Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008349.1 Hibiscus syriacus cultivar Beakdansim tig00111081_pilon, whole genome shotgun sequence
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: 333942
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1732 original size:8 final size:8
Alignment explanation
Indices: 1719--1746 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1709 GAAAAGGAAG
1719 ATATATAC
1 ATATATAC
1727 ATATATAC
1 ATATATAC
1735 ATATATAC
1 ATATATAC
1743 ATAT
1 ATAT
1747 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:22617 original size:81 final size:82
Alignment explanation
Indices: 22448--22714 Score: 389
Period size: 81 Copynumber: 3.3 Consensus size: 82
22438 CTTACAAAGA
* * * *
22448 TAAGGATA-TCTTGGGTAGGGCCCAAGGTATATCCTTAGGTTGGTTTCC--TTTGCTGTGTTCAT
1 TAAGGATACCCTTGGGTA-GACCCAAGGTATATCCTTAGGTTGGTTTCCTTTTTGCTGTGTGCTT
22510 AAGGTAACCCTACGGATC
65 AAGGTAACCCTACGGATC
* *
22528 TAAGGATACCTTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTTTGCTATGTGCTTA
1 TAAGGATACCCTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTTTGCTGTGTGCTTA
22593 A-GTAACCCTACGGATC
66 AGGTAACCCTACGGATC
* *
22609 TAAAGATACCCTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTTTGTTGTGTGCTTA
1 TAAGGATACCCTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTTTGCTGTGTGCTTA
*
22674 AGGTAACCTTACGGATC
66 AGGTAACCCTACGGATC
* * *
22691 TAAGGATATCGTTGGGTAGGCCCA
1 TAAGGATACCCTTGGGTAGACCCA
22715 TAGGCCCCAA
Statistics
Matches: 168, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
80 37 0.22
81 84 0.50
82 47 0.28
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (82 bp):
TAAGGATACCCTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTTTGCTGTGTGCTTA
AGGTAACCCTACGGATC
Found at i:25607 original size:2 final size:2
Alignment explanation
Indices: 25600--25636 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
25590 TTTCATAAAT
* *
25600 TA TA TA TA TA TA TA TA TA TT TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25637 TTTTCTTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:25615 original size:10 final size:10
Alignment explanation
Indices: 25599--25636 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
25589 ATTTCATAAA
25599 TTATATATAT
1 TTATATATAT
*
25609 ATATATATAT
1 TTATATATAT
25619 TTATATATAT
1 TTATATATAT
25629 TTATATAT
1 TTATATAT
25637 TTTTCTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATATATAT
Found at i:27266 original size:20 final size:21
Alignment explanation
Indices: 27241--27280 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27231 ATTAAAATTA
*
27241 AAATAAT-AAATGATATATTT
1 AAATAATAAAATAATATATTT
27261 AAATAATAAAATAATATATT
1 AAATAATAAAATAATATATT
27281 ATCGATGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
AAATAATAAAATAATATATTT
Found at i:27298 original size:21 final size:21
Alignment explanation
Indices: 27274--27341 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
27264 TAATAAAATA
27274 ATATATTATCGATGATTTTTT
1 ATATATTATCGATGATTTTTT
* * *
27295 ATATA-AAT-AAT-TTTTATTT
1 ATATATTATCGATGATTT-TTT
*
27314 AAATATATTATCGATGAATTTTT
1 --ATATATTATCGATGATTTTTT
27337 ATATA
1 ATATA
27342 AATAATTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 12
0.64 0.13 0.23
Matches are distributed among these distances:
18 3 0.09
19 5 0.15
20 2 0.06
21 15 0.44
22 2 0.06
23 5 0.15
24 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (21 bp):
ATATATTATCGATGATTTTTT
Found at i:27310 original size:15 final size:15
Alignment explanation
Indices: 27290--27363 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 15
27280 TATCGATGAT
27290 TTTTTATATAAATAA
1 TTTTTATATAAATAA
*
27305 TTTTTATTTAAAT-A
1 TTTTTATATAAATAA
* **
27319 --TAT-TATCGATGAA
1 TTTTTATATAAAT-AA
27332 TTTTTATATAAATAA
1 TTTTTATATAAATAA
*
27347 TTTTTATTTAAATAA
1 TTTTTATATAAATAA
27362 TT
1 TT
27364 AGAATTTCAC
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
11 4 0.09
12 2 0.04
13 1 0.02
14 1 0.02
15 32 0.71
16 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTTTATATAAATAA
Found at i:27319 original size:42 final size:42
Alignment explanation
Indices: 27273--27364 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
27263 ATAATAAAAT
*
27273 AATATATTATCGATGATTTTTTATATAAATAATTTTTATTTA
1 AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
27315 AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
1 AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
27357 AATA-ATTA
1 AATATATTA
27365 GAATTTCACT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 4 0.08
42 45 0.92
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (42 bp):
AATATATTATCGATGAATTTTTATATAAATAATTTTTATTTA
Found at i:27801 original size:78 final size:80
Alignment explanation
Indices: 27652--27802 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
27642 GTAATAGGGT
* *
27652 CCACTTTTAACTTTCCACTCAAAAGTAAACCGTAATATATATATAAAATATAAATTTACAACATT
1 CCACTTTTAACTTTCCACTCAAAAGTAAACAGTAATATATATAT-AAATATAAATTCACAACATT
27717 TAATTAGTTATGTGCC
65 TAATTAGTTATGTGCC
* * * *
27733 CCACTTTTAACTTTTCATTCTAAAAGTAAACAGT-A-ATATATAT-AATATTAATTCACAATATT
1 CCACTTTTAACTTTCCACTC-AAAAGTAAACAGTAATATATATATAAATATAAATTCACAACATT
27795 TAATTAGT
65 TAATTAGT
27803 CATGGGGATG
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 24 0.38
80 8 0.13
81 19 0.30
82 12 0.19
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (80 bp):
CCACTTTTAACTTTCCACTCAAAAGTAAACAGTAATATATATATAAATATAAATTCACAACATTT
AATTAGTTATGTGCC
Found at i:34917 original size:65 final size:64
Alignment explanation
Indices: 34690--34928 Score: 315
Period size: 65 Copynumber: 3.8 Consensus size: 64
34680 CATAAAGTTG
* *
34690 AGCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA----GTATTATTTCACCAAATT
1 AGCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTATAATTTCACCAAATT
* * * *
34750 GGCTTTGAGTTGGATATCATTCATTGTGAAGTTGAAATCCAATCTTGAATATTGTTCACCAAATT
1 AGCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTATAAT-TTCACCAAATT
* * * *
34815 GGCATTCGAGTTGGATATCCTTCATTGTGAAGATGAAATCCAATCTTGTATAAATTTCACCGAAT
1 AGC-TTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTAT-AATTTCACCAAAT
34880 T
64 T
* *
34881 AGCTTTGAGTTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTGT
1 AGCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGT
34929 GTAAGTTGCG
Statistics
Matches: 155, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
60 39 0.25
64 4 0.03
65 55 0.35
66 55 0.35
67 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (64 bp):
AGCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTATAATTTCACCAAATT
Found at i:34925 original size:131 final size:126
Alignment explanation
Indices: 34696--34927 Score: 347
Period size: 131 Copynumber: 1.8 Consensus size: 126
34686 GTTGAGCTTT
* * * *
34696 GAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAGTATTATTTCACCAAATTGGCTTTGAGTT
1 GAGTTGGATATCCTTCATTGTGAAGATGAAATCCAAGTATAATTTCACCAAATTAGCTTTGAGTT
*
34761 GGATATCATTCATTGTGAAGTTGAAATCCAATCTTGAATATTGTTCACCAAATTGGCATTC
66 GGATATCATTCATTATGAAGTTGAAATCCAATCTTGAATATTGTTCACCAAATTGGCATTC
*
34822 GAGTTGGATATCCTTCATTGTGAAGATGAAATCCAATCTTGTATAAATTTCACCGAATTAGCTTT
1 GAGTTGGATATCCTTCATTGTGAAGATGAAATCCAA----GTAT-AATTTCACCAAATTAGCTTT
* *
34887 GAGTTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTG
61 GAGTTGGATATCATTCATTATGAAGTTGAAATCCAATCTTG
34928 TGTAAGTTGC
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
126 34 0.37
130 4 0.04
131 55 0.59
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (126 bp):
GAGTTGGATATCCTTCATTGTGAAGATGAAATCCAAGTATAATTTCACCAAATTAGCTTTGAGTT
GGATATCATTCATTATGAAGTTGAAATCCAATCTTGAATATTGTTCACCAAATTGGCATTC
Found at i:35693 original size:86 final size:85
Alignment explanation
Indices: 35513--35760 Score: 291
Period size: 86 Copynumber: 2.9 Consensus size: 85
35503 TATCATGCAG
* * * * * * *
35513 TTGATATATCTTTGAGCTGAATGAAATCGAACTCAAA-AATTCTTGTTGATAGATAACCCTTCTG
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTTAAAGGATTCTTGCTGACAGATAACCCTTCTG
* *
35577 CCTTAAGCTATGCTGTAAAC
66 CCTTGAGCTATGCTGGAAAC
* * * *
35597 TTGACATGTCCTTGAGCTGAATGTAATCGAACTTAAAGGTTTTTTGCTGACAGATAGCCCTTCTC
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTTAAAGGATTCTTGCTGACAGATAACCCTTCT-
*
35662 GCCTTGAGCTATGCTGGAAAT
65 GCCTTGAGCTATGCTGGAAAC
* * * * * *
35683 TTGATATGTCCTTAAGCTGAATGTAATCAAACTTGAAGGATCCTTGCTGACAGATATCCCTCCTT
1 TTGATATGTCCTTGAGCTGAATGTAATCGAACTTAAAGGATTCTTGCTGACAGATAACCCTTC-T
35748 GCCTTGAGCTATG
65 GCCTTGAGCTATG
35761 TTGCAAATAG
Statistics
Matches: 138, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
84 32 0.23
85 20 0.14
86 85 0.62
87 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (85 bp):
TTGATATGTCCTTGAGCTGAATGTAATCGAACTTAAAGGATTCTTGCTGACAGATAACCCTTCTG
CCTTGAGCTATGCTGGAAAC
Found at i:38451 original size:4 final size:4
Alignment explanation
Indices: 38437--38486 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
38427 AATATTAGAT
* *
38437 AATA AAT- AATA AATA AAT- ATTA AATA AATCA AATA AAAA AATAA AATA
1 AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AATA AAT-A AATA
38485 AA
1 AA
38487 ATTTTTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 5 0.13
4 25 0.66
5 8 0.21
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:38453 original size:11 final size:11
Alignment explanation
Indices: 38437--38480 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
38427 AATATTAGAT
38437 AATAAATAATA
1 AATAAATAATA
*
38448 AATAAATATTA
1 AATAAATAATA
38459 AATAAATCAAATA
1 AATAAAT--AATA
*
38472 AAAAAATAA
1 AATAAATAA
38481 AATAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 19 0.68
13 9 0.32
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAATAATA
Found at i:38465 original size:22 final size:21
Alignment explanation
Indices: 38437--38486 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
38427 AATATTAGAT
*
38437 AATAAAT-AATAAATAAATATTA
1 AATAAATAAATAAA-AAA-ATAA
38459 AATAAATCAAATAAAAAAATAA
1 AATAAAT-AAATAAAAAAATAA
38481 AATAAA
1 AATAAA
38487 ATTTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 16 0.64
23 3 0.12
24 6 0.24
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AATAAATAAATAAAAAAATAA
Found at i:40658 original size:127 final size:127
Alignment explanation
Indices: 40432--40667 Score: 293
Period size: 127 Copynumber: 1.9 Consensus size: 127
40422 AAAAGTAAAA
*
40432 TATTTATTTATTTAAATATCAGAAAAAGACTTCTAGTTGCTTTAAGACAACCTATTTCTTAATAT
1 TATTTATTTATTTAAATATCAGAAAAAGACATCTAGTTGCTTTAAGACAACCTATTTCTTAATAT
* * *
40497 CGAAAAATAAATAAATATTAATAATATGATAATAT-TTTATATAGAATTAAATATATAATTTT
66 C-AAAAATAAATAAATATTAATAATATAAAAATATATATATATAGAATTAAATATATAATTTT
* * **
40559 TATTTATTTATTTAAA-ATACTAGAATAGGACATCTAGTTGCTTTAAGACTGCC-ATTTCTTAAT
1 TATTTATTTATTTAAATAT-C-AGAAAAAGACATCTAGTTGCTTTAAGACAACCTATTTCTTAAT
* *
40622 AT-AAAAACTAAATAAATATT-ATTATTTAAACAAATATATATATATA
64 ATCAAAAA-TAAATAAATATTAATAATAT-AA-AAATATATATATATA
40668 TATATATGAC
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
125 10 0.11
126 15 0.16
127 34 0.37
128 34 0.37
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (127 bp):
TATTTATTTATTTAAATATCAGAAAAAGACATCTAGTTGCTTTAAGACAACCTATTTCTTAATAT
CAAAAATAAATAAATATTAATAATATAAAAATATATATATATAGAATTAAATATATAATTTT
Found at i:42128 original size:3 final size:3
Alignment explanation
Indices: 42120--42188 Score: 75
Period size: 3 Copynumber: 22.3 Consensus size: 3
42110 TTTATTTATT
* * **
42120 TAA TAA TAA AAA TAA TAA TATA TAA TTAA TAT TAA TAA TAA TAA TTT
1 TAA TAA TAA TAA TAA TAA TA-A TAA -TAA TAA TAA TAA TAA TAA TAA
*
42167 TAA TAA TAA TAA TAA TGA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
42189 GAAATGAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 48 0.89
4 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:42407 original size:45 final size:43
Alignment explanation
Indices: 42341--42427 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 43
42331 GAGGTCCTAT
* * *
42341 CATCTTGCACTGTAGGTCTTACAGATGACCCAAAGGTTTTGAAAG
1 CATCATGCACTGAAGGGCTTACAGATGA-CCAAA-GTTTTGAAAG
* *
42386 CATCATGCACTGAAGGGCTTACGGATGACCGAAGTTTTGAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCAAAGTTTTGAAA
42428 ATATCAAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 9 0.24
44 4 0.11
45 24 0.65
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
CATCATGCACTGAAGGGCTTACAGATGACCAAAGTTTTGAAAG
Found at i:42550 original size:44 final size:45
Alignment explanation
Indices: 42441--42590 Score: 203
Period size: 45 Copynumber: 3.3 Consensus size: 45
42431 TCAAAAGGCT
* * * **
42441 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATTGATGA
1 CCCGAAGG--TTTTGATAACATCCTGCACTGAAGGGCTTACAGATGA
* *
42488 CCCGAAGGTTTTGATAACATCATACACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGATAACATCCTGCACTGAAGGGCTTACAGATGA
*
42533 -CCGAAGGTTTTGATAACATCCTGCACTGAAGGGCTTACGGATGA
1 CCCGAAGGTTTTGATAACATCCTGCACTGAAGGGCTTACAGATGA
42577 CCCGAAGGTTTTGA
1 CCCGAAGGTTTTGA
42591 AAATATCAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
44 41 0.45
45 43 0.47
47 8 0.09
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (45 bp):
CCCGAAGGTTTTGATAACATCCTGCACTGAAGGGCTTACAGATGA
Found at i:42660 original size:120 final size:118
Alignment explanation
Indices: 42488--42710 Score: 313
Period size: 120 Copynumber: 1.9 Consensus size: 118
42478 TTATTGATGA
*
42488 CCCGAAGGTTTTGATAACATCATACACTGAAGGGCTTACAGATGACCGAAGGTTTTGATAACATC
1 CCCGAAGGTTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCGAAGGTTTTGATAACATC
* ** *
42553 CTGCACTGAAGGGCTTACGGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT
66 ATGCACTGAAGGGCTTACAAATGACACGAAGGTTTTGAAAATATCAAAAAGCT
* * * ** *
42606 CCCGAAGGCTTTTTGAAAACATC-TGCACTGCAGGTCTTATGGATGACCATAAGGTTTTGATAAC
1 CCCGAAGG--TTTTGAAAACATCATACACTGAAGGGCTTACAGATGACC-GAAGGTTTTGATAAC
42670 ATCATGCACTGAAGGGCTTACAAATGACACGAAGGTTTTGA
63 ATCATGCACTGAAGGGCTTACAAATGACACGAAGGTTTTGA
42711 TAACATCATG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
118 8 0.09
119 20 0.22
120 63 0.69
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (118 bp):
CCCGAAGGTTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCGAAGGTTTTGATAACATC
ATGCACTGAAGGGCTTACAAATGACACGAAGGTTTTGAAAATATCAAAAAGCT
Found at i:42697 original size:45 final size:45
Alignment explanation
Indices: 42616--43503 Score: 1161
Period size: 45 Copynumber: 19.8 Consensus size: 45
42606 CCCGAAGGCT
* * ** *
42616 TTTTGAAAACATC-TGCACTGCAGGTCTTATGGATGACCATAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
* *
42660 TTTTGATAACATCATGCACTGAAGGGCTTACAAATGA-CACGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCA-GAAGG
*
42705 TTTTGATAACATCATGCACTGAAGGGCTTACAGATGACCCA-AAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCAGAAGG
* * *
42750 TTTTGATAACATCGTGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
* * * *
42795 TTTTGAAAACATCATGCACTGTACGGCTTATAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
* * *
42840 TTTTGAAAACATCATGCACTGAAAGGCATACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
* *
42885 TTTTAAAAACATCATGCACTGAAGGGCTTACAGATAACCCA-AAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCAGAAGG
* *
42930 TTTTGAAAACATCATGCACTGAAGGGCTTATAGATTACC-GAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
* * *
42974 TTTTGATAACATCATGAACTGAAGGGCTTATAGATGA-CACGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCA-GAAGG
*
43019 TTTTGATAACATCATGCACTGAAGGGCTTACA-ATGACCCA-AAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCAGAAGG
* * * *
43063 TTTTGATAACATCGTGCACTGAAGGGCTTACAAATGACTC-GAAAG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC-CAGAAGG
* * *
43108 TTTTGAAAACATCATGCACTGTAGGGCTTACAGTTGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
*
43153 TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCA-AAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCAGAAGG
* *
43198 TTTTTAAAACATCATGCACTAAAGGGCTTACAGATGACCCA-AAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCAGAAGG
*
43243 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
* * * *
43288 TTTTGATAACATCATGCACTGAAGGGCTTACAAATGACCCGAAAG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
* * *
43333 TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGGCCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
* *
43378 TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCA-AATG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA-CCAGAAGG
* * *
43423 TTTTTAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
*
43468 TTTTAAAAACATCATGCACTGAAGGGCTTACAGATG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
43504 TGGGAAATAG
Statistics
Matches: 759, Mismatches: 66, Indels: 37
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.00
44 101 0.13
45 647 0.85
46 8 0.01
47 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCAGAAGG
Found at i:42872 original size:135 final size:135
Alignment explanation
Indices: 42606--43503 Score: 1293
Period size: 135 Copynumber: 6.7 Consensus size: 135
42596 TCAAAAAGCT
* * ** *
42606 CCCGAAGGCTTTTTGAAAACATC-TGCACTGCAGGTCTTATGGATGA-CCATAAGGTTTTGATAA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCA-AAGGTTTTGAAAA
* * *
42669 CATCATGCACTGAAGGGCTTACAAATGACACGAAGGTTTTGATAACATCATGCACTGAAGGGCTT
63 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTT
42734 ACAGATGA
128 ACAGATGA
* * * *
42742 CCCAAAGGTTTTGATAACATCGTGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACAT
* * * * *
42807 CATGCACTGTACGGCTTATAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAAGGCATACA
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
42872 GATGA
131 GATGA
* *
42877 CCCGAAGGTTTTAAAAACATCATGCACTGAAGGGCTTACAGATAACCCAAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACAT
* * * * *
42942 CATGCACTGAAGGGCTTATAGATTA-CCGAAGGTTTTGATAACATCATGAACTGAAGGGCTTATA
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
43006 GATGA
131 GATGA
* * *
43011 CACGAAGGTTTTGATAACATCATGCACTGAAGGGCTTACA-ATGACCCAAAGGTTTTGATAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACAT
* * * * *
43075 CGTGCACTGAAGGGCTTACAAATGACTCGAAAGTTTTGAAAACATCATGCACTGTAGGGCTTACA
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
*
43140 GTTGA
131 GATGA
* *
43145 CCCGAAGGTTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCAAAGGTTTTTAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACAT
* *
43210 CATGCACTAAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
43275 GATGA
131 GATGA
* *
43280 CCCGAAGGTTTTGATAACATCATGCACTGAAGGGCTTACAAATGACCCGAAA-GTTTTGAAAACA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC-AAAGGTTTTGAAAACA
* * *
43344 TCATGCACTGTAGGGCTTACAGATGGCCCGAAGGTTTTGAAAACATCATGCACTGTAGGGCTTAC
65 TCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAC
43409 AGATGA
130 AGATGA
* * * * * *
43415 CCCAAATGTTTTTAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTAAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACAT
43480 CATGCACTGAAGGGCTTACAGATG
66 CATGCACTGAAGGGCTTACAGATG
43504 TGGGAAATAG
Statistics
Matches: 679, Mismatches: 77, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
133 43 0.06
134 164 0.24
135 460 0.68
136 12 0.02
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (135 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACAT
CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
GATGA
Found at i:44179 original size:22 final size:20
Alignment explanation
Indices: 44154--44206 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 20
44144 AATAAAGCTT
*
44154 TCATCTTTGAAAAGAGAATTTA
1 TCATCTTTGAAAAGA-AA-ATA
*
44176 TCATCTTTGAATAGAAAATA
1 TCATCTTTGAAAAGAAAATA
44196 TCATCTTTGAA
1 TCATCTTTGAA
44207 TAATGTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.45
21 2 0.07
22 14 0.48
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (20 bp):
TCATCTTTGAAAAGAAAATA
Found at i:44197 original size:20 final size:22
Alignment explanation
Indices: 44154--44208 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 22
44144 AATAAAGCTT
* *
44154 TCATCTTTGAAAAGAGAATTTA
1 TCATCTTTGAATAGAGAATATA
44176 TCATCTTTGAATAGA-AA-ATA
1 TCATCTTTGAATAGAGAATATA
44196 TCATCTTTGAATA
1 TCATCTTTGAATA
44209 ATGTAGATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 15 0.48
21 2 0.06
22 14 0.45
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAATAGAGAATATA
Found at i:44661 original size:54 final size:54
Alignment explanation
Indices: 44576--44727 Score: 157
Period size: 54 Copynumber: 2.8 Consensus size: 54
44566 TCACTGGTTC
* * * **
44576 GTAAAACATGTGACAATACATTCATTA-TTTCTCGTGGCTTCTGCCCGGAT-TTT
1 GTAAAGCATTTGACAACACATTCA-TACTTTCTCGTGGCTTCTGCCAAGATGTTT
* * * * *
44629 CGTAAAGCTTTTGATAACACATTCATCCTTTCTTGTGGCTTCTGGCAAGATGTTT
1 -GTAAAGCATTTGACAACACATTCATACTTTCTCGTGGCTTCTGCCAAGATGTTT
*
44684 GTAAAGCATTTGACAACACATTCATACTTT-TCTGTGGTTTCTGC
1 GTAAAGCATTTGACAACACATTCATACTTTCTC-GTGGCTTCTGC
44728 ACAGATTTCT
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
53 2 0.03
54 74 0.94
55 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (54 bp):
GTAAAGCATTTGACAACACATTCATACTTTCTCGTGGCTTCTGCCAAGATGTTT
Found at i:48457 original size:10 final size:9
Alignment explanation
Indices: 48432--48456 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48422 TTTGATTCAA
48432 TTTTTTTCC
1 TTTTTTTCC
48441 TTTTTTTCC
1 TTTTTTTCC
48450 TTTTTTT
1 TTTTTTT
48457 TAAGTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTCC
Found at i:51291 original size:25 final size:27
Alignment explanation
Indices: 51238--51291 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
51228 CAAACTGTGC
* *
51238 AATGCAAAGATGCAAATATAAAATGAA
1 AATGCAAAGATGCAAACATAAAATAAA
*
51265 AATGC-AA-ATGCAAACATAACATAAA
1 AATGCAAAGATGCAAACATAAAATAAA
51290 AA
1 AA
51292 AATACGAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.71
26 2 0.08
27 5 0.21
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (27 bp):
AATGCAAAGATGCAAACATAAAATAAA
Found at i:53569 original size:31 final size:27
Alignment explanation
Indices: 53534--53600 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 27
53524 ACTTGAAAAA
53534 AAAATAAAAATAATATATAATAAATATTATG
1 AAAATAAAAAT-ATATATAA-AAA-ATT-TG
*
53565 AAAATAATAAGTATATATAAAAAATTTG
1 AAAATAA-AAATATATATAAAAAATTTG
53593 AAAATAAA
1 AAAATAAA
53601 GAGTTATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 1 0.03
28 9 0.26
29 3 0.09
30 3 0.09
31 15 0.44
32 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAATAAAAATATATATAAAAAATTTG
Found at i:53584 original size:28 final size:28
Alignment explanation
Indices: 53542--53599 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
53532 AAAAAATAAA
*
53542 AATAATATATAAT-AAATATTATGAAAAT
1 AATAATATATAATAAAAAATT-TGAAAAT
53570 AATAAGTATAT-ATAAAAAATTTGAAAAT
1 AATAA-TATATAATAAAAAATTTGAAAAT
53598 AA
1 AA
53600 AGAGTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (28 bp):
AATAATATATAATAAAAAATTTGAAAAT
Found at i:54509 original size:127 final size:127
Alignment explanation
Indices: 54275--54507 Score: 287
Period size: 127 Copynumber: 1.9 Consensus size: 127
54265 AAAAGTAAAA
*
54275 TATTTATTTATTTAAATATCAGAAAAAGACTTCTAGTTGCTTTAAGACAGCTCATTTCTTAATAT
1 TATTTATTTATTTAAATATCAGAAAAAGACATCTAGTTGCTTTAAGACAGCTCATTTCTTAATAT
* * * * *
54340 TGAAAAATAAATAAATATTAATAATATGATAATTTTTTATATAGAATTAAATATATAATTTT
66 TAAAAAATAAATAAATATTAATAATATAAAAATTATATATATAGAATTAAATATATAATTTT
* * * *
54402 TATTTATTTATTTAAA-ATACGGAATAGGACATCTAGTTGCTTTAAGA-ATGC-CCTTTCTTAAT
1 TATTTATTTATTTAAATAT-CAGAAAAAGACATCTAGTTGCTTTAAGACA-GCTCATTTCTTAAT
* * *
54464 A-TAAAAAATAAATAAATATT-ATTATTTAAACAAATATATATATA
64 ATTAAAAAATAAATAAATATTAATAATATAAA-AATTATATATATA
54508 TATATATATA
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
124 6 0.07
125 28 0.31
126 14 0.16
127 42 0.47
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (127 bp):
TATTTATTTATTTAAATATCAGAAAAAGACATCTAGTTGCTTTAAGACAGCTCATTTCTTAATAT
TAAAAAATAAATAAATATTAATAATATAAAAATTATATATATAGAATTAAATATATAATTTT
Found at i:55978 original size:3 final size:3
Alignment explanation
Indices: 55970--56041 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
55960 ATTATTTATT
* * * *
55970 TAA TAA TAA AAA TAA TAA AAA TAA AAA TATA TAA TTAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -TAA TAA TAA TAA
** *
56017 TAA TAA TTT TAA TAA TAA TGA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
56042 GAAATGGAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:63410 original size:3 final size:3
Alignment explanation
Indices: 63402--63461 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
63392 TTATTTTAAA
*
63402 ATT ATT ATT AAT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63449 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
63462 AATAATTTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:65352 original size:25 final size:26
Alignment explanation
Indices: 65319--65368 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
65309 ATAAGACACT
* *
65319 AAAAGTGAC-ATTTTATTATTGTCAC
1 AAAAATGACAATTTAATTATTGTCAC
65344 AAAAATGACAATTTAATTATTGTCA
1 AAAAATGACAATTTAATTATTGTCA
65369 TATTTGAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (26 bp):
AAAAATGACAATTTAATTATTGTCAC
Found at i:65515 original size:21 final size:21
Alignment explanation
Indices: 65489--65534 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
65479 TTCAATCCAA
*
65489 AAAAATTCTTTAAAATATATT
1 AAAAATTATTTAAAATATATT
* *
65510 AAAAATTATTTAATATATGTT
1 AAAAATTATTTAAAATATATT
65531 AAAA
1 AAAA
65535 GAAATTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAAATTATTTAAAATATATT
Found at i:65611 original size:31 final size:32
Alignment explanation
Indices: 65569--65659 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 32
65559 TAAATAAATA
*
65569 TATTTATAAATTATTTAAATTATTTTTAATAAT
1 TATTT-TAAATTATTTAAATTATTTTTAATAAC
* *
65602 TA-TTTAAATTGA---ATATTCCTTTTTTAATAAC
1 TATTTTAAATT-ATTTAAATT--ATTTTTAATAAC
*
65633 TATTTTAAATTATTTTAATTATTTTTA
1 TATTTTAAATTATTTAAATTATTTTTA
65660 TCTAAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
29 4 0.09
31 19 0.42
32 17 0.38
33 2 0.04
34 3 0.07
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (32 bp):
TATTTTAAATTATTTAAATTATTTTTAATAAC
Found at i:68182 original size:194 final size:193
Alignment explanation
Indices: 67826--68183 Score: 430
Period size: 194 Copynumber: 1.8 Consensus size: 193
67816 GTGTTTTGCT
* ** * *
67826 ACAATATATTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAATTATCAA
1 ACAATATATTTTCGTCACATATAAGTTGATTTTAATGCACTATCCGGGACAATATAAATCATCAA
** **
67891 CAACGAAATCTTATTTAATTTAGTGATGTAACCAACTGTCATAGAATATAAATTATTAAGTGACG
66 CAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATTAAGTGACG
* * *
67956 TTATGCATAAACGTCATTCATAATATTATTAGGTAACATTTATATTATGTCACTAAAAATGTG
131 TTATACATAAACGTCATCCATAATACTATTAGGTAACATTTATATTATGTCACTAAAAATGTG
* * * *
68019 ACAATATCTCTTTCGTCACATATAGGTTGATTTTAATGTACTATCCGGGACGATATAAATCATCA
1 ACAATATAT-TTTCGTCACATATAAGTTGATTTTAATGCACTATCCGGGACAATATAAATCATCA
* * ** ** * *
68084 ATAACGAAATTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATTA-TATAGTGA
65 ACAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATTA-AGTGA
* * * **
68148 TGTTATATATAAATGTCATCCATTCTACTATTAGGT
129 CGTTATACATAAACGTCATCCATAATACTATTAGGT
68184 GACGATATAC
Statistics
Matches: 134, Mismatches: 29, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
193 10 0.07
194 124 0.93
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (193 bp):
ACAATATATTTTCGTCACATATAAGTTGATTTTAATGCACTATCCGGGACAATATAAATCATCAA
CAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATTAAGTGACG
TTATACATAAACGTCATCCATAATACTATTAGGTAACATTTATATTATGTCACTAAAAATGTG
Found at i:70362 original size:23 final size:23
Alignment explanation
Indices: 70307--70363 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
70297 CTCAAATGAA
* *
70307 TGCACCAAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
70330 TGCACCGAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
70353 TGCACTGAAGT
1 TGCACCGAAGT
70364 ACCATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:71965 original size:24 final size:20
Alignment explanation
Indices: 71912--71969 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
71902 TTCCCCTTGA
*
71912 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
71932 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
71955 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
71970 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:72044 original size:64 final size:64
Alignment explanation
Indices: 71957--72118 Score: 197
Period size: 64 Copynumber: 2.5 Consensus size: 64
71947 TCTTTAACAT
* * *
71957 GTGCATCGATGCACTACC-CATGCATCGATACACAAA-TCACCTTCGATGTTTTCA-TTTTAAGG
1 GTGCATCGATGCACT-CCTTATGCATCGATACACAAACT-ACATTCGATGTTTCCATTTTTAA-G
72019 GG
63 GG
* *
72021 GTGCATCGATGCACTCCTTATGCATCGATACACTAACTACATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCCTTATGCATCGATACACAAACTACATTCGATGTTTCCATTTTTAAGGG
* *
72085 GTGCATCAATGCACT-TTCTATGCATCGATACACA
1 GTGCATCGATGCACTCCT-TATGCATCGATACACA
72119 CTGAACAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
63 3 0.03
64 76 0.88
65 7 0.08
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTCCTTATGCATCGATACACAAACTACATTCGATGTTTCCATTTTTAAGGG
Found at i:76712 original size:15 final size:15
Alignment explanation
Indices: 76692--76721 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
76682 TTCAAATAGC
*
76692 AAAAAGAGAAAAAAG
1 AAAAAGAAAAAAAAG
76707 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
76722 TTGTTAAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:77985 original size:54 final size:54
Alignment explanation
Indices: 77893--78046 Score: 254
Period size: 54 Copynumber: 2.9 Consensus size: 54
77883 CTGACGAGAA
* *
77893 ATCTATGCAAAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACAAAC
1 ATCTGTGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACAAAC
* * * *
77947 ATCTGTGCAGAAACCATAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
1 ATCTGTGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACAAAC
78001 ATCTGTGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTT
1 ATCTGTGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTT
78047 CTATGAACCA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (54 bp):
ATCTGTGCAGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACAAAC
Found at i:79387 original size:177 final size:177
Alignment explanation
Indices: 79091--79507 Score: 701
Period size: 177 Copynumber: 2.4 Consensus size: 177
79081 TATTTCCCAA
* * *
79091 ATTTGTAAGTCCTACGGGCCATCCATAAGACCTTTAGTGCAGGATGTTTTCAAATGAGATTTTAT
1 ATTTGTAAGTCCTACGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAG
*
79156 AAACCAAGCCTTCGGGGGTTTACTAATTATCTCAAAAGAGCTGTTAAAGGAAGCTAAGCCGAACA
66 AAACCAAGCCTTCGGGGGTTTACTAATTATCTCAAAAGAGCTATTAAAGGAAGCTAAGCCGAACA
*
79221 AAAGGGTTCCTTGACAACTAAGAGACTAAGCCTTCGGGGGTTTCTTG
131 AAAGGGTTCCTTGACAACTAAGAAACTAAGCCTTCGGGGGTTTCTTG
**
79268 ATTTGTAAGTCCTACAAGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAG
1 ATTTGTAAGTCCTACGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAG
*
79333 AAACCAAGCCTTCGGGGGTTTACTAATTATCTCAAAAGAGCTATTAAAGGAAGCTAAGCCTAACA
66 AAACCAAGCCTTCGGGGGTTTACTAATTATCTCAAAAGAGCTATTAAAGGAAGCTAAGCCGAACA
* *
79398 AAGGGGTTCCTTGACAACTAAGAAACTAAGCCTTCGGGGGTTTTTTG
131 AAAGGGTTCCTTGACAACTAAGAAACTAAGCCTTCGGGGGTTTCTTG
* * * *
79445 ATTTATAAGTCCTACGGGACATCCATAAGACCTTCAGTGCAAGATATTTTCAAAT-AAATTTTA
1 ATTTGTAAGTCCTACGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTA
79508 TCTCACTTGG
Statistics
Matches: 224, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
176 7 0.03
177 217 0.97
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (177 bp):
ATTTGTAAGTCCTACGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAG
AAACCAAGCCTTCGGGGGTTTACTAATTATCTCAAAAGAGCTATTAAAGGAAGCTAAGCCGAACA
AAAGGGTTCCTTGACAACTAAGAAACTAAGCCTTCGGGGGTTTCTTG
Found at i:79834 original size:3 final size:3
Alignment explanation
Indices: 79826--79869 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
79816 TTATTTTAAA
*
79826 ATT ATT ATT AAT ATT -TT ATT ATT ATT A-T ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
79870 ATAATTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:79842 original size:20 final size:17
Alignment explanation
Indices: 79826--79880 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
79816 TTATTTTAAA
79826 ATTATTATTAATATTTT
1 ATTATTATTAATATTTT
79843 ATTATTATT-ATATTATT
1 ATTATTATTAATATT-TT
79860 ATTATTATTAATAATTTT
1 ATTATTATTAAT-ATTTT
79878 ATT
1 ATT
79881 TACATTACCA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.14
17 20 0.57
18 7 0.20
19 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATTATTAATATTTT
Found at i:79844 original size:11 final size:11
Alignment explanation
Indices: 79830--79880 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
79820 TTTAAAATTA
79830 TTATTAATATT
1 TTATTAATATT
*
79841 TTATTATTATT
1 TTATTAATATT
* *
79852 ATATTATTATT
1 TTATTAATATT
79863 ATTATTAATAATT
1 -TTATTAAT-ATT
79876 TTATT
1 TTATT
79881 TACATTACCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 20 0.59
12 11 0.32
13 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTAATATT
Found at i:79844 original size:14 final size:14
Alignment explanation
Indices: 79827--79868 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
79817 TATTTTAAAA
*
79827 TTATTATTAATATT
1 TTATTATTATTATT
*
79841 TTATTATTATTATA
1 TTATTATTATTATT
79855 TTATTATTATTATT
1 TTATTATTATTATT
79869 AATAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATTATTATT
Found at i:83731 original size:117 final size:116
Alignment explanation
Indices: 83509--83732 Score: 292
Period size: 117 Copynumber: 1.9 Consensus size: 116
83499 AACTTTCAAA
* *
83509 TTGAAATTTTCTTTTTCAGTACTTTCAAATTTCATTTTTGAAAGATCTAAATCCTTCTTCAAGAT
1 TTGAAAATTTCTTTTTCAGTA-TTTCAAATTTCATTTTTGAAAGATCTAAATCCTTCTTCAACAT
* *
83574 TTCATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAAT
65 TTCATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAAT
* * * *
83626 TTGAAAATTTCTTTTTCAAAGT-TTTCAGATTTCGTTTTTGAAAGCTCTAACTCCTT-TCTCAAC
1 TTGAAAATTTCTTTTTC--AGTATTTCAAATTTCATTTTTGAAAGATCTAAATCCTTCT-TCAAC
* *
83689 ATTTCATTTTGATTTTCTAAATCTATTTTAGCTTTC-AAAAGAAG
63 ATTTCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
83733 ATCATTTTTA
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
116 1 0.01
117 85 0.91
118 4 0.04
119 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (116 bp):
TTGAAAATTTCTTTTTCAGTATTTCAAATTTCATTTTTGAAAGATCTAAATCCTTCTTCAACATT
TCATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAAT
Found at i:87205 original size:21 final size:21
Alignment explanation
Indices: 87179--87248 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
87169 TTGTGCATAA
87179 TGCATCGATACACTATGAAGG
1 TGCATCGATACACTATGAAGG
* *
87200 TGCATCGATGCATCCCTATGAATG
1 TGCATCGAT--A-CACTATGAAGG
* *
87224 TGCATCGATACACCATGAAGA
1 TGCATCGATACACTATGAAGG
87245 TGCA
1 TGCA
87249 CCAATGCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
21 20 0.50
22 1 0.03
23 1 0.03
24 18 0.45
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACTATGAAGG
Found at i:87243 original size:45 final size:44
Alignment explanation
Indices: 87179--87274 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 44
87169 TTGTGCATAA
* * * *
87179 TGCATCGATACACTATGAAGGTGCATCGATGCA-TCCCTATGAATG
1 TGCATCGATACACCATGAAGATGCACCAATGCACT-CCT-TGAATG
87224 TGCATCGATACACCATGAAGATGCACCAATGCACTCCTTGAATG
1 TGCATCGATACACCATGAAGATGCACCAATGCACTCCTTGAATG
87268 TGCATCG
1 TGCATCG
87275 TTGCACTCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
44 13 0.28
45 32 0.70
46 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (44 bp):
TGCATCGATACACCATGAAGATGCACCAATGCACTCCTTGAATG
Found at i:89976 original size:65 final size:65
Alignment explanation
Indices: 89900--90024 Score: 200
Period size: 65 Copynumber: 1.9 Consensus size: 65
89890 AATGCATTTT
89900 ATGCATCGATGCACT-CAGGATT-TTATGGAAACATCGAATGCATTTTATGCATCGATGCACATA
1 ATGCATCGATGCACTCCAGGATTGTT-T-GAAACATCGAATGCATTTTATGCATCGATGCACATA
89963 CC
64 CC
* *
89965 ATGCATCGATGCACTCCAGGCTTGTTTGAAACATCGAATTCATTTTATGCATCGATGCAC
1 ATGCATCGATGCACTCCAGGATTGTTTGAAACATCGAATGCATTTTATGCATCGATGCAC
90025 CCTTATTGCA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
65 47 0.84
66 7 0.12
67 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (65 bp):
ATGCATCGATGCACTCCAGGATTGTTTGAAACATCGAATGCATTTTATGCATCGATGCACATACC
Found at i:90822 original size:18 final size:19
Alignment explanation
Indices: 90793--90830 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
90783 TTAGGAAAAA
90793 TTATTATATTTTTTAATAT
1 TTATTATATTTTTTAATAT
90812 TTATT-TATTTTTTAATAT
1 TTATTATATTTTTTAATAT
90830 T
1 T
90831 AAAGAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTATATTTTTTAATAT
Found at i:91968 original size:13 final size:13
Alignment explanation
Indices: 91950--91974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91940 GTCTTTGAAT
91950 TTGACTTTGACCG
1 TTGACTTTGACCG
91963 TTGACTTTGACC
1 TTGACTTTGACC
91975 AAAAAGTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGACTTTGACCG
Found at i:94923 original size:2 final size:2
Alignment explanation
Indices: 94918--94977 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
94908 ATAAATGGAA
*
94918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94960 AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
94978 AAAAATAAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96352 original size:36 final size:37
Alignment explanation
Indices: 96299--96395 Score: 130
Period size: 36 Copynumber: 2.7 Consensus size: 37
96289 TTCGGTTTTT
*
96299 CAAGATAAAC-ATGTTCAAAGGTTTTC-TTTTGTGCTTC
1 CAAGAGAAACAAT-TTCAAAGGTTTTCGTTTTGTG-TTC
96336 C-AGAGAAACAATTTCAAAGG-TTTCGTTTTGTGTTC
1 CAAGAGAAACAATTTCAAAGGTTTTCGTTTTGTGTTC
*
96371 CAAGAGAAACGATTTCAAAGGTTTT
1 CAAGAGAAACAATTTCAAAGGTTTT
96396 TTCGAGAGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
35 8 0.15
36 40 0.74
37 6 0.11
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (37 bp):
CAAGAGAAACAATTTCAAAGGTTTTCGTTTTGTGTTC
Found at i:96545 original size:36 final size:36
Alignment explanation
Indices: 96494--96681 Score: 133
Period size: 36 Copynumber: 5.4 Consensus size: 36
96484 TCAATGTTTA
** *
96494 TGTTTCAAGAAAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
96530 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** * * ** *
96566 CATTTTAAGGGAAA-TGTTTTC---ATTG-----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
* *
96594 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* *
96632 TGTTTCAAGGGAAACTATCTCAAGAAAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
**
96668 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
96682 TGTTTTCAAT
Statistics
Matches: 113, Mismatches: 27, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
28 2 0.02
29 13 0.12
30 2 0.02
32 1 0.01
33 2 0.02
35 1 0.01
36 60 0.53
37 30 0.27
38 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:96646 original size:37 final size:36
Alignment explanation
Indices: 96595--96681 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 36
96585 TCATTGTTTA
* * **
96595 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAAAGACAAAA-TT
96632 TGTTTCAAGGGAAACTATCTCAAGAAAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAAAGACAAAATT
**
96668 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
96682 TGTTTTCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 14 0.32
37 30 0.68
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAAAGACAAAATT
Found at i:96688 original size:102 final size:101
Alignment explanation
Indices: 96395--96757 Score: 582
Period size: 101 Copynumber: 3.6 Consensus size: 101
96385 TCAAAGGTTT
* * * * **
96395 TTTCGAGAGAAATTGTCTCCACGGAGACAAAATTTGTTTCAAGGGAAACTATCTTTAGAGAGACA
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACA
96460 AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
66 AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
*
96496 TTTCAAGAAAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACA
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACA
* *
96561 AAATTCATTTTAAGGGAAATGTTTTCATTGTTTATG
66 AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
*
96597 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAAAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
96662 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
65 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
* * *
96699 TTTCAAGAGAAACTATCTCAAGGGAGACAAATTTTCTGTTTCGAGGGAAACTATCTCAA
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAA-ATT-TGTTTCAAGGGAAACTATCTCAA
96758 TCGAGATAAA
Statistics
Matches: 243, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
101 123 0.51
102 98 0.40
103 22 0.09
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (101 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACA
AAATTCATTTCAAGGGAAATGTTTTCAATGTTTATG
Found at i:96854 original size:72 final size:72
Alignment explanation
Indices: 96772--97128 Score: 498
Period size: 72 Copynumber: 5.0 Consensus size: 72
96762 GATAAAATCT
** * * ** *
96772 TGTTTTAAGAAAAATAATCTTGAGGGAAATAAATCTTCTTTTGAGTAAAATAGTCTCAAGTGAGA
1 TGTTTTAAGAATGACAATCTTGAGGGAAATAAATCCTCTTTCAAGTAAAACAGTCTCAAGTGAGA
*
96837 CAAAGTA
66 CAAAGTC
** * *
96844 TGTTTTAAGAAAAACAATCTTGAGGGAGATAAATCCGCTTTCAAGTAAAACAGTCTCAAGTGAGA
1 TGTTTTAAGAATGACAATCTTGAGGGAAATAAATCCTCTTTCAAGTAAAACAGTCTCAAGTGAGA
*
96909 CAATGTC
66 CAAAGTC
* ** * * *
96916 TGTTTTAAGAATGACAAACTCAAGGGAAATAAATCTTCTTTTAAGTAAAACATTCTCAAGTGAGA
1 TGTTTTAAGAATGACAATCTTGAGGGAAATAAATCCTCTTTCAAGTAAAACAGTCTCAAGTGAGA
*
96981 CAAGGTC
66 CAAAGTC
* * *
96988 TGTTTTAAGAATGACAATCTTGAGGGAAAGAAATCCTCTTTCAAGTAAAACAGTCTCAAGTGGGT
1 TGTTTTAAGAATGACAATCTTGAGGGAAATAAATCCTCTTTCAAGTAAAACAGTCTCAAGTGAGA
*
97053 CAAGGTC
66 CAAAGTC
97060 TGTTTTAAGAATGACAATCTTGAGGGAAATAAATCCTCTTTCAAGTAAAACAGTCTCAAGTGAGA
1 TGTTTTAAGAATGACAATCTTGAGGGAAATAAATCCTCTTTCAAGTAAAACAGTCTCAAGTGAGA
97125 CAAA
66 CAAA
97129 TCATCTGTAT
Statistics
Matches: 252, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 252 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (72 bp):
TGTTTTAAGAATGACAATCTTGAGGGAAATAAATCCTCTTTCAAGTAAAACAGTCTCAAGTGAGA
CAAAGTC
Found at i:96974 original size:36 final size:36
Alignment explanation
Indices: 96708--97130 Score: 135
Period size: 36 Copynumber: 11.7 Consensus size: 36
96698 GTTTCAAGAG
* * * * **
96708 AAACTATCTCAAGGGAGACAAATTTTCTGTTTCGAGGG
1 AAACAATCTCAAGGGAGATAAATCTTCT-TTT-AAGTA
* ** * *
96746 AAACTATCTCAATCGAGATAAAATCTTGTTTTAAGAA
1 AAACAATCTCAAGGGAGAT-AAATCTTCTTTTAAGTA
* ** * *
96783 AAATAATCTTGAGGGAAATAAATCTTCTTTTGAGTA
1 AAACAATCTCAAGGGAGATAAATCTTCTTTTAAGTA
* * * * * * *
96819 AAATAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGAA
1 AAACAATCTCAAGGGAGATAAA-TCTTCTTTTAAGTA
** ** *
96855 AAACAATCTTGAGGGAGATAAATCCGCTTTCAAGTA
1 AAACAATCTCAAGGGAGATAAATCTTCTTTTAAGTA
* * * * *
96891 AAACAGTCTCAAGTGAGA-CAATGTCTGTTTTAAG-A
1 AAACAATCTCAAGGGAGATAAATCT-TCTTTTAAGTA
* * *
96926 ATGACAAACTCAAGGGAAATAAATCTTCTTTTAAGTA
1 A-AACAATCTCAAGGGAGATAAATCTTCTTTTAAGTA
* * * * *
96963 AAACATTCTCAAGTGAGACAAGGTC-TGTTTTAAG-A
1 AAACAATCTCAAGGGAGATAA-ATCTTCTTTTAAGTA
* ** * * * *
96998 ATGACAATCTTGAGGGAAAGAAATCCTCTTTCAAGTA
1 A-AACAATCTCAAGGGAGATAAATCTTCTTTTAAGTA
* * *
97035 AAACAGTCTCAAGTGG-G-TCAAGGTC-TGTTTTAAG-A
1 AAACAATCTCAAG-GGAGAT-AA-ATCTTCTTTTAAGTA
* ** * * *
97070 ATGACAATCTTGAGGGAAATAAATCCTCTTTCAAGTA
1 A-AACAATCTCAAGGGAGATAAATCTTCTTTTAAGTA
* * *
97107 AAACAGTCTCAAGTGAGACAAATC
1 AAACAATCTCAAGGGAGATAAATC
97131 ATCTGTATTA
Statistics
Matches: 267, Mismatches: 99, Indels: 40
0.66 0.24 0.10
Matches are distributed among these distances:
35 16 0.06
36 193 0.72
37 32 0.12
38 19 0.07
39 7 0.03
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (36 bp):
AAACAATCTCAAGGGAGATAAATCTTCTTTTAAGTA
Found at i:98200 original size:95 final size:95
Alignment explanation
Indices: 98040--98221 Score: 310
Period size: 95 Copynumber: 1.9 Consensus size: 95
98030 ATATATAAAT
*
98040 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGCATTTAACCAATTGCCTTAGAGGG
1 ACCTTTATCAGGTTAGCTGAATATTATCCATAAAGCCGGGGCATTTAACCAATTGCCTTAGAGGG
* *
98105 ATAGCTCAAGCTTTATTGTATAGTATAATC
66 ACAACTCAAGCTTTATTGTATAGTATAATC
* * *
98135 ACCTTTATCATGTTAGCTGAATATTATCCATAAAGCCGGGGCATTTAACCAATTGCTTTATAGGG
1 ACCTTTATCAGGTTAGCTGAATATTATCCATAAAGCCGGGGCATTTAACCAATTGCCTTAGAGGG
98200 ACAACTCAAGCTTTATTGTATA
66 ACAACTCAAGCTTTATTGTATA
98222 TAAATAAATT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 81 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (95 bp):
ACCTTTATCAGGTTAGCTGAATATTATCCATAAAGCCGGGGCATTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATAGTATAATC
Found at i:101161 original size:15 final size:17
Alignment explanation
Indices: 101141--101172 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
101131 AAAAGATGAA
101141 AATAAAA-T-AAAAGAG
1 AATAAAACTGAAAAGAG
101156 AATAAAACTGAAAAGAG
1 AATAAAACTGAAAAGAG
101173 TTAGTAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.69, C:0.03, G:0.16, T:0.12
Consensus pattern (17 bp):
AATAAAACTGAAAAGAG
Found at i:102561 original size:2 final size:2
Alignment explanation
Indices: 102554--102605 Score: 56
Period size: 2 Copynumber: 27.5 Consensus size: 2
102544 ATAAATGGAA
* * *
102554 AT AT AT AT AT AT AT GT AT AT AT AT AT AC AT AT A- AA AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102594 AT AT -T AT AT AT A
1 AT AT AT AT AT AT A
102606 AAAAATAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:102595 original size:18 final size:18
Alignment explanation
Indices: 102572--102612 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
102562 ATATATGTAT
102572 ATATATATACATATAAAATA
1 ATATAT-TACATATAAAA-A
*
102592 ATATATTATATATAAAAA
1 ATATATTACATATAAAAA
102610 ATA
1 ATA
102613 AGAAAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATATTACATATAAAAA
Found at i:102610 original size:21 final size:22
Alignment explanation
Indices: 102570--102613 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
102560 ATATATATGT
*
102570 ATATATATATACATATAAAATA
1 ATATATATATACATAAAAAATA
*
102592 ATATAT-TATATATAAAAAATA
1 ATATATATATACATAAAAAATA
102613 A
1 A
102614 GAAAAGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATATATATACATAAAAAATA
Found at i:108096 original size:17 final size:17
Alignment explanation
Indices: 108071--108121 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
108061 CTGCACAACA
*
108071 TATTATTATTTTTTTGT
1 TATTTTTATTTTTTTGT
*
108088 TATTTTTATGATTTTTGGT
1 TATTTTTAT--TTTTTTGT
108107 T-TTTGTTATTTTTTT
1 TATTT-TTATTTTTTT
108122 ACTTTCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 13 0.46
18 3 0.11
19 12 0.43
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (17 bp):
TATTTTTATTTTTTTGT
Found at i:108263 original size:15 final size:17
Alignment explanation
Indices: 108243--108274 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
108233 CATAATATAA
108243 TAAATT-CAAG-TAGAT
1 TAAATTGCAAGATAGAT
108258 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
108275 AAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:114548 original size:17 final size:15
Alignment explanation
Indices: 114512--114542 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
114502 AAATTCTAAA
114512 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
114527 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
114542 T
1 T
114543 TTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:118443 original size:13 final size:14
Alignment explanation
Indices: 118415--118445 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
118405 GGTATAACCC
118415 CTTTCTTCCTTTTA
1 CTTTCTTCCTTTTA
118429 CTTTCTTCC-TTTA
1 CTTTCTTCCTTTTA
118442 CTTT
1 CTTT
118446 TTTCTTCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (14 bp):
CTTTCTTCCTTTTA
Found at i:118970 original size:30 final size:30
Alignment explanation
Indices: 118934--118993 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
118924 TTCTGTCGTG
118934 ATTTTATCTATTTCTTACAGTTCAACTAAT
1 ATTTTATCTATTTCTTACAGTTCAACTAAT
*
118964 ATTTTATCTATTTCTTACAGTTCAATTAAT
1 ATTTTATCTATTTCTTACAGTTCAACTAAT
118994 TTTCTGCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTTTATCTATTTCTTACAGTTCAACTAAT
Found at i:121533 original size:30 final size:30
Alignment explanation
Indices: 121497--121568 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
121487 TACTAATGGT
*
121497 TCAATTATAACTTTTTGAAAATTCAGTGAC
1 TCAATTATAACTTTTTGAAAATACAGTGAC
*
121527 TCAATTATAAC-TTTTGGAAATACAGTGAC
1 TCAATTATAACTTTTTGAAAATACAGTGAC
* *
121556 TGAATTGTAACTT
1 TCAATTATAACTT
121569 ACTAATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 25 0.68
30 12 0.32
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (30 bp):
TCAATTATAACTTTTTGAAAATACAGTGAC
Found at i:122026 original size:13 final size:13
Alignment explanation
Indices: 122008--122032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121998 AAAAAATATT
122008 TATATTTTTTAAA
1 TATATTTTTTAAA
122021 TATATTTTTTAA
1 TATATTTTTTAA
122033 TTTTTAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATATTTTTTAAA
Found at i:136771 original size:3 final size:3
Alignment explanation
Indices: 136763--136845 Score: 60
Period size: 3 Copynumber: 26.3 Consensus size: 3
136753 ATTTGCATTA
** *
136763 ATT ATT ATT ATT ATT AGC ATT AATT ATT ATT AGT ATT ATTT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT A-TT ATT ATT
* * *
136809 ATT ATC AAT ATTT ATT ATA ATT AATT ATT AATT ATT A
1 ATT ATT ATT A-TT ATT ATT ATT -ATT ATT -ATT ATT A
136846 ATATACTAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
2 2 0.03
3 46 0.74
4 14 0.23
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:136785 original size:22 final size:22
Alignment explanation
Indices: 136757--136845 Score: 79
Period size: 22 Copynumber: 3.9 Consensus size: 22
136747 GAAACCATTT
136757 GCATTAATTATTATTATTATTA
1 GCATTAATTATTATTATTATTA
*
136779 GCATTAATTATTATTAGTATTA
1 GCATTAATTATTATTATTATTA
** * *
136801 TTTATTATATTATCAATATTTATTA
1 -GCATTA-ATTATTATTA-TTATTA
**
136826 TAATTAATTATTAATTATTA
1 GCATTAATTATT-ATTATTA
136846 ATATACTAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 21 0.39
23 12 0.22
24 16 0.30
25 5 0.09
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (22 bp):
GCATTAATTATTATTATTATTA
Found at i:136788 original size:16 final size:16
Alignment explanation
Indices: 136769--136808 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
136759 ATTAATTATT
136769 ATTATTATTAGCATTA
1 ATTATTATTAGCATTA
*
136785 ATTATTATTAGTATTA
1 ATTATTATTAGCATTA
*
136801 TTTATTAT
1 ATTATTAT
136809 ATTATCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (16 bp):
ATTATTATTAGCATTA
Found at i:137252 original size:29 final size:31
Alignment explanation
Indices: 137218--137276 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
137208 GCCACAGACA
*
137218 ACCAAATCAA-TCAAAAATGCACC-AAATCT
1 ACCAAACCAATTCAAAAATGCACCTAAATCT
**
137247 ACCAAACCAATTTTAAAATGCACCTAAATC
1 ACCAAACCAATTCAAAAATGCACCTAAATC
137277 CTAGTAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 11 0.44
31 5 0.20
ACGTcount: A:0.49, C:0.27, G:0.03, T:0.20
Consensus pattern (31 bp):
ACCAAACCAATTCAAAAATGCACCTAAATCT
Found at i:146848 original size:42 final size:44
Alignment explanation
Indices: 146782--146863 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
146772 AATTAGTAAG
*
146782 TCATTTGGGGCCATCAGTAAGTC-TTTCGAGCATGATGATTAAA
1 TCATTTGGGGCCATCAGTAAGTCTTTTCGAGCAAGATGATTAAA
* * *
146825 TCATTT-GGGTCATCTGTAAGTCTTTTTGAGCAAGATGAT
1 TCATTTGGGGCCATCAGTAAGTCTTTTCGAGCAAGATGAT
146864 AAGCCCTTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 14 0.41
43 20 0.59
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (44 bp):
TCATTTGGGGCCATCAGTAAGTCTTTTCGAGCAAGATGATTAAA
Found at i:146886 original size:42 final size:42
Alignment explanation
Indices: 146789--146886 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 42
146779 AAGTCATTTG
* * *
146789 GGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTT
1 GGGCCATCAGTAAGTCTTTCGAGCAAGATGATTAAACCATTC
* * * * *
146831 GGGTCATCTGTAAGTCTTTTTGAGCAAGATGA-TAAGCCCTTC
1 GGGCCATCAGTAAGTC-TTTCGAGCAAGATGATTAAACCATTC
*
146873 GGGCCATCCGTAAG
1 GGGCCATCAGTAAG
146887 AGCTTCGGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
42 32 0.71
43 13 0.29
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
GGGCCATCAGTAAGTCTTTCGAGCAAGATGATTAAACCATTC
Found at i:146985 original size:257 final size:255
Alignment explanation
Indices: 146399--147527 Score: 1273
Period size: 257 Copynumber: 4.5 Consensus size: 255
146389 CATTAAGTTG
*
146399 TTTTG-AAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGATATTTT
1 TTTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGA-AATTT
* *
146463 TGAAAAGTAAGAAGGTGATTTCCAAAGTTTCTTACCCAGTAAATTAGTTCCAAAACTAGTAAGTC
65 TGAAAAGTAAG-A-GTGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAGTAAGTC
* * * * * * * *
146528 ATTCGGGCTATCAGTAAGTCTTTCGAGCATGATTATTAAATCCTTCAGGTCATATTTCAGTATTT
128 TTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTT
* *
146593 CGAGCAAGATGATAAGTCCTTCGGGCCATTCATAAGACCTTCGAGCAGGATGTTTCCACATGA
193 CGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTCCACATGA
* * * *
146656 TTTTTGAAAAATGAGAAAGCGAATTCCAAAGGTTCTCATTT-AA-CGTTTTCAGAAAATAAAAGT
1 -TTTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATC-TTTTCTGAAAATGAAA-T
146719 TTTGAAAAGTAAGAGTGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAGTAAGTC
63 TTTGAAAAGTAAGAGTGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAGTAAGTC
* * *
146784 ATTTGGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTGGGTCATCTGTAAGTCTT
128 -TTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTC-T
* * * * * *
146849 TTTGAGCAAGATGATAAGCCCTTCGGGCCATCCGTAAGAGCTTCGGGTAGGATGTTTTCACATGA
191 TTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTCCACATGA
* * * *
146914 ATTTGAAAAATGGGATAGCGATTTTCAAAGTTTCTCATTT-AATCTTTTCTGAAAATGAAATTTT
1 TTTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAAATTTT
** * *
146978 CGAAAAGTAAGA---A--AAC-AA---T-TT--CCA--AAGTT-TCTT----ACTTAGTAAGTCT
66 -GAAAAGTAAGAGTGATTTCCAAAGTTTCTTACCCAGTAAATTAT-TTCCAAAATTAGTAAGTCT
* * * *
147024 TTTGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATTCTTCGGGTCATCTGTAAGTCTTTC
129 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTC
* * * * *
147089 GAGCAAGATGATAA-TCATTAGGGCCATCTATAAGACCTTCGGGTAGGACGTTTCCACATGA
194 GAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTCCACATGA
* * * *
147150 TTTTCAAAAAAAGAGAAAGAGATTTCCAAATTTTCTCATTTAAATCTTTT-TAGAAAATGAAATT
1 TTTT-GAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCT-GAAAATGAAA-T
* * * * * ** *
147214 TTTGAAAAGTAAAAGCGATTTCCAAAGTTTTTTACCCTGTAAACTATTTTGAAAATTGGTAAGTC
63 TTTGAAAAGTAAGAGTGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAGTAAGTC
* * * * *
147279 TTTCGGGCCATCAGTATGTCTTTTGATCATGATGATTAAATCCTTCGGGTTATCTGTCAGTCTTT
128 TTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTT
* * ** * * *
147344 CGAGTAAGATGATAAGTCCTTCAGGCCATATATAAGACCTTCGGACAGGATGTTTTCACATTA
193 CGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTCCACATGA
*
147407 TTTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAACATGAAATTG
1 TTTT-GAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAAATT-
*** * * * *
147472 TTGAAAAGTAAGAAAAATTTCTAAAGTTTATTACCTAGTAAACTATTTCCAAAATT
64 TTGAAAAGTAAGAGTGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATT
147528 GGTTAATTTC
Statistics
Matches: 734, Mismatches: 103, Indels: 69
0.81 0.11 0.08
Matches are distributed among these distances:
236 42 0.06
237 47 0.06
238 84 0.11
239 15 0.02
241 1 0.00
242 1 0.00
243 7 0.01
244 2 0.00
245 3 0.00
247 3 0.00
248 3 0.00
250 2 0.00
251 2 0.00
252 6 0.01
253 1 0.00
254 1 0.00
256 135 0.18
257 254 0.35
258 93 0.13
259 32 0.04
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (255 bp):
TTTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGAAATTTT
GAAAAGTAAGAGTGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAGTAAGTCTTT
CGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGA
GCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTCCACATGA
Found at i:147447 original size:494 final size:494
Alignment explanation
Indices: 146518--147512 Score: 1320
Period size: 495 Copynumber: 2.0 Consensus size: 494
146508 AGTTCCAAAA
* * *
146518 CTAGTAAGTCATTCGGGCTATCAGTAAGTCTTTCGAGCATGATTATTAAATCCTTCAGGTCATAT
1 CTAGTAAGTCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCAGGTCATAT
* * * * *
146583 TTCAGTATTTCGAGCAAGATGATAAGTCCTTCGGGCCATTCATAAGACCTTCGAGCAGGATGTTT
66 GTAAGTATTTCGAGCAAGATGATAAGTCATTAGGGCCATTCATAAGACCTTCGAGCAGGACGTTT
** * *
146648 CCACATGATTTTTGAAAAATGAGAAAGCGAATTCCAAAGGTTCTCATTTAACGTTTTCAGAAAAT
131 CCACATGATTTTCAAAAAAAGAGAAAGAGAATTCCAAAGGTTCTCATTTAACGTTTTCAGAAAAT
* * *
146713 AAAAGTTTTGAAAAGTAAGAGTGATTTCCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTAG
196 AAAAGTTTTGAAAAGTAAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTAG
* *
146778 TAAGTCATTTGGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTGGGTCATCTGTA
261 TAAGTCATTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTA
* * * * * **
146843 AGTCTTTTTGAGCAAGATGATAAGCCCTTCGGGCCATCCGTAAGAGCTTCGGGTAGGATGTTTTC
326 AGTCTTTTCGAGCAAGATGATAAGCCCTTCAGGCCATACATAAGACCTTCGGACAGGATGTTTTC
* * *
146908 ACATGAATTTGAAAAATGGGATAGCGATTTTCAAAGTTTCTCATTT-AATCTTTTCTGAAAATGA
391 ACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGA
*
146972 AATT-TTCGAAAAGTAAGAAAACAATTTCCAAAGTTTCTTAC
456 AATTGTT-GAAAAGTAAG-AAA-AATTTCCAAAGTTTATTAC
* * * * * * *
147013 TTAGTAAGTCTTTTGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATTCTTCGGGTCATCT
1 CTAGTAAGTCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCAGGTCATAT
* * *
147078 GTAAGTCTTTCGAGCAAGATGATAA-TCATTAGGGCCA-TCTATAAGACCTTCGGGTAGGACGTT
66 GTAAGTATTTCGAGCAAGATGATAAGTCATTAGGGCCATTC-ATAAGACCTTCGAGCAGGACGTT
* ** *
147141 TCCACATGATTTTCAAAAAAAGAGAAAGAGATTTCCAAATTTTCTCATTTAAATC-TTTTTAGAA
130 TCCACATGATTTTCAAAAAAAGAGAAAGAGAATTCCAAAGGTTCTCATTT-AA-CGTTTTCAGAA
* * * * **
147205 AATGAAATTTTTGAAAAGTAAAAGCGATTTCCAAAGTTTTTTACCCTGTAAACTATTTTGAAAAT
193 AATAAAAGTTTTGAAAAGTAAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAAT
* * * * * *
147270 TGGTAAGTC-TTTCGGGCCATCAGTATGTCTTTTGATCATGATGATTAAATCCTTCGGGTTATCT
258 TAGTAAGTCATTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCT
* * * *
147334 GTCAGTC-TTTCGAGTAAGATGATAAGTCCTTCAGGCCATATATAAGACCTTCGGACAGGATGTT
323 GTAAGTCTTTTCGAGCAAGATGATAAGCCCTTCAGGCCATACATAAGACCTTCGGACAGGATGTT
* * *
147398 TTCACATTATTTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAC
388 TTCACATGAATTT-GAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAA
*
147463 ATGAAATTGTTGAAAAGTAAGAAAAATTTCTAAAGTTTATTAC
452 ATGAAATTGTTGAAAAGTAAGAAAAATTTCCAAAGTTTATTAC
147506 CTAGTAA
1 CTAGTAA
147513 ACTATTTCCA
Statistics
Matches: 431, Mismatches: 63, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
493 83 0.19
494 163 0.38
495 182 0.42
496 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (494 bp):
CTAGTAAGTCATTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCAGGTCATAT
GTAAGTATTTCGAGCAAGATGATAAGTCATTAGGGCCATTCATAAGACCTTCGAGCAGGACGTTT
CCACATGATTTTCAAAAAAAGAGAAAGAGAATTCCAAAGGTTCTCATTTAACGTTTTCAGAAAAT
AAAAGTTTTGAAAAGTAAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTAG
TAAGTCATTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTGTA
AGTCTTTTCGAGCAAGATGATAAGCCCTTCAGGCCATACATAAGACCTTCGGACAGGATGTTTTC
ACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATGA
AATTGTTGAAAAGTAAGAAAAATTTCCAAAGTTTATTAC
Found at i:147671 original size:22 final size:22
Alignment explanation
Indices: 147640--147712 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
147630 AAAAAAGCTC
* *
147640 ATTATTAGTATTATTTATTACT
1 ATTATCAGTATTAATTATTACT
*
147662 ATTATCAGTATTAATTATTATT
1 ATTATCAGTATTAATTATTACT
* *
147684 AATTAATAATTATTAATATATTAC-
1 -ATT-ATCAGTATTAAT-TATTACT
147708 ATTAT
1 ATTAT
147713 ATATTTTACA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
22 21 0.50
23 6 0.14
24 10 0.24
25 5 0.12
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (22 bp):
ATTATCAGTATTAATTATTACT
Found at i:147690 original size:14 final size:14
Alignment explanation
Indices: 147671--147700 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
147661 TATTATCAGT
*
147671 ATTAATTATTATTA
1 ATTAATAATTATTA
147685 ATTAATAATTATTA
1 ATTAATAATTATTA
147699 AT
1 AT
147701 ATATTACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTAATAATTATTA
Found at i:151985 original size:30 final size:30
Alignment explanation
Indices: 151918--152002 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 30
151908 GCTTGAAAAT
*
151918 ATATATTTTATTTTTTATTTTAA-TTTAAA
1 ATATATTTTATTTTTTATATTAACTTTAAA
* *
151947 AAATATTTTA-TTCTTATATTAACTTTGAAA
1 ATATATTTTATTTTTTATATTAACTTT-AAA
* *
151977 GTATATTTTATTTTTTTTATTAACTT
1 ATATATTTTATTTTTTATATTAACTT
152003 ACAAAATCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 10 0.22
29 12 0.26
30 11 0.24
31 13 0.28
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (30 bp):
ATATATTTTATTTTTTATATTAACTTTAAA
Found at i:152086 original size:29 final size:30
Alignment explanation
Indices: 152051--152116 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
152041 TTATTCGAAC
* *
152051 AATATATTTTATTCTTTTATTAACTT-AAA
1 AATATATTTTATTATTATATTAACTTCAAA
* *
152080 AATATATTTTGTTATTATCTTAACTTCAAA
1 AATATATTTTATTATTATATTAACTTCAAA
*
152110 TATATAT
1 AATATAT
152117 ATATATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (30 bp):
AATATATTTTATTATTATATTAACTTCAAA
Found at i:152116 original size:2 final size:2
Alignment explanation
Indices: 152109--152145 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
152099 TTAACTTCAA
152109 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
152146 AACTTAAAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:152132 original size:75 final size:74
Alignment explanation
Indices: 151978--152120 Score: 200
Period size: 75 Copynumber: 1.9 Consensus size: 74
151968 ACTTTGAAAG
* * *
151978 TATATTTTATTTTTTTTATTAACTTACAAAATCTATTTGTTATAACTTAACTTCAAATATATTTT
1 TATATTTTATTTCTTTTATTAACTTACAAAATATATTTGTTATAACTTAACTTCAAATATATTAT
152043 ATTCGAACAA
66 ATTC-AACAA
*
152053 TATATTTTA-TTCTTTTATTAACTTA-AAAATATATTTTGTTATTATCTTAACTTCAAATATATA
1 TATATTTTATTTCTTTTATTAACTTACAAAATATA-TTTGTTA-TAACTTAACTTCAAATATAT-
152116 TATAT
63 TATAT
152121 ATATATATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
73 7 0.11
74 22 0.36
75 28 0.46
76 4 0.07
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (74 bp):
TATATTTTATTTCTTTTATTAACTTACAAAATATATTTGTTATAACTTAACTTCAAATATATTAT
ATTCAACAA
Found at i:152210 original size:30 final size:30
Alignment explanation
Indices: 152176--152294 Score: 97
Period size: 30 Copynumber: 4.0 Consensus size: 30
152166 TTATTACCTT
152176 AAGTTAATA-AAAGAATAAAATATATTTTTA
1 AAGTTAATACAAA-AATAAAATATATTTTTA
* * *
152206 AAGTTAAGATAAAAATTAAATATATTTTT-
1 AAGTTAATACAAAAATAAAATATATTTTTA
*
152235 AACTTAGA-ACAAAAATAAAATATA--TTTA
1 AAGTTA-ATACAAAAATAAAATATATTTTTA
*
152263 ATGAGTAGAATA-AAAAATTAAAATATATTTTT
1 A--AGT-TAATACAAAAA-TAAAATATATTTTT
152295 TCCTTGCCAT
Statistics
Matches: 72, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
27 3 0.04
28 1 0.01
29 19 0.26
30 32 0.44
31 14 0.19
33 3 0.04
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (30 bp):
AAGTTAATACAAAAATAAAATATATTTTTA
Found at i:152249 original size:29 final size:30
Alignment explanation
Indices: 152189--152261 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
152179 TTAATAAAAG
* *
152189 AATAAAATATATTTTTAAAGTTAAGATAAA
1 AATAAAATATATTTTTAAACTTAAGACAAA
*
152219 AATTAAATATATTTTT-AACTT-AGAACAAA
1 AATAAAATATATTTTTAAACTTAAG-ACAAA
152248 AATAAAATATATTT
1 AATAAAATATATTT
152262 AATGAGTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 2 0.05
29 21 0.55
30 15 0.39
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (30 bp):
AATAAAATATATTTTTAAACTTAAGACAAA
Found at i:152642 original size:23 final size:23
Alignment explanation
Indices: 152616--152674 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
152606 ATCAAGCACA
* * *
152616 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGGCAGCGCTTAT
*
152639 ATAACGTAATAGGCAGCGCTTAT
1 ATAACATAATAGGCAGCGCTTAT
* *
152662 ATAATAAAATAGG
1 ATAACATAATAGG
152675 TTAATTATCT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.31
Consensus pattern (23 bp):
ATAACATAATAGGCAGCGCTTAT
Found at i:152818 original size:155 final size:155
Alignment explanation
Indices: 152483--152966 Score: 704
Period size: 155 Copynumber: 3.1 Consensus size: 155
152473 ATCAAATACA
*
152483 ATAACATATTAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATA
1 ATAACATAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATA
* *
152548 TTAGGTAAA-CACTAAAATGTTACCAAGATAACATAATCGATTAATTACTGGAAACATTATCAAG
66 TTAGGTAAAGC-CTAAAATGTTACCAAGATAACATAACCGATTAATTACTGG-AACATTATCAAA
*
152612 CACAATAACATATTAGGTAGCGTTTAT
129 CACAATAACATATTAGGTAGCGCTTAT
* * *
152639 ATAACGTAATAGGCAGCGCTTATATAATAAAATAGGTTAATTA-TCTAATTTGTTACTACAACAT
1 ATAACATAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACT-TAATTTGTTATTACAACAT
*
152703 ATTAGGTAAATGCCTAAAATGTTACCAAGATAACATAACCGGTTAATTACTGGAA-ATTATCAAA
65 ATTAGGTAAA-GCCTAAAATGTTACCAAGATAACATAACCGATTAATTACTGGAACATTATCAAA
*
152767 CACAATAGCATATTAGGTAGCGCTTAT
129 CACAATAACATATTAGGTAGCGCTTAT
* *
152794 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGATTAATTACTTAATTTGTTATTACAACATA
1 ATAACATAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATA
* * *
152859 TTAGGTAAACGCTTAAAATGTTATCAATGATAACATAACCGATTAATTACTGAAAACATTATCAA
66 TTAGGTAAA-GCCTAAAATGTTACCAA-GATAACATAACCGATTAATTACTG-GAACATTATCAA
* * * *
152924 TCATAATAACATATTAAGTAGTGCTTAT
128 ACACAATAACATATTAGGTAGCGCTTAT
* *
152952 GTAACAAAATAGGTA
1 ATAACATAATAGGTA
152967 ATTACTTACT
Statistics
Matches: 296, Mismatches: 25, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
155 118 0.40
156 94 0.32
157 40 0.14
158 44 0.15
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (155 bp):
ATAACATAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATA
TTAGGTAAAGCCTAAAATGTTACCAAGATAACATAACCGATTAATTACTGGAACATTATCAAACA
CAATAACATATTAGGTAGCGCTTAT
Found at i:152827 original size:23 final size:23
Alignment explanation
Indices: 152780--152828 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
152770 AATAGCATAT
**
152780 TAGGTAGCGCTTATATAACGTAA
1 TAGGTAGCGCTTATATAACAAAA
*
152803 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAACAAAA
152826 TAG
1 TAG
152829 ATTAATTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAACAAAA
Found at i:153175 original size:75 final size:72
Alignment explanation
Indices: 153035--153207 Score: 260
Period size: 75 Copynumber: 2.4 Consensus size: 72
153025 AAAATTTAAA
*
153035 CTACCTATTACATTAAAATACATACCGTTTTTTTTTAAAGGTTGTTAATAATGTAAACGGTAAAA
1 CTACCTATTACATTAAAATACATACCGTTTTTTTTTAAAGGTTGCTAATAATGTAAACGGT-AAA
153100 AAAATTGACG
65 AAAA--GACG
*
153110 CTACCTATTACATTAAAATACTTACC-TGTTTTTTTT-AAGGTTGCTAATAATGTAAACGGTAAA
1 CTACCTATTACATTAAAATACATACCGT-TTTTTTTTAAAGGTTGCTAATAATGTAAACGGTAAA
153173 AAAAGACG
65 AAAAGACG
* *
153181 CTACCTATTACATTAAACTACCTACCG
1 CTACCTATTACATTAAAATACATACCG
153208 GATATGTTGA
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
71 28 0.30
73 7 0.08
74 24 0.26
75 33 0.36
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (72 bp):
CTACCTATTACATTAAAATACATACCGTTTTTTTTTAAAGGTTGCTAATAATGTAAACGGTAAAA
AAAGACG
Found at i:153639 original size:94 final size:92
Alignment explanation
Indices: 153363--153648 Score: 464
Period size: 92 Copynumber: 3.1 Consensus size: 92
153353 TTAGTTTCAT
* * * *
153363 ACAAAACCGGTAAAAAGCTACTTGAAATGTTGAAAATATCGATACTTTATAAAAATGTATCGATA
1 ACAAAACCGGTAAAGAGCTACATGATATGTTGAAAGTATCGATACTTTATAAAAATGTATCGATA
153428 CTTTACAATATAACAGGTAAAAATATG
66 CTTTACAATATAACAGGTAAAAATATG
*
153455 ACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTATCGATACTTTATAAAAATGTATCGATA
1 ACAAAACCGGTAAAGAGCTACATGATATGTTGAAAGTATCGATACTTTATAAAAATGTATCGATA
153520 CTTTACAATATAACAGGTAAAAATATG
66 CTTTACAATATAACAGGTAAAAATATG
* * * *
153547 ATAAAACCGGTAAAGAGATACATGATATGTTGAAAGTATCGATCATTTTTATAAAAAAGTATCGA
1 ACAAAACCGGTAAAGAGCTACATGATATGTTGAAAGTATCGAT-A-CTTTATAAAAATGTATCGA
*
153612 TACTTTACAATATAATAGGTAAAAATATG
64 TACTTTACAATATAACAGGTAAAAATATG
153641 ACAAAACC
1 ACAAAACC
153649 ATTTTCATTA
Statistics
Matches: 181, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
92 128 0.71
93 1 0.01
94 52 0.29
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (92 bp):
ACAAAACCGGTAAAGAGCTACATGATATGTTGAAAGTATCGATACTTTATAAAAATGTATCGATA
CTTTACAATATAACAGGTAAAAATATG
Found at i:153688 original size:114 final size:114
Alignment explanation
Indices: 153543--153894 Score: 555
Period size: 114 Copynumber: 3.1 Consensus size: 114
153533 CAGGTAAAAA
* * * *
153543 TATGATAAAACCGGTAAAGAGATACATGATATGTTGAAAGTATCGATCATTTTTATAAAAAAGTA
1 TATGACAAAACCGGTAAAGAGCTATATGATATGTTGAAAGTATCGATCATTTTTATAAAAATGTA
* * *
153608 TCGATACTTTACAATATAATAGGTAAAAATATGACAAAACCATTTTCAT
66 TTGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCAT
*
153657 TATGACAAAACCGGTAAAGAGCTATATGATATGTTGAAAGTATCGATCCTTTTTATAAAAATGTA
1 TATGACAAAACCGGTAAAGAGCTATATGATATGTTGAAAGTATCGATCATTTTTATAAAAATGTA
*
153722 TTGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCAT
66 TTGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCAT
* * * *
153771 TATGACAAACCCGGTAAAGAGCTATCTGATATGTTGAAAGTATCAAT-A-CTTTATAAAAATGTA
1 TATGACAAAACCGGTAAAGAGCTATATGATATGTTGAAAGTATCGATCATTTTTATAAAAATGTA
* *
153834 TTAATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCAT
66 TTGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCAT
153883 TATGACAAAACC
1 TATGACAAAACC
153895 AGTTTTATTA
Statistics
Matches: 220, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
112 71 0.32
114 149 0.68
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (114 bp):
TATGACAAAACCGGTAAAGAGCTATATGATATGTTGAAAGTATCGATCATTTTTATAAAAATGTA
TTGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCAT
Found at i:153888 original size:20 final size:20
Alignment explanation
Indices: 153863--153914 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
153853 CATGTAAAAA
153863 TATGACAAAACCAGTTTCAT
1 TATGACAAAACCAGTTTCAT
*
153883 TATGACAAAACCAGTTTTAT
1 TATGACAAAACCAGTTTCAT
153903 TATGACAAAACC
1 TATGACAAAACC
153915 GGTAAAGAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (20 bp):
TATGACAAAACCAGTTTCAT
Found at i:154018 original size:134 final size:132
Alignment explanation
Indices: 153751--154031 Score: 418
Period size: 134 Copynumber: 2.1 Consensus size: 132
153741 CAGGTAAAAA
* * *
153751 TATGACAAAATCAGTTTCATTATGACAAACCCGGTAAAGAGCTATCTGATATGTTGAAAGTATCA
1 TATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTATCA
* * *
153816 ATACTTTATAAAAATGTATTAATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTC
66 ATACTTTATAAAAATGTATCAATACCTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTC
153881 AT
131 AT
* * * *
153883 TATGACAAAACCAGTTTTATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTTAAGGTATCG
1 TATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTATCA
* * *
153948 ATCATTTTTATAAAAATGTATCGATACCTTACAATATAACAGGTAAAAATATGACAAAATCAGTT
66 AT-A-CTTTATAAAAATGTATCAATACCTTACAATATAACAGGTAAAAATATGACAAAACCAGTT
154013 TCAT
129 TCAT
*
154017 TATGAAAAAACCAGT
1 TATGACAAAACCAGT
154032 AAAGAGCTGC
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
132 60 0.45
133 1 0.01
134 72 0.54
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (132 bp):
TATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTATCA
ATACTTTATAAAAATGTATCAATACCTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTC
AT
Found at i:154071 original size:246 final size:246
Alignment explanation
Indices: 153637--154138 Score: 835
Period size: 246 Copynumber: 2.0 Consensus size: 246
153627 TAGGTAAAAA
*
153637 TATGACAAAACCATTTTCATTATGACAAAACCGGTAAAGAGCTATATGATATGTTGAAAGTATCG
1 TATGACAAAACCATTTTCATTATGACAAAACCGGTAAAGAGCTACATGATATGTTGAAAGTATCG
* * *
153702 ATCCTTTTTATAAAAATGTATTGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTT
66 ATCATTTTTATAAAAATGTATCGATACCTTACAATATAACAGGTAAAAATATGACAAAATCAGTT
* * * *
153767 TCATTATGACAAACCCGGTAAAGAGCTATCTGATATGTTGAAAGTATCAATACTTTATAAAAATG
131 TCATTATGAAAAAACCAGTAAAGAGCTACCTGATATGTTGAAAGTATCAATACTTTATAAAAATG
* *
153832 TATTAATACTTTACAATATAACATGTAAAAATATGACAAAACCAGTTTCAT
196 TATCAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCAT
* * *
153883 TATGACAAAACCAGTTTT-ATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTTAAGGTATC
1 TATGACAAAACCA-TTTTCATTATGACAAAACCGGTAAAGAGCTACATGATATGTTGAAAGTATC
153947 GATCATTTTTATAAAAATGTATCGATACCTTACAATATAACAGGTAAAAATATGACAAAATCAGT
65 GATCATTTTTATAAAAATGTATCGATACCTTACAATATAACAGGTAAAAATATGACAAAATCAGT
* *
154012 TTCATTATGAAAAAACCAGTAAAGAGCTGCCTGATATGTTGAAAGTATCAATACTTTATAGAAAT
130 TTCATTATGAAAAAACCAGTAAAGAGCTACCTGATATGTTGAAAGTATCAATACTTTATAAAAAT
*
154077 GTATCAATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCAT
195 GTATCAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCAT
*
154129 TTTGACAAAA
1 TATGACAAAA
154139 TCGGTAAAGA
Statistics
Matches: 238, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
246 234 0.98
247 4 0.02
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (246 bp):
TATGACAAAACCATTTTCATTATGACAAAACCGGTAAAGAGCTACATGATATGTTGAAAGTATCG
ATCATTTTTATAAAAATGTATCGATACCTTACAATATAACAGGTAAAAATATGACAAAATCAGTT
TCATTATGAAAAAACCAGTAAAGAGCTACCTGATATGTTGAAAGTATCAATACTTTATAAAAATG
TATCAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCAT
Found at i:154080 original size:21 final size:20
Alignment explanation
Indices: 154052--154090 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
154042 CTGATATGTT
154052 GAAAGTATCAATACTTTATA
1 GAAAGTATCAATACTTTATA
154072 GAAATGTATCAATACTTTA
1 GAAA-GTATCAATACTTTA
154091 CAATATAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (20 bp):
GAAAGTATCAATACTTTATA
Found at i:154120 original size:112 final size:114
Alignment explanation
Indices: 153883--154171 Score: 429
Period size: 112 Copynumber: 2.6 Consensus size: 114
153873 CCAGTTTCAT
* * * * *
153883 TATGACAAAACCAGTTTTATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTTAAGGTATCG
1 TATGACAAAATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTATCA
* *
153948 ATCATTTTTATAAAAATGTATCGATACCTTACAATATAACAGGTAAAAA
66 ATCATCTTTATAAAAATGTATCAATACCTTACAATATAACAGGTAAAAA
* * *
153997 TATGACAAAATCAGTTTCATTATGAAAAAACCAGTAAAGAGCTGCCTGATATGTTGAAAGTATCA
1 TATGACAAAATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTATCA
* *
154062 AT-A-CTTTATAGAAATGTATCAATACTTTACAATATAACAGGTAAAAA
66 ATCATCTTTATAAAAATGTATCAATACCTTACAATATAACAGGTAAAAA
* * *
154109 TATGACAAAATCAGTTTCATTTTGACAAAATCGGTAAAGAGCTACCTAATATGTTGAAAGTAT
1 TATGACAAAATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTAT
154172 AGATATTTTT
Statistics
Matches: 157, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
112 97 0.62
113 1 0.01
114 59 0.38
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (114 bp):
TATGACAAAATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTATCA
ATCATCTTTATAAAAATGTATCAATACCTTACAATATAACAGGTAAAAA
Found at i:155177 original size:20 final size:21
Alignment explanation
Indices: 155149--155199 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
155139 TTACACCTCC
155149 TCCTAAAATTTTATAAT-T-ACT
1 TCCT-AAATTTT-TAATATAACT
155170 TCCTAAATTTTTAATATAACT
1 TCCTAAATTTTTAATATAACT
*
155191 TCTTAAATT
1 TCCTAAATT
155200 CTCATACCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 4 0.15
20 8 0.30
21 15 0.56
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (21 bp):
TCCTAAATTTTTAATATAACT
Found at i:156305 original size:24 final size:23
Alignment explanation
Indices: 156270--156315 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
156260 AAAAAATAAT
*
156270 TAAATAACTATTTATTTATTTTTA
1 TAAATAACTA-TTAATTATTTTTA
156294 TAAATTAA-TATTAATTATTTTT
1 TAAA-TAACTATTAATTATTTTT
156316 TAGGAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 6 0.30
25 3 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TAAATAACTATTAATTATTTTTA
Found at i:156963 original size:177 final size:178
Alignment explanation
Indices: 156648--157002 Score: 660
Period size: 177 Copynumber: 2.0 Consensus size: 178
156638 GTGAGCACAA
156648 TGGCCTCAACGTTTATTGCATTGCACGGGCCATCGATCGGGATAGCGCAAGTATCCACCACAAGA
1 TGGCCTCAACGTTTATTGCATTGCACGGGCCATCGATCGGGATAGCGCAAGTATCCACCACAAGA
*
156713 GCTTGATGATCTGTAGCGATGATACTAACAATAGGCATATATGGGCTTATCAGACATGCATCGAC
66 CCTTGATGATCTGTAGCGATGATACTAACAATAGGCATATATGGGCTTATCAGACATGCATCGAC
*
156778 GAATTCACGGTGATAGCATGCAGAGGATATTTTAGTTAG-ACTCGAAT
131 GAATTCACGGTGATAGCATGCAGAGGAGATTTTAGTTAGAACTCGAAT
156825 TGGCCTCAACGTTTATTGCATTGCACGGGCCATCGATCGGGATAGCGCAAGTATCCACCACAAGA
1 TGGCCTCAACGTTTATTGCATTGCACGGGCCATCGATCGGGATAGCGCAAGTATCCACCACAAGA
*
156890 CCTTGATGATCTGTAGCGATGATACTAAC-ATAGGCATATATGGGCTTATCAGACATGCATCGTC
66 CCTTGATGATCTGTAGCGATGATACTAACAATAGGCATATATGGGCTTATCAGACATGCATCGAC
156954 GACATTCACGGTGATAGCATGCAGAGGAGATTTTAGTTAGAACTCGAAT
131 GA-ATTCACGGTGATAGCATGCAGAGGAGATTTTAGTTAGAACTCGAAT
157003 CATTTGTTGG
Statistics
Matches: 173, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
176 36 0.21
177 129 0.75
178 8 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (178 bp):
TGGCCTCAACGTTTATTGCATTGCACGGGCCATCGATCGGGATAGCGCAAGTATCCACCACAAGA
CCTTGATGATCTGTAGCGATGATACTAACAATAGGCATATATGGGCTTATCAGACATGCATCGAC
GAATTCACGGTGATAGCATGCAGAGGAGATTTTAGTTAGAACTCGAAT
Found at i:164231 original size:21 final size:22
Alignment explanation
Indices: 164189--164231 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
164179 AATTCAATGA
*
164189 TTATTTGTATATATATTGAAGG
1 TTATTTGTATATATATTAAAGG
164211 TTATTTG-ATA-ATTATTAAAGG
1 TTATTTGTATATA-TATTAAAGG
164232 AAATTAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 11 0.58
22 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (22 bp):
TTATTTGTATATATATTAAAGG
Found at i:164824 original size:21 final size:21
Alignment explanation
Indices: 164798--164842 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
164788 GATTTATGGG
* *
164798 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
164819 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
164840 CAA
1 CAA
164843 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:166342 original size:32 final size:31
Alignment explanation
Indices: 166300--166378 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
166290 AGAGTCGAGG
166300 GTTTACCTATGTTCTACG-GAACATATGGACA
1 GTTTACCTATGTTCTACGAG-ACATATGGACA
*
166331 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTC-TACGAGACATATGGACA
* *
166363 GTATATCTATGTTCTA
1 GTTTACCTATGTTCTA
166379 TATCTATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
31 12 0.30
32 27 0.68
33 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGAGACATATGGACA
Found at i:166382 original size:13 final size:13
Alignment explanation
Indices: 166364--166391 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
166354 ATATGGACAG
166364 TATATCTATGTTC
1 TATATCTATGTTC
166377 TATATCTATGTTC
1 TATATCTATGTTC
166390 TA
1 TA
166392 AGGAACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (13 bp):
TATATCTATGTTC
Found at i:166460 original size:30 final size:30
Alignment explanation
Indices: 166426--166498 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
166416 GGTTCTTCGG
*
166426 GACCTATGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
166456 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
166486 GACCTCTGGATAG
1 GACCTCTGGATAG
166499 GTCCTTCGGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:168013 original size:182 final size:184
Alignment explanation
Indices: 167702--168086 Score: 638
Period size: 182 Copynumber: 2.1 Consensus size: 184
167692 TTTTCTAATT
* *
167702 TATATAA-A-ATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATAAATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTAGAATTAATTTAAATAATAAATAAT
*
167765 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
**
167830 GGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTT-AGCCCATATGTTA
131 GGATCTTAAATTATTAATTGGGTTTTAAATAATTTGGG-TTGAGCCCATATGTTA
*
167884 TATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTAGAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTAGAATTAATTTAAATAATAAATAA
*
167948 TTATAAAATAAAAAATTTATAT-AA-TTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
*
168011 TGGATCTTAAATTATTAATTGGGTTTTTAATAATTTGGGTTGAGCCCATATGTTA
130 TGGATCTTAAATTATTAATTGGGTTTTAAATAATTTGGGTTGAGCCCATATGTTA
168066 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
168087 AAAATTTAAT
Statistics
Matches: 191, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
181 2 0.01
182 116 0.61
183 9 0.05
184 64 0.34
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTAGAATTAATTTAAATAATAAATAAT
TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
GGATCTTAAATTATTAATTGGGTTTTAAATAATTTGGGTTGAGCCCATATGTTA
Found at i:168237 original size:27 final size:29
Alignment explanation
Indices: 168179--168253 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 29
168169 CCGTTAACCG
168179 ACCGAACTAATTCGGTAATCGAACCGAATTA
1 ACCGAACTAATTCGGT--TCGAACCGAATTA
* *
168210 ACCGAACTAATTCGGTTCG-ATC-AGTTA
1 ACCGAACTAATTCGGTTCGAACCGAATTA
*
168237 ACCGAATTAATTCGGTT
1 ACCGAACTAATTCGGTT
168254 ATTTGAACAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 20 0.49
28 2 0.05
29 3 0.07
31 16 0.39
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (29 bp):
ACCGAACTAATTCGGTTCGAACCGAATTA
Found at i:168849 original size:125 final size:125
Alignment explanation
Indices: 168625--168884 Score: 439
Period size: 125 Copynumber: 2.1 Consensus size: 125
168615 AAGTTGGTAT
*
168625 CGGTTTTGTTATTGTTGTGCATAACAAAACCAGTAAAAATTACCGAAAACATCATTATTTCTATC
1 CGGTTTTGTTATTGTTGTGCATAACAAAACCAGTAAAAATTACCGAAAACATCATTATTTCTACC
* *
168690 TCTTTTGTTATTATTTTGGTATTTTACCGAGTTTCTTAACAAAACCGGTAAAAGCGCTAC
66 GCTTTTGTTATTATTTTGGCATTTTACCGAGTTTCTTAACAAAACCGGTAAAAGCGCTAC
* *
168750 CGGTTTTGTTATTGTTGTGTATAACAAAACCGGTAAAAATTACCGAAAACATCATTATTTCTACC
1 CGGTTTTGTTATTGTTGTGCATAACAAAACCAGTAAAAATTACCGAAAACATCATTATTTCTACC
* * *
168815 GGTTTTGTTATTATTTTGGCATTTTATCGGGTTTCTTAACAAAACCGGTAAAAGCGCTAC
66 GCTTTTGTTATTATTTTGGCATTTTACCGAGTTTCTTAACAAAACCGGTAAAAGCGCTAC
*
168875 CGATTTTGTT
1 CGGTTTTGTT
168885 TTTTTTTACC
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 126 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (125 bp):
CGGTTTTGTTATTGTTGTGCATAACAAAACCAGTAAAAATTACCGAAAACATCATTATTTCTACC
GCTTTTGTTATTATTTTGGCATTTTACCGAGTTTCTTAACAAAACCGGTAAAAGCGCTAC
Found at i:169180 original size:20 final size:20
Alignment explanation
Indices: 169155--169194 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
169145 ACATCGAAGC
169155 CAATTATTATAAAGTAATAG
1 CAATTATTATAAAGTAATAG
169175 CAATTATTATAAAGTAATAG
1 CAATTATTATAAAGTAATAG
169195 GTAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (20 bp):
CAATTATTATAAAGTAATAG
Found at i:169708 original size:197 final size:200
Alignment explanation
Indices: 169235--169758 Score: 643
Period size: 200 Copynumber: 2.6 Consensus size: 200
169225 GTAAACATAT
*
169235 GTGTCGATACATCT-TCTAAAAGTATCGA-CCCTAAAAACATCGAAACCGATAATTATAATGTAA
1 GTGTCGATACATTTATC-AAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* * * * * * * * *
169298 TAGGTAAATTTACAATATAACTGGTATAAATATACCAGTTTTATGATAGAATATGTCAATATAAT
64 TAGGTAAATTTACAATGTATCCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAAA
* *
169363 GTATCGACACAAATTTAAAAAATGTCGATACATTTTGTCCAGAATGAATGTCAAACGAGGTGCAC
129 ATATCGACACAAATTTAAAAAATGTCAATACATTTTGTCCAGAATGAATGTCAAACGAGGTGCAC
169428 GCATAAA
194 GCATAAA
* * *
169435 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCAAAACCGATAATTACAATGTAATA
1 GTGTCGATACATTTATCAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
169500 GGTAAATTTACAATGTATCCAGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAAAAT
66 GGTAAATTTACAATGTATCCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAAAAT
** **** * *
169565 ATCGACAC-GTTTTAAGTTTGTGTTAATAC-TTTT-TCCAGAATGAATG-CTTAACGAGGTGCAC
131 ATCGACACAAATTTAA-AAAATGTCAATACATTTTGTCCAGAATGAATGTC-AAACGAGGTGCAC
169626 GCATAAA
194 GCATAAA
** *
169633 GTGTCGATACATTTA-CAATTGTATCGATCCCAAAAATATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATCAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
169697 GGTAAATTTACAATGT-TACCGGTATAAATATACCGG-TTTAGTTAGAAAATATGTCAATATAA
66 GGTAAATTTACAATGTAT-CCGGTATAAATATACCGGTTTTA-TGAGAAAATAGGTCAACATAA
169759 GTGCTACCTA
Statistics
Matches: 280, Mismatches: 38, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
196 5 0.02
197 93 0.33
198 47 0.17
199 9 0.03
200 122 0.44
201 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (200 bp):
GTGTCGATACATTTATCAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTATCCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAAAAT
ATCGACACAAATTTAAAAAATGTCAATACATTTTGTCCAGAATGAATGTCAAACGAGGTGCACGC
ATAAA
Found at i:169800 original size:23 final size:23
Alignment explanation
Indices: 169744--169800 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
169734 TTAGTTAGAA
* *
169744 AATATGTCAATATAAGTGCTACCT
1 AATATGT-TATATAAGCGCTACCT
* **
169768 ATTACATTATATAAGCGCTACCT
1 AATATGTTATATAAGCGCTACCT
169791 AATATGTTAT
1 AATATGTTAT
169801 TGTACTTGAT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (23 bp):
AATATGTTATATAAGCGCTACCT
Found at i:169852 original size:87 final size:87
Alignment explanation
Indices: 169753--169915 Score: 308
Period size: 87 Copynumber: 1.9 Consensus size: 87
169743 AAATATGTCA
*
169753 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
169818 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
*
169840 ATATAAGCGCTACTTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
169905 CCGGTTAAATG
66 CCGGTTAAATG
169916 ATATAACATA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:169887 original size:23 final size:23
Alignment explanation
Indices: 169837--169881 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
169827 TGCCTATTTT
* *
169837 ATTATATAAGCGCTACTTATTAC
1 ATTATATAAGCGCTACCTAATAC
169860 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
169882 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:176482 original size:6 final size:7
Alignment explanation
Indices: 176465--176493 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
176455 TTTTAATGAT
176465 TTTTTAA
1 TTTTTAA
176472 TTTTTAA
1 TTTTTAA
176479 TTTTTAA
1 TTTTTAA
176486 -TTTTAA
1 TTTTTAA
176492 TT
1 TT
176494 AAACATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTAA
Found at i:184042 original size:41 final size:39
Alignment explanation
Indices: 183940--184173 Score: 139
Period size: 41 Copynumber: 5.7 Consensus size: 39
183930 TACATATAAG
183940 TACTTTAGTGGCGTTTTTAAACAAACGCCGCCAAAAAATC
1 TACTTTAGTGGCGTTTTTAAACAAACGCCG-CAAAAAATC
* * * *
183980 TACTTTAATAGTGTTTCTAAACAAACGCCGCAAAAGAATC
1 TACTTTAGTGGCGTTTTTAAACAAACGCCGCAAAA-AATC
* * * ** *
184020 ATTCTTTAGTGGCATTTTTAAACAAACTCCGCAATAGGGTATA
1 -TACTTTAGTGGCGTTTTTAAACAAACGCCGCAA-A--AAATC
* * * ** *
184063 TA-TATT-GTGGCGTTTTTAGACAAACGCCTCTACAACCTAG
1 TACT-TTAGTGGCGTTTTTAAACAAACGCCGC-AAAAAAT-C
* * * * *
184103 TACTATAGTGGCGTTTCTAAACAAACACCGTAAAAAAATTG
1 TACTTTAGTGGCGTTTTTAAACAAACGCCG-CAAAAAA-TC
* *
184144 TTCTTTAGTAGCGTTTTTGAAACAAACGCC
1 TACTTTAGTGGCGTTTTT-AAACAAACGCC
184174 ACAATAGTTT
Statistics
Matches: 143, Mismatches: 38, Indels: 24
0.70 0.19 0.12
Matches are distributed among these distances:
39 6 0.04
40 33 0.23
41 86 0.60
42 16 0.11
43 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (39 bp):
TACTTTAGTGGCGTTTTTAAACAAACGCCGCAAAAAATC
Found at i:186143 original size:42 final size:42
Alignment explanation
Indices: 186096--186208 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
186086 TTTTTCAAAA
* * * *
186096 TTTCGTGTTTGTTTCATGTAATTTGTTTTTTGAAAAATGTTT
1 TTTCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTT
*
186138 TTTCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATTT
1 TTTCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTT
* *
186180 TTCCGTGTTTATTTCACGTAATTCGTTTT
1 TTTCGTGTTTGTTTCACGTAATTCGTTTT
186209 CCGGAACGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.56
Consensus pattern (42 bp):
TTTCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTT
Found at i:186546 original size:18 final size:18
Alignment explanation
Indices: 186525--186562 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
186515 TTATATTTTT
186525 ATTTTATAATATA-TAATA
1 ATTTT-TAATATATTAATA
*
186543 ATTTTTTATATATTAATA
1 ATTTTTAATATATTAATA
186561 AT
1 AT
186563 GAATAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTTAATATATTAATA
Found at i:186561 original size:28 final size:26
Alignment explanation
Indices: 186531--186582 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
186521 TTTTATTTTA
*
186531 TAATATAT-AATAAT-TTTTTATATAT
1 TAATA-ATGAATAATATTATTATATAT
186556 TAATAATGAATAATATTATTATATAT
1 TAATAATGAATAATATTATTATATAT
186582 T
1 T
186583 TAAAACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 2 0.08
25 11 0.46
26 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TAATAATGAATAATATTATTATATAT
Found at i:186615 original size:23 final size:23
Alignment explanation
Indices: 186576--186639 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
186566 TAATATTATT
*
186576 ATATATTTAAAACATATACTAGTAA
1 ATATATTT-AAA-ATATACTAATAA
*
186601 ATATATTTAAAATATACTAATTA
1 ATATATTTAAAATATACTAATAA
*
186624 ATATTTTTAAAATATA
1 ATATATTTAAAATATA
186640 ATATAACACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 25 0.69
24 3 0.08
25 8 0.22
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATATTTAAAATATACTAATAA
Done.