Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 89 of 316
Found at i:27043810 original size:13 final size:13
Alignment explanation
Indices: 27043792--27043817 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27043782 CTTATATTAT
27043792 TAGTTCGCAATTG
1 TAGTTCGCAATTG
27043805 TAGTTCGCAATTG
1 TAGTTCGCAATTG
27043818 CAATAATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TAGTTCGCAATTG
Found at i:27046324 original size:46 final size:46
Alignment explanation
Indices: 27046143--27046361 Score: 184
Period size: 46 Copynumber: 4.7 Consensus size: 46
27046133 GGTTATTGTG
* **
27046143 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACAT-A
* *
27046188 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGC-ATTGAGACGAGT-
1 -AGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCTA-CGAGAC-A-TA
*
27046238 -GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAGACATA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACATA
* * *
27046283 AGCTAGTATAAGACATGTCTGGGACATGCATCAGCTACGAG--ATG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACATA
* * *
27046327 TGTTAGTGTAAGACCATGTCTGGGGCATGGCATCG
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
27046362 ATATAGATAT
Statistics
Matches: 143, Mismatches: 16, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
44 13 0.09
45 16 0.11
46 62 0.43
47 31 0.22
48 18 0.13
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACATA
Found at i:27047525 original size:21 final size:21
Alignment explanation
Indices: 27047500--27047546 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
27047490 TGGCCATACG
27047500 GGCGTGTTGCCCCTCTACACA
1 GGCGTGTTGCCCCTCTACACA
*
27047521 GGCGTGTTGCCCCTCTACACG
1 GGCGTGTTGCCCCTCTACACA
27047542 GGCGT
1 GGCGT
27047547 ATACCCTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.11, C:0.36, G:0.30, T:0.23
Consensus pattern (21 bp):
GGCGTGTTGCCCCTCTACACA
Found at i:27053945 original size:95 final size:96
Alignment explanation
Indices: 27053769--27053946 Score: 243
Period size: 95 Copynumber: 1.9 Consensus size: 96
27053759 TATTGTGAGC
* **
27053769 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATCAGAGCCAGTGTAAGACCATGTCTA
1 TAGTGTAAGACATGTCTGGGACATGCATCGACCACAAGAT-AGAGCCAGTGTAAGACCATGTCTA
27053834 GGACATGACATCGGCATAATTAAGATGAGTTT
65 GGACATGACATCGGCATAATTAAGATGAGTTT
* * * *
27053866 TAGTGTAAGACATGTCTGGGACATGCATCGACTA-AGAGAT-GTGTCAGTGTAAGACCATGTCTG
1 TAGTGTAAGACATGTCTGGGACATGCATCGACCACA-AGATAGAGCCAGTGTAAGACCATGTCTA
* *
27053929 GGACATGGCATTGGCATA
65 GGACATGACATCGGCATA
27053947 GATATACTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
95 36 0.51
96 1 0.01
97 34 0.48
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (96 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGACCACAAGATAGAGCCAGTGTAAGACCATGTCTAG
GACATGACATCGGCATAATTAAGATGAGTTT
Found at i:27057732 original size:41 final size:41
Alignment explanation
Indices: 27057671--27057873 Score: 198
Period size: 41 Copynumber: 5.0 Consensus size: 41
27057661 GTTCATTGCT
*
27057671 GAAGCTATCTTAAATC--GCACACTAAGTGCCATATATAGTC
1 GAAGCTATC-TCAATCTTGCACACTAAGTGCCATATATAGTC
* * * *
27057711 GAAGTTATATCAATCTTGCACACTAAGTTCCATATATGGTC
1 GAAGCTATCTCAATCTTGCACACTAAGTGCCATATATAGTC
** *
27057752 GAAGCTATCTCAATCTCACACACTAAGTGCCATATATAGCC
1 GAAGCTATCTCAATCTTGCACACTAAGTGCCATATATAGTC
* * * *
27057793 GAAACTATCTCTATCTTGCACACTAAATGCCATATATATAGCC
1 GAAGCTATCTCAATCTTGCACACTAAGTGCC--ATATATAGTC
* * * *
27057836 AAAGCTATGTTGAATC--GCACACTAAGTGCCACATATAG
1 GAAGCTAT-CTCAATCTTGCACACTAAGTGCCATATATAG
27057874 CTAATTTGTT
Statistics
Matches: 134, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 5 0.04
40 14 0.10
41 82 0.61
42 13 0.10
43 16 0.12
44 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (41 bp):
GAAGCTATCTCAATCTTGCACACTAAGTGCCATATATAGTC
Found at i:27057785 original size:82 final size:81
Alignment explanation
Indices: 27057671--27057874 Score: 219
Period size: 82 Copynumber: 2.5 Consensus size: 81
27057661 GTTCATTGCT
* * * **
27057671 GAAGCTATCTTAAATCGCACACTAAGTGCCATATATAGTCGAAGTTATATCAATCTTGCACACTA
1 GAAGCTATCTCAAATCACACACTAAGTGCCATATATAGCCGAAACTATATCAATCTTGCACACTA
* *
27057736 AGTTCCATATATGGTC
66 AATGCCATATATGGTC
* * *
27057752 GAAGCTATCTCAATCTCACACACTAAGTGCCATATATAGCCGAAACTATCTCTATCTTGCACACT
1 GAAGCTATCTCAA-ATCACACACTAAGTGCCATATATAGCCGAAACTATATCAATCTTGCACACT
* *
27057817 AAATGCCATATATATAGCC
65 AAATGCC--ATATATGGTC
* * ** * *
27057836 AAAGCTATGTTGAATCGCACACTAAGTGCCACATATAGC
1 GAAGCTATCTCAAATCACACACTAAGTGCCATATATAGC
27057875 TAATTTGTTG
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
81 12 0.12
82 49 0.49
83 23 0.23
84 17 0.17
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (81 bp):
GAAGCTATCTCAAATCACACACTAAGTGCCATATATAGCCGAAACTATATCAATCTTGCACACTA
AATGCCATATATGGTC
Found at i:27059667 original size:37 final size:37
Alignment explanation
Indices: 27059609--27059711 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
27059599 CGAATAGTCC
*
27059609 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
27059646 CCACACGTAGTCATCGAGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
27059683 CCACATGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
27059712 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:27059910 original size:48 final size:48
Alignment explanation
Indices: 27059852--27060499 Score: 1215
Period size: 48 Copynumber: 13.5 Consensus size: 48
27059842 ATATACACAC
*
27059852 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
27059900 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
27059948 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
27059996 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
27060044 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
27060092 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
27060140 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
27060188 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
27060236 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
* *
27060284 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
27060332 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
27060380 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
27060428 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
*
27060476 ATCTCATACATATTTCACATTAGC
1 ATCTCATACATATTTCACACTAGC
27060500 TCATATATAT
Statistics
Matches: 593, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 593 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
Found at i:27060013 original size:144 final size:144
Alignment explanation
Indices: 27059852--27060824 Score: 1271
Period size: 144 Copynumber: 6.6 Consensus size: 144
27059842 ATATACACAC
* *
27059852 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
27059917 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTT
*
27059982 TACCACATATACGT
131 TACCACATATACAT
*
27059996 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
27060061 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGACTT
66 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTT
*
27060126 TACCACATATACGT
131 TACCACATATACAT
*
27060140 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
27060205 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTT
27060270 TACCACATATACAT
131 TACCACATATACAT
*
27060284 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
27060349 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTT
27060414 TACCACATATACAT
131 TACCACATATACAT
27060428 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *** * * * * * *
27060493 CATTAGCTCATAT-ATATTT--CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
66 CACTAGC-CAT-TCGGCTTTACCACA-T----ATAC-G---TATCTC--ATACATATTTCACA-C
* * * * ** * *
27060555 TATTTCACATTAGCCATT-CGGC-TTTAC-C
117 TA--GC-CATTCGGCTTTACCACATATACAT
* * * * * *
27060583 A-CAT-ATACATATCTCATATATATTTCACATTAGCCTTTCGGCTTTACCACATATACATATCTC
1 ATC-TCATACATATTTCACA-CTA--GC-CATTCGGC--T-----TTACCACATATACATATCTC
* * *
27060646 ATACATATTTCACATTAGCCATTCGCCTTTACCACATATACATATCTCATACATATTTCACACTA
54 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTA
27060711 GCCATTCGGCTTTACCACATATACAT
119 GCCATTCGGCTTTACCACATATACAT
*
27060737 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
27060802 CATTAGCCATTCAGCTTT-CCACA
66 CACTAGCCATTCGGCTTTACCACA
27060825 CACATATATA
Statistics
Matches: 732, Mismatches: 60, Indels: 75
0.84 0.07 0.09
Matches are distributed among these distances:
143 9 0.01
144 543 0.74
145 6 0.01
146 1 0.00
148 3 0.00
149 1 0.00
151 14 0.02
152 8 0.01
153 4 0.01
154 31 0.04
155 31 0.04
156 4 0.01
157 8 0.01
158 14 0.02
160 1 0.00
161 3 0.00
163 1 0.00
164 6 0.01
165 40 0.05
166 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.34
Consensus pattern (144 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTT
TACCACATATACAT
Found at i:27060016 original size:96 final size:96
Alignment explanation
Indices: 27059852--27060824 Score: 1262
Period size: 96 Copynumber: 9.9 Consensus size: 96
27059842 ATATACACAC
* *
27059852 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
27059917 CACTAGCCATTCGGCTTTACCACATATACGT
66 CACTAGCCATTCGGCTTTACCACATATACGT
*
27059948 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
27060013 CACTAGCCATTCGGCTTTACCACATATACGT
66 CACTAGCCATTCGGCTTTACCACATATACGT
*
27060044 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
27060109 CACTAGCCATTCGACTTTACCACATATACGT
66 CACTAGCCATTCGGCTTTACCACATATACGT
*
27060140 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
27060205 CACTAGCCATTCGGCTTTACCACATATACGT
66 CACTAGCCATTCGGCTTTACCACATATACGT
27060236 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
27060301 CACTAGCCATTCGACTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACGT
27060332 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
27060397 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACGT
27060428 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *** *
27060493 CATTAGCTCATAT-ATATTT--CACATTAGCCATTCGGCTTT
66 CACTAGC-CAT-TCGGCTTTACCACA-T----ATAC-G---T
* * * * * * * * * ** * *
27060532 ACCACATATACATATCTCATATATATTTCACATTAGCCATT-CGGC-TTTAC-CA-CAT-ATACA
1 ATCTC--ATACATATTTCACA-CTA--GC-CATTCGGCTTTACCACATATACATATC-TCATACA
* * * * * * *
27060592 TATCTCATATATATTTCACATTAGCCTTTCGGCTTTACCACATATACAT
59 TATTTCACA-CTA--GC-CATTCGGCTTT-------ACCACATATACGT
* *
27060641 ATCTCATACATATTTCACATTAGCCATTCGCCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
27060706 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACGT
*
27060737 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
27060802 CATTAGCCATTCAGCTTT-CCACA
66 CACTAGCCATTCGGCTTTACCACA
27060825 CACATATATA
Statistics
Matches: 782, Mismatches: 59, Indels: 73
0.86 0.06 0.08
Matches are distributed among these distances:
95 9 0.01
96 636 0.81
97 6 0.01
98 1 0.00
100 3 0.00
103 18 0.02
104 8 0.01
105 4 0.01
106 31 0.04
107 31 0.04
108 5 0.01
109 14 0.02
110 8 0.01
113 3 0.00
117 1 0.00
118 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.34
Consensus pattern (96 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACGT
Found at i:27060502 original size:21 final size:21
Alignment explanation
Indices: 27060478--27060520 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27060468 ATATACATAT
27060478 CTCATACATATTTCACATTAG
1 CTCATACATATTTCACATTAG
*
27060499 CTCATATATATTTCACATTAG
1 CTCATACATATTTCACATTAG
27060520 C
1 C
27060521 CATTCGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (21 bp):
CTCATACATATTTCACATTAG
Found at i:27060525 original size:69 final size:69
Alignment explanation
Indices: 27060430--27060568 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
27060420 ATATACATAT
27060430 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
27060495 TTAG
66 TTAG
* * *
27060499 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
27060564 TTAG
66 TTAG
27060568 C
1 C
27060569 CATTCGGCTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (69 bp):
CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
TTAG
Found at i:27060530 original size:117 final size:117
Alignment explanation
Indices: 27060382--27060616 Score: 425
Period size: 117 Copynumber: 2.0 Consensus size: 117
27060372 ATATACATAT
27060382 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
27060447 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* * *
27060499 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
* *
27060564 TTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAG
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
27060616 C
1 C
27060617 CTTTCGGCTT
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 113 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (117 bp):
CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
Found at i:27060552 original size:48 final size:48
Alignment explanation
Indices: 27060499--27060824 Score: 573
Period size: 48 Copynumber: 6.8 Consensus size: 48
27060489 TTCACATTAG
27060499 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
27060547 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
*
27060595 CTCATATATATTTCACATTAGCCTTTCGGCTTTACCACATATACATAT
1 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
* *
27060643 CTCATACATATTTCACATTAGCCATTCGCCTTTACCACATATACATAT
1 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
* *
27060691 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
1 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
* *
27060739 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
1 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
*
27060787 CTCATATATATTTCACATTAGCCATTCAGCTTT-CCACA
1 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
27060825 CACATATATA
Statistics
Matches: 269, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
47 5 0.02
48 264 0.98
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
Found at i:27060625 original size:165 final size:165
Alignment explanation
Indices: 27060334--27060664 Score: 599
Period size: 165 Copynumber: 2.0 Consensus size: 165
27060324 ATATACATAT
27060334 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
27060399 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
27060464 CCACATATACATATCTCATACATATTTCACATTAG
131 CCACATATACATATCTCATACATATTTCACATTAG
* * *
27060499 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
* * * *
27060564 TTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCTTTCGGCTTTA
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
27060629 CCACATATACATATCTCATACATATTTCACATTAG
131 CCACATATACATATCTCATACATATTTCACATTAG
27060664 C
1 C
27060665 CATTCGCCTT
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 159 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (165 bp):
CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
CCACATATACATATCTCATACATATTTCACATTAG
Found at i:27060667 original size:213 final size:213
Alignment explanation
Indices: 27060286--27060712 Score: 755
Period size: 213 Copynumber: 2.0 Consensus size: 213
27060276 ATATACATAT
27060286 CTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACA
27060351 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
*
27060416 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
131 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTC
*
27060481 ATACATATTTCACATTAG
196 ATACATATTTCACACTAG
* * * *
27060499 CTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACA
1 CTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACA
* * * *
27060564 TTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCTTTCGGCTTTA
66 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
*
27060629 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGCCTTTACCACATATACATATCTC
131 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTC
27060694 ATACATATTTCACACTAG
196 ATACATATTTCACACTAG
27060712 C
1 C
27060713 CATTCGGCTT
Statistics
Matches: 203, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
213 203 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (213 bp):
CTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACA
CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
CCACATATACATATCTCATACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTC
ATACATATTTCACACTAG
Found at i:27074321 original size:15 final size:15
Alignment explanation
Indices: 27074281--27074324 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
27074271 CACGTAATCA
*
27074281 TATTGATAAAAAATA
1 TATTGATAAAAAATT
*
27074296 TATT-ATTAAAAATT
1 TATTGATAAAAAATT
*
27074310 TCTTGATAAAAAATT
1 TATTGATAAAAAATT
27074325 CCTTTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (15 bp):
TATTGATAAAAAATT
Found at i:27078287 original size:3 final size:3
Alignment explanation
Indices: 27078279--27078320 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
27078269 AAATGTTAAC
27078279 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27078321 GAGTACAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27079027 original size:23 final size:22
Alignment explanation
Indices: 27079001--27079058 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
27078991 TTACTTCAAT
27079001 TTTTTTTATATTTC-ATCATAA
1 TTTTTTTATATTTCTATCATAA
*
27079022 TATTTTTT-TGTATTCTATCATAA
1 T-TTTTTTATAT-TTCTATCATAA
27079045 -TTTTTTATATTTCT
1 TTTTTTTATATTTCT
27079059 TAGGATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 13 0.42
22 11 0.35
23 7 0.23
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTTTATATTTCTATCATAA
Found at i:27083909 original size:43 final size:43
Alignment explanation
Indices: 27083844--27084010 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
27083834 AGCTCGTACA
* * *
27083844 ATGCC-ATATCCCAGACATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * *
27083886 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGA-ATAGCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC-ACATATCG
*
27083929 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* * * *
27083972 ATGCCAATTTCCTAGACATGGTCCTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
27084011 CTCGGTAACC
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
42 7 0.07
43 96 0.92
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:27087922 original size:19 final size:19
Alignment explanation
Indices: 27087900--27087939 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
27087890 ATGAAAGAGT
27087900 TAATAATAACAAAAATATA
1 TAATAATAACAAAAATATA
27087919 TAATAATAACAAAAATATA
1 TAATAATAACAAAAATATA
27087938 TA
1 TA
27087940 TGAAAGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
TAATAATAACAAAAATATA
Found at i:27088009 original size:29 final size:29
Alignment explanation
Indices: 27087957--27088022 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
27087947 GTTTTTAAGA
* *
27087957 ATATAT-AATAGATTTGCAAGGAAATATAT
1 ATATATAAATAGATTTGAAAAGAAA-ATAT
*
27087986 ATATATAAATAGATTT-AAAAGAAAATGT
1 ATATATAAATAGATTTGAAAAGAAAATAT
*
27088014 ATACATAAA
1 ATATATAAA
27088023 ATAACATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 11 0.34
29 12 0.38
30 9 0.28
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (29 bp):
ATATATAAATAGATTTGAAAAGAAAATAT
Found at i:27088025 original size:29 final size:30
Alignment explanation
Indices: 27087957--27088025 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
27087947 GTTTTTAAGA
** * *
27087957 ATATATAATAGATTTGCAAGGAAATATATAT
1 ATATA-AATAGATTTAAAAGAAAATATATAC
*
27087988 ATATAAATAGATTTAAAAGAAAATGTATAC
1 ATATAAATAGATTTAAAAGAAAATATATAC
27088018 ATA-AAATA
1 ATATAAATA
27088026 ACATGTAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 5 0.15
30 23 0.70
31 5 0.15
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.32
Consensus pattern (30 bp):
ATATAAATAGATTTAAAAGAAAATATATAC
Found at i:27090926 original size:55 final size:51
Alignment explanation
Indices: 27090846--27091092 Score: 182
Period size: 55 Copynumber: 4.7 Consensus size: 51
27090836 TTAAGGATAC
* *
27090846 CATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGCAAGG--AT
* * * *
27090901 CATGTAAGACCATGTCAAGAAATGGCATTGATAAGTTACTATAAGGCAAAGG-T
1 CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC-AAGGAT
* *
27090954 CCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGCAAGGAT
1 --CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGCAAGGAT
* * * *
27091007 GCTATGTAAGACCATGTCAAGACATGGAAATCGTAAGTTTCT-A---AAGGAT
1 -C-ATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAGGAT
* * * *
27091056 ACTACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 -C-ATGTAAGACCATGCCAAGACATGGCATTGGTAAG
27091093 GTACCCGCGT
Statistics
Matches: 158, Mismatches: 25, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
49 37 0.23
52 7 0.04
53 40 0.25
54 11 0.07
55 59 0.37
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (51 bp):
CATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAGGAT
Found at i:27091044 original size:108 final size:108
Alignment explanation
Indices: 27090845--27091053 Score: 275
Period size: 108 Copynumber: 1.9 Consensus size: 108
27090835 TTTAAGGATA
27090845 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGG-AATCATGTAAGA
* *
27090910 CCATGTCAAGAAATGGCATTGATAAGTTACTATAAGGCAAAGGTC
65 CCATGTCAAGAAATGGAATCGATAAGTTACTA-AAGGCAAAGGTC
* *
27090955 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGG-ATGCTATGTAA
1 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAT-C-ATGTAA
* *
27091016 GACCATGTCAAGACATGGAAATCG-TAAGTTTCTAAAGG
63 GACCATGTCAAGAAATGG-AATCGATAAGTTACTAAAGG
27091054 ATACTACGTA
Statistics
Matches: 89, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
106 2 0.02
107 8 0.09
108 43 0.48
109 10 0.11
110 26 0.29
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (108 bp):
CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAATCATGTAAGAC
CATGTCAAGAAATGGAATCGATAAGTTACTAAAGGCAAAGGTC
Found at i:27091187 original size:23 final size:24
Alignment explanation
Indices: 27091161--27091205 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
27091151 AAGGTAAGGT
*
27091161 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
27091184 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
27091206 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:27091305 original size:16 final size:16
Alignment explanation
Indices: 27091284--27091314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27091274 ATAAATTTGA
27091284 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
27091300 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
27091315 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:27095503 original size:55 final size:53
Alignment explanation
Indices: 27095398--27095585 Score: 162
Period size: 55 Copynumber: 3.5 Consensus size: 53
27095388 AGGGTTTAAG
* ** * * *
27095398 GATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGAAATGAC-ATCGATAA-G-TTCATAAGGCAAA
* * *
27095453 GAAATCATGTAAGACCATGTCAAGAAATGACATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGAAATGACATCGATAAGTT-C-ATAAGGCAAA
* * * ** * * * *
27095508 GCTCCCATGTAAGACCATGCCAAGGCATGGCATCGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGAAATGACATCGATAAGTTCATAAGGCAAA
27095561 GATACCATGTAAGACCATGTCAAGA
1 GATACCATGTAAGACCATGTCAAGA
27095586 CATGGCAATG
Statistics
Matches: 107, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
52 2 0.02
53 32 0.30
54 8 0.07
55 65 0.61
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGAAATGACATCGATAAGTTCATAAGGCAAA
Found at i:27095601 original size:108 final size:110
Alignment explanation
Indices: 27095402--27095602 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
27095392 TTTAAGGATA
* *
27095402 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAAGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATCGGTAAGGTTTCTAAGGCAAAGAAACCATGTAAGA
*
27095467 CCATGTCAAGAAATGACATTGATAAGTTACTATAAGGCAAAGCTC
66 CCATGTCAAGAAATGACAATGATAAGTTACTATAAGGCAAAGCTC
* * *
27095512 CCATGTAAGACCATGCCAAGGCATGGC-ATCGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATCGGTAAGGTTTC-TAAGGCAAAGAAACCATGTAAG
* * *
27095574 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGAAATGACAATGATAAGTT
27095603 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.56
109 6 0.07
110 27 0.33
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATCGGTAAGGTTTCTAAGGCAAAGAAACCATGTAAGA
CCATGTCAAGAAATGACAATGATAAGTTACTATAAGGCAAAGCTC
Found at i:27097299 original size:177 final size:173
Alignment explanation
Indices: 27096957--27097476 Score: 660
Period size: 177 Copynumber: 3.0 Consensus size: 173
27096947 GAACGTTACA
*
27096957 ACTACCTTGGGAAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTGCTTTGGGAGATAAG--
1 ACTACCTTGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGAT
* * * * * *
27097020 ---ATC-T-AGTCTGCTCCCTTGCTACCTTAGGAAGATAAGACTATAATCT-TCAACCTGCTCTC
66 CTAATCTTCAGCCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAAT-TATTAGCCTGCTCCC
* * *
27097079 TTGCTACCTCAAAGAAATAAGGCTGGTGACTACAATCTGCTCCCCT
130 TTGCTACCTCAGAGAGATAAGGCT-GTGGCTA-AATCTGCTCCCCT
* * * *
27097125 ACTACCTTGGGCAGATAAGATTCGCTATCTTCGATCTACTCCACTACTGCTTTGGGATATAAGAT
1 ACTACCTTGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGAT
* *
27097190 CTATACTCTTCAGCCTGCTCCCTTGCTACCTCAGAAAGATAAGACTACACTTATTAGCCTGCTCC
66 CTA-A-TCTTCAGCCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGCCTGCTCC
*
27097255 CTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAACTTTGCTCCCCT
129 CTTGCTACCTCAGAGAGATAAGGCT-GTGGCTAAA-TCTGCTCCCCT
* * * *
27097302 ACTACCTCGAGAAGATAAGATTCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
1 ACTACCTTGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGAT
* * * *
27097367 CTACAATCTTCAGCCTGTTTCCTTGCTATCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCC
66 CT--AATCTTCAGCCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGCCTGCTCC
27097432 CTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAAATCTGCTCCC
129 CTTGCTACCTCAGAGAGATAAGGCTG-TGGCT-AAATCTGCTCCC
27097477 TTGCTATCTC
Statistics
Matches: 304, Mismatches: 33, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
168 58 0.19
174 1 0.00
175 2 0.01
176 5 0.02
177 233 0.77
178 4 0.01
179 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (173 bp):
ACTACCTTGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGAT
CTAATCTTCAGCCTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGCCTGCTCCCT
TGCTACCTCAGAGAGATAAGGCTGTGGCTAAATCTGCTCCCCT
Found at i:27097484 original size:88 final size:87
Alignment explanation
Indices: 27097204--27097488 Score: 218
Period size: 88 Copynumber: 3.2 Consensus size: 87
27097194 ACTCTTCAGC
* * *
27097204 CTGCTCCCTTGCTACCTCAGAAAGATAAGACTACACTTATTAGCCTGCTCCCTTGCTACCTCAGA
1 CTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCCCTTGCTACCTCAGA
*
27097269 GAGATAAGGCTAGTGGCTAAACT
66 GAGATAAGGCTA-TGGCTAAAAT
* * * * * * * * * *
27097292 TTGCTCCCCTACTACCTC-GAGAAGATAAGATTCGCCATCT-TCAATCTGCTCCAC-TACT-GCT
1 CTGCTCCCTTGCTACCTCAG-GAAGATAAGACT-ACAAT-TATTAGTCTGCTCC-CTTGCTACCT
* * * *** ** **
27097353 TAGGGAGATAAGATCTACAATCTTCAGC
62 CAGAGAGATAAG-GCTA-TGGCTAAAAT
* * *
27097381 CTGTTTCCTTGCTATCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCCCTTGCTACCTCAGA
1 CTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCCCTTGCTACCTCAGA
27097446 GAGATAAGGCTGATGGCTAAAAT
66 GAGATAAGGCT-ATGGCTAAAAT
*
27097469 CTGCTCCCTTGCTATCTCAG
1 CTGCTCCCTTGCTACCTCAG
27097489 AGAGACAAAA
Statistics
Matches: 138, Mismatches: 49, Indels: 20
0.67 0.24 0.10
Matches are distributed among these distances:
87 3 0.02
88 76 0.55
89 56 0.41
90 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (87 bp):
CTGCTCCCTTGCTACCTCAGGAAGATAAGACTACAATTATTAGTCTGCTCCCTTGCTACCTCAGA
GAGATAAGGCTATGGCTAAAAT
Found at i:27107618 original size:33 final size:33
Alignment explanation
Indices: 27107581--27107646 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
27107571 TAAATACTCA
*
27107581 AGGCAAAGACGTCAACTTTCTCCTTTACATCTG
1 AGGCAAAGACGTCAACTTTCTCATTTACATCTG
27107614 AGGCAAAGACGTCAACTTTCTCATTTACATCTG
1 AGGCAAAGACGTCAACTTTCTCATTTACATCTG
27107647 GATGTGCTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (33 bp):
AGGCAAAGACGTCAACTTTCTCATTTACATCTG
Found at i:27111429 original size:125 final size:125
Alignment explanation
Indices: 27111277--27111505 Score: 352
Period size: 125 Copynumber: 1.8 Consensus size: 125
27111267 TGAAAATTTT
27111277 AAAAGGATATTCGATTATTTGGCCAAAC-GAAAAACAGAAACCCAACACGTTAGGGCACGATTTC
1 AAAAGGATATTCGATTATTTGGCCAAACGGAAAAAC-GAAACCCAACACGTTAGGGCACGATTTC
* * *
27111341 TCGAATTTCCAAATATGAAATATTGCCTTGTTTTTTAAAATTGAAGAAAACACAGAATGTA
65 TCGAATTTCAAAATACGAAATATTGCCTTGTTTTTAAAAATTGAAGAAAACACAGAATGTA
* * * * * *
27111402 AAAAGGGTATTTGGTTATTTGGTCAAACGGAAAATCGAAACCCAGCACGTTAGGGCACGATTTCT
1 AAAAGGATATTCGATTATTTGGCCAAACGGAAAAACGAAACCCAACACGTTAGGGCACGATTTCT
*
27111467 CGAATTTTAAAATACGAAATATTGCCTTGTTTTTAAAAA
66 CGAATTTCAAAATACGAAATATTGCCTTGTTTTTAAAAA
27111506 CTTTTAACTA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
125 87 0.94
126 6 0.06
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (125 bp):
AAAAGGATATTCGATTATTTGGCCAAACGGAAAAACGAAACCCAACACGTTAGGGCACGATTTCT
CGAATTTCAAAATACGAAATATTGCCTTGTTTTTAAAAATTGAAGAAAACACAGAATGTA
Found at i:27112258 original size:26 final size:25
Alignment explanation
Indices: 27112218--27112273 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
27112208 GTTTTTAAGA
**
27112218 ATATATAATAGATTTGCAAGGAAAT
1 ATATATAATAGATTTAAAAGGAAAT
27112243 ATATATATATAGATTTAAAAGGAAAT
1 ATATATA-ATAGATTTAAAAGGAAAT
*
27112269 GTATA
1 ATATA
27112274 CAAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (25 bp):
ATATATAATAGATTTAAAAGGAAAT
Found at i:27115858 original size:22 final size:22
Alignment explanation
Indices: 27115832--27115877 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
27115822 TTCGATTTTC
27115832 GAGTGTTGATCTAACAACAATT
1 GAGTGTTGATCTAACAACAATT
*
27115854 GAGTGTTGATCTAACAACAGTT
1 GAGTGTTGATCTAACAACAATT
27115876 GA
1 GA
27115878 ATATCATCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (22 bp):
GAGTGTTGATCTAACAACAATT
Found at i:27117323 original size:20 final size:20
Alignment explanation
Indices: 27117286--27117324 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27117276 CTCAATACTT
*
27117286 CCTCAGATTTCTTTGTATTC
1 CCTCAGATTTCTTGGTATTC
27117306 CCTCAGAATTT-TTGGTATT
1 CCTCAG-ATTTCTTGGTATT
27117325 TTCTCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.49
Consensus pattern (20 bp):
CCTCAGATTTCTTGGTATTC
Found at i:27117375 original size:20 final size:19
Alignment explanation
Indices: 27117287--27117378 Score: 51
Period size: 20 Copynumber: 4.6 Consensus size: 19
27117277 TCAATACTTC
* *
27117287 CTCAGATTTCTTTGTATTCC
1 CTCAGATTT-TTTGTACTCT
* * *
27117307 CTCAGAATTTTTGGTATTTT
1 CTCAG-ATTTTTTGTACTCT
* *
27117327 CTCATATTTTTTGTGCT-T
1 CTCAGATTTTTTGTACTCT
* *
27117345 CCTTAATATTTTTTGGTACTCT
1 -C-TCAGATTTTTT-GTACTCT
27117367 CTCAGATTTTTT
1 CTCAGATTTTTT
27117379 TTGTACTTCC
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
18 1 0.02
19 10 0.18
20 35 0.62
21 9 0.16
22 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.11, T:0.55
Consensus pattern (19 bp):
CTCAGATTTTTTGTACTCT
Found at i:27117391 original size:21 final size:21
Alignment explanation
Indices: 27117281--27117391 Score: 65
Period size: 21 Copynumber: 5.5 Consensus size: 21
27117271 ACATACTCAA
*
27117281 TACTTCCTCAGA-TTTCTTTG
1 TACTTCCTCAGATTTTTTTTG
* *
27117301 TA-TTCCCTCAGA-ATTTTTGG
1 TACTT-CCTCAGATTTTTTTTG
* * *
27117321 TATTTTCTC--ATATTTTTTG
1 TACTTCCTCAGATTTTTTTTG
* * *
27117340 TGCTTCCTTA-ATATTTTTTGG
1 TACTTCCTCAGAT-TTTTTTTG
27117361 TAC-TCTCTCAGATTTTTTTTG
1 TACTTC-CTCAGATTTTTTTTG
27117382 TACTTCCTCA
1 TACTTCCTCA
27117392 TAACTTTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
18 1 0.01
19 14 0.20
20 23 0.33
21 27 0.39
22 4 0.06
ACGTcount: A:0.16, C:0.20, G:0.10, T:0.54
Consensus pattern (21 bp):
TACTTCCTCAGATTTTTTTTG
Found at i:27125473 original size:56 final size:56
Alignment explanation
Indices: 27125409--27125541 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 56
27125399 TCTCAGATAG
* * *
27125409 GGTCTTACTCACACACATATAACAGAGTCACATATCGACT-CCAACATATTAAACGT
1 GGTCTTACTCGCACACATATAACAGAATCACATATCGA-TGCCAACATATTAAACAT
* * *
27125465 GGTCTTACTCGCACACATATAACGGAATCACATATCGATGCCAACGTATTAAATAT
1 GGTCTTACTCGCACACATATAACAGAATCACATATCGATGCCAACATATTAAACAT
27125521 GGTCTTACTCGCACACATATA
1 GGTCTTACTCGCACACATATA
27125542 TCGATGCCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
55 1 0.01
56 69 0.99
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATAACAGAATCACATATCGATGCCAACATATTAAACAT
Found at i:27128380 original size:15 final size:15
Alignment explanation
Indices: 27128362--27128390 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27128352 ATATTTATAA
27128362 AATTATTATTATTAT
1 AATTATTATTATTAT
27128377 AATTATTATTATTA
1 AATTATTATTATTA
27128391 GATAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:27130502 original size:26 final size:27
Alignment explanation
Indices: 27130446--27130508 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
27130436 TTTATTAAAC
* * *
27130446 TACCCCTAAGTATGAAAATTACCATTT
1 TACCCCTAGGTATGAAAATGACCATTA
* *
27130473 TACCCCTAGGTGT-AAAATGACCGTTA
1 TACCCCTAGGTATGAAAATGACCATTA
*
27130499 TACCCTTAGG
1 TACCCCTAGG
27130509 GTTAATTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (27 bp):
TACCCCTAGGTATGAAAATGACCATTA
Found at i:27134920 original size:24 final size:24
Alignment explanation
Indices: 27134888--27134936 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
27134878 ATTGAGTAGA
27134888 AACCCGAAATAGGAATTAGTTATG
1 AACCCGAAATAGGAATTAGTTATG
27134912 AACCCGAAATAGGAATTAGTTATG
1 AACCCGAAATAGGAATTAGTTATG
27134936 A
1 A
27134937 CCACCAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.24
Consensus pattern (24 bp):
AACCCGAAATAGGAATTAGTTATG
Found at i:27135657 original size:35 final size:33
Alignment explanation
Indices: 27135613--27135690 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
27135603 GATTTTAGAG
* *
27135613 TTTAGAGTTTAAAGATTTGTAGTTCTTTTTATATT
1 TTTAAAGTTTAAAGATTAG-AGTT-TTTTTATATT
* *
27135648 TTTAAAGTTTAAAGGTTAGGGTTTTTTTATATT
1 TTTAAAGTTTAAAGATTAGAGTTTTTTTATATT
*
27135681 TTTTAAGTTT
1 TTTAAAGTTT
27135691 TTATATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 19 0.50
34 3 0.08
35 16 0.42
ACGTcount: A:0.26, C:0.01, G:0.15, T:0.58
Consensus pattern (33 bp):
TTTAAAGTTTAAAGATTAGAGTTTTTTTATATT
Found at i:27158467 original size:19 final size:18
Alignment explanation
Indices: 27158441--27158483 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
27158431 AATGAAGAGG
*
27158441 GAATTGAGAGAAATTTGA
1 GAATTGAGAGAAAGTTGA
27158459 GAATGTGAGAGAAAGTTGA
1 GAAT-TGAGAGAAAGTTGA
27158478 G-ATTGA
1 GAATTGA
27158484 ATTGGATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 6 0.26
19 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (18 bp):
GAATTGAGAGAAAGTTGA
Found at i:27162141 original size:96 final size:96
Alignment explanation
Indices: 27162026--27162216 Score: 310
Period size: 96 Copynumber: 2.0 Consensus size: 96
27162016 CCCCTTAAGC
* **
27162026 CAAAACCACCGAAAGAAGAGGAATCACCTGTAACAAGGGAACGACCTCCACCACTTAAATTGCCA
1 CAAAACCACCGAAACAAGAGGAATCACCTGTAACAAGGGAACGACCTCCACCACCAAAATTGCCA
*
27162091 CCGCCAGTTGTTAAGCCCCCGAAACCAGTGT
66 CCGCCAGTTATTAAGCCCCCGAAACCAGTGT
* **
27162122 CAAAACCATCGAAACAAGAGGAATCACCTGTAACAAGGGAACGGTCTCCACCACCAAAATTGCCA
1 CAAAACCACCGAAACAAGAGGAATCACCTGTAACAAGGGAACGACCTCCACCACCAAAATTGCCA
*
27162187 CCGCCAGTTATTAAGCCCCCGACACCAGTG
66 CCGCCAGTTATTAAGCCCCCGAAACCAGTG
27162217 CCGAAACAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.14
Consensus pattern (96 bp):
CAAAACCACCGAAACAAGAGGAATCACCTGTAACAAGGGAACGACCTCCACCACCAAAATTGCCA
CCGCCAGTTATTAAGCCCCCGAAACCAGTGT
Found at i:27162273 original size:69 final size:71
Alignment explanation
Indices: 27162187--27162335 Score: 194
Period size: 78 Copynumber: 2.0 Consensus size: 71
27162177 AAAATTGCCA
27162187 CCGCCAGTTATTAAGCCCCCGACACCAGT-G-CCGAAACAAGAGGAATCACCTATAACAAGGGAA
1 CCGCCAGTTATTAAGCCCCCGACACCAGTGGACCGAAACAAGAGGAATCACCTATAACAAGGGAA
27162250 CGGTCT
66 CGGTCT
* * *
27162256 CCGCCAGTTATTAAGCCCCCGCCACCAGTGGAAAAACCACCGAAACATGAGGAATCACCTGTAAC
1 CCGCCAGTTATTAAGCCCCCGACACCAGTGG-------ACCGAAACAAGAGGAATCACCTATAAC
27162321 AAGGGAACGGTCT
59 AAGGGAACGGTCT
27162334 CC
1 CC
27162336 ACCACCAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
69 28 0.41
70 1 0.01
78 39 0.57
ACGTcount: A:0.33, C:0.32, G:0.21, T:0.14
Consensus pattern (71 bp):
CCGCCAGTTATTAAGCCCCCGACACCAGTGGACCGAAACAAGAGGAATCACCTATAACAAGGGAA
CGGTCT
Found at i:27162400 original size:21 final size:21
Alignment explanation
Indices: 27162374--27162464 Score: 92
Period size: 21 Copynumber: 4.2 Consensus size: 21
27162364 AAGCCCCCGA
27162374 CACCACCAGTCCACTCTCCAC
1 CACCACCAGTCCACTCTCCAC
27162395 CACCACCTCCAGTCCACTCTCCAC
1 CACCA---CCAGTCCACTCTCCAC
* * * *
27162419 CTCCACCTGTTCACTCTCCTC
1 CACCACCAGTCCACTCTCCAC
* * *
27162440 CACCACCAGTGCATTCTCCTC
1 CACCACCAGTCCACTCTCCAC
27162461 CACC
1 CACC
27162465 TCTTTCTCCT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
21 39 0.66
24 20 0.34
ACGTcount: A:0.19, C:0.55, G:0.05, T:0.21
Consensus pattern (21 bp):
CACCACCAGTCCACTCTCCAC
Found at i:27162426 original size:24 final size:24
Alignment explanation
Indices: 27162374--27162446 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
27162364 AAGCCCCCGA
*
27162374 CACCACCAGTCCACTCTCCACCAC
1 CACCTCCAGTCCACTCTCCACCAC
*
27162398 CACCTCCAGTCCACTCTCCACCTC
1 CACCTCCAGTCCACTCTCCACCAC
* *
27162422 CACCT---GTTCACTCTCCTCCAC
1 CACCTCCAGTCCACTCTCCACCAC
27162443 CACC
1 CACC
27162447 AGTGCATTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
21 17 0.39
24 27 0.61
ACGTcount: A:0.19, C:0.58, G:0.04, T:0.19
Consensus pattern (24 bp):
CACCTCCAGTCCACTCTCCACCAC
Found at i:27169722 original size:21 final size:21
Alignment explanation
Indices: 27169698--27169737 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27169688 CTTTTGTGCC
*
27169698 TACTCTACATACCCGTATGAT
1 TACTCCACATACCCGTATGAT
*
27169719 TACTCCACATGCCCGTATG
1 TACTCCACATACCCGTATG
27169738 CGCAGGCCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (21 bp):
TACTCCACATACCCGTATGAT
Found at i:27176614 original size:28 final size:28
Alignment explanation
Indices: 27176574--27176629 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
27176564 CTTAAAATAA
27176574 AAAAATTTTTAATTAGGTTCTTTTATAG
1 AAAAATTTTTAATTAGGTTCTTTTATAG
*
27176602 AAAATTTTTTAATTAGGTTCTTTTATAG
1 AAAAATTTTTAATTAGGTTCTTTTATAG
27176630 TTTATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.52
Consensus pattern (28 bp):
AAAAATTTTTAATTAGGTTCTTTTATAG
Found at i:27180205 original size:43 final size:43
Alignment explanation
Indices: 27180136--27180217 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
27180126 ATTGTATCTA
** *
27180136 CATTTTAAAGCTGATTTCTTATTACCTATAGGAAAGACCCAGT
1 CATTTTAAAGCTGACATCTTACTACCTATAGGAAAGACCCAGT
*
27180179 CATTTTAAAGCTGACATCTTGCTACCTATAGGAAAGACC
1 CATTTTAAAGCTGACATCTTACTACCTATAGGAAAGACC
27180218 AGGAATTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (43 bp):
CATTTTAAAGCTGACATCTTACTACCTATAGGAAAGACCCAGT
Found at i:27182072 original size:2 final size:2
Alignment explanation
Indices: 27182065--27182101 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
27182055 AAAAGGCTTT
27182065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27182102 CCATCAAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27184691 original size:24 final size:19
Alignment explanation
Indices: 27184641--27184679 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
27184631 GTTGACCAAA
27184641 ATGAAAATTAATTAAAGTT
1 ATGAAAATTAATTAAAGTT
27184660 ATGAAAATTAATTAAAGTT
1 ATGAAAATTAATTAAAGTT
27184679 A
1 A
27184680 AGTGGCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (19 bp):
ATGAAAATTAATTAAAGTT
Found at i:27184792 original size:31 final size:31
Alignment explanation
Indices: 27184728--27184794 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
27184718 ACGAGTGATC
** * **
27184728 AAAATAAAAATAATTTTTAACTGTAGTGCCT
1 AAAATAAAAATAATTTTTAACAATACTAACT
27184759 AAAATAAAAATAATTTTTAACAATACTAACT
1 AAAATAAAAATAATTTTTAACAATACTAACT
27184790 AAAAT
1 AAAAT
27184795 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (31 bp):
AAAATAAAAATAATTTTTAACAATACTAACT
Found at i:27188153 original size:174 final size:175
Alignment explanation
Indices: 27187946--27188292 Score: 606
Period size: 175 Copynumber: 2.0 Consensus size: 175
27187936 ACTATTATAA
* *
27187946 TGTGATATAATATTATATAATGAAATAGATTATAATACATGATATAGCATCAATAGTTATGTGTA
1 TGTGATATAATATTATATAATGAAATAGATTATAATACAAGATATAGCATCAATAGTTACGTGTA
* *
27188011 ATTTAGCATATTAAAATATA-TTTTTAATTATAATTAGCAATACATAAAATATTATTAAAAATTT
66 ATTTAGCATATTAAAATATATTTTTTAATTAGAATTAGCAATACATAAAATATTATTAAAAAATT
*
27188075 AATATCTTAATAAAATATTGTTTTTATTAAATTAGATTTTAAACG
131 AATATCTTAATAAAATATTATTTTTATTAAATTAGATTTTAAACG
*
27188120 TGTGATATAATATTATATAATGAAATAGATTATAATACAAGATATAGCATCAATAGTTACGTGTC
1 TGTGATATAATATTATATAATGAAATAGATTATAATACAAGATATAGCATCAATAGTTACGTGTA
* * *
27188185 ATTTAGTATATTAAAATATATTTTTTAATTAGATTTAGCAATATATAAAATATTATTAAAAAATT
66 ATTTAGCATATTAAAATATATTTTTTAATTAGAATTAGCAATACATAAAATATTATTAAAAAATT
27188250 AATATCTTAATAAAATATTATTTTTATTAAATTAGATTTTAAA
131 AATATCTTAATAAAATATTATTTTTATTAAATTAGATTTTAAA
27188293 TTTTACAAAT
Statistics
Matches: 163, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
174 81 0.50
175 82 0.50
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (175 bp):
TGTGATATAATATTATATAATGAAATAGATTATAATACAAGATATAGCATCAATAGTTACGTGTA
ATTTAGCATATTAAAATATATTTTTTAATTAGAATTAGCAATACATAAAATATTATTAAAAAATT
AATATCTTAATAAAATATTATTTTTATTAAATTAGATTTTAAACG
Found at i:27196396 original size:17 final size:18
Alignment explanation
Indices: 27196371--27196406 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
27196361 ATGCATTTTG
*
27196371 AAAACAAAGAAAG-TTAA
1 AAAAAAAAGAAAGATTAA
27196388 AAAAAAAAGAAAGATTAA
1 AAAAAAAAGAAAGATTAA
27196406 A
1 A
27196407 GTACATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAAAAAGAAAGATTAA
Found at i:27201195 original size:30 final size:30
Alignment explanation
Indices: 27201160--27201221 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
27201150 CAAGAAACTA
27201160 AACAAATATAAGTAAGATATAGTCCAAAAT
1 AACAAATATAAGTAAGATATAGTCCAAAAT
27201190 AACAAATATAAGTAAGATATAGTCCAAAAT
1 AACAAATATAAGTAAGATATAGTCCAAAAT
27201220 AA
1 AA
27201222 TAATATGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (30 bp):
AACAAATATAAGTAAGATATAGTCCAAAAT
Found at i:27201652 original size:9 final size:9
Alignment explanation
Indices: 27201638--27201671 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
27201628 TTCTTATATT
27201638 TTTTTTTAC
1 TTTTTTTAC
27201647 TTTTTTTAC
1 TTTTTTTAC
*
27201656 TTTTTCTAC
1 TTTTTTTAC
27201665 TTTTTTT
1 TTTTTTT
27201672 CTTATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:27201756 original size:36 final size:36
Alignment explanation
Indices: 27201687--27201760 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
27201677 ATTTTGTCTC
*
27201687 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
27201724 TTTCTTA-ATTTATTTTGCTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
27201760 T
1 T
27201761 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:27201765 original size:18 final size:17
Alignment explanation
Indices: 27201714--27201761 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
27201704 TTTTTTAAGT
*
27201714 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
27201732 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
27201750 TTTATATTATTA
1 TTTATATTATTA
27201762 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:27201812 original size:22 final size:22
Alignment explanation
Indices: 27201776--27201845 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
27201766 TAAAAAATTG
*
27201776 TAATATATATTTAAAATGTTTTA-
1 TAATAT-TTTTTAAAAT-TTTTAT
*
27201799 TAATATTTTTTAAAATTTTAAT
1 TAATATTTTTTAAAATTTTTAT
* *
27201821 TATTATTTTTAAAAATATTTT-T
1 TAATATTTTTTAAAAT-TTTTAT
27201843 TAA
1 TAA
27201846 CTTTATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 4 0.10
22 26 0.67
23 9 0.23
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (22 bp):
TAATATTTTTTAAAATTTTTAT
Found at i:27202361 original size:26 final size:27
Alignment explanation
Indices: 27202312--27202374 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
27202302 TTTTAAATAC
* * *
27202312 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
27202339 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
27202365 AATATTTTAA
1 AATTTTTTAA
27202375 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:27202435 original size:35 final size:35
Alignment explanation
Indices: 27202378--27202444 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
27202368 ATTTTAAATA
* * *
27202378 TTTTTTTAAATTTTTGTCTTTTTCCTTTTTTTTAC
1 TTTTTTGAAATTTTCGTCTTTTTCCTTATTTTTAC
*
27202413 TTTTTTGAAATTTTACGT-TTTTTTCTTATTTT
1 TTTTTTGAAATTTT-CGTCTTTTTCCTTATTTT
27202445 ATTTTGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 25 0.93
36 2 0.07
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.73
Consensus pattern (35 bp):
TTTTTTGAAATTTTCGTCTTTTTCCTTATTTTTAC
Found at i:27202542 original size:21 final size:21
Alignment explanation
Indices: 27202503--27202546 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27202493 ATTTAAAATT
27202503 TTTTATAATATATTTTTTACAA
1 TTTTATAATATATTTTTTA-AA
27202525 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
27202545 TT
1 TT
27202547 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:27202671 original size:18 final size:18
Alignment explanation
Indices: 27202648--27202695 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
27202638 GTGACTAATA
27202648 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
27202666 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
27202682 ATATA-TTAAATATA
1 ATAAATTTAAATATA
27202696 TATTTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.16
16 9 0.36
17 2 0.08
18 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:27205728 original size:30 final size:30
Alignment explanation
Indices: 27205692--27205767 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
27205682 GTCCCAGAAC
* *
27205692 AGTTCATATAACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATGGGTGGTTCA
*
27205722 AGTTCATATCACCTGGACATGGGTGGTTCA
1 AGTTCATATCACCCGGACATGGGTGGTTCA
27205752 AGTTCATATCACCCGG
1 AGTTCATATCACCCGG
27205768 TATAGGCGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATGGGTGGTTCA
Found at i:27208071 original size:2 final size:2
Alignment explanation
Indices: 27208066--27208090 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27208056 AGAAAAAAAA
27208066 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27208091 AAAGTATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27212970 original size:14 final size:13
Alignment explanation
Indices: 27212936--27212977 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
27212926 ACTTGAAATG
27212936 TATTTTTTA-AAA
1 TATTTTTTATAAA
*
27212948 -ATGTTTTATAATA
1 TATTTTTTATAA-A
27212961 TATTTTTTATAAA
1 TATTTTTTATAAA
27212974 TATT
1 TATT
27212978 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTTTTTATAAA
Found at i:27213018 original size:31 final size:34
Alignment explanation
Indices: 27212964--27213030 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 34
27212954 TATAATATAT
27212964 TTTTTATAAATATTAAAAATATATTTTCAA-ATTA
1 TTTTTATAAATATT-AAAATATATTTTCAATATTA
*
27212998 TTTTT-TAAATATT-AAATATATTTTTAATATTA
1 TTTTTATAAATATTAAAATATATTTTCAATATTA
27213030 T
1 T
27213031 AAAACATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 13 0.42
32 5 0.16
33 8 0.26
34 5 0.16
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (34 bp):
TTTTTATAAATATTAAAATATATTTTCAATATTA
Found at i:27213079 original size:9 final size:9
Alignment explanation
Indices: 27213000--27213098 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 9
27212990 TCAAATTATT
27213000 TTTTAAATA
1 TTTTAAATA
*
27213009 -TTAAATATA
1 TTTTAA-ATA
*
27213018 TTTTTAATA
1 TTTTAAATA
* *
27213027 TTATAAAACA
1 TT-TTAAATA
*
27213037 TTTAAAATGA
1 TTTTAAAT-A
*
27213047 TTTAAAATGA
1 TTTTAAAT-A
*
27213057 TTTAAAATA
1 TTTTAAATA
*
27213066 TTTTTTAATA
1 -TTTTAAATA
27213076 TTTTAAATGA
1 TTTTAAAT-A
27213086 TTTTAAATA
1 TTTTAAATA
27213095 TTTT
1 TTTT
27213099 TTAAATTTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
8 4 0.05
9 26 0.35
10 44 0.59
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (9 bp):
TTTTAAATA
Found at i:27213126 original size:29 final size:29
Alignment explanation
Indices: 27213046--27213108 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
27213036 ATTTAAAATG
* *
27213046 ATTTAAAATGATTTAAAATATTTTTTAAT
1 ATTTTAAATGATTTTAAATATTTTTTAAT
27213075 ATTTTAAATGATTTTAAATATTTTTTAA-
1 ATTTTAAATGATTTTAAATATTTTTTAAT
27213103 ATTTTA
1 ATTTTA
27213109 CATAGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTTTAAATGATTTTAAATATTTTTTAAT
Found at i:27213839 original size:37 final size:36
Alignment explanation
Indices: 27213769--27213896 Score: 102
Period size: 35 Copynumber: 3.6 Consensus size: 36
27213759 AAAAATTATT
27213769 TTTTTAAAATTTTAAAAAATTAATTTAAAAAATACA
1 TTTTTAAAATTTTAAAAAATTAATTTAAAAAATACA
* * *
27213805 TTTTTAAAATTTATAAATAAA-TAATTTCACAAATATA
1 TTTTTAAAATTT-TAAA-AAATTAATTTAAAAAATACA
* * * * *
27213842 TATATATAAA-GTTAAAAAA-TATTTTTAAAAATA-A
1 TTTTTA-AAATTTTAAAAAATTAATTTAAAAAATACA
* *
27213876 TAATTAAAAATTTTAAAAAAT
1 T-TTTTAAAATTTTAAAAAAT
27213897 ATTATAAAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
34 5 0.07
35 25 0.34
36 16 0.22
37 22 0.30
38 6 0.08
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAATTAATTTAAAAAATACA
Found at i:27213903 original size:25 final size:24
Alignment explanation
Indices: 27213857--27213914 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
27213847 ATAAAGTTAA
*
27213857 AAAATATTTTTAAAAATAATAATT
1 AAAATATTTTAAAAAATAATAATT
*
27213881 AAAA-ATTTTAAAAAAT-ATTA-T
1 AAAATATTTTAAAAAATAATAATT
*
27213902 AAAACATTTTAAA
1 AAAATATTTTAAA
27213915 TATATATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 11 0.35
23 11 0.35
24 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATATTTTAAAAAATAATAATT
Found at i:27213910 original size:22 final size:22
Alignment explanation
Indices: 27213857--27213923 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
27213847 ATAAAGTTAA
* *
27213857 AAAATATTTTTAAAAATAATAATT
1 AAAA-ATTTTAAAAAAT-ATTATT
27213881 AAAAATTTTAAAAAATATTA-T
1 AAAAATTTTAAAAAATATTATT
*
27213902 AAAACATTTTAAATATATATTA
1 AAAA-ATTTTAAA-AAATATTA
27213924 CAATTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 5 0.13
22 11 0.29
23 18 0.47
24 4 0.11
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATTTTAAAAAATATTATT
Found at i:27213961 original size:18 final size:18
Alignment explanation
Indices: 27213935--27213986 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
27213925 AATTTTTTTA
*
27213935 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
27213953 AAATAAATAAAATAGATT
1 AAATAAATAATATAAATT
27213971 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
27213987 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:27214005 original size:18 final size:17
Alignment explanation
Indices: 27213984--27214069 Score: 55
Period size: 18 Copynumber: 4.6 Consensus size: 17
27213974 AAAATAATAT
*
27213984 AAAACTTAAAAAAGAAA
1 AAAAATTAAAAAAGAAA
27214001 AAAAATCTAAGAAAGAGACAA
1 AAAAAT-TAA-AAA-AGA-AA
** *
27214022 AATATAAGAAAAAAATAAA
1 AA-A-AATTAAAAAAGAAA
*
27214041 AAAAGTTAAAAAAGTAAA
1 AAAAATTAAAAAAG-AAA
*
27214059 AAAAAGTAAAA
1 AAAAATTAAAA
27214070 CAAAAAGAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
17 12 0.23
18 16 0.31
19 7 0.13
20 5 0.10
21 7 0.13
22 3 0.06
23 2 0.04
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.13
Consensus pattern (17 bp):
AAAAATTAAAAAAGAAA
Found at i:27214012 original size:38 final size:36
Alignment explanation
Indices: 27213940--27214014 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 36
27213930 TTTTAAAATT
* * *
27213940 AATAATATAAATTAAATAAATAAAATAGATTAAGAA
1 AATAATATAAATTAAATAAAGAAAAAAAATTAAGAA
27213976 AATAATATAAAACTTAAA-AAAGAAAAAAAATCTAAGAA
1 AATAATAT-AAA-TTAAATAAAGAAAAAAAAT-TAAGAA
27214014 A
1 A
27214015 GAGACAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 8 0.24
37 13 0.39
38 12 0.36
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (36 bp):
AATAATATAAATTAAATAAAGAAAAAAAATTAAGAA
Found at i:27214170 original size:28 final size:27
Alignment explanation
Indices: 27214117--27214171 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
27214107 TCTACCAAAA
*
27214117 AATGGAAAATTTTTTTAGGTCCCCCGT
1 AATGGAAAATTTTTTTAGATCCCCCGT
*
27214144 AATGGAAAATTTTTTTTAGATCTCCCGT
1 AATGGAAAA-TTTTTTTAGATCCCCCGT
27214172 TTTTTCAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
AATGGAAAATTTTTTTAGATCCCCCGT
Found at i:27219288 original size:18 final size:18
Alignment explanation
Indices: 27219241--27219290 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
27219231 TGTGACGAGC
*
27219241 ATAAATTAA-AAAAATTT
1 ATAAATTAATAAAAATAT
* *
27219258 AAAAATCT-TTAAAAATAT
1 ATAAAT-TAATAAAAATAT
27219276 ATAAATTAATAAAAA
1 ATAAATTAATAAAAA
27219291 ACAGTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATTAATAAAAATAT
Found at i:27219499 original size:3 final size:3
Alignment explanation
Indices: 27219491--27219527 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
27219481 AATTTTTTAA
27219491 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
27219528 TTGCAACTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:27229647 original size:29 final size:29
Alignment explanation
Indices: 27229605--27229661 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
27229595 TTGGCCCATG
27229605 GTTCCACCTATTGAAATAATATGTCAACT
1 GTTCCACCTATTGAAATAATATGTCAACT
27229634 GTTCCACCTATTGAAATAATATGTCAAC
1 GTTCCACCTATTGAAATAATATGTCAAC
27229662 ACAATAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (29 bp):
GTTCCACCTATTGAAATAATATGTCAACT
Found at i:27238717 original size:36 final size:36
Alignment explanation
Indices: 27238671--27238749 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
27238661 TTGGGCTACC
* *
27238671 ATAAGAAAGAAAAATGTTCGACTAGGCTTGGGTGAG
1 ATAAAAAAGAAAAATGTTCGACTAGGCTTGAGTGAG
27238707 ATAAAAAAGAAAAATGTTCGACTAGGCTTGAGTGAG
1 ATAAAAAAGAAAAATGTTCGACTAGGCTTGAGTGAG
27238743 ATAAAAA
1 ATAAAAA
27238750 GTGCATGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.46, C:0.08, G:0.25, T:0.22
Consensus pattern (36 bp):
ATAAAAAAGAAAAATGTTCGACTAGGCTTGAGTGAG
Found at i:27246432 original size:43 final size:43
Alignment explanation
Indices: 27246306--27246432 Score: 118
Period size: 42 Copynumber: 3.0 Consensus size: 43
27246296 TCTAGGGCAC
* * *
27246306 AGGCATCGA-AGTGAAATTTACGTGTAAGACCATGTCCGGGACAT
1 AGGCATCGATACTG-AA-TTACGTGTAAGACCACGTCCGGGACAG
* * * *
27246350 CGGCATCG-TATCTG-ATTTCGTATAAGACC-CTGTCTGGGACAG
1 AGGCATCGATA-CTGAATTACGTGTAAGACCAC-GTCCGGGACAG
*
27246392 AGGCATCGATACTGAATTACATGTAAGACCACGTCCGGGAC
1 AGGCATCGATACTGAATTACGTGTAAGACCACGTCCGGGAC
27246433 GATGGTATTA
Statistics
Matches: 65, Mismatches: 12, Indels: 13
0.72 0.13 0.14
Matches are distributed among these distances:
42 31 0.48
43 23 0.35
44 9 0.14
45 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (43 bp):
AGGCATCGATACTGAATTACGTGTAAGACCACGTCCGGGACAG
Found at i:27253191 original size:42 final size:42
Alignment explanation
Indices: 27253078--27253193 Score: 103
Period size: 42 Copynumber: 2.7 Consensus size: 42
27253068 AATTATGGTG
* * *
27253078 TAAGACCGTTTCTGGGACACAGGCATCGAATTGAAATTTACGTG
1 TAAGACCATGTCTGGGACACAGGCATC-AATTG-AATTTACGTA
* *
27253122 TAAGACCATGTCCGGGACATC-GACATCATATCTG-ATTT-CGTA
1 TAAGACCATGTCTGGGACA-CAGGCATCA-AT-TGAATTTACGTA
* *
27253164 TAAGACCCTGTCTGGGACAGAGGCATCAAT
1 TAAGACCATGTCTGGGACACAGGCATCAAT
27253194 ACTGAATTGC
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.03
42 26 0.44
43 5 0.08
44 23 0.39
45 3 0.05
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACACAGGCATCAATTGAATTTACGTA
Found at i:27253224 original size:43 final size:42
Alignment explanation
Indices: 27253120--27253224 Score: 97
Period size: 42 Copynumber: 2.5 Consensus size: 42
27253110 GAAATTTACG
* ** * *
27253120 TGTAAGACCATGTCCGGGACATCGACATCATATCTGATTTCG
1 TGTAAGACCACGTCCGGGACAGAGACATCATATCTGATTGCA
* * *
27253162 TATAAGACC-CTGTCTGGGACAGAGGCATCA-ATACTGAATTGCA
1 TGTAAGACCAC-GTCCGGGACAGAGACATCATAT-CTG-ATTGCA
27253205 TGTAAGACCACGTCCGGGAC
1 TGTAAGACCACGTCCGGGAC
27253225 GTTGGCATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
41 2 0.04
42 26 0.53
43 20 0.41
44 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (42 bp):
TGTAAGACCACGTCCGGGACAGAGACATCATATCTGATTGCA
Found at i:27271201 original size:17 final size:18
Alignment explanation
Indices: 27271163--27271208 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
27271153 AGCCCAGAGT
27271163 CCCACAC-ACCTGTGTGGG
1 CCCACACGACC-GTGTGGG
*
27271181 CCCACATGACCGTGT-GG
1 CCCACACGACCGTGTGGG
27271198 CCCACACGACC
1 CCCACACGACC
27271209 CAAATTGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 12 0.48
18 10 0.40
19 3 0.12
ACGTcount: A:0.20, C:0.43, G:0.24, T:0.13
Consensus pattern (18 bp):
CCCACACGACCGTGTGGG
Found at i:27274555 original size:26 final size:26
Alignment explanation
Indices: 27274526--27274579 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
27274516 TGATAAAAAT
27274526 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27274552 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27274578 TG
1 TG
27274580 GTGGGCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27279174 original size:12 final size:12
Alignment explanation
Indices: 27279157--27279191 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
27279147 TAATATCTCA
27279157 ATTTCAATTCAC
1 ATTTCAATTCAC
27279169 ATTTCAATTCAC
1 ATTTCAATTCAC
27279181 ATTTCAATTCA
1 ATTTCAATTCA
27279192 TAATTTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTTCAATTCAC
Found at i:27279771 original size:18 final size:17
Alignment explanation
Indices: 27279738--27279819 Score: 87
Period size: 17 Copynumber: 4.8 Consensus size: 17
27279728 AAATTCACAT
*
27279738 TTCAAA-TCACTGTCAA
1 TTCAAATTCACTTTCAA
*
27279754 TGTCAATTTCACTTTCAA
1 T-TCAAATTCACTTTCAA
*
27279772 TTCAAATTCACAATTCAA
1 TTCAAATTCAC-TTTCAA
* *
27279790 TTC-AATTCTCATTCAA
1 TTCAAATTCACTTTCAA
27279806 TTCAAATTCACTTT
1 TTCAAATTCACTTT
27279820 TCCACTTCCT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
16 10 0.18
17 27 0.49
18 18 0.33
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (17 bp):
TTCAAATTCACTTTCAA
Found at i:27279781 original size:11 final size:11
Alignment explanation
Indices: 27279767--27279815 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
27279757 CAATTTCACT
27279767 TTCAATTCAAA
1 TTCAATTCAAA
27279778 TTCACAATTC-AA
1 TT--CAATTCAAA
**
27279790 TTCAATTCTCA
1 TTCAATTCAAA
27279801 TTCAATTCAAA
1 TTCAATTCAAA
27279812 TTCA
1 TTCA
27279816 CTTTTCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.19
11 16 0.50
12 4 0.12
13 6 0.19
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCAATTCAAA
Found at i:27280052 original size:86 final size:78
Alignment explanation
Indices: 27279980--27280127 Score: 179
Period size: 79 Copynumber: 1.8 Consensus size: 78
27279970 TCATATTTTT
* *
27279980 AATTCATTTTCCAATCAAATTCAAATCACTAATTACTTTTCAATCAATATACACTTCAAATACTC
1 AATTCAATTT-CAATC-AATTCAAATCACT-ATTACTTTCCAATCAATATAC-CTTCAAATACTC
**
27280045 ACATATTTTCTTCATTC
62 ACATATTTAATTCATTC
* * * * *
27280062 AATTCAATTTGATTCAATTCAAATCACTATTAGTTTCCAATCAATATACTTTCAAATATTCACAT
1 AATTCAATTTCAATCAATTCAAATCACTATTACTTTCCAATCAATATACCTTCAAATACTCACAT
27280127 A
66 A
27280128 ATTCATAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
78 15 0.25
79 19 0.32
80 13 0.22
81 3 0.05
82 9 0.15
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.40
Consensus pattern (78 bp):
AATTCAATTTCAATCAATTCAAATCACTATTACTTTCCAATCAATATACCTTCAAATACTCACAT
ATTTAATTCATTC
Found at i:27280053 original size:75 final size:76
Alignment explanation
Indices: 27279971--27280143 Score: 176
Period size: 79 Copynumber: 2.3 Consensus size: 76
27279961 TTATTTAATT
*
27279971 CATA-TTT-TTAATTC-ATT-TTCCAATCAAATTCAAATCACTAATTACTTTTCAATCAATATAC
1 CATATTTTCTTAATTCAATTATTCCAATC-AATTCAAATCACT-ATTACTTTCCAATCAATATAC
27280032 ACTTCAAATACTCA
64 -CTTCAAATACTCA
* ** * *
27280046 CATATTTTCTTCATTCAATTCAATTTGATTCAATTCAAATCACTATTAGTTTCCAATCAATATAC
1 CATATTTTCTTAATTCAATT--ATTCCAATCAATTCAAATCACTATTACTTTCCAATCAATATAC
* *
27280111 TTTCAAATATTCA
64 CTTCAAATACTCA
* *
27280124 CATA-ATTCATAATTCAATTA
1 CATATTTTCTTAATTCAATTA
27280144 CTTAATTCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
75 5 0.06
76 3 0.04
77 18 0.22
78 18 0.22
79 19 0.23
80 13 0.16
81 5 0.06
ACGTcount: A:0.38, C:0.20, G:0.01, T:0.42
Consensus pattern (76 bp):
CATATTTTCTTAATTCAATTATTCCAATCAATTCAAATCACTATTACTTTCCAATCAATATACCT
TCAAATACTCA
Found at i:27282135 original size:13 final size:13
Alignment explanation
Indices: 27282119--27282153 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
27282109 AATAATATTA
*
27282119 ATAATAATACATT
1 ATAATAATACAAT
27282132 ATAATAATACAAT
1 ATAATAATACAAT
27282145 ATAATAATA
1 ATAATAATA
27282154 ATATTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATAATACAAT
Found at i:27282138 original size:16 final size:14
Alignment explanation
Indices: 27282115--27282156 Score: 59
Period size: 13 Copynumber: 2.9 Consensus size: 14
27282105 AGTTAATAAT
27282115 ATTAATAATAATAC
1 ATTAATAATAATAC
27282129 ATT-ATAATAATAC
1 ATTAATAATAATAC
27282142 AATATAATAATAATA
1 -AT-TAATAATAATA
27282157 TTTAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.40
14 5 0.20
15 1 0.04
16 9 0.36
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAATAATAATAC
Found at i:27282162 original size:13 final size:13
Alignment explanation
Indices: 27282108--27282162 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
27282098 ATATATTAGT
27282108 TAATAATA-TTAA
1 TAATAATATTTAA
27282120 TAATAATACATTATAA
1 TAATAAT--ATT-TAA
*
27282136 TAATACA-ATATAA
1 TAATA-ATATTTAA
27282149 TAATAATATTTAA
1 TAATAATATTTAA
27282162 T
1 T
27282163 TCATAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
12 8 0.23
13 14 0.40
14 3 0.09
15 1 0.03
16 8 0.23
17 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:27282654 original size:12 final size:12
Alignment explanation
Indices: 27282599--27282660 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
27282589 ATTTTATTTC
27282599 ATAA-TATAATA
1 ATAATTATAATA
27282610 AT-ATTAATAATA
1 ATAATT-ATAATA
*
27282622 ATATTTA-AATA
1 ATAATTATAATA
* **
27282633 AAAACCATAATA
1 ATAATTATAATA
27282645 ATAATTATAATA
1 ATAATTATAATA
27282657 ATAA
1 ATAA
27282661 ATTGATAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
10 1 0.03
11 10 0.26
12 26 0.67
13 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:27283712 original size:23 final size:22
Alignment explanation
Indices: 27283684--27283742 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
27283674 TAACATACTA
*
27283684 ATAATGCACACAAGTTCCAAAT-
1 ATAATGCACACAAGTGCC-AATG
27283706 ATGAATGTC-CACAAGTGCCAATG
1 AT-AATG-CACACAAGTGCCAATG
*
27283729 ATAATTCACACAAG
1 ATAATGCACACAAG
27283743 CTTTGTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 1 0.03
22 14 0.45
23 15 0.48
24 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (22 bp):
ATAATGCACACAAGTGCCAATG
Found at i:27290754 original size:27 final size:27
Alignment explanation
Indices: 27290716--27290829 Score: 133
Period size: 27 Copynumber: 4.2 Consensus size: 27
27290706 CAGCATGGCT
* *
27290716 ACCAGA-ACAGATATTGTGACAGAGTC
1 ACCAGATACAGATATTGTGGCAGAGCC
27290742 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGATACAGATATTGTGGCAGAGCC
* * * * *
27290769 ACCAAAAACAGATCTTTATGGCAGAACC
1 ACCAGATACAGAT-ATTGTGGCAGAGCC
27290797 ACCAGAT-CAGATATTTGTGGCAGAGCC
1 ACCAGATACAGATA-TTGTGGCAGAGCC
27290824 ACCAGA
1 ACCAGA
27290830 ACGCTTCCTC
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (27 bp):
ACCAGATACAGATATTGTGGCAGAGCC
Found at i:27300436 original size:44 final size:44
Alignment explanation
Indices: 27300358--27300444 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
27300348 TTGTTTTTAG
27300358 TTTCCCACTTAAACTCTGATTAATATAGGCTATTTTAATATTAA
1 TTTCCCACTTAAACTCTGATTAATATAGGCTATTTTAATATTAA
* * * * *
27300402 TTTCTCACTTAAACTCTTATTAGTATATGTTATTTTAATATTA
1 TTTCCCACTTAAACTCTGATTAATATAGGCTATTTTAATATTA
27300445 TTTGACCTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (44 bp):
TTTCCCACTTAAACTCTGATTAATATAGGCTATTTTAATATTAA
Found at i:27302537 original size:20 final size:20
Alignment explanation
Indices: 27302514--27302558 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27302504 AGGGACTAAA
* *
27302514 ATGAAAATTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
27302534 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
27302554 ATGAA
1 ATGAA
27302559 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:27304455 original size:21 final size:22
Alignment explanation
Indices: 27304426--27304480 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
27304416 ACGGCCTCCA
*
27304426 ACACAGGCGTGTCCC-TGGACC
1 ACACGGGCGTGTCCCTTGGACC
*
27304447 ACATGGGCGTGTCCCTTGGACC
1 ACACGGGCGTGTCCCTTGGACC
*
27304469 ACACGGACGTGT
1 ACACGGGCGTGT
27304481 GAGCCTTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCCCTTGGACC
Found at i:27305280 original size:43 final size:44
Alignment explanation
Indices: 27305232--27305320 Score: 137
Period size: 43 Copynumber: 2.0 Consensus size: 44
27305222 ATTTTGTTAG
*
27305232 TTTCCCACTTAAA-ATTTGATTAGTGTAGGATA-TTTAATATTAT
1 TTTCCCACTTAAACA-CTGATTAGTGTAGGATATTTTAATATTAT
*
27305275 TTTCCCACTTAAACACTGATTAGTGTAGGTTATTTTAATATTAT
1 TTTCCCACTTAAACACTGATTAGTGTAGGATATTTTAATATTAT
27305319 TT
1 TT
27305321 AACTTACAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 28 0.67
44 14 0.33
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (44 bp):
TTTCCCACTTAAACACTGATTAGTGTAGGATATTTTAATATTAT
Found at i:27307086 original size:40 final size:40
Alignment explanation
Indices: 27307008--27307148 Score: 196
Period size: 40 Copynumber: 3.5 Consensus size: 40
27306998 ACCCAAGTAT
* *
27307008 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
27307047 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
27307087 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
27307127 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27307149 CATCCGAATA
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 11 0.12
40 78 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27315240 original size:40 final size:40
Alignment explanation
Indices: 27315158--27315381 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
27315148 ACCCAAGTAT
* *
27315158 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* ** *
27315197 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27315237 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
27315277 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
27315320 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
27315360 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27315382 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 113 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27315356 original size:83 final size:80
Alignment explanation
Indices: 27315158--27315381 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
27315148 ACCCAAGTAT
* * * *
27315158 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
27315222 CACTAGCATGAATAC
66 CACTAGCACAAATAC
* * *
27315237 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
27315301 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATAC
*
27315320 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
27315382 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 12 0.10
80 49 0.39
83 65 0.52
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATAC
Found at i:27327028 original size:77 final size:78
Alignment explanation
Indices: 27326892--27327167 Score: 276
Period size: 77 Copynumber: 3.5 Consensus size: 78
27326882 AATTGAATTA
* * * * * * * ** *
27326892 TGTTTCAAATAGAAATTCAATTGAAAAATCCTGTTTCAGGA-TTTATTACTGCCGTTTAACAAGA
1 TGTTTCAAACAAAAAATCAATTGAACAAT-TTGTTTTAGGATTTTATTTCTATCGATTAACAAGA
27326956 TTTGTTTAATTTTT
65 TTTGTTTAATTTTT
*
27326970 TG-TTCAAACAAAAAATCAATT-AAGCAATCTTGTTTTAGGATTTTATTTCTATC-ATTAACATG
1 TGTTTCAAACAAAAAATCAATTGAA-CAAT-TTGTTTTAGGATTTTATTTCTATCGATTAACAAG
*
27327032 ATTTGTTTGA-TTTT
64 ATTTGTTTAATTTTT
* * * * *
27327046 TGTTTCAAACAAAAAGTCAATTGAACAATTTTGTTTCAGGATTTTATTTCTGTCGTTTAACAGGA
1 TGTTTCAAACAAAAAATCAATTGAACAA-TTTGTTTTAGGATTTTATTTCTATCGATTAACAAGA
*
27327111 TTTGTTTGATTTTTT
65 TTTGTTT-AATTTTT
* *
27327126 TGTTTCAAAC-AGAAATCAATTGAATAATTCTGTTTTAGGATT
1 TGTTTCAAACAAAAAATCAATTGAACAATT-TGTTTTAGGATT
27327168 CTTTTCCTGT
Statistics
Matches: 166, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
76 8 0.05
77 88 0.53
78 31 0.19
79 25 0.15
80 14 0.08
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (78 bp):
TGTTTCAAACAAAAAATCAATTGAACAATTTGTTTTAGGATTTTATTTCTATCGATTAACAAGAT
TTGTTTAATTTTT
Found at i:27327202 original size:79 final size:80
Alignment explanation
Indices: 27326892--27327202 Score: 223
Period size: 77 Copynumber: 4.0 Consensus size: 80
27326882 AATTGAATTA
* * * * * * * * *
27326892 TGTTTCAAATAGAAATTCAATTGAAAAATCCTGTTTCAGGA-TTTATTACTGCCGTTTAACA-AG
1 TGTTTCAAACAAAAAGTCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCATTAAACAGA-
* *
27326955 ATTTGTTTAA-TTTTT
65 ATTTATTCAATTTTTT
* * * *
27326970 TG-TTCAAACAAAAAATCAATT-AAGCAA-TCTTGTTTTAGGATTTTATTTCTATCATT-AACAT
1 TGTTTCAAACAAAAAGTCAATTGAA-CAATTC-TGTTTCAGGATTTTATTCCTGTCATTAAACA-
* **
27327031 G-ATTTGTTTGA--TTTT
63 GAATTTATTCAATTTTTT
* * * * *
27327046 TGTTTCAAACAAAAAGTCAATTGAACAATTTTGTTTCAGGATTTTATTTCTGTCGTTTAACAGGA
1 TGTTTCAAACAAAAAGTCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCATTAAACAGAA
* **
27327111 TTTGTTTGATTTTTT
66 TTTATTCAATTTTTT
* * * *
27327126 TGTTTCAAACAGAAA-TCAATTGAATAATTCTGTTTTAGGATTCTT-TTCCTGTCATTAAATAGA
1 TGTTTCAAACAAAAAGTCAATTGAACAATTCTGTTTCAGGATT-TTATTCCTGTCATTAAACAGA
27327189 ATTTATTCAATTTT
65 ATTTATTCAATTTT
27327203 CGTTGTTACC
Statistics
Matches: 192, Mismatches: 28, Indels: 25
0.78 0.11 0.10
Matches are distributed among these distances:
76 9 0.05
77 85 0.44
78 30 0.16
79 48 0.25
80 20 0.10
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (80 bp):
TGTTTCAAACAAAAAGTCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCATTAAACAGAA
TTTATTCAATTTTTT
Found at i:27330961 original size:39 final size:39
Alignment explanation
Indices: 27330905--27331161 Score: 316
Period size: 39 Copynumber: 6.6 Consensus size: 39
27330895 TCAATACACC
* * *
27330905 GGCACATAGCCTGAATAATCACCGGCACACAGCTTACTA
1 GGCACATAGCCCGAATAATCACCGGCACACAGCCTGCTA
* * * * *
27330944 GGCACAAACCCCAAATAATCACCGACACACAGCCTACTA
1 GGCACATAGCCCGAATAATCACCGGCACACAGCCTGCTA
* * * *
27330983 GGCACATTGCCTGAATAATCACCGGCACACACCCTGTTA
1 GGCACATAGCCCGAATAATCACCGGCACACAGCCTGCTA
* *
27331022 GGCACATAGCCCGAATAATCACTGGCACACAGCTTGCTA
1 GGCACATAGCCCGAATAATCACCGGCACACAGCCTGCTA
** * * * *
27331061 GGCACATAGCATGAATAATCATCGACACATAACCTGCTA
1 GGCACATAGCCCGAATAATCACCGGCACACAGCCTGCTA
* *
27331100 GGCACATAGCCCAAATAATCACTGGCACACAGCCTGCTA
1 GGCACATAGCCCGAATAATCACCGGCACACAGCCTGCTA
27331139 GGCACATAGCCCGAATAATCACC
1 GGCACATAGCCCGAATAATCACC
27331162 AGATTTCTGT
Statistics
Matches: 179, Mismatches: 39, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 179 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (39 bp):
GGCACATAGCCCGAATAATCACCGGCACACAGCCTGCTA
Found at i:27331039 original size:78 final size:78
Alignment explanation
Indices: 27330905--27331161 Score: 352
Period size: 78 Copynumber: 3.3 Consensus size: 78
27330895 TCAATACACC
* * * * * * *
27330905 GGCACATAGCCTGAATAATCACCGGCACACAGCTTACTAGGCACAAACCCCAAATAATCACCGAC
1 GGCACATAGCCTGAATAATCACCGGCACACAACCTGCTAGGCACATAGCCCAAATAATCACTGGC
*
27330970 ACACAGCCTACTA
66 ACACAGCCTGCTA
* * * *
27330983 GGCACATTGCCTGAATAATCACCGGCACACACCCTGTTAGGCACATAGCCCGAATAATCACTGGC
1 GGCACATAGCCTGAATAATCACCGGCACACAACCTGCTAGGCACATAGCCCAAATAATCACTGGC
*
27331048 ACACAGCTTGCTA
66 ACACAGCCTGCTA
* * * *
27331061 GGCACATAGCATGAATAATCATCGACACATAACCTGCTAGGCACATAGCCCAAATAATCACTGGC
1 GGCACATAGCCTGAATAATCACCGGCACACAACCTGCTAGGCACATAGCCCAAATAATCACTGGC
27331126 ACACAGCCTGCTA
66 ACACAGCCTGCTA
*
27331139 GGCACATAGCCCGAATAATCACC
1 GGCACATAGCCTGAATAATCACC
27331162 AGATTTCTGT
Statistics
Matches: 155, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 155 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (78 bp):
GGCACATAGCCTGAATAATCACCGGCACACAACCTGCTAGGCACATAGCCCAAATAATCACTGGC
ACACAGCCTGCTA
Found at i:27331117 original size:117 final size:117
Alignment explanation
Indices: 27330905--27331161 Score: 352
Period size: 117 Copynumber: 2.2 Consensus size: 117
27330895 TCAATACACC
* *
27330905 GGCACATAGCCTGAATAATCACCGGCACACAGCTTACTAGGCACAAACCCCAAATAATCACCGAC
1 GGCACATAGCCCGAATAATCACCGGCACACAGCTTACTAGGCACAAACCACAAATAATCACCGAC
* * ** *
27330970 ACACAGCCTACTAGGCACATTGCCTGAATAATCACCGGCACACACCCTGTTA
66 ACACAACCTACTAGGCACATAGCCCAAATAATCACCGGCACACACCCTGCTA
* * * * ** *
27331022 GGCACATAGCCCGAATAATCACTGGCACACAGCTTGCTAGGCACATAGCATGAATAATCATCGAC
1 GGCACATAGCCCGAATAATCACCGGCACACAGCTTACTAGGCACAAACCACAAATAATCACCGAC
* * * *
27331087 ACATAACCTGCTAGGCACATAGCCCAAATAATCACTGGCACACAGCCTGCTA
66 ACACAACCTACTAGGCACATAGCCCAAATAATCACCGGCACACACCCTGCTA
27331139 GGCACATAGCCCGAATAATCACC
1 GGCACATAGCCCGAATAATCACC
27331162 AGATTTCTGT
Statistics
Matches: 121, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
117 121 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (117 bp):
GGCACATAGCCCGAATAATCACCGGCACACAGCTTACTAGGCACAAACCACAAATAATCACCGAC
ACACAACCTACTAGGCACATAGCCCAAATAATCACCGGCACACACCCTGCTA
Found at i:27332259 original size:27 final size:27
Alignment explanation
Indices: 27332229--27332410 Score: 195
Period size: 27 Copynumber: 6.7 Consensus size: 27
27332219 TTAGTTTATC
27332229 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
27332256 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
27332283 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
27332310 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
27332337 AAATTACCAAAATACCTCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
27332364 AAATTACTGAAATA-CCCTCAACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
27332391 AAATTACCAAAGTACCCCTG
1 AAATTACCAAAATACCCCTG
27332411 ATTTACAGAA
Statistics
Matches: 128, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
26 3 0.02
27 121 0.95
28 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:27332292 original size:54 final size:54
Alignment explanation
Indices: 27332210--27332410 Score: 219
Period size: 54 Copynumber: 3.7 Consensus size: 54
27332200 TATCCCTGTT
* *
27332210 TAGAATA-CTTTAGTTTATCAAATTACCAAAATACCCCTGGTTTGTAAAATTAC
1 TAGAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTAC
* *
27332263 TAGAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTA-
1 TAGAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTAC
* * * * ** *
27332316 TCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAATTTGTGAAATTAC
1 T-AGAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTAC
* ** * *
27332371 T-GAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCTG
1 TAG-AATACCCTTAGTTTATAAAATTACCAAAATACCCCTG
27332411 ATTTACAGAA
Statistics
Matches: 123, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
53 8 0.07
54 114 0.93
55 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TAGAATACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTAC
Found at i:27332460 original size:27 final size:27
Alignment explanation
Indices: 27332364--27332462 Score: 69
Period size: 27 Copynumber: 3.7 Consensus size: 27
27332354 CTAATTTGTG
* * **
27332364 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCGATTTACA
*
27332391 AAATTAC-CAAAGTACCC-CTGATTTACA
1 AAATTACTGAAA-TACCCTC-GATTTACA
* ***
27332418 GAATTA-TCGTTTTACCCTCGATTTACA
1 AAATTACT-GAAATACCCTCGATTTACA
27332445 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
27332463 TGTAGGGTAG
Statistics
Matches: 52, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
26 4 0.08
27 46 0.88
28 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTACA
Found at i:27332483 original size:27 final size:27
Alignment explanation
Indices: 27332446--27332668 Score: 284
Period size: 27 Copynumber: 8.3 Consensus size: 27
27332436 CGATTTACAA
* *
27332446 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
27332473 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
27332500 AAATACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
27332527 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
27332554 AATTATCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
27332581 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
27332608 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
27332635 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
27332662 AATTACC
1 AATTACC
27332669 ATTTTGCCCC
Statistics
Matches: 171, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 171 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:27332679 original size:81 final size:80
Alignment explanation
Indices: 27332446--27332669 Score: 324
Period size: 81 Copynumber: 2.8 Consensus size: 80
27332436 CGATTTACAA
* * * *
27332446 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACC-AAA
27332511 TACCCCTGTAAGGTAG
65 TACCCCTGTAAGGTAG
* * *
27332527 AATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTATAGGGTAGAAATATCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATA-CCAAA
*
27332592 TACCCCTGTAGGGTAG
65 TACCCCTGTAAGGTAG
* *
27332608 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTATGGGGTA-AAATTACCA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAA-TACCA
27332670 TTTTGCCCCT
Statistics
Matches: 128, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 5 0.04
81 122 0.95
82 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (80 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCAAAT
ACCCCTGTAAGGTAG
Found at i:27332957 original size:27 final size:26
Alignment explanation
Indices: 27332913--27332964 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27332903 CTCGCTGCAA
*
27332913 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
27332940 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
27332965 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:27333296 original size:18 final size:17
Alignment explanation
Indices: 27333275--27333308 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27333265 CTCATTTTGA
27333275 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
27333293 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
27333309 GGCTAAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:27333302 original size:6 final size:6
Alignment explanation
Indices: 27333205--27333287 Score: 139
Period size: 6 Copynumber: 13.8 Consensus size: 6
27333195 ATTCTGTCAC
27333205 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT
* * *
27333253 CTGATT CTGATT CTCATT TTGATT CTAATT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGAT
27333288 AATGTTTCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.51
Consensus pattern (6 bp):
CTGATT
Found at i:27339594 original size:14 final size:14
Alignment explanation
Indices: 27339575--27339602 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27339565 CGGAGTCGAG
27339575 CATGAGACATTATT
1 CATGAGACATTATT
27339589 CATGAGACATTATT
1 CATGAGACATTATT
27339603 AAACTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
CATGAGACATTATT
Found at i:27342854 original size:6 final size:6
Alignment explanation
Indices: 27342845--27342880 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
27342835 TATATTTATA
27342845 TTGTTC TTGTTC TTGTTC TTGTTC TTGTTC TTGTTC
1 TTGTTC TTGTTC TTGTTC TTGTTC TTGTTC TTGTTC
27342881 AATCTTGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.67
Consensus pattern (6 bp):
TTGTTC
Done.