Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold179
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: 2991183
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.31
Warning! 65816 characters in sequence are not A, C, G, or T
File 1 of 18
Found at i:397 original size:20 final size:20
Alignment explanation
Indices: 359--398 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
349 TTTCAAATTT
359 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
380 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
399 TATCAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:1362 original size:13 final size:13
Alignment explanation
Indices: 1344--1368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1334 CATAAAATGT
1344 TGTATCGATACAA
1 TGTATCGATACAA
1357 TGTATCGATACA
1 TGTATCGATACA
1369 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1366 original size:33 final size:32
Alignment explanation
Indices: 1325--1390 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
1315 TTCAACGATT
1325 TGTACGATACATAAAATGTTGTATCGATACAA
1 TGTACGATACATAAAATGTTGTATCGATACAA
*** *
1357 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTA-CGATACATAAAATGTTGTATCGATACAA
1390 T
1 T
1391 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (32 bp):
TGTACGATACATAAAATGTTGTATCGATACAA
Found at i:1451 original size:13 final size:13
Alignment explanation
Indices: 1433--1457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1423 ATTACTCACA
1433 TGTATCGATACAT
1 TGTATCGATACAT
1446 TGTATCGATACA
1 TGTATCGATACA
1458 CTGATCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1530 original size:51 final size:53
Alignment explanation
Indices: 1467--1588 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 53
1457 ACTGATCTTT
*
1467 TGTATCGATACATGCAGGCAAATTTG-CCCAGATGTATCGATACATTA-TAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCCAGATGTATCGATACACTATTAAA
*
1518 TGTATCGATACATGCAGGCAAATTTGCCCCAGATGTATCGCTACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCCAGATGTATCGATACACTATTAAA
1571 TGTTATCGATACATGCAG
1 TG-TATCGATACATGCAG
1589 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 26 0.39
52 19 0.29
53 6 0.09
54 15 0.23
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (53 bp):
TGTATCGATACATGCAGGCAAATTTGCCCCAGATGTATCGATACACTATTAAA
Found at i:9435 original size:10 final size:10
Alignment explanation
Indices: 9420--9446 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9410 TGCTAACTAA
9420 GTTTTTGTTT
1 GTTTTTGTTT
9430 GTTTTTGTTT
1 GTTTTTGTTT
9440 GTTTTTG
1 GTTTTTG
9447 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:19144 original size:1 final size:1
Alignment explanation
Indices: 19138--19238 Score: 67
Period size: 1 Copynumber: 101.0 Consensus size: 1
19128 GGCGTCCTCC
** ** ** * * *
19138 AAAAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAACAAAAAAACAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
19203 CAAAAACAATAAAAAAACAAACAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19239 GGGGTCCGGA
Statistics
Matches: 74, Mismatches: 26, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:19178 original size:21 final size:19
Alignment explanation
Indices: 19138--19238 Score: 97
Period size: 21 Copynumber: 5.3 Consensus size: 19
19128 GGCGTCCTCC
19138 AAAAAAAAA-AAAAACGAAA
1 AAAAAAAAACAAAAAC-AAA
19157 AAAATGAAAAACCAAAAA-AAA
1 AAAA--AAAAA-CAAAAACAAA
19178 AACAAAAAAAC-AAAAC---
1 AA-AAAAAAACAAAAACAAA
19194 AAAAAAAAACAAAAACAATA
1 AAAAAAAAACAAAAACAA-A
19214 AAAAAACAAACAAAAACAAA
1 AAAAAA-AAACAAAAACAAA
19234 AAAAA
1 AAAAA
19239 GGGGTCCGGA
Statistics
Matches: 70, Mismatches: 0, Indels: 23
0.75 0.00 0.25
Matches are distributed among these distances:
15 8 0.11
16 7 0.10
18 4 0.06
19 5 0.07
20 17 0.24
21 22 0.31
22 2 0.03
23 5 0.07
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACAAAAACAAA
Found at i:19184 original size:27 final size:24
Alignment explanation
Indices: 19138--19237 Score: 105
Period size: 27 Copynumber: 4.0 Consensus size: 24
19128 GGCGTCCTCC
19138 AAAAA-AAAAAAAAACGAAAAAAAT
1 AAAAACAAAAAAAAAC-AAAAAAAT
19162 GAAAAACCAAAAAAAAAACAAAAAAA-
1 -AAAAA-C-AAAAAAAAACAAAAAAAT
*
19188 CAAAACAAAAAAAAACAAAAACAAT
1 AAAAACAAAAAAAAACAAAAA-AAT
*
19213 AAAAAAACAAACAAAAACAAAAAAA
1 --AAAAACAAAAAAAAACAAAAAAA
19238 AGGGGTCCGG
Statistics
Matches: 65, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
23 15 0.23
24 3 0.05
25 9 0.14
26 2 0.03
27 26 0.40
28 10 0.15
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (24 bp):
AAAAACAAAAAAAAACAAAAAAAT
Found at i:19199 original size:32 final size:29
Alignment explanation
Indices: 19137--19238 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 29
19127 CGGCGTCCTC
*
19137 CAAAAAAAAAAAAAACGAAA-AAAATGAAAAA
1 CAAAAAAAAAAAAAA--AAACAAAA-CAAAAA
19168 CCAAAAAAAAAACAAAAAAACAAAACAAAAA
1 -CAAAAAAAAAA-AAAAAAACAAAACAAAAA
*
19199 AAAACAAAAACAATAAAAAAAC-AAACAAAAA
1 CAAA-AAAAA-AA-AAAAAAACAAAACAAAAA
19230 CAAAAAAAA
1 CAAAAAAAA
19239 GGGGTCCGGA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
30 8 0.13
31 25 0.40
32 25 0.40
33 4 0.06
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (29 bp):
CAAAAAAAAAAAAAAAAACAAAACAAAAA
Found at i:19199 original size:41 final size:41
Alignment explanation
Indices: 19139--19238 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
19129 GCGTCCTCCA
* * **
19139 AAAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAC
1 AAAAAAAACAAAACAAAAAAAAACAAAAA-CAAAAAAAAAAC
*
19181 -AAAAAAACAAAACAAAAAAAAACAAAAACAATAAAAAAAC
1 AAAAAAAACAAAACAAAAAAAAACAAAAACAAAAAAAAAAC
19221 AAACAAAAACAAAA-AAAA
1 AAA-AAAAACAAAACAAAA
19239 GGGGTCCGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 11 0.22
41 30 0.59
42 10 0.20
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (41 bp):
AAAAAAAACAAAACAAAAAAAAACAAAAACAAAAAAAAAAC
Found at i:19238 original size:51 final size:51
Alignment explanation
Indices: 19137--19237 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
19127 CGGCGTCCTC
* *
19137 CAAAAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAACAAAAAAA
1 CAAAAAAAAAAAAAACGAAAAAAATAAAAAAACAAAAAAAAAACAAAAAAA
* *
19188 CAAAACAAAAAAAAAC-AAAAACAATAAAAAAAC-AAACAAAAACAAAAAAA
1 CAAAAAAAAAAAAAACGAAAAA-AATAAAAAAACAAAAAAAAAACAAAAAAA
19238 AGGGGTCCGG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 21 0.47
51 24 0.53
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (51 bp):
CAAAAAAAAAAAAAACGAAAAAAATAAAAAAACAAAAAAAAAACAAAAAAA
Found at i:20739 original size:30 final size:29
Alignment explanation
Indices: 20680--21133 Score: 258
Period size: 30 Copynumber: 15.3 Consensus size: 29
20670 TCACCCTTCA
*
20680 AAAGTCCACAAGTCAGTGGCATTTTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA---TTTTTTTC
*
20712 AAAGCCCACAAGTCGGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
***
20741 GAAAGCCCACAAGTCAGTGGCA--ACCTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
* ** *
20769 AAAGCCCACAAGTTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TTTTTTTC
* * * * *
20799 GAAGCCCACAAGTCGGCGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
* * * *
20828 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCA-----TTT-TTTTC
* * * * * * *
20863 TAAGCTCATAACTCTA-TAGCACTCTTTTC
1 AAAGCCCACAAGTC-AGTGGCATTTTTTTC
* ***
20892 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
*
20919 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
*** *
20949 AAAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
* *** *
20978 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
* *
21007 AAAAGCCCATAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
*
21037 AAAGCCCACAAGTCGGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
***
21066 GAAAGCCCACAAGTCAGTGGCA--ACCTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
* ** *
21094 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TTTTTTTC
21124 AAAGCCCACA
1 AAAGCCCACA
21134 CAAGTCGGTG
Statistics
Matches: 332, Mismatches: 69, Indels: 44
0.75 0.16 0.10
Matches are distributed among these distances:
26 1 0.00
27 59 0.18
28 26 0.08
29 68 0.20
30 140 0.42
32 19 0.06
34 2 0.01
35 17 0.05
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTC
Found at i:20781 original size:57 final size:57
Alignment explanation
Indices: 20709--21133 Score: 202
Period size: 57 Copynumber: 7.2 Consensus size: 57
20699 CATTTTTTTT
* *
20709 TTCAAAGCCCACAAGTCGGTGGCATTTTTTTCGAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAGCCCACAAGTCAGTGGCATATTTTTCGAAAGCCCACAAGTCAGTGGCAACC
* ** * * * * *
20766 TTCAAAGCCCACAAGTTAGTGGCACCCTTTTCCG-AAGCCCACAAGTCGGCGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TATTTTTCGAAAGCCCACAAGTCAGTGGCAAC-C
* * * * * * * * *
20824 TTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCATAACTCTA-TAGC-ACTC
1 TT-CAAAGCCCACAAGTCAGTGGCA-TATTTTTC----GAAAGCCCACAAGTC-AGTGGCAAC-C
*** * *** * **
20887 TTTTCAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAGCCCACAAGTCAGTGGCATATTTTTCGAAAGCCCACAAGTCAGTGGCA-A-CC
** * * *
20946 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTT-AAAAGCCCACAAGTTAGTGGCACCC
1 TTC-AAAGCCCACAAGTCAGTGGCATATTTTTCGAAAGCCCACAAGTCAGTGGCAACC
* * ***
21002 TGTTCAAAAGCCCATAAGTCAGTGGCATATTTTTC-AAAGCCCACAAGTCGGTGGCATTTTT
1 --TTC-AAAGCCCACAAGTCAGTGGCATATTTTTCGAAAGCCCACAAGTCAGTGGCA--ACC
** * *
21063 TTCGAAAGCCCACAAGTCAGTGGCA-A-CCTTC-AAAGCCCACAAATCAGTGGCACCC
1 TTC-AAAGCCCACAAGTCAGTGGCATATTTTTCGAAAGCCCACAAGTCAGTGGCAACC
21118 TTTTCCAAAGCCCACA
1 --TT-CAAAGCCCACA
21134 CAAGTCGGTG
Statistics
Matches: 278, Mismatches: 67, Indels: 46
0.71 0.17 0.12
Matches are distributed among these distances:
56 1 0.00
57 88 0.32
58 55 0.20
59 78 0.28
60 18 0.06
61 6 0.02
62 15 0.05
63 5 0.02
64 12 0.04
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCATATTTTTCGAAAGCCCACAAGTCAGTGGCAACC
Found at i:20997 original size:88 final size:87
Alignment explanation
Indices: 20892--21149 Score: 324
Period size: 88 Copynumber: 2.9 Consensus size: 87
20882 CACTCTTTTC
20892 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCC-TTTCAAAAGCCCACAAGTCAGTGGCATATTTTTC-AAAGCCC
*
20957 ACAAGTCAGTGGCAACCTTT-AAA
64 ACAAGTCGGTGGCAACCTTTCAAA
*
20980 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCATAAGTCAGTGGCATATTTTTCAAAGCCCA
1 AGCCCACAAGTTAGTGGCACCCT-TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAGCCCA
*** *
21045 CAAGTCGGTGGCATTTTTTTCGAA
65 CAAGTCGGTGGCA-ACCTTTCAAA
* * * ** *
21069 AGCCCACAAGTCAGTGGCAACC-TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCA
1 AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCA-TATTTTTCAAAG-CC-
21132 CACAAGTCGGTGGCAACC
63 CACAAGTCGGTGGCAACC
21150 CTTCTAAGCC
Statistics
Matches: 148, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
86 19 0.13
87 33 0.22
88 59 0.40
89 37 0.25
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (87 bp):
AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAGCCCAC
AAGTCGGTGGCAACCTTTCAAA
Found at i:21058 original size:117 final size:117
Alignment explanation
Indices: 20914--21131 Score: 348
Period size: 117 Copynumber: 1.9 Consensus size: 117
20904 AGTGGCACCC
20914 TTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAA
1 TTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTAA
* *
20979 AAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCATAAGTCAGTGGCATAT
65 AAGCCCACAAATCAGTGGCACCCTGTTCAAAAGCCCATAAGTCAGTGGCATAT
* * * *
21032 TTTTC-AAAGCCCACAAGTCGGTGGCATTTTTTTCGAAAGCCCACAAGTCAGTGGCAACCTTCAA
1 TTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTAAA
* *
21096 AGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCA
66 AGCCCACAAATCAGTGGCACCCTGTTCAAAAGCCCA
21132 CACAAGTCGG
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
116 36 0.39
117 51 0.55
118 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (117 bp):
TTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTAAA
AGCCCACAAATCAGTGGCACCCTGTTCAAAAGCCCATAAGTCAGTGGCATAT
Found at i:21138 original size:59 final size:57
Alignment explanation
Indices: 20892--21161 Score: 279
Period size: 59 Copynumber: 4.6 Consensus size: 57
20882 CACTCTTTTC
* * ***
20892 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* * *
20952 AGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAA
1 AGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* ** * *** *
21010 AGCCCATAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCGGTGGCATTTTTTTCGAA
1 AGCCCACAAGTCAGTGGCA-A-CCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* *
21069 AGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAA
1 AGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* *
21126 AGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
1 AG-CC-CACAAGTCAGTGGCAA-CCTTCAAAGCCCA
21162 ATATAGCTGG
Statistics
Matches: 175, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
57 31 0.18
58 48 0.27
59 64 0.37
60 32 0.18
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (57 bp):
AGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
Found at i:21159 original size:30 final size:30
Alignment explanation
Indices: 20896--21161 Score: 118
Period size: 30 Copynumber: 9.0 Consensus size: 30
20886 CTTTTCAGCC
*
20896 CACAAGTTAGTGGC-ACCCTTTTCAAAAG-CC-
1 CACAAGTCAGTGGCAACCC--TTC-AAAGCCCA
***
20926 CACAAGTCAGTGGCATATTTTTCAAAAG-CC-
1 CACAAGTCAGTGGCA-ACCCTTC-AAAGCCCA
* *
20956 CACAAGTCAGTGGCAACCTTTAAAAG-CC-
1 CACAAGTCAGTGGCAACCCTTCAAAGCCCA
*
20984 CACAAGTTAGTGGC-ACCCTGTTCAAAAG-CC-
1 CACAAGTCAGTGGCAACCC--TTC-AAAGCCCA
* ***
21014 CATAAGTCAGTGGCATATTTTTCAAAG-CC-
1 CACAAGTCAGTGGCA-ACCCTTCAAAGCCCA
* ****
21043 CACAAGTCGGTGGCATTTTTTTCGAAAG-CC-
1 CACAAGTCAGTGGCA-ACCCTTC-AAAGCCCA
21073 CACAAGTCAGTGGCAA-CCTTCAAAGCCCA
1 CACAAGTCAGTGGCAACCCTTCAAAGCCCA
21102 CA-AA-TCAGTGGC-ACCCTTTTCCAAAGCCCA
1 CACAAGTCAGTGGCAACCC--TT-CAAAGCCCA
* *
21132 CACAAGTCGGTGGCAACCCTTCTAAGCCCA
1 CACAAGTCAGTGGCAACCCTTCAAAGCCCA
21162 ATATAGCTGG
Statistics
Matches: 195, Mismatches: 24, Indels: 34
0.77 0.09 0.13
Matches are distributed among these distances:
26 1 0.01
27 17 0.09
28 26 0.13
29 36 0.18
30 98 0.50
31 4 0.02
32 9 0.05
33 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (30 bp):
CACAAGTCAGTGGCAACCCTTCAAAGCCCA
Found at i:21159 original size:117 final size:117
Alignment explanation
Indices: 20892--21161 Score: 332
Period size: 117 Copynumber: 2.3 Consensus size: 117
20882 CACTCTTTTC
*
20892 AGCCCACAAGTTAGTGGC--ACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGC
1 AGCCCACAAGTCAGTGGCATACCC--TTC-AAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGC
* *
20955 CCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAA
63 CCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTGTTCAAA
* *** * * *
21010 AGCCCATAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCGGTGGCATTTTTTTCGAAAGCCCA
1 AGCCCACAAGTCAGTGGCATACCCTTCAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
* * *
21075 CAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTTTTCCAA
66 CAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTGTTCAAA
* *
21126 AGCCCACACAAGTCGGTGGCA-ACCCTTCTAAGCCCA
1 AG-CC-CACAAGTCAGTGGCATACCCTTCAAAGCCCA
21162 ATATAGCTGG
Statistics
Matches: 129, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
116 32 0.25
117 64 0.50
118 32 0.25
120 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (117 bp):
AGCCCACAAGTCAGTGGCATACCCTTCAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
CAAGTCAGTGGCAACCTTTAAAAGCCCACAAATCAGTGGCACCCTGTTCAAA
Found at i:21216 original size:49 final size:49
Alignment explanation
Indices: 21154--21391 Score: 308
Period size: 49 Copynumber: 4.9 Consensus size: 49
21144 GCAACCCTTC
* *
21154 TAAGCCCAATATAGCTGGCCTTGAATCACCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
21203 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
21252 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
21295 TAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTT
* * * *
21347 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTT
21392 TTCTCATCTT
Statistics
Matches: 167, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
43 40 0.24
44 1 0.01
48 1 0.01
49 83 0.50
52 40 0.24
53 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:21307 original size:43 final size:43
Alignment explanation
Indices: 21246--21338 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
21236 TTGGCACCTT
21246 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
* *
21289 CACCTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
21332 CACCTTT
1 CACCTTT
21339 TCCATCTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG
Found at i:21328 original size:92 final size:95
Alignment explanation
Indices: 21200--21391 Score: 309
Period size: 92 Copynumber: 2.0 Consensus size: 95
21190 GCACCTTTAT
21200 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT-CACCTTTAAGTCCAATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
*
21263 TAGCTGGCCTTGAATCAGCACATTGGCA-C
66 TAGCTGGCCTTGAATCAGCACATTGACATC
* * *
21292 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCACCTTTAAGTCCAAT
*
21357 GTAGCTGGCCTTGAATCAGCACATTGACATC
65 ATAGCTGGCCTTGAATCAGCACATTGACATC
21388 CTTT
1 CTTT
21392 TTCTCATCTT
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
92 43 0.47
94 2 0.02
95 41 0.45
96 5 0.05
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (95 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCACCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCACATTGACATC
Found at i:21370 original size:52 final size:55
Alignment explanation
Indices: 21292--21403 Score: 160
Period size: 52 Copynumber: 2.1 Consensus size: 55
21282 ACATTGGCAC
* *
21292 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
*
21344 CTTTAAGT-TCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCT-AATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
21399 CTTTA
1 CTTTA
21404 TGCCCAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
51 1 0.02
52 37 0.70
53 2 0.04
54 5 0.09
55 8 0.15
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (55 bp):
CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:21427 original size:55 final size:52
Alignment explanation
Indices: 21292--21428 Score: 148
Period size: 52 Copynumber: 2.6 Consensus size: 52
21282 ACATTGGCAC
* * * *
21292 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
** *
21344 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CAT
* * * *
21399 CTTTATGCCCAATATCGTTGGCCGTGAATC
1 CTTTAAGCCCAATATAGCTGGCCTTGAATC
21429 GACATATTGG
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
52 37 0.53
53 2 0.03
54 5 0.07
55 26 0.37
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
Found at i:25206 original size:52 final size:52
Alignment explanation
Indices: 25128--25255 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
25118 CGAAATATGA
* * *
25128 AAATTTACCTGCATGTATCGATACA-TTTAATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
25180 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
25232 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
25256 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 21 0.29
52 46 0.64
53 5 0.07
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:25268 original size:51 final size:50
Alignment explanation
Indices: 25128--25275 Score: 176
Period size: 52 Copynumber: 2.9 Consensus size: 50
25118 CGAAATATGA
* * *
25128 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGC
25180 AAATTTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGC
25232 AAA-TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
25276 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.38
52 45 0.52
53 1 0.01
54 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGC
Found at i:25282 original size:13 final size:13
Alignment explanation
Indices: 25264--25288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25254 CAAAGATCAG
25264 TGTATCGATACAA
1 TGTATCGATACAA
25277 TGTATCGATACA
1 TGTATCGATACA
25289 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:25366 original size:33 final size:33
Alignment explanation
Indices: 25329--25395 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
25319 AATAGCTTAA
25329 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
25362 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
25395 A
1 A
25396 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:25369 original size:13 final size:13
Alignment explanation
Indices: 25351--25375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25341 CAAAAAAATA
25351 TGTATCGATACAT
1 TGTATCGATACAT
25364 TGTATCGATACA
1 TGTATCGATACA
25376 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:26262 original size:56 final size:52
Alignment explanation
Indices: 26178--26811 Score: 579
Period size: 49 Copynumber: 12.8 Consensus size: 52
26168 GAAAAGTGAT
* * * * * *
26178 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG--G-A
* * * *
26233 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
26286 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
26329 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
26379 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
26427 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG-TTG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* *
26476 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
26524 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * * *
26573 -ATGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--A-ATGGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
26621 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
*
26670 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-ATGGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * * *
26719 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
* * *
26769 -AAGGTGCCAATATGCTGATTCAGGGCTAGCTATATTGGGCTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
26812 GAAGGGTTGC
Statistics
Matches: 507, Mismatches: 48, Indels: 54
0.83 0.08 0.09
Matches are distributed among these distances:
43 37 0.07
44 1 0.00
46 5 0.01
47 3 0.01
48 92 0.18
49 283 0.56
51 4 0.01
52 35 0.07
53 6 0.01
54 1 0.00
55 4 0.01
56 36 0.07
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGA
Found at i:26451 original size:49 final size:49
Alignment explanation
Indices: 26242--26811 Score: 814
Period size: 49 Copynumber: 11.7 Consensus size: 49
26232 AAAAGGATGT
*
26242 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
26294 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
26337 CAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
26385 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
26434 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGTTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
26482 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
26531 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
26580 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
26629 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
26678 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
26727 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
26776 CAATATGCTGATTCAGGGCTAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
26812 GAAGGGTTGC
Statistics
Matches: 462, Mismatches: 48, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
43 38 0.08
48 93 0.20
49 300 0.65
52 31 0.07
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:26927 original size:34 final size:33
Alignment explanation
Indices: 26811--26984 Score: 296
Period size: 33 Copynumber: 5.2 Consensus size: 33
26801 TATTGGGCTT
26811 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
26844 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
26877 AGGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 A-GAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
26910 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
*
26944 AGAAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AG-AAGGGTTGCCACCGACTTGTGTGGGCTTTAG
26978 AGAAGGG
1 AGAAGGG
26985 AGAAAGATGC
Statistics
Matches: 134, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
32 3 0.02
33 68 0.51
34 59 0.44
35 4 0.03
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:27018 original size:34 final size:34
Alignment explanation
Indices: 26966--27697 Score: 662
Period size: 34 Copynumber: 21.9 Consensus size: 34
26956 CACCGACTTG
*
26966 TGTGGGCTTTAGAGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA-A-AA-GGAAAAAGATGCCACGGAGT
* *
27003 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGATT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
*
27038 TGTGGGCTTTAAAAGAAAAAAG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
27071 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGA-TGCCACGGAGT
*
27108 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGATGCCACGGAGT
* *
27142 TGTGGGCTTT--AA--AAAGAG-TGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
27171 CGTGGGCTTTGAAAA-GAAGAAAG-TGCCACAGAGT
1 TGTGGGCTTT-AAAAGGAA-AAAGATGCCACGGAGT
27205 TGTGGGCTTT-AAA-G----AG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
27232 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAGA-TGCCACGGAGT
*
27269 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGATGCCACGGAGT
*
27303 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGA-TGCCACGGAGT
* *
27340 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGATGCCACGGAGT
27374 TGTGGGCTTT-AAA-G----AG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
27401 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAG-GAAAAAGA-TGCCACGGAGT
*
27438 TGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGATGCCACGGAGT
*
27472 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGA-TGCCACGGAGT
*
27509 TGTGGGCTTTAAAA-GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
27542 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
27576 TGTGGGC-TTAAACGG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * * *
27603 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACAGAAT
1 TGTGGGCTTTAAA-AGGAAAAAGA-TGCCACGGAGT
* * * *
27637 TGTGGGTTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAG-ATGCCACGGAGT
27672 TGTGGGCTTT-AAA-GAAAAA-ATGCCAC
1 TGTGGGCTTTAAAAGGAAAAAGATGCCAC
27698 TAAGTCGTGG
Statistics
Matches: 598, Mismatches: 43, Indels: 114
0.79 0.06 0.15
Matches are distributed among these distances:
27 63 0.11
28 4 0.01
29 25 0.04
30 5 0.01
31 9 0.02
32 11 0.02
33 58 0.10
34 180 0.30
35 92 0.15
36 36 0.06
37 115 0.19
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
Found at i:27295 original size:98 final size:93
Alignment explanation
Indices: 27020--27697 Score: 524
Period size: 98 Copynumber: 6.8 Consensus size: 93
27010 TTAAAAGGGA
* *
27020 AAAAGAGTGCCACGGATTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAA
*
27085 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
65 A--G-AAAA-AGTGCCACAGAGTTGTGGGCTTT
* * *
27118 AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT--AA-AAAGA-GTGCCACAGAGTCGTGGGCT
1 AAA-AG----A-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCT
27179 TTGAAAAGAAGAAAGTGCCACAGAGTTGTGGGCTTT
60 TT-AAAAGAA-AAAGTGCCACAGAGTTGTGGGCTTT
*
27215 -AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTT
*
27279 AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
62 AAA-AGAAAAA-GTGCCACAGAGTTGTGGGCTTT
* *
27313 GAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTG
1 ---------AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTG
* *
27378 GGCTTT-AAAG----AGTGCCACGGAGTCGTGGGCTTT
56 GGCTTTAAAAGAAAAAGTGCCACAGAGTTGTGGGCTTT
27411 GAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTG
1 ---------AAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTG
27476 GGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
56 GGCTTT-AAAA--G-AAAA-AGTGCCACAGAGTTGTGGGCTTT
27519 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-
1 AAAAG----A-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCT
* * * *
27583 TTAAACG----GGTGCCACGGAGTTGTGGACTTAAAGAT
60 TTAAAAGAAAAAGTGCCACAGAGTTGTGGGCTT-----T
* * * * *
27618 GAAAAAAGTGCCACAGAATTGTGGGTTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTT-
1 -AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTA
*
27682 AAAGAAAAAATGCCAC
63 AAAGAAAAAGTGCCAC
27698 TAAGTCGTGG
Statistics
Matches: 492, Mismatches: 32, Indels: 110
0.78 0.05 0.17
Matches are distributed among these distances:
90 21 0.04
91 1 0.00
94 20 0.04
95 34 0.07
96 28 0.06
97 35 0.07
98 136 0.28
99 9 0.02
100 39 0.08
101 4 0.01
102 6 0.01
103 6 0.01
104 72 0.15
105 25 0.05
106 7 0.01
107 3 0.01
108 46 0.09
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (93 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
GAAAAAGTGCCACAGAGTTGTGGGCTTT
Found at i:27309 original size:71 final size:66
Alignment explanation
Indices: 26987--27690 Score: 740
Period size: 71 Copynumber: 10.5 Consensus size: 66
26977 GAGAAGGGAG
* * *
26987 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGATTTGTGGGCTTTAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
27051 AGAA
63 AGAA
*
27055 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA
27120 ACAGAA
62 A-AGAA
* * *
27126 AAAGGTGCCACGGAGTTGTGGGCTTT--AA-AAAGA-GTGCCACAGAGTCGTGGGCTTTGAAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
27187 AA
65 AA
* *
27189 GAAA-GTGCCACAGAGTTGTGGGCTTT-AAAG----A-GTGCCACGGAGTCGTGGGCTTTGAAAA
1 -AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT--AAA
27247 GAGAA
63 -AGAA
27252 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAA
27317 AGGGAA
63 A--GAA
* *
27323 AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
27387 G--
64 GAA
*
27388 --A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT--AAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA
27450 ACAGAA
62 A-AGAA
*
27456 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAA
27521 AAGAA
62 AAGAA
*
27526 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAACG
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
27590 --
65 AA
* * * * *
27590 ---GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACAGAATTGTGGGTTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAA
27651 AGAA
63 AGAA
*
27655 AAAGTGTGCCACAGAGTTGTGGGCTTT-AAAGAAAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
27691 ATGCCACTAA
Statistics
Matches: 558, Mismatches: 34, Indels: 89
0.82 0.05 0.13
Matches are distributed among these distances:
59 3 0.01
60 3 0.01
61 83 0.15
62 11 0.02
63 61 0.11
64 51 0.09
65 8 0.01
66 10 0.02
67 25 0.04
68 31 0.06
69 26 0.05
70 82 0.15
71 161 0.29
72 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (66 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGA
A
Found at i:27402 original size:169 final size:170
Alignment explanation
Indices: 26966--27748 Score: 919
Period size: 169 Copynumber: 4.7 Consensus size: 170
26956 CACCGACTTG
* * * *
26966 TGTGGGCTTTAGAGAAGGGAGAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTG
1 TGTGGGCTTT-GAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA--GAAAAAG-GTG
* * *
27029 CCACGGATTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
62 CCACGGAGTTGTGGGCTTTAAAAG----AAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAA
27094 GAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
123 GAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
*
27142 TGTGGGCTTT--------AAAAAGAGTGCCACAGAGTCGTGGGCTTTGAAAAGAAGAAA-GTGCC
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAA-AAAGGTGCC
*
27198 ACAGAGTTGTGGGCTTT-AAAG-AGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGC
64 ACGGAGTTGTGGGCTTTAAAAGAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGC
27261 CACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
129 CACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
*
27303 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCA
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCA
27368 CGGAGTTGTGGGCTTT-AAAG-AGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCC
65 CGGAGTTGTGGGCTTTAAAAGAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCC
27431 ACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
130 ACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
27472 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
* *
27537 GGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TT--AAA-CG-----G-G
66 GGAGTTGTGGGCTTT-AAAAG---AA-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAG
* * * * *
27592 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACAGAAT
126 TGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGT
* * * *
27637 TGTGGG-TTTTAAAA-AGAAAAAGTGTGCCACAGAGTTGTGGGCTTT-AAAGAAAAA-ATGCCAC
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
** * * * *
27698 TAAGTCGTGGACTTTGAGACAA-AA-TGCCACTGAGTCGTGGACTTTGAAAAG
66 GGAGTTGTGGGCTTT-A-A-AAGAAGTGCCACGGAGTCGTGGGCTTTGAAAAG
27749 GTATTTGAAG
Statistics
Matches: 549, Mismatches: 31, Indels: 69
0.85 0.05 0.11
Matches are distributed among these distances:
157 15 0.03
158 2 0.00
159 2 0.00
160 3 0.01
161 110 0.20
162 10 0.02
163 31 0.06
164 13 0.02
165 40 0.07
166 5 0.01
167 26 0.05
168 52 0.09
169 197 0.36
170 8 0.01
171 1 0.00
172 3 0.01
174 3 0.01
175 18 0.03
176 10 0.02
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (170 bp):
TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
GGAGTTGTGGGCTTTAAAAGAAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCA
CGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
Found at i:27601 original size:27 final size:27
Alignment explanation
Indices: 27563--27614 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
27553 AAAAGAAAAA
*
27563 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGACTTAAACG
27590 GGTGCCACGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAA
27615 GATGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.23
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAACG
Found at i:27629 original size:61 final size:63
Alignment explanation
Indices: 27328--27697 Score: 344
Period size: 61 Copynumber: 5.7 Consensus size: 63
27318 GGGAAAAAGA
* * *
27328 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA-GA-
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAACGAG
*
27389 GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
1 GTGCCACGGAGTTGTGGGCTTTG-AAA-AGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAC-G
27454 AAAAAG
62 ----AG
* *
27460 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAACG-
27525 AAAAG
62 ---AG
* *
27530 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAACG-G
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAACGAG
* * * * *
27591 GTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACAGAATTGTGGGTTTTAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTGAAA-A-GAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAACG-
27654 AAAAG
62 ---AG
*
27659 TGTGCCACAGAGTTGTGGGCTTT--AAAGAAAAAA-TGCCAC
1 -GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCAC
27698 TAAGTCGTGG
Statistics
Matches: 267, Mismatches: 19, Indels: 41
0.82 0.06 0.13
Matches are distributed among these distances:
59 3 0.01
60 3 0.01
61 62 0.23
62 5 0.02
63 10 0.04
64 25 0.09
66 13 0.05
67 25 0.09
68 8 0.03
69 20 0.07
70 39 0.15
71 54 0.20
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (63 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAACGAG
Found at i:27726 original size:130 final size:129
Alignment explanation
Indices: 27329--27749 Score: 321
Period size: 130 Copynumber: 3.2 Consensus size: 129
27319 GGAAAAAGAG
* * * * *
27329 TGCCACAGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGTTGTGGGCTTT-AAAG--
1 TGCCACGGAGTTGTGGAC-TTGAAAAGGGAAAAAGAGTGCCACAGAATTGTGGGCTTTAAAAGAA
* * * * *
27388 --A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
65 AAAGGTGCCACAGAGTTGTGGGCTTT--AAA-AGAAAAAGA-TGCCACGAAGTCGTGGAC-TTAA
27450 ACAGAAAAA
125 AC----AAA
* *
27459 GGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAG
1 --TGCCACGGAGTTGTGGAC-TTGAAAAGGGAAAAAGAGTGCCACAGAATTGTGGGCTTTAAAAG
* * * * *
27524 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAC
63 AAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGATGCCACGAAGTCGTGGACTTAAAC
***
27589 GGG
127 AAA
* *
27592 TGCCACGGAGTTGTGGACTT--AAAGATGAAAAA-AGTGCCACAGAATTGTGGGTTTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTGAAAAG-GGAAAAAGAGTGCCACAGAATTGTGGGCTTT-AAAAGA
* *
27654 AAAAGTGTGCCACAGAGTTGTGGGCTTT-AAAGAAAAA-ATGCCACTAAGTCGTGGACTTTGAGA
64 AAAAG-GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGATGCCACGAAGTCGTGGAC-TT-AAA
27717 CAAAA
126 C-AAA
* *
27722 TGCCACTGAGTCGTGGACTTTGAAAAGG
1 TGCCACGGAGTTGTGGAC-TTGAAAAGG
27750 TATTTGAAGA
Statistics
Matches: 246, Mismatches: 25, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
127 14 0.06
128 36 0.15
129 20 0.08
130 39 0.16
131 19 0.08
132 25 0.10
133 4 0.02
134 6 0.02
135 21 0.09
136 4 0.02
137 6 0.02
138 18 0.07
139 8 0.03
140 5 0.02
141 21 0.09
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.22
Consensus pattern (129 bp):
TGCCACGGAGTTGTGGACTTGAAAAGGGAAAAAGAGTGCCACAGAATTGTGGGCTTTAAAAGAAA
AAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGATGCCACGAAGTCGTGGACTTAAACAAA
Found at i:36022 original size:52 final size:52
Alignment explanation
Indices: 35944--36071 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
35934 CGAAATATGA
* *
35944 AAATTTACCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
35996 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
*
36048 AAA-TTGCCTGCATGCATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
36072 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 20 0.28
52 47 0.65
53 5 0.07
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:36084 original size:51 final size:52
Alignment explanation
Indices: 35944--36091 Score: 167
Period size: 52 Copynumber: 2.9 Consensus size: 52
35934 CGAAATATGA
* * **
35944 AAATTTACCTGCATGTATCGATAC-ATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGCATCGATACAAGATAA-AGTGTATCGATACATCTGGGC
* *** *
35996 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGCATCGATACAAGATAAAGTGTATCGATACATCTGGGC
*
36048 AAA-TTGCCTGCATGCATCGATACAAAGAT-CAGTGTATCGATACA
1 AAATTTGCCTGCATGCATCGATAC-AAGATAAAGTGTATCGATACA
36092 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
51 32 0.38
52 48 0.56
53 5 0.06
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (52 bp):
AAATTTGCCTGCATGCATCGATACAAGATAAAGTGTATCGATACATCTGGGC
Found at i:36098 original size:13 final size:13
Alignment explanation
Indices: 36080--36104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36070 CAAAGATCAG
36080 TGTATCGATACAA
1 TGTATCGATACAA
36093 TGTATCGATACA
1 TGTATCGATACA
36105 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:36182 original size:33 final size:33
Alignment explanation
Indices: 36145--36211 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
36135 AGTAGCTTAA
36145 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
36178 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
36211 A
1 A
36212 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:36185 original size:13 final size:13
Alignment explanation
Indices: 36167--36191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36157 CAAAAAAATA
36167 TGTATCGATACAT
1 TGTATCGATACAT
36180 TGTATCGATACA
1 TGTATCGATACA
36192 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:36717 original size:33 final size:33
Alignment explanation
Indices: 36680--36746 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
36670 TTCAACGATG
36680 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
36713 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
36746 T
1 T
36747 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:36718 original size:13 final size:13
Alignment explanation
Indices: 36700--36724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36690 CATAAAATGT
36700 TGTATCGATACAA
1 TGTATCGATACAA
36713 TGTATCGATACA
1 TGTATCGATACA
36725 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:36788 original size:21 final size:21
Alignment explanation
Indices: 36762--36821 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
36752 CTACTGCCAA
36762 AAAATGTATCGATACATTACT
1 AAAATGTATCGATACATTACT
36783 AAAATGTATCGATACATTACT
1 AAAATGTATCGATACATTACT
*
36804 CAAATGTATCGATACATT
1 AAAATGTATCGATACATT
36822 GTATCGATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAATGTATCGATACATTACT
Found at i:36826 original size:13 final size:13
Alignment explanation
Indices: 36808--36832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36798 ATTACTCAAA
36808 TGTATCGATACAT
1 TGTATCGATACAT
36821 TGTATCGATACA
1 TGTATCGATACA
36833 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:36828 original size:108 final size:105
Alignment explanation
Indices: 36700--36904 Score: 254
Period size: 108 Copynumber: 1.9 Consensus size: 105
36690 CATAAAATGT
* ** *
36700 TGTATCGATACAATGTATCGATACA-T-ATTTTTTTGTATCGATACAATTTAAGCTA-CTGCCAA
1 TGTATCGATACAATGTATCGATACACTGA--TCTTTGTATCGATAC-ATGCAAGCAATCTGCC--
36762 AAAATGTATCGATACATTACTAAAATGTATCGATACATTACTCAAA
61 AAAATGTATCGATACATTA-TAAAATGTATCGATACATTACTCAAA
* * * * *
36808 TGTATCGATACATTGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAATTTGCCCAGAT
1 TGTATCGATACAATGTATCGATACACTGATCTTTGTATCGATACATGCAAGCAATCTGCCAAAAT
36873 GTATCGATACATTATAAAATGTATCGATACAT
66 GTATCGATACATTATAAAATGTATCGATACAT
36905 GCAAGCAAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
105 18 0.21
106 17 0.20
107 6 0.07
108 42 0.49
109 1 0.01
110 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (105 bp):
TGTATCGATACAATGTATCGATACACTGATCTTTGTATCGATACATGCAAGCAATCTGCCAAAAT
GTATCGATACATTATAAAATGTATCGATACATTACTCAAA
Found at i:36934 original size:52 final size:52
Alignment explanation
Indices: 36841--36964 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
36831 CACTGATCTT
* *
36841 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
36892 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
36944 TGTATCGATACATACAAGCAA
1 TGTATCGATACATGCAAGCAA
36965 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
51 18 0.26
52 50 0.74
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:49683 original size:156 final size:154
Alignment explanation
Indices: 49153--50215 Score: 793
Period size: 157 Copynumber: 6.8 Consensus size: 154
49143 AAGCGCCTAA
* * * * * *
49153 TACCCTTAAAAGACTTAAAAAGGA-TTAT-AGATGAGATGAACCTATCCTAAATACCCACATATG
1 TACCC-TAAAGGACTTAAAAAGGACTAATAAAATG-GATGAACCTATCCTAAATGCCCACCT-TC
* * * * *
49216 GCATAAAAGC-GAACCTGGTGACAACCTAGGAGTCGGTTCTAAAAAAATTACCAAAAT-ACCTTT
63 GCATAAAAGCAG-ACCTGATGACAACCTAGGACTTGGTTCT-AAAAAATTA-CAAAATGCCCTTA
* * * *
49279 AGAGGATACCTTCGACATAAAAGCATCCTAG
125 AG-GGATACCTTCGACGTGAAAGTATCCCAG
* * *
49310 TAACCCTAAAAGACTTAAAAA-GACTCATAAGAA-GGATGAACCTATCCTAAATGCCTACCTTCA
1 T-ACCCTAAAGGACTTAAAAAGGACTAATAA-AATGGATGAACCTATCCTAAATGCCCACCTTC-
* * * * **
49373 GCATAAAAGCAGATCT-AGTGACAACTTAGGACTCGATTCTAGGAAATTACAAAAATGCTCC-TA
63 GCATAAAAGCAGACCTGA-TGACAACCTAGGACTTGGTTCTAAAAAATTAC-AAAATGC-CCTTA
* * * * * *
49436 TGGGTATACCTTCAATGTAAAAATATCTCAG
125 AGGG-ATACCTTCGACGTGAAAGTATCCCAG
* * * *
49467 CAACCCTAAAGGACTTAAAAA-GA-T--TAGAAATGGTGATGAACTTATCCTAAATACTCACCTT
1 -TACCCTAAAGGACTTAAAAAGGACTAATA-AAAT-G-GATGAACCTATCCTAAATGCCCACCTT
* ** * * ** * *
49528 CAGCAAAAAAGTGGACCTGACGACGACCTAGGGGTTGATTCTAAAAAATTATCGAAATGCCCCTT
62 C-GCATAAAAGCAGACCTGATGACAACCTAGGACTTGGTTCTAAAAAATTA-CAAAATG-CCCTT
49593 -AGGGATACCTTCGACGTGAAAGTATCCCAG
124 AAGGGATACCTTCGACGTGAAAGTATCCCAG
* * *
49623 TACCTCTAAAGGGCTTAAAAAGGA-TAATAAAATAGATGAACCTATCCTAAATGCCGACCTTCGA
1 TACC-CTAAAGGACTTAAAAAGGACTAATAAAATGGATGAACCTATCCTAAATGCCCACCTTCG-
* * * * * * *
49687 CATAAAAGTAGACCTGGTGACAACCTTGGACTTGGCTCTAAAAAATTACAAAAATACCATTAAGA
64 CATAAAAGCAGACCTGATGACAACCTAGGACTTGGTTCTAAAAAATTAC-AAAATGCCCTTAAGG
* * * * *
49752 GATACTTTTGACGTGAAAGTTTCTCGG
128 GATACCTTCGACGTGAAAGTATCCCAG
* * *
49779 TACCCCTAAAGGACTTGAAAAGGACTTATAAAATGGATGAACCTATCCTAAATGCCCATCTTCGA
1 TA-CCCTAAAGGACTTAAAAAGGACTAATAAAATGGATGAACCTATCCTAAATGCCCACCTTCG-
* * * * *
49844 CATAAAAGCAAACCT-AGTAACAACCTTGGACTTGGCTCTAAAAAATTACAAAAATGCCATT-AG
64 CATAAAAGCAGACCTGA-TGACAACCTAGGACTTGGTTCTAAAAAATTAC-AAAATGCCCTTAAG
* * * **
49907 GAGATACCCTCAACATGAAAGTATCTTAG
127 G-GATACCTTCGACGTGAAAGTATCCCAG
* * * * * *
49936 TATCCCTAAA-GACTTAAAAAGAACTTATAAAATGGATGAACCCACCCTAAATACCTACCTTCGG
1 TA-CCCTAAAGGACTTAAAAAGGACTAATAAAATGGATGAACCTATCCTAAATGCCCACCTTC-G
* * * * *
50000 CATAAAAGCGGACCCGAAGACAACCTAGGACTCGGTTCTAGAAAAATTACGAAAATGCCCTTGAG
64 CATAAAAGCAGACCTGATGACAACCTAGGACTTGGTTCTA-AAAAATTAC-AAAATGCCCTTAAG
* *
50065 GGTATACCTTCGCCGTAAAAGTATCCCAG
127 GG-ATACCTTCGACGTGAAAGTATCCCAG
* *
50094 CAACCCTAAAGGACTTAAAAA-G---AATAGAAATGGGATGAACCTAT-CTAGATGCCCACCTTC
1 -TACCCTAAAGGACTTAAAAAGGACTAATA-AAAT-GGATGAACCTATCCTAAATGCCCACCTTC
* * ***
50154 GGCATAAAAACAGACCCGATGACAACCTAGGACTCAATTCTAAGAAAATTATCAAAATGCCC
63 -GCATAAAAGCAGACCTGATGACAACCTAGGACTTGGTTCTAA-AAAATTA-CAAAATGCCC
50216 CTACTAGTAT
Statistics
Matches: 732, Mismatches: 132, Indels: 85
0.77 0.14 0.09
Matches are distributed among these distances:
154 4 0.01
155 15 0.02
156 311 0.42
157 342 0.47
158 46 0.06
159 14 0.02
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (154 bp):
TACCCTAAAGGACTTAAAAAGGACTAATAAAATGGATGAACCTATCCTAAATGCCCACCTTCGCA
TAAAAGCAGACCTGATGACAACCTAGGACTTGGTTCTAAAAAATTACAAAATGCCCTTAAGGGAT
ACCTTCGACGTGAAAGTATCCCAG
Found at i:49735 original size:313 final size:309
Alignment explanation
Indices: 49154--50217 Score: 959
Period size: 313 Copynumber: 3.4 Consensus size: 309
49144 AGCGCCTAAT
* * * *
49154 ACCCTTAAAAGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACATAT-GGC
1 ACCC-TAAAGGACTTAAAAA-GATTAGAAATG-GATGAACCTATCCTAAATACCCACCT-TCGGC
* * * * * * * *
49218 ATAAAAGCGAACCTGGTGACAACCTAGGAGTCGGTTCTAAAAAAATTACCAAAAT-ACCTTTAGA
62 AAAAAAGCAAACCTGATGACAACCTAGGACTCGATTCT-AAAAAATTATCAAAATGCCCCTTAG-
* * *
49282 GGATACCTTCGACATAAAAGCATCCTAGTAACCCTAAAAGACTTAAAAA-GACTCATAAGAA-GG
125 GGATACCTTCGACATGAAAGTATCCTAGT-ACCCT-AAAGACTTAAAAAGGACTAATAA-AATGG
* *
49345 ATGAACCTATCCTAAATGCCTACCTTC-AGCATAAAAGCAGATCTAGTGACAA-CTTAGGACTCG
187 ATGAACCTATCCTAAATGCCTACCTTCGA-CATAAAAGCAGACCTGGTGACAACCTT-GGACTCG
* ** * * *
49408 ATTCTAGGAAATTACAAAAATGCTCCTATGGGTATACCTTCAATGTAAAAATATCTCAGCA
250 GTTCTAAAAAATTACAAAAATGC-CCTATGGGTATACCTTCGACGTAAAAGTATCTCAGCA
* * *
49469 ACCCTAAAGGACTTAAAAAGATTAGAAATGGTGATGAACTTATCCTAAATACTCACCTTCAGCAA
1 ACCCTAAAGGACTTAAAAAGATTAGAAAT-G-GATGAACCTATCCTAAATACCCACCTTCGGCAA
*** * * ** * *
49534 AAAAGTGGACCTGACGACGACCTAGGGGTTGATTCTAAAAAATTATCGAAATGCCCCTTAGGGAT
64 AAAAGCAAACCTGATGACAACCTAGGACTCGATTCTAAAAAATTATCAAAATGCCCCTTAGGGAT
* * * *
49599 ACCTTCGACGTGAAAGTATCCCAGTACCTCTAAAGGGCTTAAAAAGGA-TAATAAAATAGATGAA
129 ACCTTCGACATGAAAGTATCCTAGTACC-CTAAA-GACTTAAAAAGGACTAATAAAATGGATGAA
* * * *
49663 CCTATCCTAAATGCCGACCTTCGACATAAAAGTAGACCTGGTGACAACCTTGGACTTGGCTCTAA
192 CCTATCCTAAATGCCTACCTTCGACATAAAAGCAGACCTGGTGACAACCTTGGACTCGGTTCTAA
* * * * * * * * * *
49728 AAAATTACAAAAATACCATTAAGAG-ATACTTTTGACGTGAAAGTTTCTCGGTA
257 AAAATTACAAAAATGCC-CTATGGGTATACCTTCGACGTAAAAGTATCTCAGCA
* * * * * *
49781 CCCCTAAAGGACTTGAAAAGGACTTATAAAATGGATGAACCTATCCTAAATGCCCATCTTCGACA
1 ACCCTAAAGGACTT-AAAAAGA-TTA-GAAATGGATGAACCTATCCTAAATACCCACCTTCGGCA
* * * * ** *
49846 TAAAAGCAAACCT-AGTAACAACCTTGGACTTGGCTCTAAAAAATTA-CAAAAATG-CCATTAGG
63 AAAAAGCAAACCTGA-TGACAACCTAGGACTCGATTCTAAAAAATTATC-AAAATGCCCCTTAGG
* * * * *
49908 AGATACCCTCAACATGAAAGTATCTTAGTATCCCTAAAGACTTAAAAAGAACTTATAAAATGGAT
126 -GATACCTTCGACATGAAAGTATCCTAGTA-CCCTAAAGACTTAAAAAGGACTAATAAAATGGAT
* * * * * * ** *
49973 GAACCCACCCTAAATACCTACCTTCGGCATAAAAGCGGACCCGAAGACAACCTAGGACTCGGTTC
189 GAACCTATCCTAAATGCCTACCTTCGACATAAAAGCAGACCTGGTGACAACCTTGGACTCGGTTC
* * *
50038 TAGAAAAATTACGAAAATGCCCT-TGAGGGTATACCTTCGCCGTAAAAGTATCCCAGCA
254 TA-AAAAATTACAAAAATGCCCTAT--GGGTATACCTTCGACGTAAAAGTATCTCAGCA
* * *
50096 ACCCTAAAGGACTTAAAAAGAATAGAAATGGGATGAACCTAT-CTAGATGCCCACCTTCGGCATA
1 ACCCTAAAGGACTTAAAAAGATTAGAAAT-GGATGAACCTATCCTAAATACCCACCTTCGGCA-A
* * *
50160 AAAA-CAGACCCGATGACAACCTAGGACTCAATTCTAAGAAAATTATCAAAATGCCCCT
64 AAAAGCAAACCTGATGACAACCTAGGACTCGATTCTAA-AAAATTATCAAAATGCCCCT
50218 ACTAGTATTC
Statistics
Matches: 596, Mismatches: 125, Indels: 57
0.77 0.16 0.07
Matches are distributed among these distances:
312 105 0.18
313 335 0.56
314 115 0.19
315 41 0.07
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (309 bp):
ACCCTAAAGGACTTAAAAAGATTAGAAATGGATGAACCTATCCTAAATACCCACCTTCGGCAAAA
AAGCAAACCTGATGACAACCTAGGACTCGATTCTAAAAAATTATCAAAATGCCCCTTAGGGATAC
CTTCGACATGAAAGTATCCTAGTACCCTAAAGACTTAAAAAGGACTAATAAAATGGATGAACCTA
TCCTAAATGCCTACCTTCGACATAAAAGCAGACCTGGTGACAACCTTGGACTCGGTTCTAAAAAA
TTACAAAAATGCCCTATGGGTATACCTTCGACGTAAAAGTATCTCAGCA
Found at i:50253 original size:156 final size:153
Alignment explanation
Indices: 49154--50282 Score: 772
Period size: 156 Copynumber: 7.2 Consensus size: 153
49144 AGCGCCTAAT
* * * * *
49154 ACCCTTAAAAGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACATAT-GGC
1 ACCC-TAAAGGACTTAAAAA-GAATA-AAATG-GATGAACCTATCCTAAATGCCCACCT-TCGGC
* * * * * * **
49218 ATAAAAGC-GAACCTGGTGACAACCTAGGAGTCGGTTCTAAAAAAATTACCAAAATACCTTTAGA
61 ATAAAAGCAG-ACCCGATGACAACCTAGGACTCGATTCT-AAAAAATTACAAAAATGCCCCTAGA
* * * * * *
49282 GGATACCTTCGACATAAAAGCATCCTAGTA
124 GTATACCTTCAACGTAAAAGTATCCCAGCA
* * *
49312 ACCCTAAAAGACTTAAAAAGACTCATAAGAA-GGATGAACCTATCCTAAATGCCTACCTTCAGCA
1 ACCCTAAAGGACTTAAAAAGA---ATAA-AATGGATGAACCTATCCTAAATGCCCACCTTCGGCA
* * * ** * *
49376 TAAAAGCAGA-TCTAGTGACAACTTAGGACTCGATTCTAGGAAATTACAAAAATGCTCCTATGGG
62 TAAAAGCAGACCCGA-TGACAACCTAGGACTCGATTCTAAAAAATTACAAAAATGCCCCTA-GAG
* * *
49440 TATACCTTCAATGTAAAAATATCTCAGCA
125 TATACCTTCAACGTAAAAGTATCCCAGCA
* * * * * *
49469 ACCCTAAAGGACTTAAAAAGATTAGAAATGGTGATGAACTTATCCTAAATACTCACCTTCAGCAA
1 ACCCTAAAGGACTTAAAAAGAATA-AAAT-G-GATGAACCTATCCTAAATGCCCACCTTCGGCAT
** * * * ** * * *
49534 AAAAGTGGACCTGACGACGACCTAGGGGTTGATTCTAAAAAATTATC-GAAATGCCCCTTAG-GG
63 AAAAGCAGACCCGATGACAACCTAGGACTCGATTCTAAAAAATTA-CAAAAATGCCCC-TAGAGT
* * *
49597 ATACCTTCGACGTGAAAGTATCCCAG-T
126 ATACCTTCAACGTAAAAGTATCCCAGCA
* * * *
49624 ACCTCTAAAGGGCTTAAAAAGGATAATAAAATAGATGAACCTATCCTAAATGCCGACCTTCGACA
1 ACC-CTAAAGGACTTAAAAA-G--AATAAAATGGATGAACCTATCCTAAATGCCCACCTTCGGCA
* * * * * ** * **
49689 TAAAAGTAGACCTGGTGACAACCTTGGACTTGGCTCTAAAAAATTACAAAAATACCATTAAGAG-
62 TAAAAGCAGACCCGATGACAACCTAGGACTCGATTCTAAAAAATTACAAAAATGCCCCT-AGAGT
* ** * * * * *
49753 ATACTTTTGACGTGAAAGTTTCTCGGTA
126 ATACCTTCAACGTAAAAGTATCCCAGCA
* * * *
49781 CCCCTAAAGGACTTGAAAAGGACTTATAAAATGGATGAACCTATCCTAAATGCCCATCTTCGACA
1 ACCCTAAAGGACTT-AAAAAGA---ATAAAATGGATGAACCTATCCTAAATGCCCACCTTCGGCA
* * * * * ** **
49846 TAAAAGCA-AACCTAGTAACAACCTTGGACTTGGCTCTAAAAAATTACAAAAATGCCATTAGGAG
62 TAAAAGCAGACCCGA-TGACAACCTAGGACTCGATTCTAAAAAATTACAAAAATGCCCCTA-GAG
* * * ** *
49910 -ATACCCTCAACATGAAAGTATCTTAGTA
125 TATACCTTCAACGTAAAAGTATCCCAGCA
* * * * *
49938 TCCCTAAA-GACTTAAAAAGAACTTATAAAATGGATGAACCCACCCTAAATACCTACCTTCGGCA
1 ACCCTAAAGGACTTAAAAAG-A---ATAAAATGGATGAACCTATCCTAAATGCCCACCTTCGGCA
* * * * * *
50002 TAAAAGCGGACCCGAAGACAACCTAGGACTCGGTTCTAGAAAAATTACGAAAATGCCCTTGAGGG
62 TAAAAGCAGACCCGATGACAACCTAGGACTCGATTCTA-AAAAATTACAAAAATGCCCCT-AGAG
**
50067 TATACCTTCGCCGTAAAAGTATCCCAGCA
125 TATACCTTCAACGTAAAAGTATCCCAGCA
*
50096 ACCCTAAAGGACTTAAAAAGAATAGAAATGGGATGAACCTAT-CTAGATGCCCACCTTCGGCATA
1 ACCCTAAAGGACTTAAAAAGAATA-AAAT-GGATGAACCTATCCTAAATGCCCACCTTCGGCATA
* * *
50160 AAAACAGACCCGATGACAACCTAGGACTCAATTCTAAGAAAATTATC-AAAATGCCCCTACTAGT
64 AAAGCAGACCCGATGACAACCTAGGACTCGATTCTAA-AAAATTA-CAAAAATGCCCCTA-GAGT
* * *
50224 ATTCCTTCAATGTAAAAGTATCCCGGCA
126 ATACCTTCAACGTAAAAGTATCCCAGCA
* *
50252 ACCCTAAAGGATTTAAAAAGATTTAAAATGG
1 ACCCTAAAGGACTTAAAAAGA-ATAAAATGG
50283 TGATTCTACC
Statistics
Matches: 773, Mismatches: 157, Indels: 85
0.76 0.15 0.08
Matches are distributed among these distances:
154 5 0.01
155 18 0.02
156 350 0.45
157 339 0.44
158 44 0.06
159 17 0.02
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (153 bp):
ACCCTAAAGGACTTAAAAAGAATAAAATGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
AGCAGACCCGATGACAACCTAGGACTCGATTCTAAAAAATTACAAAAATGCCCCTAGAGTATACC
TTCAACGTAAAAGTATCCCAGCA
Found at i:50522 original size:16 final size:16
Alignment explanation
Indices: 50501--50531 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50491 AATAAATTAT
50501 TTATTATTTTATTTTA
1 TTATTATTTTATTTTA
50517 TTATTATTTTATTTT
1 TTATTATTTTATTTT
50532 TGAAAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTATTTTATTTTA
Found at i:53543 original size:16 final size:17
Alignment explanation
Indices: 53522--53557 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
53512 AAAATTTTTA
53522 AAAATAAAATAAT-AAT
1 AAAATAAAATAATAAAT
53538 AAAATAAAATAATAAAT
1 AAAATAAAATAATAAAT
53555 AAA
1 AAA
53558 TTCTTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAAAATAATAAAT
Found at i:54024 original size:14 final size:15
Alignment explanation
Indices: 54005--54037 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
53995 AATCACTTAA
54005 AAAAAGAAAAAAA-G
1 AAAAAGAAAAAAATG
54019 AAAAAGAAAAAAATG
1 AAAAAGAAAAAAATG
54034 AAAA
1 AAAA
54038 GGGACTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAAAAATG
Found at i:54419 original size:25 final size:25
Alignment explanation
Indices: 54368--54429 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
54358 TGAAATAGCA
*
54368 AAGCAAGCAACGACAACAGCTAGAG
1 AAGCAAGCAACGACAACAGCTAAAG
* *
54393 AAGCAAACAACGACAGCTA-CTAAAG
1 AAGCAAGCAACGACAAC-AGCTAAAG
*
54418 AAGTAAGCAACG
1 AAGCAAGCAACG
54430 GTAGCAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.50, C:0.23, G:0.21, T:0.06
Consensus pattern (25 bp):
AAGCAAGCAACGACAACAGCTAAAG
Found at i:55463 original size:20 final size:20
Alignment explanation
Indices: 55422--55470 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
55412 TGCTGAAGCT
55422 GCTACTG-TTGGCTACTGAA
1 GCTACTGTTTGGCTACTGAA
* * *
55441 GCTACTGTTTGGTTGCTGGA
1 GCTACTGTTTGGCTACTGAA
55461 GCTACTGTTT
1 GCTACTGTTT
55471 CATGCTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.14, C:0.18, G:0.29, T:0.39
Consensus pattern (20 bp):
GCTACTGTTTGGCTACTGAA
Found at i:55635 original size:3 final size:3
Alignment explanation
Indices: 55622--55668 Score: 51
Period size: 3 Copynumber: 15.0 Consensus size: 3
55612 CTGCTATTGC
*
55622 TTG TTG TTTG TTG TTG TTG TTG TCAT- TTG TTG TTG TTG TAG TTG TTG
1 TTG TTG -TTG TTG TTG TTG TTG T--TG TTG TTG TTG TTG TTG TTG TTG
55669 GTCTTTGCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 1 0.03
3 32 0.84
4 4 0.11
5 1 0.03
ACGTcount: A:0.04, C:0.02, G:0.30, T:0.64
Consensus pattern (3 bp):
TTG
Found at i:56450 original size:25 final size:25
Alignment explanation
Indices: 56422--56507 Score: 111
Period size: 25 Copynumber: 3.4 Consensus size: 25
56412 AGCAGATGTT
56422 GTTGCTTGCTTCTTCAGTTGCTACC
1 GTTGCTTGCTTCTTCAGTTGCTACC
* *
56447 GTTGCTTGCTTCTTTAGTAGCTACC
1 GTTGCTTGCTTCTTCAGTTGCTACC
* * *
56472 GTTGTTTGCTTC-TCTAGCTGCTGCC
1 GTTGCTTGCTTCTTC-AGTTGCTACC
56497 GTTGCTTGCTT
1 GTTGCTTGCTT
56508 TGCTATTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 1 0.02
25 51 0.98
ACGTcount: A:0.07, C:0.26, G:0.22, T:0.45
Consensus pattern (25 bp):
GTTGCTTGCTTCTTCAGTTGCTACC
Found at i:65503 original size:18 final size:18
Alignment explanation
Indices: 65463--65503 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
65453 CCTTCGATGT
*
65463 GAAAGTATCCAGTAACTT
1 GAAAGTATCCAGTAACTC
*
65481 AAAAGTATCCAGTAACTC
1 GAAAGTATCCAGTAACTC
65499 GAAAG
1 GAAAG
65504 GACACAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
GAAAGTATCCAGTAACTC
Found at i:65804 original size:29 final size:28
Alignment explanation
Indices: 65762--65937 Score: 174
Period size: 29 Copynumber: 6.1 Consensus size: 28
65752 TAGAATTTTG
* *
65762 AAATTACACGTTGATCCTTATAC-TTTCTA
1 AAATTACACTTTGA-CCTTAAACTTTTC-A
*
65791 AAATTACATTTTGACCTTCAAACTTTTCA
1 AAATTACACTTTGACCTT-AAACTTTTCA
* * * *
65820 AAATTACGCTCTAACCCTTGAACTTTTCA
1 AAATTACACTTTGA-CCTTAAACTTTTCA
***
65849 AAATTATGTTTTGACCTTAAACTTTTCA
1 AAATTACACTTTGACCTTAAACTTTTCA
* *
65877 AAATTACACTTTAACCTTTAACTTTTCA
1 AAATTACACTTTGACCTTAAACTTTTCA
* *
65905 AAATTACATTTTGATCCCTAAACTTTTCA
1 AAATTACACTTTGA-CCTTAAACTTTTCA
65934 AAAT
1 AAAT
65938 CAGACATTAA
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
28 52 0.43
29 61 0.50
30 8 0.07
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (28 bp):
AAATTACACTTTGACCTTAAACTTTTCA
Found at i:65892 original size:57 final size:56
Alignment explanation
Indices: 65785--65937 Score: 216
Period size: 57 Copynumber: 2.7 Consensus size: 56
65775 ATCCTTATAC
*
65785 TTTCTAAAATTACATTTTGACCTTCAAACTTTTCAAAATTACGCTCTAACCCTTGAACT
1 TTTC-AAAATTACATTTTGACCTT-AAACTTTTCAAAATTACACTCTAA-CCTTGAACT
** * *
65844 TTTCAAAATTATGTTTTGACCTTAAACTTTTCAAAATTACACTTTAACCTTTAACT
1 TTTCAAAATTACATTTTGACCTTAAACTTTTCAAAATTACACTCTAACCTTGAACT
*
65900 TTTCAAAATTACATTTTGATCCCTAAACTTTTCAAAAT
1 TTTCAAAATTACATTTTGA-CCTTAAACTTTTCAAAAT
65938 CAGACATTAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
56 25 0.29
57 39 0.46
58 17 0.20
59 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (56 bp):
TTTCAAAATTACATTTTGACCTTAAACTTTTCAAAATTACACTCTAACCTTGAACT
Found at i:68270 original size:97 final size:97
Alignment explanation
Indices: 68102--68285 Score: 253
Period size: 97 Copynumber: 1.9 Consensus size: 97
68092 AAAATATAGG
* * * * * *
68102 TGGGAAGAACCTATCCTAAATACCCCCCTTTGGCATAAAAGCATACTCGGTGACAACCAATGAAT
1 TGGGAAGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAAACCCGATGACAACCAATGAAT
68167 CAATTTTAAAAAATTACAAAAAAGTTATAGAT
66 CAATTTTAAAAAATTACAAAAAAGTTATAGAT
* * *
68199 TGGGATGAACCTATCCTAAATACCTACCTTCGACATAAAAGCAAACCCGATGACAACCTA-GAAA
1 TGGGAAGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAAACCCGATGACAACCAATG-AA
**
68263 TTGATTTTAAAAAATTACAAAAA
65 TCAATTTTAAAAAATTACAAAAA
68286 TGCCCTTAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 1 0.01
97 74 0.99
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (97 bp):
TGGGAAGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAAACCCGATGACAACCAATGAAT
CAATTTTAAAAAATTACAAAAAAGTTATAGAT
Found at i:71218 original size:16 final size:17
Alignment explanation
Indices: 71185--71226 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
71175 ATTTAGTTTT
*
71185 AAAAGAATAAAAAGATA
1 AAAATAATAAAAAGATA
*
71202 ATAATAATAAAAA-ATA
1 AAAATAATAAAAAGATA
71218 AAAATAATA
1 AAAATAATA
71227 TATCACCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
AAAATAATAAAAAGATA
Found at i:82011 original size:37 final size:35
Alignment explanation
Indices: 81921--82013 Score: 125
Period size: 34 Copynumber: 2.6 Consensus size: 35
81911 CCCATTTCAT
* *
81921 CTCCTTTTCCCTTTGTTCTCAAAGAGTAGGACGTA
1 CTCCTTTTCCCTTTGTCCTCAAAGAGTAGGAAGTA
*
81956 CT-CTTTTTCCTTTGTCCTCAAAGAGTAGGAAGACTA
1 CTCCTTTTCCCTTTGTCCTCAAAGAGTAGGAAG--TA
*
81992 CTCCTTTTCCCTTTATCCTCAA
1 CTCCTTTTCCCTTTGTCCTCAA
82014 GGAGCGAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 27 0.54
35 2 0.04
36 4 0.08
37 17 0.34
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (35 bp):
CTCCTTTTCCCTTTGTCCTCAAAGAGTAGGAAGTA
Found at i:82155 original size:156 final size:154
Alignment explanation
Indices: 81810--82157 Score: 425
Period size: 155 Copynumber: 2.2 Consensus size: 154
81800 AGCTCAACAC
* * * * * *
81810 CCTTCGTCCTCAAAGAGTAGCAA-AACACTTCTTTTCCCTTTGTCTTCAAGGAGCAGGACATATT
1 CCTTTGTCCTCAAAGAGCAGGAAGACCACTTCTTTTCCCTTTATCCTCAAGGAGCA-GACATATT
* * * * *
81874 TCTTTTTTCTTTTTTCCTTTGTCCTCAAGGAGCAGGACCCATTTCATCTCCTTTTCCCTTTGTTC
65 CCTTTTTTCTTTTTTCCGTTGTCCTCAAGGAGCAGAACCCATTTCATCTCCTTTTCCCTTTATCC
* * *
81939 TCAAAGAGTAGGACGTACTCTTTTT
130 TCAAAGAGCAGGACGTACTATATTT
* * * *
81964 CCTTTGTCCTCAAAGAGTAGGAAGACTACTCCTTTTCCCTTTATCCTCAAGGAGC-GAGATGCAT
1 CCTTTGTCCTCAAAGAGCAGGAAGACCACTTCTTTTCCCTTTATCCTCAAGGAGCAGACAT--AT
*
82028 TCCTTTTTTCTTTTTTCCGTTGTCCTCAAGGAGTAGAACCCATTTCATTCTCCTTTTCCCTTTAT
64 TCCTTTTTTCTTTTTTCCGTTGTCCTCAAGGAGCAGAACCCATTTCA-TCTCCTTTTCCCTTTAT
*
82093 CCTCAAAGAGCAGGATGTACTATATTT
128 CCTCAAAGAGCAGGACGTACTATATTT
*
82120 CCTTTGTCC-CTAAAGAGCAGGACA-CCCACTTCTTTTCC
1 CCTTTGTCCTC-AAAGAGCAGGA-AGACCACTTCTTTTCC
82158 TTCCTCTTTT
Statistics
Matches: 166, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
153 4 0.02
154 21 0.13
155 72 0.43
156 68 0.41
157 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (154 bp):
CCTTTGTCCTCAAAGAGCAGGAAGACCACTTCTTTTCCCTTTATCCTCAAGGAGCAGACATATTC
CTTTTTTCTTTTTTCCGTTGTCCTCAAGGAGCAGAACCCATTTCATCTCCTTTTCCCTTTATCCT
CAAAGAGCAGGACGTACTATATTT
Found at i:82280 original size:31 final size:31
Alignment explanation
Indices: 82196--82285 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 31
82186 ATGGCACCCT
* *
82196 AGTCAAAGCTCGCACAAGTTGGCGGCACTAG
1 AGTCAAAGCTCGCACAAGCTGGTGGCACTAG
* *
82227 AGTCTAAA-CCCGCAC-AGCCTGGTGGCACTTG
1 AGTC-AAAGCTCGCACAAG-CTGGTGGCACTAG
*
82258 AGTCAAAGCTCACACAAGCTGGTGGCAC
1 AGTCAAAGCTCGCACAAGCTGGTGGCAC
82286 CTAAGTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
30 5 0.10
31 39 0.80
32 5 0.10
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.17
Consensus pattern (31 bp):
AGTCAAAGCTCGCACAAGCTGGTGGCACTAG
Found at i:83041 original size:20 final size:21
Alignment explanation
Indices: 82997--83070 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
82987 TTCTACAATT
*
82997 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATACAGTAAA
*
83018 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
* * *
83038 TGTATTGATACATGC-CTAAAA
1 TGTATCGATACATACAGT-AAA
83059 TGTATCGATACA
1 TGTATCGATACA
83071 AAACCACCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 18 0.41
21 26 0.59
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:86000 original size:33 final size:33
Alignment explanation
Indices: 85958--86022 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
85948 CATTTTATGG
* *
85958 TGTATCGATACAAAGCAATTTGTATCGATACAA
1 TGTATCGATACAAAGCAATATGTATCAATACAA
**
85991 TGTATCGATACTTAGCAATATGTATCAATACA
1 TGTATCGATACAAAGCAATATGTATCAATACA
86023 GTTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAGCAATATGTATCAATACAA
Found at i:92729 original size:13 final size:13
Alignment explanation
Indices: 92711--92737 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92701 ATATGCTACT
92711 TTGTATCGATACA
1 TTGTATCGATACA
92724 TTGTATCGATACA
1 TTGTATCGATACA
92737 T
1 T
92738 GTTCCTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:92841 original size:20 final size:20
Alignment explanation
Indices: 92800--92852 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
92790 TATCACTATT
* *
92800 TGTATCGATACTTGGTACAA
1 TGTATCGATACATGGGACAA
92820 TGTATCGATACATGAGGA-AA
1 TGTATCGATACATG-GGACAA
* *
92840 TGGATCGACACAT
1 TGTATCGATACAT
92853 TGCTTGTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (20 bp):
TGTATCGATACATGGGACAA
Found at i:94190 original size:33 final size:33
Alignment explanation
Indices: 94153--94219 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
94143 TTCAACGATT
94153 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
94186 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
94219 T
1 T
94220 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:94191 original size:13 final size:13
Alignment explanation
Indices: 94173--94197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94163 CATAAAATGT
94173 TGTATCGATACAA
1 TGTATCGATACAA
94186 TGTATCGATACA
1 TGTATCGATACA
94198 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:94280 original size:13 final size:13
Alignment explanation
Indices: 94262--94286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94252 ATTACTCACA
94262 TGTATCGATACAT
1 TGTATCGATACAT
94275 TGTATCGATACA
1 TGTATCGATACA
94287 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:94351 original size:52 final size:52
Alignment explanation
Indices: 94295--94414 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
94285 CACTGATCTT
* *
94295 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
94347 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
94399 TGTATCGATACATGCA
1 TGTATCGATACATGCA
94415 AGTAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:98098 original size:3 final size:3
Alignment explanation
Indices: 98092--98126 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
98082 GAAGAAGAAA
*
98092 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG GTG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
98127 TCGGATGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:100454 original size:21 final size:21
Alignment explanation
Indices: 100429--100476 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
100419 AAAAACCTTA
100429 GTTGTTGAAGAATCAATCCAT
1 GTTGTTGAAGAATCAATCCAT
**
100450 GTTGTTTTAGAATCAATCCAT
1 GTTGTTGAAGAATCAATCCAT
100471 GTTGTT
1 GTTGTT
100477 TTTGATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (21 bp):
GTTGTTGAAGAATCAATCCAT
Found at i:100477 original size:21 final size:21
Alignment explanation
Indices: 100437--100478 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
100427 TAGTTGTTGA
100437 AGAATCAATCCATGTTGTTTT
1 AGAATCAATCCATGTTGTTTT
100458 AGAATCAATCCATGTTGTTTT
1 AGAATCAATCCATGTTGTTTT
100479 TGATGATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
AGAATCAATCCATGTTGTTTT
Found at i:107827 original size:32 final size:34
Alignment explanation
Indices: 107791--107854 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 34
107781 CCTTACAATA
107791 CTATC-TTTCAAA-GCTAAGATAGAACCTCTTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTTCC
*
107823 CTATCTTTTTCAAAGGCTGAGATAGAACCTCT
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCT
107855 CAATCACTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 5 0.18
34 7 0.25
35 16 0.57
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (34 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTTCC
Found at i:108547 original size:22 final size:22
Alignment explanation
Indices: 108513--108555 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
108503 TACATTATGT
108513 ATTTTTACTTTGAAAAACATTG
1 ATTTTTACTTTGAAAAACATTG
108535 ATTTATTAC-TTGAAAAACATT
1 ATTT-TTACTTTGAAAAACATT
108556 TAAACTTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTTTACTTTGAAAAACATTG
Found at i:109408 original size:13 final size:13
Alignment explanation
Indices: 109390--109415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
109380 TACAGCAAGT
109390 ATGTATCGATACA
1 ATGTATCGATACA
109403 ATGTATCGATACA
1 ATGTATCGATACA
109416 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:109493 original size:71 final size:71
Alignment explanation
Indices: 109403--109579 Score: 338
Period size: 71 Copynumber: 2.5 Consensus size: 71
109393 TATCGATACA
109403 ATGTATCGATACA-CAAAAAATTGTATCGATACATTGGCTTGTAACGGCTAGAAACGACTATATT
1 ATGTATCGATACATC-AAAAATTGTATCGATACATTGGCTTGTAACGGCTAGAAACGACTATATT
109467 TTCAAAT
65 TTCAAAT
109474 ATGTATCGATACATCAAAAATTGTATCGATACATTGGCTTGTAACGGCTAGAAACGACTATATTT
1 ATGTATCGATACATCAAAAATTGTATCGATACATTGGCTTGTAACGGCTAGAAACGACTATATTT
109539 TCAAAT
66 TCAAAT
109545 ATGTATCGATACATCAAAAATTGTATCGATACATT
1 ATGTATCGATACATCAAAAATTGTATCGATACATT
109580 TACACGGGAA
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
71 104 0.99
72 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (71 bp):
ATGTATCGATACATCAAAAATTGTATCGATACATTGGCTTGTAACGGCTAGAAACGACTATATTT
TCAAAT
Found at i:111735 original size:21 final size:21
Alignment explanation
Indices: 111702--111746 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
111692 TTGCAAGTTG
*
111702 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
111724 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
111744 AAA
1 AAA
111747 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:113570 original size:15 final size:15
Alignment explanation
Indices: 113550--113580 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
113540 TAAAAATGTC
*
113550 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
113565 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
113580 C
1 C
113581 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:115669 original size:13 final size:13
Alignment explanation
Indices: 115651--115676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115641 ACATTTTTCC
115651 TTGTATCGATACA
1 TTGTATCGATACA
115664 TTGTATCGATACA
1 TTGTATCGATACA
115677 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:115840 original size:20 final size:20
Alignment explanation
Indices: 115797--115842 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
115787 AAATCTTTTG
115797 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
115818 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
115838 CAAAA
1 CAAAA
115843 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:118249 original size:13 final size:13
Alignment explanation
Indices: 118231--118256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118221 TACAGCAAGT
118231 ATGTATCGATACA
1 ATGTATCGATACA
118244 ATGTATCGATACA
1 ATGTATCGATACA
118257 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:119227 original size:27 final size:27
Alignment explanation
Indices: 119186--119237 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
119176 TTTGATTGTC
119186 GGGGATACTCCAACCCCACTCTTCTGA
1 GGGGATACTCCAACCCCACTCTTCTGA
* *
119213 GGGGATACTCTAACCCCACTTTTCT
1 GGGGATACTCCAACCCCACTCTTCT
119238 CCAAAACTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.27
Consensus pattern (27 bp):
GGGGATACTCCAACCCCACTCTTCTGA
Found at i:123052 original size:26 final size:26
Alignment explanation
Indices: 123004--123066 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
122994 AAAATGGGAC
* * *
123004 CTAAATCCGAAAAGATGTTGACCAAGG
1 CTAAA-CCTAAAAGAAGTAGACCAAGG
123031 -TGAAACCTAAAAGAAGTAGACCAAGG
1 CT-AAACCTAAAAGAAGTAGACCAAGG
123057 CTAAACCTAA
1 CTAAACCTAA
123067 GTAAAAAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (26 bp):
CTAAACCTAAAAGAAGTAGACCAAGG
Found at i:123188 original size:85 final size:84
Alignment explanation
Indices: 123098--123883 Score: 348
Period size: 85 Copynumber: 9.2 Consensus size: 84
123088 ACCAGGCATT
* * * ** **
123098 CAAGTCAACAAAGGATGAAAGTG-GTTACTCGGGACTAAGCTGATGGGTAAACAAAGGATAAAAA
1 CAAGTCAACAAAGGATAAAAG-GATTTACTCGAGACTAA-CCAACAGGTAAACAAAGGATAAAAA
*
123162 AGTTGACCAGGATTGAACCAA
64 AGTTAACCAGGATTGAACCAA
* * *
123183 TAAGTCAACAAAAGATAAAAGGATTTACTCGGGACTCAACCAACAGGTAAACAAAGGATAAAAAA
1 CAAGTCAACAAAGGATAAAAGGATTTACTCGAGACT-AACCAACAGGTAAACAAAGGATAAAAAA
* *** **
123248 GTTGATGGGGATTGAACTGA
65 GTTAACCAGGATTGAACCAA
* * * * * ** * *
123268 CAAGTCAACAAAGAATAAAACGATTTACTTGAGACCGAACCGATGGGTAAATAAAGGATAAAGAA
1 CAAGTCAACAAAGGATAAAAGGATTTACTCGAGA-CTAACCAACAGGTAAACAAAGGATAAAAAA
*
123333 GTTAACTAGGATTG-ACCAA
65 GTTAACCAGGATTGAACCAA
* * * * **
123352 CAAGTCAATAAACGATAAAAGGATTTACTCGAGACTGAGCCAACAGGTAAACAAAGGAGACCAAA
1 CAAGTCAACAAAGGATAAAAGGATTTACTCGAGACT-AACCAACAGGTAAACAAAGGATAAAAAA
* *
123417 GTTAACC-GAGATTAAACAAA
65 GTTAACCAG-GATTGAACCAA
* * **** * *
123437 CAAGTCAACAAAGGATAGAAA-GATTTAC-CTAGGATTAAGCTGGGAGGCAAACAAAAGATAAAA
1 CAAGTCAACAAAGGATA-AAAGGATTTACTCGA-GACTAA-CCAACAGGTAAACAAAGGATAAAA
* * *** * * ***
123500 AGGTTGATTGGGGTTAAATTGA
63 AAGTTAACCAGGATTGAACCAA
* * * * * * * * *
123522 CTAGCCAACGAAGGATAAAAGAATTTTC-CTAGGACTAAGTCGACAGGTAAACAAAGGATGAAAA
1 CAAGTCAACAAAGGATAAAAGGATTTACTCGA-GACTAA-CCAACAGGTAAACAAAGGATAAAAA
* * * * **
123586 GGTTGATCAAGATTGAACTGA
64 AGTTAACCAGGATTGAACCAA
* * * * *
123607 CTAGTTAATAAAGGATAAAAGGATTTACTCGGGACTAAGCCGACATGG-AAAC-AAGAGATAAAA
1 CAAGTCAACAAAGGATAAAAGGATTTACTCGAGACTAA-CCAACA-GGTAAACAAAG-GATAAAA
* * ** * * ***
123670 AGGTTGATTAGGGTTAAATTGA
63 AAGTTAACCAGGATTGAACCAA
* * * * * * ** *
123692 TAAGCCAACAAAAGATAAAAGAATTTTCTAG-GAACTAAGCTGACACGTAAACAAAGGATAAAAA
1 CAAGTCAACAAAGGATAAAAGGATTTACTCGAG-ACTAA-CCAACAGGTAAACAAAGGATAAAAA
* * * **
123756 AGGTTGACTAGGATTAAACTGA
64 A-GTTAACCAGGATTGAACCAA
* * * ** * * *
123778 CAAGTTAATAAAGGATAAAAGGATTTACTCAAGACTAAGCGGACAGGTAAATAAAAGATAAAAAG
1 CAAGTCAACAAAGGATAAAAGGATTTACTCGAGACTAA-CCAACAGGTAAACAAAGGATAAAAAA
* ** **
123843 GTTGATTAGGATTGAACTGA
65 GTTAACCAGGATTGAACCAA
* *
123863 TAAGTCAACAAAGAATAAAAG
1 CAAGTCAACAAAGGATAAAAG
123884 CAATACCTGA
Statistics
Matches: 542, Mismatches: 140, Indels: 38
0.75 0.19 0.05
Matches are distributed among these distances:
83 2 0.00
84 73 0.13
85 387 0.71
86 79 0.15
87 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (84 bp):
CAAGTCAACAAAGGATAAAAGGATTTACTCGAGACTAACCAACAGGTAAACAAAGGATAAAAAAG
TTAACCAGGATTGAACCAA
Found at i:123280 original size:42 final size:42
Alignment explanation
Indices: 123147--123287 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 42
123137 CTGATGGGTA
* * *
123147 AACAAAGGATAAAAAAGTTGACCAGGATTGAACCAATAAGTC
1 AACAAAGGATAAAAAAGTTGATCGGGATTGAACCAACAAGTC
* * * * * * *
123189 AACAAAAGAT-AAAAGGATTTACTCGGGACTCAACCAACAGGTA
1 AACAAAGGATAAAAAAG-TTGA-TCGGGATTGAACCAACAAGTC
* **
123232 AACAAAGGATAAAAAAGTTGATGGGGATTGAACTGACAAGTC
1 AACAAAGGATAAAAAAGTTGATCGGGATTGAACCAACAAGTC
*
123274 AACAAAGAATAAAA
1 AACAAAGGATAAAA
123288 CGATTTACTT
Statistics
Matches: 75, Mismatches: 21, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
41 5 0.07
42 39 0.52
43 26 0.35
44 5 0.07
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.16
Consensus pattern (42 bp):
AACAAAGGATAAAAAAGTTGATCGGGATTGAACCAACAAGTC
Found at i:123442 original size:169 final size:170
Alignment explanation
Indices: 123139--123464 Score: 440
Period size: 169 Copynumber: 1.9 Consensus size: 170
123129 GGACTAAGCT
* *
123139 GATGGGTAAACAAAGGATAAAAAAGTTGACCAGGATTGAACCAATAAGTCAACAAAAGATAAAAG
1 GATGGGTAAACAAAGGATAAAAAAGTTAACCAGGATTGAACCAACAAGTCAACAAAAGATAAAAG
* * * ** * * **
123204 GATTTACTCGGGACTCAACCAACAGGTAAACAAAGGATAAAAAAGTTGATGGGGATTGAACTGAC
66 GATTTACTCGAGACTCAACCAACAGGTAAACAAAGGAGAAAAAAGTTAACCGAGATTAAACAAAC
123269 AAGTCAACAAAGAATA-AAACGATTTACTTGAGACCGAACC
131 AAGTCAACAAAGAATAGAAA-GATTTACTTGAGACCGAACC
* * * * *
123309 GATGGGTAAATAAAGGATAAAGAAGTTAACTAGGATTG-ACCAACAAGTCAATAAACGATAAAAG
1 GATGGGTAAACAAAGGATAAAAAAGTTAACCAGGATTGAACCAACAAGTCAACAAAAGATAAAAG
* * **
123373 GATTTACTCGAGACTGAGCCAACAGGTAAACAAAGGAGACCAAAGTTAACCGAGATTAAACAAAC
66 GATTTACTCGAGACTCAACCAACAGGTAAACAAAGGAGAAAAAAGTTAACCGAGATTAAACAAAC
*
123438 AAGTCAACAAAGGATAGAAAGATTTAC
131 AAGTCAACAAAGAATAGAAAGATTTAC
123465 CTAGGATTAA
Statistics
Matches: 134, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
169 97 0.72
170 37 0.28
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.17
Consensus pattern (170 bp):
GATGGGTAAACAAAGGATAAAAAAGTTAACCAGGATTGAACCAACAAGTCAACAAAAGATAAAAG
GATTTACTCGAGACTCAACCAACAGGTAAACAAAGGAGAAAAAAGTTAACCGAGATTAAACAAAC
AAGTCAACAAAGAATAGAAAGATTTACTTGAGACCGAACC
Found at i:123778 original size:43 final size:42
Alignment explanation
Indices: 123426--123882 Score: 152
Period size: 43 Copynumber: 10.7 Consensus size: 42
123416 AGTTAACCGA
** * * * *
123426 GATTAAACAAACAAGTCAACAAAGGATAGAAAGATTTACCTAG
1 GATTAAACTGACAAGTAAACAAAGGATAAAAAGGTTGA-CTAG
* ** * * * * *
123469 GATTAAGCTGGGAGGCAAACAAAAGATAAAAAGGTTGATTGG
1 GATTAAACTGACAAGTAAACAAAGGATAAAAAGGTTGACTAG
* * * ** * ** **
123511 GGTTAAATTGACTAGCCAACGAAGGATAAAAGAATTTTCCTAG
1 GATTAAACTGACAAGTAAACAAAGGATAAAA-AGGTTGACTAG
* * * * *
123554 GACT-AAGTCGACAGGTAAACAAAGGATGAAAAGGTTGA-TCAA
1 GATTAAACT-GACAAGTAAACAAAGGATAAAAAGGTTGACT-AG
* * * * * *
123596 GATTGAACTGACTAGTTAATAAAGGAT-AAAAGGATTTACTCGG
1 GATTAAACTGACAAGTAAACAAAGGATAAAAAGG-TTGACT-AG
* * * * * *
123639 GACTAAGCCGACATGGAAAC-AAGAGATAAAAAGGTTGATTAG
1 GATTAAACTGACAAGTAAACAAAG-GATAAAAAGGTTGACTAG
* * * ** * * **
123681 GGTTAAATTGATAAGCCAACAAAAGAT-AAAAGAATTTTCTAG
1 GATTAAACTGACAAGTAAACAAAGGATAAAAAG-GTTGACTAG
* * *
123723 GAACTAAGCTGACACGTAAACAAAGGATAAAAAAGGTTGACTAG
1 G-ATTAAACTGACAAGTAAACAAAGGAT-AAAAAGGTTGACTAG
* * * *
123767 GATTAAACTGACAAGTTAATAAAGGAT-AAAAGGATTTACTCAA
1 GATTAAACTGACAAGTAAACAAAGGATAAAAAGG-TTGACT-AG
* * * * * * *
123810 GACTAAGCGGACAGGTAAATAAAAGATAAAAAGGTTGATTAG
1 GATTAAACTGACAAGTAAACAAAGGATAAAAAGGTTGACTAG
* * * *
123852 GATTGAACTGATAAGTCAACAAAGAATAAAA
1 GATTAAACTGACAAGTAAACAAAGGATAAAA
123883 GCAATACCTG
Statistics
Matches: 281, Mismatches: 117, Indels: 33
0.65 0.27 0.08
Matches are distributed among these distances:
41 18 0.06
42 101 0.36
43 138 0.49
44 19 0.07
45 5 0.02
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (42 bp):
GATTAAACTGACAAGTAAACAAAGGATAAAAAGGTTGACTAG
Found at i:123843 original size:171 final size:169
Alignment explanation
Indices: 123485--123883 Score: 538
Period size: 171 Copynumber: 2.3 Consensus size: 169
123475 GCTGGGAGGC
* *
123485 AAACAAAAGATAAAAAGGTTGATTGGGGTTAAATTGACT-AGCCAACGAAGGATAAAAGAATTTT
1 AAACAAAAGATAAAAAGGTTGATTAGGGTTAAATTGA-TAAGCCAAC-AAAGATAAAAGAATTTT
* * * *
123549 CCTAGGACTAAGTCGACAGGTAAACAAAGGATGAAAAGGTTGATCAAGATTGAACTGACTAGTTA
64 CCTAGGACTAAGTCGACACGTAAACAAAGGATAAAAAGGTTGATCAAGATTAAACTGACAAGTTA
**
123614 ATAAAGGATAAAAGGATTTACTCGGGACTAAGCCGACATGG
129 ATAAAGGATAAAAGGATTTACTCAAGACTAAGCCGACATGG
*
123655 AAACAAGAGATAAAAAGGTTGATTAGGGTTAAATTGATAAGCCAACAAAAGATAAAAGAATTTT-
1 AAACAAAAGATAAAAAGGTTGATTAGGGTTAAATTGATAAGCCAAC-AAAGATAAAAGAATTTTC
*
123719 CTAGGAACTAAG-CTGACACGTAAACAAAGGATAAAAAAGGTTGA-CTAGGATTAAACTGACAAG
65 CTAGG-ACTAAGTC-GACACGTAAACAAAGGAT-AAAAAGGTTGATC-AAGATTAAACTGACAAG
*
123782 TTAATAAAGGATAAAAGGATTTACTCAAGACTAAGCGGACA-GG
126 TTAATAAAGGATAAAAGGATTTACTCAAGACTAAGCCGACATGG
* * * * *
123825 TAAATAAAAGATAAAAAGGTTGATTAGGATTGAACTGATAAGTCAACAAAGAATAAAAG
1 -AAACAAAAGATAAAAAGGTTGATTAGGGTTAAATTGATAAGCCAACAAAG-ATAAAAG
123884 CAATACCTGA
Statistics
Matches: 204, Mismatches: 18, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
169 7 0.03
170 88 0.43
171 109 0.53
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.21
Consensus pattern (169 bp):
AAACAAAAGATAAAAAGGTTGATTAGGGTTAAATTGATAAGCCAACAAAGATAAAAGAATTTTCC
TAGGACTAAGTCGACACGTAAACAAAGGATAAAAAGGTTGATCAAGATTAAACTGACAAGTTAAT
AAAGGATAAAAGGATTTACTCAAGACTAAGCCGACATGG
Found at i:124150 original size:35 final size:35
Alignment explanation
Indices: 124045--124358 Score: 188
Period size: 35 Copynumber: 9.0 Consensus size: 35
124035 GGCCAAATAT
* * * * * * *
124045 AGTCAAACAATAATGAAAACAATTTGACCAAATAT
1 AGTCAAACGATGATGAAAAGAGTTTGACTAGATAC
* * * *
124080 AGCCAAACGATGATGGAAAGAGTTTGACCAAATAC
1 AGTCAAACGATGATGAAAAGAGTTTGACTAGATAC
* *
124115 AGTCATACAATGATGAAAAGAGTTTGACTAGATAC
1 AGTCAAACGATGATGAAAAGAGTTTGACTAGATAC
*** * * *
124150 AGTTTGACGATCG-T-AGAAAGGGTTTGAATAGATAT
1 AGTCAAACGAT-GATGA-AAAGAGTTTGACTAGATAC
* * * **
124185 AGACAAACTATGGTGGGAAGAGTTTGACTAGATAC
1 AGTCAAACGATGATGAAAAGAGTTTGACTAGATAC
* * *
124220 GGTC-AACGATAATGGAAAGAGTTTGACTAGATAC
1 AGTCAAACGATGATGAAAAGAGTTTGACTAGATAC
* * *
124254 GGTCAAACGATGATGAAAAGAGTTTGACCAGATAT
1 AGTCAAACGATGATGAAAAGAGTTTGACTAGATAC
* * ** * * * * *
124289 AATTAAATAATGGT-AGGAAGAATTTGACCAGATGC
1 AGTCAAACGATGATGA-AAAGAGTTTGACTAGATAC
* * *
124324 AGTCAAATGATGATGGAAA-AGTTTGACCAGATAC
1 AGTCAAACGATGATGAAAAGAGTTTGACTAGATAC
124358 A
1 A
124359 ATCTTTATGA
Statistics
Matches: 214, Mismatches: 58, Indels: 15
0.75 0.20 0.05
Matches are distributed among these distances:
34 47 0.22
35 166 0.78
36 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (35 bp):
AGTCAAACGATGATGAAAAGAGTTTGACTAGATAC
Found at i:124160 original size:70 final size:69
Alignment explanation
Indices: 124085--124287 Score: 210
Period size: 69 Copynumber: 2.9 Consensus size: 69
124075 AATATAGCCA
* * *
124085 AACGATGATGGAAAGAGTTTGACCAAATACAGTCATACAATGATGAAAAGAGTTTGACTAGATAC
1 AACGATGATGGAAAGAGTTTGACTAGATACAGTCAAACAATGATGAAAAGAGTTTGACTAGATAC
* *
124150 AGTTT
66 -GGTC
* * * * * * * * **
124155 GACGATCG-TAGAAAGGGTTTGAATAGATATAGACAAACTATGGTGGGAAGAGTTTGACTAGATA
1 AACGAT-GATGGAAAGAGTTTGACTAGATACAGTCAAACAATGATGAAAAGAGTTTGACTAGATA
124219 CGGTC
65 CGGTC
* * * *
124224 AACGATAATGGAAAGAGTTTGACTAGATACGGTCAAACGATGATGAAAAGAGTTTGACCAGATA
1 AACGATGATGGAAAGAGTTTGACTAGATACAGTCAAACAATGATGAAAAGAGTTTGACTAGATA
124288 TAATTAAATA
Statistics
Matches: 103, Mismatches: 28, Indels: 5
0.76 0.21 0.04
Matches are distributed among these distances:
69 52 0.50
70 50 0.49
71 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (69 bp):
AACGATGATGGAAAGAGTTTGACTAGATACAGTCAAACAATGATGAAAAGAGTTTGACTAGATAC
GGTC
Found at i:124279 original size:104 final size:104
Alignment explanation
Indices: 124067--124358 Score: 270
Period size: 104 Copynumber: 2.8 Consensus size: 104
124057 ATGAAAACAA
* * * * * * * * *
124067 TTTGACCAAATATAGCCAAACGATGATGGAAAGAGTTTGACCAAATACAGTCATACAATGATGAA
1 TTTGAACAGATATAGACAAACTATGGTGGGAAGAGTTTGACCAGATACAGTCA-ACGATGATGGA
*** *
124132 AAGAGTTTGACTAGATACAGTTTGACGATCGTAGAAAGGG
65 AAGAGTTTGACTAGATACAGTCAAACGATCGTAGAAAGAG
* * * *
124172 TTTGAATAGATATAGACAAACTATGGTGGGAAGAGTTTGACTAGATACGGTCAACGATAATGGAA
1 TTTGAACAGATATAGACAAACTATGGTGGGAAGAGTTTGACCAGATACAGTCAACGATGATGGAA
*
124237 AGAGTTTGACTAGATACGGTCAAACGAT-G-ATGAAAAGAG
66 AGAGTTTGACTAGATACAGTCAAACGATCGTA-G-AAAGAG
* * * * * *
124276 TTTGACCAGATATA-ATTAAA-TAATGGTAGGAAGAATTTGACCAGATGCAGTCAAATGATGATG
1 TTTGAACAGATATAGA-CAAACT-ATGGTGGGAAGAGTTTGACCAGATACAGTC-AACGATGATG
*
124339 GAAA-AGTTTGACCAGATACA
63 GAAAGAGTTTGACTAGATACA
124359 ATCTTTATGA
Statistics
Matches: 152, Mismatches: 30, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
102 1 0.01
103 4 0.03
104 92 0.61
105 55 0.36
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (104 bp):
TTTGAACAGATATAGACAAACTATGGTGGGAAGAGTTTGACCAGATACAGTCAACGATGATGGAA
AGAGTTTGACTAGATACAGTCAAACGATCGTAGAAAGAG
Found at i:124713 original size:19 final size:18
Alignment explanation
Indices: 124685--124742 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
124675 TTGTATCAAT
*
124685 ACATTATATCGATACATG
1 ACATTGTATCGATACATG
*
124703 ATCATTGTATCGATATATG
1 A-CATTGTATCGATACATG
*
124722 CACAATTGTATCAATACATG
1 -AC-ATTGTATCGATACATG
124742 A
1 A
124743 AACTGGCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 15 0.45
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:124809 original size:34 final size:33
Alignment explanation
Indices: 124771--124836 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
124761 TACCATTGTT
* *
124771 TGTATCGATACATGGCACATTTGTATCGATACAA
1 TGTATCGATACAT-GAACAATTGTATCGATACAA
* *
124805 TGTATTGATACATGAAGAATTGTATCGATACA
1 TGTATCGATACATGAACAATTGTATCGATACA
124837 TTGTCCCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGAACAATTGTATCGATACAA
Found at i:126263 original size:9 final size:9
Alignment explanation
Indices: 126249--126274 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
126239 TTTTGAAGAA
126249 TCATCCGAC
1 TCATCCGAC
126258 TCATCCGAC
1 TCATCCGAC
126267 TCATCCGA
1 TCATCCGA
126275 TGACGATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.42, G:0.12, T:0.23
Consensus pattern (9 bp):
TCATCCGAC
Found at i:137075 original size:78 final size:79
Alignment explanation
Indices: 136993--137335 Score: 315
Period size: 80 Copynumber: 4.3 Consensus size: 79
136983 CTAAAGATGG
* * *
136993 AAAA-TCGATATTTTAGAAATAAAAATAGGGTTGGAGTATCCCCTCGAAAATGATGGGGTT-GAA
1 AAAATTCGATATTTTAGAAGTAAAAAT-GGGTTGGAGTATCCCCTCGAAAATGATAGGGTTAGAG
* *
137056 CATCCCCTATGGTGA
65 TATCCCCGATGGTGA
* * * * * *
137071 AAAA-TCAAGATTTTAGAAGTAAAAATGGAGTTAGAGTATCTCCT-TAGAAATGATTGGGTTAGA
1 AAAATTCGATATTTTAGAAGTAAAAATGG-GTTGGAGTATCCCCTCGA-AAATGATAGGGTTAGA
137134 GTAT-CCCGATGGTGA
64 GTATCCCCGATGGTGA
* * * *
137149 AAAATTTGATA-TTTAGGAAGTAAAAACGAGGTTGGAGTATCCCCTCGAAAATGATAGGATTGGA
1 AAAATTCGATATTTTA-GAAGTAAAAATG-GGTTGGAGTATCCCCTCGAAAATGATAGGGTTAGA
*
137213 GTATCCCGGATGGT-A
64 GTATCCCCGATGGTGA
* * * **
137228 AAAATTTTGATATTTTAGAAGTAAAAACGGGGTTGGAGTATCCCCT-AAGAAATGATATAGTTAG
1 AAAA-TTCGATATTTTAGAAGTAAAAA-TGGGTTGGAGTATCCCCTCGA-AAATGATAGGGTTAG
* * * *
137292 AATATCCTCAACGGTGA
63 AGTATCCCCGATGGTGA
* *
137309 AAAATTCAATATTTTGGAAGTAAAAAT
1 AAAATTCGATATTTTAGAAGTAAAAAT
137336 TTAAAAATTT
Statistics
Matches: 216, Mismatches: 36, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
77 3 0.01
78 66 0.31
79 54 0.25
80 83 0.38
81 10 0.05
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (79 bp):
AAAATTCGATATTTTAGAAGTAAAAATGGGTTGGAGTATCCCCTCGAAAATGATAGGGTTAGAGT
ATCCCCGATGGTGA
Found at i:138857 original size:13 final size:13
Alignment explanation
Indices: 138839--138865 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
138829 ACATGCTGCT
138839 TTGTATCGATACA
1 TTGTATCGATACA
138852 TTGTATCGATACA
1 TTGTATCGATACA
138865 T
1 T
138866 GGACAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:142859 original size:13 final size:13
Alignment explanation
Indices: 142841--142866 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
142831 AATTTTTTTG
142841 TGTATCGATACAT
1 TGTATCGATACAT
142854 TGTATCGATACAT
1 TGTATCGATACAT
142867 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:144615 original size:21 final size:21
Alignment explanation
Indices: 144589--144665 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
144579 AAATTATCCA
144589 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
144610 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* * *
144631 AATGTATTGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
144652 AATGTATCGATACA
1 AATGTATCGATACA
144666 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:144721 original size:13 final size:13
Alignment explanation
Indices: 144703--144727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144693 TTCAACAATT
144703 TGTATCGATACAA
1 TGTATCGATACAA
144716 TGTATCGATACA
1 TGTATCGATACA
144728 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:144807 original size:13 final size:13
Alignment explanation
Indices: 144789--144814 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
144779 CATTTCTCTG
144789 TGTATCGATACAT
1 TGTATCGATACAT
144802 TGTATCGATACAT
1 TGTATCGATACAT
144815 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:144811 original size:33 final size:33
Alignment explanation
Indices: 144769--144835 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
144759 GCCAAGGAAA
***
144769 TGTATCGATACATTTCTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
144802 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
144835 T
1 T
144836 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:147361 original size:28 final size:27
Alignment explanation
Indices: 147291--147366 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
147281 AATTTTCACA
147291 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
147318 ATCGGGGATACTCCAACCCTGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
147344 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
147367 ACTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.09
27 22 0.51
28 17 0.40
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:147528 original size:53 final size:52
Alignment explanation
Indices: 147349--147571 Score: 204
Period size: 52 Copynumber: 4.3 Consensus size: 52
147339 TTATTTTCGA
** * ***
147349 GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAA-CCCGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
* * * * *
147400 GGGGATACTCTAACCTCGGTTTTA-TTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACC-CGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
* *
147452 GGGGATACTCCAACCCTGGTTTTATTTTC-AAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCC-GGTTTTATTTCCAAAAACACCAATTTTTCC-ATAATC
* * * *
147505 GGGGACACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
*
147557 GAGGATACTCCAACC
1 GGGGATACTCCAACC
147572 TCGTTATCTC
Statistics
Matches: 143, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
50 5 0.03
51 32 0.22
52 59 0.41
53 31 0.22
54 16 0.11
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
Found at i:147649 original size:264 final size:262
Alignment explanation
Indices: 147177--147678 Score: 729
Period size: 264 Copynumber: 1.9 Consensus size: 262
147167 TTCTCAATTC
* * *
147177 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGAGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGA
* *
147242 TACTCCAACTCCGATTTTATTTCCAAAAAAAAAACACCAAATTTTCACAATCGGGGATACTCCAA
66 CACTCCAACTCCGATTTTATTTCC----AAAAAACACCAAATTTTCACAATCGAGGATACTCCAA
* * *
147307 CCCCGTTAATCATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTT
127 CCCCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
* * *
147372 ATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCTAACCTCGGTTTTATTGCTAAAACACT
192 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACT
147437 AATTTT
257 AATTTT
* * *
147443 TCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAA-TTTT-CTATAATCGA
* *
147507 GGACACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTTTTCACAATCGAGGATACTCCAAC
63 GGACACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAAC
* * * *
147571 CTCGTTATCTCATCTGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
128 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTT
*
147636 ATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
192 ATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
147679 CCGTTACTTT
Statistics
Matches: 211, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
263 40 0.19
264 90 0.43
265 2 0.01
266 41 0.19
267 4 0.02
268 34 0.16
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (262 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGAGGA
CACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGAGGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTC
CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATT
TT
Found at i:156939 original size:21 final size:20
Alignment explanation
Indices: 156910--156952 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
156900 GGCTAGTATG
*
156910 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
156931 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
156951 GG
1 GG
156953 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:157398 original size:13 final size:13
Alignment explanation
Indices: 157380--157415 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
157370 ATAATCCCCC
157380 TGTATCGATACAG
1 TGTATCGATACAG
*
157393 TGTATCGATACAT
1 TGTATCGATACAG
*
157406 TCTATCGATA
1 TGTATCGATA
157416 TAAAGAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:159508 original size:15 final size:15
Alignment explanation
Indices: 159488--159518 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
159478 ATTTCGTTAG
*
159488 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
159503 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
159518 G
1 G
159519 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:160965 original size:21 final size:21
Alignment explanation
Indices: 160936--160980 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
160926 AAGTTTTTAT
*
160936 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
160956 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
160978 TTT
1 TTT
160981 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:163213 original size:13 final size:13
Alignment explanation
Indices: 163195--163220 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
163185 AATTTTTTTG
163195 TGTATCGATACAT
1 TGTATCGATACAT
163208 TGTATCGATACAT
1 TGTATCGATACAT
163221 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:166304 original size:13 final size:13
Alignment explanation
Indices: 166286--166314 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
166276 ACAACATTCC
166286 TTGTATCGATACA
1 TTGTATCGATACA
166299 TTGTATCGATACA
1 TTGTATCGATACA
166312 TTG
1 TTG
166315 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:166424 original size:10 final size:10
Alignment explanation
Indices: 166409--166435 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
166399 AACACCTCTC
166409 CATCAAAATT
1 CATCAAAATT
166419 CATCAAAATT
1 CATCAAAATT
166429 CATCAAA
1 CATCAAA
166436 TTTTCCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (10 bp):
CATCAAAATT
Found at i:168770 original size:13 final size:13
Alignment explanation
Indices: 168752--168778 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
168742 ACATGCTGCT
168752 TTGTATCGATACA
1 TTGTATCGATACA
168765 TTGTATCGATACA
1 TTGTATCGATACA
168778 T
1 T
168779 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:168775 original size:33 final size:32
Alignment explanation
Indices: 168733--168797 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
168723 CACATCCAGA
*
168733 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
168766 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
168798 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Done.