Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold461
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: 348331
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
File 1 of 2
Found at i:138 original size:9 final size:9
Alignment explanation
Indices: 91--136 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
81 TTTTAAGCTA
91 TTTCT-TTC
1 TTTCTCTTC
*
99 TTTTTC-TC
1 TTTCTCTTC
*
107 TTTTTCTTC
1 TTTCTCTTC
116 TTTCTCTTC
1 TTTCTCTTC
125 TTTCTCTCTC
1 TTTCTCT-TC
135 TT
1 TT
137 CTTTAGTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 12 0.36
9 17 0.52
10 4 0.12
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTCTCTTC
Found at i:499 original size:2 final size:2
Alignment explanation
Indices: 492--525 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
482 ATAAGTTTCT
492 AG AG AG AG AG AG AG AG -G AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
526 AATATTTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:513 original size:15 final size:15
Alignment explanation
Indices: 493--522 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
483 TAAGTTTCTA
493 GAGAGAGAGAGAGAG
1 GAGAGAGAGAGAGAG
508 GAGAGAGAGAGAGAG
1 GAGAGAGAGAGAGAG
523 AGAAATATTT
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:0.53, T:0.00
Consensus pattern (15 bp):
GAGAGAGAGAGAGAG
Found at i:514 original size:17 final size:17
Alignment explanation
Indices: 492--524 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
482 ATAAGTTTCT
492 AGAGAGAGAGAGAGAGG
1 AGAGAGAGAGAGAGAGG
509 AGAGAGAGAGAGAGAG
1 AGAGAGAGAGAGAGAG
525 AAATATTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (17 bp):
AGAGAGAGAGAGAGAGG
Found at i:879 original size:162 final size:166
Alignment explanation
Indices: 659--1340 Score: 725
Period size: 162 Copynumber: 4.2 Consensus size: 166
649 ATGGGAGTTC
* * *** ** **
659 AATAACAATATTAGATGAATTTTAAAAATTTTAAATCGAGAAAAATTCTCTTGAAAAAATTTATA
1 AATAATAATATTTGATGAATTTTAAAAATAAAAAAT--AGAAAAATTCTCCCGAAAAAATTTACG
* * * *
724 GTGTAGAAAACT-TAGTTTTTTGGATAAA-GAAAATTTCAAGGAAAAAATTCAAAATTCATGG-A
64 GAGTAGAAAACTCTAGTTTTTTGAAAAAAGGAAAATTTCAAGGAAAAAATTCAAAATTTATGGAA
*
786 ATGAATGAATTTTT-AAAAATTGAA-TAATATGAAATA
129 ATGAATAAATTTTTCAAAAATTGAATTAATATGAAATA
*
822 AATAATAATATTTAATGAATTTTAAAAATAAAAAATTAGAAAAATTCTCCCGAAAAAATTTACGG
1 AATAATAATATTTGATGAATTTTAAAAATAAAAAA-TAGAAAAATTCTCCCGAAAAAATTTACGG
* * * * * *
887 AGTAGAAAAACTCCA-TATTTCGAAAAATGAAAAATTTCAAGGAACAAATTCAAAATTTATGGAA
65 AGTAG-AAAACTCTAGTTTTTTGAAAAAAGGAAAATTTCAAGGAAAAAATTCAAAATTTATGGAA
* *
951 ATGAATGAATTTTTCAAAAA-TGAATTACTATGAAATA
129 ATGAATAAATTTTTCAAAAATTGAATTAATATGAAATA
* *** *
988 AATAATAATATTTGATAAATTTT--TTTTAAAAAA-AGAAAAATT-TCCTTGAAAAAATTTACGG
1 AATAATAATATTTGATGAATTTTAAAAATAAAAAATAGAAAAATTCTCC-CGAAAAAATTTACGG
* *** *
1049 AGTAGAAAACTCT-GTATCTCAAAAAAAAGGGAAATTTCAAGGAAAAAATTCAAAATTTATGGAA
65 AGTAGAAAACTCTAGT-TTTTTGAAAAAAGGAAAATTTCAAGGAAAAAATTCAAAATTTATGGAA
* * *
1113 ATGAATAAATTCTT-AGAAACTGAATTAATATGAAATA
129 ATGAATAAATTTTTCAAAAATTGAATTAATATGAAATA
* * * * *
1150 AATAATAAGATTTGATGAATTTTAAAAATAAAAAAAAAGAAAAATCCTTCCGAAAAAATTTATGG
1 AATAATAATATTTGATGAATTTTAAAAAT-AAAAAATAGAAAAATTCTCCCGAAAAAATTTACGG
* * * * *
1215 AGTACAAAACT-TTGTATTTTGAAAAAA-GAAAATTTCAAGG-AAAAATTTAAAATTGAT-GAAA
65 AGTAGAAAACTCTAGTTTTTTGAAAAAAGGAAAATTTCAAGGAAAAAATTCAAAATTTATGGAAA
* * *
1276 TGAATAAATTTTT-GAAAACTGGATTAATATGAAATA
130 TGAATAAATTTTTCAAAAATTGAATTAATATGAAATA
*
1312 AATAATAATATTTGATGAATTTAAAAAAT
1 AATAATAATATTTGATGAATTTTAAAAAT
1341 TTTAGACCTA
Statistics
Matches: 437, Mismatches: 65, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
161 15 0.03
162 207 0.47
163 58 0.13
164 52 0.12
165 33 0.08
166 70 0.16
167 2 0.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.31
Consensus pattern (166 bp):
AATAATAATATTTGATGAATTTTAAAAATAAAAAATAGAAAAATTCTCCCGAAAAAATTTACGGA
GTAGAAAACTCTAGTTTTTTGAAAAAAGGAAAATTTCAAGGAAAAAATTCAAAATTTATGGAAAT
GAATAAATTTTTCAAAAATTGAATTAATATGAAATA
Found at i:2444 original size:33 final size:33
Alignment explanation
Indices: 2407--2469 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
2397 TACCATTGTT
2407 TGTATCGATACATG-GCACATTGTATCGATATAA
1 TGTATCGATACATGAGCA-ATTGTATCGATATAA
*
2440 TGTATCGATACATGAGGAATTGTATCGATA
1 TGTATCGATACATGAGCAATTGTATCGATA
2470 CATTGTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGAGCAATTGTATCGATATAA
Found at i:5569 original size:81 final size:81
Alignment explanation
Indices: 5430--5588 Score: 291
Period size: 81 Copynumber: 2.0 Consensus size: 81
5420 CACATAATTG
5430 ATATTTGTAATAATAAAACAATTTTTCTAGGCCATAGGGAAGGGAACATTTATGTTGTACATTTA
1 ATATTTGTAATAATAAAACAATTTTTCTAGGCCATAGGGAAGGGAACATTTATGTTGTACATTTA
5495 GATGCTTTAAGTTCCC
66 GATGCTTTAAGTTCCC
* * *
5511 ATATTTGTAATAATAAAACAGTTTTTCTAGGCCATAGGGAAGGGAACATTTGTTTTGTACATTTA
1 ATATTTGTAATAATAAAACAATTTTTCTAGGCCATAGGGAAGGGAACATTTATGTTGTACATTTA
5576 GATGCTTTAAGTT
66 GATGCTTTAAGTT
5589 TCCAAAACGT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (81 bp):
ATATTTGTAATAATAAAACAATTTTTCTAGGCCATAGGGAAGGGAACATTTATGTTGTACATTTA
GATGCTTTAAGTTCCC
Found at i:6158 original size:20 final size:20
Alignment explanation
Indices: 6133--6207 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
6123 TTTTACCCAG
*
6133 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * *
6153 ATGTATCGACACATGTATGA
1 ATGTATCGATACATTTTTCA
*
6173 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
6193 ATGTAGT-GATACATT
1 ATGTA-TCGATACATT
6208 CTGTCCTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 44 0.98
21 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:13240 original size:13 final size:13
Alignment explanation
Indices: 13219--13249 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13209 CGATACATGG
*
13219 TACAATGTATCGA
1 TACATTGTATCGA
13232 TACATTGTATCGA
1 TACATTGTATCGA
13245 TACAT
1 TACAT
13250 AGCTTGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:19390 original size:13 final size:13
Alignment explanation
Indices: 19372--19422 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
19362 CAATATTCCT
19372 TGTATCGATACAC
1 TGTATCGATACAC
*
19385 TGTATCGATACAT
1 TGTATCGATACAC
19398 TGTATCGATACAC
1 TGTATCGATACAC
*
19411 TGTATTGATACA
1 TGTATCGATACA
19423 TAGGGTACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:19407 original size:26 final size:26
Alignment explanation
Indices: 19371--19423 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
19361 ACAATATTCC
19371 TTGTATCGATACACTGTATCGATACA
1 TTGTATCGATACACTGTATCGATACA
*
19397 TTGTATCGATACACTGTATTGATACA
1 TTGTATCGATACACTGTATCGATACA
19423 T
1 T
19424 AGGGTACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (26 bp):
TTGTATCGATACACTGTATCGATACA
Found at i:21930 original size:19 final size:19
Alignment explanation
Indices: 21906--21960 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
21896 ACATTATGCT
* **
21906 TTGTATCGGTACATGTTAA
1 TTGTATCGATACATGACAA
21925 TTGTATCGATACATGGACAA
1 TTGTATCGATACAT-GACAA
21945 TTGTATCGATACATGA
1 TTGTATCGATACATGA
21961 GATTGACAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATGACAA
Found at i:22035 original size:33 final size:33
Alignment explanation
Indices: 21988--22054 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
21978 CTACCACTAT
* *
21988 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGAGACATGATGA-AATGTATCGATACA
*
22021 TTGTATCGAGACATGATGAATTGTATCGATACA
1 TTGTATCGAGACATGATGAAATGTATCGATACA
22054 T
1 T
22055 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (33 bp):
TTGTATCGAGACATGATGAAATGTATCGATACA
Found at i:25691 original size:27 final size:27
Alignment explanation
Indices: 25657--25796 Score: 167
Period size: 27 Copynumber: 5.1 Consensus size: 27
25647 TGGAATTCCT
*
25657 TTTTAAGTCCACAACTCTATGGCCA-CC
1 TTTTAAGTCCACAACTCTGTGG-CATCC
* *
25684 TTTTAAGTCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCTGTGGCATCC
**
25711 TCATAAGTCCACAACT-TCGTGGCATCC
1 TTTTAAGTCCACAACTCT-GTGGCATCC
**
25738 TTTTAAAGTCCACAACTCCATGGCATCC
1 TTTT-AAGTCCACAACTCTGTGGCATCC
*
25766 TTTTAAGTCTACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCTGTGGCATCC
25793 TTTT
1 TTTT
25797 CAAAGCCCAC
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.02
27 70 0.73
28 24 0.25
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTGTGGCATCC
Found at i:25773 original size:55 final size:55
Alignment explanation
Indices: 25657--25808 Score: 193
Period size: 55 Copynumber: 2.8 Consensus size: 55
25647 TGGAATTCCT
* *
25657 TTTTAAGTCCACAACTCTATGGCCA-CCTTTT-AAGTCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCTGTGG-CATCCTTTTAAAGTCCACAACTCCATGGCAACC
** *
25711 TCATAAGTCCACAACT-TCGTGGCATCCTTTTAAAGTCCACAACTCCATGGCATCC
1 TTTTAAGTCCACAACTCT-GTGGCATCCTTTTAAAGTCCACAACTCCATGGCAACC
* *
25766 TTTTAAGTCTACAACTCTGTGGCATCCTTTTCAAAGCCCACAA
1 TTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAAGTCCACAA
25809 ATCATCAAAG
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
53 3 0.04
54 23 0.27
55 47 0.56
56 11 0.13
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (55 bp):
TTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCATGGCAACC
Found at i:25853 original size:28 final size:28
Alignment explanation
Indices: 25813--26757 Score: 1029
Period size: 28 Copynumber: 33.4 Consensus size: 28
25803 CCACAAATCA
*
25813 TCAAAGCCCACAAGTCAGTGGCACCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* * *
25841 TCAAACCCCACAAGTCGGTGGCATCTTTT
1 TCAAAGCCCACAAGTCAGTGGCATC-CTT
* *
25870 TCAAAGTCCACAAGTCAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
*
25898 TCAAAGCCCACAAGTCAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* * *
25926 TCAAAGCCCATAAGTCGGTGGCATCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* * *
25954 TCTAAGCCCACAAATCAATGGCA-CACTT
1 TCAAAGCCCACAAGTCAGTGGCATC-CTT
*
25982 TCAAAGCCCACAAGTCAGTGGCACCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
26010 TTAAAGCCTACAAGTCAGTGGCATCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
26038 TCAAAGTCCACAAGTTAGTGGCATCCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCC-TT
* * * * *
26067 TCCAAGCCCGCAAATCAAG-GGTACCCTT
1 TCAAAGCCCACAAGTC-AGTGGCATCCTT
* * *
26095 TCATAGCCCACAAGTTAGTGGCACCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
*
26123 TCAAAACCCACAAGTCAGTGGCATCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
26151 TCAAAGTCCATAAGTCAGTGGCATCCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCC-TT
* *
26180 TCAAAGCCCACAAGTCGGTGGCATCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* * *
26208 TCAAAGCCCACAAGTCAATGACATCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* * *
26236 TCCAAGCCCACAAGTTAGTGGCACCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
*
26264 TCAAAGCTCACAAGTCAGTGGCATCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
26292 CCAAAGTCCACAAGTCAGTGGCATCCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCC-TT
* * *
26321 TCCAAGCCCACAAATCAGTGGCACCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
** * *
26349 TCAAAGCTTACAAGTCAGCGGCACCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
26377 CCAAAGCCCATAAGTCAGTGGCATCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
*
26405 TCAAAGTCCACAAGTCAGTGGCATCCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCC-TT
** *
26434 TCAAAGCCCACAAGTTGGTGGCATCATT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* * **
26462 TCAAAGCCCATAAGTCAATGGCATTTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
*
26490 TCCAAGCCCACAAGTCAGTGGCA-CCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCC-TT
* * *
26518 TCAAAGCCTACGAGTCAGTGGCATCTTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
26546 TCAAAGCCCACAAGTCAGTGGCAT-CTCT
1 TCAAAGCCCACAAGTCAGTGGCATCCT-T
** *
26574 TCAAAGCCCATGAGTCAGTGACATCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
*
26602 CCAAAGCCCACAAGTCAGTGGCATCCTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
* *
26630 TCAAAGCCCATAAGTTAGTGGCAT-CTCT
1 TCAAAGCCCACAAGTCAGTGGCATCCT-T
**
26658 TCAAAGCCCACAAGTCAAAGGCAT-CTT
1 TCAAAGCCCACAAGTCAGTGGCATCCTT
** *
26685 CTCAAAATCCACAAGTCAATGGCATCCTT
1 -TCAAAGCCCACAAGTCAGTGGCATCCTT
* * * *
26714 TTAAAGCCCACATAAGTCGGTGGCAACTTT
1 TCAAAGCCCAC--AAGTCAGTGGCATCCTT
26744 CTCTAAAGCCCACA
1 -TC-AAAGCCCACA
26758 CAAGTTGGTG
Statistics
Matches: 765, Mismatches: 132, Indels: 38
0.82 0.14 0.04
Matches are distributed among these distances:
27 7 0.01
28 612 0.80
29 120 0.16
30 16 0.02
31 1 0.00
32 9 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
TCAAAGCCCACAAGTCAGTGGCATCCTT
Found at i:26074 original size:141 final size:139
Alignment explanation
Indices: 25813--26757 Score: 1025
Period size: 141 Copynumber: 6.7 Consensus size: 139
25803 CCACAAATCA
* * *
25813 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAACCCCACAAGTCGGTGGCATCTTTTTCAAAGTC
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTT-AAAG-C
* * *
25878 CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCATAAGTCG
64 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
*
25943 GTGGCATCTTT
129 GTGGCACCTTT
* * * * *
25954 TCTAAGCCCACAAATCAATGGCACACTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCT
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCC-
* * * * *
26019 ACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTTAGTGGCATCCTTTTCCAAGCCCGCAAATCA
65 ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTC-
* *
26084 AG-GGTACCCTT
128 AGTGGCACCTTT
* * * *
26095 TCATAGCCCACAAGTTAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCATCCTTTCAAAGTCC
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAG-CC
* *
26160 ATAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCGGTGGCATCTTTTCAAAGCCCACAAGTCA
65 ACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
* * *
26225 ATGACATCTTT
129 GTGGCACCTTT
* * * **
26236 TCCAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCTCACAAGTCAGTGGCATCCTTCCAAAGTCC
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAG-CC
* * * * **
26301 ACAAGTCAGTGGCATCCTTTTCCAAGCCCACAAATCAGTGGCACCCTTTCAAAGCTTACAAGTCA
65 ACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
* *
26366 GCGGCACCCTT
129 GTGGCACCTTT
* * * *
26377 CCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCCTTTTCAAAGCC
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTT-AAAG-C
** * * * * *
26442 CACAAGTTGGTGGCATCATTTCAAAGCCCATAAGTCAATGGCATTTTTTCCAAGCCCACAAGTCA
64 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
26507 GTGGCACCTTT
129 GTGGCACCTTT
* * * * *
26518 TCAAAGCCTACGAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTCTTCAAAGCC
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTTAAAGCC
* * * * *
26582 -CATGAGTCAGTGACATCCTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTT
65 ACA--AGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTC
* *
26646 AGTGGCATCTCT
128 AGTGGCACCTTT
** * ** *
26658 TCAAAGCCCACAAGTCAAAGGCA-TCTTCTCAAAATCCACAAGTCAATGGCATCCTTTTAAAGCC
1 TCAAAGCCCACAAGTCAGTGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAG-C
* * *
26722 CACATAAGTCGGTGGCAACTTTCTCTAAAGCCCACA
64 CAC--AAGTCAGTGGCATCCTT-TC-AAAGCCCACA
26758 CAAGTTGGTG
Statistics
Matches: 667, Mismatches: 119, Indels: 33
0.81 0.15 0.04
Matches are distributed among these distances:
138 2 0.00
139 6 0.01
140 155 0.23
141 433 0.65
142 59 0.09
143 1 0.00
144 11 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (139 bp):
TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTAAAGCCA
CAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGT
GGCACCTTT
Found at i:26730 original size:254 final size:255
Alignment explanation
Indices: 25813--26731 Score: 1167
Period size: 254 Copynumber: 3.6 Consensus size: 255
25803 CCACAAATCA
* * * * ** *
25813 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAACCCCACAAGTCGGTGGCATCTTTTTCAAAGTC
1 TCAAAGCCCACAAATCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCC
* *
25878 CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCCATAAGTC
65 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTC
* * * *
25942 GGTGGCATCTTTTCTAAGCCCACAAA-TCAATGGCACACTTTCAAAGCCCACAAGTCAGTGGCAC
130 GGTGGCATCTTTTCAAAGCCCACAAAGTCAATGGCATATTTTCCAAGCCCACAAGTCAGTGGCA-
*
26006 CCTTTT-AAAGCCTACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTTAGTGGCATCCTTT
194 CCTTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCCTTT
* * ** * * *
26067 TCCAAGCCCGCAAATCAAG-GGTACCCTTTCATAGCCCACAAGTTAGTGGCACCCTTTCAAAACC
1 TCAAAGCCCACAAATC-AGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* *
26131 CACAAGTCAGTGGCATCCTTTCAAAGTCCATAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTC
65 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTC
* * *
26196 GGTGGCATCTTTTCAAAGCCCAC-AAGTCAATGACATCTTTTCCAAGCCCACAAGTTAGTGGCAC
130 GGTGGCATCTTTTCAAAGCCCACAAAGTCAATGGCATATTTTCCAAGCCCACAAGTCAGTGGCAC
* *
26260 CCTTTCAAAG-CTCACAAGTCAGTGGCATCCTTCCAAAGTCCACAAGTCAGTGGCATCCTTT
195 CTTTTCAAAGCCT-ACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCCTTT
* * ** * *
26321 TCCAAGCCCACAAATCAGTGGCACCCTTTCAAAGCTTACAAGTCAGCGGCACCCTTCCAAAGCCC
1 TCAAAGCCCACAAATCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
* * *
26386 ATAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTTG
66 ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCG
* * *
26451 GTGGCATCATTTCAAAGCCCA-TAAGTCAATGGCATTTTTTCCAAGCCCACAAGTCAGTGGCACC
131 GTGGCATCTTTTCAAAGCCCACAAAGTCAATGGCATATTTTCCAAGCCCACAAGTCAGTGGCACC
* * * *
26515 TTTTCAAAGCCTACGAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAT-CTCT
196 TTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCCTTT
** * * * *
26574 TCAAAGCCCATGAGTCAGTGACATCCTTCCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCC
1 TCAAAGCCCACAAATCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
* * ** * **
26639 ATAAGTTAGTGGCAT-CTCTTCAAAGCCCACAAGTCAAAGGCAT-CTTCTCAAAATCCACAAGTC
66 ACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTC
**
26702 AATGGCATCCTTTT-AAAGCCCACATAAGTC
130 GGTGGCAT-CTTTTCAAAGCCCACA-AAGTC
26732 GGTGGCAACT
Statistics
Matches: 581, Mismatches: 72, Indels: 24
0.86 0.11 0.04
Matches are distributed among these distances:
252 32 0.06
253 157 0.27
254 388 0.67
255 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (255 bp):
TCAAAGCCCACAAATCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCC
ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCG
GTGGCATCTTTTCAAAGCCCACAAAGTCAATGGCATATTTTCCAAGCCCACAAGTCAGTGGCACC
TTTTCAAAGCCTACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCCTTT
Found at i:27462 original size:13 final size:13
Alignment explanation
Indices: 27444--27469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27434 TACAGCAAGT
27444 ATGTATCGATACA
1 ATGTATCGATACA
27457 ATGTATCGATACA
1 ATGTATCGATACA
27470 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:29221 original size:16 final size:17
Alignment explanation
Indices: 29189--29221 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29179 ATCTTTGCTC
*
29189 AAAGGAGAATCGAGCAA
1 AAAGGACAATCGAGCAA
29206 AAAGGACAAT-GAGCAA
1 AAAGGACAATCGAGCAA
29222 GTAATATGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.12, G:0.27, T:0.06
Consensus pattern (17 bp):
AAAGGACAATCGAGCAA
Found at i:29726 original size:21 final size:21
Alignment explanation
Indices: 29688--29732 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
29678 TTGCAAGTTG
*
29688 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
29710 AAATAATGAA-TTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
29730 AAA
1 AAA
29733 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:31556 original size:15 final size:15
Alignment explanation
Indices: 31536--31566 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31526 TAAAAATGTC
*
31536 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
31551 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
31566 C
1 C
31567 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:33652 original size:20 final size:20
Alignment explanation
Indices: 33573--33652 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
33563 AATGTCCAAA
*
33573 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
33593 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
33618 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
33638 TTGTATCGATACATT
1 ATGTATCGATACATT
33653 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:33656 original size:13 final size:13
Alignment explanation
Indices: 33638--33676 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
33628 ACATTTTTCT
33638 TTGTATCGATACA
1 TTGTATCGATACA
33651 TTGTATCGATACA
1 TTGTATCGATACA
*
33664 CTGTATCGATACA
1 TTGTATCGATACA
33677 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:36223 original size:13 final size:13
Alignment explanation
Indices: 36205--36230 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36195 TACAGCAAGT
36205 ATGTATCGATACA
1 ATGTATCGATACA
36218 ATGTATCGATACA
1 ATGTATCGATACA
36231 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:37487 original size:20 final size:20
Alignment explanation
Indices: 37459--37515 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
37449 TTTTACCTAG
* *
37459 ATATATCGATACATTTTTTA
1 ATATATCGATACATTCTTCA
*
37479 ATGTATCGATACATTCTTCA
1 ATATATCGATACATTCTTCA
37499 ATATATCGATACATTCT
1 ATATATCGATACATTCT
37516 GTCTTTTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATATCGATACATTCTTCA
Found at i:41443 original size:25 final size:25
Alignment explanation
Indices: 41415--41474 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
41405 TGGCCAATTT
41415 TAAAGAAAACTTCATATGAACTTTA
1 TAAAGAAAACTTCATATGAACTTTA
*
41440 TAAAGGAAACTTCATATGAACTTTA
1 TAAAGAAAACTTCATATGAACTTTA
41465 TAAAGGAAAA
1 TAAA-GAAAA
41475 AGGCCTAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (25 bp):
TAAAGAAAACTTCATATGAACTTTA
Found at i:43903 original size:13 final size:13
Alignment explanation
Indices: 43885--43924 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
43875 ACAATGTTCT
43885 TTGTATTGATACA
1 TTGTATTGATACA
* *
43898 TTGTATCGATATA
1 TTGTATTGATACA
*
43911 ATGTATTGATACA
1 TTGTATTGATACA
43924 T
1 T
43925 AGGTTACTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:45776 original size:17 final size:17
Alignment explanation
Indices: 45754--45788 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45744 AAAATAAATT
45754 TGATAAAGGAGATGAAA
1 TGATAAAGGAGATGAAA
45771 TGATAAAGGAGATGAAA
1 TGATAAAGGAGATGAAA
45788 T
1 T
45789 AAATCTCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (17 bp):
TGATAAAGGAGATGAAA
Found at i:46549 original size:23 final size:19
Alignment explanation
Indices: 46494--46568 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
46484 TGTATCGACA
46494 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
46513 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
* ***
46532 CATTGTATTGATACATACA
1 CATTGTATCGATACATGTT
46551 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
46569 AAACTGACAG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
19 35 0.71
20 14 0.29
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:47428 original size:7 final size:8
Alignment explanation
Indices: 47413--47512 Score: 69
Period size: 8 Copynumber: 12.2 Consensus size: 8
47403 CTTACGTTTG
47413 ATAAAAAA
1 ATAAAAAA
47421 ATAAAAAA
1 ATAAAAAA
47429 AT-AAAAA
1 ATAAAAAA
47436 ATAAAAAA
1 ATAAAAAA
* *
47444 ATGAAATA
1 ATAAAAAA
* *
47452 TTAAAGAA
1 ATAAAAAA
47460 ATAAAAATA
1 ATAAAAA-A
* *
47469 ATATAGAA
1 ATAAAAAA
*
47477 ATTAAAAA
1 ATAAAAAA
*
47485 TTCAAAAATA
1 AT-AAAAA-A
47495 A-AATAAAA
1 ATAA-AAAA
*
47503 ATCAAAAA
1 ATAAAAAA
47511 AT
1 AT
47513 CAAGGAAACC
Statistics
Matches: 69, Mismatches: 17, Indels: 12
0.70 0.17 0.12
Matches are distributed among these distances:
7 7 0.10
8 47 0.68
9 14 0.20
10 1 0.01
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (8 bp):
ATAAAAAA
Found at i:47436 original size:15 final size:15
Alignment explanation
Indices: 47416--47497 Score: 67
Period size: 15 Copynumber: 5.3 Consensus size: 15
47406 ACGTTTGATA
47416 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
47431 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
* * *
47446 GAAATATTAAAGAAAT
1 -AAAAAATAAAAAAAT
47462 -AAAAATAATATAGAAAT
1 AAAAAATAA-A-A-AAAT
* **
47479 TAAAAATTCAAAAAT
1 AAAAAATAAAAAAAT
47494 AAAA
1 AAAA
47498 TAAAAATCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
14 6 0.11
15 23 0.43
16 13 0.25
17 5 0.09
18 6 0.11
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.20
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:47547 original size:18 final size:19
Alignment explanation
Indices: 47503--47552 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
47493 TAAAATAAAA
47503 ATCAAAAAATCAAGGAAACC
1 ATCAAAAAATCAA-GAAACC
** *
47523 AAAAAAAAATCCA-AAACC
1 ATCAAAAAATCAAGAAACC
47541 ATC-AAAAATCAA
1 ATCAAAAAATCAA
47553 AATTAAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
20 10 0.42
ACGTcount: A:0.66, C:0.20, G:0.04, T:0.10
Consensus pattern (19 bp):
ATCAAAAAATCAAGAAACC
Found at i:47553 original size:28 final size:27
Alignment explanation
Indices: 47417--47562 Score: 84
Period size: 26 Copynumber: 5.2 Consensus size: 27
47407 CGTTTGATAA
* * *
47417 AAAAATAAAAAAATAAAAAATAAAAAAAT
1 AAAAATCAAAAAATCAAAAAT--CAAAAT
* * *
47446 GAAATATTAAAGAAAT-AAAAAT-AATAT
1 -AAAAATCAAA-AAATCAAAAATCAAAAT
* * *
47473 AGAAATTAAAAATTCAAAAAT-AAAAT
1 AAAAATCAAAAAATCAAAAATCAAAAT
*
47499 AAAAATCAAAAAATCAAGGAAACCAAAA-
1 AAAAATCAAAAAATCAA--AAATCAAAAT
*
47527 AAAAATCCAAAACCATCAAAAATCAAAATT
1 AAAAAT-CAAAA-AATCAAAAATCAAAA-T
47557 AAAAAT
1 AAAAAT
47563 TCTTTTAAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 18
0.75 0.10 0.14
Matches are distributed among these distances:
25 3 0.03
26 32 0.34
27 4 0.04
28 17 0.18
29 9 0.10
30 25 0.27
31 4 0.04
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.17
Consensus pattern (27 bp):
AAAAATCAAAAAATCAAAAATCAAAAT
Found at i:50525 original size:44 final size:41
Alignment explanation
Indices: 50469--50630 Score: 153
Period size: 44 Copynumber: 3.8 Consensus size: 41
50459 AATACAAATC
* * *
50469 ATTTGACTAAGGTGAAAACCATATGTCAAATAGGAAGAAAGCAA
1 ATTTGACCAAGGTGATAACCATACGTCAAATA-GAAGAAA--AA
*
50513 ATTTGACCAAGGTGATAACCATACGCCAAATCAGAATGAAAAGA
1 ATTTGACCAAGGTGATAACCATACGTCAAAT-AGAA-GAAAA-A
* * *
50557 ATTTGACCAAGGTGGTAACCATACGTCAAACTAAAAAGAAAAG
1 ATTTGACCAAGGTGATAACCATACGTCAAA-T-AGAAGAAAAA
* * * *
50600 ATTCGACCAAGTTGGTAACCATATGTCAAAT
1 ATTTGACCAAGGTGATAACCATACGTCAAAT
50631 CAAAATGGAA
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.01
43 28 0.27
44 64 0.63
45 9 0.09
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (41 bp):
ATTTGACCAAGGTGATAACCATACGTCAAATAGAAGAAAAA
Found at i:50621 original size:43 final size:44
Alignment explanation
Indices: 50512--51073 Score: 209
Period size: 44 Copynumber: 13.0 Consensus size: 44
50502 GAAGAAAGCA
* * * * *
50512 AATTTGACCAAGGTGATAACCATACGCCAAATCAGAATGAAAAG
1 AATTCGACCAAGGTGGTAACCATACGTCAAATCAAAAAGAAAAG
*
50556 AATTTGACCAAGGTGGTAACCATACGTCAAA-CTAAAAAGAAAAG
1 AATTCGACCAAGGTGGTAACCATACGTCAAATC-AAAAAGAAAAG
* * * *
50600 -ATTCGACCAAGTTGGTAACCATATGTCAAATCAAAATGGAAAG
1 AATTCGACCAAGGTGGTAACCATACGTCAAATCAAAAAGAAAAG
* * ** * * *
50643 AA-TCTGAGCAGGGTGGTAACTGTATGTCAGA-CAGAAAGGAAAAG
1 AATTC-GACCAAGGTGGTAACCATACGTCAAATCA-AAAAGAAAAG
* * * * * * *
50687 -ATTTGACTAGGGTGGTAACCAAACATTAAATCAAAATGGAAAA-
1 AATTCGACCAAGGTGGTAACCATACGTCAAATCAAAA-AGAAAAG
* * * **
50730 AA-TCTGACCAGGGTGGTAACCATACGTTAGA-C---AAG---TC
1 AATTC-GACCAAGGTGGTAACCATACGTCAAATCAAAAAGAAAAG
** * * * *
50767 TTTTGGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAG
1 AATTCGACCAAGGTGGTAACCATACGTCAAATCAAAAAGAAAAG
* * * *
50811 AA-TCTGACCAGGGTGGTAACCGTAC-TCAGAT-AGGAAAAAAAAAG
1 AATTC-GACCAAGGTGGTAACCATACGTCAAATCA--AAAAGAAAAG
* * * * * * *
50855 -ATTTGACTAAGGTGGTAACCATATGTCAAATTAGAATGGAAAG
1 AATTCGACCAAGGTGGTAACCATACGTCAAATCAAAAAGAAAAG
* * * * * * * * * *
50898 AA-TCTGACCAGGGTGGCAACCGTACATGAGACCGAAAGGAAAAA
1 AATTC-GACCAAGGTGGTAACCATACGTCAAATCAAAAAGAAAAG
** * *
50942 AATTAAACC-AGGATGGTAACCATACGTCAAATCAAAATGGAAAG
1 AATTCGACCAAGG-TGGTAACCATACGTCAAATCAAAAAGAAAAG
* * * *
50986 AA-TCTGACCATGGTGGTAACCATACATCAGA-CAGAAAGGAAAAG
1 AATTC-GACCAAGGTGGTAACCATACGTCAAATCA-AAAAGAAAAG
* * * * * *
51030 -ATTTGACCAGGGCGATAACCATATGTCAAA-CAGAAATGAAAAG
1 AATTCGACCAAGGTGGTAACCATACGTCAAATCA-AAAAGAAAAG
51073 A
1 A
51074 CACTTGGCTA
Statistics
Matches: 380, Mismatches: 104, Indels: 68
0.69 0.19 0.12
Matches are distributed among these distances:
37 24 0.06
38 2 0.01
39 1 0.00
40 1 0.00
41 2 0.01
42 1 0.00
43 132 0.35
44 213 0.56
45 4 0.01
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.19
Consensus pattern (44 bp):
AATTCGACCAAGGTGGTAACCATACGTCAAATCAAAAAGAAAAG
Found at i:50643 original size:87 final size:87
Alignment explanation
Indices: 50513--51073 Score: 548
Period size: 87 Copynumber: 6.5 Consensus size: 87
50503 AAGAAAGCAA
* * * * * * *
50513 ATTTGACCAAGGTGATAACCATACGCCAAATCAGAATGAAAAGAATTTGACCAAGGTGGTAACCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCA
*
50578 TACGTCAAACTA-AAAAGAAAAG
66 TACGTCAGAC-AGAAAAGAAAAG
* * * * * **
50600 ATTCGACCAAGTTGGTAACCATATGTCAAATCAAAATGGAAAGAATCTGAGCAGGGTGGTAACTG
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCA
* *
50665 TATGTCAGACAGAAAGGAAAAG
66 TACGTCAGACAGAAAAGAAAAG
* * * * *
50687 ATTTGACTAGGGTGGTAACCAAACATTAAATCAAAATGGAAAAAATCTGACCAGGGTGGTAACCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCA
* **
50752 TACGTTAGAC----AAG---TC
66 TACGTCAGACAGAAAAGAAAAG
*
50767 TTTTGGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACC
1 ATTT-GACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACC
* * *
50832 GTAC-TCAGATAGGAAAAAAAAAG
65 ATACGTCAGACA-GAAAAGAAAAG
* * * * * * *
50855 ATTTGACTAAGGTGGTAACCATATGTCAAATTAGAATGGAAAGAATCTGACCAGGGTGGCAACCG
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCA
* * * * *
50920 TACATGAGACCGAAAGGAAAAAA
66 TACGTCAGACAGAAAAG-AAAAG
** * *
50943 ATTAAACCAGGATGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCATGGTGGTAACCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCA
* *
51008 TACATCAGACAGAAAGGAAAAG
66 TACGTCAGACAGAAAAGAAAAG
* * * *
51030 ATTTGACCAGGGCGATAACCATATGTCAAA-CAGAAATGAAAAGA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCA-AAATGGAAAGA
51074 CACTTGGCTA
Statistics
Matches: 383, Mismatches: 78, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
80 7 0.02
81 58 0.15
83 2 0.01
85 2 0.01
86 3 0.01
87 231 0.60
88 80 0.21
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.19
Consensus pattern (87 bp):
ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCA
TACGTCAGACAGAAAAGAAAAG
Found at i:50803 original size:168 final size:171
Alignment explanation
Indices: 50612--51050 Score: 508
Period size: 168 Copynumber: 2.6 Consensus size: 171
50602 TCGACCAAGT
* * * *
50612 TGGTAACCATATGTCAAATCAAAATGGAAAGAATCTGAGCAGGGTGGTAACTGTATGTCAGACAG
1 TGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTA-ATCAGACAG
*
50677 AAAGGAAAAGATTTGACTAGGGTGGTAACCAAACATTAAATCAAAATGGAAAAAATCTGACCAGG
65 AAAGGAAAAGATTTGACTAGGGTGGTAACCAAACATCAAATCAAAATGGAAAAAATCTGACCAGG
* * * **** ** *
50742 GTGGTAACCATACGTTAGA-C-AA-G-TCTTTTGGACCAGGG
130 GTGGCAACCATACATGAGACCAAAGGAAAAATTAAACCAGGA
* *
50780 TGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTACTCAGATAGG
1 TGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTAATCAGACA-G
** * * ** * * *
50845 AAAAAAAAAGATTTGACTAAGGTGGTAACCATATGTCAAATTAGAATGGAAAGAATCTGACCAGG
65 AAAGGAAAAGATTTGACTAGGGTGGTAACCAAACATCAAATCAAAATGGAAAAAATCTGACCAGG
*
50910 GTGGCAACCGTACATGAGACCGAAAGGAAAAAAATTAAACCAGGA
130 GTGGCAACCATACATGAGACC-AAAGG--AAAAATTAAACCAGGA
* *
50955 TGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCATGGTGGTAACCATACATCAGACAG
1 TGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTA-ATCAGACAG
* * *
51020 AAAGGAAAAGATTTGACCAGGGCGATAACCA
65 AAAGGAAAAGATTTGACTAGGGTGGTAACCA
51051 TATGTCAAAC
Statistics
Matches: 226, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
167 6 0.03
168 123 0.54
169 1 0.00
171 2 0.01
172 1 0.00
175 87 0.38
176 6 0.03
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (171 bp):
TGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTAATCAGACAGA
AAGGAAAAGATTTGACTAGGGTGGTAACCAAACATCAAATCAAAATGGAAAAAATCTGACCAGGG
TGGCAACCATACATGAGACCAAAGGAAAAATTAAACCAGGA
Found at i:50986 original size:88 final size:88
Alignment explanation
Indices: 50773--51028 Score: 340
Period size: 88 Copynumber: 2.9 Consensus size: 88
50763 AGTCTTTTGG
50773 ACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTAC-T
1 ACCA-GGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTACAT
* **
50837 CAGATAGGAAA--AAAAAAGATTTG
65 CAGACA-GAAAGGAAAAAAGATTAA
* * * * *
50860 ACTAAGGTGGTAACCATATGTCAAATTAGAATGGAAAGAATCTGACCAGGGTGGCAACCGTACAT
1 AC-CAGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTACAT
* *
50925 GAGACCGAAAGGAAAAAA-ATTAA
65 CAGACAGAAAGGAAAAAAGATTAA
* *
50948 ACCAGGATGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCATGGTGGTAACCATACAT
1 ACCAGG-TGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTACAT
51013 CAGACAGAAAGGAAAA
65 CAGACAGAAAGGAAAA
51029 GATTTGACCA
Statistics
Matches: 145, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
87 63 0.43
88 76 0.52
89 6 0.04
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (88 bp):
ACCAGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCGTACATC
AGACAGAAAGGAAAAAAGATTAA
Found at i:54502 original size:157 final size:157
Alignment explanation
Indices: 54302--54689 Score: 449
Period size: 157 Copynumber: 2.5 Consensus size: 157
54292 TCATCGATGT
* * * *
54302 TTTTATTTCCAAA-ATATAATTTTCCACCATCGGGGACACTCCAACCCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAACAT-CAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
* ** * * *
54366 TACTCTAACCCCAACTTTACTTCTCAAACACCGATTTTCTGTC-ATCAAGGATGCACCAATCTCA
65 TACTCTAACCCCAACTTTACTTCTAAAACACCGATTTTC-CACAATCAAGGATACACCAACCCCA
* ** *
54430 TTCTTTCTT-AGGGGATACTTTAACCTCGG
129 TTATTT-TTAAGGGGATACTCCAACCTCGA
* * * *
54459 TTTTATTTCTAAACATCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGAT
1 TTTTATTTCTAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGAT
* * * * * ** *
54524 ACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTCCACAATTGAGGATACTCCAACCCCATT
66 ACTCTAACCCCAACTTTACTTCTAAAACACCGATTTTCCACAATCAAGGATACACCAACCCCATT
54589 ATTTTTAAGGGGATACTCCAACCTCGA
131 ATTTTTAAGGGGATACTCCAACCTCGA
* * * *
54616 TTTTATTTCTAAACATCGATTTTCCACCACCGGGGATACTCCAACCTCGTTATTTTTGAGGGAAT
1 TTTTATTTCTAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGAT
*
54681 ATTCTAACC
66 ACTCTAACC
54690 TGTTTCTTTT
Statistics
Matches: 192, Mismatches: 36, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
156 3 0.02
157 187 0.97
158 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (157 bp):
TTTTATTTCTAAACATCAATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGAT
ACTCTAACCCCAACTTTACTTCTAAAACACCGATTTTCCACAATCAAGGATACACCAACCCCATT
ATTTTTAAGGGGATACTCCAACCTCGA
Found at i:54591 original size:79 final size:77
Alignment explanation
Indices: 54302--54677 Score: 333
Period size: 79 Copynumber: 4.8 Consensus size: 77
54292 TCATCGATGT
* * * * *
54302 TTTTATTTCCAAAATATAATTTTCCACCATCGGGGACACTCCAACCCCATTATTTTTGAGGGGAT
1 TTTTATTT-CTAAACATGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTTGAGGGGAT
* *
54367 ACTCTAACCCCAA
65 ACTCCAACCCCGA
* * * ** ** * * * * *
54380 CTTTACTTCTCAAACACCGATTTTCTGTC-ATCAAGGATGCACCAATCTCATTCTTTCTT-AGGG
1 TTTTATTTCT-AAACA-TGATTTTC-CACAATCGGGGATACTCCAACCCCATTATTT-TTGAGGG
** * *
54443 GATACTTTAACCTCGG
62 GATACTCCAACCCCGA
* * ** *
54459 TTTTATTTCTAAACATCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGAT
1 TTTTATTTCTAAACAT-GATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTTGAGGGGAT
54524 ACTCCAACCCCGA
65 ACTCCAACCCCGA
* * *
54537 TTTTATTTCTAAAACACTGATTTTCCACAATTGAGGATACTCCAACCCCATTATTTTTAAGGGGA
1 TTTTATTTCT-AAACA-TGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
*
54602 TACTCCAACCTCGA
64 TACTCCAACCCCGA
* * * *
54616 TTTTATTTCTAAACATCGATTTTCCACCACCGGGGATACTCCAACCTCGTTATTTTTGAGGG
1 TTTTATTTCTAAACAT-GATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTTGAGGG
54678 AATATTCTAA
Statistics
Matches: 231, Mismatches: 57, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
77 4 0.02
78 107 0.46
79 116 0.50
80 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (77 bp):
TTTTATTTCTAAACATGATTTTCCACAATCGGGGATACTCCAACCCCATTATTTTTGAGGGGATA
CTCCAACCCCGA
Found at i:54690 original size:78 final size:79
Alignment explanation
Indices: 54302--54690 Score: 365
Period size: 78 Copynumber: 5.0 Consensus size: 79
54292 TCATCGATGT
* * * *
54302 TTTTATTTCCAAAATAT-AATTTTCCACCATCGGGGACACTCCAACCCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
* *
54366 TACTCTAACCCCAA
66 TACTCTAACCTCGA
* * * * *** ** * * * * *
54380 CTTTACTTCTCAAACACCGATTTTCTGTCATCAAGGATGCACCAATCTCATTCTTTCTT-AGGGG
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTT-TTGAGGGG
* *
54444 ATACTTTAACCTCGG
65 ATACTCTAACCTCGA
* * * ** *
54459 TTTTATTTCT-AAACATCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
* *
54523 TACTCCAACCCCGA
66 TACTCTAACCTCGA
* * * *
54537 TTTTATTTCTAAAACA-CTGATTTTCCACAATTGAGGATACTCCAACCCCATTATTTTTAAGGGG
1 TTTTATTTCTAAAACATC-GATTTTCCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGG
*
54601 ATACTCCAACCTCGA
65 ATACTCTAACCTCGA
* * * *
54616 TTTTATTTCT-AAACATCGATTTTCCACCACCGGGGATACTCCAACCTCGTTATTTTTGAGGGAA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
*
54680 TATTCTAACCT
66 TACTCTAACCT
54691 GTTTCTTTTT
Statistics
Matches: 241, Mismatches: 64, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
77 1 0.00
78 120 0.50
79 118 0.49
80 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
TACTCTAACCTCGA
Found at i:61399 original size:19 final size:19
Alignment explanation
Indices: 61374--61429 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
61364 TTGTATCGAT
*
61374 ACATTGTATTGATACAT-G
1 ACATTGTATCGATACATGG
61392 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACATGG
61412 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
61430 AAAATTGGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 17 0.50
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:61496 original size:13 final size:13
Alignment explanation
Indices: 61475--61527 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
61465 TGATACATGG
*
61475 TACAATGTATCGA
1 TACATTGTATCGA
61488 TACATTGTATCGA
1 TACATTGTATCGA
61501 TACA-TG-AT-G-
1 TACATTGTATCGA
61510 -A-ATTGTATCGA
1 TACATTGTATCGA
61521 TACATTG
1 TACATTG
61528 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:61503 original size:33 final size:33
Alignment explanation
Indices: 61459--61527 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
61449 CTATCACTGT
* *
61459 TTGTATTGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
61492 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
61525 TTG
1 TTG
61528 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:72506 original size:13 final size:13
Alignment explanation
Indices: 72488--72513 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72478 TACACACAAG
72488 ATGTATCGATACA
1 ATGTATCGATACA
72501 ATGTATCGATACA
1 ATGTATCGATACA
72514 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:72532 original size:33 final size:32
Alignment explanation
Indices: 72470--72533 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
72460 CTTAACTATT
*
72470 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
* *
72502 TGTATCGATACATCCCAAAATGTATTGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
72534 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:73335 original size:21 final size:21
Alignment explanation
Indices: 73311--73369 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
73301 ACAAAAGATC
73311 AATGTATCGATACATTTTAGT
1 AATGTATCGATACATTTTAGT
73332 AATGTATCGATACATTTTAGT
1 AATGTATCGATACATTTTAGT
73353 AATGTATCGATACATTT
1 AATGTATCGATACATTT
73370 CCTTGGCAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (21 bp):
AATGTATCGATACATTTTAGT
Found at i:73448 original size:32 final size:32
Alignment explanation
Indices: 73390--73460 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
73380 AGCTTCGTAG
* *
73390 CGATACATTGTATCAATACAAAACTTATATAT
1 CGATACATTATATCAACACAAAACTTATATAT
* * *
73422 CGATACATTATATCGACACAACACTTATGTAT
1 CGATACATTATATCAACACAAAACTTATATAT
73454 CGATACA
1 CGATACA
73461 GTTACTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (32 bp):
CGATACATTATATCAACACAAAACTTATATAT
Found at i:74859 original size:13 final size:13
Alignment explanation
Indices: 74841--74867 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74831 ACATTATGCT
74841 TTGTATCGATACA
1 TTGTATCGATACA
74854 TTGTATCGATACA
1 TTGTATCGATACA
74867 T
1 T
74868 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:74864 original size:33 final size:32
Alignment explanation
Indices: 74822--74886 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
74812 CACACCTAGA
* *
74822 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTGTATCGATACAT
74855 TGTATCGATACATGATCATTGTATCGATACAT
1 TGTATCGATACATGATCATTGTATCGATACAT
74887 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATACAT
Found at i:74876 original size:19 final size:18
Alignment explanation
Indices: 74851--74913 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 18
74841 TTGTATCGAT
74851 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
74869 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACAT-G
74889 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
*
74908 AAATTG
1 ACATTG
74914 GCAGTAGCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
18 5 0.12
19 19 0.46
20 17 0.41
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:74897 original size:20 final size:20
Alignment explanation
Indices: 74852--74907 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
74842 TGTATCGATA
74852 CATTGTATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
74871 CATTGTATCGATACATGGA-
1 CATTGTATCGATACATGGAT
74890 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
74908 AAATTGGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:74981 original size:33 final size:33
Alignment explanation
Indices: 74939--75002 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
74929 TCACTGTTCG
*
74939 TATCGATACATGGT-ACAATGTATCGATACATTA
1 TATCGATACATGATGA-AATGTATCGATACATTA
*
74972 TATCGATACATGATGAATTGTATCGATACAT
1 TATCGATACATGATGAAATGTATCGATACAT
75003 CGCTTGTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (33 bp):
TATCGATACATGATGAAATGTATCGATACATTA
Found at i:75514 original size:36 final size:36
Alignment explanation
Indices: 75474--75543 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
75464 TGGTTGTTAT
75474 CTTAGCCTTTAAAAGATAAGGATTGTAAGGTTATAC
1 CTTAGCCTTTAAAAGATAAGGATTGTAAGGTTATAC
75510 CTTAGCCTTTAAAAGATAAGGATTGTAAGGTTAT
1 CTTAGCCTTTAAAAGATAAGGATTGTAAGGTTAT
75544 CTTACCTTTG
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:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (36 bp):
CTTAGCCTTTAAAAGATAAGGATTGTAAGGTTATAC
Found at i:80612 original size:32 final size:35
Alignment explanation
Indices: 80565--80659 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 35
80555 TACAACACTA
80565 TTTTTC-AAGGCTAAGATAGAAACCTC-CT-TATC
1 TTTTTCAAAGGCTAAGATAGAAACCTCTCTCTATC
**
80597 -TTTTCACGGGCTAAGATAG-AACCTCTCTCCCTATC
1 TTTTTCAAAGGCTAAGATAGAAACCTCTCT--CTATC
80632 TTTTTCAAAGGCTAAGATA-AAACCTCTC
1 TTTTTCAAAGGCTAAGATAGAAACCTCTC
80660 AATTACTTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
31 11 0.21
32 13 0.25
35 4 0.08
36 24 0.46
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (35 bp):
TTTTTCAAAGGCTAAGATAGAAACCTCTCTCTATC
Found at i:83733 original size:19 final size:18
Alignment explanation
Indices: 83675--83733 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 18
83665 TACAAGCCAA
*
83675 TGTATCGATACAATTTTTTGT
1 TGTATCGATACAA---TTTGG
*
83696 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
83715 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
83734 CTACTACCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
21 12 0.36
22 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:86250 original size:13 final size:13
Alignment explanation
Indices: 86232--86256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86222 ACAATCCCCC
86232 TGTATCGATACAG
1 TGTATCGATACAG
86245 TGTATCGATACA
1 TGTATCGATACA
86257 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:90813 original size:12 final size:12
Alignment explanation
Indices: 90798--90831 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
90788 TCCGAGTCAC
90798 CATCTTCATCAA
1 CATCTTCATCAA
*
90810 CATCTTCATCAT
1 CATCTTCATCAA
*
90822 CTTCTTCATC
1 CATCTTCATC
90832 CTTGATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (12 bp):
CATCTTCATCAA
Found at i:92453 original size:13 final size:13
Alignment explanation
Indices: 92435--92461 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92425 CAATTTTTTG
92435 TTGTATCGATACA
1 TTGTATCGATACA
92448 TTGTATCGATACA
1 TTGTATCGATACA
92461 T
1 T
92462 ACTTGGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:95773 original size:21 final size:22
Alignment explanation
Indices: 95749--95799 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
95739 AACTAGAGAA
*
95749 GAAAATGAATCAGTTG-GAAAT
1 GAAAATGAATCAGTTGCAAAAT
*
95770 GAAAA-GAAATGAGTTGCAAAAT
1 GAAAATG-AATCAGTTGCAAAAT
95792 GAAAATGA
1 GAAAATGA
95800 TGATTTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 13 0.52
22 10 0.40
23 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.24, T:0.20
Consensus pattern (22 bp):
GAAAATGAATCAGTTGCAAAAT
Found at i:96495 original size:19 final size:18
Alignment explanation
Indices: 96473--96519 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
96463 TTAACATTTG
*
96473 TGTTTTTGTGTTTAAAATT
1 TGTTTTTGAG-TTAAAATT
*
96492 TGTTTTTGAGTTAACATT
1 TGTTTTTGAGTTAAAATT
96510 TG-TTTTGAGT
1 TGTTTTTGAGT
96520 GATTTTAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 8 0.31
18 9 0.35
19 9 0.35
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.60
Consensus pattern (18 bp):
TGTTTTTGAGTTAAAATT
Found at i:97521 original size:30 final size:30
Alignment explanation
Indices: 97485--97541 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
97475 AGGGTGAGAA
97485 TGTATTAAGGGGGAAAGTTTGCATAAAATT
1 TGTATTAAGGGGGAAAGTTTGCATAAAATT
*
97515 TGTATTAAGGGGGAGAGTTTGCATAAA
1 TGTATTAAGGGGGAAAGTTTGCATAAA
97542 CTATTGGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.32
Consensus pattern (30 bp):
TGTATTAAGGGGGAAAGTTTGCATAAAATT
Found at i:98318 original size:20 final size:19
Alignment explanation
Indices: 98271--98324 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
98261 GTTTCAATAC
**
98271 ATTGTATCGATACATGTTG
1 ATTGTATCGATACATCATG
98290 -TTGGTATCGATACATCATG
1 ATT-GTATCGATACATCATG
98309 AATTGTATCGATACAT
1 -ATTGTATCGATACAT
98325 AAAACTGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 12 0.40
21 2 0.07
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (19 bp):
ATTGTATCGATACATCATG
Found at i:98516 original size:20 final size:20
Alignment explanation
Indices: 98473--98509 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98463 TTCAAATGCA
*
98473 TGTATCAATACATTATGAAT
1 TGTATCAATACATTAGGAAT
98493 TGTATCAATACA-TAGGA
1 TGTATCAATACATTAGGA
98510 GTGTGTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (20 bp):
TGTATCAATACATTAGGAAT
Found at i:98930 original size:36 final size:35
Alignment explanation
Indices: 98869--98940 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 35
98859 CTAAGTGATT
*
98869 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAAGGA
1 GAGAGGTTCTATCTTAGCCTGTG-AAAAGATAAGGA
* *
98905 GAGAGGTTCTATTTTAG-CTCGTGAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCT-GTGAAAAGATAAGGA
98940 G
1 G
98941 GTTTTCTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 14 0.44
36 18 0.56
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTGTGAAAAGATAAGGA
Found at i:101913 original size:161 final size:162
Alignment explanation
Indices: 101736--102037 Score: 441
Period size: 161 Copynumber: 1.9 Consensus size: 162
101726 CAAAAGTATT
* * *
101736 AATTTAATTTAATTTTATTTAATTTTGAAAATACTA-TTTCATTCC-CTAAT-GAAAGCTCAAAA
1 AATTTAATTTAATTTTATTTAATTTTGAAAATACCATTTTCA-ACCAC-AATAG-AAGCCCAAAA
* ** * *
101798 GAATACGAAAGGTTTTTGAAATCTTTTATACCTTTACGGATGCTCATAGGAA-ATAAAAGATTAG
63 GAATACGAAAGGTTTTTGAAATATTTTATACCCCTAAGGATGCCCATAGGAATATAAAAGATTAG
101862 AAAAAATAAATATTAGAATTTATCCCAATAATACC
128 AAAAAATAAATATTAGAATTTATCCCAATAATACC
* * *
101897 AATTTAATTTAATTTTATTTATTTTTGAAAATACCATTTTGAACCACAATAGAAGCCCGAAAGAA
1 AATTTAATTTAATTTTATTTAATTTTGAAAATACCATTTTCAACCACAATAGAAGCCCAAAAGAA
*
101962 TATGAAAGGTTTTTGAAATATTTTATACCCCTAAGGATGCCCATAGGAATATAAAAGATTAGAAA
66 TACGAAAGGTTTTTGAAATATTTTATACCCCTAAGGATGCCCATAGGAATATAAAAGATTAGAAA
102027 AAATAAATATT
131 AAATAAATATT
102038 GTTTAATTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
161 93 0.74
162 32 0.26
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (162 bp):
AATTTAATTTAATTTTATTTAATTTTGAAAATACCATTTTCAACCACAATAGAAGCCCAAAAGAA
TACGAAAGGTTTTTGAAATATTTTATACCCCTAAGGATGCCCATAGGAATATAAAAGATTAGAAA
AAATAAATATTAGAATTTATCCCAATAATACC
Found at i:103989 original size:164 final size:162
Alignment explanation
Indices: 103628--104062 Score: 554
Period size: 164 Copynumber: 2.7 Consensus size: 162
103618 TTCAAAATTC
* * *
103628 ATGAATTTTTGAAAACTAAATTAATATGAAATAAATAAT-ATATTTGATAAATTTTTAAAATTTA
1 ATGAATTTTTGGAAACTAAATTAATATAAAATAAATAATAATATTTGAT-AATTTTAAAAATTTA
* * ** *
103692 AAAACAAGAAAAATC-CCCCCAAATATTTATAGAGTAAAAAACTTCATATTTTGACAAAAAAGAA
65 AAAACAAG-AAAATCTCCCCAAAAAATTTACGGAGTAGAAAACTTCATATTTTGA-AAAAAAGAA
103756 AATTTCAAGGAAAAAATTCAAAATTTATGGAAAGA
128 AATTTCAAGGAAAAAATTCAAAATTTATGGAAAGA
* * * **
103791 TTGAATTTTTAGAAACTGAATTAATA-ACAAATAAATAATAATATTTGATGAATTTTAAAAATCA
1 ATGAATTTTTGGAAACTAAATTAATATA-AAATAAATAATAATATTTGAT-AATTTTAAAAATTT
* * * *
103855 AAAAATAAGAAAATCTCCCCAAAAAATTTACGGAGTAGAAAATTTCGTATTTTG-AAAAAAGTGA
64 AAAAACAAGAAAATCTCCCCAAAAAATTTACGGAGTAGAAAACTTCATATTTTGAAAAAAAG-AA
103919 AATTTCAAGGAAAAAATTCAAAATTTATGGAAATGA
128 AATTTCAAGGAAAAAATTCAAAATTTATGGAAA-GA
* * *
103955 ATGAATTTTTGGAAACTTAATTAATATAAAATAAATAATAATATTTGATAATTTAAAAAATTTTA
1 ATGAATTTTTGGAAACTAAATTAATATAAAATAAATAATAATATTTGATAATTTTAAAAATTTAA
* * *
104020 AACCAATGAAAATCCTCCCAAAAAAATTTACGGAGAAGAAAAC
66 AAACAA-GAAAAT-CTCCCCAAAAAATTTACGGAGTAGAAAAC
104063 CACGTTGTTT
Statistics
Matches: 234, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
162 7 0.03
163 89 0.38
164 111 0.47
165 27 0.12
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (162 bp):
ATGAATTTTTGGAAACTAAATTAATATAAAATAAATAATAATATTTGATAATTTTAAAAATTTAA
AAACAAGAAAATCTCCCCAAAAAATTTACGGAGTAGAAAACTTCATATTTTGAAAAAAAGAAAAT
TTCAAGGAAAAAATTCAAAATTTATGGAAAGA
Found at i:106364 original size:79 final size:77
Alignment explanation
Indices: 106222--106551 Score: 283
Period size: 79 Copynumber: 4.1 Consensus size: 77
106212 GTATCCTTGA
* * * * * * * *
106222 GATGAAAAAATTTAATGTTTTGGAAGTGAAAATGGGGTTGGAGTATCCCTTC-AGAAGTGATGGG
1 GATG-AAAAA-TTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCCTCGA-AAATAATGGG
106286 GTTGGAGTATCCCAAAT
63 GTTGGAGTATCCC--AT
* *
106303 GGTGAAAAA-TAGATATTTT-AGAAATAAAAACGGGGTTAGAGTATCCCCTCGAAAATAATGGGG
1 GATGAAAAATTA-ATATTTTGA-AAATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAATGGGG
** *
106366 TTAAAGTAT-CCTT
64 TTGGAGTATCCCAT
* * **
106379 GAGATGAAAAATTTAATATTTTGAAAATAAAAAAGGGGTTGGAATATCCCCTCGAAAATAACAGG
1 --GATGAAAAA-TTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAATGGG
* *
106444 GTTGGAGTATCTTCGT
63 GTTGGAGTATC-CCAT
* * *
106460 GAT-AAAAATTTTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCCTCGGAATTGATGGGG
1 GATGAAAAA--TTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAATGGGG
106524 TTGGAGTATCCCTTAT
64 TTGGAGTATCCC--AT
106540 GATGAATAAATT
1 GATGAA-AAATT
106552 CGATGCTTTC
Statistics
Matches: 202, Mismatches: 32, Indels: 31
0.76 0.12 0.12
Matches are distributed among these distances:
76 1 0.00
78 18 0.09
79 158 0.78
80 15 0.07
81 7 0.03
82 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (77 bp):
GATGAAAAATTAATATTTTGAAAATAAAAACGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTT
GGAGTATCCCAT
Found at i:112581 original size:20 final size:20
Alignment explanation
Indices: 112558--112656 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 20
112548 ATAACCAGAT
112558 GTATCGATACATTTTGCTTA
1 GTATCGATACATTTTGCTTA
112578 GTATCGATACA--TTGC---
1 GTATCGATACATTTTGCTTA
112593 --ATCGATACATTTTGCTTA
1 GTATCGATACATTTTGCTTA
112611 GTATCGATACA--TTGC---
1 GTATCGATACATTTTGCTTA
112626 --ATCGATACATTTTGCTTA
1 GTATCGATACATTTTGCTTA
*
112644 GTATTGATACATT
1 GTATCGATACATT
112657 GTATCGATAT
Statistics
Matches: 64, Mismatches: 1, Indels: 28
0.69 0.01 0.30
Matches are distributed among these distances:
13 18 0.28
15 8 0.12
18 8 0.12
20 30 0.47
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (20 bp):
GTATCGATACATTTTGCTTA
Found at i:112598 original size:13 final size:13
Alignment explanation
Indices: 112580--112636 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 13
112570 TTTGCTTAGT
112580 ATCGATACATTGC
1 ATCGATACATTGC
112593 ATCGATACATTTTGC
1 ATCGATACA--TTGC
112608 TTAGTATCGATACATTGC
1 -----ATCGATACATTGC
112626 ATCGATACATT
1 ATCGATACATT
112637 TTGCTTAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 20 0.54
15 4 0.11
18 4 0.11
20 9 0.24
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (13 bp):
ATCGATACATTGC
Found at i:112602 original size:33 final size:33
Alignment explanation
Indices: 112560--112665 Score: 194
Period size: 33 Copynumber: 3.2 Consensus size: 33
112550 AACCAGATGT
112560 ATCGATACATTTTGCTTAGTATCGATACATTGC
1 ATCGATACATTTTGCTTAGTATCGATACATTGC
112593 ATCGATACATTTTGCTTAGTATCGATACATTGC
1 ATCGATACATTTTGCTTAGTATCGATACATTGC
* *
112626 ATCGATACATTTTGCTTAGTATTGATACATTGT
1 ATCGATACATTTTGCTTAGTATCGATACATTGC
112659 ATCGATA
1 ATCGATA
112666 TATAAAACTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (33 bp):
ATCGATACATTTTGCTTAGTATCGATACATTGC
Found at i:112711 original size:10 final size:10
Alignment explanation
Indices: 112696--112726 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
112686 AATCTCATTT
112696 TCACTATTCA
1 TCACTATTCA
112706 TCACTATTCA
1 TCACTATTCA
*
112716 TCACTGTTCA
1 TCACTATTCA
112726 T
1 T
112727 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.42
Consensus pattern (10 bp):
TCACTATTCA
Found at i:112785 original size:52 final size:52
Alignment explanation
Indices: 112704--112810 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 52
112694 TTTCACTATT
* * * *
112704 CATCACTATTCATCACTGTTCATGTATCGATACATTGTGAAGAGTATCAATA
1 CATCACTATTCATCACTATTCATGCATCGATACAATATGAAGAGTATCAATA
* * *
112756 CATCACTATTCATCATTATTCATGCATCGATACAATATGAATAGTATCGATA
1 CATCACTATTCATCACTATTCATGCATCGATACAATATGAAGAGTATCAATA
112808 CAT
1 CAT
112811 TGAGTCCAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (52 bp):
CATCACTATTCATCACTATTCATGCATCGATACAATATGAAGAGTATCAATA
Found at i:114858 original size:21 final size:21
Alignment explanation
Indices: 114809--114893 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 21
114799 TAATATTCTT
*
114809 GAAAAG-AAATTAAGTGAATTA
1 GAAAAGAAAATGAA-TGAATTA
**
114830 GAGGAGAAAATGAATGAATTA
1 GAAAAGAAAATGAATGAATTA
*
114851 GAAAAGAAAA-GAAATGAGTT-
1 GAAAAGAAAATG-AATGAATTA
*
114871 GCAAAATGAAAATG-ATGAGTTA
1 G-AAAA-GAAAATGAATGAATTA
114893 G
1 G
114894 CTAATAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.04
21 37 0.71
22 12 0.23
23 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.25, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATGAATGAATTA
Found at i:118224 original size:52 final size:52
Alignment explanation
Indices: 118154--118252 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
118144 TTCATCACTA
* * * *
118154 TTCATCACTATTTATGCATCGATACATTGTGACTAGTATCGATACATCATTG
1 TTCATCACTATTCATGCATCGATACATTATGAATAGTATCAATACATCATTG
*
118206 TTCATCACTGTTCATGCATCGATACATTATGAATAGTATCAATACAT
1 TTCATCACTATTCATGCATCGATACATTATGAATAGTATCAATACAT
118253 TGAGTCCAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (52 bp):
TTCATCACTATTCATGCATCGATACATTATGAATAGTATCAATACATCATTG
Found at i:121215 original size:79 final size:79
Alignment explanation
Indices: 121052--121433 Score: 374
Period size: 79 Copynumber: 4.9 Consensus size: 79
121042 ATATTCCCTC
* * * * ** *
121052 GGAGTATCCCCTTGGAAATAACGAGGTT-G-GTATCCTCGATGGTGGAAAATTGACATTTGA-AA
1 GGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTAGAA
*
121114 ATAAAA-TCGAGGTT
66 ATAAAATTAG-GGTT
* * *
121128 GGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCTCGATTGTAGAAAATTAATGTTTTAGAA
1 GGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTAGAA
121193 ATAAAATTAGGGTT
66 ATAAAATTAGGGTT
* * * *
121207 GGAGTATCCCCTC-AGAAATAACGAGGTTGGAGTATCCCCAATTGTGGAAAATCGATGTTTTAGA
1 GGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTAGA
121271 AATAAAATTAGGGTT
65 AATAAAATTAGGGTT
* ** * *
121286 GGAGTATCCCCTCGAAAGA-AA-AGGGTTGGAGTATCCTCGA-TGATAAAAAATCGATGTTTAAG
1 GGAGTATCCCCTCGAAA-ATAACGGGGTTGGAGTATCCTCGATTG-TGGAAAATTGATGTTTTAG
*
121348 AAATAAAACCT-GGGTT
64 AAATAAAA-TTAGGGTT
** * * * *
121364 GGAGTATCCCCTC-AGAAATAATTGGGTTGGAGTGTCCCCGATGGTGGAAAATT-ATATTTT-GA
1 GGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTAG-
121426 AAATAAAA
64 AAATAAAA
121434 ACATAGATGA
Statistics
Matches: 257, Mismatches: 35, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
76 24 0.09
77 6 0.02
78 100 0.39
79 122 0.47
80 5 0.02
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
GGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAATTGATGTTTTAGAA
ATAAAATTAGGGTT
Found at i:121336 original size:157 final size:157
Alignment explanation
Indices: 121052--121433 Score: 458
Period size: 157 Copynumber: 2.4 Consensus size: 157
121042 ATATTCCCTC
** * *
121052 GGAGTATCCCCTTGGAAATAACGAGGTT-G-GTATCCTCGATGGTGGAAAATTGACATTTGAAAA
1 GGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCGACATTTGAAAA
* * *
121115 TAAAATCGAGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCTCGATTGTAGAAAAT
66 TAAAATAGAGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCTCGATTGTAAAAAAT
* * *
121180 TAATGTTTTAGAAATAAAA-TTAGGGTT
131 CAATGTTTAAGAAATAAAACCT-GGGTT
* * ** *
121207 GGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCAATTGTGGAAAATCGATGTTTTAGAA
1 GGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCGACATTTGA-AA
121272 ATAAAATTAG-GGTTGGAGTATCCCCTCGAAAGA-AA-AGGGTTGGAGTATCCTCGA-TGATAAA
65 ATAAAA-TAGAGGTTGGAGTATCCCCTCGAAA-ATAATAGGGTTGGAGTATCCTCGATTG-TAAA
*
121333 AAATCGATGTTTAAGAAATAAAACCTGGGTT
127 AAATCAATGTTTAAGAAATAAAACCTGGGTT
* * * *
121364 GGAGTATCCCCTCAGAAATAATTG-GGTTGGAGTGTCCCCGATGGTGGAAAAT-TATATTTTGAA
1 GGAGTATCCCCTCAGAAATAA-CGAGGTTGGAGTATCCCCGATGGTGGAAAATCGACA-TTTGAA
121427 AATAAAA
64 AATAAAA
121434 ACATAGATGA
Statistics
Matches: 195, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
155 26 0.13
156 13 0.07
157 120 0.62
158 33 0.17
159 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (157 bp):
GGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATGGTGGAAAATCGACATTTGAAAA
TAAAATAGAGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCTCGATTGTAAAAAAT
CAATGTTTAAGAAATAAAACCTGGGTT
Found at i:123816 original size:31 final size:30
Alignment explanation
Indices: 123778--123850 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
123768 TACATTGAGA
* *
123778 AATGTATCGATACATCTGGGTTAAAAGCCAG
1 AATGTATCGATACATCTAGG-TAAAACCCAG
*
123809 AATGTATCAATACATCTAGGTAAAACCCAG
1 AATGTATCGATACATCTAGGTAAAACCCAG
123839 AATGTATCGATA
1 AATGTATCGATA
123851 TAATGAAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 20 0.53
31 18 0.47
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (30 bp):
AATGTATCGATACATCTAGGTAAAACCCAG
Found at i:123839 original size:30 final size:31
Alignment explanation
Indices: 123778--123846 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
123768 TACATTGAGA
* * *
123778 AATGTATCGATACATCTGGGTTAAAAGCCAG
1 AATGTATCAATACATCTAGGTTAAAACCCAG
123809 AATGTATCAATACATCTAGG-TAAAACCCAG
1 AATGTATCAATACATCTAGGTTAAAACCCAG
123839 AATGTATC
1 AATGTATC
123847 GATATAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (31 bp):
AATGTATCAATACATCTAGGTTAAAACCCAG
Found at i:124651 original size:83 final size:84
Alignment explanation
Indices: 124497--124745 Score: 326
Period size: 83 Copynumber: 3.0 Consensus size: 84
124487 AAGAAGTACA
* * *
124497 TCCTGCTCTTCGAGGACAAAGGAAAAAAG-AATGAAA-TGGGTCTTGCTCTTTGAGGATAAAGGA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAAT-AAAGTGTGTCTTGCTCTTTGAGGACAAAGGA
* *
124560 AAAGAAGGAAATTAAGTGTG
65 AAAGAAGGAAATAAAGTGCG
* *
124580 TCCTGCTCTTTGAGGACAAAGGAGAAAAAGAAATAAAGTGTGCCCTGCTCTTTGAGGACAAAGG-
1 TCCTGCTCTTTGAGGACAAAGGA-AAAAAGAAATAAAGTGTGTCTTGCTCTTTGAGGACAAAGGA
*
124644 GAA-AAGGAAATAAAGTGCG
65 AAAGAAGGAAATAAAGTGCG
* * *
124663 TCCTGCTCTTTGAGGACAAAGGCAAAAGGAAATAAAGTGTGTCTTGCTCTTTGAGGATAAAAAGG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATAAAGTGTGTCTTGCTCTTTGAGG--ACAAAGG
*
124728 AAAATAAGGAAATAAAGT
64 AAAAGAAGGAAATAAAGT
124746 ATTCCCTAGT
Statistics
Matches: 145, Mismatches: 14, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
82 30 0.21
83 58 0.40
84 17 0.12
85 27 0.19
86 13 0.09
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (84 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATAAAGTGTGTCTTGCTCTTTGAGGACAAAGGAA
AAGAAGGAAATAAAGTGCG
Found at i:124660 original size:41 final size:42
Alignment explanation
Indices: 124497--124745 Score: 303
Period size: 41 Copynumber: 5.9 Consensus size: 42
124487 AAGAAGTACA
* *
124497 TCCTGCTCTTCGAGGACAAAGGAAAAAA-G-AATGAAA-TGGG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAT-AAAGTGTG
* * *
124537 TCTTGCTCTTTGAGGATAAAGGAAAAGAAGGAAATTAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAA-AAGGAAATAAAGTGTG
124580 TCCTGCTCTTTGAGGACAAAGGAGAAAAA-GAAATAAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGA-AAAAAGGAAATAAAGTGTG
* * *
124622 CCCTGCTCTTTGAGGACAAAGG-GAAAAGGAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGTG
*
124663 TCCTGCTCTTTGAGGACAAAGG-CAAAAGGAAATAAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGTG
* *
124704 TCTTGCTCTTTGAGGATAAAAAGGAAAATAAGGAAATAAAGT
1 TCCTGCTCTTTGAGG--ACAAAGGAAAA-AAGGAAATAAAGT
124746 ATTCCCTAGT
Statistics
Matches: 182, Mismatches: 17, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
40 27 0.15
41 66 0.36
42 36 0.20
43 35 0.19
44 5 0.03
45 13 0.07
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (42 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGTG
Found at i:124914 original size:61 final size:61
Alignment explanation
Indices: 124820--125237 Score: 455
Period size: 61 Copynumber: 7.1 Consensus size: 61
124810 AAGTGTCCTA
* * ** *
124820 CTCTTTG-GAGACTAGAAGGTGCCACCAAGTTGTGTGGGCTTTGCAAGGAGAAGGCATCATG
1 CTCTTTGAG-GACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATG
* * *
124881 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCATCCTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATG
* *
124940 CTCTTTGAGGACT-AAAGGTGCCACCAAC-T-TATGGGCTTTAAAAAGAAAAGCTGC-TC-TG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG--GCATCATG
*
124998 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCTTG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATG
*
125059 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTTTGGGCTTT------AAAAGG----A--
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATG
* * * *
125108 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGACGTCATG
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATG
* * * * * *
125169 CTCTTTGAGGGA-TGAAAGGTGCCACTAACTTATATGGGCTTTAAAAGGAAAAGACGTCATG
1 CTCTTTGA-GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATG
125230 CTCTTTGA
1 CTCTTTGA
125238 AGGCTTAAAG
Statistics
Matches: 314, Mismatches: 20, Indels: 46
0.83 0.05 0.12
Matches are distributed among these distances:
49 39 0.12
55 11 0.04
56 13 0.04
57 4 0.01
58 29 0.09
59 40 0.13
60 7 0.02
61 167 0.53
62 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (61 bp):
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATG
Found at i:125080 original size:178 final size:170
Alignment explanation
Indices: 124755--125237 Score: 555
Period size: 178 Copynumber: 2.8 Consensus size: 170
124745 TATTCCCTAG
* *
124755 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGGAAAGTGTCCTA
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGG-AAAA-G--ACTGT-CTG
* * ** *
124820 CTCTTTG-GAGACTAGAAGGTGCCACCAAGTTGTGTGGGCTTTGCAAGGAGAAGGCATCATGCTC
60 CTCTTTGAG-GACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTC
*
124884 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCATCCTGC
124 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT---A--AAAGCA-----C
* *
124941 TCTTTGAGGACT-AAAGGTGCCACCAACTTATG-GGCTTTAAAAAGAAAAG-CTGCTCTGCTCTT
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGCTTTAAAAGGAAAAGACTG-TCTGCTCTT
*
125003 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCTTGCTCTTTGAG
65 TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTTTGAG
* *
125068 GACTAAAAGGTGCCACCAACTTGTTTGGGCTTTAAAAGGAC
130 GACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGCAC
*
125109 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGAC-GTCATGCTCT
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTG-TGGCTTTAAAAGGAAAAGACTGTC-TGCTCT
* * * * * *
125173 TTGAGGGA-TGAAAGGTGCCACTAACTTATATGGGCTTTAAAAGGAAAAGACGTCATGCTCTTTG
64 TTGA-GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTTTG
125237 A
128 A
125238 AGGCTTAAAG
Statistics
Matches: 267, Mismatches: 22, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
168 13 0.05
169 19 0.07
170 2 0.01
171 77 0.29
172 4 0.01
173 5 0.02
175 1 0.00
178 97 0.36
179 2 0.01
181 1 0.00
182 4 0.01
183 11 0.04
185 19 0.07
186 12 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (170 bp):
TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGCTTTAAAAGGAAAAGACTGTCTGCTCTTT
GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTTTGAGG
ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGCAC
Found at i:125131 original size:49 final size:49
Alignment explanation
Indices: 124998--125156 Score: 176
Period size: 49 Copynumber: 3.0 Consensus size: 49
124988 AGCTGCTCTG
*
124998 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTTGGCTTT------AAAAGG-A
125054 TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGT-TTGGGCTTTAAAAGGA
1 -----CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTT-GGCTTTAAAAGGA
*
125108 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGA
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGA
125157 AAAGACGTCA
Statistics
Matches: 94, Mismatches: 2, Indels: 16
0.84 0.02 0.14
Matches are distributed among these distances:
49 45 0.48
50 2 0.02
54 1 0.01
55 6 0.06
60 1 0.01
61 39 0.41
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (49 bp):
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGA
Found at i:125148 original size:110 final size:107
Alignment explanation
Indices: 124881--125217 Score: 385
Period size: 110 Copynumber: 3.0 Consensus size: 107
124871 AGGCATCATG
* *
124881 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCATCCTGCTCT
1 CTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCT
*
124944 TTGAGGACTAAAGGTGCCACCAAC-TTATGGGCTTTAAAAAGAAAAGCTGCTCTG
65 TTGAGGACTAAAGGTGCCACCAACTTTATGGGCTTT------AAAAG--G----A
*
124998 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCTTGCTCT
1 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCT
*
125063 TTGAGGACTAAAAGGTGCCACCAACTTGTTTGGGCTTTAAAAGGA
65 TTGAGGACT-AAAGGTGCCACCAACTT-TATGGGCTTTAAAAGGA
* * *
125108 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGACGTCATGCTCT
1 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCT
*
125173 TTGAGGGA-TGAAAGGTGCCACTAACTTATATGGGCTTTAAAAGGA
65 TTGA-GGACT-AAAGGTGCCACCAACTT-TATGGGCTTTAAAAGGA
125218 AAAGACGTCA
Statistics
Matches: 200, Mismatches: 13, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
110 97 0.49
111 3 0.01
114 1 0.00
116 5 0.03
117 45 0.22
118 4 0.02
119 20 0.10
120 15 0.08
121 1 0.00
122 9 0.05
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (107 bp):
CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCATGCTCTT
TGAGGACTAAAGGTGCCACCAACTTTATGGGCTTTAAAAGGA
Found at i:126238 original size:1 final size:1
Alignment explanation
Indices: 126228--126280 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
126218 TCTTTTCTCG
* * * * * *
126228 TTTTTCTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
126281 AGAAAAAAGG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:126239 original size:8 final size:8
Alignment explanation
Indices: 126228--126280 Score: 88
Period size: 8 Copynumber: 6.5 Consensus size: 8
126218 TCTTTTCTCG
*
126228 TTTTTCTT
1 TTTTTGTT
126236 TTTTTGTT
1 TTTTTGTT
126244 TTTTTGTT
1 TTTTTGTT
126252 TTTTTGTT
1 TTTTTGTT
126260 TTTTTGTTT
1 TTTTTG-TT
126269 TTTTTGTT
1 TTTTTGTT
126277 TTTT
1 TTTT
126281 AGAAAAAAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
8 35 0.81
9 8 0.19
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (8 bp):
TTTTTGTT
Found at i:126244 original size:14 final size:14
Alignment explanation
Indices: 126215--126262 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
126205 AAACAAGTTC
* *
126215 TTTTCTTTTCTCGT
1 TTTTCTTTTTTTGT
126229 TTTTCTTTTTTTGTTT
1 TTTTCTTTTTTTG--T
*
126245 TTTTGTTTTTTTGT
1 TTTTCTTTTTTTGT
126259 TTTT
1 TTTT
126263 TTGTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 16 0.55
16 13 0.45
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTTTTGT
Found at i:126255 original size:24 final size:25
Alignment explanation
Indices: 126228--126280 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
126218 TCTTTTCTCG
126228 TTTTTCTTTTTTTG-TTTTTTTGTT
1 TTTTTCTTTTTTTGTTTTTTTTGTT
*
126252 TTTTTGTTTTTTTGTTTTTTTTGTT
1 TTTTTCTTTTTTTGTTTTTTTTGTT
126277 TTTT
1 TTTT
126281 AGAAAAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (25 bp):
TTTTTCTTTTTTTGTTTTTTTTGTT
Found at i:133256 original size:79 final size:79
Alignment explanation
Indices: 133148--133410 Score: 284
Period size: 79 Copynumber: 3.3 Consensus size: 79
133138 CACCGCATTT
* *
133148 AGAAATAAT-AGGGTTGGAGTATCCTCGATTATGAAAAATCAGTATTTTAGAAATAAAACCAGGG
1 AGAAATAATGA-GTTTGGAGTATCCCCGATTATGAAAAATCAGTATTTTAGAAATAAAACCAGGG
133212 TTGGAGTATCCCCTC
65 TTGGAGTATCCCCTC
* * * **
133227 AGAAATAACGAGTTTGGAGTATCCCCGATTGTGGAAAATC-GATATTTTAGAAATAAAACTGGGG
1 AGAAATAATGAGTTTGGAGTATCCCCGATTATGAAAAATCAG-TATTTTAGAAATAAAACCAGGG
133291 TTGGAGTATCCCCTC
65 TTGGAGTATCCCCTC
* * * * * * * * *
133306 -GAAAATAATGAGGTCGGAGTATCCTCGATGATAGAAAATTGA-TGTTTAAGAAATAAAGCCAGG
1 AG-AAATAATGAGTTTGGAGTATCCCCGATTAT-GAAAAATCAGTATTTTAGAAATAAAACCAGG
*
133369 GTTGGATTATCCCCTC
64 GTTGGAGTATCCCCTC
* *
133385 A-AAATAATGGGTTTGGAGTGTCCCCG
1 AGAAATAATGAGTTTGGAGTATCCCCG
133411 GAGATAGAAA
Statistics
Matches: 151, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
78 22 0.15
79 123 0.81
80 6 0.04
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
AGAAATAATGAGTTTGGAGTATCCCCGATTATGAAAAATCAGTATTTTAGAAATAAAACCAGGGT
TGGAGTATCCCCTC
Found at i:136559 original size:42 final size:42
Alignment explanation
Indices: 136444--136633 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 42
136434 GCTCTTCGAA
* *
136444 GACAAAGGA-AAAAAG-AATGAAA-TGGGTCCTACTCCTTGAG
1 GACAAAGGAGAAAAGGAAAT-AAAGTGTGTCCTACTCCTTGAG
* * *
136484 GACAAAGGAAAAGAAGGAAATTAAGTGTCTCCTACTCCTTGAG
1 GACAAAGGAGAA-AAGGAAATAAAGTGTGTCCTACTCCTTGAG
*
136527 GACAAAGGAGAAAAGGAAATAAAGTGTGTCCTACTCTTTGAG
1 GACAAAGGAGAAAAGGAAATAAAGTGTGTCCTACTCCTTGAG
* * * *
136569 GACAAAGG-GAAAA-AAAATAAAGTGTGTCCTGCTCTTTGAA
1 GACAAAGGAGAAAAGGAAATAAAGTGTGTCCTACTCCTTGAG
136609 GACAAAGG-GAAAAGGAAATAAAGTG
1 GACAAAGGAGAAAAGGAAATAAAGTG
136634 CATCTTGCTT
Statistics
Matches: 133, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
40 46 0.35
41 17 0.13
42 40 0.30
43 30 0.23
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (42 bp):
GACAAAGGAGAAAAGGAAATAAAGTGTGTCCTACTCCTTGAG
Found at i:136648 original size:41 final size:41
Alignment explanation
Indices: 136429--136651 Score: 218
Period size: 40 Copynumber: 5.4 Consensus size: 41
136419 AAAGAAGTAC
* * * * *
136429 GTCCTGCTCTTCGAAGACAAAGGAAAAAAG-AATGAAA-TGG
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAGGAAAT-AAAGTGT
* * * *
136469 GTCCTACTCCTTGAGGACAAAGGAAAAGAAGGAAATTAAGTGT
1 GTCCTGCTCTTTGAGGACAAAGG-GAA-AAGGAAATAAAGTGT
* * *
136512 CTCCTACTCCTTGAGGACAAAGGAGAAAAGGAAATAAAGTGT
1 GTCCTGCTCTTTGAGGACAAAGG-GAAAAGGAAATAAAGTGT
* *
136554 GTCCTACTCTTTGAGGACAAAGGGAAAA-AAAATAAAGTGT
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAGGAAATAAAGTGT
* *
136594 GTCCTGCTCTTTGAAGACAAAGGGAAAAGGAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAGGGAAAAGGAAATAAAGTGT
* * *
136635 ATCTTGCTTTTTGAGGA
1 GTCCTGCTCTTTGAGGA
136652 TAAAAAAGAA
Statistics
Matches: 157, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
40 56 0.36
41 31 0.20
42 40 0.25
43 30 0.19
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (41 bp):
GTCCTGCTCTTTGAGGACAAAGGGAAAAGGAAATAAAGTGT
Found at i:136648 original size:81 final size:84
Alignment explanation
Indices: 136441--136651 Score: 227
Period size: 81 Copynumber: 2.6 Consensus size: 84
136431 CCTGCTCTTC
* ** *
136441 GAAGACAAAGGA-AAAAAG-AATGAAA-TGGGTCCTACTCCTTGAGGACAAAGGAAAAGAAGGAA
1 GAAGACAAAGGAGAAAAGGAAAT-AAAGTGCATCCTACTCTTTGAGGACAAAGGAAAAGAA-GAA
*
136503 ATTAAGTGTCTCCTACTCCTT
64 ATAAAGTGTCTCCTACTCCTT
* ** *
136524 GAGGACAAAGGAGAAAAGGAAATAAAGTGTGTCCTACTCTTTGAGGACAAAGGGAAA-AA-AAAT
1 GAAGACAAAGGAGAAAAGGAAATAAAGTGCATCCTACTCTTTGAGGACAAAGGAAAAGAAGAAAT
* * *
136587 AAAGTGTGTCCTGCTCTTT
66 AAAGTGTCTCCTACTCCTT
* * *
136606 GAAGACAAAGG-GAAAAGGAAATAAAGTGCATCTTGCTTTTTGAGGA
1 GAAGACAAAGGAGAAAAGGAAATAAAGTGCATCCTACTCTTTGAGGA
136652 TAAAAAAGAA
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
81 30 0.27
82 29 0.26
83 11 0.10
84 10 0.09
85 30 0.27
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (84 bp):
GAAGACAAAGGAGAAAAGGAAATAAAGTGCATCCTACTCTTTGAGGACAAAGGAAAAGAAGAAAT
AAAGTGTCTCCTACTCCTT
Found at i:136997 original size:61 final size:61
Alignment explanation
Indices: 136684--137129 Score: 394
Period size: 61 Copynumber: 7.3 Consensus size: 61
136674 AAGTGTCTCA
* * *
136684 TACTCTTTGAGGACTAAAAGGTGCCACCGACTTGTGTGGGCTTTAAAAGGAAACAGGAAAGTGTC
1 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA-AGG-CA---TC
*
136749 T
61 C
* * ** * * * *
136750 TGCTCTTT-AGAGACTCG-AAGGTGCCACCAACTTATGTGGGCTTTCCAAGGAGAATGCGTCA
1 TACTCTTTGAG-GACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * * * * *
136811 TGCTCTTTGAGAACT-AGAA-GTGCCACCAACCTGTGTCGGCTTTAAAAGG-AAA-GCTTCT
1 TACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* *
136869 TACTCTTTGAGGAC-CAGAAGGTGCCACCAAC-T-TGTGGGCTTTAAAA--AAAAGGCGTCC
1 TACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* ** * * * *
136926 TACTCTTTGAGGATTGAAATATGCCCCCAACTTATATGGGCTTTAAAAGGAAAAGGCATCT
1 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * * * *
136987 TGCTCCTTGAGGACTGAAAGGTGCCACCAACTTGTGTTGACTTTAAAAGAAAAAGG-AGTCC
1 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA-TCC
* *
137048 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCGTCC
1 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* *
137109 TTCTCATTGAGGACTGAAAGG
1 TACTCTTTGAGGACTGAAAGG
137130 CTAAAAGGTT
Statistics
Matches: 310, Mismatches: 54, Indels: 37
0.77 0.13 0.09
Matches are distributed among these distances:
56 3 0.01
57 41 0.13
58 23 0.07
59 26 0.08
60 26 0.08
61 143 0.46
62 2 0.01
65 4 0.01
66 42 0.14
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (61 bp):
TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
Found at i:138113 original size:9 final size:9
Alignment explanation
Indices: 138091--138163 Score: 62
Period size: 9 Copynumber: 8.1 Consensus size: 9
138081 CTTAAACAGG
138091 TTCTTTTCTT
1 TTCTTTT-TT
138101 TTCTTTTTT
1 TTCTTTTTT
138110 TTC--TTTT
1 TTCTTTTTT
*
138117 TTCTCTTTT
1 TTCTTTTTT
*
138126 TTCATTTTT
1 TTCTTTTTT
*
138135 TTGTTTTTGT
1 TTCTTTTT-T
138145 TT-TTTGTTT
1 TTCTTT-TTT
*
138154 TTGTTTTTT
1 TTCTTTTTT
138163 T
1 T
138164 AGAAAAAGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
7 7 0.13
9 32 0.59
10 15 0.28
ACGTcount: A:0.01, C:0.10, G:0.05, T:0.84
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:138141 original size:6 final size:6
Alignment explanation
Indices: 138132--138161 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
138122 TTTTTTCATT
138132 TTTTTG TTTTTG TTTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG -TTTTTG TTTTTG TTTTT
138162 TTAGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:138149 original size:13 final size:13
Alignment explanation
Indices: 138131--138162 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
138121 CTTTTTTCAT
138131 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
138144 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
138157 TTTTTT
1 TTTTTT
138163 TAGAAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTGTTTTTG
Found at i:139523 original size:79 final size:80
Alignment explanation
Indices: 139368--139751 Score: 421
Period size: 79 Copynumber: 4.9 Consensus size: 80
139358 TATTCCATCA
* * * * *
139368 GAGT-TCCCCTCGAAAATAATGGGGTTGGAGTATCTCCGATAGTG-AAAATTCGATG-TTTGGAA
1 GAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGATGTTTTAGAA
139430 ATAAAATCGAGGGTTG
66 ATAAAATCG-GGGTTG
* * *
139446 GAGTATCCCTTCAAAAATAATGGGGTTGAAGTATCCTCGATTGTGAAAAATTAG-TGTTTTAGAA
1 GAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGATGTTTTAGAA
*
139510 ATAAAATTGGGGTTG
66 ATAAAATCGGGGTTG
* * * * *
139525 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAAA-TCGATGTTTTAGAA
1 GAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGATGTTTTAGAA
139589 ATAAAATCGGGGTTG
66 ATAAAATCGGGGTTG
*** *
139604 GAGTATCCCCTCAAAAAT-ACCAGGTTGGAGTATCCCCGA-TGAT-AGAAAATT-GATGTTTGAG
1 GAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATTG-TGA-AAAATTAGATGTTTTAG
*
139665 AAATAAAGTCGGGGTTG
64 AAATAAAATCGGGGTTG
* * * * * * *
139682 GAGTATCCCCTCAGAAATAACTAGGGTTGGAGTGTCCCCGATGGTGGAAAATT--ATATTTTGGA
1 GAGTATCCCCTCAAAAATAA-TGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGATGTTTTAGA
139745 AATAAAA
65 AATAAAA
139752 ACATCGATGA
Statistics
Matches: 259, Mismatches: 36, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.00
78 72 0.28
79 141 0.54
80 44 0.17
81 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (80 bp):
GAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGATGTTTTAGAA
ATAAAATCGGGGTTG
Found at i:143739 original size:20 final size:19
Alignment explanation
Indices: 143716--143769 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
143706 CATTTCAGGC
143716 ATGTATTGATACATTCACTT
1 ATGTATTGATACATTCA-TT
* *
143736 ATGTATTGATGCATTTATT
1 ATGTATTGATACATTCATT
143755 ATTTGTATTGATACA
1 A--TGTATTGATACA
143770 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 15 0.52
21 11 0.38
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (19 bp):
ATGTATTGATACATTCATT
Found at i:150098 original size:12 final size:12
Alignment explanation
Indices: 150077--150109 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
150067 TTTTAACTAG
150077 ATTA-TCAATAC
1 ATTATTCAATAC
150088 ATTATTCAATAC
1 ATTATTCAATAC
*
150100 ATTGTTCAAT
1 ATTATTCAAT
150110 GTATCGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (12 bp):
ATTATTCAATAC
Found at i:151456 original size:28 final size:28
Alignment explanation
Indices: 151112--151450 Score: 398
Period size: 28 Copynumber: 12.1 Consensus size: 28
151102 GTGGGTAATA
* * *
151112 AAAGGGTGCCACCGACTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
151140 AAAGGGTATGCCACTGACTTGTGGGCTTTG
1 AAA-GG-ATGCCACTGACTTGTGGGCTTTG
* *
151170 AAAGGGTGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
151198 AAGGGATATGCCACTGAC-T-T-GGCTTTG
1 AAAGG--ATGCCACTGACTTGTGGGCTTTG
* *
151225 AAAGGATGCCACTGACTTGTGGTCTTTT
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
151253 AAAGAGATGCCACTGACTTATGGGCTTTG
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
* * *
151282 AAAGGGTGCC-CTGACTTATGAGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
151309 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
151337 AAAGGGTGCCACTGATTTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
151365 AAAGGATGCCACTAACTTATAGGCTTTT
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
151393 AAAAGATGCCACTGACTTGTGGGCTTTC
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
151421 AAAGGATGCCACTGACCTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
151449 AA
1 AA
151451 GAGATGAATG
Statistics
Matches: 265, Mismatches: 37, Indels: 18
0.83 0.12 0.06
Matches are distributed among these distances:
25 11 0.04
26 1 0.00
27 37 0.14
28 154 0.58
29 30 0.11
30 32 0.12
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:155803 original size:57 final size:58
Alignment explanation
Indices: 155453--156659 Score: 1304
Period size: 57 Copynumber: 20.9 Consensus size: 58
155443 TAAAAAAAAT
* * * *
155453 GTGCCACTAACTTGTGTGGGCTTTGAAAAAAGTTACCACTGACACGTGTGGGCTTTGAAAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTG--ACTTGTGGGCTTTGAAAAGA
* ** * * * *
155516 CTGTTACTAACTTGCGTGGGCTTT-AAAAGGGTACCACTGACTTGCGTGGGCTTTG-AAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAAGA
* *
155576 GTGCCACTAACTCGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
** * ** * *
155632 GTGCCACTGACTCATGGGCTTTGAAAAG-GTACCACTGACTCAT-GGCCTTGAAATG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
*
155687 GTGCCACTGACTTGTGGGC-TTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
155742 GTGCCACTGACTTGTGGGCTTTGAAAAGAGGGCCACTGATTTGT-GGCCTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
155799 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGTCACTGACTTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC-TTGTGGGCTTTGAAAAGA
* * * * * * ** *
155857 GTGCACTTTACTAACTCGTGGGCTTCGAAAAG-GTTACTACTGAGTCATGGGC-TTG-AAAGG
1 GTGC-C---ACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAGA
*
155917 GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
155973 GTGCCACTAACTTGAGTGGGCTTT-AAAAGGAGTGCCACTTACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * * * * *
156032 GTGCCACTGAATTATGGGCTTCG-CAAG-GTTGCCACTGACTTGTGTGC-TTCAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAAGA
** * * * *
156088 GTGCCACTGACTTGTGGGCTCCG-AAAGGGTGCCACTAACTTGTGGACTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
156144 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGGCTTTGAAGAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
156202 GTGCCACTGA-TATGTAGGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACT-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
156260 GTGGCACTAACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
156317 GTGCCACTGATTTGTGGGCCTTGAAAAAAGTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
156374 GTGTCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
156431 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
156489 GTGCCACTGACTTGTGAGCTTTTGAAAAGAGTGCCACTGATTTATGGGCTTTG-AAAG-
1 GTGCCACTGACTTGTGGGC-TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
156546 GTTGCCACTAACTTGTGGGCTTTAAAAAGAGTGCCATTGATTTGTGGGCTTTGAAAAGA
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
156605 GTGCCACTGACTTGTAGGCTTTGAAAGGAGTGCCCCTGACTTGTGGGCTTTGAAA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
156660 GGGATGAACA
Statistics
Matches: 979, Mismatches: 122, Indels: 91
0.82 0.10 0.08
Matches are distributed among these distances:
53 4 0.00
54 16 0.02
55 73 0.07
56 195 0.20
57 274 0.28
58 241 0.25
59 78 0.08
60 21 0.02
61 22 0.02
62 28 0.03
63 27 0.03
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (58 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:156661 original size:29 final size:29
Alignment explanation
Indices: 155453--156659 Score: 1304
Period size: 28 Copynumber: 41.9 Consensus size: 29
155443 TAAAAAAAAT
* *
155453 GTGCCACTAACTTGTGTGGGCTTTGAAAAAA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
* *
155484 GTTACCACTGACACGTGTGGGCTTTGAAAAGA
1 G-TGCCACTG--ACTTGTGGGCTTTGAAAAGA
* ** * *
155516 CTGTTACTAACTTGCGTGGGCTTT-AAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGA
* *
155546 GTACCACTGACTTGCGTGGGCTTTG-AAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGA
* *
155576 GTGCCACTAACTCGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
155605 -TGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
**
155632 GTGCCACTGACTCATGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* ** * *
155660 GTACCACTGACTCAT-GGCCTTGAAATG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
155687 GTGCCACTGACTTGTGGGC-TTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
155714 GTGCCACTGACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
155742 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
155771 GGGCCACTGATTTGT-GGCCTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
155799 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
155827 GTGTCACTGACTTTGTGGGCTTTGAAAAGA
1 GTGCCACTGAC-TTGTGGGCTTTGAAAAGA
* * *
155857 GTGCACTTTACTAACTCGTGGGCTTCGAAAAG-
1 GTGC-C---ACTGACTTGTGGGCTTTGAAAAGA
* * * ** *
155889 GTTACTACTGAGTCATGGGC-TTG-AAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGA
155917 GTGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
155945 GTGCCACTGACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
155973 GTGCCACTAACTTGAGTGGGCTTT-AAAAGGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAA-GA
*
156004 GTGCCACTTACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * * *
156032 GTGCCACTGAATTATGGGCTTCG-CAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
156059 GTTGCCACTGACTTGTGTGC-TTCAAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGA
** *
156088 GTGCCACTGACTTGTGGGCTCCG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
156116 GTGCCACTAACTTGTGGACTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
156144 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
156173 GTGCCACTAATTTGTGGGCTTTGAAGAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
156202 GTGCCACTGA-TATGTAGGCTTTGAAAAAA
1 GTGCCACTGACT-TGTGGGCTTTGAAAAGA
*
156231 GTGCCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
156260 GTGGCACTAACTTGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
156288 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
156317 GTGCCACTGATTTGTGGGCCTTGAAAAAA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
156346 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
156374 GTGTCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
156403 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
156431 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
156460 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
156489 GTGCCACTGACTTGTGAGCTTTTGAAAAGA
1 GTGCCACTGACTTGTGGGC-TTTGAAAAGA
* *
156519 GTGCCACTGATTTATGGGCTTTG-AAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
156546 GTTGCCACTAACTTGTGGGCTTTAAAAAGA
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGA
* *
156576 GTGCCATTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
156605 GTGCCACTGACTTGTAGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
156634 GTGCCCCTGACTTGTGGGCTTTGAAA
1 GTGCCACTGACTTGTGGGCTTTGAAA
156660 GGGATGAACA
Statistics
Matches: 1001, Mismatches: 131, Indels: 90
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.00
27 68 0.07
28 389 0.39
29 383 0.38
30 84 0.08
31 27 0.03
32 23 0.02
33 17 0.02
34 7 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:169686 original size:27 final size:27
Alignment explanation
Indices: 169633--169686 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
169623 TTTAAAAGCG
** *
169633 GGGTTGGAGTATCCCCTCGAAGGAAAA
1 GGGTTGGAGTATCCCCGAGAAAGAAAA
* *
169660 GGGTTGGAGTATCCCCGATAAATAAAA
1 GGGTTGGAGTATCCCCGAGAAAGAAAA
169687 TTTTTGATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGAAAGAAAA
Found at i:171916 original size:20 final size:19
Alignment explanation
Indices: 171866--171939 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
171856 GGTAAAAAGA
171866 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
* *
171885 GCAGAATATATCGATACATT
1 -CATAATGTATCGATACATT
*
171905 CATACATGTATCGATATATT
1 CATA-ATGTATCGATACATT
* *
171925 GAAAAATGTATCGAT
1 -CATAATGTATCGAT
171940 GCATCAGGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 3 0.07
20 40 0.89
21 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:173339 original size:11 final size:12
Alignment explanation
Indices: 173323--173363 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
173313 TGGTTTTTGG
173323 TTTTTTCTA-TT
1 TTTTTTCTAGTT
173334 TTTTTTCCTAGTT
1 TTTTTT-CTAGTT
*
173347 TTTTTTTTAGTT
1 TTTTTTCTAGTT
173359 TTTTT
1 TTTTT
173364 GTACGAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 6 0.22
12 13 0.48
13 8 0.30
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTTCTAGTT
Found at i:191083 original size:71 final size:72
Alignment explanation
Indices: 191004--191179 Score: 250
Period size: 71 Copynumber: 2.5 Consensus size: 72
190994 TTTTAACTAG
* * * *
191004 ATGTATCGATACATT-ATTCAATGTATCGATACATCTTGGTAAAAAGACAGAATGCATCGATACA
1 ATGTATCGATACATTCATACAATGTATCGATACATCTGGGTAAAAAGACAAAATGCATCGAGACA
191068 TTCATAC
66 TTCATAC
* * * *
191075 ATGTATCGATACATTGA-AAAATGTATCGATACATCTGGGTAAAAAGATAAAATGTATCGAGACA
1 ATGTATCGATACATTCATACAATGTATCGATACATCTGGGTAAAAAGACAAAATGCATCGAGACA
191139 TTCATAC
66 TTCATAC
*
191146 ATGTATCGATACATTCATAC-ATGAATCGATACAT
1 ATGTATCGATACATTCATACAATGTATCGATACAT
191180 TAAAAAATGT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 91 0.98
72 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (72 bp):
ATGTATCGATACATTCATACAATGTATCGATACATCTGGGTAAAAAGACAAAATGCATCGAGACA
TTCATAC
Found at i:191084 original size:20 final size:20
Alignment explanation
Indices: 191054--191199 Score: 85
Period size: 20 Copynumber: 6.8 Consensus size: 20
191044 AAAAAGACAG
* *
191054 AATGCATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
191074 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
191094 AATGTATCGATACATCTGGGTAAAAAGATA
1 AATGTATCGATACA--T---T---CA-A-A
* *
191124 AAATGTATCGAGACATTCATA
1 AA-TGTATCGATACATTCAAA
* *
191145 CATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
191165 CATGAATCGATACATTAAAA
1 AATGTATCGATACATTCAAA
191185 AATGTATCGATACAT
1 AATGTATCGATACAT
191200 CTGGGTAAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
20 76 0.77
21 2 0.02
22 1 0.01
23 1 0.01
25 1 0.01
26 1 0.01
28 1 0.01
29 2 0.02
30 3 0.03
31 11 0.11
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:203587 original size:13 final size:13
Alignment explanation
Indices: 203569--203594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
203559 TACACCAAGT
203569 ATGTATCGATACA
1 ATGTATCGATACA
203582 ATGTATCGATACA
1 ATGTATCGATACA
203595 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:203613 original size:34 final size:32
Alignment explanation
Indices: 203551--203615 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
203541 TAGCCAAACT
**
203551 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
203583 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
203616 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:205043 original size:20 final size:21
Alignment explanation
Indices: 205000--205054 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
204990 TAAATAAATA
205000 TATCGATACATTTACTATTTG
1 TATCGATACATTTACTATTTG
*
205021 TATCGATACA-TTATTCA-TTG
1 TATCGATACATTTACT-ATTTG
*
205041 TATTGATACATTTA
1 TATCGATACATTTA
205055 GGGTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (21 bp):
TATCGATACATTTACTATTTG
Found at i:210632 original size:20 final size:20
Alignment explanation
Indices: 210607--210680 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
210597 CTTTAACTAG
*
210607 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTCAAAA
* * *
210627 ATGTATCAATACATTCATAC
1 ATGTATCGATACATTCAAAA
210647 ATGTATCGATACATTCAAAA
1 ATGTATCGATACATTCAAAA
*
210667 TTGTATCGATACAT
1 ATGTATCGATACAT
210681 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTCAAAA
Found at i:210725 original size:21 final size:21
Alignment explanation
Indices: 210699--210751 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
210689 AAAATAGAAT
210699 GTATCGATACATGTACAGTTC
1 GTATCGATACATGTACAGTTC
210720 GTATCGATACATGTACAGTTC
1 GTATCGATACATGTACAGTTC
*
210741 ATATCGATACA
1 GTATCGATACA
210752 AATTGGGGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (21 bp):
GTATCGATACATGTACAGTTC
Found at i:211773 original size:29 final size:28
Alignment explanation
Indices: 211707--212300 Score: 654
Period size: 29 Copynumber: 21.0 Consensus size: 28
211697 CACTGACTTT
* * * *
211707 TGACTTGTGGGTTTTGAAAAGTTACCAC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
* *
211735 TAACTTATGGGCTTTGAAAAGGATGCCAC
1 TGACTTGTGGGCTTTG-AAAGGATGCCAC
* *
211764 TCACTTATGGGCTTTTGAAAGGATGCCAC
1 TGACTTGTGGGC-TTTGAAAGGATGCCAC
*
211793 TAACTTGTGGGCTTTTGAAAGGATGCCAC
1 TGACTTGTGGGC-TTTGAAAGGATGCCAC
* *
211822 TGACTTGTGGGCTATGAAAAGGATGCCAT
1 TGACTTGTGGGCTTTG-AAAGGATGCCAC
211851 TGACTTGTGGGCTTTGAAAAGGATGCCAC
1 TGACTTGTGGGCTTTG-AAAGGATGCCAC
* *
211880 TGACTTGT-GACTTTGAAAGGATGCCGC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
* * *
211907 TGACTTGTGGGTTTTGAAAGGGTGGCAC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
* *
211935 TGACTTGTGAGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
* * * *
211963 TGATTTGTAGACTTTGAAAAGATGCCAC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
* ** * * *
211991 TGACGTGTGGATTTTGGAAGGGTGGCAC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
*
212019 TAACTTGTGGGCTTTTGAAAGGATGCCAC
1 TGACTTGTGGGC-TTTGAAAGGATGCCAC
*
212048 TAACTTGTGGGCTTTTGAAAGGATGCCAC
1 TGACTTGTGGGC-TTTGAAAGGATGCCAC
212077 TGACTTGTGGGCTTTGAAAAGGATGCCAC
1 TGACTTGTGGGCTTTG-AAAGGATGCCAC
* * *
212106 TAACTTGTGGACTTTGAAAAAGATGCCAC
1 TGACTTGTGGGCTTTG-AAAGGATGCCAC
* *
212135 TGACTTGTGGGTTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
* * * *
212163 TGACATATGGGTTTTGAAAGGGTGCCAC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
* *
212191 TGACTTGTGGGCTTTGAAAGGGTGCCGC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
*
212219 TGACTTGTGGGCTTTTGAAAAGATGCCAC
1 TGACTTGTGGGC-TTTGAAAGGATGCCAC
*
212248 TGACTTGTGGGC-TTAAAAGGATGCCAC
1 TGACTTGTGGGCTTTGAAAGGATGCCAC
* * * *
212275 GGAGTTGTGGAC-TTAAAAGGATGCCA
1 TGACTTGTGGGCTTTGAAAGGATGCCA
212301 TGGAGTTGTG
Statistics
Matches: 491, Mismatches: 68, Indels: 15
0.86 0.12 0.03
Matches are distributed among these distances:
27 55 0.11
28 187 0.38
29 245 0.50
30 4 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
TGACTTGTGGGCTTTGAAAGGATGCCAC
Found at i:212274 original size:284 final size:284
Alignment explanation
Indices: 211732--212255 Score: 777
Period size: 284 Copynumber: 1.8 Consensus size: 284
211722 GAAAAGTTAC
*
211732 CACTAACTTATGGGCTTTGAAAAGGATGCCACTCACTTATGGGCTTTTGAAAGGATGCCACTAAC
1 CACTAACTTATGGGCTTTGAAAAGGATGCCACTAACTTATGGGCTTTTGAAAGGATGCCACTAAC
* * * *
211797 TTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTATGAAAAGGATGCCATTGACTTGTGGG
66 TTGTGGGCTTTTGAAAGGATGCCACTAACTTGTGGACTATGAAAAAGATGCCACTGACTTGTGGG
* *
211862 CTTTGAAAAGGATGCCACTGACTTGTGACTTTGAAAGGATGCCGCTGACTTGTGGGTTTTGAAAG
131 CTTTGAAAAGGATGCCACTGACTTGTGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * * *
211927 GGTGGCACTGACTTGTGAGCTTTGAAAGGGTGCCACTGATTTGTAGACTTTGAAAAGATGCCACT
196 GGTGCCACTGACTTGTGAGCTTTGAAAAGATGCCACTGACTTGTAGACTTTGAAAAGATGCCACT
211992 GACGTGTGGATTTTGGAAGGGTGG
261 GACGTGTGGATTTTGGAAGGGTGG
* * *
212016 CACTAACTTGTGGGCTTTTG-AAAGGATGCCACTAACTTGTGGGCTTTTGAAAGGATGCCACTGA
1 CACTAACTTATGGGC-TTTGAAAAGGATGCCACTAACTTATGGGCTTTTGAAAGGATGCCACTAA
*
212080 CTTGTGGGC-TTTGAAAAGGATGCCACTAACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTG
65 CTTGTGGGCTTTTG-AAAGGATGCCACTAACTTGTGGACTATGAAAAAGATGCCACTGACTTGTG
* * ** *
212144 GGTTTTG-AAAGGGTGCCACTGACATATG-GGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
129 GGCTTTGAAAAGGATGCCACTGAC-T-TGTGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* *
212207 AAAGGGTGCCGCTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGT
192 AAAGGGTGCCACTGACTTGTGAGC-TTTGAAAAGATGCCACTGACTTGT
212256 GGGCTTAAAA
Statistics
Matches: 213, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
283 19 0.09
284 167 0.78
285 27 0.13
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (284 bp):
CACTAACTTATGGGCTTTGAAAAGGATGCCACTAACTTATGGGCTTTTGAAAGGATGCCACTAAC
TTGTGGGCTTTTGAAAGGATGCCACTAACTTGTGGACTATGAAAAAGATGCCACTGACTTGTGGG
CTTTGAAAAGGATGCCACTGACTTGTGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
GGTGCCACTGACTTGTGAGCTTTGAAAAGATGCCACTGACTTGTAGACTTTGAAAAGATGCCACT
GACGTGTGGATTTTGGAAGGGTGG
Found at i:212300 original size:27 final size:27
Alignment explanation
Indices: 212236--212695 Score: 503
Period size: 27 Copynumber: 17.0 Consensus size: 27
212226 TGGGCTTTTG
* * *
212236 AAAA-GATGCCACTGACTTGTGGGCTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
212262 AAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
*
212289 AAAAGGATGCCATGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* * * *
212316 AAATGAATGTCACAGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
** *
212343 AAAAGGATGCCACAAAGTTATGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* ** *
212370 AAAAGAATATCACGAAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
*
212397 AAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* * *
212424 AAAAAGATGCCACGAAGTTGTGGAATT
1 AAAAGGATGCCACGGAGTTGTGGACTT
**
212451 AAAAGGATGCCATAGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
** * *
212478 AAAA-GAGTGCCATAGAGTTATGGACTC
1 AAAAGGA-TGCCACGGAGTTGTGGACTT
*
212505 AAAAGGATGCCACAGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* * *
212532 CAAAAAGATGCCATGAAGTTGTGGACTT
1 -AAAAGGATGCCACGGAGTTGTGGACTT
* *
212560 AAAAGGATGCCATGGAGTTGTGGAATT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* * * *
212587 AAAAGGGTGCTATGAAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
212614 AAAA-GATGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
**
212640 AAAAGCTTGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGGAGTTGTGGACTT
* * *
212667 AAAAAGGAATGCCACTGAATCGTGGACTT
1 -AAAAGG-ATGCCACGGAGTTGTGGACTT
212696 TGAAAAGGTT
Statistics
Matches: 369, Mismatches: 58, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.08
27 294 0.80
28 30 0.08
29 17 0.05
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (27 bp):
AAAAGGATGCCACGGAGTTGTGGACTT
Found at i:220783 original size:32 final size:30
Alignment explanation
Indices: 220734--220795 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 30
220724 CTAGCGATAT
*
220734 TGGGTTTAGAAGGGTTGCCACCAACTTGTG
1 TGGGTTTAGAAAGGTTGCCACCAACTTGTG
220764 TGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
1 TGGG-TTTAGA-AAGGTTGCCACCAACTTGTG
220796 AGCTTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.14
31 6 0.21
32 19 0.66
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (30 bp):
TGGGTTTAGAAAGGTTGCCACCAACTTGTG
Found at i:220814 original size:28 final size:30
Alignment explanation
Indices: 220749--220828 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 30
220739 TTAGAAGGGT
* **
220749 TGCCACCAACTTGTGTGGGCTTTAGAGAAGGT
1 TGCCACCAAC-T-TGTGAGCTTTAGAGAAGCA
220781 TGCCACCAACTTGTGAGCTTTA-A-AAGCA
1 TGCCACCAACTTGTGAGCTTTAGAGAAGCA
* * *
220809 TGCCACTAATTTGTGCGCTT
1 TGCCACCAACTTGTGAGCTT
220829 CGAAAGGGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 20 0.48
29 1 0.02
30 10 0.24
31 1 0.02
32 10 0.24
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (30 bp):
TGCCACCAACTTGTGAGCTTTAGAGAAGCA
Found at i:220834 original size:28 final size:28
Alignment explanation
Indices: 220776--220871 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
220766 GGCTTTAGAG
* * * **
220776 AAGGTTGCCACCAACTTGTGAGCTTTAA
1 AAGGATGCCACTAATTTGTGAGCTTCGA
* *
220804 AAGCATGCCACTAATTTGTGCGCTTCGA
1 AAGGATGCCACTAATTTGTGAGCTTCGA
* * *
220832 AAGGGTACCACTAATTTGTGAGCTTTGA
1 AAGGATGCCACTAATTTGTGAGCTTCGA
*
220860 AAGGTTGCCACT
1 AAGGATGCCACT
220872 GACTTATGGG
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (28 bp):
AAGGATGCCACTAATTTGTGAGCTTCGA
Done.