Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007021.1 Corchorus capsularis cultivar CVL-1 contig07042, 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: 61945
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Found at i:1742 original size:23 final size:23
Alignment explanation
Indices: 1714--1802 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
1704 GTAGTCAGTA
*
1714 AGAAGTAAAGGTAATTAGTAAAG
1 AGAAGTAAAGGTAATCAGTAAAG
1737 AGAAGTAAAGGTAATCAGTAAA-
1 AGAAGTAAAGGTAATCAGTAAAG
* *
1759 A-AAATAAAAGGCAATCAGT-AA-
1 AGAAGT-AAAGGTAATCAGTAAAG
1780 A-AAGTAAAAGAGTAATCAGTAAA
1 AGAAGT-AAAG-GTAATCAGTAAA
1803 AAAAAAGGAG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
21 14 0.24
22 21 0.36
23 23 0.40
ACGTcount: A:0.57, C:0.04, G:0.20, T:0.18
Consensus pattern (23 bp):
AGAAGTAAAGGTAATCAGTAAAG
Found at i:1846 original size:22 final size:21
Alignment explanation
Indices: 1703--1928 Score: 150
Period size: 22 Copynumber: 10.7 Consensus size: 21
1693 AGAGTAAAAT
* *
1703 AGTAGTCAGTAAGAAGTAAAG
1 AGTAATCAGTAAAAAGTAAAG
*
1724 -GTAATTAGTAAAGAGAAGTAAAG
1 AGTAATCAGT-AA-A-AAGTAAAG
*
1747 -GTAATCAGTAAAAAAATAAA-
1 AGTAATCAGT-AAAAAGTAAAG
*
1767 AGGCAATCAGTAAAAAGTAAAAG
1 A-GTAATCAGTAAAAAGT-AAAG
1790 AGTAATCAGTAAAAA--AAA-
1 AGTAATCAGTAAAAAGTAAAG
* *
1808 AG-GAGCAG-AAAATAGTAAAG
1 AGTAATCAGTAAAA-AGTAAAG
1828 AGTAATCAGTAAAAGAGTAAA-
1 AGTAATCAGTAAAA-AGTAAAG
1849 ATGATAATCAGTAAAAAGT-AAG
1 A-G-TAATCAGTAAAAAGTAAAG
* * *
1871 AAGGTAATCAAT-AAGAGTAAAAT
1 -A-GTAATCAGTAAAAAGT-AAAG
*
1894 AGTAATCAGTACAAAGTAAAG
1 AGTAATCAGTAAAAAGTAAAG
*
1915 AATAATCAGTAAAA
1 AGTAATCAGTAAAA
1929 TAGTGATGCT
Statistics
Matches: 162, Mismatches: 23, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
16 4 0.02
17 5 0.03
18 2 0.01
19 6 0.04
20 9 0.06
21 49 0.30
22 51 0.31
23 36 0.22
ACGTcount: A:0.57, C:0.05, G:0.19, T:0.19
Consensus pattern (21 bp):
AGTAATCAGTAAAAAGTAAAG
Found at i:5852 original size:27 final size:26
Alignment explanation
Indices: 5789--5880 Score: 105
Period size: 27 Copynumber: 3.5 Consensus size: 26
5779 TATCTTTCTC
* *
5789 TTACTGGTTACCATTTTTACT-TCTT
1 TTACTGATTACCATTTTTACTCTTTT
*
5814 TTACTGAATACCATTTGTTACTCTTTT
1 TTACTGATTACCATTT-TTACTCTTTT
*
5841 TTACTTATTACCATTTTTTACTCTCTTT
1 TTACTGATTACCA-TTTTTACTCT-TTT
*
5869 CTACTGATTACC
1 TTACTGATTACC
5881 CCTTTCACTT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
25 14 0.25
26 5 0.09
27 21 0.38
28 16 0.29
ACGTcount: A:0.20, C:0.22, G:0.05, T:0.53
Consensus pattern (26 bp):
TTACTGATTACCATTTTTACTCTTTT
Found at i:5907 original size:7 final size:7
Alignment explanation
Indices: 5897--6064 Score: 60
Period size: 7 Copynumber: 23.7 Consensus size: 7
5887 ACTTTACTGA
5897 TTACTAT
1 TTACTAT
*
5904 TTACTCT
1 TTACTAT
*
5911 TTACCATT
1 TTACTA-T
*
5919 TTACTTT
1 TTACTAT
5926 TTACTGA-
1 TTACT-AT
*
5933 TTACTCT
1 TTACTAT
*
5940 TTACTTT
1 TTACTAT
*
5947 TTACCACT
1 TTACTA-T
*
5955 TTACTGT
1 TTACTAT
5962 TTACTGA-
1 TTACT-AT
*
5969 TTACCA-
1 TTACTAT
*
5975 TTACTTT
1 TTACTAT
5982 TTACTATT
1 TTACTA-T
*
5990 TTACTCT
1 TTACTAT
*
5997 TTGCTGA-
1 TTACT-AT
*
6004 TTACT-C
1 TTACTAT
*
6010 TTACTCT
1 TTACTAT
*
6017 TTACCATT
1 TTACTA-T
*
6025 TTACTCT
1 TTACTAT
*
6032 TGACTGA-
1 TTACT-AT
*
6039 TTACTCT
1 TTACTAT
*
6046 TTACTTT
1 TTACTAT
6053 TTACTAT
1 TTACTAT
6060 TTACT
1 TTACT
6065 GTTTGCTGAT
Statistics
Matches: 116, Mismatches: 32, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
6 10 0.09
7 85 0.73
8 21 0.18
ACGTcount: A:0.20, C:0.21, G:0.04, T:0.54
Consensus pattern (7 bp):
TTACTAT
Found at i:5914 original size:14 final size:14
Alignment explanation
Indices: 5897--6462 Score: 86
Period size: 14 Copynumber: 38.6 Consensus size: 14
5887 ACTTTACTGA
5897 TTACTATTTACTCT
1 TTACTATTTACTCT
* *
5911 TTACCATTTTACTTT
1 TTACTA-TTTACTCT
5926 TTACTGA-TTACTCT
1 TTACT-ATTTACTCT
* *
5940 TTACTTTTTACCACT
1 TTACTATTTA-CTCT
* **
5955 TTACTGTTTACTGA
1 TTACTATTTACTCT
* *
5969 TTACCA-TTACTTT
1 TTACTATTTACTCT
5982 TTACTATTTTACTCTT
1 TTACTA-TTTACTC-T
*
5998 TGCTGATTACTCTTACTCT
1 T--T-ACTA-T-TTACTCT
*
6017 TTACCATTTTACTCT
1 TTACTA-TTTACTCT
*
6032 TGACTGA-TTACTCT
1 TTACT-ATTTACTCT
* *
6046 TTACTTTTTACTAT
1 TTACTATTTACTCT
* * **
6060 TTACTGTTTGCTGA
1 TTACTATTTACTCT
* * * *
6074 TTACCA-TCATTTT
1 TTACTATTTACTCT
* *
6087 TTACCATTTTACTAT
1 TTACTA-TTTACTCT
6102 TTACTGA-TTACTCT
1 TTACT-ATTTACTCT
* *
6116 TTACTTTTTTCTCT
1 TTACTATTTACTCT
* *
6130 TT-TTATCTTA---A
1 TTACTAT-TTACTCT
**
6141 TTACTAAATACCATCTT
1 TTACTATTTA-C-TC-T
* **
6158 TTGACCTTAATTACTGA
1 TT-A-C-TATTTACTCT
*
6175 TTACCAATTTACTCT
1 TTA-CTATTTACTCT
*
6190 TTACTTTTTACTTTACT
1 TTACTATTTAC--T-CT
6207 AATTACTATTTACTCTT
1 --TTACTATTTACTC-T
* *
6224 TTACCATTTTACTTT
1 TTACTA-TTTACTCT
*
6239 TTACCGA-TTACTCT
1 TTA-CTATTTACTCT
*
6253 TTA-T-TTTTCATCATT
1 TTACTATTTAC-TC--T
* **
6268 TTACTCTTTACTGA
1 TTACTATTTACTCT
* *
6282 TTACTCTTGACTCT
1 TTACTATTTACTCT
* *
6296 TTACCATTTTAAT-T
1 TTACTA-TTTACTCT
6310 CTTACTGA-TTACTCT
1 -TTACT-ATTTACTCT
* *
6325 TTACTTTTTACTATT
1 TTACTATTTACT-CT
* **
6340 TTACTTTTTACTGA
1 TTACTATTTACTCT
*
6354 TTACTCTTTACTCT
1 TTACTATTTACTCT
*
6368 TTACCATTTTACT-T
1 TTACTA-TTTACTCT
6382 CTTACT-TCTTACT-T
1 -TTACTAT-TTACTCT
*
6396 CTTACTAATTACTCT
1 -TTACTATTTACTCT
* *
6411 TTACTTTTTACTATT
1 TTACTATTTACT-CT
* **
6426 TTACTTTTTACTGA
1 TTACTATTTACTCT
*
6440 TTACTCTTTACTCT
1 TTACTATTTACTCT
*
6454 TTACCATTT
1 TTACTATTT
6463 TACTATTTGT
Statistics
Matches: 397, Mismatches: 101, Indels: 108
0.66 0.17 0.18
Matches are distributed among these distances:
11 4 0.01
12 5 0.01
13 23 0.06
14 182 0.46
15 114 0.29
16 24 0.06
17 13 0.03
18 3 0.01
19 18 0.05
20 11 0.03
ACGTcount: A:0.21, C:0.21, G:0.03, T:0.55
Consensus pattern (14 bp):
TTACTATTTACTCT
Found at i:5929 original size:29 final size:29
Alignment explanation
Indices: 5897--5998 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
5887 ACTTTACTGA
5897 TTACTATTTACTCTTTACCATTTTACTTT
1 TTACTATTTACTCTTTACCATTTTACTTT
* **
5926 TTACTGA-TTACTCTTTA-CTTTTTACCACT
1 TTACT-ATTTACTCTTTACCATTTTA-CTTT
* **
5955 TTACTGTTTACTGATTACCA--TTACTTT
1 TTACTATTTACTCTTTACCATTTTACTTT
5982 TTACTATTTTACTCTTT
1 TTACTA-TTTACTCTTT
5999 GCTGATTACT
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
27 7 0.12
28 17 0.30
29 30 0.54
30 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.03, T:0.56
Consensus pattern (29 bp):
TTACTATTTACTCTTTACCATTTTACTTT
Found at i:5929 original size:36 final size:36
Alignment explanation
Indices: 5889--6604 Score: 536
Period size: 36 Copynumber: 20.2 Consensus size: 36
5879 CCCCTTTCAC
* *
5889 TTTACTGATTACTATTTACTCTTTACCATTTTACTT
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
* *
5925 TTTACTGATTACTCTTTACTTTTTACCACTTTACTG
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
* * *
5961 TTTACTGATTAC-CATTACTTTTTACTATTTTACTC
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
* * *
5996 TTTGCTGATTACTC-TTACTCTTTACCATTTTACTC
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
* * *
6031 TTGACTGATTACTCTTTACTTTTTACTA-TTTACTG
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
* * * * *
6066 TTTGCTGATTAC-CATCATTTTTTACCATTTTACTA
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
* *
6101 TTTACTGATTACTCTTTACTTTTTTCTCTTTTTATCTT
1 TTTACTGATTACTCTTTACTTTTTAC-CATTTTA-CTT
* * * * *
6139 AATTACTAAATAC-C-AT-CTTTTGACC---TTA---
1 -TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
* * *
6167 ATTACTGATTAC-CAATTTACTCTTTA-CTTTTTAC--
1 TTTACTGATTACTC--TTTACTTTTTACCATTTTACTT
* *
6201 TTTACTAATTACTATTTACTCTTTTACCATTTTACTT
1 TTTACTGATTACTCTTTACT-TTTTACCATTTTACTT
* * *
6238 TTTACCGATTACTCTTTA-TTTTTCATCATTTTACTC
1 TTTACTGATTACTCTTTACTTTTT-ACCATTTTACTT
* * *
6274 TTTACTGATTACTCTTGACTCTTTACCATTTTAATT
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
* *
6310 CTTACTGATTACTCTTTACTTTTTACTATTTTACTT
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
*
6346 TTTACTGATTACTCTTTACTCTTTACCATTTTACTT
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
* ** **
6382 CTTACTTCTTACT-TCTTACTAATTA-C-TCTTTACTT
1 TTTACTGATTACTCT-TTACTTTTTACCAT-TTTACTT
* ** *
6417 TTTACT-ATTTTACTTTTTACTGATTA-C-TCTTTACTC
1 TTTACTGA--TTACTCTTTACTTTTTACCAT-TTTACTT
* * * *
6453 TTTACCAT-TTTACTATTT-GTTGATTA-C-TCTTTACTGAT
1 TTTA-C-TGATTACTCTTTACTT-TTTACCAT-TTTACT--T
* * *
6491 TAGTACTAATTAC-CATTACTTTTTACCATTTTACTT
1 T-TTACTGATTACTCTTTACTTTTTACCATTTTACTT
* * *
6527 TCTGCTGATTACTCTTTACTCTTTACCATTTTACTT
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
6563 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
1 TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
6599 TTTACT
1 TTTACT
6605 CTTTTTAACT
Statistics
Matches: 549, Mismatches: 93, Indels: 76
0.76 0.13 0.11
Matches are distributed among these distances:
27 11 0.02
30 2 0.00
31 5 0.01
32 3 0.01
33 9 0.02
34 26 0.05
35 129 0.23
36 299 0.54
37 34 0.06
38 19 0.03
39 12 0.02
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (36 bp):
TTTACTGATTACTCTTTACTTTTTACCATTTTACTT
Found at i:6192 original size:7 final size:7
Alignment explanation
Indices: 6182--6457 Score: 90
Period size: 7 Copynumber: 38.7 Consensus size: 7
6172 TGATTACCAA
6182 TTTACTC
1 TTTACTC
*
6189 TTTACTT
1 TTTACTC
6196 TTTA--C
1 TTTACTC
*
6201 TTTACTA
1 TTTACTC
* *
6208 ATTACTA
1 TTTACTC
6215 TTTACTC
1 TTTACTC
6222 TTTTAC-C
1 -TTTACTC
*
6229 ATTTTACTT
1 --TTTACTC
6238 TTTAC-C
1 TTTACTC
*
6244 GATTACTC
1 -TTTACTC
6252 TTTA-T-
1 TTTACTC
*
6257 TTTTCATC
1 TTTAC-TC
6265 ATTTTACTC
1 --TTTACTC
*
6274 TTTACTG
1 TTTACTC
*
6281 ATTACTC
1 TTTACTC
*
6288 TTGACTC
1 TTTACTC
6295 TTTAC-C
1 TTTACTC
*
6301 ATTTTAAT-
1 --TTTACTC
*
6309 TCTTACTG
1 T-TTACTC
*
6317 ATTACTC
1 TTTACTC
*
6324 TTTACTT
1 TTTACTC
*
6331 TTTACTAT
1 TTTACT-C
*
6339 TTTACTT
1 TTTACTC
*
6346 TTTACTG
1 TTTACTC
*
6353 ATTACTC
1 TTTACTC
6360 TTTACTC
1 TTTACTC
6367 TTTAC-C
1 TTTACTC
6373 ATTTTACT-
1 --TTTACTC
6381 TCTTACT-
1 T-TTACTC
6388 TCTTACT-
1 T-TTACTC
*
6395 TCTTACTA
1 T-TTACTC
*
6403 ATTACTC
1 TTTACTC
*
6410 TTTACTT
1 TTTACTC
*
6417 TTTACTAT
1 TTTACT-C
*
6425 TTTACTT
1 TTTACTC
*
6432 TTTACTG
1 TTTACTC
*
6439 ATTACTC
1 TTTACTC
6446 TTTACTC
1 TTTACTC
6453 TTTAC
1 TTTAC
6458 CATTTTACTA
Statistics
Matches: 209, Mismatches: 36, Indels: 48
0.71 0.12 0.16
Matches are distributed among these distances:
5 7 0.03
6 5 0.02
7 156 0.75
8 35 0.17
9 2 0.01
10 4 0.02
ACGTcount: A:0.20, C:0.21, G:0.02, T:0.57
Consensus pattern (7 bp):
TTTACTC
Found at i:6200 original size:22 final size:21
Alignment explanation
Indices: 6175--6462 Score: 87
Period size: 22 Copynumber: 13.4 Consensus size: 21
6165 TAATTACTGA
6175 TTACCAATTTACTCTTTACTTT
1 TTACC-ATTTACTCTTTACTTT
** *
6197 TTA-C-TTTACTAATTACTAT
1 TTACCATTTACTCTTTACTTT
*
6216 TTACTCTTTTAC-CATTTTACTTT
1 TTAC-CATTTACTC--TTTACTTT
6239 TTACCGA-TTACTCTTTA-TTT
1 TTACC-ATTTACTCTTTACTTT
* **
6259 TTCATCATTTTACTCTTTACTGA
1 TT-ACCA-TTTACTCTTTACTTT
* *
6282 TTACTC-TTGACTCTTTACCATT
1 TTAC-CATTTACTCTTTA-CTTT
** *
6304 TTA--ATTCTTACTGATTACTCT
1 TTACCA-T-TTACTCTTTACTTT
** *
6325 TTACTTTTTACTATTTTACTTT
1 TTACCATTTACT-CTTTACTTT
* *
6347 TTACTGA-TTACTCTTTACTCT
1 TTAC-CATTTACTCTTTACTTT
*
6368 TTACCATTTTACT-TCTTACTTC
1 TTACCA-TTTACTCT-TTACTTT
* ** *
6390 TTA-CTTCTTACTAATTACTCT
1 TTACCAT-TTACTCTTTACTTT
** *
6411 TTACTTTTTACTATTTTACTTT
1 TTACCATTTACT-CTTTACTTT
* *
6433 TTACTGA-TTACTCTTTACTCT
1 TTAC-CATTTACTCTTTACTTT
6454 TTACCATTT
1 TTACCATTT
6463 TACTATTTGT
Statistics
Matches: 193, Mismatches: 44, Indels: 59
0.65 0.15 0.20
Matches are distributed among these distances:
19 15 0.08
20 9 0.05
21 73 0.38
22 81 0.42
23 15 0.08
ACGTcount: A:0.21, C:0.21, G:0.02, T:0.56
Consensus pattern (21 bp):
TTACCATTTACTCTTTACTTT
Found at i:6205 original size:27 final size:27
Alignment explanation
Indices: 6175--6227 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
6165 TAATTACTGA
*
6175 TTACCAATTTACTCTTTACT-TTTTACT
1 TTACCAA-TTACTATTTACTCTTTTACT
*
6202 TTACTAATTACTATTTACTCTTTTAC
1 TTACCAATTACTATTTACTCTTTTAC
6228 CATTTTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.25, C:0.21, G:0.00, T:0.55
Consensus pattern (27 bp):
TTACCAATTACTATTTACTCTTTTACT
Found at i:6232 original size:15 final size:15
Alignment explanation
Indices: 6209--6254 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
6199 ACTTTACTAA
*
6209 TTACTATTTACTCTT
1 TTACCATTTACTCTT
6224 TTACCATTTTACT-TT
1 TTACCA-TTTACTCTT
6239 TTACCGA-TTACTCTT
1 TTACC-ATTTACTCTT
6254 T
1 T
6255 ATTTTTCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 15 0.56
16 7 0.26
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.57
Consensus pattern (15 bp):
TTACCATTTACTCTT
Found at i:6358 original size:86 final size:85
Alignment explanation
Indices: 6268--6461 Score: 268
Period size: 86 Copynumber: 2.3 Consensus size: 85
6258 TTTCATCATT
* *
6268 TTACTCTTTACTGATTACTC-TTGAC-TCTTTACCATT-TTAATTCTTACTGATTACTCTTTACT
1 TTACTCTTTACTCATTAC-CATTGACTTC-TTA-C-TTCTTAATTCTTACTAATTACTCTTTACT
6330 TTTTACTATTTTACTTTTTACTGA
62 TTTTACTATTTTACTTTTTACTGA
* * *
6354 TTACTCTTTACTCTTTACCATTTTACTTCTTACTTCTTACTTCTTACTAATTACTCTTTACTTTT
1 TTACTCTTTACTCATTACCA-TTGACTTCTTACTTCTTAATTCTTACTAATTACTCTTTACTTTT
6419 TACTATTTTACTTTTTACTGA
65 TACTATTTTACTTTTTACTGA
*
6440 TTACTCTTTACTCTTTACCATT
1 TTACTCTTTACTCATTACCATT
6462 TTACTATTTG
Statistics
Matches: 99, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
85 5 0.05
86 85 0.86
87 7 0.07
88 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.03, T:0.56
Consensus pattern (85 bp):
TTACTCTTTACTCATTACCATTGACTTCTTACTTCTTAATTCTTACTAATTACTCTTTACTTTTT
ACTATTTTACTTTTTACTGA
Found at i:6462 original size:86 final size:88
Alignment explanation
Indices: 6303--6568 Score: 342
Period size: 86 Copynumber: 3.0 Consensus size: 88
6293 TCTTTACCAT
* *
6303 TTTAATTCTTACTGATTACTCTTTACTTTTTACTATTTTACTTTTTACTGATTACTCTTTACTCT
1 TTTACTTCTTACTAATTACTCTTTACTTTTTACTATTTTACTTTTTACTGATTACTCTTTACTCT
6368 TTACCATTTTACTTCTTACT-TC
66 TTACCATTTTACTTCTTACTATC
6390 -TTACTTCTTACTAATTACTCTTTACTTTTTACTATTTTACTTTTTACTGATTACTCTTTACTCT
1 TTTACTTCTTACTAATTACTCTTTACTTTTTACTATTTTACTTTTTACTGATTACTCTTTACTCT
* *
6454 TTACCATTTTACTATTTGTTGATTACTC
66 TTACCATTTTAC---TTCTT-ACTA-TC
* * * *
6482 TTTACTGAT-TAGTACTAATTAC-CATTACTTTTTACCATTTTACTTTCTGCTGATTACTCTTTA
1 TTTACT--TCT--TACTAATTACTCTTTACTTTTTACTATTTTACTTTTTACTGATTACTCTTTA
*
6545 CTCTTTACCATTTTACTTTTTACT
62 CTCTTTACCATTTTACTTCTTACT
6569 GATTACTCTT
Statistics
Matches: 158, Mismatches: 10, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
86 74 0.47
89 4 0.03
90 2 0.01
91 2 0.01
92 6 0.04
93 5 0.03
94 1 0.01
95 54 0.34
96 10 0.06
ACGTcount: A:0.21, C:0.20, G:0.03, T:0.56
Consensus pattern (88 bp):
TTTACTTCTTACTAATTACTCTTTACTTTTTACTATTTTACTTTTTACTGATTACTCTTTACTCT
TTACCATTTTACTTCTTACTATC
Found at i:6479 original size:29 final size:29
Alignment explanation
Indices: 6447--6545 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
6437 TGATTACTCT
*
6447 TTACTCTTTACCATTTTACTATTTGTTGA
1 TTACTCTTTACCATTTTACTATTTGATGA
* * * **
6476 TTACTCTTTACTGATTAGTACTAATT-ACCA
1 TTACTCTTTAC-CATT-TTACTATTTGATGA
* *
6506 TTACTTTTTACCATTTTACT-TTCTGCTGA
1 TTACTCTTTACCATTTTACTATT-TGATGA
6535 TTACTCTTTAC
1 TTACTCTTTAC
6546 TCTTTACCAT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
27 1 0.02
28 5 0.10
29 25 0.48
30 14 0.27
31 7 0.13
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.52
Consensus pattern (29 bp):
TTACTCTTTACCATTTTACTATTTGATGA
Found at i:6535 original size:95 final size:96
Alignment explanation
Indices: 6312--6582 Score: 334
Period size: 95 Copynumber: 2.9 Consensus size: 96
6302 TTTTAATTCT
* * * *
6312 TACTGATTACTCTTTACTTTTTACTATTTTACTTTTTACTGATTACTCTTTACTCTTTACCATTT
1 TACTAATTACTCATTACTTTTTACCATTTTACTTTCTACTGATTACTCTTTACTCTTTACCATTT
6377 TAC---TT-C---TTACT-TCTTACT--TCT--
66 TACTATTTACTGATTACTCT-TTACTGAT-TAG
* * *
6398 TACTAATTACTCTTTACTTTTTACTATTTTACTTTTTACTGATTACTCTTTACTCTTTACCATTT
1 TACTAATTACTCATTACTTTTTACCATTTTACTTTCTACTGATTACTCTTTACTCTTTACCATTT
**
6463 TACTATTTGTTGATTACTCTTTACTGATTAG
66 TACTATTTACTGATTACTCTTTACTGATTAG
*
6494 TACTAATTAC-CATTACTTTTTACCATTTTACTTTCTGCTGATTACTCTTTACTCTTTACCATTT
1 TACTAATTACTCATTACTTTTTACCATTTTACTTTCTACTGATTACTCTTTACTCTTTACCATTT
*
6558 TACTTTTTACTGATTACTCTTTACT
66 TACTATTTACTGATTACTCTTTACT
6583 TTTTACCATT
Statistics
Matches: 164, Mismatches: 9, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
86 67 0.41
89 2 0.01
93 10 0.06
94 2 0.01
95 73 0.45
96 10 0.06
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.55
Consensus pattern (96 bp):
TACTAATTACTCATTACTTTTTACCATTTTACTTTCTACTGATTACTCTTTACTCTTTACCATTT
TACTATTTACTGATTACTCTTTACTGATTAG
Found at i:6547 original size:7 final size:7
Alignment explanation
Indices: 6535--6608 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 7
6525 TTTCTGCTGA
6535 TTACTCT
1 TTACTCT
6542 TTACTCT
1 TTACTCT
6549 TTAC-CATT
1 TTACTC--T
*
6557 TTACTTT
1 TTACTCT
**
6564 TTACTGA
1 TTACTCT
6571 TTACTCT
1 TTACTCT
*
6578 TTACTTT
1 TTACTCT
6585 TTAC-CATT
1 TTACTC--T
*
6593 TTACTTT
1 TTACTCT
6600 TTACTCT
1 TTACTCT
6607 TT
1 TT
6609 TTAACTTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
6 1 0.02
7 41 0.79
8 10 0.19
ACGTcount: A:0.18, C:0.22, G:0.01, T:0.59
Consensus pattern (7 bp):
TTACTCT
Found at i:6567 original size:29 final size:29
Alignment explanation
Indices: 6535--6608 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
6525 TTTCTGCTGA
*
6535 TTACTCTTTACTCTTTACCATTTTA-CTTT
1 TTACTCTTTACTCTTTA-CATTTTACCATT
** *
6564 TTACTGATTACTCTTTACTTTTTACCATT
1 TTACTCTTTACTCTTTACATTTTACCATT
*
6593 TTACTTTTTACTCTTT
1 TTACTCTTTACTCTTT
6609 TTAACTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 6 0.16
29 32 0.84
ACGTcount: A:0.18, C:0.22, G:0.01, T:0.59
Consensus pattern (29 bp):
TTACTCTTTACTCTTTACATTTTACCATT
Found at i:12634 original size:12 final size:12
Alignment explanation
Indices: 12617--12651 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
12607 GGCTCGATCC
12617 TAAAAAGAAAAA
1 TAAAAAGAAAAA
*
12629 TAAAAAGAAAAC
1 TAAAAAGAAAAA
12641 TAAAAAGAAAA
1 TAAAAAGAAAA
12652 TTAATATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.09
Consensus pattern (12 bp):
TAAAAAGAAAAA
Found at i:13090 original size:25 final size:25
Alignment explanation
Indices: 13061--13114 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
13051 AGTAGTTTGC
13061 ATTTCAGTCATGTAGCTCAAATATA
1 ATTTCAGTCATGTAGCTCAAATATA
* * * *
13086 ATTTCATTCATGTAGTTCCAATCTA
1 ATTTCAGTCATGTAGCTCAAATATA
13111 ATTT
1 ATTT
13115 AATTAACTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (25 bp):
ATTTCAGTCATGTAGCTCAAATATA
Found at i:16047 original size:35 final size:35
Alignment explanation
Indices: 15960--16268 Score: 388
Period size: 35 Copynumber: 8.7 Consensus size: 35
15950 AGTAATAAGC
*
15960 AACTTAATTCAGGGTAATTAAGCAAGTCAGTAATAA
1 AACTTAATTCAGGGTAATTAAGTAAGTCAGTAAT-A
*
15996 GTAACTTAATTTAGGGTAATTAAGTAAGTCAGTAATA
1 --AACTTAATTCAGGGTAATTAAGTAAGTCAGTAATA
*
16033 AACTTAATTCAGGGTAATTAAGTAAGTCAGTAATC
1 AACTTAATTCAGGGTAATTAAGTAAGTCAGTAATA
*
16068 AACTTAATTCAGGGTGATTAAGTAAGTCAGTAATA
1 AACTTAATTCAGGGTAATTAAGTAAGTCAGTAATA
* *
16103 AACTTAATTCAGGGTAATTAAGTAAGTCATTAATC
1 AACTTAATTCAGGGTAATTAAGTAAGTCAGTAATA
* * * * *
16138 AACTTAATTCAGGGTAATTAAGCAGGACGGTTAGT-
1 AACTTAATTCAGGGTAATTAAGTAAGTCAG-TAATA
* * * *
16173 AACTTAATTCAGGGTGATTAAGCAGGTCAGTTAGT-
1 AACTTAATTCAGGGTAATTAAGTAAGTCAG-TAATA
* * * *
16208 AACTTAATTCAGGGTAATTAAGTGAGTCAATAGTT
1 AACTTAATTCAGGGTAATTAAGTAAGTCAGTAATA
16243 AACTTAATTCAGGGTAATTAAGTAAG
1 AACTTAATTCAGGGTAATTAAGTAAG
16269 GGTAATTAAG
Statistics
Matches: 245, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
34 4 0.02
35 205 0.84
36 3 0.01
37 1 0.00
38 32 0.13
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (35 bp):
AACTTAATTCAGGGTAATTAAGTAAGTCAGTAATA
Found at i:16270 original size:14 final size:14
Alignment explanation
Indices: 16253--16279 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16243 AACTTAATTC
16253 AGGGTAATTAAGTA
1 AGGGTAATTAAGTA
16267 AGGGTAATTAAGT
1 AGGGTAATTAAGT
16280 TTAGTAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (14 bp):
AGGGTAATTAAGTA
Found at i:22324 original size:13 final size:13
Alignment explanation
Indices: 22306--22340 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
22296 AATCTAAATC
*
22306 TAAAGCAGATTAA
1 TAAAGCAAATTAA
22319 TAAAGCAAATTAA
1 TAAAGCAAATTAA
22332 TAAAGCAAA
1 TAAAGCAAA
22341 CAATAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (13 bp):
TAAAGCAAATTAA
Found at i:23357 original size:179 final size:179
Alignment explanation
Indices: 23057--23415 Score: 682
Period size: 179 Copynumber: 2.0 Consensus size: 179
23047 AACTAGAGAA
23057 AAACCTAAAAACTAAAGAAAGGTAGAAAAAGAGAATTATCTAAAATTTGTAGATTGTGTAGTTGT
1 AAACCTAAAAACTAAAGAAAGGTAGAAAAAGAGAATTATCTAAAATTTGTAGATTGTGTAGTTGT
*
23122 GTGATTTGTGATATAGGAGGTGGCTATTTATACTAGAGGAATAGGGTAGGACGGTTTAGCCTTTG
66 GTGATTTGTGATATAGGAGGTGACTATTTATACTAGAGGAATAGGGTAGGACGGTTTAGCCTTTG
23187 CTTGTTCTCCAAGTTGGATTAGGTGTCATCCTAGAGTAGACTCCAAGTT
131 CTTGTTCTCCAAGTTGGATTAGGTGTCATCCTAGAGTAGACTCCAAGTT
*
23236 AAACCTAAAAACTAAAGAAAGGTAGAAAAAGAGAATTATCTAAAATTTGTGGATTGTGTAGTTGT
1 AAACCTAAAAACTAAAGAAAGGTAGAAAAAGAGAATTATCTAAAATTTGTAGATTGTGTAGTTGT
* *
23301 GTGATTTGTGATATAGGAGGTGACTCTTTATACTAGAGGAATAGGGTAGGACGGTTTAGCCTTTT
66 GTGATTTGTGATATAGGAGGTGACTATTTATACTAGAGGAATAGGGTAGGACGGTTTAGCCTTTG
23366 CTTGTTCTCCAAGTTGGATTAGGTGTCATCCTAGAGTAGACTCCAAGTT
131 CTTGTTCTCCAAGTTGGATTAGGTGTCATCCTAGAGTAGACTCCAAGTT
23415 A
1 A
23416 GATGAGAACT
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
179 176 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (179 bp):
AAACCTAAAAACTAAAGAAAGGTAGAAAAAGAGAATTATCTAAAATTTGTAGATTGTGTAGTTGT
GTGATTTGTGATATAGGAGGTGACTATTTATACTAGAGGAATAGGGTAGGACGGTTTAGCCTTTG
CTTGTTCTCCAAGTTGGATTAGGTGTCATCCTAGAGTAGACTCCAAGTT
Found at i:23444 original size:10 final size:10
Alignment explanation
Indices: 23429--23453 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23419 GAGAACTATT
23429 GAATTTTCTG
1 GAATTTTCTG
23439 GAATTTTCTG
1 GAATTTTCTG
23449 GAATT
1 GAATT
23454 GTGCAGGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (10 bp):
GAATTTTCTG
Found at i:29195 original size:6 final size:6
Alignment explanation
Indices: 29184--29210 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
29174 AAAGCAAAGC
29184 AAATCT AAATCT AAATCT AAATCT AAA
1 AAATCT AAATCT AAATCT AAATCT AAA
29211 GCAGATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATCT
Found at i:30995 original size:28 final size:28
Alignment explanation
Indices: 30962--31016 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
30952 AAAGGTGTTG
30962 TGAAGACCTGGTTAACATCACTGTTTAT
1 TGAAGACCTGGTTAACATCACTGTTTAT
*
30990 TGAAGACCTGGTTAACTTCACTGTTTA
1 TGAAGACCTGGTTAACATCACTGTTTA
31017 GTGGATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (28 bp):
TGAAGACCTGGTTAACATCACTGTTTAT
Found at i:34834 original size:22 final size:22
Alignment explanation
Indices: 34792--34840 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
34782 TCTTAGTGTG
** *
34792 AAATTTTGATAATCTCCCTATA
1 AAATTTTGATAATAACACTATA
34814 AAATTTTGATAATAACACTATA
1 AAATTTTGATAATAACACTATA
*
34836 TAATT
1 AAATT
34841 GGTAACTGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (22 bp):
AAATTTTGATAATAACACTATA
Found at i:34979 original size:22 final size:22
Alignment explanation
Indices: 34950--35182 Score: 166
Period size: 22 Copynumber: 10.6 Consensus size: 22
34940 AATTCCCTCA
*
34950 CTATGAAATTTTGTTAACCTTC
1 CTATGAAATTTTGATAACCTTC
* ***
34972 TTATGAAATTTTGATAACCAAA
1 CTATGAAATTTTGATAACCTTC
*
34994 CTATAAAATTTTGATAA-CTTC
1 CTATGAAATTTTGATAACCTTC
* * *
35015 CGTATAAAATTTTGTTAACCTCC
1 C-TATGAAATTTTGATAACCTTC
* * * *
35038 CTAGGAAATTTTAATAATCTTT
1 CTATGAAATTTTGATAACCTTC
* * * * *
35060 TTATCAAAATTTGGTAACCTTT
1 CTATGAAATTTTGATAACCTTC
* *
35082 GTATGAAATTTTGATAA-CTAC
1 CTATGAAATTTTGATAACCTTC
* **
35103 ACTATGAAGTTTTGATAATTTTC
1 -CTATGAAATTTTGATAACCTTC
* * *
35126 ATATGAAATTTTGGTAACC-AC
1 CTATGAAATTTTGATAACCTTC
35147 ACTATGAAATTTTGATAACCTTC
1 -CTATGAAATTTTGATAACCTTC
* *
35170 GTATGTAATTTTG
1 CTATGAAATTTTG
35183 GTTTGATTGT
Statistics
Matches: 158, Mismatches: 47, Indels: 12
0.73 0.22 0.06
Matches are distributed among these distances:
21 5 0.03
22 146 0.92
23 7 0.04
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (22 bp):
CTATGAAATTTTGATAACCTTC
Found at i:38580 original size:19 final size:18
Alignment explanation
Indices: 38531--38591 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
38521 GATTTCGAAG
*
38531 AAGAAAAAAGAAGAGAAAC
1 AAGAAAAAA-AAGAGAAAA
*
38550 AAGATAAGAAAAGAGAAAAA
1 AAGA-AAAAAAAGAG-AAAA
*
38570 AGAGAAAAAAAAGAGAGAA
1 A-AGAAAAAAAAGAGAAAA
38589 AAG
1 AAG
38592 GGGCCTGACA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.06
19 13 0.37
20 17 0.49
21 3 0.09
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAAAGAGAAAA
Found at i:38591 original size:9 final size:9
Alignment explanation
Indices: 38531--38579 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
38521 GATTTCGAAG
*
38531 AAGAAAAAA
1 AAGAGAAAA
*
38540 GAAGAGAAAC
1 -AAGAGAAAA
*
38550 AAGATAAGAA
1 AAGAGAA-AA
38560 AAGAGAAAA
1 AAGAGAAAA
38569 AAGAGAAAA
1 AAGAGAAAA
38578 AA
1 AA
38580 AAGAGAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
9 19 0.58
10 14 0.42
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (9 bp):
AAGAGAAAA
Found at i:46294 original size:2 final size:2
Alignment explanation
Indices: 46287--46316 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
46277 ACATTTTTAG
46287 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
46317 GAGGTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51740 original size:53 final size:51
Alignment explanation
Indices: 51642--51794 Score: 193
Period size: 53 Copynumber: 2.9 Consensus size: 51
51632 CATTTATAAG
*
51642 TCCCTAAACACAGAGGCAAT-TCTATATCAAAGTCCTCAAACACAAGGGTATTCA
1 TCCCTAAACACAGAGGC-ATCTCT-CA--AAAGTCCTCAAACACAAGGGTATTCA
51696 TCCCTAAACACAGAGGCACCTCTCTCAAAAGTCCTCAAACACAAGGGTATTCA
1 TCCCTAAACACAGAGGCA--TCTCTCAAAAGTCCTCAAACACAAGGGTATTCA
* *
51749 TCCCTAAAAACAGAGGCATTTACATC-AAAGTCCTCAAACACAAGGG
1 TCCCTAAACACAGAGGCATCT-C-TCAAAAGTCCTCAAACACAAGGG
51795 CATCTATATT
Statistics
Matches: 91, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
51 2 0.02
52 21 0.23
53 46 0.51
54 17 0.19
55 2 0.02
56 3 0.03
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.20
Consensus pattern (51 bp):
TCCCTAAACACAGAGGCATCTCTCAAAAGTCCTCAAACACAAGGGTATTCA
Found at i:51831 original size:30 final size:30
Alignment explanation
Indices: 51749--51850 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
51739 AGGGTATTCA
* * * *
51749 TCCCTAAAAACAGAGGCATTTACATCAAAG
1 TCCCTAAACACAGAGGCATCTATATTAAAG
51779 T-CCTCAAACACA-AGGGCATCTATATTAAAG
1 TCCCT-AAACACAGA-GGCATCTATATTAAAG
* *
51809 TCCCTAAACACAGAGGCATCTATACTAAAC
1 TCCCTAAACACAGAGGCATCTATATTAAAG
*
51839 TCCCCAAACACA
1 TCCCTAAACACA
51851 TGTAACACAG
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 4 0.07
30 53 0.87
31 4 0.07
ACGTcount: A:0.41, C:0.28, G:0.11, T:0.20
Consensus pattern (30 bp):
TCCCTAAACACAGAGGCATCTATATTAAAG
Found at i:59481 original size:7 final size:7
Alignment explanation
Indices: 59469--59522 Score: 72
Period size: 7 Copynumber: 7.3 Consensus size: 7
59459 TCATACATAC
59469 CCAAATA
1 CCAAATA
59476 CCAAATA
1 CCAAATA
59483 TCCAAATA
1 -CCAAATA
59491 CCAAATA
1 CCAAATA
59498 CCAAATA
1 CCAAATA
59505 TCCAAATA
1 -CCAAATA
*
59513 TTCAAATA
1 -CCAAATA
59521 CC
1 CC
59523 CATCAGATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 22 0.51
8 21 0.49
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (7 bp):
CCAAATA
Found at i:59489 original size:15 final size:15
Alignment explanation
Indices: 59469--59522 Score: 83
Period size: 15 Copynumber: 3.6 Consensus size: 15
59459 TCATACATAC
59469 CCAAATACCAAATAT
1 CCAAATACCAAATAT
59484 CCAAATACCAAATA-
1 CCAAATACCAAATAT
59498 CCAAATATCCAAATAT
1 CCAAATA-CCAAATAT
*
59514 TCAAATACC
1 CCAAATACC
59523 CATCAGATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 7 0.19
15 23 0.64
16 6 0.17
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (15 bp):
CCAAATACCAAATAT
Found at i:59495 original size:22 final size:23
Alignment explanation
Indices: 59469--59522 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
59459 TCATACATAC
59469 CCAAATACCAAATATCCAAATA-
1 CCAAATACCAAATATCCAAATAT
59491 CCAAATACCAAATATCCAAATAT
1 CCAAATACCAAATATCCAAATAT
*
59514 TCAAATACC
1 CCAAATACC
59523 CATCAGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 22 0.73
23 8 0.27
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (23 bp):
CCAAATACCAAATATCCAAATAT
Done.