Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold194
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: 3945165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1023 characters in sequence are not A, C, G, or T
File 1 of 24
Found at i:3829 original size:105 final size:104
Alignment explanation
Indices: 3701--4045 Score: 272
Period size: 105 Copynumber: 3.3 Consensus size: 104
3691 CCGATGAAAT
* * *
3701 AACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
*
3766 TATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAA
66 TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * * * * *
3805 AACCGGGGTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTTGAAAATAAAGTCGGGGTTGGA
1 AA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
* * * * * ** *
3869 GTATCCCCTCAGAAATAACGG-G--GTTGGAGTATCCCCGATGAT-T
65 GTAT-CCC-C-G-ATTAAAGGAGAAATTGGTGT-T--CTGAAAATAA
* *
3912 AACGGGGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTTGGAAATAAAATCGGAGTT
1 AACGGGGTTGGAGTATCCCCGATTGTGAA-AAATT-G-G-TATTTTTGGAAATAAAATCGGAGTT
* ** * *
3977 GGAGTATCCCCGATTATA-GA-AAATTAATGTTTTGAAAGTAA
62 GGAGTATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * *
4018 AATCGGAGTTGGAATATCCTCGATTGTG
1 AA-CGGGGTTGGAGTATCCCCGATTGTG
4046 GAGAATTGAG
Statistics
Matches: 180, Mismatches: 43, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
104 27 0.15
105 43 0.24
106 30 0.17
107 33 0.18
108 16 0.09
109 1 0.01
110 4 0.02
111 26 0.14
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (104 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
Found at i:3866 original size:51 final size:51
Alignment explanation
Indices: 3706--3876 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
3696 GAAATAACGA
* * *
3706 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
3758 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
3811 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
3862 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
3877 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:3922 original size:27 final size:28
Alignment explanation
Indices: 3859--3934 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
3849 AAAATAAAGT
*
3859 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
3887 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
3914 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
3935 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:6429 original size:13 final size:13
Alignment explanation
Indices: 6411--6436 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6401 ACAAAGATCC
6411 ATGTATCGATACA
1 ATGTATCGATACA
6424 ATGTATCGATACA
1 ATGTATCGATACA
6437 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:6432 original size:33 final size:33
Alignment explanation
Indices: 6390--6456 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6380 AAAATTTCCA
***
6390 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
6423 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
6456 A
1 A
6457 TTTCCTTGGC
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:6500 original size:19 final size:18
Alignment explanation
Indices: 6476--6543 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
6466 CAGTAGCTAA
6476 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
6495 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
6510 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
6527 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
6544 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:6516 original size:13 final size:13
Alignment explanation
Indices: 6498--6522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6488 ACAATACTTA
6498 TGTATCGATACAT
1 TGTATCGATACAT
6511 TGTATCGATACA
1 TGTATCGATACA
6523 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:6520 original size:32 final size:32
Alignment explanation
Indices: 6479--6541 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6469 TAGCTAATTA
*
6479 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
6511 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
6542 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:6624 original size:21 final size:21
Alignment explanation
Indices: 6598--6654 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
6588 ACATTTGGGG
6598 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
6619 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
6640 ATGTATCGATACATT
1 ATGTATCGATACATT
6655 TAAATTTTTT
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:6665 original size:1 final size:1
Alignment explanation
Indices: 6659--6704 Score: 74
Period size: 1 Copynumber: 46.0 Consensus size: 1
6649 TACATTTAAA
**
6659 TTTTTTTTTTTTTTTTTTTTTCATTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6705 CAAACACTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.02, C:0.02, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:6687 original size:22 final size:22
Alignment explanation
Indices: 6660--6701 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
6650 ACATTTAAAT
6660 TTTTTTTTTTTTTTTTTTTTCA
1 TTTTTTTTTTTTTTTTTTTTCA
6682 TTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
6702 TTTCAAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.02, C:0.02, G:0.00, T:0.95
Consensus pattern (22 bp):
TTTTTTTTTTTTTTTTTTTTCA
Found at i:6688 original size:23 final size:23
Alignment explanation
Indices: 6658--6702 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
6648 ATACATTTAA
6658 ATTTTTTTTTTTTTTTTTTTTTC
1 ATTTTTTTTTTTTTTTTTTTTTC
6681 ATTTTTTTTTTTTTTTTTTTTT
1 ATTTTTTTTTTTTTTTTTTTTT
6703 TTCAAACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.04, C:0.02, G:0.00, T:0.93
Consensus pattern (23 bp):
ATTTTTTTTTTTTTTTTTTTTTC
Found at i:6693 original size:25 final size:25
Alignment explanation
Indices: 6659--6706 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
6649 TACATTTAAA
6659 TTTTTTTTTTTTTTTTTTTTTCATT
1 TTTTTTTTTTTTTTTTTTTTTCATT
6684 TTTTTTTTTTTTTTTTTTTTTCA
1 TTTTTTTTTTTTTTTTTTTTTCA
6707 AACACTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.04, G:0.00, T:0.92
Consensus pattern (25 bp):
TTTTTTTTTTTTTTTTTTTTTCATT
Found at i:14621 original size:21 final size:21
Alignment explanation
Indices: 14582--14621 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14572 CAAAAGTGCA
* *
14582 AACACAAAAAAAGAAACAACG
1 AACAAAAAAAAACAAACAACG
*
14603 AACAAAAAAAAACACACAA
1 AACAAAAAAAAACAAACAA
14622 AAAAGGTGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.20, G:0.05, T:0.00
Consensus pattern (21 bp):
AACAAAAAAAAACAAACAACG
Found at i:15985 original size:31 final size:31
Alignment explanation
Indices: 15889--16044 Score: 158
Period size: 30 Copynumber: 5.1 Consensus size: 31
15879 ATACCTTCTT
*
15889 AAAGTCCACGACTCAGTGGCATTTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* * * *
15919 AAAGCCCATGAATCAGTGGCATTTTGTC-CC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* *
15949 AAAGTCCCCGACTTAGTGGCATTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
* *
15980 AAAGTCCACAACTCAGTGGCAATCTCTTT-T-C
1 AAAGTCCACGACTCAGTGGC-AT-TTTTTCTCC
* * *
16011 AAAATCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTTTCTCC
16042 AAA
1 AAA
16045 ACCCAAAACT
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
29 3 0.03
30 52 0.50
31 42 0.40
32 3 0.03
33 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTTTCTCC
Found at i:16112 original size:28 final size:28
Alignment explanation
Indices: 16070--16128 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
16060 GCACCTTTTT
*
16070 CTTTTCAAAGCCCACAACTTCGTGGCATC
1 CTTTTCAAAGCCCACAACTCCGTGGCA-C
*
16099 CTTTT-AAAGTCCACAACTCCGTGGCAC
1 CTTTTCAAAGCCCACAACTCCGTGGCAC
16126 CTT
1 CTT
16129 GTTTCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
28 19 0.68
29 5 0.18
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.29
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAACTCCGTGGCAC
Found at i:16217 original size:35 final size:34
Alignment explanation
Indices: 16058--16261 Score: 214
Period size: 35 Copynumber: 6.2 Consensus size: 34
16048 CAAAACTACA
* *
16058 TGGCAC-CTTTTTCTTTTCAAAGCCCACAACTTCG
1 TGGCACTCTTTTTCTTTT-AAAGTCCACAACTCCG
16092 TGGCA-TC-----CTTTTAAAGTCCACAACTCCG
1 TGGCACTCTTTTTCTTTTAAAGTCCACAACTCCG
*
16120 TGGCAC-CTTGTTTCTTTT-AAGTCCACAACTCCA
1 TGGCACTCTT-TTTCTTTTAAAGTCCACAACTCCG
* * * *
16153 TGGCA-TCTTTTTCCTTTATAGCCCACAACTCTG
1 TGGCACTCTTTTTCTTTTAAAGTCCACAACTCCG
*
16186 TGGCACTCTTTTTCTTTCTAAAGTCCACAACTTCG
1 TGGCACTCTTTTTCTTT-TAAAGTCCACAACTCCG
16221 TGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCG
1 TGGCACTCTTTTT--CTTTTAAAGTCCACAACTCCG
16256 TGGCAC
1 TGGCAC
16262 CCTTCAAAGT
Statistics
Matches: 142, Mismatches: 14, Indels: 27
0.78 0.08 0.15
Matches are distributed among these distances:
28 20 0.14
29 5 0.04
32 7 0.05
33 38 0.27
34 21 0.15
35 46 0.32
36 1 0.01
37 4 0.03
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (34 bp):
TGGCACTCTTTTTCTTTTAAAGTCCACAACTCCG
Found at i:16316 original size:31 final size:31
Alignment explanation
Indices: 15884--16318 Score: 213
Period size: 31 Copynumber: 13.9 Consensus size: 31
15874 TTCAAATACC
*
15884 TTCTT-AAAGTCCACGACTCAGTGGCAT-TT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* * *
15913 TGTC-CCAAAGCCCATGAA-TCAGTGGCAT-TT
1 T-TCTTCAAAGTCCA-CAACTCAGTGGCATCTT
* * * * *
15943 TGTC-CCAAAGTCCCCGACTTAGTGGCATTTT
1 T-TCTTCAAAGTCCACAACTCAGTGGCATCTT
* *
15974 TTCTCCAAAGTCCACAACTCAGTGGCAATCTC
1 TTCTTCAAAGTCCACAACTCAGTGGC-ATCTT
* *
16006 TT-TTCAAAATCCACGACTCAGTGGCATCTT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
** * *
16036 TTCTTCAAAACCCAAAACTACA-TGGCACCTTT
1 TTCTTCAAAGTCCACAACT-CAGTGGCATC-TT
* *
16068 TTCTTTTCAAAGCCCACAACTTC-GTGGCATC-C
1 TTC--TTCAAAGTCCACAAC-TCAGTGGCATCTT
* *
16100 TT-TT-AAAGTCCACAACTCCGTGGCACCTTGT
1 TTCTTCAAAGTCCACAACTCAGTGGCATC-T-T
**
16131 TTCTTTTAAGTCCACAACTCCA-TGGCATCTTT
1 TTCTTCAAAGTCCACAACT-CAGTGGCATC-TT
* * * *
16163 TTCCTTTATAGCCCACAACTCTGTGGCACTCTTT
1 TT-CTTCAAAGTCCACAACTCAGTGGCA-TC-TT
16197 TTCTTTCTAAAGTCCACAACTTC-GTGGCACTCTTT
1 TTC-TTC-AAAGTCCACAAC-TCAGTGGCA-TC-TT
** *
16232 TTCCCTTTTAAGTCCACAACTCCGTGGCA-C--
1 TT--CTTCAAAGTCCACAACTCAGTGGCATCTT
* ** *
16262 -CCTTCAAAGTCCATGACTAAGTGGCATCTT
1 TTCTTCAAAGTCCACAACTCAGTGGCATCTT
* *
16292 TTCTTCAAAGCCCACAAGTCAGTGGCA
1 TTCTTCAAAGTCCACAACTCAGTGGCA
16319 ACCTTCAAAA
Statistics
Matches: 318, Mismatches: 54, Indels: 66
0.73 0.12 0.15
Matches are distributed among these distances:
27 21 0.07
28 19 0.06
29 4 0.01
30 50 0.16
31 84 0.26
32 20 0.06
33 41 0.13
34 32 0.10
35 42 0.13
36 4 0.01
37 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (31 bp):
TTCTTCAAAGTCCACAACTCAGTGGCATCTT
Found at i:16408 original size:49 final size:48
Alignment explanation
Indices: 16355--17624 Score: 1170
Period size: 49 Copynumber: 26.8 Consensus size: 48
16345 AGCATCTTCT
* *
16355 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TC
* * * * * *
16404 TTTAAGACCATTGTTGCTGGCCTTGAACCAGTACATTGGCA-C----C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* **
16447 TTTAAGTCCAATATCGCCAGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TC
* *
16496 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* * *
16539 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTTGTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TC
* * *
16588 TTTAAGACCAATGTCGCTGGCATTGAATCAGCACATTGGCA-C----C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* * * *
16631 TTTAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TC
* *
16680 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* * *
16723 TTTAAATCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTTTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTTTC
* * *
16772 TTTAAGACCAATGTTGCTGGCCTTGAGTCAGCATATTGGCA-C----C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* *
16815 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTTTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC-CTTTTC
* * *
16864 TTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCA-C----C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* *
16907 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTTTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTTTC
*
16956 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-C----C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* * *
16999 TTTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTTTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTC
* *
17048 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
* *
17091 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTC
* * * *
17140 TTTAAGTCCAATGTCGATGGCCTTGAATCAGTACA-TGGCACCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTC
* * *
17188 TTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTTGTC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TC
* * * *
17237 ATCTTCAAGGCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCATC
1 -T-TT-AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTC
* * * *
17289 TTTAAGTACAATATTGCTGGCCTTGAATCAGCATTTTGGCACCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T--TC
* * * *
17341 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTATCTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTC
* * * ** *
17390 TTTAAGTCCGATATCGCTGGCCTTGGATCAGCATATTGGCACCGTCATA
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTTTC
* * * *
17439 TTTAAGACCAATGTTGCTAGCCTTGAATCAGCACATTGGC-CCTTTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT--TC
* * *
17488 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTAAC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TC
* * ** * *
17537 ATTCCTAAGCCCAATGTCGTTGGCCTTGTCTTAGCACATTGGCA--TTCTTC
1 -TT--TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTC
* * * * * *
17587 TTCAAATCTAATGTCGTTGGCCATGAATCAGCACATTG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTG
17625 TCATTCTTCG
Statistics
Matches: 998, Mismatches: 158, Indels: 132
0.77 0.12 0.10
Matches are distributed among these distances:
43 298 0.30
44 6 0.01
47 29 0.03
48 51 0.05
49 485 0.49
50 16 0.02
51 6 0.01
52 107 0.11
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (48 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTC
Found at i:16515 original size:92 final size:92
Alignment explanation
Indices: 16355--17580 Score: 1590
Period size: 92 Copynumber: 13.0 Consensus size: 92
16345 AGCATCTTCT
* * * *
16355 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCATTGTTG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
* *
16420 CTGGCCTTGAACCAGTACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
**
16447 TTTAAGTCCAATATCGCCAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
16512 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
16539 TTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTTGTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
*
16604 CTGGCATTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * *
16631 TTTAAGTCTAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTGTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
16696 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * *
16723 TTTAAATCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTTTCTTTAAGACCAATGTTG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
* *
16788 CTGGCCTTGAGTCAGCATATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
16815 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTTTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
*
16880 CTGGCCTTAAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
16907 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
*
16972 CTGGCCTTGAATCAGCATATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
16999 TTTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCTTTAAGACCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
17064 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * *
17091 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
* *
17156 ATGGCCTTGAATCAGTACA-TGGCACCTTCATC
66 CTGGCCTTGAATCAGCACATTGGCA----C--C
* * * *
17188 TTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTTCAAGGCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-T-ATCTTTAAGACCAATG
*
17253 TCGCTGGCCTTGAATCAACACATTGGCACCTTCATC
63 TCGCTGGCCTTGAATCAGCACATTGGCA----C--C
* * * *
17289 TTTAAGTACAATATTGCTGGCCTTGAATCAGCATTTTGGCACCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTTTAAGACCAATG
*
17354 TCGCTGGCCTTGAATCAGCACATTGGTATCTTCATC
63 TCGCTGGCCTTGAATCAGCACATTGG------CACC
* * * * * *
17390 TTTAAGTCCGATATCGCTGGCCTTGGATCAGCATATTGGCACCGTCATATTTAAGACCAATGTTG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
* *
17455 CTAGCCTTGAATCAGCACATTGGCCCTTTCATC
66 CTGGCCTTGAATCAGCACATTGG------CACC
* * *
17488 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTAACATTCCTAAGCCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC-TT--TAAGACCAATG
* ** *
17553 TCGTTGGCCTTGTCTTAGCACATTGGCA
63 TCGCTGGCCTTGAATCAGCACATTGGCA
17581 TTCTTCTTCA
Statistics
Matches: 1015, Mismatches: 99, Indels: 37
0.88 0.09 0.03
Matches are distributed among these distances:
91 5 0.00
92 677 0.67
95 3 0.00
97 39 0.04
98 89 0.09
99 2 0.00
100 35 0.03
101 163 0.16
107 2 0.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:17034 original size:22 final size:22
Alignment explanation
Indices: 16969--17034 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
16959 AAGACCAATG
16969 TCGCTGGCCTTGAATCAGCATA
1 TCGCTGGCCTTGAATCAGCATA
*
16991 T---TGGCACCTTTGAGTC--CAATA
1 TCGCTGG--CC-TTGAATCAGC-ATA
17012 TCGCTGGCCTTGAATCAGCATA
1 TCGCTGGCCTTGAATCAGCATA
17034 T
1 T
17035 TGGCATCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 18
0.62 0.04 0.34
Matches are distributed among these distances:
19 3 0.09
20 1 0.03
21 12 0.36
22 13 0.39
23 1 0.03
24 3 0.09
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (22 bp):
TCGCTGGCCTTGAATCAGCATA
Found at i:17092 original size:21 final size:21
Alignment explanation
Indices: 17068--17135 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
17058 ATGTCGCTGG
17068 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
17089 CCTTTAAGTC--CA-ATGTCGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
17111 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
17132 CCTT
1 CCTT
17136 CATCTTTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:18834 original size:14 final size:14
Alignment explanation
Indices: 18815--18843 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18805 TTCATTTAAG
18815 GGTGAGAGTGAAAT
1 GGTGAGAGTGAAAT
18829 GGTGAGAGTGAAAT
1 GGTGAGAGTGAAAT
18843 G
1 G
18844 TCTTAAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.45, T:0.21
Consensus pattern (14 bp):
GGTGAGAGTGAAAT
Found at i:24195 original size:13 final size:13
Alignment explanation
Indices: 24177--24202 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24167 ACACCAAAGT
24177 ATGTATCGATACA
1 ATGTATCGATACA
24190 ATGTATCGATACA
1 ATGTATCGATACA
24203 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:24200 original size:33 final size:33
Alignment explanation
Indices: 24158--24222 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
24148 TAGCCAAACT
* *
24158 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
24191 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
24223 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:33406 original size:11 final size:11
Alignment explanation
Indices: 33390--33455 Score: 63
Period size: 10 Copynumber: 6.5 Consensus size: 11
33380 ATCCTCCAAA
33390 AAAAAACAACC
1 AAAAAACAACC
*
33401 AAAAAA-AAAC
1 AAAAAACAACC
*
33411 -AAAAACAA-A
1 AAAAAACAACC
33420 AAAAAACAA--
1 AAAAAACAACC
33429 AAAAAA-AACC
1 AAAAAACAACC
*
33439 AAAAAAAAACC
1 AAAAAACAACC
33450 AAAAAA
1 AAAAAA
33456 AAACAACAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
8 2 0.04
9 11 0.23
10 19 0.40
11 16 0.33
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAACC
Found at i:33466 original size:11 final size:10
Alignment explanation
Indices: 33386--33467 Score: 94
Period size: 11 Copynumber: 7.8 Consensus size: 10
33376 AGGCATCCTC
33386 CAAAAAAAAA
1 CAAAAAAAAA
*
33396 CAACCAAAAAA
1 CAA-AAAAAAA
*
33407 -AAACAAAAA
1 CAAAAAAAAA
33416 CAAAAAAAAA
1 CAAAAAAAAA
33426 CAAAAAAAAAA
1 C-AAAAAAAAA
33437 CCAAAAAAAAA
1 -CAAAAAAAAA
33448 CCAAAAAAAAA
1 -CAAAAAAAAA
33459 CAACAAAAA
1 CAA-AAAAA
33468 GGGTCCGGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
9 5 0.08
10 17 0.27
11 40 0.63
12 1 0.02
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:33467 original size:1 final size:1
Alignment explanation
Indices: 33387--33458 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
33377 GGCATCCTCC
* ** * * * ** **
33387 AAAAAAAAACAACCAAAAAAAAACAAAAACAAAAAAAAACAAAAAAAAAACCAAAAAAAAACCAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
33452 AAAAAAA
1 AAAAAAA
33459 CAACAAAAAG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:34966 original size:29 final size:29
Alignment explanation
Indices: 34896--35413 Score: 632
Period size: 29 Copynumber: 17.9 Consensus size: 29
34886 TCACCCTTCA
* * *
34896 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
34924 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
34953 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * ** *
34983 AAAGCCCACAAGTCAATCGTGTCCTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* * *
35012 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* * *
35040 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
35068 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
35097 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* * *
35126 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
35154 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* **
35184 AAAGCCCACAAGTCAATGGTGTCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
35213 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * *
35243 AAAGCCCGCAAGTTAGTGGCGTCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* * *
35272 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
35300 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* *
35330 AAAGCCCATAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* * * *
35359 AAAGCCCACAAGTCAATGGTATCTCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
35388 AAAGCCCACAAGTCAGTGGCAACTTT
1 AAAGCCCACAAGTCAGTGGCATCTTT
35414 CAGAAGCACG
Statistics
Matches: 422, Mismatches: 60, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
28 123 0.29
29 207 0.49
30 92 0.22
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCC
Found at i:35304 original size:116 final size:115
Alignment explanation
Indices: 34896--35420 Score: 707
Period size: 116 Copynumber: 4.5 Consensus size: 115
34886 TCACCCTTCA
* * *
34896 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCA
* *
34961 CAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAATCGTG-TCC-TTTCC
65 CAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGT-G-GCACCTTTTCC
35012 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCAC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCAC
* *
35077 AAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
66 AAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCC
* *
35126 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCC
* ***
35191 ACAAGTCAATGG-TGTCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
64 ACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCA-CCTTTTCC
* * ** * *
35243 AAAGCCCGCAAGTTAGTGGCGTCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCA
* * *
35308 CAAGTCAGTGGCACCCTTTTCCAAAGCCCATAAGTTAGTGGCATCTTTTCC
65 CAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCC
* * * * *
35359 AAAGCCCACAAGTCAATGGTATCTCTTCAAAAGCCCACAAGTCAGTGGCAACTTTCAGAAGC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGC
35421 ACGCAAGTTG
Statistics
Matches: 365, Mismatches: 36, Indels: 16
0.88 0.09 0.04
Matches are distributed among these distances:
112 1 0.00
113 2 0.01
114 79 0.22
115 24 0.07
116 181 0.50
117 52 0.14
118 26 0.07
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (115 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCAC
AAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCACCTTTTCC
Found at i:35583 original size:43 final size:43
Alignment explanation
Indices: 35476--35929 Score: 392
Period size: 43 Copynumber: 10.0 Consensus size: 43
35466 CATCTTCTTC
* * *
35476 TAAGTACAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TT
* *
35520 TAAGCCCAATGTCGTTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * * *
35563 TAAGTCCAATGTAGCAGGCCTTGAATCAGGACATTGGCACCTC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
35606 CAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCACCCTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
* *
35655 TAAGTCCAGTGT-GACAGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATGTCG-CTGGCCTTGAATCAGCATATTGGCACCTT
* * *
35698 TAAGTCCAATGTAC-CTGGCCTTGAATCAGGACATTGGCACCTC
1 TAAGTCCAATGT-CGCTGGCCTTGAATCAGCATATTGGCACCTT
* * *
35741 CAAGTCCAATATCGCTGGCCTTGAATCCGCATATTGGCACCCTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
* * *
35790 TAAGTCCAGTGT-GACAGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATGTCG-CTGGCCTTGAATCAGCATATTGGCACCTT
** *
35833 TAAGTCCAACATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATT---G-----G-CACCTT
* *
35885 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
35928 TA
1 TA
35930 TCATTAACAT
Statistics
Matches: 328, Mismatches: 55, Indels: 55
0.75 0.13 0.13
Matches are distributed among these distances:
42 1 0.00
43 178 0.54
44 38 0.12
45 2 0.01
46 1 0.00
47 2 0.01
48 2 0.01
49 67 0.20
51 1 0.00
52 36 0.11
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:35691 original size:92 final size:86
Alignment explanation
Indices: 35492--35929 Score: 333
Period size: 92 Copynumber: 4.8 Consensus size: 86
35482 CAATATCGCT
* * *
35492 GGCCTTGAATCAGCACATTGGCACCTTTTAAGCCCAATGTCGTTGGCCTTGAATCAGCATATTGG
1 GGCCTTGAATCAGCACATTGGCACC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGG
35557 CACCTTTAAGTCCAATGTAGCA
65 CACCTTTAAGTCCAATGTAGCA
* ** * *
35579 GGCCTTGAATCAGGACATTGGCACCTCCAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGC
1 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGC
*
35644 ACCCTCATCTTTAAGTCCAGTGT-GACA
66 A----C--CTTTAAGTCCAATGTAG-CA
* ** *
35671 GGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTAC-CTGGCCTTGAATCAGGACATTGG
1 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATGT-CGCTGGCCTTGAATCAACATATTGG
** * * *
35735 CACCTCCAAGTCCAATATCGCT
65 CACCTTTAAGTCCAATGTAGCA
* * * * *
35757 GGCCTTGAATCCGCATATTGGCACCCTCATCTTTAAGTCCAGTGT-GACAGGCCTTGAATCAGCA
1 GGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATGTCG-CTGGCCTTGAATCAACA
* ** * *
35821 CATTGGCACCTTTAAGTCCAACATCGCT
59 TATTGGCACCTTTAAGTCCAATGTAGCA
* * * *
35849 GGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAG
1 GGCCTTGAATCAGCACATT---G-----G-CACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAA
*
35914 CACATTGGCACCTTTA
57 CATATTGGCACCTTTA
35930 TCATTAACAT
Statistics
Matches: 289, Mismatches: 35, Indels: 46
0.78 0.09 0.12
Matches are distributed among these distances:
86 68 0.24
87 25 0.09
88 1 0.00
90 2 0.01
91 1 0.00
92 143 0.49
93 1 0.00
95 44 0.15
96 1 0.00
100 1 0.00
101 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (86 bp):
GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGC
ACCTTTAAGTCCAATGTAGCA
Found at i:35719 original size:135 final size:135
Alignment explanation
Indices: 35536--35870 Score: 564
Period size: 135 Copynumber: 2.5 Consensus size: 135
35526 CAATGTCGTT
* *
35536 GGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTAGCAGGCCTTGAATCAGGACATTGGC
1 GGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTACCTGGCCTTGAATCAGGACATTGGC
35601 ACCTCCAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCACCCTCATCTTTAAGTCCAGTG
66 ACCTCCAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCACCCTCATCTTTAAGTCCAGTG
35666 TGACA
131 TGACA
35671 GGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTACCTGGCCTTGAATCAGGACATTGGC
1 GGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTACCTGGCCTTGAATCAGGACATTGGC
* **
35736 ACCTCCAAGTCCAATATCGCTGGCCTTGAATCCGCATATTGGCACCCTCATCTTTAAGTCCAGTG
66 ACCTCCAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCACCCTCATCTTTAAGTCCAGTG
35801 TGACA
131 TGACA
* ** * *
35806 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAACAT-CGCTGGCCTTGAATCAGCATATTGG
1 GGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTAC-CTGGCCTTGAATCAGGACATTGG
35870 C
65 C
35871 GTCTTTGTCA
Statistics
Matches: 189, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 1 0.01
135 188 0.99
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (135 bp):
GGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTACCTGGCCTTGAATCAGGACATTGGC
ACCTCCAAGTCCAATATCGCTGGCCTTAAATCAACATATTGGCACCCTCATCTTTAAGTCCAGTG
TGACA
Found at i:37344 original size:13 final size:13
Alignment explanation
Indices: 37326--37353 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37316 TACATAAAGT
37326 ATTGTATCGATAC
1 ATTGTATCGATAC
37339 ATTGTATCGATAC
1 ATTGTATCGATAC
37352 AT
1 AT
37354 AAGTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:37368 original size:32 final size:33
Alignment explanation
Indices: 37307--37371 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
37297 TTTCAACGAT
37307 TTGTATCGATACATAAAGTATTGTATCGATACA
1 TTGTATCGATACATAAAGTATTGTATCGATACA
*
37340 TTGTATCGATACAT-AAGTTTTGTATCGATACA
1 TTGTATCGATACATAAAGTATTGTATCGATACA
37372 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATAAAGTATTGTATCGATACA
Found at i:41825 original size:15 final size:15
Alignment explanation
Indices: 41807--41836 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41797 CCAAATTGAG
41807 GAAGCTCAAAATGAA
1 GAAGCTCAAAATGAA
*
41822 GAAGCTCCAAATGAA
1 GAAGCTCAAAATGAA
41837 ATTGATGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (15 bp):
GAAGCTCAAAATGAA
Found at i:41832 original size:16 final size:16
Alignment explanation
Indices: 41796--41836 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
41786 GATAAAAATG
* *
41796 TCCAAATTGAGGAAGC
1 TCCAAAATGAAGAAGC
41812 T-CAAAATGAAGAAGC
1 TCCAAAATGAAGAAGC
41827 TCC-AAATGAA
1 TCCAAAATGAA
41837 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (16 bp):
TCCAAAATGAAGAAGC
Found at i:44393 original size:20 final size:21
Alignment explanation
Indices: 44368--44410 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
44358 GGCAGCACCA
*
44368 CCAGGTCGCGACC-GGCAGTC
1 CCAGGTCGCAACCGGGCAGTC
44388 CCAGGTCGCAACCGGGCAGTC
1 CCAGGTCGCAACCGGGCAGTC
44409 CC
1 CC
44411 CATACTAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.16, C:0.42, G:0.33, T:0.09
Consensus pattern (21 bp):
CCAGGTCGCAACCGGGCAGTC
Found at i:46156 original size:13 final size:13
Alignment explanation
Indices: 46138--46163 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46128 ACACCAAAGT
46138 ATGTATCGATACA
1 ATGTATCGATACA
46151 ATGTATCGATACA
1 ATGTATCGATACA
46164 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:46181 original size:33 final size:33
Alignment explanation
Indices: 46119--46183 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
46109 TAGCCAAACT
* * *
46119 TGTATCGATACACCAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTACCGATACAA
46152 TGTATCGATACACAAAAA-ATTGTACCGATACA
1 TGTATCGATACACAAAAATA-TGTACCGATACA
46184 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTACCGATACAA
Found at i:47644 original size:18 final size:18
Alignment explanation
Indices: 47588--47650 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
47578 AAAAAATTGG
47588 GATAATAATTTTTTATTT-
1 GATAATAA-TTTTTATTTA
**
47606 GATAAAGTAATAATT-TTTA
1 GAT-AA-TAATTTTTATTTA
47625 GATAATAATTTTTATTTA
1 GATAATAATTTTTATTTA
*
47643 GAAAATAA
1 GATAATAA
47651 AACGATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 6 0.17
18 19 0.53
19 8 0.22
20 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (18 bp):
GATAATAATTTTTATTTA
Found at i:47662 original size:37 final size:37
Alignment explanation
Indices: 47588--47662 Score: 84
Period size: 37 Copynumber: 2.0 Consensus size: 37
47578 AAAAAATTGG
* *
47588 GATAATAATTTTTTATTTGATAAAGTAATAATTTTTA
1 GATAATAATTTTTTATTTGATAAAGTAAAAATATTTA
47625 GATAATAA-TTTTTATTTAGA-AAA-TAAAACGATATTTA
1 GATAATAATTTTTTATTT-GATAAAGTAAAA--ATATTTA
47662 G
1 G
47663 TTTATTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
35 4 0.12
36 12 0.36
37 17 0.52
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.45
Consensus pattern (37 bp):
GATAATAATTTTTTATTTGATAAAGTAAAAATATTTA
Found at i:48550 original size:11 final size:11
Alignment explanation
Indices: 48534--48564 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
48524 AATTTCTTTA
48534 TTTTTTTCTCT
1 TTTTTTTCTCT
*
48545 TTTTTTTTTCT
1 TTTTTTTCTCT
48556 TTTTTTTCT
1 TTTTTTTCT
48565 TTCCTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:48552 original size:13 final size:13
Alignment explanation
Indices: 48528--48575 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
48518 TTAGCAAATT
48528 TCTTTATTTTTTTC
1 TCTTT-TTTTTTTC
48542 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
48555 T-TTTTTTTCTTTC
1 TCTTTTTTT-TTTC
48568 -CTTTTTTT
1 TCTTTTTTT
48576 GTCTCTCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.22
13 20 0.62
14 5 0.16
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:48562 original size:25 final size:25
Alignment explanation
Indices: 48526--48575 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
48516 TGTTAGCAAA
48526 TTTCTTTATTTT-TTTCTCTTTTTTT
1 TTTCTTTATTTTCTTTC-CTTTTTTT
*
48551 TTTCTTTTTTTTCTTTCCTTTTTTT
1 TTTCTTTATTTTCTTTCCTTTTTTT
48576 GTCTCTCCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (25 bp):
TTTCTTTATTTTCTTTCCTTTTTTT
Found at i:48572 original size:22 final size:21
Alignment explanation
Indices: 48534--48575 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48524 AATTTCTTTA
48534 TTTTTTTCTCTTTTTTTTTTC
1 TTTTTTTCTCTTTTTTTTTTC
48555 TTTTTTT-TCTTTCCTTTTTTT
1 TTTTTTTCTCTTT--TTTTTTT
48576 GTCTCTCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTTTTCTCTTTTTTTTTTC
Found at i:50850 original size:24 final size:24
Alignment explanation
Indices: 50816--50864 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
50806 AAAGATGAAG
50816 AATTCTCGAGACTTTCTATTATCA
1 AATTCTCGAGACTTTCTATTATCA
*
50840 AATTCTTGAGACTTTCTATTATCA
1 AATTCTCGAGACTTTCTATTATCA
50864 A
1 A
50865 TGTTTCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (24 bp):
AATTCTCGAGACTTTCTATTATCA
Found at i:53222 original size:19 final size:21
Alignment explanation
Indices: 53174--53229 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
53164 AATTTCAACA
53174 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** *
53195 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
53215 -TTTGTATCGATACAA
1 ATTTGTATCGATACAA
53230 TATATAGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 12 0.41
20 3 0.10
21 14 0.48
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:53944 original size:13 final size:13
Alignment explanation
Indices: 53926--53965 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
53916 CTCACACATA
53926 GTCCAAACTCATG
1 GTCCAAACTCATG
*
53939 GTCCAAAGCCACATG
1 GTCCAAA--CTCATG
53954 GTCCAAACTCAT
1 GTCCAAACTCAT
53966 TGGCTACCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.20
Consensus pattern (13 bp):
GTCCAAACTCATG
Found at i:54147 original size:383 final size:384
Alignment explanation
Indices: 53558--54318 Score: 1515
Period size: 383 Copynumber: 2.0 Consensus size: 384
53548 GCATTGAATG
53558 CCAAAGCCACATGGTCCAAACTCATTGGCTACCATGGCTTCCAAGGCTGCCAAACCTTATCTCCA
1 CCAAAGCCACATGGTCCAAACTCATTGGCTACCATGGCTTCCAAGGCTGCCAAACCTTATCTCCA
53623 GCCACCCTATCTTCTCCCTGAGTTTTGCCAGCAACCATAGGCAATGATATCAGCCACCTTAGCTA
66 GCCACCCTATCTTCTCCCTGAGTTTTGCCAGCAACCATAGGCAATGATATCAGCCACCTTAGCTA
53688 GCTAGCTTTTCATTTAATGGTGAGAGTGAAATGTCTTAAGCACCCTCACTTGGTCACCACCAATC
131 GCTAGCTTTTCATTTAATGGTGAGAGTGAAATGTCTTAAGCACCCTCACTTGGTCACCACCAATC
53753 TAGCCTATAAAAGGCTGATTTTGTTCTCAGCAAAAGAGGCTTTGGCTGAGTAGATCCCTTCCCCA
196 TAGCCTATAAAAGGCTGATTTTGTTCTCAGCAAAAGAGGCTTTGGCTGAGTAGATCCCTTCCCCA
53818 ACAACCTTCCTTCAGCAACCAAATTACTTAGCCAAATTGTCCATCCCGTAGCTCCTCCTTTCTTC
261 ACAACCTTCCTTCAGCAACCAAATTACTTAGCCAAATTGTCCATCCCGTAGCTCCTCCTTTCTTC
53883 CCACAAAAACACCTTAAAACACCTTCTCCTTAGCTCACACATAG-TCCAAACTCATGGT
326 CCACAAAAACACCTTAAAACACCTTCTCCTTAGCTCACACATAGCTCCAAACTCATGGT
53941 CCAAAGCCACATGGTCCAAACTCATTGGCTACCATGGCTTCCAAGGCTGCCAAACCTTATCTCCA
1 CCAAAGCCACATGGTCCAAACTCATTGGCTACCATGGCTTCCAAGGCTGCCAAACCTTATCTCCA
54006 GCCACCCTATCTTCTCCCTGAGTTTTGCCAGCAACCATAGGCAATGATATCAGCCACCTTAGCTA
66 GCCACCCTATCTTCTCCCTGAGTTTTGCCAGCAACCATAGGCAATGATATCAGCCACCTTAGCTA
54071 GCTAGCTTTTCATTTAATGGTGAGAGTGAAATGTCTTAAGCACCCTCACTTGGTCACCACCAATC
131 GCTAGCTTTTCATTTAATGGTGAGAGTGAAATGTCTTAAGCACCCTCACTTGGTCACCACCAATC
54136 TAGCCTATAAAAGGCTGATTTTGTTCTCAGCAAAAGAGGCTTTGGCTGAGTAGATCCCTTCCCCA
196 TAGCCTATAAAAGGCTGATTTTGTTCTCAGCAAAAGAGGCTTTGGCTGAGTAGATCCCTTCCCCA
54201 ACAACCTTCCTTCAGCAACCAAATTACTTAGCCAAATTGTCCATCCCGTAGCTCCTCCTTTCTTC
261 ACAACCTTCCTTCAGCAACCAAATTACTTAGCCAAATTGTCCATCCCGTAGCTCCTCCTTTCTTC
54266 CCACAAAAACACCTTAAAACACCTTCTCCTTAGCTCACACATAGCTCCAAACT
326 CCACAAAAACACCTTAAAACACCTTCTCCTTAGCTCACACATAGCTCCAAACT
54319 ATTTCCCCTC
Statistics
Matches: 377, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
383 369 0.98
384 8 0.02
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (384 bp):
CCAAAGCCACATGGTCCAAACTCATTGGCTACCATGGCTTCCAAGGCTGCCAAACCTTATCTCCA
GCCACCCTATCTTCTCCCTGAGTTTTGCCAGCAACCATAGGCAATGATATCAGCCACCTTAGCTA
GCTAGCTTTTCATTTAATGGTGAGAGTGAAATGTCTTAAGCACCCTCACTTGGTCACCACCAATC
TAGCCTATAAAAGGCTGATTTTGTTCTCAGCAAAAGAGGCTTTGGCTGAGTAGATCCCTTCCCCA
ACAACCTTCCTTCAGCAACCAAATTACTTAGCCAAATTGTCCATCCCGTAGCTCCTCCTTTCTTC
CCACAAAAACACCTTAAAACACCTTCTCCTTAGCTCACACATAGCTCCAAACTCATGGT
Found at i:55183 original size:11 final size:11
Alignment explanation
Indices: 55167--55191 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
55157 AATATTAAAC
55167 AATTTTTATAA
1 AATTTTTATAA
55178 AATTTTTATAA
1 AATTTTTATAA
55189 AAT
1 AAT
55192 ACTAAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTTTATAA
Found at i:56716 original size:33 final size:33
Alignment explanation
Indices: 56657--56719 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
56647 GTTACAAGCT
*
56657 ATGTGTCGATACAATTCATCACGTATCGATGCA
1 ATGTATCGATACAATTCATCACGTATCGATGCA
* *
56690 ATGTATCGATAC-ATTGTATCATGTATCGAT
1 ATGTATCGATACAATT-CATCACGTATCGAT
56720 ACAAACAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 3 0.12
33 23 0.88
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACAATTCATCACGTATCGATGCA
Found at i:59050 original size:20 final size:19
Alignment explanation
Indices: 59009--59048 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
58999 TTCTGTTGAT
59009 GATTTTGATGAAAAATGAAA
1 GATTTTGATGAAAAAT-AAA
59029 GATTTTGAAGTGAAAAATAA
1 GATTTTG-A-TGAAAAATAA
59049 GAAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (19 bp):
GATTTTGATGAAAAATAAA
Found at i:65352 original size:13 final size:13
Alignment explanation
Indices: 65334--65367 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
65324 ACAATTCATC
*
65334 ATGTATCAATGCA
1 ATGTATCAATACA
65347 ATGTATCAATACA
1 ATGTATCAATACA
*
65360 TTGTATCA
1 ATGTATCA
65368 TGTATCGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:71501 original size:115 final size:114
Alignment explanation
Indices: 71369--71828 Score: 518
Period size: 115 Copynumber: 4.0 Consensus size: 114
71359 TTAAAAACTA
* * * * * *
71369 ACCCAACATAATTAAATAAAATATGCCTTACA-AAATTAATTAAAT-ATGCACATGAGCCCTATT
1 ACCCAATATAATTAAATAAAATAGGCC-CAAATAAATTAATTAAATCA-GCACGTGAGACCTATT
* * *
71432 TTATCTAATGTACATTTTTTATAAAGCTTAGCCTTAAATTAAATAATTTATG
64 TTATCTAATATATATTTTTTAT-AAGCTTGGCCTTAAATTAAATAATTTATG
* * *
71484 ACCCAATATAATTAAATAAAATAGGTCCAAATAAATGAATTAAATCAGCACCTG-GAACCTATTT
1 ACCCAATATAATTAAATAAAATAGGCCCAAATAAATTAATTAAATCAGCACGTGAG-ACCTATTT
* * *
71548 TATCTAATATATA-GTTTTATAGGATTGGCCTTAAATTAAATAATTTATG
65 TATCTAATATATATTTTTTATAAGCTTGGCCTTAAATTAAATAATTTATG
* * * * * *
71597 ACCTAATATAATCAAATAAAATAGGCCCAAATAAATTAATTAAATGAGCATGTGAGACTTATCTT
1 ACCCAATATAATTAAATAAAATAGGCCCAAATAAATTAATTAAATCAGCACGTGAGACCTATTTT
* *
71662 ATCTAATATATTTTTTTTATAAGACTTGGCCTTAAATTAGATAATTTATG
66 ATCTAATATATATTTTTTATAAG-CTTGGCCTTAAATTAAATAATTTATG
* * * * * ** * *
71712 GCCCAATATACTTAAGTAAAATAGGCCCCAATAAATTAATTAAATAAGCTTGTGGGACTTATTTT
1 ACCCAATATAATTAAATAAAATAGGCCCAAATAAATTAATTAAATCAGCACGTGAGACCTATTTT
*
71777 ATCTAATATA-AATTTTTATAAGCTTTGG-CTTGAAATTAAATAATTTATG
66 ATCTAATATATATTTTTTATAAGC-TTGGCCTT-AAATTAAATAATTTATG
71826 ACC
1 ACC
71829 TTACATTAGC
Statistics
Matches: 295, Mismatches: 42, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
113 95 0.32
114 50 0.17
115 149 0.51
116 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (114 bp):
ACCCAATATAATTAAATAAAATAGGCCCAAATAAATTAATTAAATCAGCACGTGAGACCTATTTT
ATCTAATATATATTTTTTATAAGCTTGGCCTTAAATTAAATAATTTATG
Found at i:71779 original size:228 final size:229
Alignment explanation
Indices: 71401--71829 Score: 569
Period size: 228 Copynumber: 1.9 Consensus size: 229
71391 ATGCCTTACA
* * *
71401 AAATTAATTAAATATGCACATGAGCCCTATTTTATCTAATGTACATTTTTTATAAAGCTTAGCCT
1 AAATTAATTAAATATGCACATGAGACCTATCTTATCTAATATACATTTTTTATAAAGCTTAGCCT
* *
71466 TAAATTAAATAATTTATGACCCAATATAATTAAATAAAATAGGTCCAAATAAATGAATTAAATCA
66 TAAATTAAATAATTTATGACCCAATATAATTAAATAAAATAGGCCCAAATAAATGAATTAAATAA
* *
71531 GCACCTGGAACCTATTTTATCTAATATATAGTTTTAT-AGGATTGGCCTT-AAATTAAATAATTT
131 GCACCTGGAACCTATTTTATCTAATATAAAGTTTTATAAGCATTGG-CTTGAAATTAAATAATTT
71594 ATGACCTAATATAATCAAATAAAATAGGCCCAAAT
195 ATGACCTAATATAATCAAATAAAATAGGCCCAAAT
** * ** *
71629 AAATTAATTAAATGA-GCATGTGAGACTTATCTTATCTAATATATTTTTTTTAT-AAGACTTGGC
1 AAATTAATTAAAT-ATGCACATGAGACCTATCTTATCTAATATACATTTTTTATAAAG-CTTAGC
* * * * * *
71692 CTTAAATTAGATAATTTATGGCCCAATATACTTAAGTAAAATAGGCCCCAATAAATTAATTAAAT
64 CTTAAATTAAATAATTTATGACCCAATATAATTAAATAAAATAGGCCCAAATAAATGAATTAAAT
*** * * * *
71757 AAGCTTGTGGGACTTATTTTATCTAATATAAATTTTTATAAGCTTTGGCTTGAAATTAAATAATT
129 AAGCACCTGGAACCTATTTTATCTAATATAAAGTTTTATAAGCATTGGCTTGAAATTAAATAATT
71822 TATGACCT
194 TATGACCT
71830 TACATTAGCT
Statistics
Matches: 171, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
227 3 0.02
228 140 0.82
229 28 0.16
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (229 bp):
AAATTAATTAAATATGCACATGAGACCTATCTTATCTAATATACATTTTTTATAAAGCTTAGCCT
TAAATTAAATAATTTATGACCCAATATAATTAAATAAAATAGGCCCAAATAAATGAATTAAATAA
GCACCTGGAACCTATTTTATCTAATATAAAGTTTTATAAGCATTGGCTTGAAATTAAATAATTTA
TGACCTAATATAATCAAATAAAATAGGCCCAAAT
Found at i:73532 original size:13 final size:13
Alignment explanation
Indices: 73514--73539 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73504 ACATTTGGTC
73514 ATGTATCGATACA
1 ATGTATCGATACA
73527 ATGTATCGATACA
1 ATGTATCGATACA
73540 TCTTGTATGT
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:73534 original size:33 final size:32
Alignment explanation
Indices: 73492--73559 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
73482 CGTTACAAGC
73492 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
73525 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
73557 CAA
1 CAA
73560 ACAATTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:81965 original size:19 final size:20
Alignment explanation
Indices: 81921--81972 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
81911 TTACAAGCCA
*
81921 ATGTATCAATACATTTGGTC
1 ATGTATCGATACATTTGGTC
81941 ATGTATCGATACATCTT-GT-
1 ATGTATCGATACAT-TTGGTC
81960 ATGTATCGATACA
1 ATGTATCGATACA
81973 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.43
20 15 0.50
21 2 0.07
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:84178 original size:89 final size:89
Alignment explanation
Indices: 83938--84182 Score: 262
Period size: 90 Copynumber: 2.7 Consensus size: 89
83928 CACGAGGGGG
* * * * *
83938 AAAATTCAATTTTTTTAAAGATCAGGGTTAGAGTATCC-CTTCGAAATAGTAGGGATGGAGTTTT
1 AAAATTTAAATTTTTTAAAGATGAGGGTTAGAGTATCCTCTTAG-AATAGTAGGGATGGAGTTTC
* *
84002 CGTAAAGATAAAATTATAGGAAGGA
65 CCTAAAGATAAAATTATAGGAAGAA
* * ** * *
84027 AAAATTGT-AATCTTTTTAAAAATTG-GGGTTAGAGTATCATCTCGGAATAGTAGAGATAGAGTT
1 AAAATT-TAAAT-TTTTTAAAGA-TGAGGGTTAGAGTATCCTCTTAGAATAGTAGGGATGGAGTT
*
84090 TCCCTAAAGATAAAATTATATGAAGAA
63 TCCCTAAAGATAAAATTATAGGAAGAA
* * * * *
84117 AAAATTTAAATTTTTTCAAGATGAAGGTTAGAGTTTCCTTTTAGAATAATAGGGATGGAGTTTCC
1 AAAATTTAAATTTTTTAAAGATGAGGGTTAGAGTATCCTCTTAGAATAGTAGGGATGGAGTTTCC
84182 C
66 C
84183 CGAAATAAAA
Statistics
Matches: 126, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
88 2 0.02
89 50 0.40
90 70 0.56
91 4 0.03
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.33
Consensus pattern (89 bp):
AAAATTTAAATTTTTTAAAGATGAGGGTTAGAGTATCCTCTTAGAATAGTAGGGATGGAGTTTCC
CTAAAGATAAAATTATAGGAAGAA
Found at i:87072 original size:13 final size:13
Alignment explanation
Indices: 87054--87078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87044 CATAAAATGT
87054 TGTATCGATACAA
1 TGTATCGATACAA
87067 TGTATCGATACA
1 TGTATCGATACA
87079 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:87076 original size:33 final size:33
Alignment explanation
Indices: 87034--87103 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
87024 TTCAACGATT
87034 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
87067 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
87100 TGTA
1 TGTA
87104 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:87161 original size:13 final size:13
Alignment explanation
Indices: 87143--87167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87133 ATTACTCACA
87143 TGTATCGATACAT
1 TGTATCGATACAT
87156 TGTATCGATACA
1 TGTATCGATACA
87168 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:87304 original size:52 final size:52
Alignment explanation
Indices: 87176--87296 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
87166 CACTGATCTT
*
87176 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
87228 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
87280 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
87297 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:90865 original size:12 final size:12
Alignment explanation
Indices: 90825--90869 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
90815 TGCTTTGCTA
90825 TTTA-TTTAAA-
1 TTTATTTTAAAT
*
90835 TTTAGTTT-AAT
1 TTTATTTTAAAT
90846 TTTAATTTTAAAT
1 TTT-ATTTTAAAT
90859 TTTATTTTAAA
1 TTTATTTTAAA
90870 ATCTTTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 6 0.20
11 6 0.20
12 12 0.40
13 6 0.20
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TTTATTTTAAAT
Found at i:91915 original size:20 final size:19
Alignment explanation
Indices: 91890--91959 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 19
91880 AGGCATAATT
91890 TATCGATACAATTCTTCATG
1 TATCGATACAATTC-TCATG
*
91910 TATCGATACAATTGAGT-ATG
1 TATCGATACAATT--CTCATG
*
91930 TATCGATACAATGTCCCATG
1 TATCGATACAAT-TCTCATG
*
91950 TATTGATACA
1 TATCGATACA
91960 TTTCACTTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (19 bp):
TATCGATACAATTCTCATG
Found at i:92017 original size:20 final size:19
Alignment explanation
Indices: 91992--92043 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
91982 CAGTTTCATA
**
91992 TATCGATACAAGTGATTATG
1 TATCGATACAA-TGAGCATG
92012 TATCGATACAATGAGCATG
1 TATCGATACAATGAGCATG
*
92031 CATCGATACAATG
1 TATCGATACAATG
92044 TATTGATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (19 bp):
TATCGATACAATGAGCATG
Found at i:99021 original size:9 final size:9
Alignment explanation
Indices: 99009--99036 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
98999 ATTATTATCA
99009 TCATCATCT
1 TCATCATCT
99018 TCATCATCT
1 TCATCATCT
99027 TCATCATCT
1 TCATCATCT
99036 T
1 T
99037 TGATGATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.46
Consensus pattern (9 bp):
TCATCATCT
Found at i:100662 original size:33 final size:33
Alignment explanation
Indices: 100620--100682 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
100610 AGGCATAATG
*
100620 TATCGATACAAT-TCTTCATGCATCGATACAATA
1 TATCGATACAATGTC-CCATGCATCGATACAATA
*
100653 TATCGATACAATGTCCCATGTATCGATACA
1 TATCGATACAATGTCCCATGCATCGATACA
100683 TTTCACTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (33 bp):
TATCGATACAATGTCCCATGCATCGATACAATA
Found at i:100737 original size:20 final size:19
Alignment explanation
Indices: 100711--100766 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
100701 TTGCCAGTTT
100711 CATGTATCGATACGATTGAG
1 CATGTATCGATAC-ATTGAG
* * *
100731 TATGTATCGATATAATGAG
1 CATGTATCGATACATTGAG
100750 CATGTATCGATACATTG
1 CATGTATCGATACATTG
100767 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACATTGAG
Found at i:100770 original size:13 final size:13
Alignment explanation
Indices: 100752--100776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100742 ATAATGAGCA
100752 TGTATCGATACAT
1 TGTATCGATACAT
100765 TGTATCGATACA
1 TGTATCGATACA
100777 AAGCATAATG
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:101897 original size:13 final size:13
Alignment explanation
Indices: 101879--101904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101869 TACAGCAAGT
101879 ATGTATCGATACA
1 ATGTATCGATACA
101892 ATGTATCGATACA
1 ATGTATCGATACA
101905 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:102785 original size:20 final size:20
Alignment explanation
Indices: 102740--102789 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
102730 CTAAGTGAAA
* *
102740 TGTATCGATGCATGGGACAT
1 TGTATCGATACATGAGACAT
*
102760 TATATCGATACATGAAGA-AT
1 TGTATCGATACATG-AGACAT
102780 TGTATCGATA
1 TGTATCGATA
102790 TATTATGCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAGACAT
Found at i:103638 original size:14 final size:16
Alignment explanation
Indices: 103613--103648 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
103603 AAACTAAATG
103613 AAAAAGGCATGA-AAA
1 AAAAAGGCATGACAAA
103628 AAAAAGG-ATGACAAA
1 AAAAAGGCATGACAAA
103643 AAAAAG
1 AAAAAG
103649 TAATGGCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.69, C:0.06, G:0.19, T:0.06
Consensus pattern (16 bp):
AAAAAGGCATGACAAA
Found at i:105679 original size:155 final size:155
Alignment explanation
Indices: 105290--105979 Score: 796
Period size: 155 Copynumber: 4.4 Consensus size: 155
105280 CATTATCTCT
** * * *
105290 AGTCCTTTAAAGGTATCAGGTACTTTTACATCGAAGGTATCCCCTAAGGGCATTTTTATAATTTT
1 AGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCTTAAGGGTATTTTTATAATTTT
* * * * * * * *
105355 TTAGAACCAAGTCCTAGGTTGTCATCGAGTCCACTTTTATGCTGAAGATAGATATTTAGGACAGG
66 TTAGAATCGAGTCCTAGGTTATCATCGGGTTCGCTTTTATGCTGAAGGTAGATATTTAGGATAGG
**
105420 TTCATCTTGTCTATTAT-CTTTTTA
131 TTCATCTCATCTATTATCCTTTTTA
* * * * * * * * *
105444 AGCCCTTTAGGCGTATC-GACTACTATTACGTCAAAAGTATCCCCTAAGGGTATTTTCATCATTT
1 AGTCCTTTAGGGGTATCAG-GTACTTTTACGTCGAAGGTATCCCTTAAGGGTATTTTTATAATTT
*
105508 TTTAGAATCGAGTCCTAGGTTATCATCGGG-TCGACTTTTATGCTGAAGGTAGATATTTAGGATT
65 TTTAGAATCGAGTCCTAGGTTATCATCGGGTTCG-CTTTTATGCTGAAGGTAGATATTTAGGATA
*
105572 GGTTTATCTCATCTATTATCCTTTTTA
129 GGTTCATCTCATCTATTATCCTTTTTA
* * * *
105599 AGTCCTTTAGGGGTATTAGGTACTTTTACGTCGAAGGTATCCCTTAGGGGCATTTTCATAATTTT
1 AGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCTTAAGGGTATTTTTATAATTTT
* *
105664 TCAGAATCGAGTCCTAGGTTATCA-CTGGGTTTGCTTTTATGCTGAAGGTAGATATTTAGGATAG
66 TTAGAATCGAGTCCTAGGTTATCATC-GGGTTCGCTTTTATGCTGAAGGTAGATATTTAGGATAG
* * *
105728 GTTTATCTCATCTATTATCCGTGTTA
130 GTTCATCTCATCTATTATCCTTTTTA
* * * * *
105754 AGTCCTTTAAGGGTATCAGATACTTTTATGTTGAAGGTATCCCTTAAAGGTATTTTTATAATTTT
1 AGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCTTAAGGGTATTTTTATAATTTT
* * * * * * * *
105819 TTAGAATCGAGTTCTACGTTATCAACGGGTTCGTTTTTATGCCGAAGTTAGATATTAAGGATATG
66 TTAGAATCGAGTCCTAGGTTATCATCGGGTTCGCTTTTATGCTGAAGGTAGATATTTAGGATAGG
*
105884 TTCATCCCATCTATTATCCTTTTTA
131 TTCATCTCATCTATTATCCTTTTTA
* * *
105909 AGTTCTTTAGGGTATGGGTATCAGGTACTTTTACCTCGAAGGTATCCCTT-AGGAGTATTTTTGT
1 AGTCCTTTA--G---GGGTATCAGGTACTTTTACGTCGAAGGTATCCCTTAAGG-GTATTTTTAT
105973 AATTTTT
60 AATTTTT
105980 CTTGAAATTA
Statistics
Matches: 453, Mismatches: 70, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
153 2 0.00
154 120 0.26
155 278 0.61
156 4 0.01
159 2 0.00
160 47 0.10
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (155 bp):
AGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCTTAAGGGTATTTTTATAATTTT
TTAGAATCGAGTCCTAGGTTATCATCGGGTTCGCTTTTATGCTGAAGGTAGATATTTAGGATAGG
TTCATCTCATCTATTATCCTTTTTA
Found at i:111168 original size:20 final size:20
Alignment explanation
Indices: 111106--111170 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
111096 AGAAGCTCAT
*
111106 ATTTTTCAGTGTATCGATAC
1 ATTTTTCAATGTATCGATAC
* *
111126 ATGTATCAATGTATCGATAC
1 ATTTTTCAATGTATCGATAC
*
111146 ATTTTTCAATGTATTGATAC
1 ATTTTTCAATGTATCGATAC
111166 ATTTT
1 ATTTT
111171 ATTTTTTTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (20 bp):
ATTTTTCAATGTATCGATAC
Found at i:113354 original size:34 final size:35
Alignment explanation
Indices: 113316--113382 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
113306 CCTTACAACA
113316 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
113350 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
113383 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:113858 original size:13 final size:13
Alignment explanation
Indices: 113840--113865 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113830 CAATTTTTTG
113840 TGTATCGATACAT
1 TGTATCGATACAT
113853 TGTATCGATACAT
1 TGTATCGATACAT
113866 ACTTGCTGTA
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:113930 original size:21 final size:21
Alignment explanation
Indices: 113904--113979 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
113894 CTGCCAAGAA
113904 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
113925 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
113945 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
113966 ATGTATCGATACAT
1 ATGTATCGATACAT
113980 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:113949 original size:20 final size:20
Alignment explanation
Indices: 113924--113997 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
113914 ACATCTTTTT
113924 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
113944 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
113965 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
113985 CATGTATCGATAC
1 CATGTATCGATAC
113998 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:113961 original size:41 final size:41
Alignment explanation
Indices: 113904--113997 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
113894 CTGCCAAGAA
113904 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
113945 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
113986 ATGTATCGATAC
1 ATGTATCGATAC
113998 TTTTAAGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:114647 original size:23 final size:23
Alignment explanation
Indices: 114617--114663 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
114607 ATCTCCCCCT
114617 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
114640 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
114663 T
1 T
114664 TTATTTGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATCAAGTAATTCATATCAAAA
Found at i:115832 original size:13 final size:13
Alignment explanation
Indices: 115814--115838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115804 ACTGAAGCAA
115814 TGTATCGATACAT
1 TGTATCGATACAT
115827 TGTATCGATACA
1 TGTATCGATACA
115839 ATCTGGAAAA
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:116438 original size:23 final size:24
Alignment explanation
Indices: 116393--116439 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
116383 CAAAGAATTG
*
116393 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
116417 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
116440 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:119023 original size:34 final size:35
Alignment explanation
Indices: 118985--119051 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
118975 CCTTACAACA
118985 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
119019 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
119052 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:119527 original size:13 final size:13
Alignment explanation
Indices: 119509--119534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119499 CAATTTTTTG
119509 TGTATCGATACAT
1 TGTATCGATACAT
119522 TGTATCGATACAT
1 TGTATCGATACAT
119535 ACTTGCTGTA
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:119599 original size:21 final size:21
Alignment explanation
Indices: 119573--119648 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
119563 CTGCCAAGAA
119573 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
119594 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
119614 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
119635 ATGTATCGATACAT
1 ATGTATCGATACAT
119649 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:119618 original size:20 final size:20
Alignment explanation
Indices: 119593--119666 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
119583 ACATCTTTTT
119593 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
119613 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
119634 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
119654 CATGTATCGATAC
1 CATGTATCGATAC
119667 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:119630 original size:41 final size:41
Alignment explanation
Indices: 119573--119666 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
119563 CTGCCAAGAA
119573 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
119614 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
119655 ATGTATCGATAC
1 ATGTATCGATAC
119667 TTTTAAGGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:127674 original size:18 final size:18
Alignment explanation
Indices: 127651--127686 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
127641 TGATTTGTTT
127651 AGCTGATAATGGGATAGG
1 AGCTGATAATGGGATAGG
127669 AGCTGATAATGGGATAGG
1 AGCTGATAATGGGATAGG
127687 TTGGTGGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.39, T:0.22
Consensus pattern (18 bp):
AGCTGATAATGGGATAGG
Found at i:129013 original size:28 final size:28
Alignment explanation
Indices: 128954--129395 Score: 379
Period size: 28 Copynumber: 15.5 Consensus size: 28
128944 CACCAACTTG
* * * *
128954 TGTGGGCTTTAGAAGGGTTGCCATTAACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* *
128983 TGTGGGCTTTAAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
129011 TGTGGGCATCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
129039 TGTGGGCTTCGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
129067 TGTGGGCTTTGAAAGGGTGCCTCTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
129095 TGTGGGCCTTGAGAAAGGTTGCCACCGACTT
1 TGTGGG-CTT-TGAAAGGATGCCACTGAC-T
* * *
129126 GTGTGGGCTTT-AAGGGGTGCCATTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* ** *
129154 TATGGAATTTGAGAGAGGTTGCCA-TCGACT
1 TGTGGGCTTTGA-A-AGGATGCCACT-GACT
* *
129184 TGTGTTGGCTTTGAAAGGATGCCATTAACT
1 TGTG--GGCTTTGAAAGGATGCCACTGACT
* *
129214 TATGGACTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* *
129243 TGTGGACTTTGAAA-AAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * * *
129271 TGTGGGCTTTGAAAGAATACCACTAACA
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
129299 TGTGGGCTTTGAAAGGATGCCATTGACA
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
129327 TGTAGGCTTTGAAA-GTTGCCACTAACA
1 TGTGGGCTTTGAAAGGATGCCACTGACT
129354 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
129382 TGCGGGCTTTGAAA
1 TGTGGGCTTTGAAA
129396 AGGGTCGTAT
Statistics
Matches: 338, Mismatches: 60, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
27 31 0.09
28 194 0.57
29 54 0.16
30 41 0.12
31 6 0.02
32 12 0.04
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:129173 original size:59 final size:59
Alignment explanation
Indices: 128938--129246 Score: 220
Period size: 59 Copynumber: 5.3 Consensus size: 59
128928 GGTTTAAAAG
* * * * ** *
128938 GGTTGCCACCAACTTGTGTGGGCTTTAGAAGGGTTGCCATTAACTTGTGGGCTTT-AAAA
1 GGTTGCCACCGACTTGTGTGGGCTTT-GAAAGGATGCCATTAACTTATGGAATTTGAGAA
* * * * * * * * ** *
128997 GGATGCCACTGA-TT-TGTGGGCATCGAAAGGGTGCCACTGACTTGTGGGCTTCGA-AA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCATTAACTTATGGAATTTGAGAA
* ** * * ***
129053 GGATGCCACTAAC-T-TGTGGGCTTTGAAAGGGTGCC-TCTAACTTGTGGGCCTTGAGAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCAT-TAACTTATGGAATTTGAG-AA
* * *
129111 GGTTGCCACCGACTTGTGTGGGCTTT-AAGGGGTGCCATTGACTTATGGAATTTGAGAGA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCATTAACTTATGGAATTTGAGA-A
* * *
129170 GGTTGCCATCGACTTGTGTTGGCTTTGAAAGGATGCCATTAACTTATGGACTTTGAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCATTAACTTATGGAATTTGAGAA
* *
129229 GGATGCCACTGACTTGTG
1 GGTTGCCACCGACTTGTG
129247 GACTTTGAAA
Statistics
Matches: 205, Mismatches: 35, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
56 70 0.34
57 9 0.04
58 15 0.07
59 73 0.36
60 38 0.19
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (59 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCATTAACTTATGGAATTTGAGAA
Found at i:132757 original size:13 final size:13
Alignment explanation
Indices: 132741--132766 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132731 CAGGGCAACT
132741 TTGTATCGATACA
1 TTGTATCGATACA
132754 TTGTATCGATACA
1 TTGTATCGATACA
132767 ACACTTATGT
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):
TTGTATCGATACA
Found at i:133554 original size:47 final size:47
Alignment explanation
Indices: 133488--133589 Score: 132
Period size: 47 Copynumber: 2.2 Consensus size: 47
133478 TCGAAGATGC
** * **
133488 GAAGAATGACAATGTGCTGATTCATGGCCAGTGACATTAGAATTGAA
1 GAAGAATGACAATGTGCTGAGACAAGGCCAGCAACATTAGAATTGAA
* * *
133535 GAAGAATGCCAATGTGCTGAGACAAGGCCAGCAACATTGGACTTGAA
1 GAAGAATGACAATGTGCTGAGACAAGGCCAGCAACATTAGAATTGAA
133582 GAAGAATG
1 GAAGAATG
133590 TTAAAGATGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (47 bp):
GAAGAATGACAATGTGCTGAGACAAGGCCAGCAACATTAGAATTGAA
Found at i:133669 original size:49 final size:49
Alignment explanation
Indices: 133597--133973 Score: 299
Period size: 49 Copynumber: 7.9 Consensus size: 49
133587 ATGTTAAAGA
* ** *
133597 TGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * *
133646 TGCCAATGTACTGATTCACGGCCAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * *
133695 TGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGATAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * *
133744 TGCCAATGTGCTAATTCAAGGCCGGTGACATTGGACTTAAAGATGGTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGAT-G--AAGG
* * *
133796 TGCCAATGTACTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
** * ** * * *
133845 TGCCAACATGCTGATTTAAGGATAGCGATATTGGGC-T-----T----G
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * *
133884 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
* * * * *
133932 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAG
133974 GTGCCACAGA
Statistics
Matches: 257, Mismatches: 58, Indels: 27
0.75 0.17 0.08
Matches are distributed among these distances:
39 29 0.11
40 1 0.00
43 1 0.00
48 39 0.15
49 147 0.57
51 1 0.00
52 39 0.15
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGAAGG
Found at i:133712 original size:98 final size:99
Alignment explanation
Indices: 133557--133850 Score: 340
Period size: 98 Copynumber: 2.9 Consensus size: 99
133547 TGTGCTGAGA
* *
133557 CAAGGCCAGCAACATTGGACTTGAAGAAGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAA
1 CAAGGCCAGCGACATTGGACTT--A-AAG-A-G-TAAAGGTGCCAATATGCTGATTCAAGGCCAA
* *
133622 TGATATCGGACTTAAAGATGAAGGTGCCAATGTACTGATT
60 CGATATCGGACTTAAAGATGAAGGTGCCAATGTACTAATT
* * *
133662 CACGGCCAGCGACATTGGTCTTAAAGA-TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
1 CAAGGCCAGCGACATTGGACTTAAAGAGTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATAT
* * * *
133726 CGAACTTAAAGATAAAGATGCCAATGTGCTAATT
66 CGGACTTAAAGATGAAGGTGCCAATGTACTAATT
* * * *
133760 CAAGGCCGGTGACATTGGACTTAAAGATGGTTAAA-GTGCCAATGTACTGATTCAAGGCCAACGA
1 CAAGGCCAGCGACATTGGACTTAAAGA--G-TAAAGGTGCCAATATGCTGATTCAAGGCCAACGA
* *
133824 CATCGGTCTTAAAGATGAAGGTGCCAA
63 TATCGGACTTAAAGATGAAGGTGCCAA
133851 CATGCTGATT
Statistics
Matches: 162, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
98 86 0.53
101 49 0.30
102 7 0.04
103 1 0.01
105 19 0.12
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (99 bp):
CAAGGCCAGCGACATTGGACTTAAAGAGTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATAT
CGGACTTAAAGATGAAGGTGCCAATGTACTAATT
Found at i:133833 original size:150 final size:147
Alignment explanation
Indices: 133591--133875 Score: 408
Period size: 150 Copynumber: 1.9 Consensus size: 147
133581 AGAAGAATGT
* * *
133591 TAAAGATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAGGTGCCAATGTA
1 TAAAGATGCCAATATGCTAATTCAAGGCCAATGACATCGGACTTAAAGATGAAAGTGCCAATGTA
* * * * *
133656 CTGATTCACGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
66 CTGATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAACATGCTGATTCAAGGACAGC
133721 GATATCGAACTTAAAGA
131 GATATCGAACTTAAAGA
* ** *
133738 TAAAGATGCCAATGTGCTAATTCAAGGCCGGTGACATTGGACTTAAAGATGGTTAAAGTGCCAAT
1 TAAAGATGCCAATATGCTAATTCAAGGCCAATGACATCGGACTTAAAGAT-G--AAAGTGCCAAT
* * *
133803 GTACTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAACATGCTGATTTAAGGAT
63 GTACTGATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAACATGCTGATTCAAGGAC
133868 AGCGATAT
128 AGCGATAT
133876 TGGGCTTGTG
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
147 44 0.37
148 1 0.01
150 75 0.62
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (147 bp):
TAAAGATGCCAATATGCTAATTCAAGGCCAATGACATCGGACTTAAAGATGAAAGTGCCAATGTA
CTGATTCAAGGCCAACGACATCGGTCTTAAAGATAAAGGTGCCAACATGCTGATTCAAGGACAGC
GATATCGAACTTAAAGA
Found at i:134124 original size:33 final size:33
Alignment explanation
Indices: 133970--134581 Score: 543
Period size: 33 Copynumber: 18.9 Consensus size: 33
133960 TATTGGGCTT
* *
133970 AAAGGTGCCACAGAGTTGTGGACTT-ATAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
134002 AAAGGGATGCCATGGA-TATGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGT-TGTGGACTTAAAA-GGAA
* * *
134038 AAGGGTGCCACGGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * * *
134070 AAAGGAGCCACGAAGCTATGGACATAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
134103 CAAGGTGACACGGAGTTATGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
134136 AAAGATGCCGCGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
**
134169 AAAGACGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
134199 ---GGTGCCACGGAGTTGTGGATTTAAAAGGAC
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
134229 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
134264 AAAGGTGCCACAGAGTTGTGGACATAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAA
* ** *
134298 AAAGGTGCCA-AGAGTCATGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
134329 AAAGGTGCCACGGAGTTATGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
134362 TAAGGTGCCACGGAGTTGTGTACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
134395 AAAGATGCTACGAAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
134425 ---GGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
134455 AAAGAGTGCCATGGAGTAGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
**
134490 AAAGGTGCCACAAAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
**
134520 ---GGTGCCATAGAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
*
134551 AAAGGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG
134582 GTGCCACAGA
Statistics
Matches: 473, Mismatches: 73, Indels: 67
0.77 0.12 0.11
Matches are distributed among these distances:
27 63 0.13
28 4 0.01
29 5 0.01
31 11 0.02
32 52 0.11
33 173 0.37
34 129 0.27
35 30 0.06
36 6 0.01
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:134379 original size:226 final size:227
Alignment explanation
Indices: 133973--134521 Score: 743
Period size: 226 Copynumber: 2.4 Consensus size: 227
133963 TGGGCTTAAA
* * ** *
133973 GGTGCCACAGAGTTGTGGACTT-ATAGGAAAAAGGGATGCCATGGA-TATGTGGGC-TTAAAAGG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAG-TGCCACAGAGT-TGTGGGCTTTAAAA-A
* * * * *
134035 GAAAAGGGTGCCACGGAGTCGTGGACTTAAAA-AGAAAAGGAGCCACGAAGCTATGGACATAAAA
63 GAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGAAAAGGAGCCAAGAAGCTATGGACATAAAA
* *
134099 GGAACAAGGTGACACGGAGTTATGGACTTAAAAGGAAAAAGATGCCGCGGAGTTGTGGACTTAAA
128 AGAACAAGGTGACACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAA
*
134164 AGGAAAAAGACGCCACGGAGTTGTGGACTTAAAAG
193 AGGAAAAAGACGCCACGAAGTTGTGGACTTAAAAG
* * *
134199 GGTGCCACGGAGTTGTGGATTTAAAAGGACAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
* * *
134264 AAAGGTGCCACAGAGTTGTGGACATAAAAGGGAAAAAGGTGCCAAG-AG-TCATGGACTTAAAAA
66 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGG-AAAAGGAGCCAAGAAGCT-ATGGACATAAAAA
* * * *
134327 GAA-AAGGTGCCACGGAGTTATGGACTTAAAAGGAATAAGGTGCCACGGAGTTGTGTACTTAAAA
129 GAACAAGGTGACACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA
* *
134391 GGAAAAAGATGCTACGAAGTTGTGGACTTAAAAG
194 GGAAAAAGACGCCACGAAGTTGTGGACTTAAAAG
** *
134425 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTAGTGGGCTTTAAAAAGAA
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
*
134490 AAAGGTGCCACAAAGTTGTGGACTTAAAAGGG
66 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGG
134522 TGCCATAGAG
Statistics
Matches: 284, Mismatches: 33, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
226 239 0.84
227 34 0.12
228 11 0.04
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (227 bp):
GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
AAAGGTGCCACAGAGTTGTGGACTTAAAAGGGAAAAGGAGCCAAGAAGCTATGGACATAAAAAGA
ACAAGGTGACACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
AAAAAGACGCCACGAAGTTGTGGACTTAAAAG
Found at i:134525 original size:61 final size:61
Alignment explanation
Indices: 134454--134636 Score: 267
Period size: 61 Copynumber: 3.0 Consensus size: 61
134444 CTTAAAAGGA
* * * * *
134454 AAAAGAGTGCCATGGAGTAGTGGGCTTTAAAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
1 AAAAGGGTGCCATAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
*
134515 AAAAGGGTGCCATAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCATAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
* * * * *
134576 AAAAGGGTGCCACAGAGTTGTAGACCTTGAAAAGAAAAAAGTGCCACAAAGTCGTGGACTT
1 AAAAGGGTGCCATAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
134637 TGGGAAGAGA
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
61 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCATAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGACTT
Found at i:134659 original size:30 final size:30
Alignment explanation
Indices: 134625--134862 Score: 269
Period size: 30 Copynumber: 7.7 Consensus size: 30
134615 AGTGCCACAA
* *
134625 AGTCGTGGACTTTGGGAAGAGATGCCATTG
1 AGTCGTGGACTTTGAGAAGAGATGCCACTG
*
134655 AGTCGTGGACTTTAAGAAGAGATTGCCACTG
1 AGTCGTGGACTTTGAGAAGAGA-TGCCACTG
* * * *
134686 AGTCATGGACTTTGAAAAAAGATGCCACTA
1 AGTCGTGGACTTTGAGAAGAGATGCCACTG
* *
134716 AGTCATGGACTTTGGGAAGAGATGCCACTG
1 AGTCGTGGACTTTGAGAAGAGATGCCACTG
*
134746 AGTCGTGGACTTTGATGAAAAAAGATGCCACTG
1 AGTCGTGGACTTTGA-G--AAGAGATGCCACTG
* *
134779 AGTCGTGGACTTGGAAGAAAAAGATGCCACTG
1 AGTCGTGGACTTTG-AG-AAGAGATGCCACTG
* * * *
134811 AGTTGTGGACTTAGAAAAGAGATGCCATTG
1 AGTCGTGGACTTTGAGAAGAGATGCCACTG
*
134841 AGTCATGGACTTTGAGAAGAGA
1 AGTCGTGGACTTTGAGAAGAGA
134863 GAATTAAAGA
Statistics
Matches: 178, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
30 96 0.54
31 27 0.15
32 27 0.15
33 27 0.15
34 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (30 bp):
AGTCGTGGACTTTGAGAAGAGATGCCACTG
Found at i:134672 original size:61 final size:61
Alignment explanation
Indices: 134607--134858 Score: 238
Period size: 61 Copynumber: 4.1 Consensus size: 61
134597 AGACCTTGAA
** ** * * *
134607 AAGAAAAAAGTGCCACAAAGTCGTGGACTTTGGGAAGAGATGCCATTGAGTCGTGGACTTT
1 AAGAAAAAAGTGCCACTGAGTCGTGGACTTTGAAAAAAGATGCCACTGAGTCATGGACTTT
* * * * *
134668 AAGAAGAGATTGCCACTGAGTCATGGACTTTGAAAAAAGATGCCACTAAGTCATGGACTTT
1 AAGAAAAAAGTGCCACTGAGTCGTGGACTTTGAAAAAAGATGCCACTGAGTCATGGACTTT
** * * * *
134729 GGGAAGAGA-TGCCACTGAGTCGTGGACTTTGATGAAAAAAGATGCCACTGAGTCGTGGACTTGG
1 AAGAAAAAAGTGCCACTGAGTCGTGGAC-TT--TGAAAAAAGATGCCACTGAGTCATGGACTT-T
* * * *
134793 AAG-AAAAAGATGCCACTGAGTTGTGGACTTAGAAAAGAGATGCCATTGAGTCATGGACTTT
1 AAGAAAAAAG-TGCCACTGAGTCGTGGACTTTGAAAAAAGATGCCACTGAGTCATGGACTTT
*
134854 GAGAA
1 AAGAA
134859 GAGAGAATTA
Statistics
Matches: 155, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
60 17 0.11
61 60 0.39
62 27 0.17
63 31 0.20
64 3 0.02
65 17 0.11
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.23
Consensus pattern (61 bp):
AAGAAAAAAGTGCCACTGAGTCGTGGACTTTGAAAAAAGATGCCACTGAGTCATGGACTTT
Found at i:136063 original size:12 final size:11
Alignment explanation
Indices: 136048--136084 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
136038 ACCTTTGCAC
136048 TTTTTTTGTGT
1 TTTTTTTGTGT
136059 TTTTTTT-TGCT
1 TTTTTTTGTG-T
136070 TTTTTTTGTGT
1 TTTTTTTGTGT
136081 TTTT
1 TTTT
136085 ACTTTGGACG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.84
Consensus pattern (11 bp):
TTTTTTTGTGT
Found at i:136090 original size:23 final size:24
Alignment explanation
Indices: 136034--136090 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
136024 CTCTTTTTGA
136034 TTTTACCTTTGCACTTTTTTTGTGT
1 TTTTA-CTTTGCACTTTTTTTGTGT
* *
136059 TTTT-TTTTGC-TTTTTTTTGTGT
1 TTTTACTTTGCACTTTTTTTGTGT
136081 TTTTACTTTG
1 TTTTACTTTG
136091 GACGTTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 15 0.54
23 9 0.32
25 4 0.14
ACGTcount: A:0.05, C:0.11, G:0.12, T:0.72
Consensus pattern (24 bp):
TTTTACTTTGCACTTTTTTTGTGT
Found at i:146183 original size:13 final size:13
Alignment explanation
Indices: 146165--146190 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
146155 CAATTTTTTG
146165 TGTATCGATACAT
1 TGTATCGATACAT
146178 TGTATCGATACAT
1 TGTATCGATACAT
146191 ACTTGCTGTA
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:146255 original size:21 final size:21
Alignment explanation
Indices: 146229--146304 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
146219 CTGCCAAGAA
*
146229 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
146250 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
146270 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
146291 ATGTATCGATACAT
1 ATGTATCGATACAT
146305 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:146275 original size:20 final size:20
Alignment explanation
Indices: 146250--146322 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
146240 CATCTTTTTT
146250 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
146270 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
146291 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
146311 ATGTATCGATAC
1 ATGTATCGATAC
146323 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:146286 original size:41 final size:41
Alignment explanation
Indices: 146229--146322 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
146219 CTGCCAAGAA
*
146229 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
146270 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
146311 ATGTATCGATAC
1 ATGTATCGATAC
146323 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:146951 original size:36 final size:36
Alignment explanation
Indices: 146908--146980 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
146898 ATAAGGTAAT
146908 TCACGCATTCTCTCCTTTATCTCCCCCGTTTATTAA
1 TCACGCATTCTCTCCTTTATCTCCCCCGTTTATTAA
146944 TCACGCATTCTCTCCTTTATCTCCCCCGTTTATTAA
1 TCACGCATTCTCTCCTTTATCTCCCCCGTTTATTAA
146980 T
1 T
146981 AAATCTCCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.16, C:0.36, G:0.05, T:0.42
Consensus pattern (36 bp):
TCACGCATTCTCTCCTTTATCTCCCCCGTTTATTAA
Found at i:148819 original size:13 final size:13
Alignment explanation
Indices: 148801--148839 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
148791 ATAATCACCC
*
148801 TGTATCGATACAG
1 TGTATCGATACAA
148814 TGTATCGATACAA
1 TGTATCGATACAA
148827 TGTATCGATACAA
1 TGTATCGATACAA
148840 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:148850 original size:20 final size:20
Alignment explanation
Indices: 148825--148903 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
148815 GTATCGATAC
148825 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
148845 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
148870 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
148889 ACATGTATCGATACA
1 A-ATGTATCGATACA
148904 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:150938 original size:15 final size:15
Alignment explanation
Indices: 150918--150948 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
150908 ATTTCGTTTG
*
150918 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
150933 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
150948 G
1 G
150949 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:155028 original size:13 final size:13
Alignment explanation
Indices: 155010--155035 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
155000 CAATTTTTTG
155010 TGTATCGATACAT
1 TGTATCGATACAT
155023 TGTATCGATACAT
1 TGTATCGATACAT
155036 ACTTGCTGTA
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:155100 original size:21 final size:21
Alignment explanation
Indices: 155074--155149 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
155064 CTGCCAAGAA
*
155074 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
155095 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
155115 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
155136 ATGTATCGATACAT
1 ATGTATCGATACAT
155150 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:155120 original size:20 final size:20
Alignment explanation
Indices: 155095--155167 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
155085 CATCTTTTTT
155095 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
155115 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
155136 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
155156 ATGTATCGATAC
1 ATGTATCGATAC
155168 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:155131 original size:41 final size:41
Alignment explanation
Indices: 155074--155167 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
155064 CTGCCAAGAA
*
155074 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
155115 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
155156 ATGTATCGATAC
1 ATGTATCGATAC
155168 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:158804 original size:28 final size:28
Alignment explanation
Indices: 158760--159344 Score: 346
Period size: 28 Copynumber: 20.6 Consensus size: 28
158750 TTGCCAACGA
* *
158760 CACCTTTTTTAAAGCCCATGAGTCAGTGG
1 CACC-TTTTCAAAGCCCACGAGTCAGTGG
* *
158789 TATCTTTTCAAAGCCCACGAGTCAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
* *
158817 TATCC-TTTCAAAGCCCACGAGTCAGTAG
1 CA-CCTTTTCAAAGCCCACGAGTCAGTGG
* * * **
158845 CATCC-TTTAAAAACCCACCAGTCAGTAC
1 CA-CCTTTTCAAAGCCCACGAGTCAGTGG
* * * ** *
158873 CACTTTTTCAAAGCCGAGGACCCAGTAG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
* * *
158901 CACCTTCTCACAGCCCACAAGTCAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
* * **
158929 CACCCTTT---GGCCCATAAGTCAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
158954 CACCTTTTCAAAGCCCACGAGTCAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
* * ** *
158982 CACCTTCTCAAAGCACATAAGTTAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
* * *
159010 CACCCTTTCAAAGCCCATGAGTTAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
*
159038 CACCTTCTCAAAGCCCACGAGTCAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
* * *
159066 CACC-CTTCTAAAG-CCAGGAGTCATTGG
1 CACCTTTTC-AAAGCCCACGAGTCAGTGG
* * *
159093 CACCTTTTAAAAGCCCACAAGACAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
* * *
159121 CACCCTTTT-GAAGCCTACACAAAGTCGGTGG
1 CA-CCTTTTCAAAGCC--CAC-GAGTCAGTGG
** * *
159152 CAACCTCTCCCAAAGCCCACAAGTCGGTGG
1 C-ACCT-TTTCAAAGCCCACGAGTCAGTGG
** **
159182 CAACCCCTT-AAAGCCCACATGAGTTGGTGG
1 C-ACCTTTTCAAAGCCCAC--GAGTCAGTGG
* * **
159212 CAACCTCTCTCAAAGCTCATAAGTCAGTGG
1 C-ACCT-TTTCAAAGCCCACGAGTCAGTGG
* * *
159242 CACCCTTTCAAAGCCCACAAGTTAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
* * * *
159270 CACCCTTTCGATGCCCACGAATCAGTGG
1 CACCTTTTCAAAGCCCACGAGTCAGTGG
* * *
159298 CATCCTTTT-AAAGGCCACAAGTTAGTGG
1 CA-CCTTTTCAAAGCCCACGAGTCAGTGG
*
159326 CAACC-CTTCTAAAGCCCAC
1 C-ACCTTTTC-AAAGCCCAC
159345 ACAAGTTGGT
Statistics
Matches: 434, Mismatches: 99, Indels: 46
0.75 0.17 0.08
Matches are distributed among these distances:
25 22 0.05
27 25 0.06
28 292 0.67
29 26 0.06
30 39 0.09
31 16 0.04
32 9 0.02
33 5 0.01
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.22
Consensus pattern (28 bp):
CACCTTTTCAAAGCCCACGAGTCAGTGG
Found at i:159019 original size:56 final size:56
Alignment explanation
Indices: 158770--159345 Score: 384
Period size: 56 Copynumber: 10.2 Consensus size: 56
158760 CACCTTTTTT
** * * * *
158770 AAAGCCCATGAGTCAGTGGTATCTTTTCAAAGCCCACGAGTCAGTGGTATCCTT-TC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCA-CCTTCTC
* * * * * * ** * *
158826 AAAGCCCACGAGTCAGTAGCATCCTTTAAAAACCCACCAGTCAGTACCACTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTCTC
* ** ** * * *
158882 AAAGCCGAGGACCCAGTAGCA-CCTTCTCACAGCCCACAAGTCAGTGGCACCCTT-T-
1 AAAGCCCACAAGTCAGTGGCACCCTT-TCAAAGCCCACGAGTCAGTGGCA-CCTTCTC
* * *
158937 --GGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCTTCTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTCTC
* * * * *
158991 AAAGCACATAAGTTAGTGGCACCCTTTCAAAGCCCATGAGTTAGTGGCACCTTCTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTCTC
* * * * *
159047 AAAGCCCACGAGTCAGTGGCACCC-TTCTAAAG-CCAGGAGTCATTGGCACCTTTTA
1 AAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACGAGTCAGTGGCACCTTCTC
* ** * * *
159102 AAAGCCCACAAGACAGTGGCACCCTTTTGAAGCCTACACAAAGTCGGTGGCAACCTCTCCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC--CAC-GAGTCAGTGGC-ACCT-TCTC
* * **
159163 AAAGCCCACAAGTCGGTGGCAACCCCTT-AAAGCCCACATGAGTTGGTGGCAACCTCTCTC
1 AAAGCCCACAAGTCAGTGGC-ACCCTTTCAAAGCCCAC--GAGTCAGTGGC-ACCT-TCTC
* * * *
159223 AAAGCTCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTT-TC
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCA-CCTTCTC
* * * * * * *
159279 GATGCCCACGAA-TCAGTGGCATCCTTTTAAAGGCCACAAGTTAGTGGCAACCCTTCT-
1 AAAGCCCAC-AAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGC-A-CCTTCTC
159336 AAAGCCCACA
1 AAAGCCCACA
159346 CAAGTTGGTG
Statistics
Matches: 416, Mismatches: 81, Indels: 46
0.77 0.15 0.08
Matches are distributed among these distances:
52 4 0.01
53 34 0.08
54 3 0.01
55 53 0.13
56 192 0.46
57 20 0.05
58 15 0.04
59 17 0.04
60 48 0.12
61 24 0.06
62 6 0.01
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTCTC
Found at i:159021 original size:137 final size:137
Alignment explanation
Indices: 158808--159124 Score: 325
Period size: 137 Copynumber: 2.3 Consensus size: 137
158798 AAAGCCCACG
* * * *
158808 AGTCAGTGGTATCC-TTTCAAAGCCCACGAGTCAGTAGCATCCTTTAAAAACCCACCAGTCAGTA
1 AGTCAGTGGCA-CCTTTTCAAAGCCCACGAGTCAGTGGCA-CCTTTAAAAACACACAAGTCAGTA
** * *
158872 CCACTTTTTCAAAGCCGAGGACCCAGTAGCACCTTCTCACAGCCCACAAGTCAGTGGCACCCTT-
64 CCACCCTTTCAAAGCCCAGGACCCAGTAGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCCTTC
* *
158936 T-GGCCCATA
129 TAAG-CCAGA
* * * * **
158945 AGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCTTCTCAAAGCACATAAGTTAGTGG
1 AGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCTT-TAAAAACACACAAGTCAGTAC
* *** * *
159010 CACCCTTTCAAAGCCCATGAGTTAGTGGCACCTTCTCAAAGCCCACGAGTCAGTGGCACCCTTCT
65 CACCCTTTCAAAGCCCAGGACCCAGTAGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCCTTCT
*
159075 AAAGCCAGG
130 -AAGCCAGA
* * * *
159084 AGTCATTGGCACCTTTTAAAAGCCCACAAGACAGTGGCACC
1 AGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACC
159125 CTTTTGAAGC
Statistics
Matches: 148, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
136 6 0.04
137 100 0.68
138 1 0.01
139 40 0.27
140 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (137 bp):
AGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCTTTAAAAACACACAAGTCAGTACC
ACCCTTTCAAAGCCCAGGACCCAGTAGCACCTTCTCAAAGCCCACAAGTCAGTGGCACCCTTCTA
AGCCAGA
Found at i:159051 original size:84 final size:84
Alignment explanation
Indices: 158767--159345 Score: 451
Period size: 84 Copynumber: 6.8 Consensus size: 84
158757 CGACACCTTT
* * * *
158767 TTTAAAGCCCATGAGTCAGTGGTATCTTTTCAAAGCCCACGAGTCAGTGGTATCCTT-TCAAAGC
1 TTTAAAGCCCATGAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTCTCAAAGC
* * *
158831 CCACGAGTCAGTAGCATCC
66 CCACAAGTCAGTGGCACCC
* ** ** * * * ** * *
158850 TTTAAAAACCCACCAGTCAGTACCACTTTTTCAAAGCCGAGGACCCAGTAGCA-CCTTCTCACAG
1 TTT-AAAGCCCATGAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTCTCAAAG
158914 CCCACAAGTCAGTGGCACCC
65 CCCACAAGTCAGTGGCACCC
* *
158934 TTT--GGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCA-CCTTCTCAAAGC
1 TTTAAAGCCCATGAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTCTCAAAGC
* * *
158996 ACATAAGTTAGTGGCACCC
66 CCACAAGTCAGTGGCACCC
* *
159015 TTTCAAAGCCCATGAGTTAGTGGCACCTTCTCAAAGCCCACGAGTCAGTGGCACCCTTCT-AAAG
1 TTT-AAAGCCCATGAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTCTCAAAG
** * *
159079 -CCAGGAGTCATTGGCACCT
65 CCCACAAGTCAGTGGCACCC
** * * * * * *
159098 TTTAAAAGCCCACAAGACAGTGGCACCCTTTT-GAAGCCTACACAAAGTCGGTGGCAACCTCTCC
1 TTT-AAAGCCCATGAGTCAGTGGCA-CCTTTTCAAAGCC--CAC-GAGTCAGTGGCACCCT-TCT
*
159162 CAAAGCCCACAAGTCGGTGGCAACCC
60 CAAAGCCCACAAGTCAGTGGC-ACCC
* ** * * **
159188 CTTAAAGCCCACATGAGTTGGTGGCAACCTCTCTCAAAGCTCATAAGTCAGTGGCACCCTT-TCA
1 TTTAAAG-CC-CATGAGTCAGTGGC-ACCT-TTTCAAAGCCCACGAGTCAGTGGCACCCTTCTCA
*
159252 AAGCCCACAAGTTAGTGGCACCC
62 AAGCCCACAAGTCAGTGGCACCC
* * * * * * *
159275 TTTCGATGCCCACGAATCAGTGGCATCCTTTT-AAAGGCCACAAGTTAGTGGCAACCCTTCT-AA
1 TTT-AAAGCCCATGAGTCAGTGGCA-CCTTTTCAAAGCCCACGAGTCAGTGGC-ACCCTTCTCAA
159338 AGCCCACA
63 AGCCCACA
159346 CAAGTTGGTG
Statistics
Matches: 386, Mismatches: 87, Indels: 44
0.75 0.17 0.09
Matches are distributed among these distances:
81 65 0.17
83 45 0.12
84 128 0.33
85 28 0.07
86 27 0.07
87 10 0.03
88 25 0.06
89 16 0.04
90 21 0.05
91 14 0.04
92 3 0.01
93 4 0.01
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (84 bp):
TTTAAAGCCCATGAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTCTCAAAGC
CCACAAGTCAGTGGCACCC
Done.