Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008576.1 Hibiscus syriacus cultivar Beakdansim tig00111505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 399473
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:8607 original size:22 final size:22
Alignment explanation
Indices: 8579--8631 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
8569 TATAGATACA
8579 ATAAAATTTTAGGATGGGCACG
1 ATAAAATTTTAGGATGGGCACG
*
8601 ATAAAATTTTAGGATGGGTACG
1 ATAAAATTTTAGGATGGGCACG
8623 ATAAAATTT
1 ATAAAATTT
8632 CAGGGGACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.32
Consensus pattern (22 bp):
ATAAAATTTTAGGATGGGCACG
Found at i:8687 original size:20 final size:22
Alignment explanation
Indices: 8649--8688 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8639 CACACATATA
*
8649 TTAAGAGAAAAAACTTCAAATT
1 TTAAGAGAAAAAACATCAAATT
8671 TTAAGA-AAAAAA-ATCAAA
1 TTAAGAGAAAAAACATCAAA
8689 CTATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.23
Consensus pattern (22 bp):
TTAAGAGAAAAAACATCAAATT
Found at i:10506 original size:20 final size:21
Alignment explanation
Indices: 10460--10506 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
10450 AATCATTTCC
10460 ATTTAATATTTTCATAATCAA
1 ATTTAATATTTTCATAATCAA
* * *
10481 A-ATAATATTTT-TTATTCAA
1 ATTTAATATTTTCATAATCAA
10500 ATTTAAT
1 ATTTAAT
10507 GATAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 7 0.33
20 13 0.62
21 1 0.05
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAATATTTTCATAATCAA
Found at i:11801 original size:24 final size:23
Alignment explanation
Indices: 11769--11818 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
11759 AAATTAAAAT
11769 AAATCATTAAGTAAT-AAATAATTA
1 AAATCATTAA--AATAAAATAATTA
* *
11793 AAATTATTAAAATAAAATTATTA
1 AAATCATTAAAATAAAATAATTA
11816 AAA
1 AAA
11819 AATAATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 11 0.48
24 9 0.39
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATCATTAAAATAAAATAATTA
Found at i:11823 original size:38 final size:36
Alignment explanation
Indices: 11745--11823 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 36
11735 CTTAAATTAT
**
11745 AATAAAAATAAAATAAATTAAAATAAATCATTAAGT
1 AATAAAAATAAAATAAATTAAAATAAATCATTAAAA
* *
11781 AATAAATAATTAAAAT-TATTAAAATAAAATTATTAAAA
1 AATAAA-AA-TAAAATAAATTAAAAT-AAATCATTAAAA
11819 AATAA
1 AATAA
11824 TTTTGATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 6 0.17
37 10 0.28
38 20 0.56
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (36 bp):
AATAAAAATAAAATAAATTAAAATAAATCATTAAAA
Found at i:11825 original size:14 final size:14
Alignment explanation
Indices: 11791--11818 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11781 AATAAATAAT
11791 TAAAATTATTAAAA
1 TAAAATTATTAAAA
11805 TAAAATTATTAAAA
1 TAAAATTATTAAAA
11819 AATAATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAATTATTAAAA
Found at i:11849 original size:27 final size:25
Alignment explanation
Indices: 11807--11862 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
11797 TATTAAAATA
*
11807 AAATTATTAAAAAATAATTTTGATATT
1 AAATTATTAAAAAATAA-ATT-ATATT
**
11834 AAATTATTAAGTAATAAATTATATT
1 AAATTATTAAAAAATAAATTATATT
11859 AAAT
1 AAAT
11863 ATAGAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 15 0.58
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATTATTAAAAAATAAATTATATT
Found at i:11913 original size:25 final size:28
Alignment explanation
Indices: 11885--11937 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
11875 TTATATTTAC
11885 TTTTAAATA-GTTAA-AATAAATTATTT
1 TTTTAAATATGTTAATAATAAATTATTT
* *
11911 TTTTAAGTATGTTAATATTAAATTATT
1 TTTTAAATATGTTAATAATAAATTATT
11938 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 5 0.22
28 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (28 bp):
TTTTAAATATGTTAATAATAAATTATTT
Found at i:24486 original size:15 final size:15
Alignment explanation
Indices: 24466--24494 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24456 GAGTCATTAC
24466 CCGCCCCGCATCCGT
1 CCGCCCCGCATCCGT
24481 CCGCCCCGCATCCG
1 CCGCCCCGCATCCG
24495 CCCATCTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.62, G:0.21, T:0.10
Consensus pattern (15 bp):
CCGCCCCGCATCCGT
Found at i:25334 original size:2 final size:2
Alignment explanation
Indices: 25327--25359 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
25317 ATGTTTTCTA
25327 AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25360 ACCAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:26146 original size:2 final size:2
Alignment explanation
Indices: 26139--26167 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26129 TTCAAGAATA
26139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26168 ACGATGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26360 original size:12 final size:13
Alignment explanation
Indices: 26323--26364 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
26313 GGATTAAATT
*
26323 AAATATATACTTTA
1 AAAT-TATATTTTA
26337 AAATTATATTTTA
1 AAATTATATTTTA
*
26350 AACTT-TATTTTA
1 AAATTATATTTTA
26362 AAA
1 AAA
26365 AAATCCTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 9 0.36
13 12 0.48
14 4 0.16
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTATATTTTA
Found at i:27296 original size:30 final size:30
Alignment explanation
Indices: 27243--27299 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
27233 TTATCTATTT
27243 TTTAATATTTTTATATTCGGTTTGTGTACG
1 TTTAATATTTTTATATTCGGTTTGTGTACG
27273 TTTAA-ATTTTTA-ATATCGTGTTTGTGT
1 TTTAATATTTTTATAT-TCG-GTTTGTGT
27300 TCTATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 2 0.08
29 10 0.40
30 13 0.52
ACGTcount: A:0.21, C:0.05, G:0.16, T:0.58
Consensus pattern (30 bp):
TTTAATATTTTTATATTCGGTTTGTGTACG
Found at i:27448 original size:23 final size:23
Alignment explanation
Indices: 27399--27469 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
27389 GTTCGTGAAT
* * * *
27399 ATGTTCGTTTAGTGTTTACTAAT
1 ATGTTCGTTTAGTATTCACAAAC
27422 ATGTTCGTTTAGTATTCACAAAC
1 ATGTTCGTTTAGTATTCACAAAC
** *
27445 ATGTTATTTTATATATTCACAAAC
1 ATGTTCGTTTA-GTATTCACAAAC
27469 A
1 A
27470 ACGAAATAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 28 0.70
24 12 0.30
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (23 bp):
ATGTTCGTTTAGTATTCACAAAC
Found at i:34795 original size:9 final size:10
Alignment explanation
Indices: 34773--34800 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
34763 AACTAAAATT
34773 AAAATTTTCA
1 AAAATTTTCA
34783 AAAATTTTCA
1 AAAATTTTCA
34793 AAAATTTT
1 AAAATTTT
34801 GAAGGGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
AAAATTTTCA
Found at i:41143 original size:2 final size:2
Alignment explanation
Indices: 41136--41166 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
41126 AGAAAGTAAA
41136 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41167 ATTAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43397 original size:60 final size:60
Alignment explanation
Indices: 43297--43436 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
43287 TTTAAACATC
** ** ** * * *
43297 TGAATATTCTAATTTCATCTTTAAACTATGATTTTTTTTCTAAATTATTCCTTGAACTTT
1 TGAATATTCTAATTTCATCCCTAAACTATGACCTCCTTTCTAAATTAGTCCCTAAACTTT
* *
43357 TGAACATTCTAATCTCATCCCTAAACTATGACCTCCTTTCTAAATTAGTCCCTAAACTTT
1 TGAATATTCTAATTTCATCCCTAAACTATGACCTCCTTTCTAAATTAGTCCCTAAACTTT
* *
43417 TAAATGTTCTAATTTCATCC
1 TGAATATTCTAATTTCATCC
43437 TCCAAATTCA
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (60 bp):
TGAATATTCTAATTTCATCCCTAAACTATGACCTCCTTTCTAAATTAGTCCCTAAACTTT
Found at i:43698 original size:60 final size:59
Alignment explanation
Indices: 43565--43741 Score: 169
Period size: 60 Copynumber: 2.9 Consensus size: 59
43555 AGTATATATG
* * * **
43565 CATAGTTTGGAATGGAATTGGAATGTTCAAAAAGTTTGGGGACCAATTTAGAATGAAGGTCA
1 CATAGTTTGGAATGAAATTGGAATGTTC-AAAAGTTTGAGGACTAATTTAGAATGAA--AAA
* * *
43627 CGATA--TGGGAATAAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGAAAAA
1 C-ATAGTTTGGAATGAAATTGGAATGTTCAAAAGTTTGAGGACTAATTTAGAATGAAAAA
* * * * * *
43685 CATAGTTTAGGAATGAAATTGGAATATTTAAAAGTTTAAAGATTAATTTAAAATGAA
1 CATAGTTT-GGAATGAAATTGGAATGTTCAAAAGTTTGAGGACTAATTTAGAATGAA
43742 GGTTATAGTT
Statistics
Matches: 94, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 1 0.01
60 66 0.70
61 18 0.19
62 1 0.01
63 3 0.03
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (59 bp):
CATAGTTTGGAATGAAATTGGAATGTTCAAAAGTTTGAGGACTAATTTAGAATGAAAAA
Found at i:44802 original size:2 final size:2
Alignment explanation
Indices: 44795--44824 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
44785 AAATATTTAG
44795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44825 TAAAATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54486 original size:29 final size:29
Alignment explanation
Indices: 54430--54505 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
54420 GGTCCCCAAT
54430 TCTTTT-TATTTATAATTAAGACTCCTAA
1 TCTTTTATATTTATAATTAAGACTCCTAA
**
54458 T-TTTGTATATTTATAATT-AGGGTCTCTAA
1 TCTTT-TATATTTATAATTAAGACTC-CTAA
*
54487 TCTTTTAAATTTAATAATT
1 TCTTTTATATTT-ATAATT
54506 TTTTTAGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 3 0.08
28 6 0.15
29 22 0.55
30 9 0.22
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.53
Consensus pattern (29 bp):
TCTTTTATATTTATAATTAAGACTCCTAA
Found at i:54807 original size:19 final size:20
Alignment explanation
Indices: 54770--54810 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
54760 TAATAAAATA
54770 ATAAAATATAATATATTTTT
1 ATAAAATATAATATATTTTT
54790 ATAAAATATAAT-TATTTTT
1 ATAAAATATAATATATTTTT
54809 AT
1 AT
54811 GTGATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAAAATATAATATATTTTT
Found at i:56827 original size:18 final size:18
Alignment explanation
Indices: 56804--56876 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
56794 AGGGATTATC
56804 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
56822 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
56841 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
56860 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
56877 AATATTTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 30 0.62
19 4 0.08
20 14 0.29
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:59367 original size:16 final size:16
Alignment explanation
Indices: 59346--59378 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59336 CACGTGAGGA
59346 TTATTT-TCTTCTTATT
1 TTATTTATCTT-TTATT
59362 TTATTTATCTTTTATT
1 TTATTTATCTTTTATT
59378 T
1 T
59379 ATGTTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTATCTTTTATT
Found at i:74419 original size:63 final size:63
Alignment explanation
Indices: 74299--74441 Score: 155
Period size: 63 Copynumber: 2.3 Consensus size: 63
74289 ATGCACATGA
* * * **
74299 AGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATCAGTGTATTGATGCACAAG-T
1 AGTGCATCGATGCAC-CCTCTAAAATAAAAACATCGAATGGCATCAGTGTACCGATGCA-AAGAT
* * * * *
74363 GGTGCATCGATGCACCCTCTAAAATACAAACATCGAATGGGATTTA-TGTACCGATGCATAGAT
1 AGTGCATCGATGCACCCTCTAAAATAAAAACATCGAATGGCA-TCAGTGTACCGATGCAAAGAT
74426 AGTGCATCGATGCACC
1 AGTGCATCGATGCACC
74442 TGTCAAGGGA
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
62 2 0.03
63 49 0.74
64 15 0.23
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (63 bp):
AGTGCATCGATGCACCCTCTAAAATAAAAACATCGAATGGCATCAGTGTACCGATGCAAAGAT
Found at i:75025 original size:18 final size:19
Alignment explanation
Indices: 74999--75056 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
74989 CCGAGGGATT
74999 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
* * *
75018 AT-AGTGGTTCTTCGGAATA
1 ATCAGTGGTCCTTCGGGA-C
75037 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
75056 A
1 A
75057 AATATTCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 13 0.42
19 5 0.16
20 13 0.42
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGGAC
Found at i:76200 original size:23 final size:23
Alignment explanation
Indices: 76139--76202 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
76129 CACCACAGCT
*
76139 CGTAGAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGTAGTGCCA
* *
76162 CGTAGAATTGCACCGTAGTGTCG
1 CGTAGAATTGCACCGTAGTGCCA
76185 CGTAGAATTGCACCGTAG
1 CGTAGAATTGCACCGTAG
76203 CCATATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGTAGTGCCA
Found at i:77181 original size:21 final size:21
Alignment explanation
Indices: 77149--77191 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
77139 TGTTTGTTTA
77149 ATTGAGAGTGCATCGATGCAC
1 ATTGAGAGTGCATCGATGCAC
77170 ATTGA-AGATGCATCGATGCAC
1 ATTGAGAG-TGCATCGATGCAC
77191 A
1 A
77192 CAACCCAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (21 bp):
ATTGAGAGTGCATCGATGCAC
Found at i:78277 original size:14 final size:14
Alignment explanation
Indices: 78255--78347 Score: 53
Period size: 14 Copynumber: 6.4 Consensus size: 14
78245 GGTTAGGGTG
78255 TTACATAAAATGAA
1 TTACATAAAATGAA
* *
78269 TTACCTAAAAAACTG-T
1 TTA-C-ATAAAA-TGAA
78285 TTACATAAAATGAA
1 TTACATAAAATGAA
* * **
78299 ATATATGAAAATGTT
1 TTACAT-AAAATGAA
*
78314 TTACGTAAAATGAA
1 TTACATAAAATGAA
* * *
78328 TTGCCTAAAATAAA
1 TTACATAAAATGAA
78342 TTACAT
1 TTACAT
78348 TTTGTAAAAA
Statistics
Matches: 56, Mismatches: 18, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
13 2 0.04
14 33 0.59
15 11 0.20
16 8 0.14
17 2 0.04
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (14 bp):
TTACATAAAATGAA
Found at i:78289 original size:30 final size:30
Alignment explanation
Indices: 78255--78337 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 30
78245 GGTTAGGGTG
78255 TTACATAAAATGAATTACCTAAAAAACTG-T
1 TTACATAAAATGAATTACCTAAAAAA-TGTT
* *
78285 TTACATAAAATGAAATA--TATGAAAATGTT
1 TTACATAAAATGAATTACCTA-AAAAATGTT
* *
78314 TTACGTAAAATGAATTGCCTAAAA
1 TTACATAAAATGAATTACCTAAAA
78338 TAAATTACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
28 4 0.09
29 19 0.44
30 18 0.42
31 2 0.05
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (30 bp):
TTACATAAAATGAATTACCTAAAAAATGTT
Found at i:81695 original size:16 final size:16
Alignment explanation
Indices: 81656--81695 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
81646 TTGAAAGTTT
81656 TAATTTTAAGACATTG
1 TAATTTTAAGACATTG
81672 TCAATTTTAAGACA-TG
1 T-AATTTTAAGACATTG
81688 ATAATTTT
1 -TAATTTT
81696 TCTAAATCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (16 bp):
TAATTTTAAGACATTG
Found at i:84816 original size:31 final size:29
Alignment explanation
Indices: 84772--84883 Score: 73
Period size: 30 Copynumber: 3.6 Consensus size: 29
84762 TAAAAGGGGT
*
84772 AAACTTCATTTTGGCTCCCTCTGTTTTGAA
1 AAACTTCAATTTGG-TCCCTCTGTTTTGAA
* * **
84802 AAACATTCAATTTGGTCCC-CAAATCGGTTGGGT
1 AAAC-TTCAATTTGGTCCCTC---T-GTTTTGAA
* *
84835 AAACTTCATTTTGGCTCCCTCTGTTTTAAA
1 AAACTTCAATTTGG-TCCCTCTGTTTTGAA
*
84865 AAACATTTAATTTGGTCCC
1 AAAC-TTCAATTTGGTCCC
84884 CAAATCGGTT
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
29 1 0.02
30 19 0.31
31 18 0.30
32 10 0.16
33 12 0.20
34 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (29 bp):
AAACTTCAATTTGGTCCCTCTGTTTTGAA
Found at i:84867 original size:63 final size:63
Alignment explanation
Indices: 84768--84893 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
84758 TTGCTAAAAG
*
84768 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTGAAAAACATTCAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAATCGGTT
*
84831 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTTAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAATCGGTT
84894 TAATTCCCCT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (63 bp):
GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAATCGGTT
Found at i:96725 original size:105 final size:105
Alignment explanation
Indices: 96543--97351 Score: 1359
Period size: 105 Copynumber: 7.7 Consensus size: 105
96533 AGGTTTTACC
96543 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
96608 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
96648 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
96713 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
96753 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
96818 ACGAAGGGACCGCTGGTTGTCAACAAACATTCCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
96858 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
96923 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTC
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
96963 CAGAGTCAAGTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
97028 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCTC-ATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTT-CTCAATTT
* *
97068 CAGAGCCAATTTCAACTTCACAACAAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
97133 ACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
97173 CAGAACCAATTTCAAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCAC
1 CAGAGCCAATTTC-AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* * * * *
97238 GACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAACTT
65 GACGAAGGGACCGCTGGTTGTCAACAAA-CATTTCTCAATTT
* * **** *
97280 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCAAGACAGTATAAGTTCAACGTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
97345 ACGAAGG
66 ACGAAGG
97352 AGCTATAAAC
Statistics
Matches: 670, Mismatches: 30, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
104 2 0.00
105 518 0.77
106 128 0.19
107 22 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:98823 original size:63 final size:63
Alignment explanation
Indices: 98724--98849 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
98714 TTGCTAAAAG
*
98724 GGGTAAACTTCATTTTGGCTCCCTCTATTTTGAAAAACATTCAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTATTTTAAAAAACATTCAATTTGGTCCCCAAATCGGTT
* *
98787 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTTAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTATTTTAAAAAACATTCAATTTGGTCCCCAAATCGGTT
98850 TAATTCCCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (63 bp):
GGGTAAACTTCATTTTGGCTCCCTCTATTTTAAAAAACATTCAATTTGGTCCCCAAATCGGTT
Found at i:99119 original size:20 final size:20
Alignment explanation
Indices: 99084--99123 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
99074 CTCATATTCG
*
99084 CTTTTTTTTATATATTATTTT
1 CTTTGTTTTATATATT-TTTT
99105 CTTTGTTTT-TATATTTTTT
1 CTTTGTTTTATATATTTTTT
99124 GTTCATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (20 bp):
CTTTGTTTTATATATTTTTT
Found at i:100922 original size:22 final size:21
Alignment explanation
Indices: 100897--100946 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
100887 ATCAATAAAA
* *
100897 ATATAGTTTTATACTAATATTT
1 ATATAATTTTATAATAA-ATTT
100919 ATATAATTTTATAATAAATTT
1 ATATAATTTTATAATAAATTT
*
100940 AAATAAT
1 ATATAAT
100947 AATTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATAATTTTATAATAAATTT
Found at i:100945 original size:21 final size:22
Alignment explanation
Indices: 100903--100946 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
100893 AAAAATATAG
* *
100903 TTTTATACTAATATTTATATAA
1 TTTTATAATAATATTTAAATAA
100925 TTTTATAATAA-ATTTAAATAA
1 TTTTATAATAATATTTAAATAA
100946 T
1 T
100947 AATTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTATAATAATATTTAAATAA
Found at i:103015 original size:16 final size:16
Alignment explanation
Indices: 102979--103015 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
102969 GATCAAAACT
*
102979 AATAGTTTGATTATTA
1 AATATTTTGATTATTA
102995 AATATTTTGATTATTA
1 AATATTTTGATTATTA
103011 AATAT
1 AATAT
103016 GTAGTTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
AATATTTTGATTATTA
Found at i:107455 original size:39 final size:38
Alignment explanation
Indices: 107397--107475 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 38
107387 ACTTAATGTT
* * *
107397 AAATTTTGAACGAAAGTACTAAAATTAAACAAAAACTA
1 AAATTTTGAACAAAAGTACTAAAATGAAACAAAAAATA
* *
107435 AAATTTTTAACAACAAGTACTAAAATGAAATAAAAAATA
1 AAATTTTGAACAA-AAGTACTAAAATGAAACAAAAAATA
107474 AA
1 AA
107476 CTTTAAGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
38 11 0.31
39 24 0.69
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.24
Consensus pattern (38 bp):
AAATTTTGAACAAAAGTACTAAAATGAAACAAAAAATA
Found at i:108980 original size:68 final size:69
Alignment explanation
Indices: 108828--108995 Score: 243
Period size: 68 Copynumber: 2.4 Consensus size: 69
108818 TTGTTGCTGG
* * **
108828 ATTTGCTTGAATTAGTTGGCTTT-TAGGGATGAAATTGAGTGTTGTTGTAGTACTTTTGGGGTTT
1 ATTTGTTTGAATTTGTTGG-TTTGTAGGGATGAAATTGAG-GTTGTTGTAACACTTTTGGGGTTT
108892 GATAGC
64 GATAGC
108898 ATTTGTTTGAATTTGTTGGTTTGTAGGGATGAAATTGA-G-TGTTGTAACACTTTTGGGGGTTTG
1 ATTTGTTTGAATTTGTTGGTTTGTAGGGATGAAATTGAGGTTGTTGTAACACTTTT-GGGGTTTG
108961 ATAGC
65 ATAGC
*
108966 ATTTGTTTGAATTTGTTGGTTTGTTGGGAT
1 ATTTGTTTGAATTTGTTGGTTTGTAGGGAT
108996 TTTAAGTCGA
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
67 13 0.14
68 43 0.47
69 3 0.03
70 32 0.35
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.46
Consensus pattern (69 bp):
ATTTGTTTGAATTTGTTGGTTTGTAGGGATGAAATTGAGGTTGTTGTAACACTTTTGGGGTTTGA
TAGC
Found at i:114654 original size:27 final size:27
Alignment explanation
Indices: 114590--114655 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
114580 GTGTTCCTAA
**
114590 TGGTGGAAATGGCAACCCTAATGCTGC
1 TGGTGGAGGTGGCAACCCTAATGCTGC
* * *
114617 TGGTGGTGGTGGCAACCCTAATGTTGG
1 TGGTGGAGGTGGCAACCCTAATGCTGC
114644 TGGTGGAGGTGG
1 TGGTGGAGGTGG
114656 AGACGGTGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.15, G:0.41, T:0.26
Consensus pattern (27 bp):
TGGTGGAGGTGGCAACCCTAATGCTGC
Found at i:114728 original size:72 final size:72
Alignment explanation
Indices: 114651--114799 Score: 208
Period size: 72 Copynumber: 2.1 Consensus size: 72
114641 TGGTGGTGGA
* ** **
114651 GGTGGAGACGGTGGTGCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGAAGCTGGGGCTAAAGC
1 GGTGGAGACGGAGACGCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGAAGCTGAAGCTAAAGC
*
114716 TGCTGGT
66 TGCCGGT
** * *
114723 GGTGGAGGTGGAGACGCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGCAGCTGAAGCTAAAGT
1 GGTGGAGACGGAGACGCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGAAGCTGAAGCTAAAGC
114788 TGCCGGT
66 TGCCGGT
114795 GGTGG
1 GGTGG
114800 TGGTGGCGGC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.17, C:0.19, G:0.40, T:0.23
Consensus pattern (72 bp):
GGTGGAGACGGAGACGCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGAAGCTGAAGCTAAAGC
TGCCGGT
Found at i:114805 original size:72 final size:72
Alignment explanation
Indices: 114666--114805 Score: 226
Period size: 72 Copynumber: 1.9 Consensus size: 72
114656 AGACGGTGGT
** *
114666 GCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGAAGCTGGGGCTAAAGCTGCTGGTGGTGGAGG
1 GCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGAAGCTGAAGCTAAAGCTGCCGGTGGTGGAGG
114731 TGGAGAC
66 TGGAGAC
* * *
114738 GCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGCAGCTGAAGCTAAAGTTGCCGGTGGTGGTGG
1 GCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGAAGCTGAAGCTAAAGCTGCCGGTGGTGGAGG
114803 TGG
66 TGG
114806 CGGCGGCGGA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.17, C:0.20, G:0.39, T:0.24
Consensus pattern (72 bp):
GCTTCTGCTCAGGCTCGTGCTAAGGCTGAAGCTGAAGCTGAAGCTAAAGCTGCCGGTGGTGGAGG
TGGAGAC
Found at i:117468 original size:96 final size:96
Alignment explanation
Indices: 117368--117607 Score: 252
Period size: 96 Copynumber: 2.5 Consensus size: 96
117358 TGGTAGAAGA
* * * * **
117368 GGTGGAGCTAGTGATTCTGGTAGTGGCCAAGCTATTGTTGGTGGATA-TAGTGGTATC-GTTGCT
1 GGTGGAGCTAGTGATTCTGGCAGTGGTCAAGCTAATGTTGGTGGA-AGTAGTGGT-GCAAATGCT
* * * *
117431 TCTGGTAGTGG-CAAAGCTAATATTGGTGGACAT
64 TCAGGAAATGGTCAAA-CTAATATTAGTGGACAT
* * * * *
117464 GGTGGTGCCAGTGCTTCTGGCAGTGGTCAAGCTAATGCTGGTGGAAGTGGTGGTGCAAATGCTTC
1 GGTGGAGCTAGTGATTCTGGCAGTGGTCAAGCTAATGTTGGTGGAAGTAGTGGTGCAAATGCTTC
117529 AGGAAATGGTCAAACTAATATTAGTGGACAT
66 AGGAAATGGTCAAACTAATATTAGTGGACAT
* * * * *
117560 GGTGGCGCTAGTGTTTCTGGGAGTGATTAAGCTAATGTTGGTGGAAGT
1 GGTGGAGCTAGTGATTCTGGCAGTGGTCAAGCTAATGTTGGTGGAAGT
117608 GGCGACGCTA
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
95 2 0.02
96 113 0.95
97 4 0.03
ACGTcount: A:0.22, C:0.12, G:0.35, T:0.31
Consensus pattern (96 bp):
GGTGGAGCTAGTGATTCTGGCAGTGGTCAAGCTAATGTTGGTGGAAGTAGTGGTGCAAATGCTTC
AGGAAATGGTCAAACTAATATTAGTGGACAT
Found at i:117515 original size:48 final size:48
Alignment explanation
Indices: 117350--117604 Score: 194
Period size: 48 Copynumber: 5.3 Consensus size: 48
117340 TGCTGCTCAG
* * * * * *
117350 GCTAATGTTGGTAGA-AGAGGTGGAGCTAGTGATTCTGGTAGTGGCCAA
1 GCTAATGTTGGTGGACA-TGGTGGTGCCAGTGCTTCTGGTAGTGGTCAA
* * * **
117398 GCTATTGTTGGTGGATATAGTGGTATC-GTTGCTTCTGGTAGTGG-CAAA
1 GCTAATGTTGGTGGACATGGTGGTGCCAG-TGCTTCTGGTAGTGGTC-AA
* *
117446 GCTAATATTGGTGGACATGGTGGTGCCAGTGCTTCTGGCAGTGGTCAA
1 GCTAATGTTGGTGGACATGGTGGTGCCAGTGCTTCTGGTAGTGGTCAA
* * * * * *
117494 GCTAATGCTGGTGGA-AGTGGTGGTGCAAATGCTTCAGGAAATGGTCAA
1 GCTAATGTTGGTGGACA-TGGTGGTGCCAGTGCTTCTGGTAGTGGTCAA
* * * * * * * * *
117542 ACTAATATTAGTGGACATGGTGGCGCTAGTGTTTCTGGGAGTGATTAA
1 GCTAATGTTGGTGGACATGGTGGTGCCAGTGCTTCTGGTAGTGGTCAA
117590 GCTAATGTTGGTGGA
1 GCTAATGTTGGTGGA
117605 AGTGGCGACG
Statistics
Matches: 161, Mismatches: 39, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
47 3 0.02
48 154 0.96
49 4 0.02
ACGTcount: A:0.23, C:0.12, G:0.35, T:0.31
Consensus pattern (48 bp):
GCTAATGTTGGTGGACATGGTGGTGCCAGTGCTTCTGGTAGTGGTCAA
Found at i:117847 original size:95 final size:96
Alignment explanation
Indices: 117733--117959 Score: 276
Period size: 95 Copynumber: 2.4 Consensus size: 96
117723 AAGTGGTACT
* * * *** * *
117733 GCTAGTGCTTCTGGTAGTGGTCAAGCTAACGTTGGTTGAAGTGGTGTCGCTATTGCTTCTAGGAA
1 GCTAGTGCTTCCGGTAGTGGTCAAGCTAATGTTGGTGGAAGTGGTGGAACTAGTGCTTCCAGGAA
*
117798 AAGTGAAGCTAAAAGT-GAGGAAGTAGTGGC
66 AAGTGAAGCTAAAAGTGGAGAAAGTAGTGGC
* * * *
117828 GCTAGTACTTCCGGAAGTGGTCAAGCTAATGTTGGTGGAAGTGGTGGAATTAGTGCTTCCGGGAA
1 GCTAGTGCTTCCGGTAGTGGTCAAGCTAATGTTGGTGGAAGTGGTGGAACTAGTGCTTCCAGGAA
** *
117893 GGGTGAAGCTAAAAGTGGAGAAAGTAGTGGG
66 AAGTGAAGCTAAAAGTGGAGAAAGTAGTGGC
* * *
117924 GCCAGTGCTTCCAGTAGTGGTCAAGATAATGTTGGT
1 GCTAGTGCTTCCGGTAGTGGTCAAGCTAATGTTGGT
117960 AGAAATGGAG
Statistics
Matches: 110, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
95 67 0.61
96 43 0.39
ACGTcount: A:0.26, C:0.12, G:0.35, T:0.27
Consensus pattern (96 bp):
GCTAGTGCTTCCGGTAGTGGTCAAGCTAATGTTGGTGGAAGTGGTGGAACTAGTGCTTCCAGGAA
AAGTGAAGCTAAAAGTGGAGAAAGTAGTGGC
Found at i:117887 original size:48 final size:48
Alignment explanation
Indices: 117700--117959 Score: 161
Period size: 48 Copynumber: 5.4 Consensus size: 48
117690 TTTTTCTGGC
* *** * *
117700 AGTGGTCAAGCTAAGGTTGGTGGAAGTGGTACTGCTAGTGCTTCTGGT
1 AGTGGTCAAGCTAAAGTTGGTGGAAGTGGTGGAGCTAGTGCTTCCGGA
* * ** * *
117748 AGTGGTCAAGCTAACGTTGGTTGAAGTGGTGTCGCTATTGCTTCTAGGA
1 AGTGGTCAAGCTAAAGTTGGTGGAAGTGGTGGAGCTAGTGCTTC-CGGA
** * * * * *
117797 A-AAGTGAAGCTAAAAG-T-GAGGAAGTAGTGGCGCTAGTACTTCCGGA
1 AGTGGTCAAGCT-AAAGTTGGTGGAAGTGGTGGAGCTAGTGCTTCCGGA
* **
117843 AGTGGTCAAGCTAATGTTGGTGGAAGTGGTGGAATTAGTGCTTCCGGGA
1 AGTGGTCAAGCTAAAGTTGGTGGAAGTGGTGGAGCTAGTGCTTCC-GGA
* * * * * * * *
117892 AG-GGTGAAGCTAAAAG-TGGAGAAAGTAGTGGGGCCAGTGCTTCCAGT
1 AGTGGTCAAGCT-AAAGTTGGTGGAAGTGGTGGAGCTAGTGCTTCCGGA
* *
117939 AGTGGTCAAGATAATGTTGGT
1 AGTGGTCAAGCTAAAGTTGGT
117960 AGAAATGGAG
Statistics
Matches: 159, Mismatches: 44, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
46 7 0.04
47 33 0.21
48 105 0.66
49 14 0.09
ACGTcount: A:0.25, C:0.12, G:0.36, T:0.27
Consensus pattern (48 bp):
AGTGGTCAAGCTAAAGTTGGTGGAAGTGGTGGAGCTAGTGCTTCCGGA
Found at i:117991 original size:96 final size:95
Alignment explanation
Indices: 117800--117998 Score: 222
Period size: 96 Copynumber: 2.1 Consensus size: 95
117790 TCTAGGAAAA
* * * * *
117800 GTGAAGCTAAAAGTGAGGAAGTAGTGGCGCTAGTACTTCCGGAAGTGGTCAAGCTAATGTTGGTG
1 GTGAAGCTAAAAGTGAGAAAGTAGTGGCGCCAGTACTTCCAGAAGTGGTCAAGATAATGTTGGTA
* * * ***
117865 GAAGTGGTGGAATTAGTGCTTCCGGGAAGG
66 GAAATGGTAGAACTAGTGCTTCCAAAAAGG
* * *
117895 GTGAAGCTAAAAGTGGAGAAAGTAGTGGGGCCAGTGCTTCCAGTAGTGGTCAAGATAATGTTGGT
1 GTGAAGCTAAAAGT-GAGAAAGTAGTGGCGCCAGTACTTCCAGAAGTGGTCAAGATAATGTTGGT
*
117960 AGAAATGG-AGACGCTAGTGCATT-CAAAAAGG
65 AGAAATGGTAGA-ACTAGTGC-TTCCAAAAAGG
117991 GTGAAGCT
1 GTGAAGCT
117999 TGTAATATCC
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
95 16 0.19
96 68 0.79
97 2 0.02
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.23
Consensus pattern (95 bp):
GTGAAGCTAAAAGTGAGAAAGTAGTGGCGCCAGTACTTCCAGAAGTGGTCAAGATAATGTTGGTA
GAAATGGTAGAACTAGTGCTTCCAAAAAGG
Found at i:119204 original size:19 final size:19
Alignment explanation
Indices: 119177--119214 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
119167 ATGTTAGATA
*
119177 TGTTACATGTGTTATTGAT
1 TGTTACATGTGTTAATGAT
*
119196 TGTTGCATGTGTTAATGAT
1 TGTTACATGTGTTAATGAT
119215 ATGTGTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (19 bp):
TGTTACATGTGTTAATGAT
Found at i:119730 original size:21 final size:22
Alignment explanation
Indices: 119687--119731 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
119677 GTCGAGGGAT
*
119687 TATACAGTGGTCCTTCGGGACA
1 TATACAATGGTCCTTCGGGACA
*
119709 TATACAATGGTTCTTC-GGACA
1 TATACAATGGTCCTTCGGGACA
119730 TA
1 TA
119732 GTGGTCCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (22 bp):
TATACAATGGTCCTTCGGGACA
Found at i:120614 original size:48 final size:47
Alignment explanation
Indices: 120562--121650 Score: 161
Period size: 48 Copynumber: 23.2 Consensus size: 47
120552 ATTGGCATCA
* * *
120562 CTAGTGCTTCTGGAAAGGGGGAATCTAATGTTTGTGGAAGTGGTGGTG
1 CTAGTGCTTCTGG-AAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * *
120610 CTAGTACTTCCGGCAAGGGTGAAACTAATGTATGTGGAAGTGGTGATG
1 CTAGTGCTTCTGG-AAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * * * *** *
120658 CTAGTGATTCTAGAAGTGGTTAAGCTAATGTTGGTGGAAGTGACAAAG
1 CTAGTGCTTCTGGAAG-GGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * ** * * *
120706 CAAGTGCTTCTGGCAAGGGTG-AAGTAAAAGTGGGTGGAACTAGTGGTG
1 CTAGTGCTTCTGG-AAGGGTGAAACT-AATGTTTGTGGAAGTGGTGATG
* * * * * * * ** * *
120754 CCAGTGCTTCCGAAATGGTCAAGCTAATGTTGGTGTTAGTGGCGGTG
1 CTAGTGCTTCTGGAAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
** ** * ** *
120801 CTAGTGCTTCTGGAAGTGGCCATGCTATTG-TTGCTGGAAGTGGCAACG
1 CTAGTGCTTCTGGAAG-GGTGAAACTAATGTTTG-TGGAAGTGGTGATG
* ** * * * *
120849 CAAGTGCTTCTGGCAA-GGTGAAGGTAAAAG-TGGTGGAAGTGGTGGTA
1 CTAGTGCTTCTGG-AAGGGTGAAACT-AATGTTTGTGGAAGTGGTGATG
* * * * * * ** * *
120896 CCAGTGCTTCCGGAAGTGGTCAAACTAGTATTGGTGGAAGTGACGGTA
1 CTAGTGCTTCTGGAAG-GGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * * *
120944 CTAGTGCTTATAGCAAGGGT-AAAGCTAAAAG-TGGTGGAAGTGG-CAGTG
1 CTAGTGCTTCT-GGAAGGGTGAAA-CT-AATGTTTGTGGAAGTGGTGA-TG
* * * * * * *
120992 CTAGTTCTTCAGGCAGTGGTCAAGCTAA--TTGGTTGAAGTGGTGATG
1 CTAGTGCTTCTGGAAG-GGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * * ** * **
121038 CCAATGCTTCTGGAAATGGTCAAGTTAATGTTGGTGGAAGTGGTGGCG
1 CTAGTGCTTCTGG-AAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
121086 CTAGTGCTTCTGGAAAAGGG-GAAACTAA---------AAGTGGTG--G
1 CTAGTGCTTCTGG--AAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * * * *
121123 CTCCAGTGCTTCCAGTAAGGGTCAAGCTAATATTGGTGGAAGTGGTG-T-
1 CT--AGTGCTT-CTGGAAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * * * *
121171 CATTAGTGCTTATGGAAGTGATCAAGA-TAATGTTGGTAGAAGTAGG-GGTG
1 C--TAGTGCTTCTGGAAG-GGTGAA-ACTAATGTTTGTGGAAGT-GGTGATG
* * * * * * *
121221 CTGGTGGTTCTGGAAGTGGTCAAGCTAATGTTGGTGGAAGTAG-CAGTG
1 CTAGTGCTTCTGGAAG-GGTGAAACTAATGTTTGTGGAAGTGGTGA-TG
* * * * * ***
121269 CAAGTGCTTCTGGCAAGGGTGAAGCTAATGTTGGTGGCAGTGGCGGCA
1 CTAGTGCTTCTGG-AAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * * ** *
121317 CTAGTGTTTCCAGAAAGGGTGAAGCTAATGTAGGTGGAAGTGG-CAGTG
1 CTAGTGCTT-CTGGAAGGGTGAAACTAATGTTTGTGGAAGTGGTGA-TG
* * * *
121365 CTAGTGCTATC-GGTAGTGGT----C-AA-G-CT-AGGAAGTGGTGGTG
1 CTAGTGCT-TCTGGAAG-GGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * ** * * *
121405 CTAGTTCTTCTGG-AGTGGTCAAGTTAATATTTGTGGAAGTGGAGGTG
1 CTAGTGCTTCTGGAAG-GGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * * *
121452 CTAATGCTTC-GAAAGTGGCT-AAACTAATGTTAGTGGAAATGGCT-ATT
1 CTAGTGCTTCTGGAAG-GG-TGAAACTAATGTTTGTGGAAGTGG-TGATG
* * * * * * ** *
121499 CTAATGCTTATGGCAGTGGTCAAGCCAATGTAGGTGGAAGTGGTGGTG
1 CTAGTGCTTCTGGAAG-GGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * * ** *
121547 CTAGTGCTTCCGAAAATGGAGAAACTAATGTAAGTGGAAGTGGTGGTG
1 CTAGTGCTTCTG-GAAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
* * * * * * *
121595 CTAGTGCTTTTGGAAAGGGAGAAGCTAATATTGGTGGAATTGGTGGTG
1 CTAGTGCTTCTGG-AAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
121643 CTAGTGCT
1 CTAGTGCT
121651 ACAGATAAGG
Statistics
Matches: 757, Mismatches: 214, Indels: 140
0.68 0.19 0.13
Matches are distributed among these distances:
37 3 0.00
38 5 0.01
39 29 0.04
40 21 0.03
42 1 0.00
43 2 0.00
44 3 0.00
46 36 0.05
47 137 0.18
48 491 0.65
49 27 0.04
50 2 0.00
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.28
Consensus pattern (47 bp):
CTAGTGCTTCTGGAAGGGTGAAACTAATGTTTGTGGAAGTGGTGATG
Found at i:120818 original size:24 final size:24
Alignment explanation
Indices: 120799--120844 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
120789 TTAGTGGCGG
120799 TGCTAGTGCTT-CTGGAAGTGGCCA
1 TGCTAGTG-TTGCTGGAAGTGGCCA
*
120823 TGCTATTGTTGCTGGAAGTGGC
1 TGCTAGTGTTGCTGGAAGTGGC
120845 AACGCAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.15, C:0.17, G:0.35, T:0.33
Consensus pattern (24 bp):
TGCTAGTGTTGCTGGAAGTGGCCA
Found at i:120861 original size:24 final size:24
Alignment explanation
Indices: 120803--120861 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
120793 TGGCGGTGCT
* * *
120803 AGTGCTTCTGGAAGTGGCCATGCT
1 AGTGCTTCTGGAAGTGGCAACGCA
*
120827 ATTG-TTGCTGGAAGTGGCAACGCA
1 AGTGCTT-CTGGAAGTGGCAACGCA
120851 AGTGCTTCTGG
1 AGTGCTTCTGG
120862 CAAGGTGAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 2 0.07
24 24 0.86
25 2 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (24 bp):
AGTGCTTCTGGAAGTGGCAACGCA
Found at i:120982 original size:143 final size:144
Alignment explanation
Indices: 120454--121096 Score: 443
Period size: 143 Copynumber: 4.5 Consensus size: 144
120444 AAGTTTTGAA
* * * * * * * * * **
120454 AAGTAGTGGGGCCAGTGCTTCCAGTAGTGGTCAAGCTAATGTTGGTAGAAGTGACGACGCTAGTG
1 AAGTGGTGGTGCCAGTGCTTCCGGAAGTGGTCAAACTAGTATTGGTGGAAGTGGCGGTGCTAGTG
* * * * * * * * *
120519 CATTCGGAAAAG-GGTGAAGCTAATATTGGTGGAATTGGCATCA-CTAGTGCTTCTGGAAAGGGG
66 C-TTC-TAGAAGTGGTAAAGCTAATGTTGGTGGAAGTGGCA-AAGCAAGTGCTTCTGGCAAGGGT
* * **
120582 GAA-TCTAATGTTTGTGG
128 GAAGT-AAAAGTGGGTGG
* * * * *
120599 AAGTGGTGGTGCTAGTACTTCCGGCAAG-GGTGAAACTAATGTA-T-GTGGAAGTGGTGATGCTA
1 AAGTGGTGGTGCCAGTGCTTCCGG-AAGTGGTCAAACT-A-GTATTGGTGGAAGTGGCGGTGCTA
* * *
120661 GTGATTCTAGAAGTGGTTAAGCTAATGTTGGTGGAAGTGACAAAGCAAGTGCTTCTGGCAAGGGT
63 GTGCTTCTAGAAGTGGTAAAGCTAATGTTGGTGGAAGTGGCAAAGCAAGTGCTTCTGGCAAGGGT
120726 GAAGTAAAAGTGGGTGG
128 GAAGTAAAAGTGGGTGG
* * * * * * **
120743 AACTAGTGGTGCCAGTGCTTCC-GAAATGGTCAAGCTAATGTTGGTGTTAGTGGCGGTGCTAGTG
1 AAGTGGTGGTGCCAGTGCTTCCGGAAGTGGTCAAACTAGTATTGGTGGAAGTGGCGGTGCTAGTG
* ** * * * *
120807 CTTCTGGAAGTGGCCATGCTATTGTTGCTGGAAGTGGCAACGCAAGTGCTTCTGGCAA-GGTGAA
66 CTTCTAGAAGTGGTAAAGCTAATGTTGGTGGAAGTGGCAAAGCAAGTGCTTCTGGCAAGGGTGAA
120871 GGTAAAAGT-GGTGG
131 -GTAAAAGTGGGTGG
* * *
120885 AAGTGGTGGTACCAGTGCTTCCGGAAGTGGTCAAACTAGTATTGGTGGAAGTGACGGTACTAGTG
1 AAGTGGTGGTGCCAGTGCTTCCGGAAGTGGTCAAACTAGTATTGGTGGAAGTGGCGGTGCTAGTG
* * ** * * *
120950 CTTATAGCAAG-GGTAAAGCTAAAAG-TGGTGGAAGTGGCAGTGCTAGTTCTTCAGGC-AGTGGT
66 CTTCTAG-AAGTGGTAAAGCT-AATGTTGGTGGAAGTGGCAAAGCAAGTGCTTCTGGCAAG-GGT
* * *
121012 CAAGCT--AA-TTGGTTG
128 GAAG-TAAAAGTGGGTGG
* * * * ** * * * *
121027 AAGTGGTGATGCCAATGCTTCTGGAAATGGTCAAGTTAATGTTGGTGGAAGTGGTGGCGCTAGTG
1 AAGTGGTGGTGCCAGTGCTTCCGGAAGTGGTCAAACTAGTATTGGTGGAAGTGGCGGTGCTAGTG
121092 CTTCT
66 CTTCT
121097 GGAAAAGGGG
Statistics
Matches: 390, Mismatches: 91, Indels: 37
0.75 0.18 0.07
Matches are distributed among these distances:
141 2 0.01
142 97 0.25
143 158 0.41
144 84 0.22
145 44 0.11
146 4 0.01
147 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.35, T:0.27
Consensus pattern (144 bp):
AAGTGGTGGTGCCAGTGCTTCCGGAAGTGGTCAAACTAGTATTGGTGGAAGTGGCGGTGCTAGTG
CTTCTAGAAGTGGTAAAGCTAATGTTGGTGGAAGTGGCAAAGCAAGTGCTTCTGGCAAGGGTGAA
GTAAAAGTGGGTGG
Found at i:121010 original size:96 final size:93
Alignment explanation
Indices: 120851--121031 Score: 218
Period size: 96 Copynumber: 1.9 Consensus size: 93
120841 TGGCAACGCA
* * * * ** *
120851 AGTGCTTCTGGCAAGGTGAAGGTAAAAGTGGTGGAAGTGGTGGTACCAGTGCTTCCGGAAGTGGT
1 AGTGCTTATAGCAAGGTAAAGCTAAAAGTGGTGGAAGTGGCAGTACCAGTGCTTCAGGAAGTGGT
120916 CAAACTAGTATTGGTGGAAGTGACGGTACT
66 CAAACTA--ATTGGTGGAAGTGACGGTACT
* * * *
120946 AGTGCTTATAGCAAGGGTAAAGCTAAAAGTGGTGGAAGTGGCAGTGCTAGTTCTTCAGGCAGTGG
1 AGTGCTTATAGCAA-GGTAAAGCTAAAAGTGGTGGAAGTGGCAGTACCAGTGCTTCAGGAAGTGG
* *
121011 TCAAGCTAATTGGTTGAAGTG
65 TCAAACTAATTGGTGGAAGTG
121032 GTGATGCCAA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
94 12 0.17
95 12 0.17
96 48 0.67
ACGTcount: A:0.27, C:0.12, G:0.35, T:0.26
Consensus pattern (93 bp):
AGTGCTTATAGCAAGGTAAAGCTAAAAGTGGTGGAAGTGGCAGTACCAGTGCTTCAGGAAGTGGT
CAAACTAATTGGTGGAAGTGACGGTACT
Found at i:121407 original size:40 final size:39
Alignment explanation
Indices: 121352--121427 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
121342 TAATGTAGGT
121352 GGAAGTGGCAGTGCTAGTGCTATC-GGTAGTGGTCAAGCTA
1 GGAAGTGGCAGTGCTAGTGCT-TCTGG-AGTGGTCAAGCTA
** *
121392 GGAAGTGGTGGTGCTAGTTCTTCTGGAGTGGTCAAG
1 GGAAGTGGCAGTGCTAGTGCTTCTGGAGTGGTCAAG
121428 TTAATATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 12 0.38
40 20 0.62
ACGTcount: A:0.20, C:0.13, G:0.39, T:0.28
Consensus pattern (39 bp):
GGAAGTGGCAGTGCTAGTGCTTCTGGAGTGGTCAAGCTA
Found at i:121631 original size:96 final size:94
Alignment explanation
Indices: 121392--121650 Score: 270
Period size: 96 Copynumber: 2.7 Consensus size: 94
121382 GGTCAAGCTA
* * * * * *
121392 GGAAGTGGTGGTGCTAGTTCTTCTGGAGTGGTCAAGTTAATATTTGTGGAAGTGGAGGTGCTAAT
1 GGAAGTGGTGGTGCTAGTGCTTATGGAGTGGTCAAGCTAATATTGGTGGAAGTGGTGGTGCTAGT
* ** *
121457 GCTTCGAAAGTGGCTAAACTAATGTTAGT
66 GCTTCGAAAATGGAGAAACTAATGTAAGT
* * * * * * *
121486 GGAAATGGCT-ATTCTAATGCTTATGGCAGTGGTCAAGCCAATGTAGGTGGAAGTGGTGGTGCTA
1 GGAAGTGG-TGGTGCTAGTGCTTATGG-AGTGGTCAAGCTAATATTGGTGGAAGTGGTGGTGCTA
121550 GTGCTTCCGAAAATGGAGAAACTAATGTAAGT
64 GTGCTT-CGAAAATGGAGAAACTAATGTAAGT
* ** *
121582 GGAAGTGGTGGTGCTAGTGCTTTTGGAAAG-GGAGAAGCTAATATTGGTGGAATTGGTGGTGCTA
1 GGAAGTGGTGGTGCTAGTGCTTATGG--AGTGGTCAAGCTAATATTGGTGGAAGTGGTGGTGCTA
121646 GTGCT
64 GTGCT
121651 ACAGATAAGG
Statistics
Matches: 131, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
94 18 0.14
95 38 0.29
96 73 0.56
97 2 0.02
ACGTcount: A:0.25, C:0.10, G:0.34, T:0.30
Consensus pattern (94 bp):
GGAAGTGGTGGTGCTAGTGCTTATGGAGTGGTCAAGCTAATATTGGTGGAAGTGGTGGTGCTAGT
GCTTCGAAAATGGAGAAACTAATGTAAGT
Found at i:121661 original size:48 final size:47
Alignment explanation
Indices: 121520--121698 Score: 169
Period size: 48 Copynumber: 3.7 Consensus size: 47
121510 GGCAGTGGTC
* * * *
121520 AAGCCAATGTAGGTGGAAGTGGTGGTGCTAGTGCTTCCGAAAATGGAG
1 AAGCTAATATAGGTGGAAGTGGTGGTGCTAGTGCTTCAG-AAAGGGAG
* * * **
121568 AAACTAATGTAAGTGGAAGTGGTGGTGCTAGTGCTTTTGGAAAGGGAG
1 AAGCTAATATAGGTGGAAGTGGTGGTGCTAGTGC-TTCAGAAAGGGAG
* * * *
121616 AAGCTAATATTGGTGGAATTGGTGGTGCTAGTGCTACAGATAAGGGTG
1 AAGCTAATATAGGTGGAAGTGGTGGTGCTAGTGCTTCAGA-AAGGGAG
* * * * *
121664 AAGCCAAAACAGGTGGAAATGGCGGTGCTAGTGCT
1 AAGCTAATATAGGTGGAAGTGGTGGTGCTAGTGCT
121699 GTTGGTAATG
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
47 3 0.03
48 102 0.94
49 3 0.03
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.25
Consensus pattern (47 bp):
AAGCTAATATAGGTGGAAGTGGTGGTGCTAGTGCTTCAGAAAGGGAG
Found at i:122107 original size:15 final size:15
Alignment explanation
Indices: 122087--122116 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
122077 TATTGTTAAA
122087 TATTAGAAATATTAT
1 TATTAGAAATATTAT
122102 TATTAGAAATATTAT
1 TATTAGAAATATTAT
122117 CTCTAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TATTAGAAATATTAT
Found at i:122180 original size:30 final size:31
Alignment explanation
Indices: 122141--122199 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
122131 TTCATCAATG
*
122141 ACTTTTTAAATG-TTA-AATAATAATCATTAA
1 ACTTCTTAAATGATTACAA-AATAATCATTAA
*
122171 ACTTCTTAAATGATTACAAAATTATCATT
1 ACTTCTTAAATGATTACAAAATAATCATT
122200 GGAATTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 12 0.48
32 2 0.08
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.42
Consensus pattern (31 bp):
ACTTCTTAAATGATTACAAAATAATCATTAA
Found at i:124920 original size:24 final size:24
Alignment explanation
Indices: 124863--124938 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
124853 TACTGGAAAA
*
124863 GGTGAAGCCAATGTTGGTGGACA-T
1 GGTGAAGCTAATGTTGGTGGA-AGT
* ** *
124887 AGTGGCGCTAATGCTT-TTGGAAGT
1 GGTGAAGCTAATG-TTGGTGGAAGT
124911 GGTGAAGCTAATGTTGGTGGAAGT
1 GGTGAAGCTAATGTTGGTGGAAGT
124935 GGTG
1 GGTG
124939 GTGGAAGTGG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
23 3 0.08
24 35 0.88
25 2 0.05
ACGTcount: A:0.22, C:0.09, G:0.39, T:0.29
Consensus pattern (24 bp):
GGTGAAGCTAATGTTGGTGGAAGT
Found at i:124942 original size:12 final size:12
Alignment explanation
Indices: 124925--124950 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
124915 AAGCTAATGT
124925 TGGTGGAAGTGG
1 TGGTGGAAGTGG
124937 TGGTGGAAGTGG
1 TGGTGGAAGTGG
124949 TG
1 TG
124951 AAGCTAGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.58, T:0.27
Consensus pattern (12 bp):
TGGTGGAAGTGG
Found at i:125147 original size:48 final size:48
Alignment explanation
Indices: 125080--126369 Score: 971
Period size: 48 Copynumber: 27.1 Consensus size: 48
125070 AAACTAAAAG
* * * *
125080 TGGTGG-AGTGGCAGCGCTAGTGCTTCCGGCAGCGGTCAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* * * * * *
125127 TGGAGGAAGTGGTGGAGCTAGTGCTTCTGGGAGT--TCAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* **** ** *
125173 TGGTGAAAGTATAAGTACTAGTGCTTCCGGTAAG-GGTGAAGCTAAAAG-
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGG-AAGTGGTGAAGCT-AATGT
* *
125221 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGCAGTGGTCAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* * * *
125269 TGGTGGAAGTGGTGGCACTAGTGCTTCTGGAAGTGGTCAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
** * ** ** *
125317 T-GTGGAAGTGGAAGTGCTAGTGCTTATGGAAAAGGTGAAGCTAAAAG-
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCT-AATGT
* ** * * * * * *
125364 TGATGGAAAG-GTTGGCTCCAATGCTTCTGGCAGTGGTCAAGCTAATGT
1 TGGTGG-AAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* * *
125412 TGGTGGAAGTGGCGGTGCTAGTGCTTCCGGTAGTGGTCAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* * *
125460 TGGTGGAAGTGGTGGCGCTAGTGC-TCTCGGAA-AGGTGAAGCTAATAT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTC-CGGAAGTGGTGAAGCTAATGT
* *
125507 TGGTGGAAGTGGCGGCGCTAGCGTTTCCGGTAAG-GGTGAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGG-AAGTGGTGAAGCTAATGT
* *
125555 TGGTGGAAGTGGCAGCGCTAGTGTTTCCGGCAAG-GGTGAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGG-AAGTGGTGAAGCTAATGT
*
125603 TGGTGGAAGTGGCGGCGCTAGTGCTTCAGGCAAG-GGTGAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGG-AAGTGGTGAAGCTAATGT
** * * * *
125651 AAGTGGTAGTGGTGGCACTAGTGCTTCTGGAAAG-GGTGAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGG-AAGTGGTGAAGCTAATGT
* * * * *
125699 AGGTGGAAGTAGG-GGTGCTAGTGCTTCTGGAAAG-GGAGAAGCTAATAT
1 TGGTGGAAGT-GGCGGCGCTAGTGCTTCCGG-AAGTGGTGAAGCTAATGT
* * * *
125747 TGGT-GAAGTGGTGGCGTTAGTGCTTCTGGAAGTGGTCAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* ** * * ** *
125794 TGTTGGAAGTGGCACCGCTGGTGCTTCAGGAAAAGGTGAAGCTAAAAG-
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCT-AATGT
* * * * * * *
125842 TGATGGAAATGGTGGTGCCAGTGCTT-C--TAGTGGTGAAGCTAATAT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
*
125887 T-GTCGAAGTGGCGGCGCTAGTGCTTCCGGTAAG-GGTGAAGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGG-AAGTGGTGAAGCTAATGT
* * * * *
125934 TGGTAGAGGTGGAGGTGCTAGTGCTTCCGGCAAG-GGTGAAGTTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGG-AAGTGGTGAAGCTAATGT
* * * * *
125982 TGGTGGAAATGGCGGTGCTAGTGCTTCTGGAA-TGGTCAAGCTAATGC
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* * * *
126029 TGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCATGCTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
** * * * *
126077 TGGTCAAAGTGGCGGTGCCAGTGCTTCCGGTAA-AGGTGAAGCTAAAG-
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGG-AAGTGGTGAAGCTAATGT
* * * * * ** *
126124 TGGTGGAAGCGGCGGAGCCAATGCTTCTGGAAGTGGCCAAACTAATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* * * * * * *
126172 TGCTGGAAGCGGCGGTGCTAGTGCGTCTGGAAGTGGTCATGCTAATG-
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* * * * ** * * *
126219 TGGTGGAGGTGGCGGTGCTAGTGCTTCTGGAAGTAGCCATGCTCATGC
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* * * * * * *
126267 TGGTGGAGGTGGTGGCGCTAGTGCCTCTGGAAGTGGTCATGCTCATGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
* * * * * * * *
126315 TGGTGGAGGTGGCAGTGCTAGTGCTTCTGGTAGTGGTCATGCTAGTGT
1 TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
126363 TGGTGGA
1 TGGTGGA
126370 CATGGTGCGC
Statistics
Matches: 1009, Mismatches: 201, Indels: 65
0.79 0.16 0.05
Matches are distributed among these distances:
44 20 0.02
45 12 0.01
46 40 0.04
47 253 0.25
48 671 0.67
49 13 0.01
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.26
Consensus pattern (48 bp):
TGGTGGAAGTGGCGGCGCTAGTGCTTCCGGAAGTGGTGAAGCTAATGT
Found at i:125279 original size:24 final size:23
Alignment explanation
Indices: 125252--125327 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 23
125242 TGCTTCCGGC
125252 AGTGGTCAAGCTAATGTTGGTGGA
1 AGTGGTCAAGCTAATGTT-GTGGA
* *
125276 AGTGGTGGC-A-CTAGTGCTTCTGGA
1 AGTGGT--CAAGCTAATG-TTGTGGA
125300 AGTGGTCAAGCTAATGTTGTGGA
1 AGTGGTCAAGCTAATGTTGTGGA
125323 AGTGG
1 AGTGG
125328 AAGTGCTAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
22 1 0.02
23 12 0.28
24 26 0.60
25 3 0.07
26 1 0.02
ACGTcount: A:0.22, C:0.11, G:0.38, T:0.29
Consensus pattern (23 bp):
AGTGGTCAAGCTAATGTTGTGGA
Found at i:125371 original size:95 final size:95
Alignment explanation
Indices: 125061--126369 Score: 1010
Period size: 95 Copynumber: 13.8 Consensus size: 95
125051 AGGGCTTTTA
* * * ** * * *
125061 GTAAAGGTGAAACTAAAAGTGGTGG-AGTGGCAGCGCTAGTGCTTCCGGCAGCGGTCAAGCTAAT
1 GTAAGGGTGAAGCT-AATGTGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAAT
* * * *
125125 GTTGGAGGAAGTGGTGGAGCTAGTGCTTCTG
65 GTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * * * * * ** * *
125156 G-GA-GTTCAAGCTAATGTTGGTGAAAGT-ATAAGTACTAGTGCTTCCGGTAAG-GGTGAAGCTA
1 GTAAGGGTGAAGCTAATG-TGGTGGAAGTGGT-GGCGCTAGTGCTTCTGG-AAGTGGTCAAGCT-
* *
125217 AAAG-TGGTGGAAGTGGCGGCGCTAGTGCTTCCG
62 AATGTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * *
125250 G-CAGTGGTCAAGCTAATGTTGGTGGAAGTGGTGGCACTAGTGCTTCTGGAAGTGGTCAAGCTAA
1 GTAAG-GGTGAAGCTAATG-TGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAA
** **
125314 TGTT-GTGGAAGTGGAAGTGCTAGTGCTTATG
64 TGTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * * * * * * * *
125345 GAAAAGGTGAAGCTAAAAGTGATGGAAAG-GTTGGCTCCAATGCTTCTGGCAGTGGTCAAGCTAA
1 GTAAGGGTGAAGCT-AATGTGGTGG-AAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAA
125409 TGTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
64 TGTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * *
125441 GT-AGTGGTCAAGCTAATGTTGGTGGAAGTGGTGGCGCTAGTGC-TCTCGGAA-AGGTGAAGCTA
1 GTAAG-GGTGAAGCTAATG-TGGTGGAAGTGGTGGCGCTAGTGCTTCT-GGAAGTGGTCAAGCTA
* * * *
125503 ATATTGGTGGAAGTGGCGGCGCTAGCGTTTCCG
63 ATGTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
** * * *
125536 GTAAGGGTGAAGCTAATGTTGGTGGAAGTGGCAGCGCTAGTGTTTCCGGCAAG-GGTGAAGCTAA
1 GTAAGGGTGAAGCTAATG-TGGTGGAAGTGGTGGCGCTAGTGCTTCTGG-AAGTGGTCAAGCTAA
* *
125600 TGTTGGTGGAAGTGGCGGCGCTAGTGCTTCAG
64 TGTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * * * *
125632 GCAAGGGTGAAGCTAATGTAAGTGGTAGTGGTGGCACTAGTGCTTCTGGAAAG-GGTGAAGCTAA
1 GTAAGGGTGAAGCTAATGT-GGTGGAAGTGGTGGCGCTAGTGCTTCTGG-AAGTGGTCAAGCTAA
* *
125696 TGTAGGTGGAAGTAGG-GGTGCTAGTGCTTCTG
64 TGTTGGTGGAAGT-GGCGGTGCTAGTGCTTCCG
* * * *
125728 GAAAGGGAGAAGCTAATATTGGT-GAAGTGGTGGCGTTAGTGCTTCTGGAAGTGGTCAAGCTAAT
1 GTAAGGGTGAAGCTAAT-GTGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAAT
* *** * *
125792 GTTGTTGGAAGTGGCACCGCTGGTGCTTCAG
65 GTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * * * * * * *
125823 GAAAAGGTGAAGCTAAAAGTGATGGAAATGGTGGTGCCAGTGCTTCT---AGTGGTGAAGCTAAT
1 GTAAGGGTGAAGCT-AATGTGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAAT
* * *
125885 ATT-GTCGAAGTGGCGGCGCTAGTGCTTCCG
65 GTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * * * * * *
125915 GTAAGGGTGAAGCTAATGTTGGTAGAGGTGGAGGTGCTAGTGCTTCCGGCAAG-GGTGAAGTTAA
1 GTAAGGGTGAAGCTAATG-TGGTGGAAGTGGTGGCGCTAGTGCTTCTGG-AAGTGGTCAAGCTAA
* *
125979 TGTTGGTGGAAATGGCGGTGCTAGTGCTTCTG
64 TGTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * *
126011 G-AATGGTCAAGCTAATGCTGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCATGCTAAT
1 GTAAGGGTGAAGCTAATG-TGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAAT
** *
126075 GTTGGTCAAAGTGGCGGTGCCAGTGCTTCCG
65 GTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * * * * * * * *
126106 GTAAAGGTGAAGCTAAAGTGGTGGAAGCGGCGGAGCCAATGCTTCTGGAAGTGGCCAAACTAATG
1 GTAAGGGTGAAGCTAATGTGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAATG
* * * *
126171 TTGCTGGAAGCGGCGGTGCTAGTGCGTCTG
66 TTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * * * * * * * *
126201 G-AAGTGGTCATGCTAATGTGGTGGAGGTGGCGGTGCTAGTGCTTCTGGAAGTAGCCATGCTCAT
1 GTAAG-GGTGAAGCTAATGTGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAAT
* * * * * *
126265 GCTGGTGGAGGTGGTGGCGCTAGTGCCTCTG
65 GTTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
* * * * ** * * * *
126296 G-AAGTGGTCATGCTCATGTTGGTGGAGGTGGCAGTGCTAGTGCTTCTGGTAGTGGTCATGCTAG
1 GTAAG-GGTGAAGCTAATG-TGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAA
126360 TGTTGGTGGA
64 TGTTGGTGGA
126370 CATGGTGCGC
Statistics
Matches: 983, Mismatches: 192, Indels: 77
0.79 0.15 0.06
Matches are distributed among these distances:
91 3 0.00
92 57 0.06
93 27 0.03
94 64 0.07
95 477 0.49
96 351 0.36
97 4 0.00
ACGTcount: A:0.22, C:0.14, G:0.38, T:0.26
Consensus pattern (95 bp):
GTAAGGGTGAAGCTAATGTGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGGTCAAGCTAATG
TTGGTGGAAGTGGCGGTGCTAGTGCTTCCG
Found at i:125396 original size:143 final size:141
Alignment explanation
Indices: 125003--126341 Score: 660
Period size: 143 Copynumber: 9.4 Consensus size: 141
124993 ATGGTGCGCA
* * * * * * * * *
125003 AGTGCTTTTGGTAGTGATCATGCAAATGTAGGTGGACA-TGGAAGTGCTAGGGCTTTTAGTAAAG
1 AGTGCTTCTGGAAGTGGTCAAGCTAATGTTGGTGGA-AGTGGAAGTGCTAGTGC--TTCGGAAAG
* * * * * * *
125067 GTGAAACTAAAAGTGGTGG-AGTGGCAGCGCTAGTGCTTCCGGCAGCGGTCAAGCTAATGTTGGA
63 GTGAAGCTAAAAGTGATGGAAGTGGCGGCGCCAATGCTTCCGGCAGTGGTCAAGCTAATGTTGGT
125131 GGAAGTGGTGGAGCT
128 GGAAGTGGTGGA-CT
* * ** * *
125146 AGTGCTTCTGGGAGT--TCAAGCTAATGTTGGTGAAAGTATAAGTACTAGTGCTTCCGGTAAGGG
1 AGTGCTTCTGGAAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCTT-CGG-AAAGG
* * *
125209 TGAAGCTAAAAGTGGTGGAAGTGGCGGCGCTAGTGCTTCCGGCAGTGGTCAAGCTAATGTTGGTG
64 TGAAGCTAAAAGTGATGGAAGTGGCGGCGCCAATGCTTCCGGCAGTGGTCAAGCTAATGTTGGTG
125274 GAAGTGGTGGCACT
129 GAAGTGGTGG-ACT
*
125288 AGTGCTTCTGGAAGTGGTCAAGCTAATGTT-GTGGAAGTGGAAGTGCTAGTGCTTATGGAAAAGG
1 AGTGCTTCTGGAAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCTT-CGG-AAAGG
** * *
125352 TGAAGCTAAAAGTGATGGAAAG-GTTGGCTCCAATGCTTCTGGCAGTGGTCAAGCTAATGTTGGT
64 TGAAGCTAAAAGTGATGG-AAGTGGCGGCGCCAATGCTTCCGGCAGTGGTCAAGCTAATGTTGGT
* *
125416 GGAAGTGGCGGTGCT
128 GGAAGTGGTGG-ACT
* * ** *
125431 AGTGCTTCCGGTAGTGGTCAAGCTAATGTTGGTGGAAGTGGTGGCGCTAGTGCTCTCGGAAAGGT
1 AGTGCTTCTGGAAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCT-TCGGAAAGGT
* * * * ** * * *
125496 GAAGCTAATATTGGTGGAAGTGGCGGCGCTAGCGTTTCCGGTAAG-GGTGAAGCTAATGTTGGTG
65 GAAGCTAAAAGTGATGGAAGTGGCGGCGCCAATGCTTCCGG-CAGTGGTCAAGCTAATGTTGGTG
*
125560 GAAGTGGCAGCG-CT
129 GAAGTGG-TG-GACT
* * * ** * *
125574 AGTGTTTCCGGCAAG-GGTGAAGCTAATGTTGGTGGAAGTGGCGGCGCTAGTGCTTCAGGCAAGG
1 AGTGCTTCTGG-AAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCTTC-GG-AAAG
* * * * * * * * * * *
125638 GTGAAGCT-AATGTAAGTGGTAGTGGTGGCACTAGTGCTTCTGGAAAG-GGTGAAGCTAATGTAG
63 GTGAAGCTAAAAGTGA-TGGAAGTGGCGGCGCCAATGCTTCCGG-CAGTGGTCAAGCTAATGTTG
*
125701 GTGGAAGTAGG-GGTGCT
126 GTGGAAGT-GGTGG-ACT
** * ** * * *
125718 AGTGCTTCTGGAAAG-GGAGAAGCTAATATTGGT-GAAGTGGTGGCGTTAGTGCTTCTGGAAGTG
1 AGTGCTTCTGG-AAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCTTC-GGAA-AG
* * * ** *** * * ** * *
125781 GTCAAGCT-AATGTTGTTGGAAGTGGCACCGCTGGTGCTTCAGGAAAAGGTGAAGCTAAAAG-TG
63 GTGAAGCTAAAAG-TGATGGAAGTGGCGGCGCCAATGCTTCCGGCAGTGGTCAAGCT-AATGTTG
* * * *
125844 ATGGAAATGGTGGTGCC
126 GTGGAAGTGGTGG-ACT
* * * ** * *
125861 AGTGCTTCT---AGTGGTGAAGCTAATATT-GTCGAAGTGGCGGCGCTAGTGCTTCCGGTAAGGG
1 AGTGCTTCTGGAAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCTT-CGG-AAAGG
* * * * * * * * * *
125922 TGAAGCT-AATGTTGGTAGAGGTGGAGGTGCTAGTGCTTCCGGCAAG-GGTGAAGTTAATGTTGG
64 TGAAGCTAAAAG-TGATGGAAGTGGCGGCGCCAATGCTTCCGGC-AGTGGTCAAGCTAATGTTGG
* * *
125985 TGGAAATGGCGGTGCT
127 TGGAAGTGGTGG-ACT
* ** * *
126001 AGTGCTTCTGGAA-TGGTCAAGCTAATGCTGGTGGAAGTGGTGGCGCTAGTGCTTCTGGAAGTGG
1 AGTGCTTCTGGAAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCTTC-GGAA-AGG
* * * * ** * * * ** * *
126065 TCATGCT-AATGTTGGTCAAAGTGGCGGTGCCAGTGCTTCCGGTAAAGGTGAAGCTAAAG-TGGT
64 TGAAGCTAAAAG-TGATGGAAGTGGCGGCGCCAATGCTTCCGGCAGTGGTCAAGCTAATGTTGGT
* * *
126128 GGAAGCGGCGGAGCC
128 GGAAGTGGTGGA-CT
* * * * * ** * *
126143 AATGCTTCTGGAAGTGGCCAAACTAATGTTGCTGGAAGCGGCGGTGCTAGTGCGTCTGGAAGTGG
1 AGTGCTTCTGGAAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCTTC-GGAA-AGG
* * * * * * * * * * * * * * *
126208 TCATGCT-AATGTGGTGGAGGTGGCGGTGCTAGTGCTTCTGGAAGTAGCCATGCTCATGCTGGTG
64 TGAAGCTAAAAGTGATGGAAGTGGCGGCGCCAATGCTTCCGGCAGTGGTCAAGCTAATGTTGGTG
* *
126272 GAGGTGGTGGCGCT
129 GAAGTGGTGG-ACT
* * * * *
126286 AGTGCCTCTGGAAGTGGTCATGCTCATGTTGGTGGAGGTGGCAGTGCTAGTGCTTC
1 AGTGCTTCTGGAAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCTTC
126342 TGGTAGTGGT
Statistics
Matches: 973, Mismatches: 180, Indels: 86
0.79 0.15 0.07
Matches are distributed among these distances:
139 9 0.01
140 104 0.11
141 51 0.05
142 157 0.16
143 513 0.53
144 135 0.14
145 4 0.00
ACGTcount: A:0.22, C:0.14, G:0.38, T:0.26
Consensus pattern (141 bp):
AGTGCTTCTGGAAGTGGTCAAGCTAATGTTGGTGGAAGTGGAAGTGCTAGTGCTTCGGAAAGGTG
AAGCTAAAAGTGATGGAAGTGGCGGCGCCAATGCTTCCGGCAGTGGTCAAGCTAATGTTGGTGGA
AGTGGTGGACT
Found at i:125422 original size:24 final size:24
Alignment explanation
Indices: 125395--125472 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
125385 TGCTTCTGGC
125395 AGTGGTCAAGCTAATGTTGGTGGA
1 AGTGGTCAAGCTAATGTTGGTGGA
** * ** *
125419 AGTGG-CGGTGCTAGTGCTT-CCGGT
1 AGTGGTC-AAGCTAATG-TTGGTGGA
125443 AGTGGTCAAGCTAATGTTGGTGGA
1 AGTGGTCAAGCTAATGTTGGTGGA
125467 AGTGGT
1 AGTGGT
125473 GGCGCTAGTG
Statistics
Matches: 38, Mismatches: 12, Indels: 8
0.66 0.21 0.14
Matches are distributed among these distances:
23 3 0.08
24 32 0.84
25 3 0.08
ACGTcount: A:0.19, C:0.12, G:0.40, T:0.29
Consensus pattern (24 bp):
AGTGGTCAAGCTAATGTTGGTGGA
Found at i:125479 original size:24 final size:24
Alignment explanation
Indices: 125452--125622 Score: 71
Period size: 24 Copynumber: 7.2 Consensus size: 24
125442 TAGTGGTCAA
125452 GCTAATGTTGGTGGAAGTGGTGGC
1 GCTAATGTTGGTGGAAGTGGTGGC
* * * * **
125476 GCTAGTGCT-CTCGGAA-AGGTGAA
1 GCTAATGTTGGT-GGAAGTGGTGGC
* *
125499 GCTAATATTGGTGGAAGTGGCGGC
1 GCTAATGTTGGTGGAAGTGGTGGC
** *** **
125523 GCTAGCGTTTCCGGTAAG-GGTGAA
1 GCTAATGTTGGTGG-AAGTGGTGGC
**
125547 GCTAATGTTGGTGGAAGTGGCAGC
1 GCTAATGTTGGTGGAAGTGGTGGC
* *** **
125571 GCTAGTGTTTCCGGCAAG-GGTGAA
1 GCTAATGTTGGTGG-AAGTGGTGGC
*
125595 GCTAATGTTGGTGGAAGTGGCGGC
1 GCTAATGTTGGTGGAAGTGGTGGC
125619 GCTA
1 GCTA
125623 GTGCTTCAGG
Statistics
Matches: 93, Mismatches: 47, Indels: 14
0.60 0.31 0.09
Matches are distributed among these distances:
23 21 0.23
24 66 0.71
25 6 0.06
ACGTcount: A:0.20, C:0.14, G:0.40, T:0.25
Consensus pattern (24 bp):
GCTAATGTTGGTGGAAGTGGTGGC
Found at i:125742 original size:24 final size:23
Alignment explanation
Indices: 125668--125742 Score: 55
Period size: 24 Copynumber: 3.1 Consensus size: 23
125658 AGTGGTGGCA
125668 CTAGTGCTTCTGGAAAGGGTGAAG
1 CTAGTGCTTCTGGAAAGGG-GAAG
* ** *
125692 CTAATG-TAGGTGGAAGTAGGGG-TG
1 CTAGTGCT-TCTGGAA--AGGGGAAG
125716 CTAGTGCTTCTGGAAAGGGAGAAG
1 CTAGTGCTTCTGGAAAGGG-GAAG
125740 CTA
1 CTA
125743 ATATTGGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
22 4 0.11
23 2 0.05
24 25 0.68
25 2 0.05
26 4 0.11
ACGTcount: A:0.27, C:0.11, G:0.39, T:0.24
Consensus pattern (23 bp):
CTAGTGCTTCTGGAAAGGGGAAG
Found at i:126016 original size:23 final size:23
Alignment explanation
Indices: 125989--126060 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
125979 TGTTGGTGGA
*
125989 AATGGCGGTGCTAGTGCTTCTGG
1 AATGGCGGAGCTAGTGCTTCTGG
* * **
126012 AATGGTC-AAGCTAATGCTGGTGG
1 AATGG-CGGAGCTAGTGCTTCTGG
* *
126035 AAGTGGTGGCGCTAGTGCTTCTGG
1 AA-TGGCGGAGCTAGTGCTTCTGG
126059 AA
1 AA
126061 GTGGTCATGC
Statistics
Matches: 35, Mismatches: 11, Indels: 5
0.69 0.22 0.10
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.19, C:0.15, G:0.38, T:0.28
Consensus pattern (23 bp):
AATGGCGGAGCTAGTGCTTCTGG
Found at i:126072 original size:24 final size:24
Alignment explanation
Indices: 125997--126072 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
125987 GAAATGGCGG
125997 TGCTAGTGCTTCTGGAA-TGGTCA
1 TGCTAGTGCTTCTGGAAGTGGTCA
* * ** **
126020 AGCTAATGCTGGTGGAAGTGGTGG
1 TGCTAGTGCTTCTGGAAGTGGTCA
*
126044 CGCTAGTGCTTCTGGAAGTGGTCA
1 TGCTAGTGCTTCTGGAAGTGGTCA
126068 TGCTA
1 TGCTA
126073 ATGTTGGTCA
Statistics
Matches: 39, Mismatches: 13, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
23 13 0.33
24 26 0.67
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (24 bp):
TGCTAGTGCTTCTGGAAGTGGTCA
Found at i:126214 original size:24 final size:24
Alignment explanation
Indices: 126187--126361 Score: 78
Period size: 24 Copynumber: 7.3 Consensus size: 24
126177 GAAGCGGCGG
126187 TGCTAGTGCGTCTGGAAGTGGTCA
1 TGCTAGTGCGTCTGGAAGTGGTCA
* * * * *
126211 TGCTAATGTG-GTGGAGGTGG-CGG
1 TGCTAGTGCGTCTGGAAGTGGTC-A
* * *
126234 TGCTAGTGCTTCTGGAAGTAGCCA
1 TGCTAGTGCGTCTGGAAGTGGTCA
* * **
126258 TGCTCA-TGC-TGGTGGAGGTGGTGG
1 TGCT-AGTGCGT-CTGGAAGTGGTCA
* *
126282 CGCTAGTGCCTCTGGAAGTGGTCA
1 TGCTAGTGCGTCTGGAAGTGGTCA
*
126306 TGCTCATGTTG-G--TGGAGGTGG-CA
1 TGCT-A-G-TGCGTCTGGAAGTGGTCA
* *
126329 GTGCTAGTGCTTCTGGTAGTGGTCA
1 -TGCTAGTGCGTCTGGAAGTGGTCA
126354 TGCTAGTG
1 TGCTAGTG
126362 TTGGTGGACA
Statistics
Matches: 107, Mismatches: 29, Indels: 30
0.64 0.17 0.18
Matches are distributed among these distances:
21 2 0.02
22 2 0.02
23 20 0.19
24 74 0.69
25 6 0.06
26 1 0.01
27 2 0.02
ACGTcount: A:0.14, C:0.16, G:0.40, T:0.30
Consensus pattern (24 bp):
TGCTAGTGCGTCTGGAAGTGGTCA
Found at i:128080 original size:60 final size:60
Alignment explanation
Indices: 128016--128130 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 60
128006 ATGGCCGGGT
128016 GACTATTTTATAACTTTTAATAGTAGAGGGACTCAACAAAGCAACATCCTATAGTTGGGG
1 GACTATTTTATAACTTTTAATAGTAGAGGGACTCAACAAAGCAACATCCTATAGTTGGGG
* * * * *
128076 GACTATTTTGTAACTTTTAATAGTCGAGGGACTCAATAAAGTAACATTCTATAGT
1 GACTATTTTATAACTTTTAATAGTAGAGGGACTCAACAAAGCAACATCCTATAGT
128131 GAGATGACCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (60 bp):
GACTATTTTATAACTTTTAATAGTAGAGGGACTCAACAAAGCAACATCCTATAGTTGGGG
Found at i:128130 original size:31 final size:31
Alignment explanation
Indices: 128035--128130 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 31
128025 ATAACTTTTA
* * *
128035 ATAGTAGAGGGACTCAACAAAGCAACATCCT
1 ATAGTAGAGGGACTCAATAAAGTAACATTCT
* * *** *
128066 ATAGTTGGGGGACT--ATTTTGTAAC-TTTT
1 ATAGTAGAGGGACTCAATAAAGTAACATTCT
*
128094 AATAGTCGAGGGACTCAATAAAGTAACATTCT
1 -ATAGTAGAGGGACTCAATAAAGTAACATTCT
128126 ATAGT
1 ATAGT
128131 GAGATGACCA
Statistics
Matches: 46, Mismatches: 15, Indels: 8
0.67 0.22 0.12
Matches are distributed among these distances:
28 2 0.04
29 17 0.37
31 24 0.52
32 3 0.07
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (31 bp):
ATAGTAGAGGGACTCAATAAAGTAACATTCT
Found at i:129961 original size:21 final size:21
Alignment explanation
Indices: 129936--129980 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
129926 ACTTAATGCA
*
129936 TTTAGTACCTAAACTATCAGT
1 TTTAGTACCTAAACTATCAAT
* *
129957 TTTAGTACCTTAACTTTCAAT
1 TTTAGTACCTAAACTATCAAT
129978 TTT
1 TTT
129981 TTTTCTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTAGTACCTAAACTATCAAT
Found at i:131175 original size:378 final size:376
Alignment explanation
Indices: 130535--131289 Score: 1367
Period size: 378 Copynumber: 2.0 Consensus size: 376
130525 TGCATTTAAT
*
130535 AAGTACGTTGTTCATTTAAGCAGGCATTGCATTTAAATCATCTAGTATTTAGGGAAGTAGTTCAT
1 AAGTACGTTGTTCATTTAAGCAGGCATTGCATTTAAATCATCTAGTATTTAGGGAAGTAGTTCAA
*
130600 TATGCATATTTAGATCATTTAGTAAGCTACTTCATTCATGCATCTAGTTCATTGAATAAAGTTAG
66 TATGCATATTTAGATCATTTAGTAAGCTACTTCATTCATGCATCTAGTTCATTGAATAAAATTAG
130665 TTCATTAATCAAACTAACTCTTAATTATCCCATGCATATATTTATGTTATGATTGAATAAAGTTT
131 TTCATTAATCAAACTAACTCTTAATTATCCCATGCATATATTTATGTTATGATTGAATAAAGTTT
130730 ATCTTTGTGTTTAGGTGCAAGAGGAAAGCTGAACAGTCTCAACAGATGCAAGAATATTAGTCAGA
196 ATCTTTGTGTTTAGGTGCAAGAGGAAAGCTGAACAGTCTCAACAGATGCAAGAATATTAGTCAGA
*
130795 ATGTATTCTAATT-TGGAAGAGATAC-ATATTTTTGGGGCCAGAAACCAAATTGGACATTATTCC
261 ATGT-GTCTAATTCTGGAAGAGATACAATATTTTTGGGGCCAGAAACC-AATTGGACATTATTCC
130858 TCTATCTCTTAGCTTTCCAACGCCTTTTTGAATCACCTATTGC-TTCATTTTAG
324 TCTATCTCTTAGCTTTCCAACGCC-TTTTGAATCACCTATTGCTTTCATTTTAG
130911 AAGTACGTTGTTCATTTAAGCAGGCATTGCATTTAAATCATCTAGTTCATTTAGGGAAGTAGTTC
1 AAGTACGTTGTTCATTTAAGCAGGCATTGCATTTAAATCATCTAG-T-ATTTAGGGAAGTAGTTC
130976 AAT-TGCATATTTAGATCATTTAGTAAGCTACTTCATTCA-GCATCTAGTTCATTGAATAAAATT
64 AATATGCATATTTAGATCATTTAGTAAGCTACTTCATTCATGCATCTAGTTCATTGAATAAAATT
131039 AGTTCATTAATCAAACTAACTCTTAATTATCCCATGCATATATTTACATGTTATGATTGAATAAA
129 AGTTCATTAATCAAACTAACTCTTAATTATCCCATGCATATATTT--ATGTTATGATTGAATAAA
131104 GTTTATCTTTGTGTTTAGGTGCAAGAGGAAAGCTGAACAGTCTCAACAGATGCAAGAATATTAGT
192 GTTTATCTTTGTGTTTAGGTGCAAGAGGAAAGCTGAACAGTCTCAACAGATGCAAGAATATTAGT
*
131169 CAGAATGTGTCTAATTCTGGATGAGATACATATATTTTTGGGGCCAGAAACCAATTGGACATTAT
257 CAGAATGTGTCTAATTCTGGAAGAGATACA-ATATTTTTGGGGCCAGAAACCAATTGGACATTAT
131234 TCCTCTATCTCTTAGCTTTCCAACGCCTTTTGAATCACCTATTGCTTTCATTTTAG
321 TCCTCTATCTCTTAGCTTTCCAACGCCTTTTGAATCACCTATTGCTTTCATTTTAG
131290 TTTTTGGATT
Statistics
Matches: 367, Mismatches: 4, Indels: 13
0.96 0.01 0.03
Matches are distributed among these distances:
376 113 0.31
377 44 0.12
378 139 0.38
379 50 0.14
380 21 0.06
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (376 bp):
AAGTACGTTGTTCATTTAAGCAGGCATTGCATTTAAATCATCTAGTATTTAGGGAAGTAGTTCAA
TATGCATATTTAGATCATTTAGTAAGCTACTTCATTCATGCATCTAGTTCATTGAATAAAATTAG
TTCATTAATCAAACTAACTCTTAATTATCCCATGCATATATTTATGTTATGATTGAATAAAGTTT
ATCTTTGTGTTTAGGTGCAAGAGGAAAGCTGAACAGTCTCAACAGATGCAAGAATATTAGTCAGA
ATGTGTCTAATTCTGGAAGAGATACAATATTTTTGGGGCCAGAAACCAATTGGACATTATTCCTC
TATCTCTTAGCTTTCCAACGCCTTTTGAATCACCTATTGCTTTCATTTTAG
Found at i:131403 original size:19 final size:19
Alignment explanation
Indices: 131379--131417 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
131369 TCACCTATAG
131379 CTAGTGAGTCACGTTCCAT
1 CTAGTGAGTCACGTTCCAT
131398 CTAGTGAGTCACGTTCCAT
1 CTAGTGAGTCACGTTCCAT
131417 C
1 C
131418 CTCTATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (19 bp):
CTAGTGAGTCACGTTCCAT
Found at i:146619 original size:15 final size:14
Alignment explanation
Indices: 146599--146628 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
146589 CACCCGCTCG
146599 CATCTGCTTGCGCCA
1 CATCTGCTTGC-CCA
146614 CATCTGCTTGCCCA
1 CATCTGCTTGCCCA
146628 C
1 C
146629 TAATTGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.13, C:0.43, G:0.17, T:0.27
Consensus pattern (14 bp):
CATCTGCTTGCCCA
Found at i:147061 original size:14 final size:14
Alignment explanation
Indices: 147042--147070 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
147032 ATTCACCTCA
147042 CATGTTTGACATCC
1 CATGTTTGACATCC
147056 CATGTTTGACATCC
1 CATGTTTGACATCC
147070 C
1 C
147071 TATAGGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (14 bp):
CATGTTTGACATCC
Found at i:147282 original size:85 final size:84
Alignment explanation
Indices: 147139--147301 Score: 247
Period size: 85 Copynumber: 1.9 Consensus size: 84
147129 AAATTTTAAA
* ** * *
147139 TTTCATTTGATTAGTTATTTATTTTATTGATAATATTAATCCTAAATTTTTTTATATACATTTTA
1 TTTCACTTGATTAGTTATCCATTTTATTAATAATATTAATCCTAAATTTTTTTATATACA-TTGA
147204 TATAAAAATATTATATACAC
65 TATAAAAATATTATATACAC
*
147224 TTTCACTTGATTAGTTATCCATTTTATTAATAATATTAA-CCTTAATTTTTTTTATATACATTGA
1 TTTCACTTGATTAGTTATCCATTTTATTAATAATATTAATCC-TAAATTTTTTTATATACATTGA
147288 TATAAAAATATTAT
65 TATAAAAATATTAT
147302 GTTATTAATG
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
84 19 0.27
85 52 0.73
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (84 bp):
TTTCACTTGATTAGTTATCCATTTTATTAATAATATTAATCCTAAATTTTTTTATATACATTGAT
ATAAAAATATTATATACAC
Found at i:147644 original size:38 final size:36
Alignment explanation
Indices: 147602--147673 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 36
147592 CTAAATATTC
* *
147602 GAGTCAGATCGGAGCGGAGTGAAAGATATATATTTTCT
1 GAGTCAGATCGGAGCAGA-TGAAAAATATA-ATTTTCT
*
147640 GAGTCAGATCGGATCAGATGAAAAATATAATTTT
1 GAGTCAGATCGGAGCAGATGAAAAATATAATTTT
147674 TAGGTTAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 5 0.16
37 10 0.32
38 16 0.52
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (36 bp):
GAGTCAGATCGGAGCAGATGAAAAATATAATTTTCT
Found at i:165597 original size:30 final size:29
Alignment explanation
Indices: 165530--165600 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
165520 TCTCTCTCCT
* * *
165530 ATTTTCCTCACTCAACTTTCAATTTGATC
1 ATTTTGCTCACTAAACTTTCAATTCGATC
*
165559 AATTTGCTCACTAAACTTTACAA-TCGAATC
1 ATTTTGCTCACTAAACTTT-CAATTCG-ATC
165589 ATTTTGCTCACT
1 ATTTTGCTCACT
165601 CGACCGTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (29 bp):
ATTTTGCTCACTAAACTTTCAATTCGATC
Found at i:168785 original size:14 final size:15
Alignment explanation
Indices: 168760--168788 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
168750 TTATGATTCA
168760 AACATCTAAAAATAT
1 AACATCTAAAAATAT
168775 AACAT-TAAAAATAT
1 AACATCTAAAAATAT
168789 TAAATACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
AACATCTAAAAATAT
Found at i:169071 original size:20 final size:20
Alignment explanation
Indices: 169019--169072 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
169009 TATTGATTTT
169019 ATTATTATTATTTTAACAAA
1 ATTATTATTATTTTAACAAA
*
169039 ATTAATT-TT-TTTTACCTAAA
1 ATT-ATTATTATTTTAAC-AAA
169059 A-TATTATTATTTTA
1 ATTATTATTATTTTA
169073 TCTGATTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 3 0.10
19 9 0.31
20 14 0.48
21 3 0.10
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTTTAACAAA
Found at i:174054 original size:25 final size:25
Alignment explanation
Indices: 174026--174074 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
174016 ATTGGTTCAA
*
174026 GTGGTAAGTAATTTGATATCATTTG
1 GTGGTAAGTAATTTAATATCATTTG
174051 GTGGTAAGTAATTTAATATCATTT
1 GTGGTAAGTAATTTAATATCATTT
174075 AAGTAGGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (25 bp):
GTGGTAAGTAATTTAATATCATTTG
Found at i:179619 original size:9 final size:10
Alignment explanation
Indices: 179589--179613 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
179579 ACATTTAAAT
179589 TTTTAAAAAA
1 TTTTAAAAAA
179599 TTTTAAAAAA
1 TTTTAAAAAA
179609 TTTTA
1 TTTTA
179614 GAAATTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:180397 original size:23 final size:24
Alignment explanation
Indices: 180368--180431 Score: 87
Period size: 25 Copynumber: 2.7 Consensus size: 24
180358 CATCTTCATA
180368 TATTATTAACT-ATAAAA-ATAATT
1 TATTATTAA-TAATAAAAGATAATT
*
180391 TATTATTAATAATAAAATGATATTT
1 TATTATTAATAATAAAA-GATAATT
180416 TATTATTAATAATAAA
1 TATTATTAATAATAAA
180432 TTTAAAATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 1 0.03
23 15 0.41
25 21 0.57
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TATTATTAATAATAAAAGATAATT
Found at i:183811 original size:21 final size:21
Alignment explanation
Indices: 183770--183812 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
183760 TTATTTATTT
* *
183770 CTAAATTAAATTAGAAATATA
1 CTAAACTAAAGTAGAAATATA
183791 CTAAACTAAAGTA-AAATTATA
1 CTAAACTAAAGTAGAAA-TATA
183812 C
1 C
183813 GTTCATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (21 bp):
CTAAACTAAAGTAGAAATATA
Found at i:186016 original size:13 final size:12
Alignment explanation
Indices: 185941--186021 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 12
185931 TGTTAGATTG
185941 TAAAATAA-AAA
1 TAAAATAATAAA
185952 T-AAATGAA-AAA
1 TAAAAT-AATAAA
185963 -AATAATAATAAA
1 TAA-AATAATAAA
185975 TATTAATATAATGATAA
1 TA--AA-ATAAT-A-AA
185992 TAAAA-AATAAA
1 TAAAATAATAAA
186003 TAAAATAGATAAA
1 TAAAATA-ATAAA
186016 TAAAAT
1 TAAAAT
186022 TGAGTAAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 22
0.73 0.00 0.28
Matches are distributed among these distances:
10 4 0.07
11 16 0.28
12 8 0.14
13 15 0.26
14 2 0.03
15 8 0.14
16 1 0.02
17 4 0.07
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (12 bp):
TAAAATAATAAA
Found at i:186033 original size:13 final size:13
Alignment explanation
Indices: 185990--186021 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
185980 ATATAATGAT
185990 AATAAAA-A-ATA
1 AATAAAATAGATA
186001 AATAAAATAGATA
1 AATAAAATAGATA
186014 AATAAAAT
1 AATAAAAT
186022 TGAGTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 1 0.05
13 11 0.58
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AATAAAATAGATA
Found at i:187713 original size:36 final size:36
Alignment explanation
Indices: 187666--187735 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
187656 TTGTCTCGAG
187666 TCCAATATCCTTCGTTGTGAAGTTGAACTTGGCTTT
1 TCCAATATCCTTCGTTGTGAAGTTGAACTTGGCTTT
187702 TCCAATATCCTTCGTTGTGAAGTTGAACTTGGCT
1 TCCAATATCCTTCGTTGTGAAGTTGAACTTGGCT
187736 CTGAAATTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (36 bp):
TCCAATATCCTTCGTTGTGAAGTTGAACTTGGCTTT
Found at i:187822 original size:142 final size:142
Alignment explanation
Indices: 187561--187840 Score: 425
Period size: 142 Copynumber: 2.0 Consensus size: 142
187551 TGTTTCAAGG
* *
187561 CCAACATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAACCAG
1 CCAACATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAACCGAGAAATTGTTTGTTGACAACCAG
** **
187626 CCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CCGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
*
187691 AACTTGGCTTTT
131 AAATTGGCTTTT
* * * ** *
187703 CCAATATCCTTCGTTGTGAAGTTGAACTTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAG
1 CCAACATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAACCGAGAAATTGTTTGTTGACAACCAG
* *
187768 CGGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CCGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
187833 AAATTGGC
131 AAATTGGC
187841 ACTGAAATTG
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
142 123 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (142 bp):
CCAACATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAACCGAGAAATTGTTTGTTGACAACCAG
CCGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTG
AAATTGGCTTTT
Found at i:187827 original size:106 final size:106
Alignment explanation
Indices: 187702--188864 Score: 2020
Period size: 106 Copynumber: 11.0 Consensus size: 106
187692 ACTTGGCTTT
*
187702 TCCAATATCCTTCGTTGTGAAGTTGAACTTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
* *
187767 GCGGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
187808 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCACTGAAATTGAGAAGTTGTTTGTTGGCAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
*
187873 GCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
187914 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
*
187979 GCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
188020 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTATTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
*
188085 GCGGCCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
188126 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
* *
188191 GCGGTCCCTACGTCGTGAAGTTGAACATGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
188232 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACGACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
* *
188297 GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTCGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
188338 TCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
188403 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
188444 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
188509 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* * * *
188550 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGCAGTTATTTTGTTGACAACC
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT-GTTTGTTGACAACC
188615 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
188657 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGAGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
188722 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* * *
188763 TCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGATAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
** * *
188828 GCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
188865 CTAGTGGCAC
Statistics
Matches: 1012, Mismatches: 44, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
106 910 0.90
107 102 0.10
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
Found at i:189409 original size:18 final size:18
Alignment explanation
Indices: 189382--189417 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
189372 TGCTGAATCC
* *
189382 CCAAATATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
189400 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
189418 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.06, T:0.22
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:189859 original size:22 final size:22
Alignment explanation
Indices: 189831--189881 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
189821 TTGTGTTTGG
189831 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
189853 TTAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
189875 TCAAAGG
1 TCAAAGG
189882 ATTGATGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.37
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:190524 original size:7 final size:7
Alignment explanation
Indices: 190492--190572 Score: 58
Period size: 7 Copynumber: 11.6 Consensus size: 7
190482 ATTTTGTTCC
190492 TTTTTC-
1 TTTTTCT
**
190498 TTTTTGA
1 TTTTTCT
*
190505 TTTTTGT
1 TTTTTCT
*
190512 TCTTTCT
1 TTTTTCT
190519 TTTTTCTT
1 TTTTTC-T
*
190527 TTTTTCC
1 TTTTTCT
*
190534 TTCTT-T
1 TTTTTCT
*
190540 TTTTCCT
1 TTTTTCT
*
190547 TCTTTTAT
1 T-TTTTCT
190555 TTTTTCT
1 TTTTTCT
190562 TTTTTCT
1 TTTTTCT
190569 TTTT
1 TTTT
190573 GTTTTGATTA
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
6 8 0.14
7 38 0.66
8 12 0.21
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:190528 original size:19 final size:19
Alignment explanation
Indices: 190506--190542 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
190496 TCTTTTTGAT
*
190506 TTTTGTTCTTTCTTTTTTC
1 TTTTGTTCCTTCTTTTTTC
*
190525 TTTTTTTCCTTCTTTTTT
1 TTTTGTTCCTTCTTTTTT
190543 TCCTTCTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTTGTTCCTTCTTTTTTC
Found at i:190542 original size:20 final size:20
Alignment explanation
Indices: 190495--190575 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
190485 TTGTTCCTTT
** *
190495 TTCTTTTTGATTTTTGTTCT
1 TTCTTTTTTCTTTTTGTTCC
190515 TTCTTTTTTCTTTTT-TTCC
1 TTCTTTTTTCTTTTTGTTCC
* **
190534 TTCTTTTTTTCCTTCTTTTATTTT
1 TTC-TTTTTT-C-T-TTTTGTTCC
190558 TTCTTTTTTCTTTTTGTT
1 TTCTTTTTTCTTTTTGTT
190576 TTGATTAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
19 6 0.12
20 25 0.50
21 2 0.04
22 2 0.04
23 10 0.20
24 5 0.10
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (20 bp):
TTCTTTTTTCTTTTTGTTCC
Found at i:190571 original size:12 final size:12
Alignment explanation
Indices: 190522--190566 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
190512 TCTTTCTTTT
190522 TTCTTTTTTTCC
1 TTCTTTTTTTCC
190534 TTCTTTTTTTCC
1 TTCTTTTTTTCC
*
190546 TTCTTTTATTT-T
1 TTCTTTT-TTTCC
190558 TTCTTTTTT
1 TTCTTTTTT
190567 CTTTTTGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 2 0.06
12 26 0.84
13 3 0.10
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (12 bp):
TTCTTTTTTTCC
Found at i:190577 original size:12 final size:11
Alignment explanation
Indices: 190505--190571 Score: 62
Period size: 12 Copynumber: 5.7 Consensus size: 11
190495 TTCTTTTTGA
*
190505 TTTTTGTTCTT
1 TTTTTTTTCTT
*
190516 TCTTTTTTCTT
1 TTTTTTTTCTT
*
190527 TTTTTCCTTCTT
1 TTTTT-TTTCTT
*
190539 TTTTTCCTTCTT
1 TTTTT-TTTCTT
190551 TTATTTTTTCTT
1 TT-TTTTTTCTT
190563 TTTTCTTTT
1 TTTT-TTTT
190572 TGTTTTGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
11 15 0.31
12 30 0.62
13 3 0.06
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:191795 original size:7 final size:7
Alignment explanation
Indices: 191783--191830 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
191773 TGAAATGTAT
191783 ATGCAAA
1 ATGCAAA
191790 ATGCAAA
1 ATGCAAA
*
191797 ATGTAAA
1 ATGCAAA
*
191804 ATGTAAA
1 ATGCAAA
*
191811 ATGTAAA
1 ATGCAAA
*
191818 ATGTAAAA
1 ATG-CAAA
191826 ATGCA
1 ATGCA
191831 TGAAATGTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.23
Consensus pattern (7 bp):
ATGCAAA
Found at i:191806 original size:14 final size:14
Alignment explanation
Indices: 191787--191825 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
191777 ATGTATATGC
*
191787 AAAATGCAAAATGT
1 AAAATGTAAAATGT
191801 AAAATGTAAAATGT
1 AAAATGTAAAATGT
191815 AAAATGTAAAA
1 AAAATGTAAAA
191826 ATGCATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.23
Consensus pattern (14 bp):
AAAATGTAAAATGT
Found at i:193639 original size:13 final size:13
Alignment explanation
Indices: 193564--193701 Score: 63
Period size: 12 Copynumber: 10.3 Consensus size: 13
193554 TTAGATTGTA
193564 AAATAAAAATAAAT
1 AAAT-AAAATAAAT
*
193578 GAAAAAAAATAATAAT
1 -AAATAAAAT-A-AAT
*
193594 AAATATTAATATAAT
1 AAATA-AAATA-AAT
193609 GATAATAAAA-AAAT
1 -A-AATAAAATAAAT
*
193623 AAATAAAATAGAT
1 AAATAAAATAAAT
* *
193636 AAATAAAATTGAGT
1 AAATAAAA-TAAAT
*
193650 AAAAAAAACTAAA-
1 AAATAAAA-TAAAT
193663 AAAT--AATAAA-
1 AAATAAAATAAAT
*
193673 AAACAAAATAAA-
1 AAATAAAATAAAT
* *
193685 AAACAAAATAAAA
1 AAATAAAATAAAT
193698 AAAT
1 AAAT
193702 GTTAAAATGA
Statistics
Matches: 98, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
10 7 0.07
11 2 0.02
12 25 0.26
13 18 0.18
14 19 0.19
15 14 0.14
16 9 0.09
17 4 0.04
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:193698 original size:18 final size:18
Alignment explanation
Indices: 193652--193700 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
193642 AATTGAGTAA
*
193652 AAAAAACTAAAAAATAAT
1 AAAAAACTAAAAAAAAAT
193670 AAAAAAC-AAAATAAAAA-
1 AAAAAACTAAAA-AAAAAT
*
193687 ACAAAA-TAAAAAAA
1 AAAAAACTAAAAAAA
193701 TGTTAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 3 0.11
17 13 0.48
18 11 0.41
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAACTAAAAAAAAAT
Found at i:195338 original size:2 final size:2
Alignment explanation
Indices: 195333--195364 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
195323 TTTTTTATGA
195333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
195365 TTAACATTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:197097 original size:15 final size:16
Alignment explanation
Indices: 197071--197100 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
197061 AAATACAAAT
197071 ATAAATTAACATGAAA
1 ATAAATTAACATGAAA
197087 ATAAA-TAACATGAA
1 ATAAATTAACATGAA
197101 TTAAGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (16 bp):
ATAAATTAACATGAAA
Found at i:199951 original size:3 final size:3
Alignment explanation
Indices: 199943--199975 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
199933 TTAGATATTG
199943 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
199976 TACAGACCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:214273 original size:14 final size:14
Alignment explanation
Indices: 214254--214295 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
214244 TGAAAGCGTG
214254 TAAATATTTTTTTA
1 TAAATATTTTTTTA
214268 TAAATATTTTTTTA
1 TAAATATTTTTTTA
214282 TAAATATTTTTTTA
1 TAAATATTTTTTTA
214296 ATCACCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TAAATATTTTTTTA
Found at i:219350 original size:18 final size:18
Alignment explanation
Indices: 219327--219399 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
219317 ACTGAATATT
219327 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
219345 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
219364 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
*
219383 TTTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
219400 GACAATCCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 31 0.65
19 2 0.04
20 15 0.31
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:219374 original size:38 final size:38
Alignment explanation
Indices: 219326--219401 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
219316 CACTGAATAT
*
219326 TTGTCCCGAAGGACCACTATGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
* *
219364 TTGTTCCGAAGAACCACTATTTCCCGAAGGACCACTGA
1 TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
219402 CAATCCCTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (38 bp):
TTGTCCCGAAGAACCACTATGTCCCGAAGGACCACTGA
Found at i:227865 original size:111 final size:113
Alignment explanation
Indices: 227668--227880 Score: 333
Period size: 111 Copynumber: 1.9 Consensus size: 113
227658 GAAGGGGCCC
* * * *
227668 AAAAAAGCCCAAAAAAGTATATATATAGTGGCGTTTTTTCAATAAACGCTACTATAGATGGATCT
1 AAAAAAGCCCAAAAAAGCATATATATAGTGGCGTTTTTCCAATAAACGCCACTATAGATGGACCT
* *
227733 ATTGCGACGTTGTTTTTAAAAATCGCCACTATTATTGTGCAGCCCCCA
66 ATTGCGACGTTGTTTTAAAAAAACGCCACTATTATTGTGCAGCCCCCA
*
227781 AAAAAAG-CCAAAAAAGCATATATATAGTGGCG-TTTTCCAATAAACTCCACTATAGATGGACCT
1 AAAAAAGCCCAAAAAAGCATATATATAGTGGCGTTTTTCCAATAAACGCCACTATAGATGGACCT
227844 ATTGCGACG-TGTTTTCAAAAAAACGCCACTATTATTG
66 ATTGCGACGTTGTTTT-AAAAAAACGCCACTATTATTG
227881 CCCAAAATCG
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
110 6 0.07
111 55 0.60
112 24 0.26
113 7 0.08
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (113 bp):
AAAAAAGCCCAAAAAAGCATATATATAGTGGCGTTTTTCCAATAAACGCCACTATAGATGGACCT
ATTGCGACGTTGTTTTAAAAAAACGCCACTATTATTGTGCAGCCCCCA
Found at i:241527 original size:26 final size:28
Alignment explanation
Indices: 241464--241527 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
241454 TGTAGCAAGC
*
241464 TTAACTAGCACAAGTCGAGCAATAATTTT
1 TTAACGAGCACAAGTCGAGCAATAA-TTT
* *
241493 TTTACGAGCACGAGTCGAGCAA-AA-TT
1 TTAACGAGCACAAGTCGAGCAATAATTT
241519 TTAACGAGC
1 TTAACGAGC
241528 TTAACGAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 10 0.32
28 2 0.06
29 19 0.61
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (28 bp):
TTAACGAGCACAAGTCGAGCAATAATTT
Found at i:242633 original size:60 final size:60
Alignment explanation
Indices: 242529--242642 Score: 133
Period size: 60 Copynumber: 1.9 Consensus size: 60
242519 GACCATTTTG
* *
242529 TAACTTGTAATAGTCGAGGGACTCAACAAAGCAACTCTCCATAGT-GGAAGGACCCTTTCA
1 TAACTTGTAATAGTCAAGGGACTCAACAAAGCAACTATCCATAGTCGG-AGGACCCTTTCA
* * * * *
242589 TAACTTTTAATAGTCAAGTGACTTAATAAAGCAA-TATCATATAGTCGGAGGACC
1 TAACTTGTAATAGTCAAGGGACTCAACAAAGCAACTATC-CATAGTCGGAGGACC
242643 ATTTGCATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
59 3 0.07
60 40 0.89
61 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (60 bp):
TAACTTGTAATAGTCAAGGGACTCAACAAAGCAACTATCCATAGTCGGAGGACCCTTTCA
Found at i:249288 original size:24 final size:24
Alignment explanation
Indices: 249245--249290 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
249235 AACATGTTTG
*
249245 TTTAATGTTCGTGATCATGTTCAC
1 TTTAATGTTCATGATCATGTTCAC
249269 TTTAATGTTCATGAAT-ATGTTC
1 TTTAATGTTCATG-ATCATGTTC
249291 GTTTAGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.24, C:0.13, G:0.15, T:0.48
Consensus pattern (24 bp):
TTTAATGTTCATGATCATGTTCAC
Found at i:249533 original size:24 final size:24
Alignment explanation
Indices: 249505--249585 Score: 162
Period size: 24 Copynumber: 3.4 Consensus size: 24
249495 TGTTCATGAA
249505 CATAAACGAACTTATACAGGAGCT
1 CATAAACGAACTTATACAGGAGCT
249529 CATAAACGAACTTATACAGGAGCT
1 CATAAACGAACTTATACAGGAGCT
249553 CATAAACGAACTTATACAGGAGCT
1 CATAAACGAACTTATACAGGAGCT
249577 CATAAACGA
1 CATAAACGA
249586 GCTGGTTCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (24 bp):
CATAAACGAACTTATACAGGAGCT
Found at i:252611 original size:27 final size:27
Alignment explanation
Indices: 252573--252625 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
252563 AAAACCAACT
**
252573 TCTTTTTCTAAGTGAGTGCCACGTAAG
1 TCTTTTTCTAAGCAAGTGCCACGTAAG
252600 TCTTTTTCTAAGCAAGTGCCACGTAA
1 TCTTTTTCTAAGCAAGTGCCACGTAA
252626 CGCACATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
TCTTTTTCTAAGCAAGTGCCACGTAAG
Found at i:252726 original size:18 final size:18
Alignment explanation
Indices: 252703--252740 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
252693 GTAAGACTTC
252703 CATTAATGGGTTAACGAA
1 CATTAATGGGTTAACGAA
*
252721 CATTAATGGGTTAATGAA
1 CATTAATGGGTTAACGAA
252739 CA
1 CA
252741 CTAACGATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (18 bp):
CATTAATGGGTTAACGAA
Found at i:259312 original size:3 final size:3
Alignment explanation
Indices: 259304--259345 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
259294 TCGCGCATAG
259304 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
259346 GGGTAAACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:259698 original size:31 final size:31
Alignment explanation
Indices: 259636--259733 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 31
259626 TAAGGGGGAA
* **
259636 TAGTCCTTAACATTATAAATTTGTTCAATTT
1 TAGTCCCTAACATTATAAATCCGTTCAATTT
* **
259667 TAGTCCCTAACATTATCAATCCGTTTGATTT
1 TAGTCCCTAACATTATAAATCCGTTCAATTT
* * *
259698 TTGTCCCTCAACAGT-TAACTCCTGTTCAATTT
1 TAGTCCCT-AACATTATAAATCC-GTTCAATTT
259730 TAGT
1 TAGT
259734 TCCTTAGCTA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
31 37 0.71
32 15 0.29
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (31 bp):
TAGTCCCTAACATTATAAATCCGTTCAATTT
Found at i:259911 original size:3 final size:3
Alignment explanation
Indices: 259903--259942 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
259893 CTTTACCCTC
259903 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
259943 GGCCTTCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.