Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003840.1 Hibiscus syriacus cultivar Beakdansim tig00008229_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 172728
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 2
Found at i:7370 original size:16 final size:15
Alignment explanation
Indices: 7332--7370 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7322 AAAAAATGTT
7332 ACAAAAACAAAAACA
1 ACAAAAACAAAAACA
*
7347 AAACAAAACAAAAACA
1 ACA-AAAACAAAAACA
7363 CACAAAAA
1 -ACAAAAA
7371 GAAATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 16 0.80
17 2 0.10
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (15 bp):
ACAAAAACAAAAACA
Found at i:7415 original size:11 final size:10
Alignment explanation
Indices: 7401--7448 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
7391 GTGATATAGA
*
7401 AAAAAAAACAT
1 AAAAAAAA-AG
7412 AAAAAAGAAAG
1 AAAAAA-AAAG
7423 AAAAAAAAA-
1 AAAAAAAAAG
*
7432 AGAAAAAAAG
1 AAAAAAAAAG
7442 AAAAAAA
1 AAAAAAA
7449 CCGATCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 13 0.41
12 2 0.06
ACGTcount: A:0.88, C:0.02, G:0.08, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:7424 original size:23 final size:23
Alignment explanation
Indices: 7400--7448 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
7390 AGTGATATAG
*
7400 AAAAAAAAACATAAAAAAGAAAGA
1 AAAAAAAAAGA-AAAAAAGAAAGA
7424 AAAAAAAAAGAAAAAAAGAAA-A
1 AAAAAAAAAGAAAAAAAGAAAGA
7446 AAA
1 AAA
7449 CCGATCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.17
23 10 0.42
24 10 0.42
ACGTcount: A:0.88, C:0.02, G:0.08, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAGAAAAAAAGAAAGA
Found at i:7426 original size:19 final size:19
Alignment explanation
Indices: 7398--7448 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
7388 GAAGTGATAT
7398 AGAAA-AAAAAACATAAA-AA
1 AGAAAGAAAAAA-A-AAAGAA
7417 AGAAAGAAAAAAAAAAGAA
1 AGAAAGAAAAAAAAAAGAA
*
7436 AAAAAGAAAAAAA
1 AGAAAGAAAAAAA
7449 CCGATCAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 3 0.10
19 20 0.69
20 6 0.21
ACGTcount: A:0.86, C:0.02, G:0.10, T:0.02
Consensus pattern (19 bp):
AGAAAGAAAAAAAAAAGAA
Found at i:7432 original size:15 final size:15
Alignment explanation
Indices: 7412--7447 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
7402 AAAAAAACAT
7412 AAAAAAGAAAGAAAA-
1 AAAAAAGAAA-AAAAG
7427 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
7442 AAAAAA
1 AAAAAA
7448 ACCGATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:9514 original size:53 final size:55
Alignment explanation
Indices: 9356--9584 Score: 261
Period size: 58 Copynumber: 4.1 Consensus size: 55
9346 CCAAACAACA
* *
9356 TGAT-ATTTTCAAAAGAATTTTTAAAGAAACTAAGCCTAATTTTCAGGGGTTTCTT
1 TGATGATTTTCAAATGAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTC-T
* *
9411 AGTGATGATTTTC-AATGAATTCTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
1 --TGATGATTTTCAAATGAATT-TTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCT
* * *
9468 TGATG-TTTTCAAATGAGTTTTT-TAGAAACTAAGCCTGATTTTTAGGGGTTTCT
1 TGATGATTTTCAAATGAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCT
* * *
9521 TAATGATTATCTCCAAA-GAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCT
1 TGATGATT-T-T-CAAATGAATTTTTAAA-GAAACTAAGCCTAATTTTTAGGGGTTTCT
9579 TGATGA
1 TGATGA
9585 CAACTAAATA
Statistics
Matches: 147, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
53 32 0.22
54 9 0.06
55 13 0.09
56 8 0.05
57 17 0.12
58 68 0.46
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (55 bp):
TGATGATTTTCAAATGAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCT
Found at i:9574 original size:111 final size:112
Alignment explanation
Indices: 9356--9583 Score: 323
Period size: 111 Copynumber: 2.0 Consensus size: 112
9346 CCAAACAACA
* * *
9356 TGATATTTTCAAAAGAATTTTTAAAGAAACTAAGCCTAATTTTCAGGGGTTTCTTAGTGATGATT
1 TGATGTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTAATTTTCAGGGGTTTCTTAATGATGATC
* * *
9421 TTCAATGAATTCTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
66 TCCAAAGAATTCTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTCCT
* * * * * *
9468 TGATGTTTTCAAATGAGTTTTT-TAGAAACTAAGCCTGATTTTTAGGGGTTTCTTAATGATTATC
1 TGATGTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTAATTTTCAGGGGTTTCTTAATGATGATC
* *
9532 TCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCT
66 TCCAAAGAATTCTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTCCT
9579 TGATG
1 TGATG
9584 ACAACTAAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
111 83 0.81
112 19 0.19
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (112 bp):
TGATGTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTAATTTTCAGGGGTTTCTTAATGATGATC
TCCAAAGAATTCTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTCCT
Found at i:9716 original size:42 final size:41
Alignment explanation
Indices: 9644--9767 Score: 115
Period size: 41 Copynumber: 3.0 Consensus size: 41
9634 TTTTTTATGA
* * * *
9644 GTAAGTCCTTCGGGTCA-CCGGTAAGTCTTTCGAGCATGATG
1 GTAAATCCTTCGGGTCATCC-ATAAGACTTTCGAGCAAGATG
* *
9685 CTTAAATCCTTCGGGTCATCTATAAGACTTTCGAGCAAGATG
1 -GTAAATCCTTCGGGTCATCCATAAGACTTTCGAGCAAGATG
* * * * * *
9727 GTAAGTTCTTCGGGCCATCCATAAGACCTTCGGGCAGGATG
1 GTAAATCCTTCGGGTCATCCATAAGACTTTCGAGCAAGATG
9768 TTTTTAAATG
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
41 33 0.49
42 33 0.49
43 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (41 bp):
GTAAATCCTTCGGGTCATCCATAAGACTTTCGAGCAAGATG
Found at i:10038 original size:41 final size:41
Alignment explanation
Indices: 9932--10043 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 41
9922 GGGTTTCTTA
*
9932 ATGAGTAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGCATG
1 ATGA-TAAGTCCTTCGGGCCATCTA-TAAGTCTTTCGAGCAAG
* * * *
9974 ATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTTGAGCAAG
1 ATG-ATAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAG
10016 ATGATAAGTCCTTCGGGCCATCTATAAG
1 ATGATAAGTCCTTCGGGCCATCTATAAG
10044 ACCTTCAGGA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 22 0.37
42 37 0.62
43 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (41 bp):
ATGATAAGTCCTTCGGGCCATCTATAAGTCTTTCGAGCAAG
Found at i:10104 original size:293 final size:293
Alignment explanation
Indices: 9469--10686 Score: 1573
Period size: 293 Copynumber: 4.0 Consensus size: 293
9459 GGGGTTTCTT
* *
9469 GATGTTTTCAAATGAGTTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTAATGATTATCTC
1 GATGTTTTCAAATGAG-TTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTC
* *
9534 CAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACT-AAATA-TA
65 CAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAAGGGTTCCTTGATGACAACTGAAA-ACGA
* * * * * * *
9597 AATAATTTTAACAAATTAAGCTTGATTTTCAAGGGTTTTTTTTATGAGTAAGTCCTTCGGGTCAC
129 AA-GATTTTAAGAAACTAAGCTTGATTTTCAAGGG-TTTCTTGATGAGTAAGTCCTTCGGGCCAT
* *
9662 CGGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGACTTTCGAGCAAGATG
192 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATG
* *
9727 GTAAGTTCTTCGGGCCATCCATAAGACCTTCGGGCAG
257 ATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAG
* * *
9764 GATGTTTTTAAATGAGTTTTTAGAAACTAAGCCTGA-TTTCAGGGGTTTCATGATGATTATGTCC
1 GATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCC
* *
9828 AAATATTTTTTAAAGGAAGCTAAGCCTAATTTTTAAGGGTTCCTTGATGACAACTGAAAACGAAA
66 AAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAAGGGTTCCTTGATGACAACTGAAAACGAAA
* *
9893 GATTTTAAGAAAGTAAGCTTGATTTTCAAGGGTTTCTTAATGAGTAAGTCCTTCGGGCCATCAGT
131 GATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGT
*
9958 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTTGAGCAAGATGATAA
196 AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAA
* * *
10023 GTCCTTCGGGCCATCTATAAGACCTTCAGGAAG
261 GTCCTTCGGGCCATCCATAAGACCTTCGGGCAG
* *
10056 GATGTTTTCAAATGAGTTTTTAAAAACTAAGCCTGATTTTCTGGGGTTTCTTGATGATTATCTCC
1 GATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCC
* * *
10121 AAAGAATTTTTAAAGGAAACTAAGCCTAACTTTTAAGGGTTCCTTGATGACAATTGAAAACGAAA
66 AAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAAGGGTTCCTTGATGACAACTGAAAACGAAA
* *
10186 GATTTTAAGAAACTAGGCTTGATTTTTAAGGGTTTCTTGATGAGTAAGTCCTTCAGGCCACTAGT
131 GATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTC--G------G-
10251 AAGTCCATCGGGCCACTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAG
187 --G-CCAT-------C-AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAG
* * * * *
10316 TCTTTCAAGTAATATGATAAGTCCTTCGGGCCATTCATAAGACCTTTGGGCAG
241 TCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAG
* * *
10369 AATGATTTCAAATGAGTTTTTAGAAATTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCC
1 GATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCC
* * * *
10434 AAAGAATTTTTAAAGGAAGCTAATCCTAATTTTTAGGGGTTTCTTGATGACAACTGAAAATGAAA
66 AAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAAGGGTTCCTTGATGACAACTGAAAACGAAA
*
10499 GATTTTAAGAAACTAAGCTTGATTTTTAAAGGTTTGATTTTTAAAGGTTTCTTGATGAGTAAGTC
131 GATTTTAAGAAACTAAGCTTGA-TTTTCAA-----G---------GGTTTCTTGATGAGTAAGTC
* * * *
10564 CTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTTCAGGTCATCTATAAGTCTTT
181 CTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTT
* *
10629 CGAGCAAGATGATAAGTCTTTC-GGCCATCCATAAGACCTTGGGGCAGG
246 CGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCA-G
10677 GAT-TTTTCAA
1 GATGTTTTCAA
10687 CATTTTCTTC
Statistics
Matches: 811, Mismatches: 73, Indels: 66
0.85 0.08 0.07
Matches are distributed among these distances:
292 153 0.19
293 241 0.30
294 26 0.03
295 16 0.02
301 1 0.00
304 1 0.00
305 4 0.00
307 28 0.03
308 71 0.09
309 1 0.00
312 1 0.00
313 231 0.28
314 6 0.01
316 4 0.00
317 1 0.00
319 1 0.00
320 1 0.00
328 24 0.03
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (293 bp):
GATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCC
AAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAAGGGTTCCTTGATGACAACTGAAAACGAAA
GATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGT
AAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAA
GTCCTTCGGGCCATCCATAAGACCTTCGGGCAG
Found at i:10253 original size:20 final size:20
Alignment explanation
Indices: 10228--10275 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
10218 TTTCTTGATG
*
10228 AGTAAGTCCTTCAGGCCACT
1 AGTAAGTCCATCAGGCCACT
*
10248 AGTAAGTCCATCGGGCCACT
1 AGTAAGTCCATCAGGCCACT
10268 AGTAAGTC
1 AGTAAGTC
10276 TTTCGAGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (20 bp):
AGTAAGTCCATCAGGCCACT
Found at i:10503 original size:313 final size:308
Alignment explanation
Indices: 9932--10675 Score: 1050
Period size: 313 Copynumber: 2.4 Consensus size: 308
9922 GGGTTTCTTA
9932 ATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
1 ATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
* * * * *
9997 TATAAGTCTTTTGAGCAAGATGATAAGTCCTTCGGGCCA-TCTATAAGACCTTCAGGAAGGATGT
66 TATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATTC-ATAAGACCTTCGGGCAGAATGA
*
10061 TTTCAAATGAGTTTTTAAAAACTAAGCCTGATTTTCTGGGGTTTCTTGATGATTATCTCCAAAGA
130 TTTCAAATGAGTTTTTAAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCCAAAGA
*
10126 ATTTTTAAAGGAAACTAAGCCTAACTTTTAAGGGTTCCTTGATGACAATTGAAAACGAAAGATTT
195 ATTTTTAAAGGAAACTAAGCCTAACTTTTAAGGGTTCCTTGATGACAACTGAAAACGAAAGATTT
* *
10191 TAAGAAACTAGGCTTGATTTTTAAGGGTTTCTTGATGAGT-AA-GTCCTTCAGG
260 TAAGAAACTAAGCTTGATTTTTAAAGG--T-TTGATGAGTAAAGGT--TTCAGG
*
10243 CCACT-AGTAAGTCCATCGGGCCA-CTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
1 --A-TGAGTAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
* * * *
10306 CATCTATAAGTCTTTCAAGTAATATGATAAGTCCTTCGGGCCATTCATAAGACCTTTGGGCAGAA
62 CATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATTCATAAGACCTTCGGGCAGAA
* *
10371 TGATTTCAAATGAGTTTTTAGAAATTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCCAA
127 TGATTTCAAATGAGTTTTTAAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCCAA
* * * * * *
10436 AGAATTTTTAAAGGAAGCTAATCCTAATTTTTAGGGGTTTCTTGATGACAACTGAAAATGAAAGA
192 AGAATTTTTAAAGGAAACTAAGCCTAACTTTTAAGGGTTCCTTGATGACAACTGAAAACGAAAGA
*** **
10501 TTTTAAGAAACTAAGCTTGATTTTTAAAGGTTTGATTTTTAAAGGTTTCTTG
257 TTTTAAGAAACTAAGCTTGATTTTTAAAGGTTTGATGAGTAAAGGTTTCAGG
* * * *
10553 ATGAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTTCAGGTCATC
1 ATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
* * *
10618 TATAAGTCTTTCGAGCAAGATGATAAGTCTTTC-GGCCATCCATAAGACCTTGGGGCAG
66 TATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATTCATAAGACCTTCGGGCAG
10676 GGATTTTTCA
Statistics
Matches: 386, Mismatches: 38, Indels: 20
0.87 0.09 0.05
Matches are distributed among these distances:
307 24 0.06
308 85 0.22
309 1 0.00
310 10 0.03
311 3 0.01
312 3 0.01
313 257 0.67
314 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (308 bp):
ATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATC
TATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATTCATAAGACCTTCGGGCAGAATGAT
TTCAAATGAGTTTTTAAAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATCTCCAAAGAA
TTTTTAAAGGAAACTAAGCCTAACTTTTAAGGGTTCCTTGATGACAACTGAAAACGAAAGATTTT
AAGAAACTAAGCTTGATTTTTAAAGGTTTGATGAGTAAAGGTTTCAGG
Found at i:10537 original size:15 final size:15
Alignment explanation
Indices: 10517--10548 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10507 GAAACTAAGC
10517 TTGATTTTTAAAGGT
1 TTGATTTTTAAAGGT
10532 TTGATTTTTAAAGGT
1 TTGATTTTTAAAGGT
10547 TT
1 TT
10549 CTTGATGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (15 bp):
TTGATTTTTAAAGGT
Found at i:10777 original size:59 final size:59
Alignment explanation
Indices: 10698--10810 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
10688 ATTTTCTTCA
* **
10698 CTCGATTCACGTCATTTCGAATCAGTGATGCCCCACCAGAGGGGTTAACATTTCATTTG
1 CTCGATTCACGACATTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTCATTTG
* *
10757 CTCGATTCATGACATTTCGAATCAGCAATGCCCTACCAGAGGGGTTAACATTTC
1 CTCGATTCACGACATTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTC
10811 CTATGGCTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (59 bp):
CTCGATTCACGACATTTCGAATCAGCAATGCCCCACCAGAGGGGTTAACATTTCATTTG
Found at i:14244 original size:20 final size:18
Alignment explanation
Indices: 14221--14266 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
14211 TTTTTATTTA
*
14221 TTTTTTTACTATTTTTACT
1 TTTTTTTACTA-TTGTACT
*
14240 GTTTTTTTATTATTGTACT
1 -TTTTTTTACTATTGTACT
14259 TTTTTTTA
1 TTTTTTTA
14267 TTTTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 6 0.25
20 10 0.42
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTTTTTACTATTGTACT
Found at i:14258 original size:19 final size:19
Alignment explanation
Indices: 14221--14268 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
14211 TTTTTATTTA
* *
14221 TTTTTTTACTATTTTTACT
1 TTTTTTTATTATTTGTACT
14240 GTTTTTTTATTA-TTGTACT
1 -TTTTTTTATTATTTGTACT
14259 TTTTTTTATT
1 TTTTTTTATT
14269 TTAATTAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
19 6 0.23
20 10 0.38
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTTTTATTATTTGTACT
Found at i:20983 original size:23 final size:22
Alignment explanation
Indices: 20921--20984 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
20911 GTTGGTGCCC
*
20921 GGGTCGGGTTTTGGGTCTGGTT
1 GGGTCGGGTTTTGGGTTTGGTT
* * *
20943 GGGTTTGGTTTTTTGGTTTGGGCTT
1 GGG-TCGGGTTTTGGGTTT-GG-TT
20968 -GGTCGGGTTTTGGGTTT
1 GGGTCGGGTTTTGGGTTT
20985 TTTGAGTATG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
22 3 0.09
23 23 0.72
24 4 0.12
25 2 0.06
ACGTcount: A:0.00, C:0.06, G:0.45, T:0.48
Consensus pattern (22 bp):
GGGTCGGGTTTTGGGTTTGGTT
Found at i:22387 original size:8 final size:8
Alignment explanation
Indices: 22374--22443 Score: 88
Period size: 8 Copynumber: 8.9 Consensus size: 8
22364 TCTCATCTCC
22374 TTTTCTTT
1 TTTTCTTT
22382 TTTTCTTT
1 TTTTCTTT
* *
22390 CTTTATTT
1 TTTTCTTT
* *
22398 CTTTCTTC
1 TTTTCTTT
22406 TTTTCTTT
1 TTTTCTTT
22414 TTTTC-TT
1 TTTTCTTT
22421 TTTTCTTT
1 TTTTCTTT
22429 TTTTCTTT
1 TTTTCTTT
*
22437 CTTTCTT
1 TTTTCTT
22444 AGGCGTAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
7 7 0.13
8 47 0.87
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTCTTT
Found at i:22392 original size:4 final size:4
Alignment explanation
Indices: 22375--22443 Score: 79
Period size: 4 Copynumber: 17.5 Consensus size: 4
22365 CTCATCTCCT
* * *
22375 TTTC TTTT TTTC TTTC TTTA TTTC TTTC -TTC TTTTC TTTT TTTC TTT-
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC
*
22422 TTTC TTTT TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TT
22444 AGGCGTAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
3 6 0.11
4 45 0.83
5 3 0.06
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (4 bp):
TTTC
Found at i:22392 original size:12 final size:12
Alignment explanation
Indices: 22375--22440 Score: 91
Period size: 12 Copynumber: 5.6 Consensus size: 12
22365 CTCATCTCCT
22375 TTTCTTTTTTTC
1 TTTCTTTTTTTC
*
22387 TTTCTTTATTTC
1 TTTCTTTTTTTC
*
22399 TTTCTTCTTTTC
1 TTTCTTTTTTTC
22411 TTT-TTTTCTTT-
1 TTTCTTTT-TTTC
22422 TTTCTTTTTTTC
1 TTTCTTTTTTTC
22434 TTTCTTT
1 TTTCTTT
22441 CTTAGGCGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
11 9 0.19
12 38 0.81
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:33200 original size:17 final size:17
Alignment explanation
Indices: 33174--33218 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
33164 ATTCGAAACT
*
33174 AAAAGTAAAAACACAAA
1 AAAAGAAAAAACACAAA
*
33191 AAAAGAAAAAACACAGA
1 AAAAGAAAAAACACAAA
*
33208 AGAA-AAAAAAC
1 AAAAGAAAAAAC
33219 TATTTGAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.78, C:0.11, G:0.09, T:0.02
Consensus pattern (17 bp):
AAAAGAAAAAACACAAA
Found at i:42142 original size:4 final size:4
Alignment explanation
Indices: 42098--42162 Score: 66
Period size: 4 Copynumber: 17.0 Consensus size: 4
42088 TTAATGATGA
* *
42098 TATT TACT T-TT TATT T-TT TAATT TATT T-TT TA-T TATA TATT TATT
1 TATT TATT TATT TATT TATT T-ATT TATT TATT TATT TATT TATT TATT
*
42143 TATT TACT TATT TATT TATT
1 TATT TATT TATT TATT TATT
42163 GACTATAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
3 11 0.22
4 36 0.72
5 3 0.06
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:44045 original size:8 final size:8
Alignment explanation
Indices: 44032--44069 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
44022 AATATCCAAA
44032 ACATACGT
1 ACATACGT
44040 ACATACGT
1 ACATACGT
44048 ACATACGT
1 ACATACGT
44056 ACATACGT
1 ACATACGT
44064 ACATAC
1 ACATAC
44070 TCCAATATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (8 bp):
ACATACGT
Found at i:45418 original size:2 final size:2
Alignment explanation
Indices: 45411--45438 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45401 TAATACTTTG
45411 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45439 TTTTTCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45512 original size:13 final size:14
Alignment explanation
Indices: 45494--45527 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
45484 ATTTTTTTTC
45494 TTATTTTACTTA-T
1 TTATTTTACTTATT
*
45507 TTATTTTATTTATT
1 TTATTTTACTTATT
45521 TTATTTT
1 TTATTTT
45528 CCCTTGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTTACTTATT
Found at i:49791 original size:183 final size:183
Alignment explanation
Indices: 49483--50019 Score: 925
Period size: 183 Copynumber: 2.9 Consensus size: 183
49473 ATTAAATCTG
49483 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** *
49548 ATAGATTATGTTCAAACTCGGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTACTCCACTGCTT
49613 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
49666 TAAAGCTGAGGTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
49731 ATAGATTATGTTCAAACTATGACACTGCTCAGACACTTGGCAATTCGGTGTTTTCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTACTCCACTGCTT
49796 TTGTCAGGCCAAAGACTTTGTGATGAGACT-AACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGA-TGAACCCTTCAGTGATTTGTCCCTC
*
49849 TAAAGCTGAGCTATTCCACTAAGGCAATTGATTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * * *
49914 ATAGATTACATTCAAA-TCATGACATTGCTTGGACACTTGGCAATTCGGTATTTACTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTACTCCACTGCT
*
49978 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
50020 TAAACCTGAT
Statistics
Matches: 336, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
182 2 0.01
183 333 0.99
184 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTACTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:51350 original size:104 final size:104
Alignment explanation
Indices: 51240--51558 Score: 509
Period size: 106 Copynumber: 3.1 Consensus size: 104
51230 CAGTTTCTCA
*
51240 TGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAATT
1 TGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAATT
*
51305 TTGTCTCCCTTAAGACAGTTTCTCTTGAAACATAAACAT
66 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACAT
*
51344 TGAAAACATTTCCCTTGAAATGATTTTTTTCTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
1 TGAAAACATTTCCCTTGAAATGAATTTTTTCTCTC-C-TGAGATAGTTTCCCTCGAAACAGAAAA
51409 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACAT
64 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACAT
* * * *
51450 TGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AATT
1 TGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAATT
** *
51512 TTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACTT
66 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACAT
51551 TGAAAACA
1 TGAAAACA
51559 ATTTAACGAA
Statistics
Matches: 202, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
101 48 0.24
103 1 0.00
104 53 0.26
105 1 0.00
106 99 0.49
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (104 bp):
TGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAATT
TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACAT
Found at i:51505 original size:36 final size:36
Alignment explanation
Indices: 51458--51533 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
51448 ATTGAAAACA
* * *
51458 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
51494 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
51530 TTTC
1 TTTC
51534 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:51936 original size:105 final size:105
Alignment explanation
Indices: 51733--52363 Score: 948
Period size: 105 Copynumber: 6.0 Consensus size: 105
51723 ATATCGTGAC
* * ** * *
51733 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAAAGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
*
51798 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
51839 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
51904 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
51944 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
52009 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
52049 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
52114 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
52154 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGATCGCTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
52215 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
52254 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
** * * *
52319 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
52360 ACTC
1 ACTC
52364 GGAACAATGC
Statistics
Matches: 486, Mismatches: 33, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
100 81 0.17
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 308 0.63
106 84 0.17
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:52958 original size:37 final size:37
Alignment explanation
Indices: 52906--53009 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
52896 ATTTTCATCC
*
52906 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
* * *
52943 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
* * * *
52980 TACTAAGATTTAAATTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
53010 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
Found at i:53405 original size:18 final size:17
Alignment explanation
Indices: 53366--53408 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
53356 ATTATATGGA
53366 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
53382 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
53400 TATTATTAT
1 TATTATTAT
53409 ATATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:53454 original size:12 final size:12
Alignment explanation
Indices: 53365--53477 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 12
53355 TATTATATGG
53365 ATATTTTATTCAT
1 ATATTTTATT-AT
*
53378 TTATTTTTATTAT
1 ATA-TTTTATTAT
*
53391 -TCATGTTATTAT
1 AT-ATTTTATTAT
*
53403 -TATTATA-TAT
1 ATATTTTATTAT
* *
53413 ATA-TATATTAA
1 ATATTTTATTAT
53424 ATTATTTTCATT-T
1 A-TATTTT-ATTAT
53437 AT-TTTT-TTACT
1 ATATTTTATTA-T
53448 ATATTTTATTAT
1 ATATTTTATTAT
*
53460 ATATATATATATAT
1 ATAT-TTTAT-TAT
53474 ATAT
1 ATAT
53478 ATATTTCTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
9 2 0.03
10 7 0.09
11 16 0.20
12 22 0.28
13 15 0.19
14 17 0.22
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (12 bp):
ATATTTTATTAT
Found at i:53462 original size:2 final size:2
Alignment explanation
Indices: 53457--53481 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53447 TATATTTTAT
53457 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
53482 TTCTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53496 original size:51 final size:52
Alignment explanation
Indices: 53397--53526 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 52
53387 TTATTCATGT
* *
53397 TATTATTATTATATATATATATATTAAATTATTTTCATTTATTTTTTTACTA
1 TATTATTATTATATATATATATATTAAATTATTTTCATTTAATATTTTACTA
*
53449 TATT-TTATTATATATATATATA-TATATATATATTTC-TTTAATATTTTACTTA
1 TATTATTATTATATATATATATATTAAAT-TAT-TTTCATTTAATATTTTAC-TA
*
53501 TAAGTCTAATATTACTATATATATAT
1 T-A-T-TATTATTA-TATATATATAT
53527 TGTAATTATC
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
50 4 0.06
51 32 0.48
52 11 0.17
53 1 0.02
54 1 0.02
55 1 0.02
56 5 0.08
57 11 0.17
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.58
Consensus pattern (52 bp):
TATTATTATTATATATATATATATTAAATTATTTTCATTTAATATTTTACTA
Found at i:53721 original size:23 final size:21
Alignment explanation
Indices: 53668--53722 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
53658 ACTTTATAAC
53668 TTTATATTATTTT-TTATTAT
1 TTTATATTATTTTATTATTAT
*
53688 TTT-CATT-TTTTATTCATTAT
1 TTTATATTATTTTATT-ATTAT
53708 TATTATATTATTTTA
1 T-TTATATTATTTTA
53723 AAAAAAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 4 0.14
19 5 0.18
20 9 0.32
21 2 0.07
22 3 0.11
23 5 0.18
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTATATTATTTTATTATTAT
Found at i:60195 original size:10 final size:10
Alignment explanation
Indices: 60180--60212 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
60170 TTCATTTACC
60180 ATTTATTTTT
1 ATTTATTTTT
60190 ATTTA-TTTT
1 ATTTATTTTT
*
60199 ATTTATTTCT
1 ATTTATTTTT
60209 ATTT
1 ATTT
60213 TACTAACGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:66155 original size:180 final size:180
Alignment explanation
Indices: 65853--66215 Score: 710
Period size: 180 Copynumber: 2.0 Consensus size: 180
65843 TTTACAAGAA
65853 TCTTTCAGAGTAATATTCGAACTTCCCTATTTGCCTATACCCGGGGCAATAGGTGATCTTTTGTA
1 TCTTTCAGAGTAATATTCGAACTTCCCTATTTGCCTATACCCGGGGCAATAGGTGATCTTTTGTA
65918 AGGGTGAATAAATGTTTTGTTTAAGTTTAATAAAGGATGCATTTTTCTTTTCCATGGCAAACAAA
66 AGGGTGAATAAATGTTTTGTTTAAGTTTAATAAAGGATGCATTTTTCTTTTCCATGGCAAACAAA
65983 GTTTTCTTTTATTCATTATCTATCTCCTTCAGTATTTCATTTCCAGTTAC
131 GTTTTCTTTTATTCATTATCTATCTCCTTCAGTATTTCATTTCCAGTTAC
66033 TCTTTCAGAGT-ATATTCGAACTATCCCTATTTGCCTATACCCGGGGCAATAGGTGATCTTTTGT
1 TCTTTCAGAGTAATATTCGAACT-TCCCTATTTGCCTATACCCGGGGCAATAGGTGATCTTTTGT
66097 AAGGGTGAATAAATGTTTTGTTTAAGTTTAATAAAGGATGCATTTTTCTTTTCCATGGCAAACAA
65 AAGGGTGAATAAATGTTTTGTTTAAGTTTAATAAAGGATGCATTTTTCTTTTCCATGGCAAACAA
66162 AGTTTTCTTTTATTCATTATCTATCTCCTTCAGTATTTCATTTCCAGTTAC
130 AGTTTTCTTTTATTCATTATCTATCTCCTTCAGTATTTCATTTCCAGTTAC
66213 TCT
1 TCT
66216 CAAAGTTAGT
Statistics
Matches: 182, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
179 11 0.06
180 171 0.94
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (180 bp):
TCTTTCAGAGTAATATTCGAACTTCCCTATTTGCCTATACCCGGGGCAATAGGTGATCTTTTGTA
AGGGTGAATAAATGTTTTGTTTAAGTTTAATAAAGGATGCATTTTTCTTTTCCATGGCAAACAAA
GTTTTCTTTTATTCATTATCTATCTCCTTCAGTATTTCATTTCCAGTTAC
Found at i:69623 original size:60 final size:60
Alignment explanation
Indices: 69549--69665 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 60
69539 AATACTTCGC
* ** *
69549 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAA-AAAGAAAAAAAAAAGAGCGT
1 TTAGGATGAAAACCCGAAAGGGCACCCTAAATTGAAAAAAGAAA-AAAAAAAAAAGAGCGT
* *
69609 TTAGGGTGAAAACCCGAAAGGGCACCCTAAATTGAAAAAAGAAAAAAAAAAGAAGAG
1 TTAGGATGAAAACCCGAAAGGGCACCCTAAATTGAAAAAAGAAAAAAAAAAAAAGAG
69666 GAAATAAGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
60 47 0.94
61 3 0.06
ACGTcount: A:0.52, C:0.12, G:0.24, T:0.12
Consensus pattern (60 bp):
TTAGGATGAAAACCCGAAAGGGCACCCTAAATTGAAAAAAGAAAAAAAAAAAAAGAGCGT
Found at i:70965 original size:105 final size:105
Alignment explanation
Indices: 70393--70957 Score: 1040
Period size: 105 Copynumber: 5.4 Consensus size: 105
70383 AGGTTTTACC
70393 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
70458 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTTAATTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
*
70498 CAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
70563 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
70603 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
70668 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
70708 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
70773 ACGAAGGGACCGCTGGTTGTCACCGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
* ** *
70813 CAGAGCCAATTGCTGCTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
70878 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
70918 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
70958 GAAACAACAC
Statistics
Matches: 445, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 445 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
Found at i:72493 original size:2 final size:2
Alignment explanation
Indices: 72486--72567 Score: 148
Period size: 2 Copynumber: 41.5 Consensus size: 2
72476 TTTTATTTTC
72486 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
72528 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
72568 GTCATTGCAT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76262 original size:83 final size:82
Alignment explanation
Indices: 76115--76294 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
76105 TTTTTTAAGG
76115 AAAAATTGATTGTTTAGAAATTTAGAAGAGGGAATTGCCAAATTTTGACAAATTTGATTATTTTG
1 AAAAATTGATTGTTTAGAAATTTAGAAGAGGGAATTGCCAAATTTTGACAAATTTGATTATTTTG
76180 ACAAAATTTAGAAGAAGA
66 ACAAAATTTAGAAG-AGA
* * *
76198 AAAAATTGATTGTTTAGAAATTTAGAAGAGGGAATTGCCAAATTTTGCCAAATTTTATTTTTTTG
1 AAAAATTGATTGTTTAGAAATTTAGAAGAGGGAATTGCCAAATTTTGACAAATTTGATTATTTTG
* *
76263 CCAAAATTTAGAAGAGG
66 ACAAAATTTAGAAGAGA
76280 AAAAATTGATTGTTT
1 AAAAATTGATTGTTT
76295 TTTTTTAGAA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 17 0.18
83 75 0.82
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.36
Consensus pattern (82 bp):
AAAAATTGATTGTTTAGAAATTTAGAAGAGGGAATTGCCAAATTTTGACAAATTTGATTATTTTG
ACAAAATTTAGAAGAGA
Found at i:76321 original size:43 final size:42
Alignment explanation
Indices: 76272--76369 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 42
76262 GCCAAAATTT
* * *
76272 AGAAGAGGAAAAATTGATTGTTTTTTTTTAG-AATTTAGAAGAG
1 AGAAGAGGAAAAATT-AAT-TTATTTTTTAGCAATTTAGAAAAG
*
76315 AGAAGAGGGAAAAATTAATTTATTTTTTGGCAATTTAGAAAAG
1 AGAAGA-GGAAAAATTAATTTATTTTTTAGCAATTTAGAAAAG
* *
76358 GGAAGAAGAAAA
1 AGAAGAGGAAAA
76370 TTTTATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
42 14 0.30
43 24 0.51
44 9 0.19
ACGTcount: A:0.45, C:0.01, G:0.23, T:0.31
Consensus pattern (42 bp):
AGAAGAGGAAAAATTAATTTATTTTTTAGCAATTTAGAAAAG
Found at i:76739 original size:12 final size:12
Alignment explanation
Indices: 76699--76918 Score: 79
Period size: 12 Copynumber: 18.2 Consensus size: 12
76689 TGTATATACT
76699 TATATACTTATA
1 TATATACTTATA
* * *
76711 TACAT-CATACA
1 TATATACTTATA
*
76722 TATATACTTATG
1 TATATACTTATA
76734 TATATAC-T-TA
1 TATATACTTATA
*
76744 TATATACATATA
1 TATATACTTATA
*
76756 CTTATATA-TCATA
1 --TATATACTTATA
*
76769 CTTTATACTTATA
1 -TATATACTTATA
76782 TATAT--TTATA
1 TATATACTTATA
* *
76792 TACATACCTATA
1 TATATACTTATA
*
76804 TATAGCTACTTTTA
1 TATA--TACTTATA
* *
76818 TATATA-TGTGTG
1 TATATACT-TATA
* **
76830 TATGTGTGTGTAATTA
1 TATAT-ACT-T-A-TA
76846 TATATA-TATATA
1 TATATACT-TATA
76858 TATATA-TATATA
1 TATATACT-TATA
76870 TATATA-TATATA
1 TATATACT-TATA
76882 TATATA-TATATA
1 TATATACT-TATA
76894 TATATA-TATATA
1 TATATACT-TATA
76906 TATATA-TTATA
1 TATATACTTATA
76917 TA
1 TA
76919 CTTATAAGTA
Statistics
Matches: 165, Mismatches: 28, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
10 17 0.10
11 17 0.10
12 97 0.59
13 8 0.05
14 21 0.13
16 5 0.03
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.48
Consensus pattern (12 bp):
TATATACTTATA
Found at i:76778 original size:7 final size:8
Alignment explanation
Indices: 76691--76783 Score: 56
Period size: 8 Copynumber: 11.8 Consensus size: 8
76681 CACACTTATG
76691 TATATACT
1 TATATACT
76699 TATATACT
1 TATATACT
76707 TATATAC-
1 TATATACT
*
76714 -ATCATACA
1 TAT-ATACT
76722 TATATACTTAT
1 TATATAC---T
76733 GTATATACT
1 -TATATACT
76742 TATATA-T
1 TATATACT
*
76749 ACATATACT
1 -TATATACT
76758 TATATA--
1 TATATACT
*
76764 T-CATACT
1 TATATACT
76771 T-TATACT
1 TATATACT
76778 TATATA
1 TATATA
76784 TATTTATATA
Statistics
Matches: 68, Mismatches: 5, Indels: 24
0.70 0.05 0.25
Matches are distributed among these distances:
5 3 0.04
6 3 0.04
7 12 0.18
8 39 0.57
9 4 0.06
12 7 0.10
ACGTcount: A:0.40, C:0.13, G:0.01, T:0.46
Consensus pattern (8 bp):
TATATACT
Found at i:76791 original size:16 final size:16
Alignment explanation
Indices: 76691--76791 Score: 60
Period size: 18 Copynumber: 5.8 Consensus size: 16
76681 CACACTTATG
76691 TATATACTTATATACTTA
1 TATATA-TT-TATACTTA
* * *
76709 TATACA-TCATACATA
1 TATATATTTATACTTA
76724 TATACTTATGTATATACTTA
1 TATA--TAT-T-TATACTTA
**
76744 TATATACATATACTTATA
1 TATATATTTATAC-T-TA
76762 TATCATACTTTATACTTA
1 TAT-ATA-TTTATACTTA
76780 TATATATTTATA
1 TATATATTTATA
76792 TACATACCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
15 10 0.16
16 12 0.19
17 5 0.08
18 17 0.27
19 5 0.08
20 15 0.23
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.48
Consensus pattern (16 bp):
TATATATTTATACTTA
Found at i:76849 original size:2 final size:2
Alignment explanation
Indices: 76844--77082 Score: 175
Period size: 2 Copynumber: 122.5 Consensus size: 2
76834 TGTGTGTAAT
76844 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
76886 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA CT- TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* *
76926 GTA TA -A TG TA TA GT- TA TA TA TA T- TA TA TT TA TA TA -A GTA
1 -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
76965 TA TA CT- TA TA -A TG TA TG CA TA -A CA T- TT TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
77004 TA TA CA TA TA TA CA TG CA T- TA TCA TA T- TA TCA TA -A CA T- TCA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA T-A
*
77045 TCG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
77083 TAAAATTGAT
Statistics
Matches: 191, Mismatches: 23, Indels: 46
0.73 0.09 0.18
Matches are distributed among these distances:
1 15 0.08
2 164 0.86
3 12 0.06
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:88304 original size:37 final size:37
Alignment explanation
Indices: 88254--88360 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
88244 TTAACTCAAC
*
88254 AGAGTTCTACTAGGATTCAAACTCCTAAAAATAAGAT
1 AGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGAT
*
88291 AGAGTTTTACTAGGATTCAAACTCCTAAAAATATGAT
1 AGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGAT
*
88328 AGAGTTTTACTATGATTCAAACTCCTAAAAATA
1 AGAGTTTTACTAGGATTCAAACTCCTAAAAATA
88361 GGATCCACAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (37 bp):
AGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGAT
Found at i:88967 original size:40 final size:37
Alignment explanation
Indices: 88919--89105 Score: 135
Period size: 39 Copynumber: 5.1 Consensus size: 37
88909 TTTAGATTAC
*
88919 ATATATATATGTTATTTTTTATTATCTGTTTTATTAATTT
1 ATATATATAT-TTATTTTTTATTAT-T-TTTTATTTATTT
88959 ATATATATATTTACTATTTTT-TTATGTTTTTATTTATTAT
1 ATATATATATTTA-T-TTTTTATTAT-TTTTTATTTATT-T
* *
88999 ATATATATATTAATTTATTATTATTATTTTATTTATTT
1 ATATATATATTTATTTTTTATTATT-TTTTATTTATTT
* * *
89037 GT-T-T-TATTTATATATTT-TT-TTTCTT-TTTATTT
1 ATATATATATTTAT-TTTTTATTATTTTTTATTTATTT
*
89069 ATATAT-T-TTT-TTTATATATT-TTTGTTTATTTATTT
1 ATATATATATTTATTT-TTTATTATTT-TTTATTTATTT
89104 AT
1 AT
89106 TTATTTTACT
Statistics
Matches: 122, Mismatches: 13, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
31 1 0.01
32 11 0.09
33 12 0.10
34 6 0.05
35 17 0.14
36 4 0.03
37 1 0.01
38 7 0.06
39 29 0.24
40 29 0.24
41 5 0.04
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.70
Consensus pattern (37 bp):
ATATATATATTTATTTTTTATTATTTTTTATTTATTT
Found at i:88987 original size:38 final size:40
Alignment explanation
Indices: 88905--89021 Score: 118
Period size: 40 Copynumber: 2.9 Consensus size: 40
88895 TATATTTTTA
*
88905 TTTTT-TTAGATTACATATATATATGTTATTTTTTATTATCTG
1 TTTTTATTA-ATTATATATATATAT-TTATTTTTTATTA-CTG
88947 -TTTTATTAATT-TATATATATATTTACTATTTTT-TTA-TG
1 TTTTTATTAATTATATATATATATTTA-T-TTTTTATTACTG
* * *
88985 TTTTTATTTATTATATATATATATTAATTTATTATTA
1 TTTTTATTAATTATATATATATATTTATTTTTTATTA
89022 TTATTTTATT
Statistics
Matches: 65, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
38 6 0.09
39 17 0.26
40 27 0.42
41 12 0.18
42 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (40 bp):
TTTTTATTAATTATATATATATATTTATTTTTTATTACTG
Found at i:88996 original size:4 final size:4
Alignment explanation
Indices: 88948--89111 Score: 78
Period size: 4 Copynumber: 41.8 Consensus size: 4
88938 TATTATCTGT
* * * * *
88948 TTTA TTAA TTTA TATA TATA TTTA -CTA TTTT TTTA TGTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
* * * *
88995 TTATA TATA TATA TTAA TTTA -TTA -TTA -TTA TTTTA TTTA TTTGT TTTA
1 TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTT-A TTTA
* * *
89043 TTTA TATA TTT- TTT- TTCTT TTTA TTTA TATA TTT- TTT- TTATA TATT-
1 TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TT-TA T-TTA
*
89089 TTTG TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
89112 TACTTGCTAT
Statistics
Matches: 127, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
3 25 0.20
4 86 0.68
5 15 0.12
6 1 0.01
ACGTcount: A:0.26, C:0.01, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:89042 original size:27 final size:28
Alignment explanation
Indices: 89011--89113 Score: 81
Period size: 27 Copynumber: 3.7 Consensus size: 28
89001 ATATATATTA
*
89011 ATTTATTATTATTATTTTATTTATTTGT
1 ATTTATTATTATTATTTTATTTATTTTT
* *
89039 -TTTA-T-TTATATATTTTTTTTCTTTTT
1 ATTTATTATTAT-TATTTTATTTATTTTT
*
89065 ATTTATATATT-TT-TTTTATATATTTTT
1 ATTTAT-TATTATTATTTTATTTATTTTT
*
89092 GTTTATTTATTTATTTATTTTA
1 ATTTA-TTA-TTA-TTATTTTA
89114 CTTGCTATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
25 4 0.07
26 14 0.24
27 25 0.43
28 4 0.07
29 2 0.03
30 4 0.07
31 5 0.09
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.75
Consensus pattern (28 bp):
ATTTATTATTATTATTTTATTTATTTTT
Found at i:89081 original size:23 final size:23
Alignment explanation
Indices: 89038--89081 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
89028 TATTTATTTG
89038 TTTTATTTATATATTTTTTTTCT
1 TTTTATTTATATATTTTTTTTCT
89061 TTTTATTTATATATTTTTTTT
1 TTTTATTTATATATTTTTTTT
89082 ATATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTATTTATATATTTTTTTTCT
Found at i:89091 original size:14 final size:14
Alignment explanation
Indices: 88966--89103 Score: 69
Period size: 14 Copynumber: 9.9 Consensus size: 14
88956 TTTATATATA
*
88966 TATTTACTATTTTTT
1 TATTTA-TATATTTT
*
88981 TATGTT-TTTATTTAT
1 TAT-TTATATATTT-T
* *
88996 TATATATATATATT
1 TATTTATATATTTT
*
89010 AATTTATTATTATTATTT
1 TATTTA-TA-TA-T-TTT
89028 TATTTAT-T-TGTTT
1 TATTTATATAT-TTT
89041 TATTTATATA--TT
1 TATTTATATATTTT
*
89053 T-TTT-T-TCTTTT
1 TATTTATATATTTT
89064 TATTTATATATTTT
1 TATTTATATATTTT
89078 T-TTTATATATTTT
1 TATTTATATATTTT
* *
89091 TGTTTATTTATTT
1 TATTTATATATTT
89104 ATTTATTTTA
Statistics
Matches: 95, Mismatches: 13, Indels: 31
0.68 0.09 0.22
Matches are distributed among these distances:
9 1 0.01
10 1 0.01
11 6 0.06
12 6 0.06
13 25 0.26
14 28 0.29
15 15 0.16
16 4 0.04
17 2 0.02
18 7 0.07
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.72
Consensus pattern (14 bp):
TATTTATATATTTT
Found at i:93314 original size:95 final size:95
Alignment explanation
Indices: 93138--93320 Score: 260
Period size: 95 Copynumber: 1.9 Consensus size: 95
93128 TATTATAATA
** * ** *
93138 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTGATTAAACGCCCCAGCTTTATGGATAAG
* *
93203 ATTTGGCTAGCATGATAAAGGTGATTATAC
66 ATTTAGCTAACATGATAAAGGTGATTATAC
*
93233 TATACAATAAAGCTTGAACTGTCTCTCTA-AGGCAATTGATTAAACGCCCCAGCTTTATGGATAA
1 TATACAATAAAGCTTGAACTGTCCCTCTAGA-GCAATTGATTAAACGCCCCAGCTTTATGGATAA
*
93297 GATTTAGCTAACCTGATAAAGGTG
65 GATTTAGCTAACATGATAAAGGTG
93321 TTTACATATT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 76 0.99
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (95 bp):
TATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTGATTAAACGCCCCAGCTTTATGGATAAG
ATTTAGCTAACATGATAAAGGTGATTATAC
Found at i:94907 original size:165 final size:164
Alignment explanation
Indices: 94542--96236 Score: 1428
Period size: 165 Copynumber: 10.2 Consensus size: 164
94532 TATCTGCCAT
* * * * * *
94542 CCAAAGACCTTCGAGTTCGAATACGCTCAGCTCCAAGACACATCATTTACAACATAACTCAAGGC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* * * * *
94607 TAGAAGGGTTATCTGTAACCAAAAGACCTTCGAGTTCGACTACTCTCAG-CTCTAAGGCATATCA
66 GAGAAGGGTTATC--T-ACC-AAAGACCTTCGAGTTCGATTACGCTCAGACTCCAAGGCACATCA
* * * *
94671 TTTGTAGCATAACTTAAGTCGATAAAGGTTATTTGCCAA
127 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTG-TAA
* * * * * *
94710 CCAAAGACCTTCAAGTTCTATTACGCTCAGCTCCAAGGCATATTATTTGCAGCATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
** * * * * * * *
94775 GAGAAGGGCAATCTACCAAAGACCCTCGAGTTTGATTACACTCAGATTCGAGGGCACATCATTTA
66 GAGAAGGGTTATCTACCAAAGACCTTCGAGTTCGATTACGCTCAGACTCCAAGGCACATCATTTG
* * * *
94840 CAACATAACTCAAGGCTAGAAGGGTTATTTGTAA
131 CAGCATAACTTAAGTCGAGAAGGGTTATTTGTAA
* * * *
94874 CCAAAAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
*
94939 CGAGAAGGGTTATCTACCAACTAAAGACCTTTGAGTTCGATTACGCTCA-ACTCCAAGGCACATC
65 CGAGAAGGGTTATCTA-C--C-AAAGACCTTCGAGTTCGATTACGCTCAGACTCCAAGGCACATC
* * * * *
95003 ATTTGTAGTATAGCTTAAGTCGAGAAGGGCTA--TCT-A
126 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGTAA
* * * ** * * ** * *
95039 CCAAAGACCCTCGAGTTTGATTATACTCAGCTTCGAGGGCACATCATTTATAGCATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* * * * * *
95104 CTAGAAGGGTTATCTATAACCAAAAGACCTTCAAGTTTGACTACGCTCAG-CTCCAAGGCATATA
65 CGAGAAGGGTTATC--T-ACC-AAAGACCTTCGAGTTCGATTACGCTCAGACTCCAAGGCACATC
* * *
95168 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAA
126 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTG-TAA
* * *
95208 CCAAAGTCCTTCGAGTTCGACTACGCTCAGCACCAAGGCACATCATTTGTAGCATAACTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* * * * ** * * *
95273 GAAAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACATTCA-ACTTCGAGGGAACATCATTT
66 GAGAAGGGTTATCTACCAAAGACCTTCGAGTTCGATTACGCTCAGAC-TCCAAGGCACATCATTT
* * * * * *
95337 ACAACATAACTCAAGGCTAGAAGGGTTATATGTAA
130 GCAGCATAACTTAAGTCGAGAAGGGTTATTTGTAA
* * *
95372 CCAAAAGACCTTCGAGTTTGACTACGCTCAACTCCAAGGCATATCATTTGCAGCATAACTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
95437 CGAGAAGGGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACGCTCAG-CTCCAAGGCACATC
65 CGAGAAGGGTTATCT----ACCAAAGACCTTCGAGTTCGATTACGCTCAGACTCCAAGGCACATC
* * *
95501 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA--TCT-A
126 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGTAA
* * * * * ** * * * *
95537 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTATATCATAGCTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* * * * **
95602 CTATAAGGGTTATCTGTAACCTAAAGACCTTCAAGTTCGACTACGCTCA-ACTCCAAGGCATTTC
65 CGAGAAGGGTTATC--T-ACC-AAAGACCTTCGAGTTCGATTACGCTCAGACTCCAAGGCACATC
* * *
95666 ATTTGCAGCATAACTTAAGTCGAGAACGGTTATCTGCCAA
126 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTG-TAA
* * *
95706 CCATATACCTTCGAGTTCGAATACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* * * * * * * * *
95771 GAAAAGGGCTATCTGCCAAAGACCCTCGAGTTTGATTACACTCAG-CTTCGAGGGAACATCATTT
66 GAGAAGGGTTATCTACCAAAGACCTTCGAGTTCGATTACGCTCAGAC-TCCAAGGCACATCATTT
* * * *
95835 ACAGCATAACTCAAGGCTAGAAGGGTTATTTGTAA
130 GCAGCATAACTTAAGTCGAGAAGGGTTATTTGTAA
* * ** *
95870 CCAAAAGACCTTCGAGTTCAACTACGCTCAACTCCAAGGCATTTCATTTGCAGTATAACTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* * * * * * *** *
95935 CGATAAGGGTTATCTGCCAACCATAGACCTTCTAGTTTGACTACTCTCAG-CTCCAAGGTGTATA
65 CGAGAAGGGTTATCT----ACCAAAGACCTTCGAGTTCGATTACGCTCAGACTCCAAGGCACATC
* * *
95999 ATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTG---
126 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTGTAA
* * * * * * * *
96035 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTTAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
96100 CTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAG-CTCCAAGGCACATC
65 CGAGAAGGGTTATC--T-ACC-AAAGACCTTCGAGTTCGATTACGCTCAGACTCCAAGGCACATC
* * * ** *
96164 ATTTACAGCATAGCTTAAGTCGAGAAAGACTATTTGCCAA
126 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTG-TAA
* * * *
96204 CCGAAGACCTTCGAGTTGGATTACACTCAGCTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
96237 AGAGGAAAAC
Statistics
Matches: 1220, Mismatches: 260, Indels: 94
0.78 0.17 0.06
Matches are distributed among these distances:
164 158 0.13
165 643 0.53
166 8 0.01
167 6 0.00
168 250 0.20
169 155 0.13
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (164 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
GAGAAGGGTTATCTACCAAAGACCTTCGAGTTCGATTACGCTCAGACTCCAAGGCACATCATTTG
CAGCATAACTTAAGTCGAGAAGGGTTATTTGTAA
Found at i:95018 original size:249 final size:249
Alignment explanation
Indices: 94501--96236 Score: 2457
Period size: 249 Copynumber: 7.0 Consensus size: 249
94491 TTTAAAGAAA
* * * * * *
94501 CATTTACAGCATAGCTTAAATTGAAAAGGGCTATCTGCCATCCAAAGACCTTCGAGTTCGAATAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT---A-CCAAAGACCCTCGAGTTCGATTAC
* * * *
94566 GCTCAGC-TCCAAGACACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAA
62 ACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAA
* * * *
94630 AGACCTTCGAGTTCGACTACTCTCAGCTCTAAGGCATATCATTTGTAGCATAACTTAAGTCGATA
127 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGA
* * * * * *
94695 AAGGTTATTTGCCAACCAAAGACCTTCAAGTTCTATTACGCTCAGCTCCAAGGCATAT
192 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * *
94753 TATTTGCAGCATAGCTTAAGTCGAGAAGGGCAATCTACCAAAGACCCTCGAGTTTGATTACACTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTC
* *
94818 AGATTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATTTGTAACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGAC
* * *
94883 CTTTGAGTTCGACTACGTTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGG
131 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* * * * *
94948 TTATCTACCAACTAAAGACCTTTGAGTTCGATTACGCTCAACTCCAAGGCACAT
196 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * *
95002 CATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTTGATTATACTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTC
* * *
95067 AGCTTCGAGGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTATAACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGAC
* * * *
95132 CTTCAAGTTTGACTACGCTCAGCTCCAAGGCATATAATTTGCAGCATAACTTAAGTCAAGAAGGG
131 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* *
95197 TTATCTGCCAACCAAAGTCCTTCGAGTTCGACTACGCTCAGCACCAAGGCACAT
196 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * * *
95251 CATTTGTAGCATAACTTAAGTCGAAAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACATTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTC
* * *
95316 AACTTCGAGGGAACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATATGTAACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGAC
* *
95381 CTTCGAGTTTGACTACGCTCAACTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
131 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* *
95446 TTATCTACCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACAT
196 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
95500 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTC
* * * * *
95565 AGCTTCGAGGGCACATCATTTATATCATAGCTCAAGGCTATAAGGGTTATCTGTAACCTAAAGAC
66 AGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGAC
* * * *
95630 CTTCAAGTTCGACTACGCTCAACTCCAAGGCATTTCATTTGCAGCATAACTTAAGTCGAGAACGG
131 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* * *
95695 TTATCTGCCAACCATATACCTTCGAGTTCGAATACGCTCAGCTCCAAGGCACAT
196 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * *
95749 CATTTGCAGCATAACTTAAGTCGAAAAGGGCTATCTGCCAAAGACCCTCGAGTTTGATTACACTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTC
* * *
95814 AGCTTCGAGGGAACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTAACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGAC
* * * * *
95879 CTTCGAGTTCAACTACGCTCAACTCCAAGGCATTTCATTTGCAGTATAACTTAAGTCGATAAGGG
131 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* * * * ***
95944 TTATCTGCCAACCATAGACCTTCTAGTTTGACTACTCTCAGCTCCAAGGTGTAT
196 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * *
95998 AATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTC
* * * *
96063 AGCTTCGAGGGCATATCATTTACAGCATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGAC
* * * * *
96128 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAAGA
131 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* * * * * *
96193 CTATTTGCCAACCGAAGACCTTCGAGTTGGATTACACTCAGCTC
196 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
96237 AGAGGAAAAC
Statistics
Matches: 1332, Mismatches: 151, Indels: 5
0.90 0.10 0.00
Matches are distributed among these distances:
248 26 0.02
249 1276 0.96
252 30 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (249 bp):
CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTACACTC
AGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAGAC
CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:96925 original size:37 final size:37
Alignment explanation
Indices: 96818--96926 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
96808 ATAACGTTAC
* *
96818 AGTTCTACTAGGATTCAAACTCCTAAAAATAGGTTAG
1 AGTTTTACTAGGATTCAAACTCCTAAAAATAGGATAG
96855 AGTTTTACTAGGATTCAAACTCCTAAAAATAGGATAG
1 AGTTTTACTAGGATTCAAACTCCTAAAAATAGGATAG
*
96892 AGTTTTACTATGATTCAAACTCCTAAAAATAGGAT
1 AGTTTTACTAGGATTCAAACTCCTAAAAATAGGAT
96927 CCACAAGCAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (37 bp):
AGTTTTACTAGGATTCAAACTCCTAAAAATAGGATAG
Found at i:97445 original size:25 final size:25
Alignment explanation
Indices: 97417--97466 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
97407 ATGCTATGCA
*
97417 TTTT-CTTTTTTAGTTTAGTATATAT
1 TTTTACTTTTTTAGATTA-TATATAT
*
97442 TTTTATTTTTTTAGATTATATATAT
1 TTTTACTTTTTTAGATTATATATAT
97467 ATATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (25 bp):
TTTTACTTTTTTAGATTATATATAT
Found at i:97463 original size:2 final size:2
Alignment explanation
Indices: 97458--97603 Score: 92
Period size: 2 Copynumber: 76.5 Consensus size: 2
97448 TTTTTTAGAT
* *
97458 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG T- TA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
97498 TT TA T- TA TC TG T- TT TA T- TA -A TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
97536 TA TA TA TA TA TA TA TT TA CTA T- TT TT TA TG TT TT TA TT TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
*
97577 TT TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
97604 TAATTTTTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
1 8 0.07
2 109 0.92
3 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (2 bp):
TA
Found at i:97640 original size:39 final size:39
Alignment explanation
Indices: 97595--97673 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
97585 TATATATATA
*
97595 TATATATATTAATTTTTTTATTATTATTTAT-TTGTTTTATT
1 TATATATA-T-ATTTTCTTATTATTATTTATATT-TTTTATT
* *
97636 TATATATATATTTTCTTATTTTTCTTTATATTTTTTAT
1 TATATATATATTTTCTTATTATTATTTATATTTTTTAT
97674 ATTTTTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 23 0.68
40 3 0.09
41 8 0.24
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (39 bp):
TATATATATATTTTCTTATTATTATTTATATTTTTTATT
Found at i:97664 original size:49 final size:48
Alignment explanation
Indices: 97476--97673 Score: 152
Period size: 49 Copynumber: 4.0 Consensus size: 48
97466 TATATATATA
* *
97476 TATATATATATATATGTTATTTT-TTATTATCTGTTTTATTAATTTATATATATATA
1 TATATATATATATAT-ATATTTTCTTATT-T-T-TTTTATT-A-TTAT-T-TAT-TT
* * * *
97532 TATATATATATATATATATTTAC-TATTTTTTATGTTTTTATTTATTT
1 TATATATATATATATATATTTTCTTATTTTTTTTATTATTATTTATTT
* * *
97579 TATATATATATATATATATATATATTAATTTTTTTATTATTATTTATTT
1 TATATATATATATATATAT-TTTCTTATTTTTTTTATTATTATTTATTT
* * *
97628 GT-TTTATTTATATATATATTTTCTTATTTTTCTTTA-TATTTTTTAT
1 -TATATATATATATATATATTTTCTTATTTTT-TTTATTATTATTTAT
97674 ATTTTTTGTA
Statistics
Matches: 118, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
47 20 0.17
48 22 0.19
49 40 0.34
50 5 0.04
52 5 0.04
53 1 0.01
54 1 0.01
55 9 0.08
56 15 0.13
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (48 bp):
TATATATATATATATATATTTTCTTATTTTTTTTATTATTATTTATTT
Found at i:97679 original size:10 final size:10
Alignment explanation
Indices: 97642--97704 Score: 60
Period size: 10 Copynumber: 6.2 Consensus size: 10
97632 TATTTATATA
*
97642 TATATTTTCT
1 TATATTTTTT
97652 TAT-TTTTCTT
1 TATATTTT-TT
97662 TATA-TTTTT
1 TATATTTTTT
97671 TATATTTTTT
1 TATATTTTTT
97681 GTATATTTTTAT
1 -TATATTTTT-T
97693 T-TATTTATTT
1 TATATTT-TTT
97703 TA
1 TA
97705 CTTACTATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
9 10 0.22
10 22 0.49
11 12 0.27
12 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (10 bp):
TATATTTTTT
Found at i:97680 original size:11 final size:12
Alignment explanation
Indices: 97560--97696 Score: 54
Period size: 12 Copynumber: 11.4 Consensus size: 12
97550 TTTACTATTT
*
97560 TTTATGTTTTTA
1 TTTATATTTTTA
97572 TTTAT-TTTATATA
1 TTTATATTT-T-TA
* * *
97585 TATATATATATA
1 TTTATATTTTTA
*
97597 TATATATTAATTT-
1 TTTATATT--TTTA
*
97610 TTT-TATTATTA
1 TTTATATTTTTA
*
97621 TTTATTTGTTTTA
1 TTTATAT-TTTTA
* *
97634 TTTATATATATA
1 TTTATATTTTTA
* *
97646 TTTTCTTATTTTTC
1 -TTT-ATATTTTTA
97660 TTTATA--TTT-
1 TTTATATTTTTA
97669 TTTATATTTTT-
1 TTTATATTTTTA
*
97680 TGTATATTTTTA
1 TTTATATTTTTA
97692 TTTAT
1 TTTAT
97697 TTATTTTACT
Statistics
Matches: 93, Mismatches: 19, Indels: 26
0.67 0.14 0.19
Matches are distributed among these distances:
9 6 0.06
10 5 0.05
11 19 0.20
12 30 0.32
13 24 0.26
14 9 0.10
ACGTcount: A:0.26, C:0.01, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTATATTTTTA
Found at i:97739 original size:71 final size:71
Alignment explanation
Indices: 97613--97744 Score: 162
Period size: 71 Copynumber: 1.9 Consensus size: 71
97603 TTAATTTTTT
* * * * *
97613 TATTATTATTTATTTGTTTTATTTATATATATATTTTCTTATTTTTCTTTATATTTTTTATATTT
1 TATTATTATTTATTTATTTTACTTATATATATATTTTCTTATCTTTATCTATATTTTTTATATTT
97678 TTTGTA
66 TTTGTA
*
97684 TATTTTTATTTATTTATTTTACTTACTAT-TATATCTTTGCTT-TCTTTATCT-TATTTTTTAT
1 TATTATTATTTATTTATTTTACTTA-TATATATAT-TTT-CTTATCTTTATCTATATTTTTTAT
97745 TTAATTTGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
71 37 0.71
72 12 0.23
73 3 0.06
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (71 bp):
TATTATTATTTATTTATTTTACTTATATATATATTTTCTTATCTTTATCTATATTTTTTATATTT
TTTGTA
Found at i:103736 original size:137 final size:136
Alignment explanation
Indices: 103494--103894 Score: 408
Period size: 137 Copynumber: 2.9 Consensus size: 136
103484 TATTGAATTA
* * * * * *
103494 AATAATTAAAATAGAACGTCAAGCAAAATCGAGGACCAAATTAAAAATTCTTTTGAATTGAAGGA
1 AATAATTAAAATGGAACATCGAGCAAAAACGAGGACCAAATTAAAAATTC-TTTAAATTAAAGGA
* * * * * *
103559 ATCAAGTGAAATTAAACCTAAAATGAAGGCTATAATTATTATCCTAACCAATTTTAACCAATTAT
65 ATAAAGTGAAATTAAGCCTAAAATGGAGGCTCTAATTATTAACCTAACCAATTTTAACCAATAAT
*
103624 TAAATCG
130 TAAATAG
* * * * * *
103631 AATAATTAAAATGGAACATTGAGCAAAAGCGATGACTAAATTAATAGTTCTTCTAAATTAAAGGA
1 AATAATTAAAATGGAACATCGAGCAAAAACGAGGACCAAATTAAAAATTCTT-TAAATTAAAGGA
* * * ****
103696 CTAAAGTGAAATTAAGCCTAAATTGGAGACTCTAGA-TATTAACCTTGTTAATTTTAACCAATAA
65 ATAAAGTGAAATTAAGCCTAAAATGGAGGCTCTA-ATTATTAACCTAACCAATTTTAACCAATAA
*
103760 TTGAATAG
129 TTAAATAG
* *
103768 AATAATTAAAATGGATCATCGAGCAAAAACGAGGACCAAATTAAAAAAATCTTTAAATTAAAGGA
1 AATAATTAAAATGGAACATCGAGCAAAAACGAGGACCAAATT-AAAAATTCTTTAAATTAAAGGA
* * * * * * ** *
103833 TTAAATATGAAGTTAAGCCCAAAGTGGAGGCTCTAATTATTAACTTATTCAGTTTTAACCAA
65 ATAAA-GTGAAATTAAGCCTAAAATGGAGGCTCTAATTATTAACCTAACCAATTTTAACCAA
103895 AACCTTGAAT
Statistics
Matches: 214, Mismatches: 45, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
136 2 0.01
137 160 0.75
138 52 0.24
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (136 bp):
AATAATTAAAATGGAACATCGAGCAAAAACGAGGACCAAATTAAAAATTCTTTAAATTAAAGGAA
TAAAGTGAAATTAAGCCTAAAATGGAGGCTCTAATTATTAACCTAACCAATTTTAACCAATAATT
AAATAG
Found at i:104265 original size:14 final size:14
Alignment explanation
Indices: 104219--104267 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
104209 ATACAGTGCA
* *
104219 GAAAATTAAAAGCT
1 GAAATTTAAAGGCT
*
104233 GGAATTTAAAGGACT
1 GAAATTTAAAGG-CT
104248 GAAATTTAAAGGCT
1 GAAATTTAAAGGCT
104262 GAAATT
1 GAAATT
104268 AAAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.27
Consensus pattern (14 bp):
GAAATTTAAAGGCT
Found at i:105710 original size:26 final size:24
Alignment explanation
Indices: 105665--105712 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
105655 AAAGAATAAT
*
105665 AAAAAATAATAATAACTAAAAAGC
1 AAAAAATAATAATAAATAAAAAGC
105689 AAAATAATAAATAATAAATAAAAA
1 AAAA-AAT-AATAATAAATAAAAA
105713 ACGGAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 3 0.14
26 14 0.67
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (24 bp):
AAAAAATAATAATAAATAAAAAGC
Found at i:109047 original size:44 final size:47
Alignment explanation
Indices: 108999--109109 Score: 156
Period size: 44 Copynumber: 2.4 Consensus size: 47
108989 GTAACCATGC
108999 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGG-AA
1 AAATAAGCTTATGAGCTTACGGAATTAAATGGCAAGTATATTGGTAA
* * * *
109043 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTACGGAA-TTAAATGGCAAGTATATTGGTAA
109091 AAATAAGCTTATGAGCTTA
1 AAATAAGCTTATGAGCTTA
109110 TGGGATAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 22 0.38
46 1 0.02
47 15 0.26
48 20 0.34
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (47 bp):
AAATAAGCTTATGAGCTTACGGAATTAAATGGCAAGTATATTGGTAA
Found at i:109100 original size:48 final size:45
Alignment explanation
Indices: 108999--109125 Score: 175
Period size: 48 Copynumber: 2.8 Consensus size: 45
108989 GTAACCATGC
* *
108999 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATTGGAA
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGGAA
* *
109043 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTATGGAA--TAAATGGTAAGTATATTGG-AA
*
109091 AAATAAGCTTATGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAG
109126 AAATTTTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
44 22 0.30
46 12 0.16
47 15 0.21
48 24 0.33
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATATTGGAA
Found at i:109940 original size:24 final size:24
Alignment explanation
Indices: 109904--109964 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
109894 ACAACAAAAA
*
109904 ATATTTTCCAAAAATCTATATAATAT
1 ATATTTT--AAAAATATATATAATAT
*
109930 ATATTTTAAAAATATATATTATAT
1 ATATTTTAAAAATATATATAATAT
*
109954 A-ATTTAAAAAA
1 ATATTTTAAAAA
109965 ATGTTTTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.28
24 16 0.50
26 7 0.22
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATTTTAAAAATATATATAATAT
Found at i:109945 original size:22 final size:22
Alignment explanation
Indices: 109920--109963 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
109910 TCCAAAAATC
*
109920 TATATAATATATATTTTAAAAA
1 TATATAATATATAATTTAAAAA
*
109942 TATATATTATATAATTTAAAAA
1 TATATAATATATAATTTAAAAA
109964 AATGTTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATAATATATAATTTAAAAA
Found at i:109979 original size:29 final size:29
Alignment explanation
Indices: 109947--110012 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
109937 AAAAATATAT
109947 ATTATATAATTTAAAAAAATGTTTTCAAA
1 ATTATATAATTTAAAAAAATGTTTTCAAA
* ** *
109976 ATTATATAGTTTTCAAAAATGTTTTTAAA
1 ATTATATAATTTAAAAAAATGTTTTCAAA
*
110005 ACTATATA
1 ATTATATA
110013 TTATATGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (29 bp):
ATTATATAATTTAAAAAAATGTTTTCAAA
Found at i:110161 original size:37 final size:35
Alignment explanation
Indices: 109978--110274 Score: 244
Period size: 36 Copynumber: 8.4 Consensus size: 35
109968 TTTTCAAAAT
109978 TATATAGTTTTCAAAAATGTTTTTAAAACTATATA-T-
1 TATATA-TTTTC-AAAATG-TTTTAAAACTATATATTA
*
110014 TATATGTTTTCAAAATGATTTTAAAACTATATATTA
1 TATATATTTTCAAAATG-TTTTAAAACTATATATTA
* * * *
110050 TATGT-TTTTCAAACAATTTTTTTAAAACTATAAAATA
1 TATATATTTTC-AA-AA-TGTTTTAAAACTATATATTA
*
110087 TATATGTTTTCAAAATGTTTTAAAAACTATATA-TA
1 TATATATTTTCAAAATGTTTT-AAAACTATATATTA
* *
110122 TATATATATTCAAAAATGTTTTAAACACCATATATTA
1 TATATATTTTC-AAAATGTTTTAAA-ACTATATATTA
*
110159 TATTTATTTTCAAAATGTTTTAAAAGC--TATA-TA
1 TATATATTTTCAAAATGTTTTAAAA-CTATATATTA
110192 -ATATA---T--AAATGTTTTCAAAACTATATATTA
1 TATATATTTTCAAAATGTTTT-AAAACTATATATTA
** *
110222 TATATATTTAAAAAATGTTTTCAAAAACTATATAATA
1 TATATATTTTCAAAATGTTTT--AAAACTATATATTA
110259 TATGA-ATTTTCGAAAA
1 TAT-ATATTTTC-AAAA
110275 CCGTTTTCTG
Statistics
Matches: 217, Mismatches: 20, Indels: 46
0.77 0.07 0.16
Matches are distributed among these distances:
27 10 0.05
28 4 0.02
29 5 0.02
30 2 0.01
31 5 0.02
32 4 0.02
33 2 0.01
34 25 0.12
35 31 0.14
36 63 0.29
37 55 0.25
38 11 0.05
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (35 bp):
TATATATTTTCAAAATGTTTTAAAACTATATATTA
Found at i:110218 original size:29 final size:27
Alignment explanation
Indices: 110171--110225 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
110161 TTTATTTTCA
110171 AAATGTTTTAAAAGCTATATAATATAT
1 AAATGTTTTAAAAGCTATATAATATAT
*
110198 AAATGTTTTCAAAA-CTATATATTATAT
1 AAATGTTTT-AAAAGCTATATAATATAT
110225 A
1 A
110226 TATTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (27 bp):
AAATGTTTTAAAAGCTATATAATATAT
Found at i:110218 original size:63 final size:64
Alignment explanation
Indices: 110135--110261 Score: 186
Period size: 63 Copynumber: 2.0 Consensus size: 64
110125 ATATATTCAA
* ** *
110135 AAATGTTTTAAACACCATATATTATATTTATTTTCAAAATGTTTT-AAAAGCTATATAATATAT
1 AAATGTTTTAAACACCATATATTATATATATTTAAAAAATGTTTTCAAAAACTATATAATATAT
*
110198 AAATGTTTTCAAA-ACTATATATTATATATATTTAAAAAATGTTTTCAAAAACTATATAATATAT
1 AAATGTTTT-AAACACCATATATTATATATATTTAAAAAATGTTTTCAAAAACTATATAATATAT
110262 GAATTTTCGA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
63 37 0.65
64 20 0.35
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (64 bp):
AAATGTTTTAAACACCATATATTATATATATTTAAAAAATGTTTTCAAAAACTATATAATATAT
Found at i:110275 original size:63 final size:62
Alignment explanation
Indices: 110151--110275 Score: 171
Period size: 63 Copynumber: 2.0 Consensus size: 62
110141 TTTAAACACC
* ** *
110151 ATATATTATATTTATTTTCAAAATGTTTTAAAAGCTATATAATATATAAATGTTTTCAAAACT
1 ATATATTATATATATTTAAAAAATGTTTTAAAAACTATATAATATATAAA-GTTTTCAAAACT
*
110214 ATATATTATATATATTTAAAAAATGTTTTCAAAAACTATATAATATATGAA-TTTTCGAAAAC
1 ATATATTATATATATTTAAAAAATGTTTT-AAAAACTATATAATATATAAAGTTTTC-AAAAC
110276 CGTTTTCTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 5 0.09
63 31 0.56
64 19 0.35
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (62 bp):
ATATATTATATATATTTAAAAAATGTTTTAAAAACTATATAATATATAAAGTTTTCAAAACT
Found at i:110374 original size:25 final size:24
Alignment explanation
Indices: 110326--110380 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
110316 TTTCAAAAAC
* * *
110326 TATATTACAACATATATATGTATA
1 TATATAACAAAATATATATATATA
110350 TATATAACAAAATAATATATATATA
1 TATATAACAAAAT-ATATATATATA
110375 TATATA
1 TATATA
110381 TATAAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (24 bp):
TATATAACAAAATATATATATATA
Found at i:110375 original size:31 final size:31
Alignment explanation
Indices: 110337--110395 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
110327 ATATTACAAC
* *
110337 ATATATATGTATATATATAACAAAATAATAT
1 ATATATATATATATATAAAACAAAATAATAT
110368 ATATATATATATATATAAAACAAAATAA
1 ATATATATATATATATAAAACAAAATAA
110396 CTCCGGGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (31 bp):
ATATATATATATATATAAAACAAAATAATAT
Found at i:112298 original size:37 final size:37
Alignment explanation
Indices: 112252--112569 Score: 225
Period size: 37 Copynumber: 9.1 Consensus size: 37
112242 CAAAAGTTTT
* *
112252 TTTTTTTTCAAGAGAAACTGTCTTCAAG-GAGGCAAAA
1 TTTTGTTTCAAGAGAAACTGTC-TCAAGAGAGACAAAA
*
112289 TTTTGTTTCAAGAGAAACATAT-TC-A-A-AG-----A
1 TTTTGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAA
* *
112318 TTGATGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAA
1 TT-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
112356 CTTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
112393 TTTAT-TTT-AAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * * * *
112429 CTTAGTTCCAAAAGAAACTGCCTCAAGGGAGACAAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
112466 -TTTGTTTCAAG-GAAAACATAT-TC-A-A-AG-----A
1 TTTTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
* *
112494 TTTTGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* ** *
112531 -TTTGTTTCAAGGGAAACAATCTCAAAAGAGACAAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
112567 TTT
1 TTT
112570 GTCTCAAAAG
Statistics
Matches: 225, Mismatches: 27, Indels: 58
0.73 0.09 0.19
Matches are distributed among these distances:
28 3 0.01
29 22 0.10
30 19 0.08
31 2 0.01
32 3 0.01
33 4 0.02
34 2 0.01
35 3 0.01
36 80 0.36
37 82 0.36
38 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (37 bp):
TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:112414 original size:73 final size:72
Alignment explanation
Indices: 112322--112576 Score: 249
Period size: 73 Copynumber: 3.6 Consensus size: 72
112312 CAAAGATTGA
* * *
112322 TGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTTGTTTCAAGGGAAATTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAG
112387 ACAAAATT
65 ACAAAATT
* * * * * ** * *
112395 TATTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGCCTCAAGGGAG
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAG
112460 ACAAAATT
65 ACAAAATT
* *
112468 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTTTGTTTCAAGGGAAACTGTCTCAAAAGA
1 TGTTTCAAGAG-AAAC-TATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
112524 GACAAAATT
64 GACAAAATT
* * * *
112533 TGTTTCAAGGGAAACAATCTCAAAAGAGACAAAATTTGTCTCAA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAA
112577 AAGAGACAAA
Statistics
Matches: 147, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
64 2 0.01
65 46 0.31
66 3 0.02
67 1 0.01
68 2 0.01
70 2 0.01
71 1 0.01
72 12 0.08
73 76 0.52
74 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (72 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
CAAAATT
Found at i:112421 original size:36 final size:36
Alignment explanation
Indices: 112324--112569 Score: 204
Period size: 36 Copynumber: 7.0 Consensus size: 36
112314 AAGATTGATG
* *
112324 TTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTA
* *
112361 TTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
* *
112397 TTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
* * * * *
112433 GTTCCAAAAGAAACTGCCTCAAGGGAGACAAAATTTG
1 -TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
* * *
112470 TTTCAAG-GAAAACATAT-TC-A-A-AG----ATTTTG
1 TTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATTTA
* * *
112499 TTTCAAGGGAAACTGTCTCAAAAGAGACAAAATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
* ** *
112535 TTTCAAGGGAAACAATCTCAAAAGAGACAAAATTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
112570 GTCTCAAAAG
Statistics
Matches: 172, Mismatches: 25, Indels: 25
0.77 0.11 0.11
Matches are distributed among these distances:
28 2 0.01
29 18 0.10
30 2 0.01
31 1 0.01
32 2 0.01
33 2 0.01
35 2 0.01
36 84 0.49
37 59 0.34
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (36 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTA
Found at i:112576 original size:21 final size:21
Alignment explanation
Indices: 112512--112614 Score: 96
Period size: 21 Copynumber: 5.1 Consensus size: 21
112502 CAAGGGAAAC
112512 TGTCTCAAAAGAGACAAAATT
1 TGTCTCAAAAGAGACAAAATT
* *
112533 TGTTTC--AAGGGA-AACAA--
1 TGTCTCAAAAGAGACAA-AATT
112550 --TCTCAAAAGAGACAAAATT
1 TGTCTCAAAAGAGACAAAATT
112569 TGTCTCAAAAGAGACAAAATT
1 TGTCTCAAAAGAGACAAAATT
*
112590 TGTCTTAAGAA-AGACAAAACTT
1 TGTCTCAA-AAGAGACAAAA-TT
112612 TGT
1 TGT
112615 TTTGAGTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.04
17 7 0.10
18 4 0.06
19 7 0.10
21 39 0.58
22 7 0.10
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.25
Consensus pattern (21 bp):
TGTCTCAAAAGAGACAAAATT
Found at i:117229 original size:17 final size:17
Alignment explanation
Indices: 117207--117239 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
117197 ATGTTAGGAA
117207 AAAATAAAGAAAGAAAG
1 AAAATAAAGAAAGAAAG
117224 AAAATAAAGAAAGAAA
1 AAAATAAAGAAAGAAA
117240 AATGTTAGTA
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:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (17 bp):
AAAATAAAGAAAGAAAG
Found at i:117234 original size:13 final size:13
Alignment explanation
Indices: 117216--117240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117206 AAAAATAAAG
117216 AAAGAAAGAAAAT
1 AAAGAAAGAAAAT
117229 AAAGAAAGAAAA
1 AAAGAAAGAAAA
117241 ATGTTAGTAT
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:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAGAAAGAAAAT
Found at i:117466 original size:13 final size:14
Alignment explanation
Indices: 117448--117477 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
117438 AGTTGGACAA
117448 TCTTCATATGCA-G
1 TCTTCATATGCACG
117461 TCTTCATATGCACG
1 TCTTCATATGCACG
117475 TCT
1 TCT
117478 GTAATGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (14 bp):
TCTTCATATGCACG
Found at i:121661 original size:34 final size:34
Alignment explanation
Indices: 121623--121693 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
121613 TGGAAAGAAT
*
121623 AATAAA-AAATAATAATAACA-AAAAACCAAAATAA
1 AATAAAGAAA-AATAATAA-ATAAAAAACAAAATAA
* *
121657 AATAAAGGAAAATAATAAATAAAAAACGAAATAA
1 AATAAAGAAAAATAATAAATAAAAAACAAAATAA
121691 AAT
1 AAT
121694 GAGGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 1 0.03
34 29 0.91
35 2 0.06
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (34 bp):
AATAAAGAAAAATAATAAATAAAAAACAAAATAA
Found at i:123015 original size:3 final size:3
Alignment explanation
Indices: 123007--123036 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
122997 AAAATAAAAT
123007 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
123037 AAGGTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:123128 original size:36 final size:35
Alignment explanation
Indices: 123073--123485 Score: 283
Period size: 36 Copynumber: 11.5 Consensus size: 35
123063 ATATTTTCCA
* *
123073 AAAATCTATATAATATATATTTTTTAAAAAATATTTT
1 AAAA-CTATATATTATATATTTTTT-AAAAATGTTTT
* *
123110 AAAACTATATATTTTATA-TTTTAAAAAATTGTTTT
1 AAAACTATATATTATATATTTTTTAAAAA-TGTTTT
* * *
123145 ----C-A-AAATTATATAGTTTTCAAAAATGTTTTT
1 AAAACTATATATTATATATTTTTTAAAAATG-TTTT
* *
123175 AAAACTATATA-T-TATATGTTTTCAAAATGATTTT
1 AAAACTATATATTATATATTTTTTAAAAATG-TTTT
* * *
123209 AAAATTATATATTATAT-GTTTTTCAAAATGTTTTTTT
1 AAAACTATATATTATATATTTTTTAAAAATG---TTTT
* * * *
123246 TAAACTATATAATATATATGTTTTCAAAATGTTTT
1 AAAACTATATATTATATATTTTTTAAAAATGTTTT
*
123281 AAAAACTATATATTATATA-TTTTTAAAAATATTTT
1 -AAAACTATATATTATATATTTTTTAAAAATGTTTT
* *
123316 AAAAACTATAATATATATATATATATATTCAAAAATGTTCT
1 -AAAACTAT-ATAT-TATATAT-T-T-TTTAAAAATGTTTT
* *
123357 AAACACCATATATTATAT-TTATTTTCAAAATGTTTT
1 AAA-ACTATATATTATATATT-TTTTAAAAATGTTTT
* * * *
123393 AAAAGCTATATAATATATAAATGTTTTCAAATTGTTTT
1 AAAA-CTATAT-AT-TATATATTTTTTAAAAATGTTTT
* *
123431 CAAAACTATATATTATATATATTTCAAAAATGTTTT
1 -AAAACTATATATTATATATTTTTTAAAAATGTTTT
*
123467 CAAAAACTATATAATATAT
1 --AAAACTATATATTATAT
123486 GAATTTTCGA
Statistics
Matches: 303, Mismatches: 45, Indels: 56
0.75 0.11 0.14
Matches are distributed among these distances:
29 10 0.03
30 14 0.05
31 1 0.00
34 33 0.11
35 50 0.17
36 74 0.24
37 51 0.17
38 36 0.12
39 11 0.04
40 8 0.03
41 15 0.05
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.47
Consensus pattern (35 bp):
AAAACTATATATTATATATTTTTTAAAAATGTTTT
Found at i:123166 original size:29 final size:29
Alignment explanation
Indices: 123141--123220 Score: 81
Period size: 34 Copynumber: 2.6 Consensus size: 29
123131 TAAAAAATTG
*
123141 TTTTCAAAATTATATA-GTTTTCAAAAATGT
1 TTTT-AAAATTATATATGTTTTC-AAAATGA
123171 TTTTAAAACTATATATTATATGTTTTCAAAATGA
1 TTTT-AAA--AT-TA-TATATGTTTTCAAAATGA
123205 TTTTAAAATTATATAT
1 TTTTAAAATTATATAT
123221 TATATGTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
29 5 0.12
30 9 0.21
31 2 0.05
32 2 0.05
33 5 0.12
34 14 0.33
35 6 0.14
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (29 bp):
TTTTAAAATTATATATGTTTTCAAAATGA
Found at i:123167 original size:65 final size:63
Alignment explanation
Indices: 123094--123219 Score: 166
Period size: 65 Copynumber: 2.0 Consensus size: 63
123084 AATATATATT
* *
123094 TTTTAAAAAAT-ATTTTAAAACTATATATTTTATATTTTAAAAAATTG-TTTTCAAAATTATATA
1 TTTTCAAAAATGATTTTAAAACTATATATTATATATTTT-AAAAA-TGATTTT-AAAATTATATA
123157 G
63 G
* * *
123158 TTTTCAAAAATGTTTTTAAAACTATATATTATATGTTTTCAAAATGATTTTAAAATTATATA
1 TTTTCAAAAATGATTTTAAAACTATATATTATATATTTTAAAAATGATTTTAAAATTATATA
123220 TTATATGTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
63 13 0.24
64 18 0.33
65 24 0.44
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (63 bp):
TTTTCAAAAATGATTTTAAAACTATATATTATATATTTTAAAAATGATTTTAAAATTATATAG
Found at i:123420 original size:150 final size:147
Alignment explanation
Indices: 123149--123485 Score: 399
Period size: 150 Copynumber: 2.3 Consensus size: 147
123139 TGTTTTCAAA
* * *
123149 ATTATATAGT-TTTCAAAAATGTTTT-TAAAACTATAT-AT-TATATGT-T-TTC-AAAATGATT
1 ATTATATA-TATTTCAAAAATATTTTCAAAAACTATATAATATATATATATATTCAAAAATG-TT
* ** *
123207 TTAAA-ATTATATATTATATGTTTTTCAAAATGTTTTTTTTAAACTATATAATATATATGTTTTC
64 CTAAACACCATATATTATATGTTTTTCAAAATG--TTTTTAAAACTATATAATATATATGTTTTC
123271 AAAATGTTTTAAAAACTATAT
127 AAAATGTTTTAAAAACTATAT
*
123292 ATTATATAT-TTTTAAAAATATTTT-AAAAACTATAATATATATATATATATATTCAAAAATGTT
1 ATTATATATATTTCAAAAATATTTTCAAAAACTAT-ATA-ATATATATATATATTCAAAAATGTT
*
123355 CTAAACACCATATATTATATTTATTTTCAAAATG-TTTTAAAAGCTATATAATATATAAATGTTT
64 CTAAACACCATATATTATATGT-TTTTCAAAATGTTTTTAAAA-CTATATAATATAT--ATGTTT
* *
123419 TCAAATTGTTTTCAAAACTATAT
125 TCAAAATGTTTTAAAAACTATAT
*
123442 ATTATATATATTTCAAAAATGTTTTCAAAAACTATATAATATAT
1 ATTATATATATTTCAAAAATATTTTCAAAAACTATATAATATAT
123486 GAATTTTCGA
Statistics
Matches: 167, Mismatches: 13, Indels: 21
0.83 0.06 0.10
Matches are distributed among these distances:
142 22 0.13
143 10 0.06
145 2 0.01
146 6 0.04
147 8 0.05
148 22 0.13
149 19 0.11
150 53 0.32
151 16 0.10
152 9 0.05
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (147 bp):
ATTATATATATTTCAAAAATATTTTCAAAAACTATATAATATATATATATATTCAAAAATGTTCT
AAACACCATATATTATATGTTTTTCAAAATGTTTTTAAAACTATATAATATATATGTTTTCAAAA
TGTTTTAAAAACTATAT
Found at i:123590 original size:26 final size:26
Alignment explanation
Indices: 123561--123613 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
123551 ATATTACTAC
*
123561 ATATATATGTATATATATAAAAAATA
1 ATATATATATATATATATAAAAAATA
123587 ATATATATATATATATATAAAAAATA
1 ATATATATATATATATATAAAAAATA
123613 A
1 A
123614 CTTCGGGCGA
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:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
ATATATATATATATATATAAAAAATA
Found at i:124193 original size:28 final size:28
Alignment explanation
Indices: 124149--124245 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 28
124139 TCGAGGGTCT
*
124149 TTTTGTTTCAAGGGAAAC-ATTTTCAAAGG
1 TTTT-TTTCAAGAGAAACGA-TTTCAAAGG
*
124178 TTTTTTTCAAGAGAAACGATTTCAACGG
1 TTTTTTTCAAGAGAAACGATTTCAAAGG
* *
124206 TTTTTTGTGTTTCAAGAGTAACGATTTCAAAGA
1 ---TTT-T-TTTCAAGAGAAACGATTTCAAAGG
124239 TTTTTTT
1 TTTTTTT
124246 GTGTTTCAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
28 23 0.40
29 6 0.11
30 3 0.05
31 3 0.05
32 1 0.02
33 21 0.37
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (28 bp):
TTTTTTTCAAGAGAAACGATTTCAAAGG
Found at i:124223 original size:33 final size:34
Alignment explanation
Indices: 124182--124259 Score: 122
Period size: 33 Copynumber: 2.3 Consensus size: 34
124172 CAAAGGTTTT
*
124182 TTTCAAGAGAAACGATTTCAACG-GTTTTTTGTG
1 TTTCAAGAGAAACGATTTCAAAGAGTTTTTTGTG
* *
124215 TTTCAAGAGTAACGATTTCAAAGATTTTTTTGTG
1 TTTCAAGAGAAACGATTTCAAAGAGTTTTTTGTG
124249 TTTCAAGAGAA
1 TTTCAAGAGAA
124260 TCTGTCTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 21 0.52
34 19 0.47
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (34 bp):
TTTCAAGAGAAACGATTTCAAAGAGTTTTTTGTG
Found at i:124249 original size:34 final size:33
Alignment explanation
Indices: 124148--124259 Score: 121
Period size: 33 Copynumber: 3.5 Consensus size: 33
124138 CTCGAGGGTC
*
124148 TTTT-TGTTTCAAGGGAAAC-ATTTTCAAAGG--
1 TTTTGTGTTTCAAGAGAAACGA-TTTCAAAGGTT
*
124178 -TTT-T-TTTCAAGAGAAACGATTTCAACGGTT
1 TTTTGTGTTTCAAGAGAAACGATTTCAAAGGTT
* *
124208 TTTTGTGTTTCAAGAGTAACGATTTCAAAGATTT
1 TTTTGTGTTTCAAGAGAAACGATTTCAAAG-GTT
124242 TTTTGTGTTTCAAGAGAA
1 TTTTGTGTTTCAAGAGAA
124260 TCTGTCTTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
28 20 0.29
29 5 0.07
31 3 0.04
32 1 0.01
33 21 0.30
34 19 0.28
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (33 bp):
TTTTGTGTTTCAAGAGAAACGATTTCAAAGGTT
Found at i:124369 original size:110 final size:109
Alignment explanation
Indices: 124247--124444 Score: 254
Period size: 110 Copynumber: 1.8 Consensus size: 109
124237 GATTTTTTTG
* * * * * * * *
124247 TGTTTCAAGAGAATCTGTCTTC-AGGGAGGCAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGA
1 TGTTTCAAGAGAAACTGTC-TCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTACCTCAAGAGA
* *
124311 GATAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
65 GACAAAA-TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATT
* * *
124357 TGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGCCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTACCTCAAGAGAG
124422 ACAAAATTTGTTTCAAGGAAAAC
66 ACAAAATTTGTTTCAAGGAAAAC
124445 ATATTCAAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
109 18 0.24
110 56 0.76
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (109 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTACCTCAAGAGAG
ACAAAATTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATT
Found at i:124371 original size:36 final size:36
Alignment explanation
Indices: 124247--124542 Score: 281
Period size: 36 Copynumber: 8.3 Consensus size: 36
124237 GATTTTTTTG
* * *
124247 TGTTTCAAGAGAATCTGTCTTC-AGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTC-TCAAGAGAGACAAAA-TT
* *
124284 TGTTTCAAGAGAAACTATCTCAAGAGAGATAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
124321 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
124357 TGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
124394 AGTTCCAAAAGAAACTGCCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
124430 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* *
124459 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
124495 TTTTTGAAGGGAAA-TGGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACT-GTCTCAAGAGAGACAAAATT
124531 TGTTTCAAGAGA
1 TGTTTCAAGAGA
124543 GACAAAACTT
Statistics
Matches: 213, Mismatches: 32, Indels: 29
0.78 0.12 0.11
Matches are distributed among these distances:
28 2 0.01
29 18 0.08
30 2 0.01
31 1 0.00
32 2 0.01
33 2 0.01
35 3 0.01
36 93 0.44
37 90 0.42
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:124379 original size:73 final size:72
Alignment explanation
Indices: 124247--124542 Score: 281
Period size: 73 Copynumber: 4.2 Consensus size: 72
124237 GATTTTTTTG
* * *
124247 TGTTTCAAGAGAATCTGTCTTC-AGGGAGGCAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGA
1 TGTTTCAAGAGAAACTGTC-TCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTATCTCAAGAGA
*
124311 GATAAAACTT
64 GACAAAA-TT
* * *
124321 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGA
124386 CAAAACTT
66 CAAAA-TT
* * * * *
124394 AGTTCCAAAAGAAACTGCCTCAAGGGAGACAAAATTTGTTTCAAG-GAAAACATAT-TC-A-A-A
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAG-AAAC-TATCTCAAGAGA
*
124454 G----ATTT
64 GACAAAATT
* * * * * *
124459 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAATTTTTTTGAAGGGAAA-TGGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACT-ATCTCAAGAGAG
124523 ACAAAATT
65 ACAAAATT
124531 TGTTTCAAGAGA
1 TGTTTCAAGAGA
124543 GACAAAACTT
Statistics
Matches: 181, Mismatches: 28, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
63 1 0.01
64 1 0.01
65 43 0.24
66 3 0.02
67 1 0.01
68 2 0.01
70 2 0.01
71 1 0.01
72 16 0.09
73 82 0.45
74 29 0.16
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (72 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGAGA
CAAAATT
Found at i:124538 original size:21 final size:22
Alignment explanation
Indices: 124514--124557 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
124504 GGAAATGGTC
124514 TCAAGAGAGACAAAA-TTTGTT
1 TCAAGAGAGACAAAACTTTGTT
124535 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAGACAAAACTTTGTT
124557 T
1 T
124558 TGAGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (22 bp):
TCAAGAGAGACAAAACTTTGTT
Found at i:125049 original size:14 final size:14
Alignment explanation
Indices: 125030--125076 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
125020 TATTGATGAC
*
125030 TCTTGATTTTGGAA
1 TCTTGATTTTGGAT
125044 TCTTGAATTTAT-GAT
1 TCTTG-ATTT-TGGAT
*
125059 TCTTGATATTGGAT
1 TCTTGATTTTGGAT
125073 TCTT
1 TCTT
125077 CAACATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 1 0.04
14 15 0.54
15 11 0.39
16 1 0.04
ACGTcount: A:0.21, C:0.09, G:0.17, T:0.53
Consensus pattern (14 bp):
TCTTGATTTTGGAT
Found at i:126078 original size:95 final size:94
Alignment explanation
Indices: 125877--126137 Score: 382
Period size: 95 Copynumber: 2.7 Consensus size: 94
125867 GGCTAGTTGA
*
125877 ATCCATAAAGTCGGGGCATTTAACCAATTGCTCTAGAGGGACAGCTCAA--TATTATTGTATAGA
1 ATCCATAAAGTC-GGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCT-TTATTG--T--A
125940 TATTATAATTACCTTTATCAGGCTAGCTGAATATT
60 TATTATAATTACCTTTATCAGGCTAGCTGAATATT
* *
125975 ATCCATAAAGTCGGTGCGTTTAACCAATTGCTCTAAAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGTCGG-GCGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTATATTA
* *
126040 TAATTGCCTTTATCAGGCTAGCTGAATCTT
65 TAATTACCTTTATCAGGCTAGCTGAATATT
126070 ATCCATAAAGTCGGGACGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTATATAT
1 ATCCATAAAGTCGGG-CGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTATAT-T
126135 ATA
64 ATA
126138 TATATAATTA
Statistics
Matches: 151, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
94 1 0.01
95 93 0.62
96 4 0.03
97 3 0.02
98 43 0.28
99 6 0.04
100 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (94 bp):
ATCCATAAAGTCGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTATATTAT
AATTACCTTTATCAGGCTAGCTGAATATT
Found at i:137285 original size:30 final size:30
Alignment explanation
Indices: 137234--137295 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
137224 ATACAGTTTT
137234 TAAAACATTTTGAAAATAAATATA-ATATA
1 TAAAACATTTTGAAAATAAATATATATATA
* *
137263 TAAAACATTTTTTAATATAAATATATATATA
1 TAAAACA-TTTTGAAAATAAATATATATATA
137294 TA
1 TA
137296 TATATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 7 0.24
30 15 0.52
31 7 0.24
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (30 bp):
TAAAACATTTTGAAAATAAATATATATATA
Found at i:137329 original size:36 final size:36
Alignment explanation
Indices: 137142--137474 Score: 189
Period size: 36 Copynumber: 9.1 Consensus size: 36
137132 TCGAAAATTC
*
137142 ATATAT-TA-TATAGTTTTTGAAAATATTTTTG-AAAT
1 ATATATATATTATAG-TTTT-AAAACATTTTTGAAAAT
*
137177 ATATATA-ATATATAGTTTTAAAA-ATATTTTGAAAAC
1 ATATATATAT-TATAGTTTTAAAACAT-TTTTGAAAAT
*
137213 ATTTATATATTATACAGTTTTTAAAACA-TTTTGAAAAT
1 ATATATATATTAT--AG-TTTTAAAACATTTTTGAAAAT
* * * ** * *** *
137251 AAATATAATATATAAAACATTTTTTAATATAAAT-ATATAT
1 --ATAT-ATATATTATA-GTTTTAAAACATTTTTGA-AAAT
*
137291 ATATATATATTATAATTTTAAAACATTTTTGAAAAT
1 ATATATATATTATAGTTTTAAAACATTTTTGAAAAT
*
137327 ATATA-ATA-TATAGTTTATAAAACA-TTTTGAAAAC
1 ATATATATATTATAGTTT-TAAAACATTTTTGAAAAT
137361 ATATATAT-TATATAGTTTTAAAAAAACA-TTTTGAAAA-
1 ATATATATAT-TATAGTTTT---AAAACATTTTTGAAAAT
* *
137398 ACATATA-ATATATAGTTTTAAAA-ATCATTTTGAAAAC
1 ATATATATAT-TATAGTTTTAAAACAT--TTTTGAAAAT
137435 ATATA-ATA-TATAGTTTTAAAAACA-TTTTGAAAACT
1 ATATATATATTATAGTTTT-AAAACATTTTTGAAAA-T
137470 ATATA
1 ATATA
137475 ATTTTGAAAA
Statistics
Matches: 237, Mismatches: 28, Indels: 66
0.72 0.08 0.20
Matches are distributed among these distances:
33 1 0.00
34 36 0.15
35 43 0.18
36 56 0.24
37 39 0.16
38 30 0.13
39 17 0.07
40 8 0.03
41 7 0.03
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (36 bp):
ATATATATATTATAGTTTTAAAACATTTTTGAAAAT
Found at i:137350 original size:35 final size:33
Alignment explanation
Indices: 137289--137476 Score: 214
Period size: 35 Copynumber: 5.3 Consensus size: 33
137279 ATAAATATAT
*
137289 ATATATATATATTATAATTTTAAAACATTTTTGAAA
1 ATATATA-ATA-TATAGTTTTAAAACA-TTTTGAAA
137325 ATATATAATATATAGTTTATAAAACATTTTGAAAA
1 ATATATAATATATAGTTT-TAAAACATTTTG-AAA
*
137360 CATATATATTATATAGTTTTAAAAAAACATTTTGAAAA
1 -ATATATAATATATAGTTTT---AAAACATTTTG-AAA
*
137398 ACATATAATATATAGTTTTAAAAATCATTTTGAAA
1 ATATATAATATATAGTTTT-AAAA-CATTTTGAAA
*
137433 ACATATAATATATAGTTTTAAAAACATTTTGAAA
1 ATATATAATATATAGTTTT-AAAACATTTTGAAA
137467 ACTATATAAT
1 A-TATATAAT
137477 TTTGAAAACA
Statistics
Matches: 139, Mismatches: 5, Indels: 17
0.86 0.03 0.11
Matches are distributed among these distances:
34 23 0.17
35 53 0.38
36 31 0.22
37 17 0.12
38 15 0.11
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (33 bp):
ATATATAATATATAGTTTTAAAACATTTTGAAA
Found at i:137484 original size:28 final size:27
Alignment explanation
Indices: 137439--137531 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 27
137429 GAAAACATAT
* *
137439 AATATATAGTTTTAAAAACATTTTGAAA
1 AATATATAATTTT-AAAACATTTTAAAA
* *
137467 ACTATATAATTTTGAAAACATTTAAAAA
1 AATATATAATTTT-AAAACATTTTAAAA
*
137495 AATATATAATTTTAAAATATTTTTAAAAA
1 AATATATAATTTTAAAACA-TTTT-AAAA
137524 AATATATA
1 AATATATA
137532 TTATATAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 5 0.09
28 38 0.69
29 12 0.22
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (27 bp):
AATATATAATTTTAAAACATTTTAAAA
Found at i:137494 original size:108 final size:107
Alignment explanation
Indices: 137168--137494 Score: 292
Period size: 108 Copynumber: 3.0 Consensus size: 107
137158 TTGAAAATAT
*
137168 TTTTGAAATATATATAATATATAGTTTTAAAAAT-ATTTTGAAAACATTTATATATTATACAGTT
1 TTTTGAAATATATATAATATATAGTTTTAAAAATCATTTTGAAAACA--TATA-A-TATATAGTT
* * *** *
137232 TTTAAAACATTTTGAAAA-TAAATATAATATATAAAACATTTTTTAATA
62 TTAAAAACATTTTGAAAACT--ATATAAT-TTTAAAACATTTAAAAACA
** * * *
137280 TAAAT-ATATATATATATATATTATAATTTT-AAAA-CATTTTTGAAAATATATAATATATAG-T
1 T-TTTGAAATATATATA-ATA-TATAGTTTTAAAAATCA-TTTTGAAAACATATAATATATAGTT
* * **
137341 TTATAAAACATTTTGAAAAC-ATAT-ATATTATATAGTTTTAAAAAAACA
62 TTA-AAAACATTTTGAAAACTATATAATTTTA-AAACATTT--AAAAACA
* *
137389 TTTTGAAAAACATATAATATATAGTTTTAAAAATCATTTTGAAAACATATAATATATAGTTTTAA
1 TTTTGAAATATATATAATATATAGTTTTAAAAATCATTTTGAAAACATATAATATATAGTTTTAA
137454 AAACATTTTGAAAACTATATAATTTTGAAAACATTTAAAAA
66 AAACATTTTGAAAACTATATAATTTT-AAAACATTTAAAAA
137495 AATATATAAT
Statistics
Matches: 171, Mismatches: 27, Indels: 38
0.72 0.11 0.16
Matches are distributed among these distances:
106 2 0.01
107 15 0.09
108 55 0.32
109 25 0.15
110 30 0.18
111 2 0.01
112 15 0.09
113 9 0.05
114 18 0.11
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (107 bp):
TTTTGAAATATATATAATATATAGTTTTAAAAATCATTTTGAAAACATATAATATATAGTTTTAA
AAACATTTTGAAAACTATATAATTTTAAAACATTTAAAAACA
Found at i:137543 original size:27 final size:29
Alignment explanation
Indices: 137487--137545 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
137477 TTTGAAAACA
* *
137487 TTTAAAAAAATATATAATTTTAAAATATT
1 TTTAAAAAAATATATAATTATAAAAGATT
*
137516 TTTAAAAAAATATAT-ATTAT-ATAGATT
1 TTTAAAAAAATATATAATTATAAAAGATT
137543 TTT
1 TTT
137546 GGAAAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 8 0.30
28 4 0.15
29 15 0.56
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTAAAAAAATATATAATTATAAAAGATT
Found at i:152372 original size:32 final size:33
Alignment explanation
Indices: 152325--152406 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
152315 AAAATTTGGT
* * * *
152325 TTGGGTCGGGTTTTTTTAAGTTTGATATTCGGG
1 TTGGGTCGGGTTTTTTTAAATGTGATATTCAGA
152358 TTGGGTCGGGTTTTTTTAAATGTGATATTCAGA
1 TTGGGTCGGGTTTTTTTAAATGTGATATTCAGA
* *
152391 TCGGGTCAGGTTTTTT
1 TTGGGTCGGGTTTTTT
152407 AAAAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.15, C:0.07, G:0.30, T:0.48
Consensus pattern (33 bp):
TTGGGTCGGGTTTTTTTAAATGTGATATTCAGA
Found at i:152423 original size:31 final size:29
Alignment explanation
Indices: 152386--152462 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 29
152376 AATGTGATAT
152386 TCAGATCGGGTCAGGTTTTTTAAAAAAAAA
1 TCAGATCGGGTC-GGTTTTTTAAAAAAAAA
* *
152416 TCGAGATCGGTTCGGATTTTTTTTAAAAAAAA
1 TC-AGATCGGGTCGG--TTTTTTAAAAAAAAA
*
152448 TCAGGTTCGGGTCGG
1 TCA-GATCGGGTCGG
152463 GTTTGATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 4 0.10
31 10 0.26
32 25 0.64
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (29 bp):
TCAGATCGGGTCGGTTTTTTAAAAAAAAA
Found at i:152498 original size:28 final size:28
Alignment explanation
Indices: 152466--152567 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
152456 GGGTCGGGTT
152466 TGATATTCGGGTCGGGTTTTTTTAAGTG
1 TGATATTCGGGTCGGGTTTTTTTAAGTG
* * * *
152494 TGATATTCAGGTTGGGGTTTTTTAAGTA
1 TGATATTCGGGTCGGGTTTTTTTAAGTG
152522 TGATATTCGGGTCGGG-TTTTTTAAGTG
1 TGATATTCGGGTCGGGTTTTTTTAAGTG
*
152549 TGATATTCGGGTCAGGTTT
1 TGATATTCGGGTCGGGTTT
152568 AGGGTGAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
27 25 0.38
28 40 0.62
ACGTcount: A:0.17, C:0.07, G:0.31, T:0.45
Consensus pattern (28 bp):
TGATATTCGGGTCGGGTTTTTTTAAGTG
Found at i:152538 original size:27 final size:27
Alignment explanation
Indices: 152466--152567 Score: 150
Period size: 27 Copynumber: 3.7 Consensus size: 27
152456 GGGTCGGGTT
152466 TGATATTCGGGTCGGGTTTTTTTAAGTG
1 TGATATTCGGGTCGGG-TTTTTTAAGTG
* * *
152494 TGATATTCAGGTTGGGGTTTTTTAAGTA
1 TGATATTC-GGGTCGGGTTTTTTAAGTG
152522 TGATATTCGGGTCGGGTTTTTTAAGTG
1 TGATATTCGGGTCGGGTTTTTTAAGTG
*
152549 TGATATTCGGGTCAGGTTT
1 TGATATTCGGGTCGGGTTT
152568 AGGGTGAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 34 0.52
28 26 0.39
29 6 0.09
ACGTcount: A:0.17, C:0.07, G:0.31, T:0.45
Consensus pattern (27 bp):
TGATATTCGGGTCGGGTTTTTTAAGTG
Found at i:157143 original size:19 final size:19
Alignment explanation
Indices: 157122--157157 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
157112 AATATATTTA
157122 AAAACA-ATAAAATAAATT
1 AAAACATATAAAATAAATT
157140 AAAACATATAAAATAAAT
1 AAAACATATAAAATAAAT
157158 GACTAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAACATATAAAATAAATT
Found at i:157729 original size:13 final size:13
Alignment explanation
Indices: 157711--157752 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
157701 CCACCGTACT
157711 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
157724 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
157737 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
157750 CCG
1 CCG
157753 TAACGGTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:158457 original size:3 final size:3
Alignment explanation
Indices: 158449--158589 Score: 218
Period size: 3 Copynumber: 47.7 Consensus size: 3
158439 TTATTTATTA
* *
158449 AAT AAT AAT AAT ATAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT ACT
1 AAT AAT AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
158496 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
158543 AAT AAT -AT AAT AAT -AT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
158588 AA
1 AA
158590 AATGGATAAA
Statistics
Matches: 128, Mismatches: 4, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
2 8 0.06
3 114 0.89
4 6 0.05
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:159475 original size:114 final size:113
Alignment explanation
Indices: 158886--159896 Score: 1725
Period size: 113 Copynumber: 8.9 Consensus size: 113
158876 GATATCAAAC
*
158886 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * * * * **
158951 CATGAACTTTCTTTGGCCATGTTGATCCATCAAATGATGAATTTAAACA
66 -ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
*
159000 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
159065 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
* *
159113 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
159178 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGTTTCAGGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
159226 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
159291 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
*
159339 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
159404 CATGAACTTTCTTTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
66 -ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
*
159453 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
159518 CATGAACTTTCTTTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 -ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
*
159567 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
159632 CATGAACTTTCTTTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 -ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
*
159681 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
159746 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
159794 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
159859 ATGAACCTTCTCTGGTAATGATGATCCATCAAATGATG
66 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATG
159897 AATTTGAATC
Statistics
Matches: 859, Mismatches: 37, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
113 463 0.54
114 396 0.46
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCA
Found at i:160581 original size:52 final size:51
Alignment explanation
Indices: 160518--160629 Score: 163
Period size: 52 Copynumber: 2.2 Consensus size: 51
160508 TCCAAATTAA
*
160518 ATGCT-TGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATG-TTCT-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
160570 ATGCTATATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCT-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
160622 ATGCTATG
1 ATGCTATG
160630 AATTTCTTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 54 0.98
53 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (51 bp):
ATGCTATGTTCTTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
Found at i:160828 original size:50 final size:50
Alignment explanation
Indices: 160643--161099 Score: 824
Period size: 50 Copynumber: 9.0 Consensus size: 50
160633 TTCTTCTTCC
160643 TTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTTC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
*
160694 TTCTGTCCAACCAGATCAGACAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCT-T-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
160746 TTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTTC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
160797 TTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
160847 TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCT-TC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
160899 TTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
160949 TTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
160999 TTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 TTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
*
161049 TTCTGTCCAACCAGATCAGACAACTCAAAGAACACTTCCAGAAGATGCTAT
1 TTCT-T-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
161100 TGAGCACATA
Statistics
Matches: 396, Mismatches: 3, Indels: 13
0.96 0.01 0.03
Matches are distributed among these distances:
50 197 0.50
51 59 0.15
52 139 0.35
53 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (50 bp):
TTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
Found at i:160903 original size:102 final size:101
Alignment explanation
Indices: 160643--161099 Score: 844
Period size: 102 Copynumber: 4.5 Consensus size: 101
160633 TTCTTCTTCC
160643 TTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 TTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT-T-CAACCAG
*
160708 ATCAGACAACTCAAAGAACACTTCCAGAAGATGCTATG
64 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
160746 TTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGAT
1 TTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGAT
160811 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
66 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
160847 TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGA
1 TTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGA
160912 TCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
65 TCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
160949 TTCTTC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGAT
1 TTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGAT
161013 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
66 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
* *
161049 TTCTGTCCAACCAGATCAGACAACTCAAAGAACACTTCCAGAAGATGCTAT
1 TTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
161100 TGAGCACATA
Statistics
Matches: 349, Mismatches: 2, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
100 98 0.28
101 52 0.15
102 144 0.41
103 55 0.16
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (101 bp):
TTCTTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGAT
CAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
Found at i:161005 original size:202 final size:205
Alignment explanation
Indices: 160643--161099 Score: 859
Period size: 202 Copynumber: 2.2 Consensus size: 205
160633 TTCTTCTTCC
160643 TTCT-TCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
1 TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
160707 GATCAGACAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAGATAACTCA
66 GATCAGACAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAGATAACTCA
160772 AAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGA
131 AAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGA
160837 AGATGCTATG
196 AGATGCTATG
160847 TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCT-T-CAACCA
1 TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
160910 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTC-AACCAGATCAGATAACTCA
66 GATCAGACAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAGATAACTCA
160974 AAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGA
131 AAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGA
161039 AGATGCTATG
196 AGATGCTATG
* *
161049 TTCTGTCCAACCAGATCAGACAACTCAAAGAACACTTCCAGAAGATGCTAT
1 TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
161100 TGAGCACATA
Statistics
Matches: 249, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
202 143 0.57
203 50 0.20
204 5 0.02
205 51 0.20
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (205 bp):
TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
GATCAGACAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTTCTAACCAGATCAGATAACTCA
AAGAACACTTCCAGAAGATGCTATGTTCTTCAACCAGATCAGATAACTCAAAGAACACTTCCAGA
AGATGCTATG
Found at i:162056 original size:1 final size:1
Alignment explanation
Indices: 162052--162115 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
162042 TTTTTCTCTC
* * * ** * * *
162052 TTTTTTTTTCTTCTTTTTTTTTTCTTTTTCATTTTCTATTTTTTTTTCTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
162116 CTTCAAGCAT
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Done.