GAGATGATGCAAATACCAA
1 TGAAATGATGCAAATGCAAGCATCAATAAAAGGGAAAATGCATATGGA-ATAATCCAAATA-CAA
* * * *
145579 ACGTCATCTAAAGTGCAGATGTATG
64 ACGTCATCTAAAATGCAAATGCAAG
* * *
145604 TGAAATAATGCAAATGCAAACATCAATAGAAAGGGAAAATGCATATGGAATAATCCAAATACTAA
1 TGAAATGATGCAAATGCAAGCATCAATA-AAAGGGAAAATGCATATGGAATAATCCAAATACAAA
* *
145669 TGTTATCTAAAATGCAAATGCAAG
65 CGTCATCTAAAATGCAAATGCAAG
* *
145693 GGAAACGATGCAAATGCAAGCATCAATAA
1 TGAAATGATGCAAATGCAAGCATCAATAA
145722 GGAGACAAAA
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 1 0.01
89 69 0.71
90 25 0.26
91 2 0.02
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (88 bp):
TGAAATGATGCAAATGCAAGCATCAATAAAAGGGAAAATGCATATGGAATAATCCAAATACAAAC
GTCATCTAAAATGCAAATGCAAG
Found at i:146875 original size:19 final size:19
Alignment explanation
Indices: 146853--146894 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
146843 TTCCTTATCT
146853 TTTTTCTTTTCTTTTTTGA
1 TTTTTCTTTTCTTTTTTGA
* *
146872 TTTTTTTTTTCTTTTTTGC
1 TTTTTCTTTTCTTTTTTGA
146891 TTTT
1 TTTT
146895 CTTATTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTCTTTTTTGA
Found at i:150143 original size:13 final size:13
Alignment explanation
Indices: 150125--150150 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
150115 ACACCAACGT
150125 ATGTATCGATACA
1 ATGTATCGATACA
150138 ATGTATCGATACA
1 ATGTATCGATACA
150151 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:152471 original size:27 final size:27
Alignment explanation
Indices: 152431--152485 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
152421 AACTTGCATG
*
152431 ATTCATTTTCTATGTTTTATATGGCAC
1 ATTCATTTTATATGTTTTATATGGCAC
152458 ATTCATTTTATATGTTTTATATGGCAC
1 ATTCATTTTATATGTTTTATATGGCAC
152485 A
1 A
152486 CCAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.51
Consensus pattern (27 bp):
ATTCATTTTATATGTTTTATATGGCAC
Done.