Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold49
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: 1668912
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 42860 characters in sequence are not A, C, G, or T
File 9 of 9
Found at i:1474293 original size:13 final size:13
Alignment explanation
Indices: 1474275--1474299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1474265 CATAAAGTGT
1474275 TGTATCGATACAA
1 TGTATCGATACAA
1474288 TGTATCGATACA
1 TGTATCGATACA
1474300 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1474299 original size:33 final size:33
Alignment explanation
Indices: 1474257--1474321 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1474247 CAACGATTTT
1474257 TATCGATACATAAAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
*** *
1474290 TATCGATACATATTTTTTTGTATCGATACAAT
1 TATCGATACATAAAGTGTTGTATCGATACAAT
1474322 TCAAGCTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TATCGATACATAAAGTGTTGTATCGATACAATG
Found at i:1474380 original size:13 final size:13
Alignment explanation
Indices: 1474362--1474386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1474352 ATCACTTAAA
1474362 TGTATCGATACAT
1 TGTATCGATACAT
1474375 TGTATCGATACA
1 TGTATCGATACA
1474387 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1476372 original size:20 final size:20
Alignment explanation
Indices: 1476331--1476372 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1476321 ACCACCTCAC
* *
1476331 AAACACAAATAAGATATGAA
1 AAACACAAATAAGAAATCAA
1476351 AAACACAAGATAA-AAATCAA
1 AAACACAA-ATAAGAAATCAA
1476371 AA
1 AA
1476373 CGTATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.69, C:0.12, G:0.07, T:0.12
Consensus pattern (20 bp):
AAACACAAATAAGAAATCAA
Found at i:1523877 original size:51 final size:51
Alignment explanation
Indices: 1523708--1523877 Score: 193
Period size: 51 Copynumber: 3.4 Consensus size: 51
1523698 GATGAAATAA
* *
1523708 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAAT
* * * *
1523760 CG-GGTTGGAGTAT-CCCGATTAAAGGAAAATTGGTGTTTT-GAAATAAAAC
1 CGAGGTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAAT
* * *** *
1523809 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
1523860 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
1523878 TCGGAAATAA
Statistics
Matches: 98, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
49 11 0.11
50 33 0.34
51 52 0.53
52 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
Found at i:1527737 original size:3 final size:3
Alignment explanation
Indices: 1527729--1527791 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
1527719 TTAACAAAAC
1527729 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1527777 TAT TAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT T
1527792 TCCTTTCTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1530878 original size:21 final size:21
Alignment explanation
Indices: 1530849--1530901 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1530839 AATGAATAAC
**
1530849 GTATTGATACATTGCAAGCAT
1 GTATTGATACATCACAAGCAT
* * *
1530870 GTATCGATATATCATAAGCAT
1 GTATTGATACATCACAAGCAT
1530891 GTATTGATACA
1 GTATTGATACA
1530902 ATTTTTCCAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (21 bp):
GTATTGATACATCACAAGCAT
Found at i:1532317 original size:28 final size:28
Alignment explanation
Indices: 1532256--1532337 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1532246 TTTTGGAGAT
*
1532256 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
1532284 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
1532312 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
1532338 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:1532479 original size:51 final size:51
Alignment explanation
Indices: 1532317--1532489 Score: 195
Period size: 52 Copynumber: 3.4 Consensus size: 51
1532307 GATGAAATAA
* *
1532317 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAAT
* * * * *
1532369 CG-GTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAAC
1 CGAG-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAAT
* * *** *
1532421 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
1532472 CGAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
1532490 TCGGAAATAA
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
51 38 0.38
52 51 0.51
53 11 0.11
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
Found at i:1532598 original size:54 final size:51
Alignment explanation
Indices: 1532531--1532666 Score: 143
Period size: 51 Copynumber: 2.6 Consensus size: 51
1532521 GATTAATGGG
*
1532531 GTTGGAATGTCCCCGATTGTGAAGAAATTGATGTTTTTTGGAAA-TAAAATCGGA
1 GTTGGAATATCCCCGATTGTG-AGAAATTGATG--TTTT-GAAAGTAAAATCGGA
* * *
1532585 GTTGGAGTATCCCCGATTAT-AGAAAATTAATGTTTTGAAAGTAAAATCGGA
1 GTTGGAATATCCCCGATTGTGAG-AAATTGATGTTTTGAAAGTAAAATCGGA
* *
1532636 GTTAGAATATCCTCGATTGTG-GAGAATTGAT
1 GTTGGAATATCCCCGATTGTGAGA-AATTGAT
1532667 AAACTCAACA
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
50 5 0.07
51 37 0.54
52 2 0.03
53 8 0.12
54 17 0.25
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTGTGAGAAATTGATGTTTTGAAAGTAAAATCGGA
Found at i:1535036 original size:13 final size:13
Alignment explanation
Indices: 1535018--1535043 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1535008 ACAAAGATCC
1535018 ATGTATCGATACA
1 ATGTATCGATACA
1535031 ATGTATCGATACA
1 ATGTATCGATACA
1535044 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1535039 original size:33 final size:33
Alignment explanation
Indices: 1534997--1535063 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1534987 AAAATTTCCA
***
1534997 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1535030 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1535063 A
1 A
1535064 TTTCCTCGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1535107 original size:19 final size:18
Alignment explanation
Indices: 1535083--1535150 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1535073 CAGTAGCTAA
1535083 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1535102 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1535117 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1535134 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1535151 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1535123 original size:13 final size:13
Alignment explanation
Indices: 1535105--1535129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1535095 ACAATACTTA
1535105 TGTATCGATACAT
1 TGTATCGATACAT
1535118 TGTATCGATACA
1 TGTATCGATACA
1535130 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1535127 original size:32 final size:32
Alignment explanation
Indices: 1535086--1535148 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1535076 TAGCTAATTA
*
1535086 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1535118 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1535149 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1535230 original size:21 final size:21
Alignment explanation
Indices: 1535206--1535262 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1535196 CATTTGTAGG
1535206 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1535227 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1535248 ATGTATCGATACATT
1 ATGTATCGATACATT
1535263 TGGAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1535291 original size:17 final size:17
Alignment explanation
Indices: 1535269--1535302 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1535259 CATTTGGAAT
1535269 TTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTCAA
1535286 TTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTCAA
1535303 ACACTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTTTTTCAA
Found at i:1542535 original size:12 final size:12
Alignment explanation
Indices: 1542520--1542544 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1542510 AGAATATTGG
1542520 TAATTTCTAAAA
1 TAATTTCTAAAA
1542532 TAATTTCTAAAA
1 TAATTTCTAAAA
1542544 T
1 T
1542545 TATGTCTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATTTCTAAAA
Found at i:1550596 original size:156 final size:155
Alignment explanation
Indices: 1550332--1550978 Score: 680
Period size: 156 Copynumber: 4.2 Consensus size: 155
1550322 GTTAAGTTTA
* * * * *
1550332 AAAAAATTACGAAAATACCCTTAAGAG-ATACCTTCGACGTAAAAGTA-CTTGATACCCTTAAAA
1 AAAAAATTACGAAAATGCCCTTATGAGTATACCTTCGACGTAAAAGTATCTCGGTACCC-TAAAG
* * * * * *
1550395 GACCTAAAAAGGA-TAGAAATGAGATGAACCTATCTTAAATGCTCACCTTCGGCATAAAAG-TGA
65 GACCTAAAAA-GATTAGAAAAGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAG-
* * * *
1550458 ACCTAGTGACGACCTAAGAGTTGGTTCT
128 ACCTAGTGACAACCTAAGACTTGATTTT
** * * *
1550486 AAAAAATTATAAAAATGCCCCTATGAGTATACTTTCGATGTAAAAGTATCTCGGTAACCCTAAAG
1 AAAAAATTACGAAAATGCCCTTATGAGTATACCTTCGACGTAAAAGTATCTCGGT-ACCCTAAAG
* * *
1550551 GACCTAAAAAGATTAGAAAAGTGATGAACCTATCCTAATTACTCACTTTCGGCATAAAAGCAGAC
65 GACCTAAAAAGATTAGAAAAGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGAC
* ** * ** * *
1550616 CTGGTGATGACTTAAGTGTTGGTTATA
130 CTAGTGACAACCTAAGACTTGATT-TT
* * * *
1550643 AAAAAATTACGAAAATGCCCTGAAG-GGATACCTTCGACGTGAAAGTATCTCGGTACCCTAAAGG
1 AAAAAATTACGAAAATGCCCTTATGAGTATACCTTCGACGTAAAAGTATCTCGGTACCCTAAAGG
* *
1550707 ACTTAAAAAGATTA-AAAATGGTGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAAGCAG
66 ACCTAAAAAGATTAGAAAA--GTGATGAACCTATCCTAAATACCCACCTTCGGCAT-AAAAGCAG
** *
1550771 ACCCGGTGACAACCTAAGACTCGATTTT
128 ACCTAGTGACAACCTAAGACTTGATTTT
* ** ** * * *
1550799 AAAAAATTACAAAAATATCCTTATGAGTATACCTTCGGTGTAAAAGTACCTTGGCAACCCTAAAG
1 AAAAAATTACGAAAATGCCCTTATGAGTATACCTTCGACGTAAAAGTATCTCGG-TACCCTAAAG
* * * *
1550864 GACCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGC-GAA
65 GACCTAAAAAGATTAGAAAAGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAG-A
1550928 CC-AGTGACAACCTAAGACTTGATTTT
129 CCTAGTGACAACCTAAGACTTGATTTT
1550954 AAAAAATTACGAAAATGCCCTTATG
1 AAAAAATTACGAAAATGCCCTTATG
1550979 TAAAAGTATC
Statistics
Matches: 411, Mismatches: 69, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
154 26 0.06
155 88 0.21
156 167 0.41
157 104 0.25
158 22 0.05
159 4 0.01
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (155 bp):
AAAAAATTACGAAAATGCCCTTATGAGTATACCTTCGACGTAAAAGTATCTCGGTACCCTAAAGG
ACCTAAAAAGATTAGAAAAGTGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACC
TAGTGACAACCTAAGACTTGATTTT
Found at i:1550896 original size:313 final size:306
Alignment explanation
Indices: 1550328--1551139 Score: 861
Period size: 313 Copynumber: 2.7 Consensus size: 306
1550318 AAGGGTTAAG
* *
1550328 TTTAAAAAAATTACGAAAATACCCTTAAGAGATACCTTCGACGTAAAAGTA-CTTGATACCCTTA
1 TTTAAAAAAATTACGAAAATGCCC-TAAG-GATACCTTCGACGTAAAAGTATCTCGATACCC-TA
* * * * * * * *
1550392 AAAGACCTAAAAAGGATAGAAATGAGATGAACCTATCTTAAATGCTCACCTTCGGCATAAAAG-T
63 AAGGACTTAAAAA-GATAAAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCA
* * * * * * * *
1550456 GAACCTAGTGACGACCTAAGAGTTGGTTCTAAAAAATTATAAAAATGCCCCTATGAGTATACTTT
127 G-ACCTGGTGACAACCTAAGACTCGGTTTTAAAAAATTACAAAAATACCCCTATGAGTATACCTT
* * * *
1550521 CGATGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGATTAGAAAAGTGATGAACCTATCC
191 CGATGTAAAAGTACCTCGGCAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAACCTATCC
* * * * * ** * ** *
1550586 TAATTACTCACTTTCGGCATAAAAGC-AGACCTGGTGATGACTTAAGTGTTGG
256 TAAATACCCACCTTCGACATAAAAGCGA-ACC-AGTGACAACCTAAGACTTGA
* *
1550638 TTATAAAAAAATTACGAAAATGCCCTGAAGGGATACCTTCGACGTGAAAGTATCTCGGTACCCTA
1 TT-TAAAAAAATTACGAAAATGCCCT-AA-GGATACCTTCGACGTAAAAGTATCTCGATACCCTA
*
1550703 AAGGACTTAAAAAGATTAAAAATGGTGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAAG
63 AAGGACTTAAAAAGA-TAAAAATGG-GATGAACCTATCCTAAATACCCACCTTCGGCAT-AAAAG
* * * *
1550768 CAGACCCGGTGACAACCTAAGACTCGATTTTAAAAAATTACAAAAATATCCTTATGAGTATACCT
125 CAGACCTGGTGACAACCTAAGACTCGGTTTTAAAAAATTACAAAAATACCCCTATGAGTATACCT
* *
1550833 TCGGTGTAAAAGTACCTTGGCAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAACCTATC
190 TCGATGTAAAAGTACCTCGGCAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAACCTATC
*
1550898 CTAAATGCCCACCTTCGACATAAAAGCGAACCAGTGACAACCTAAGACTTGA
255 CTAAATACCCACCTTCGACATAAAAGCGAACCAGTGACAACCTAAGACTTGA
* *
1550950 TTTTAAAAAATTACGAAAATGCCCT-----TA---T----GTAAAAGTATC-CTGACAACCCTAA
1 TTTAAAAAAATTACGAAAATGCCCTAAGGATACCTTCGACGTAAAAGTATCTC-GA-TACCCTAA
* * *
1551002 AGGACTTAAAAAGGCTAGAAAA-GGG-TAAACCTATCCTAAATACCCACCTTCGGCATAGAAGCA
64 AGGACTTAAAAA-GATA-AAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCA
* * *
1551065 GACCTGGTGATAACCTAAGACTCGGTTTTAAAAAATTACAAAAATACCCCTA-AAGGATACCTTC
127 GACCTGGTGACAACCTAAGACTCGGTTTTAAAAAATTACAAAAATACCCCTATGAGTATACCTTC
**
1551129 GACATAAAAGT
192 GATGTAAAAGT
1551140 GCTCGAAGAT
Statistics
Matches: 428, Mismatches: 61, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
294 18 0.04
295 53 0.12
296 30 0.07
297 12 0.03
298 23 0.05
299 5 0.01
301 1 0.00
304 2 0.00
310 5 0.01
311 85 0.20
312 53 0.12
313 139 0.32
314 2 0.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (306 bp):
TTTAAAAAAATTACGAAAATGCCCTAAGGATACCTTCGACGTAAAAGTATCTCGATACCCTAAAG
GACTTAAAAAGATAAAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACC
TGGTGACAACCTAAGACTCGGTTTTAAAAAATTACAAAAATACCCCTATGAGTATACCTTCGATG
TAAAAGTACCTCGGCAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAAT
ACCCACCTTCGACATAAAAGCGAACCAGTGACAACCTAAGACTTGA
Found at i:1551094 original size:140 final size:140
Alignment explanation
Indices: 1550837--1551109 Score: 390
Period size: 140 Copynumber: 1.9 Consensus size: 140
1550827 ATACCTTCGG
* *
1550837 TGTAAAAGTACCTTGGCAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAA
1 TGTAAAAGTACCTTGACAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATAAACCTATCCTAA
* * *
1550902 ATGCCCACCTTCGACATAAAAGCGAACCAGTGACAACCTAAGACTTGATTTTAAAAAATTACGAA
66 ATACCCACCTTCGACATAAAAGCGAACCAGTGACAACCTAAGACTCGATTTTAAAAAATTACAAA
1550967 AATGCCCTTA
131 AATGCCCTTA
* *
1550977 TGTAAAAGTATCC-TGACAACCCTAAAGGACTTAAAAAGGCTAGAAAAGGG-TAAACCTATCCTA
1 TGTAAAAGTA-CCTTGACAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATAAACCTATCCTA
* * * * *
1551040 AATACCCACCTTCGGCATAGAAGC-AGACCTGGTGATAACCTAAGACTCGGTTTTAAAAAATTAC
65 AATACCCACCTTCGACATAAAAGCGA-ACC-AGTGACAACCTAAGACTCGATTTTAAAAAATTAC
1551104 AAAAAT
128 AAAAAT
1551110 ACCCCTAAAG
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
138 1 0.01
139 36 0.31
140 79 0.67
141 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (140 bp):
TGTAAAAGTACCTTGACAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATAAACCTATCCTAA
ATACCCACCTTCGACATAAAAGCGAACCAGTGACAACCTAAGACTCGATTTTAAAAAATTACAAA
AATGCCCTTA
Found at i:1551765 original size:149 final size:149
Alignment explanation
Indices: 1551597--1551991 Score: 526
Period size: 150 Copynumber: 2.6 Consensus size: 149
1551587 ATTTTCTTTA
** * **
1551597 AAAAAAATCATTTAATACCTTGATGGAAACCCGCCAAA-ATA-GAAAAAAATTTT-AAATCTTTT
1 AAAAAAATCATTTCGTACCTTAATGGAAACCC-AAAAAGATACG-AAAAAATTTTCAAATCTTTT
*
1551659 AATACCCCTACGAATACCTATAGGAATATAAAAGATTAAAAACGGTTAATATTTATTTTAGTGAG
64 -ATACCCCTACGAATACCCATAGGAATATAAAAGATTAAAAACGGTTAATATTTATTTTAGTGAG
1551724 GAGAGTTAATTTAATTATTTCT
128 GAGAGTTAATTTAATTATTTCT
* * **
1551746 AAAAAAATCATTTCGTACCTTAATGGATATCCAAAAAGATACGAAAAGTTTTTCGAAATCTTTTA
1 AAAAAAATCATTTCGTACCTTAATGGAAACCCAAAAAGATACGAAAAAATTTTC-AAATCTTTTA
** *
1551811 TATTCCTACGGATACCCATAGGAATATAAAAGATTAAAAACGGTTAATATTTATTTTAGTGAGGA
65 TACCCCTACGAATACCCATAGGAATATAAAAGATTAAAAACGGTTAATATTTATTTTAGTGAGGA
1551876 GAGTTAATTTAATTATTTCT
130 GAGTTAATTTAATTATTTCT
* * **
1551896 AAAAAAATCATTTCGTACCTTAATGGATATCCAAAAAGATACGAAAAGTTTTTCGAAATCTTTTA
1 AAAAAAATCATTTCGTACCTTAATGGAAACCCAAAAAGATACGAAAAAATTTTC-AAATCTTTTA
** * * *
1551961 TATTCTTACGGATACCTATAGGAATATAAAA
65 TACCCCTACGAATACCCATAGGAATATAAAA
1551992 AACTTGAAAA
Statistics
Matches: 227, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
148 3 0.01
149 38 0.17
150 177 0.78
151 9 0.04
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (149 bp):
AAAAAAATCATTTCGTACCTTAATGGAAACCCAAAAAGATACGAAAAAATTTTCAAATCTTTTAT
ACCCCTACGAATACCCATAGGAATATAAAAGATTAAAAACGGTTAATATTTATTTTAGTGAGGAG
AGTTAATTTAATTATTTCT
Found at i:1552131 original size:129 final size:130
Alignment explanation
Indices: 1551899--1552146 Score: 340
Period size: 129 Copynumber: 1.9 Consensus size: 130
1551889 TATTTCTAAA
* *
1551899 AAAATCATTTCGTACCTTAATGGATATCCAAAAAGATACGAAAAGTTTTTCGAAATCTTTTATAT
1 AAAATCATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTCAAAATCTTTTATAT
* * * *
1551964 TCTTACGGATACCTATAGGAATATAAAAAACTTGAAAATAATTGATATTTATTTAAGTTTTGAAG
66 TCTTACGGATACCCATAAGAATATAAAAAACTTAAAAATAATTAATATTTATTTAAGTTTTGAAG
* * * *
1552029 AAAATTATTTTGTATCTTAATGGATACCCGAAAAGATACGAAAAGTTTTT-AAAATCTTTTATAC
1 AAAATCATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTCAAAATCTTTTATA-
* * *
1552093 TTC-TACGGATACCCATAAGAATATAAAAGA-TTAAAAAATGATTAATGTTTATTT
65 TTCTTACGGATACCCATAAGAATATAAAAAACTT-AAAAATAATTAATATTTATTT
1552147 TAATTAACAA
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
128 2 0.02
129 53 0.51
130 48 0.47
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (130 bp):
AAAATCATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTCAAAATCTTTTATAT
TCTTACGGATACCCATAAGAATATAAAAAACTTAAAAATAATTAATATTTATTTAAGTTTTGAAG
Found at i:1553134 original size:31 final size:31
Alignment explanation
Indices: 1553067--1553135 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
1553057 ACTAGTCAAG
*
1553067 CTTTTCTATTTTTTTTTCGATATTTTCTTCT
1 CTTTTTTATTTTTTTTTCGATATTTTCTTCT
* ** *
1553098 ATTTTTTATTTTTTCTTTCTCTCTTTTC-TCT
1 CTTTTTTATTTTTT-TTTCGATATTTTCTTCT
1553129 CTTTTTT
1 CTTTTTT
1553136 TTTGGGTGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.74
Consensus pattern (31 bp):
CTTTTTTATTTTTTTTTCGATATTTTCTTCT
Found at i:1553946 original size:166 final size:166
Alignment explanation
Indices: 1553766--1554336 Score: 641
Period size: 166 Copynumber: 3.5 Consensus size: 166
1553756 AAAAAGAGAA
* *
1553766 TTTCAATA-AAAAAATTCAAAAATCATGAAAATGAATTAATTTTTTAAAACTGAATTAATATG-A
1 TTTCAA-AGAAAAAATTCAAAAATCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAA
* *
1553829 ATCAAATGATGATATTTGATGAATTCTAAAAAATTGAAAAATGAGAAAAATCCCCTCGAAAAAA-
65 AT-AAATAATGATATTTGATGAATT-TAAAAAATTGAAAAATAAGAAAAATCCCCTCGAAAAAAT
*
1553893 TTACGGAGTAGAAAACACTGTATTTAGGAAAAAGGAAAG
128 TTACGGAGTAGAAAACACTGTATTTAGAAAAAAGGAAAG
* *
1553932 TTTCAAAGAAAAAATTC-AAAA--ATG--AATG-AT---TTTTTAAAAACTGAATTAATATAAAA
1 TTTCAAAGAAAAAATTCAAAAATCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAA
* * * *
1553988 TAAATAATGATGTTTGATGAATTTAAAAAATT-AAAAACAAGAAAAAT-CTCT-TAAAAAATTTA
66 TAAATAATGATATTTGATGAATTTAAAAAATTGAAAAATAAGAAAAATCCCCTCGAAAAAATTTA
* * * *
1554050 CAGAGTTGAAAACACTATATTT--CAAAAA--AAAG
131 CGGAGTAGAAAACACTGTATTTAGAAAAAAGGAAAG
* * *
1554082 TTTCAAGGAAAAAACT-AAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGTA
1 TTTCAAAGAAAAAATTCAAAAA-TCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAA
* * * * *
1554146 ATAAATAATTATATTTGATAAATTTTAAAAATTGAAAACTAAGAAAAATCTCCTCGAAAAAATTT
65 ATAAATAATGATATTTGATGAATTTAAAAAATTGAAAAATAAGAAAAATCCCCTCGAAAAAATTT
*
1554211 ACGGAGTATAAAACA-TCGTATTTTAGAAAAATAGG--AG
130 ACGGAGTAGAAAACACT-GTA-TTTAGAAAAA-AGGAAAG
* *
1554248 TTTCAAGGAAAAAA-TCAAAAGCTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAA
1 TTTCAAAGAAAAAATTCAAAA-ATCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAA
* * *
1554312 ATAAATGATAATATTTAATGAATTT
65 ATAAATAATGATATTTGATGAATTT
1554337 TGATGCTTGA
Statistics
Matches: 343, Mismatches: 37, Indels: 50
0.80 0.09 0.12
Matches are distributed among these distances:
150 22 0.06
152 5 0.01
153 9 0.03
154 25 0.07
155 17 0.05
156 11 0.03
157 41 0.12
158 3 0.01
159 51 0.15
160 15 0.04
161 7 0.02
162 23 0.07
163 6 0.02
165 10 0.03
166 98 0.29
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (166 bp):
TTTCAAAGAAAAAATTCAAAAATCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAA
TAAATAATGATATTTGATGAATTTAAAAAATTGAAAAATAAGAAAAATCCCCTCGAAAAAATTTA
CGGAGTAGAAAACACTGTATTTAGAAAAAAGGAAAG
Found at i:1555489 original size:24 final size:22
Alignment explanation
Indices: 1555446--1555490 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1555436 TAATTTTAAT
*
1555446 TATTTATAAAATATATAATAAA
1 TATTTATAAAATATAAAATAAA
*
1555468 TATTTTTAAAATAAATAAAATAA
1 TATTTATAAAAT--ATAAAATAA
1555491 TAATCATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
24 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTTATAAAATATAAAATAAA
Found at i:1555748 original size:16 final size:16
Alignment explanation
Indices: 1555727--1555757 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1555717 TTTAATATTG
*
1555727 AAATAATCTAAATTTA
1 AAATAATATAAATTTA
1555743 AAATAATATAAATTT
1 AAATAATATAAATTT
1555758 TTTTTAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATAATATAAATTTA
Found at i:1555893 original size:10 final size:10
Alignment explanation
Indices: 1555875--1555908 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
1555865 TAGTTTTTAC
1555875 TAATTTAAAT
1 TAATTTAAAT
*
1555885 TAATCTAAAT
1 TAATTTAAAT
1555895 TAATTTAAAT
1 TAATTTAAAT
1555905 TAAT
1 TAAT
1555909 ATTTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:1555918 original size:20 final size:19
Alignment explanation
Indices: 1555869--1555918 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
1555859 TAGATATAGT
*
1555869 TTTTACTAATTTAAATTAA
1 TTTTAATAATTTAAATTAA
* *
1555888 TCTAAATTAATTTAAATTAA
1 TTTTAA-TAATTTAAATTAA
1555908 TATTTAATAAT
1 T-TTTAATAAT
1555919 AAAAATATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTAATAATTTAAATTAA
Found at i:1555928 original size:28 final size:29
Alignment explanation
Indices: 1555875--1555954 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
1555865 TAGTTTTTAC
* * * *
1555875 TAATTTAAATTAATCTAAATTAATTTAAAT
1 TAATTTTAA-TAATATAAAATATTTTAAAT
* *
1555905 TAATATTTAATAATA-AAAATATTTTTATT
1 TAAT-TTTAATAATATAAAATATTTTAAAT
*
1555934 TAATTTTAATTATATAAAATA
1 TAATTTTAATAATATAAAATA
1555955 AATATTAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
28 9 0.22
29 20 0.49
30 8 0.20
31 4 0.10
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TAATTTTAATAATATAAAATATTTTAAAT
Found at i:1559566 original size:70 final size:70
Alignment explanation
Indices: 1559458--1559591 Score: 234
Period size: 70 Copynumber: 1.9 Consensus size: 70
1559448 ATTGACAGCA
*
1559458 TTTTTTTTTTTTAAATTCATTTTAGTTTTATTGGCATAG-TCCTATCAAGTTTTTCCTCTACTAT
1 TTTTTTTTTTTTAAATTCATTTTAGTTTTATTGGCATAGTTCCTATCAAGTTTTTCCCCTACTAT
1559522 AATTT
66 AATTT
*
1559527 TTTTTTTTTTTTAAGTTTCATTTTAGTTTTATTGGCATAGTTCCTATCAAGTTTTTCCCCTACTA
1 TTTTTTTTTTTTAA-ATTCATTTTAGTTTTATTGGCATAGTTCCTATCAAGTTTTTCCCCTACTA
1559592 CTCTAATTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 14 0.23
70 24 0.39
71 23 0.38
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.57
Consensus pattern (70 bp):
TTTTTTTTTTTTAAATTCATTTTAGTTTTATTGGCATAGTTCCTATCAAGTTTTTCCCCTACTAT
AATTT
Found at i:1563341 original size:5 final size:5
Alignment explanation
Indices: 1563331--1563371 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
1563321 CATAATTTTA
1563331 TTATT TTATT TTATT TTATT TTATT TTATT TTA-T TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
1563372 GAATATGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:1569277 original size:27 final size:26
Alignment explanation
Indices: 1569247--1569304 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
1569237 CTAGTTTGGA
*
1569247 TAAAATATCCTATCCAA-TTTTAAATTT
1 TAAAATAT--TATCCAATTTTTAAAATT
*
1569274 TAAATTATTATCCAATTTTTAAAATT
1 TAAAATATTATCCAATTTTTAAAATT
1569300 TAAAA
1 TAAAA
1569305 ATAATAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 7 0.26
26 13 0.48
27 7 0.26
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAAATATTATCCAATTTTTAAAATT
Found at i:1571416 original size:21 final size:21
Alignment explanation
Indices: 1571378--1571418 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1571368 TATGTATATG
*
1571378 TGTAAGATCCATTCATTAATT
1 TGTAAGATCAATTCATTAATT
1571399 TGTAAGATCAATAT-ATTAAT
1 TGTAAGATCAAT-TCATTAAT
1571419 CATTATTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
TGTAAGATCAATTCATTAATT
Found at i:1574036 original size:23 final size:21
Alignment explanation
Indices: 1574009--1574051 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
1573999 TTAAATGTCA
*
1574009 AATAAAAGTAATACAATAAATTT
1 AATAAAAATAATA-AA-AAATTT
1574032 AATAAAAATAATAAAAAATT
1 AATAAAAATAATAAAAAATT
1574052 AAAAAGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 2 0.11
23 12 0.63
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAAAAATAATAAAAAATTT
Found at i:1574632 original size:3 final size:3
Alignment explanation
Indices: 1574584--1574617 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1574574 TTTTTATAAG
1574584 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1574618 GTTGTTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1574995 original size:19 final size:18
Alignment explanation
Indices: 1574971--1575007 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1574961 TTTGATAATA
*
1574971 TATATATTTATTTTATATT
1 TATATATTT-TATTATATT
1574990 TATATATTTTATTATATT
1 TATATATTTTATTATATT
1575008 ATAAACGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATATATTTTATTATATT
Found at i:1574997 original size:15 final size:15
Alignment explanation
Indices: 1574969--1575006 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1574959 GATTTGATAA
*
1574969 TATATATATTTATTT
1 TATATATATATATTT
*
1574984 TATATTTATATATTT
1 TATATATATATATTT
1574999 TAT-TATAT
1 TATATATAT
1575007 TATAAACGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATATATATATTT
Found at i:1575734 original size:30 final size:31
Alignment explanation
Indices: 1575700--1575770 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 31
1575690 AACATAACAT
**
1575700 AAAATTTATAAATG-TATCAAAATTTATATA
1 AAAATTTATAAATGATATCAAAAAATATATA
* * * *
1575730 AAAA-TAATGATTGATATTAAAAAATATATA
1 AAAATTTATAAATGATATCAAAAAATATATA
1575760 AAAATTTATAA
1 AAAATTTATAA
1575771 TTATTTACAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
29 6 0.19
30 21 0.68
31 4 0.13
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (31 bp):
AAAATTTATAAATGATATCAAAAAATATATA
Found at i:1577242 original size:20 final size:20
Alignment explanation
Indices: 1577213--1577264 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1577203 ATCGATACAT
*
1577213 TGTATTGATACAAAGCATAA
1 TGTATCGATACAAAGCATAA
1577233 TGTATCGATACAAAGCATAA
1 TGTATCGATACAAAGCATAA
1577253 TGTATCGATACA
1 TGTATCGATACA
1577265 TCCAAGGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAAAGCATAA
Found at i:1577510 original size:19 final size:19
Alignment explanation
Indices: 1577471--1577510 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1577461 CTTGTTTACG
*
1577471 ATTTTTTCAATATTTTTTT
1 ATTTTTTCAATATTTTGTT
1577490 ATTTTATTCAATA-TTTGTT
1 ATTTT-TTCAATATTTTGTT
1577509 AT
1 AT
1577511 ATCAAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTTTTCAATATTTTGTT
Found at i:1578510 original size:20 final size:21
Alignment explanation
Indices: 1578483--1578551 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 21
1578473 TTTTATATTA
1578483 TATAATTAAAAAATTAATAAT
1 TATAATTAAAAAATTAATAAT
** *
1578504 T-TAATTAAAATTTTTATAATTT
1 TATAATTAAAAAATTAATAA--T
*
1578526 TATAATTAAAAAATTAAAAAT
1 TATAATTAAAAAATTAATAAT
1578547 TATAA
1 TATAA
1578552 AATATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 15 0.39
21 7 0.18
22 2 0.05
23 14 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATAATTAAAAAATTAATAAT
Found at i:1578785 original size:29 final size:30
Alignment explanation
Indices: 1578722--1578795 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
1578712 TTTTAAAAAA
* * * *
1578722 TATTATATATTAATATTTATATATTTTTAT
1 TATTAAATTTTAATAATAATATATTTTTAT
*
1578752 AATTAAATTTTAATAATAATAT-TTTTTAT
1 TATTAAATTTTAATAATAATATATTTTTAT
*
1578781 TATTAAATTATAATA
1 TATTAAATTTTAATA
1578796 TGAGTCGGGC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TATTAAATTTTAATAATAATATATTTTTAT
Found at i:1579917 original size:25 final size:27
Alignment explanation
Indices: 1579888--1579940 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1579878 ATAATAATTA
*
1579888 AATTTAAATAT-TTTA-TATTTATATT
1 AATTTAAATATATTAATTATTTATATT
*
1579913 AATTTTAATATATTAATTATTTATATT
1 AATTTAAATATATTAATTATTTATATT
1579940 A
1 A
1579941 TATAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.42
26 3 0.12
27 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
AATTTAAATATATTAATTATTTATATT
Found at i:1579931 original size:18 final size:17
Alignment explanation
Indices: 1579897--1579951 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 17
1579887 AAATTTAAAT
1579897 ATTTTATATTTATATTA
1 ATTTTATATTTATATTA
1579914 ATTTTA-A--TATATTA
1 ATTTTATATTTATATTA
*
1579928 ATTATT-TATATTATATAA
1 ATT-TTATAT-TTATATTA
1579946 ATTTTA
1 ATTTTA
1579952 AAAATATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
14 10 0.32
15 3 0.10
16 1 0.03
17 8 0.26
18 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATATTTATATTA
Found at i:1580074 original size:2 final size:2
Alignment explanation
Indices: 1580067--1580106 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1580057 GTATTAGATA
1580067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT 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
1580107 ATTTTACGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1580345 original size:12 final size:12
Alignment explanation
Indices: 1580330--1580371 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
1580320 AAAATAAAAA
1580330 AATAATATATAT
1 AATAATATATAT
1580342 AATAATATAT-T
1 AATAATATATAT
*
1580353 TATAATAT-TAT
1 AATAATATATAT
*
1580364 AATTATAT
1 AATAATAT
1580372 TTAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 1 0.04
11 15 0.58
12 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATAATATATAT
Found at i:1580372 original size:20 final size:21
Alignment explanation
Indices: 1580331--1580381 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
1580321 AAATAAAAAA
1580331 ATAATATATATAATAATATATTT
1 ATAATAT-TATAAT-ATATATTT
1580354 ATAATATTATAAT-TATATTT
1 ATAATATTATAATATATATTT
*
1580374 AAAATATT
1 ATAATATT
1580382 TTATATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.52
22 6 0.22
23 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAATATTATAATATATATTT
Found at i:1580503 original size:17 final size:16
Alignment explanation
Indices: 1580456--1580503 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
1580446 ATTTTTAATA
1580456 ATATATTATAAATTAT
1 ATATATTATAAATTAT
*
1580472 ATTGTGATT-TAAATTAT
1 A-TAT-ATTATAAATTAT
1580489 ATATATTATATAATT
1 ATATATTATA-AATT
1580504 GTATCCATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.12
16 5 0.19
17 15 0.58
18 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
ATATATTATAAATTAT
Found at i:1580638 original size:15 final size:17
Alignment explanation
Indices: 1580609--1580650 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1580599 AAAAATATCG
*
1580609 ATAATATAAAAAATAAA
1 ATAATATAAAATATAAA
*
1580626 AAAATATAAAATATAAA
1 ATAATATAAAATATAAA
1580643 ATAATATA
1 ATAATATA
1580651 TTTATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAATATAAAATATAAA
Found at i:1580698 original size:13 final size:14
Alignment explanation
Indices: 1580682--1580710 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1580672 TTAAAATATT
1580682 TTATATTA-ATAAA
1 TTATATTATATAAA
1580695 TTATATTATATAAA
1 TTATATTATATAAA
1580709 TT
1 TT
1580711 TTAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATATTATATAAA
Found at i:1580711 original size:29 final size:27
Alignment explanation
Indices: 1580655--1580713 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
1580645 AATATATTTA
*
1580655 TTATATTATAATTATTTTTAAAATATT
1 TTATATTATAATTATTTATAAAATATT
*
1580682 TTATATTAATAAATTATATTATATAA-ATT
1 TTATATT-AT-AATTAT-TTATAAAATATT
1580711 TTA
1 TTA
1580714 ATAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
28 2 0.07
29 12 0.44
30 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATATTATAATTATTTATAAAATATT
Found at i:1580740 original size:19 final size:19
Alignment explanation
Indices: 1580694--1580769 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
1580684 ATATTAATAA
*
1580694 ATTATATTATATAAATTTT
1 ATTATATTTTATAAATTTT
* *
1580713 AATAAATTTTA-AAATTTTT
1 ATTATATTTTATAAA-TTTT
* *
1580732 ATTATATTTATATTATTTTT
1 ATTATATTT-TATAAATTTT
* *
1580752 AATAATATATTATAAATT
1 -ATTATATTTTATAAATT
1580770 ATATCGTAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
18 3 0.07
19 19 0.45
20 12 0.29
21 8 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATATTTTATAAATTTT
Found at i:1583623 original size:20 final size:21
Alignment explanation
Indices: 1583590--1583629 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1583580 TTTTAATCAA
1583590 TTATGATTTGGCTTT-TAACC
1 TTATGATTTGGCTTTCTAACC
* *
1583610 TTATGCTTTTGCTTTCTAAC
1 TTATGATTTGGCTTTCTAAC
1583630 AACTTTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.53
Consensus pattern (21 bp):
TTATGATTTGGCTTTCTAACC
Found at i:1585107 original size:1 final size:1
Alignment explanation
Indices: 1585075--1585100 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1585065 TCTTCATAGA
1585075 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
1585101 TAGGGGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:1588205 original size:6 final size:6
Alignment explanation
Indices: 1588194--1588218 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1588184 TTTTGTGGAT
1588194 GAGGGA GAGGGA GAGGGA GAGGGA G
1 GAGGGA GAGGGA GAGGGA GAGGGA G
1588219 CGACATAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:1591242 original size:19 final size:20
Alignment explanation
Indices: 1591196--1591242 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1591186 ACATTATGCT
*
1591196 TTGTATCGATATATGGACAA
1 TTGTATCGATACATGGACAA
1591216 TTGTATCGATACAT-GA-AA
1 TTGTATCGATACATGGACAA
1591234 TTGGTATCG
1 TT-GTATCG
1591243 TAACGTGCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 4 0.16
19 8 0.32
20 13 0.52
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:1594457 original size:52 final size:51
Alignment explanation
Indices: 1594312--1594439 Score: 193
Period size: 52 Copynumber: 2.5 Consensus size: 51
1594302 TGAAATATGA
*
1594312 AAATTTGCTGCATGTATCGATATATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
1594363 AAATTTGTCTGTATGTATCGATACATTTCATAGTGTATCGATATATTTGGGT
1 AAATTTG-CTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1594415 AAATTTGCCTGCATGTATCGATACA
1 AAATTTG-CTGCATGTATCGATACA
1594440 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 7 0.10
52 62 0.90
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (51 bp):
AAATTTGCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1594466 original size:13 final size:13
Alignment explanation
Indices: 1594448--1594472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1594438 CAAAGATCAG
1594448 TGTATCGATACAA
1 TGTATCGATACAA
1594461 TGTATCGATACA
1 TGTATCGATACA
1594473 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1594553 original size:19 final size:19
Alignment explanation
Indices: 1594525--1594595 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
1594515 AGCGATACGT
*
1594525 TGTATCGATATAAAACTTA
1 TGTATCGATACAAAACTTA
*
1594544 TGTGTCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
* *
1594563 TGTATCGATACAACATTTA
1 TGTATCGATACAAAACTTA
1594582 TGTATCGATACAAA
1 TGTATCGATACAAA
1594596 TCATTGAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1594774 original size:16 final size:17
Alignment explanation
Indices: 1594753--1594789 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
1594743 GGGCTTAACA
1594753 AAAAGTTATGATAATC-
1 AAAAGTTATGATAATCT
1594769 AAAAGTTATGATAATCT
1 AAAAGTTATGATAATCT
1594786 AAAA
1 AAAA
1594790 ATGCGGCGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (17 bp):
AAAAGTTATGATAATCT
Found at i:1594945 original size:20 final size:20
Alignment explanation
Indices: 1594920--1594972 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1594910 TACCACTGTT
*
1594920 TGTATCGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
* *
1594940 TGTATCGATATATGATGAAT
1 TGTATCGATACATGATGAAA
1594960 TGTATCGATACAT
1 TGTATCGATACAT
1594973 TACTTGTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:1604482 original size:14 final size:13
Alignment explanation
Indices: 1604463--1604511 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
1604453 TTTGGAAGGC
1604463 AAAAAATAATAAGA
1 AAAAAATAATAA-A
* *
1604477 AAAAAATTATTAA
1 AAAAAATAATAAA
1604490 AAAAAATAA-AATA
1 AAAAAATAATAA-A
1604503 AAAAAATAA
1 AAAAAATAA
1604512 AAATTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 1 0.03
13 19 0.63
14 10 0.33
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (13 bp):
AAAAAATAATAAA
Found at i:1604660 original size:13 final size:13
Alignment explanation
Indices: 1604642--1604674 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1604632 ACATAAGTTT
1604642 TGTATCGATACAA
1 TGTATCGATACAA
*
1604655 TGTATCGATACAG
1 TGTATCGATACAA
1604668 TGTATCG
1 TGTATCG
1604675 CTACGAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1604717 original size:21 final size:21
Alignment explanation
Indices: 1604691--1604731 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1604681 AGCTACTGCC
1604691 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1604712 AAGGAAATGTATCGATACAT
1 AAGGAAATGTATCGATACAT
1604732 CGATCTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.27
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:1607213 original size:52 final size:51
Alignment explanation
Indices: 1607083--1607216 Score: 160
Period size: 52 Copynumber: 2.6 Consensus size: 51
1607073 TTAAGTTTCT
* *
1607083 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
** * * *
1607134 CAATTTTCTTTTAATTGGGGACACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTT-TCATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACAC
* * *
1607187 CAATTTTTCACAATCCGGGATGCTCCAACC
1 CAATTTTTCATAATCGGGGATACTCCAACC
1607217 TCGTTATTTC
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
51 7 0.11
52 45 0.68
53 14 0.21
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
Found at i:1607315 original size:79 final size:78
Alignment explanation
Indices: 1607232--1607435 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 78
1607222 ATTTCATCAA
* *
1607232 GGATACTCCAACCCCAGCTTTATTTCCAAAATATTGATTTCTCATAATTAGG-GATACTCCAACC
1 GGATACTCCAACCCC-GTTTTATTTCCAAAATATTGATTTCTCATAA-CAGGCGATACTCCAACC
* *
1607296 CCGTTATTTTCGAGG
64 CCATTATTTTCAAGG
* * * * * * * *
1607311 GGATACTCCAATCCCGATTTTATTTCC-TAATCATCGATTTTTCACAACCGGCTATACTCTAACC
1 GGATACTCCAACCCCG-TTTTATTTCCAAAAT-ATTGATTTCTCATAACAGGCGATACTCCAACC
1607375 CCATTATTTTCAAGG
64 CCATTATTTTCAAGG
* *
1607390 GGATACTCCAACCCCGTTATTATCTCCAAAATATTAAATTTCTCAT
1 GGATACTCCAACCCCGTT-TTATTTCCAAAATATT-GATTTCTCAT
1607436 CGGGAAATAT
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
78 8 0.08
79 82 0.82
80 10 0.10
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.34
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTTTATTTCCAAAATATTGATTTCTCATAACAGGCGATACTCCAACCCC
ATTATTTTCAAGG
Found at i:1613644 original size:63 final size:62
Alignment explanation
Indices: 1613532--1613915 Score: 476
Period size: 63 Copynumber: 6.2 Consensus size: 62
1613522 TAGCCCTTCC
* * * * * *
1613532 AGTCCTCAAAAAGCAGGAC-GTCTTTTTCTTTTCAAAGCCTATACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACACTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
1613593 AGTTCTCAAAGAGCAGGACACTTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACAC-TCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
1613656 AGTCCTCAAAGAGCAGGACGC-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACACTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* **
1613717 AGTCCTCAAAGAGCAGGACACTTTTTCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTCC
1 AGTCCTCAAAGAGCAGGACACTCTTT-TTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * **
1613780 AGTCCTCAAAGAGCAGGACGC-C-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCC
1 AGTCCTCAAAGAGCAGGACACTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* ** * *
1613840 AGTCCTCAAATAGCAGGATGC-C-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGC-GCTTCCT
1 AGTCCTCAAAGAGCAGGACACTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT--T
*
1613901 AGTCCTCAAAAAGCA
1 AGTCCTCAAAGAGCA
1613916 AGACGCTCCC
Statistics
Matches: 291, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
59 2 0.01
60 87 0.30
61 91 0.31
62 3 0.01
63 108 0.37
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (62 bp):
AGTCCTCAAAGAGCAGGACACTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:1613752 original size:124 final size:124
Alignment explanation
Indices: 1613532--1613921 Score: 556
Period size: 124 Copynumber: 3.2 Consensus size: 124
1613522 TAGCCCTTCC
* * * * *
1613532 AGTCCTCAAAAAGCAGGACGTCTTTTTCTTTTCAAAGCCTATACGAGTTGGTGGCACCTTTAGTT
1 AGTCCTCAAAAAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
*
1613597 CTCAAAGAGCAGGACACTTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
66 CTCAAAGAGCAGGACACTTTTTCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
*
1613656 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
1 AGTCCTCAAAAAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
**
1613721 CTCAAAGAGCAGGACACTTTTTCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTCC
66 CTCAAAGAGCAGGACACTTTTTCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * **
1613780 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTCCAGTC
1 AGTCCTCAAAAAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
* ** * *
1613844 CTCAAATAGCAGGATGCCTTTTC--C-TTTTAAAGCCCACACAAGTTGGTGGC-GCTTCCT
66 CTCAAAGAGCAGGACACTTTTTCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT--T
*
1613901 AGTCCTCAAAAAGCAAGACGC
1 AGTCCTCAAAAAGCAGGACGC
1613922 TCCCTCCTTT
Statistics
Matches: 243, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
119 2 0.01
120 26 0.11
121 20 0.08
123 49 0.20
124 146 0.60
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (124 bp):
AGTCCTCAAAAAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
CTCAAAGAGCAGGACACTTTTTCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:1613840 original size:60 final size:60
Alignment explanation
Indices: 1613529--1613921 Score: 480
Period size: 60 Copynumber: 6.4 Consensus size: 60
1613519 TTTTAGCCCT
* * * * * *
1613529 TCCAGTCCTCAAAAAGCAGGACGTCTTTTTCTTTTCAAAGCCTATACGAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC
** * * * *
1613590 TTTAGTTCTCAAAGAGCAGGACACTTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACGC---CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
** *
1613653 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC
** * *
1613714 TTTAGTCCTCAAAGAGCAGGACACTTTTTCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACGCCTTTTC--C-TTTTAAAGCCCACACAAGTTGGTGGCACC
1613777 TCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * *
1613837 TCCAGTCCTCAAATAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCGCT
1 TCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
1613897 TCCTAGTCCTCAAAAAGCAAGACGC
1 TCC-AGTCCTCAAAGAGCAGGACGC
1613922 TCCCTCCTTT
Statistics
Matches: 293, Mismatches: 31, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
60 96 0.33
61 89 0.30
63 96 0.33
64 12 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (60 bp):
TCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:1614035 original size:61 final size:59
Alignment explanation
Indices: 1613934--1614252 Score: 317
Period size: 55 Copynumber: 5.6 Consensus size: 59
1613924 CCTCCTTTCG
* * *
1613934 CCTTTTTGTCCTCAAAGAGCAGGATG-C---CTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1613989 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
1614050 -CTTCCTAGTTCTCAAAGAACAGGACGCCTTTC----AAAGCCCACATGAGTTGGTGGCA
1 CCTT-TTAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1614105 -TTTTCTAGTCCTCAAAGAGCACGACGCCTTTC----AAAGCCCATACGAGTTGGTGGCA
1 CCTTT-TAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1614160 CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCC-TTT-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1614221 CCTTCTAGTCCTCGAAGAGCAGGATG-CTTTCT
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCT
1614253 CTTTTCACCC
Statistics
Matches: 226, Mismatches: 23, Indels: 27
0.82 0.08 0.10
Matches are distributed among these distances:
55 113 0.50
56 8 0.04
57 1 0.00
58 2 0.01
59 4 0.02
60 5 0.02
61 93 0.41
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (59 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1614196 original size:116 final size:115
Alignment explanation
Indices: 1613935--1614241 Score: 335
Period size: 116 Copynumber: 2.7 Consensus size: 115
1613925 CTCCTTTCGC
*
1613935 CTTTTT-GTCCTCAAAGAGCAGGATGCCT--TTTAAAGCCCACACAAGCTGGTGGCACCTTT-TA
1 CTTTTTAGTCCTCAAAGAGCAGGATGCCTCCTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCTA
*
1613996 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
65 GTCCTCAAAGAGCACGACGCCTTCTCC---TAAAGCCCACACAAGTTGGTGGCA
** * * * * ** *
1614050 CTTCCTAGTTCTCAAAGAACAGGACGCCT--TTCAAAGCCCACATGAGTTGGTGGCATTTTCTAG
1 CTTTTTAGTCCTCAAAGAGCAGGATGCCTCCTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAG
* *
1614113 TCCTCAAAGAGCACGACGCCTT-T-C-AAAGCCCATACGAGTTGGTGGCA
66 TCCTCAAAGAGCACGACGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCA
* *
1614160 CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTT
1 CTTTTTAGTCCTCAAAGAGCAGGATGCC---TCC-TTTAAAGCCCACACAAGTTGGTGGCACTTT
*
1614225 CTAGTCCTCGAAGAGCA
62 CTAGTCCTCAAAGAGCA
1614242 GGATGCTTTC
Statistics
Matches: 159, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
110 44 0.28
113 1 0.01
114 1 0.01
115 8 0.05
116 105 0.66
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (115 bp):
CTTTTTAGTCCTCAAAGAGCAGGATGCCTCCTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAG
TCCTCAAAGAGCACGACGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCA
Found at i:1614292 original size:210 final size:211
Alignment explanation
Indices: 1614055--1614455 Score: 556
Period size: 210 Copynumber: 1.9 Consensus size: 211
1614045 TGGCACTTCC
* ** ** **
1614055 TAGTTCTCAAAGAACAGGACGCCTTTCAAAGCCCACATGAGTTGGTGGCA-TTTTCTAGTCCTC-
1 TAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTC-AACCCTCG
* ** *
1614118 AAAGAGCACGACGCCTTTCAAAGCCCATACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGG
65 AAA-AGCACGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACCCTCTAGTCCTCAAAGAGCAGG
* * * *
1614183 ATGCCTTTTCCTTTT-AAAGCCTACACAAGTTGGTGGCACCTTCTAGTCCTCGAAGAGCAGGATG
129 ACGCCTTTTCCTTTTCAAAGCCCACACAAGTTAGTGGCACCTTCTAGTCCTCAAAGAGCAGGATG
1614247 CTTTCTCTTTTCACCCTT
194 CTTTCTCTTTTCACCCTT
*
1614265 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAACCCTCGA
1 TAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAACCCTCGA
* * *
1614330 AAAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCCTCTAGTCCTCAAAGAGCATGAC
66 AAAGCACGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACCCTCTAGTCCTCAAAGAGCAGGAC
* * * *
1614395 GTCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACTTTGTAGTCCTCAAAGAGCAGGA
131 GCCTTTTCCTTTTCAAAGCCCACACAAGTTAGTGGCACCTTCTAGTCCTCAAAGAGCAGGA
1614456 CACACTTTAT
Statistics
Matches: 165, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
210 117 0.71
211 48 0.29
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (211 bp):
TAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAACCCTCGA
AAAGCACGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACCCTCTAGTCCTCAAAGAGCAGGAC
GCCTTTTCCTTTTCAAAGCCCACACAAGTTAGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCT
TTCTCTTTTCACCCTT
Found at i:1614342 original size:55 final size:55
Alignment explanation
Indices: 1614269--1614432 Score: 179
Period size: 55 Copynumber: 2.9 Consensus size: 55
1614259 ACCCTTTAGT
1614269 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAAC
1 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAAC
* * **
1614324 CCTCGAAA-AGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCACCC-TCTAGT
1 CCTC-AAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTC-AAC
* *
1614379 CCTCAAAGAGCATGACGTCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCAC
1 CCTCAAAGAGCAGGACG-C-----C-TTTCAAAGCCCACACAAGTTGGTGGCAC
1614433 TTTGTAGTCC
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
54 5 0.05
55 56 0.62
56 4 0.04
61 1 0.01
62 25 0.27
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.21
Consensus pattern (55 bp):
CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTCAAC
Found at i:1614485 original size:42 final size:43
Alignment explanation
Indices: 1614439--1614606 Score: 159
Period size: 42 Copynumber: 3.9 Consensus size: 43
1614429 GCACTTTGTA
1614439 GTCCTCAAAGAGCAGGACACACTTT-ATTTTCCTCTTTT-TTTT
1 GTCCTCAAAGAGCAGGACACA-TTTCATTTTCCTCTTTTCTTTT
* * *
1614481 GTCCTCAAAGAGCAGGACGCATTTCGTTTTCCT-TTTCTCCTTT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCCTCTTT-TCTTTT
* * *
1614524 GTCCTCAAAGAACAGGATGCTC-TTT-A-TTTCCTTCTTTTCCCTTCTA
1 GTCCTCAAAGAGCAGGA--CACATTTCATTTTCC-TCTTTT--CTT-TT
*
1614570 GTCCTCAAAGAGCAGGACACATTTCGTTTTCCTCTTT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCCTCTTT
1614607 CCCTTTTTCC
Statistics
Matches: 102, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
41 6 0.06
42 33 0.32
43 21 0.21
44 8 0.08
45 7 0.07
46 22 0.22
47 5 0.05
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.40
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACACATTTCATTTTCCTCTTTTCTTTT
Found at i:1615518 original size:21 final size:21
Alignment explanation
Indices: 1615492--1615533 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1615482 AGCTACTGCC
1615492 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1615513 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1615534 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:1615538 original size:13 final size:13
Alignment explanation
Indices: 1615520--1615545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1615510 ATTAAGGAAA
1615520 TGTATCGATACAT
1 TGTATCGATACAT
1615533 TGTATCGATACAT
1 TGTATCGATACAT
1615546 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1617006 original size:51 final size:50
Alignment explanation
Indices: 1616950--1617134 Score: 192
Period size: 51 Copynumber: 3.6 Consensus size: 50
1616940 TTAAGTTTCT
* *
1616950 CAATTTTTCATAATCGGTGATACTCCAACCCCGGTTTTATTTCTAAAACA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
* *
1617000 CTAATTTTTCACAATCGAGGATACTCCAACCCCCGTTTTATTT-TCAAAACAA
1 C-AATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAAC-A
* ** * * * *
1617052 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATA
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACA
* *
1617104 CCAATTTTTTACAATCGGGGATACTCTAACC
1 -CAATTTTTCACAATCGGGGATACTCCAACC
1617135 TCGTTATTTC
Statistics
Matches: 109, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
50 2 0.02
51 49 0.45
52 47 0.43
53 11 0.10
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (50 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
Found at i:1617075 original size:52 final size:51
Alignment explanation
Indices: 1616961--1617134 Score: 162
Period size: 52 Copynumber: 3.4 Consensus size: 51
1616951 AATTTTTCAT
* * *
1616961 AATCGGTGATACTCCAACCCCGGTTTTA-TTTCTAAAAC-ACTAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCCGTTTTATTTTC-AAAACAAC-AATTTTCT-TC
* *
1617012 AATCGAGGATACTCCAACCCCCGTTTTATTTTCAAAACAACAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCCGTTTTATTTTCAAAACAACAATTTT-CTTC
* *
1617064 AATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAA-ATACCAATTTT-TTAC
1 AATCGGGGATACTCCAACCCCCG-TTTTATTTTCAAAACA-A-CAATTTTCTT-C
*
1617116 AATCGGGGATACTCTAACC
1 AATCGGGGATACTCCAACC
1617135 TCGTTATTTC
Statistics
Matches: 104, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
51 43 0.41
52 52 0.50
53 9 0.09
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCCGTTTTATTTTCAAAACAACAATTTTCTTC
Found at i:1617233 original size:79 final size:78
Alignment explanation
Indices: 1617122--1617321 Score: 199
Period size: 79 Copynumber: 2.5 Consensus size: 78
1617112 TTACAATCGG
* * *
1617122 GGATACTCTAACCTCGTTATTTCATCAG-GGATACTCCAACCCCGGCTTTATTTCCAAAAT-ATT
1 GGATACTCTAACCCCGTTATTT--TCAGAGGATACTCCAACCCCGACTTTATTTCC-AAATCATC
**
1617185 GATTTCTCATAATTG-
63 GATTTCTCATAACCGA
* * * * * * *
1617200 GAGATACTCCAACCCCGTTATTTTCGAGAGGATACTTCAATCTCGATTTTATTTTCTAATCATCG
1 G-GATACTCTAACCCCGTTATTTTC-AGAGGATACTCCAACCCCGACTTTATTTCCAAATCATCG
*
1617265 ATTTTTCATAACCGA
64 ATTTCTCATAACCGA
*
1617280 GGATACTCTAACCCCGTTATTTTCAAGAGAATACTCCAACCC
1 GGATACTCTAACCCCGTTATTTTC-AGAGGATACTCCAACCC
1617322 TATTATTATC
Statistics
Matches: 98, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
77 2 0.02
78 6 0.06
79 89 0.91
80 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (78 bp):
GGATACTCTAACCCCGTTATTTTCAGAGGATACTCCAACCCCGACTTTATTTCCAAATCATCGAT
TTCTCATAACCGA
Found at i:1625717 original size:20 final size:20
Alignment explanation
Indices: 1625692--1625729 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1625682 GTAAAAACAC
1625692 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
1625712 AGAATGTATCGATACATT
1 AGAATGTATCGATACATT
1625730 TGGGTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1627908 original size:16 final size:17
Alignment explanation
Indices: 1627887--1627932 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
1627877 AAGTATTACA
1627887 AAATTAAATTTTAATT-
1 AAATTAAATTTTAATTC
* *
1627903 AAATTATATTCTAATTC
1 AAATTAAATTTTAATTC
*
1627920 AAA-TAAATGTTAA
1 AAATTAAATTTTAA
1627933 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
AAATTAAATTTTAATTC
Found at i:1628758 original size:20 final size:21
Alignment explanation
Indices: 1628733--1628772 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1628723 AAAAATAATG
*
1628733 TAATTT-AATAATAATTAAAA
1 TAATTTAAAAAATAATTAAAA
1628753 TAATTTAAAAAATAATTAAA
1 TAATTTAAAAAATAATTAAA
1628773 TTTTCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTTAAAAAATAATTAAAA
Found at i:1629580 original size:2 final size:2
Alignment explanation
Indices: 1629573--1629627 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1629563 GTTTCTACTT
1629573 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1629615 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
1629628 ATATATATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1635839 original size:2 final size:2
Alignment explanation
Indices: 1635832--1635867 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1635822 GGTAGATTCT
1635832 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1635868 CCCCTCCCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1642618 original size:3 final size:3
Alignment explanation
Indices: 1642599--1642640 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
1642589 CTTAACATTC
* *
1642599 TTA TCA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1642641 ACTGTTACGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1643559 original size:3 final size:3
Alignment explanation
Indices: 1643546--1643576 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
1643536 ATGAAAGAGA
1643546 AAG ACAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG
1643577 CCCTTGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1643762 original size:3 final size:3
Alignment explanation
Indices: 1643754--1643780 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1643744 TTTCCAAACC
1643754 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1643781 ACTTGTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:1645042 original size:2 final size:2
Alignment explanation
Indices: 1645035--1645076 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
1645025 AATCCATGTG
* *
1645035 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TG TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1645076 T
1 T
1645077 TTATTGCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1646941 original size:13 final size:13
Alignment explanation
Indices: 1646923--1646948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1646913 GATATACTCT
1646923 TTTAATCATTTAA
1 TTTAATCATTTAA
1646936 TTTAATCATTTAA
1 TTTAATCATTTAA
1646949 CCATTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAATCATTTAA
Found at i:1648669 original size:24 final size:23
Alignment explanation
Indices: 1648612--1648670 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1648602 ATATTTTTTA
**
1648612 TTCATATTA-ATTTTCGTTATTT
1 TTCATATTATATTTTAATTATTT
* *
1648634 TTTATATCATATTTTAATTATTT
1 TTCATATTATATTTTAATTATTT
1648657 TCTCATATTATATT
1 T-TCATATTATATT
1648671 CATGATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 7 0.24
23 12 0.41
24 10 0.34
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (23 bp):
TTCATATTATATTTTAATTATTT
Found at i:1648791 original size:37 final size:38
Alignment explanation
Indices: 1648711--1648794 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 38
1648701 TAAAATTTAA
*
1648711 TTAATAATATTTATATATTTTTTAATTTAATATCACAT
1 TTAATAATATTTATATATTTTTTAATATAATATCACAT
* * *
1648749 ATAATAATATTTA-AT-TTTTTTAATATCATAATCATAT
1 TTAATAATATTTATATATTTTTTAATATAAT-ATCACAT
1648786 TTAATAATA
1 TTAATAATA
1648795 ATATAAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
36 12 0.30
37 16 0.40
38 12 0.30
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (38 bp):
TTAATAATATTTATATATTTTTTAATATAATATCACAT
Found at i:1649670 original size:15 final size:14
Alignment explanation
Indices: 1649646--1649685 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1649636 AAAGTAAATT
1649646 AATTAAAATATTAA
1 AATTAAAATATTAA
*
1649660 ATTTAATAATA-TAA
1 AATTAA-AATATTAA
1649674 AATTAAAATATT
1 AATTAAAATATT
1649686 TTTTCCACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTAAAATATTAA
Found at i:1649905 original size:20 final size:20
Alignment explanation
Indices: 1649868--1649906 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1649858 ATTTGGCATA
*
1649868 TATTTTTCTTTTATTTTAAT
1 TATTTTTCTATTATTTTAAT
1649888 TATTTTT-TATTATATTTAA
1 TATTTTTCTATTAT-TTTAA
1649907 AAAATATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTTTCTATTATTTTAAT
Found at i:1652514 original size:2 final size:2
Alignment explanation
Indices: 1652507--1652541 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1652497 AAAAGCTTTT
1652507 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1652542 ATATCCAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1661635 original size:1 final size:1
Alignment explanation
Indices: 1661629--1661701 Score: 65
Period size: 1 Copynumber: 73.0 Consensus size: 1
1661619 CCTTCTCTTC
** * * * * * *
1661629 AAAAAAAAAAGCAAAAAAAAAAAAAACAAAAAAAAAACAAAACAAAGAAAAAGAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
1661694 AAGAAAAA
1 AAAAAAAA
1661702 TCTGCTTAAG
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:1661650 original size:16 final size:15
Alignment explanation
Indices: 1661629--1661701 Score: 85
Period size: 15 Copynumber: 4.6 Consensus size: 15
1661619 CCTTCTCTTC
*
1661629 AAAAAAAAAAGCAAA
1 AAAAAAAAAAACAAA
1661644 AAAAAAAAAAACAAA
1 AAAAAAAAAAACAAA
1661659 AAAAAAACAAAACAAA
1 AAAAAAA-AAAACAAA
1661675 GAAAAAGAGAAAAA-AAA
1 -AAAAA-A-AAAAACAAA
1661692 AAAAGAAAAA
1 AAAA-AAAAA
1661702 TCTGCTTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
15 24 0.46
16 13 0.25
17 9 0.17
18 5 0.10
19 1 0.02
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAACAAA
Found at i:1661659 original size:26 final size:28
Alignment explanation
Indices: 1661628--1661693 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
1661618 ACCTTCTCTT
1661628 CAAAAAAAAAAGCAAAA-AAA-AAAAAAA
1 CAAAAAAAAAA-CAAAACAAAGAAAAAAA
*
1661655 CAAAAAAAAAACAAAACAAAGAAAAAGA
1 CAAAAAAAAAACAAAACAAAGAAAAAAA
*
1661683 GAAAAAAAAAA
1 CAAAAAAAAAA
1661694 AAGAAAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 5 0.14
27 14 0.40
28 16 0.46
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (28 bp):
CAAAAAAAAAACAAAACAAAGAAAAAAA
Found at i:1662747 original size:55 final size:54
Alignment explanation
Indices: 1662665--1663454 Score: 924
Period size: 55 Copynumber: 14.1 Consensus size: 54
1662655 TCCGTCCGCT
* *
1662665 TTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
1662719 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
1662774 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
1662829 TTTCCAGTCCTCAGAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCAC
* * * * *
1662884 CTTCAGTCCTCAAAGAGCAGGACTCTTTTCAAAGCCTACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
1662938 TTTCCAGTCCTCAGAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCAC
* * *
1662993 CTTCAGTCCTCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
1663047 TTTCCAGTCCTCAGAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
1663102 CTTCAATCCTCAAAGAGCGGGACACATTTTTTTTTTAAAAGCCGACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACAC-------CTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
1663163 CTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCA-C
* * * *
1663223 TTTCAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA-C
* *
1663283 TTT-AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
*
1663343 TTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-C
* *
1663398 TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
1663452 TTT
1 TTT
1663455 TTACTCCTCA
Statistics
Matches: 655, Mismatches: 50, Indels: 62
0.85 0.07 0.08
Matches are distributed among these distances:
53 4 0.01
54 120 0.18
55 324 0.49
56 11 0.02
59 46 0.07
60 79 0.12
61 66 0.10
64 4 0.01
65 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (54 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:1662749 original size:27 final size:27
Alignment explanation
Indices: 1662719--1662804 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1662709 TTGGTGGCAT
1662719 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
1662746 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
1662774 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
1662801 TTTC
1 TTTC
1662805 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:1662950 original size:164 final size:161
Alignment explanation
Indices: 1662665--1663474 Score: 892
Period size: 164 Copynumber: 4.8 Consensus size: 161
1662655 TCCGTCCGCT
* **
1662665 TTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCT
1662730 CAAAGAGCAGGACACC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
64 CAAAGAGCAGGAC-CCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCA
*
1662794 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
127 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
1662829 TTTCCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 TTT-CAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* * *
1662894 CAAAGAGCAGGACTCTTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAGAGAGCAG
64 CAAAGAGCAGGACCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAG
1662959 GACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
128 GACACCT-TTCAAAGCCCACACAAGTTGGTGGCAC
* * **
1662993 CTTCAGTCCTCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCT
* * ** * *
1663058 CAGAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTCAATCCTCAAAGAGCGG
64 CAAAGAGCAGGAC-CCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAG
* * *
1663122 GACACATTTTTTTTTTAAAAGCCGACACAAGTTGGTGGCAC
128 GACAC-------CTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
1663163 CTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCA
1 TTTCAGTCCTCAAAGAGCAGGACAC-----C-TTTAAAGCCCACACAAGTTGGTGGCACC-TTCA
* * * *
1663228 GTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTT-AGTCCT
59 GTCCTCAAAGAGCAGGAC-CCTTTTC----AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCT
* *
1663292 CAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
118 CAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
*
1663343 TTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
1 TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCT
* * * * *
1663408 CAAAGAGCAGGACGCC-TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGAA
64 CAAAGAGCAGGAC-CCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCA
1663472 GGA
127 GGA
1663475 TACACTTTAT
Statistics
Matches: 558, Mismatches: 51, Indels: 67
0.83 0.08 0.10
Matches are distributed among these distances:
162 2 0.00
163 67 0.12
164 145 0.26
165 53 0.09
166 2 0.00
169 2 0.00
170 72 0.13
171 15 0.03
174 5 0.01
175 98 0.18
176 5 0.01
179 26 0.05
180 61 0.11
181 3 0.01
182 1 0.00
186 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (161 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
AAGAGCAGGACCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGAC
ACCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:1662951 original size:109 final size:109
Alignment explanation
Indices: 1662666--1663451 Score: 929
Period size: 109 Copynumber: 7.0 Consensus size: 109
1662656 CCGTCCGCTT
* * *
1662666 TTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TTCAGTCCTCAAAGAGCAGGACTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
**
1662731 AAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATT
66 AAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACC
* *
1662775 TTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 TT-CAGTCCTCAAAGAGCAGGACTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
*
1662840 CAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC
65 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC
*
1662885 TTCAGTCCTCAAAGAGCAGGACTCTTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TTCAGTCCTCAAAGAGCAGGACTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
*
1662950 AGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC
66 AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC
*
1662994 TTCAGTCCTCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TTCAGTCCTCAAAGAGCAGGACTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
*
1663059 AGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC
66 AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC
* * * * * **
1663103 TTCAATCCTCAAAGAGCGGGACACATTTTTTTTTTAAAAGCCGACACAAGTTGGTGGCACCTT-C
1 TTCAGTCCTCAAAGAGCAGG--AC-----TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
1663167 AGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
59 AGTCCTCAAAGAGCAGGACAC-----CTCTTAAAGCCCACACAAGTTGGTGGCACC
* * * * *
1663223 TTTCAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTT--
1 -TTCAGTCCTCAAAGAGCAGGAC-TCTTTTC----AAAGCCCACACAAGTTGGTGGCA-TTTTCC
** *
1663286 AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
59 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACC
* * * *
1663343 TTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTC
1 -TTCAGTCCTCAAAGAGCAGGAC-TCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTC
* *
1663406 CTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCAC
63 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
1663452 TTTTTACTCC
Statistics
Matches: 610, Mismatches: 40, Indels: 53
0.87 0.06 0.08
Matches are distributed among these distances:
109 231 0.38
110 128 0.21
111 7 0.01
114 1 0.00
115 51 0.08
116 46 0.08
119 45 0.07
120 82 0.13
121 19 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (109 bp):
TTCAGTCCTCAAAGAGCAGGACTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:1663398 original size:29 final size:28
Alignment explanation
Indices: 1663318--1663400 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
1663308 TTGTCTTTTC
1663318 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
* * **
1663346 -CAGTCCC-CA-AAG-AGCAGGACACCTCTT
1 AAAG-CCCACACAAGTTGGTGG-CACCT-TT
1663373 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
1663401 CAGTCCTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
25 3 0.08
26 8 0.20
27 9 0.22
28 9 0.22
29 8 0.20
30 3 0.08
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (28 bp):
AAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:1664267 original size:19 final size:19
Alignment explanation
Indices: 1664243--1664310 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1664233 AATTCAACAA
1664243 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1664262 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1664277 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1664294 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1664311 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1664282 original size:13 final size:13
Alignment explanation
Indices: 1664264--1664288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1664254 ACATAAGTTT
1664264 TGTATCGATACAA
1 TGTATCGATACAA
1664277 TGTATCGATACA
1 TGTATCGATACA
1664289 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1664286 original size:32 final size:32
Alignment explanation
Indices: 1664245--1664307 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1664235 TTCAACAATT
*
1664245 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1664277 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1664308 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1664368 original size:13 final size:13
Alignment explanation
Indices: 1664350--1664375 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1664340 CATTTTTCTG
1664350 TGTATCGATACAT
1 TGTATCGATACAT
1664363 TGTATCGATACAT
1 TGTATCGATACAT
1664376 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1664387 original size:33 final size:33
Alignment explanation
Indices: 1664330--1664392 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1664320 GCCAAGGAAA
***
1664330 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1664363 TGTATCGATACATGGATCTTTGTATCGATA
1 TGTATCGATACATGGATCTGTGTATCGATA
1664393 TATTTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1666853 original size:53 final size:50
Alignment explanation
Indices: 1666729--1667070 Score: 171
Period size: 52 Copynumber: 6.6 Consensus size: 50
1666719 TTGAGTTTAT
* * *
1666729 CAATTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCG-GGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * *
1666780 TAATT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATC-GGGATACTCCAACTCCGATTTTATTTCC--AAAACAC
* * * ** * *
1666833 CAATTTCTTCACAATCGGGATACTCCAACCCCG--TTAATCATCGGGGATACTC
1 CAA-TTCTTCACAATCGGGATACTCCAACTCCGATTTTAT-TTC--CAAAACAC
* * * * ** *
1666885 CAACCCCGTTATTTC-CGA-GGGGATACTCCAACTCCGGTTTTATCGCTAAAACAC
1 CAA-----TT-CTTCACAATCGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * * *
1666939 TAATTTTTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGC
1 CAATTCTT-CACAATC-GGGATACTCCAACTCC-GATTTTATTTCCAAAACAC
*
1666991 CAATT-TTC-CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAATAC
1 CAATTCTTCAC---AATC-GGGATACTCCAACTCCGATTTTATTTCCAAAACAC
*
1667043 CAAAT-TTCACAATCGAGGATACTCCAAC
1 CAATTCTTCACAATCG-GGATACTCCAAC
1667071 CTCGTTATTT
Statistics
Matches: 222, Mismatches: 42, Indels: 55
0.70 0.13 0.17
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 21 0.09
51 42 0.19
52 79 0.36
53 28 0.13
54 13 0.06
55 19 0.09
56 5 0.02
57 7 0.03
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (50 bp):
CAATTCTTCACAATCGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:1666915 original size:28 final size:27
Alignment explanation
Indices: 1666849--1666916 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
1666839 CTTCACAATC
**
1666849 GGGATACTCCAACCCCGTTAATCATCG
1 GGGATACTCCAACCCCGTTAATCAGAG
* *
1666876 GGGATACTCCAACCCCGTTATTTCCGAG
1 GGGATACTCCAACCCCGTTA-ATCAGAG
1666904 GGGATACTCCAAC
1 GGGATACTCCAAC
1666917 TCCGGTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTAATCAGAG
Found at i:1667116 original size:211 final size:210
Alignment explanation
Indices: 1666735--1667126 Score: 569
Period size: 211 Copynumber: 1.9 Consensus size: 210
1666725 TTATCAATTC
* *
1666735 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
1666800 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGATACTCCAACCCC
66 TACTCCAACTCCGATTTTATTTCC-AAAAACACCAATATCTTCACAATCGGGATACTCCAACCCC
* *
1666865 GTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATCG
130 GTTAATCATCGGGGATACTCCAACCCCGTTACTGCCGAGGGGATACTCCAACTCCGGTTTTATCG
1666930 CTAAAACACTAATTTT
195 CTAAAACACTAATTTT
* * * *
1666946 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
1667010 GATACTCCAACTCCGATTTTATTTCC-AAAATACCAA-AT-TTCACAATCGAGGATACTCCAACC
64 GATACTCCAACTCCGATTTTATTTCCAAAAACACCAATATCTTCACAATCG-GGATACTCCAACC
* *
1667072 TCGTTATTTCATC-GGGATACCTCCAACCCCGTTACCTGCCGAGGGGATACTCCAA
128 CCGTTA-ATCATCGGGGATA-CTCCAACCCCGTTA-CTGCCGAGGGGATACTCCAA
1667127 ACCCGGCTTA
Statistics
Matches: 162, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
208 10 0.06
209 25 0.15
210 31 0.19
211 61 0.38
212 35 0.22
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (210 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAACACCAATATCTTCACAATCGGGATACTCCAACCCCG
TTAATCATCGGGGATACTCCAACCCCGTTACTGCCGAGGGGATACTCCAACTCCGGTTTTATCGC
TAAAACACTAATTTT
Done.