Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 69 of 91
Found at i:15499891 original size:11 final size:10
Alignment explanation
Indices: 15499872--15499985 Score: 52
Period size: 12 Copynumber: 10.2 Consensus size: 10
15499862 AGATCCAATC
15499872 AAAAACAAAG
1 AAAAACAAAG
15499882 AAAAATCAAAGAG
1 AAAAA-C-AA-AG
15499895 AAAAGAGCAAAG
1 AAAA-A-CAAAG
15499907 AAAAA-AACA-
1 AAAAACAA-AG
* *
15499916 AAGAGCAGAGAG
1 AAAAACA-A-AG
*
15499928 AAAAATCAAATC
1 AAAAA-CAAA-G
15499940 AAAAACAAAG
1 AAAAACAAAG
15499950 AAAAATCAAAG
1 AAAAA-CAAAG
15499961 AAAAAGAGCAAAG
1 -AAAA-A-CAAAG
*
15499974 AAAAGCAAAG
1 AAAAACAAAG
15499984 AA
1 AA
15499986 CAAAAAGAGG
Statistics
Matches: 81, Mismatches: 10, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
9 5 0.06
10 19 0.23
11 14 0.17
12 25 0.31
13 16 0.20
14 2 0.02
ACGTcount: A:0.71, C:0.10, G:0.16, T:0.04
Consensus pattern (10 bp):
AAAAACAAAG
Found at i:15499917 original size:12 final size:12
Alignment explanation
Indices: 15499872--15499919 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
15499862 AGATCCAATC
15499872 AAAAACAAAG-A
1 AAAAACAAAGAA
*
15499883 AAAATCAAAGAGA
1 AAAAACAAAGA-A
*
15499896 AAAGAGCAAAGAA
1 AAA-AACAAAGAA
15499909 AAAAACAAAGA
1 AAAAACAAAGA
15499920 GCAGAGAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 9 0.29
12 7 0.23
13 8 0.26
14 7 0.23
ACGTcount: A:0.75, C:0.08, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAACAAAGAA
Found at i:15499920 original size:19 final size:20
Alignment explanation
Indices: 15499896--15499937 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15499886 ATCAAAGAGA
15499896 AAAGAGCAAAGA-AAAAAAC
1 AAAGAGCAAAGAGAAAAAAC
* *
15499915 AAAGAGCAGAGAGAAAAATC
1 AAAGAGCAAAGAGAAAAAAC
15499935 AAA
1 AAA
15499938 TCAAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.69, C:0.10, G:0.19, T:0.02
Consensus pattern (20 bp):
AAAGAGCAAAGAGAAAAAAC
Found at i:15499927 original size:26 final size:25
Alignment explanation
Indices: 15499877--15499977 Score: 76
Period size: 22 Copynumber: 4.4 Consensus size: 25
15499867 CAATCAAAAA
*
15499877 CAAAGAAAAATCAAAGAGAAAAGAG
1 CAAAGAAAAAACAAAGAGAAAAGAG
*
15499902 CAAAGAAAAAAACAAAGAG--CAGAG
1 CAAAG-AAAAAACAAAGAGAAAAGAG
* **
15499926 ---AGAAAAATCAAA-TCAAAA-A-
1 CAAAGAAAAAACAAAGAGAAAAGAG
*
15499945 CAAAGAAAAATCAAAGA-AAAAGAG
1 CAAAGAAAAAACAAAGAGAAAAGAG
15499969 CAAAGAAAA
1 CAAAGAAAA
15499978 GCAAAGAACA
Statistics
Matches: 60, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
20 10 0.17
21 3 0.05
22 16 0.27
23 1 0.02
24 13 0.22
25 5 0.08
26 12 0.20
ACGTcount: A:0.70, C:0.10, G:0.16, T:0.04
Consensus pattern (25 bp):
CAAAGAAAAAACAAAGAGAAAAGAG
Found at i:15501195 original size:16 final size:16
Alignment explanation
Indices: 15501168--15501213 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
15501158 AGAAAAGTAT
*
15501168 ACACAAACATACATCA
1 ACACATACATACATCA
* **
15501184 ACTCATACATACATGT
1 ACACATACATACATCA
15501200 ACACATACATACAT
1 ACACATACATACAT
15501214 AATATATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (16 bp):
ACACATACATACATCA
Found at i:15501616 original size:36 final size:35
Alignment explanation
Indices: 15501561--15501698 Score: 161
Period size: 36 Copynumber: 3.9 Consensus size: 35
15501551 TTTTGAGAAT
*
15501561 TTTAAAACAAATTTTTGTCTCGCTTTAGACAATTTC
1 TTTAAAACAAA-TTTTGTCTCGCTTGAGACAATTTC
* * *
15501597 TTTCAAAGCAAATTTTGTCTCGATTGAGACAGCTTTC
1 TTT-AAAACAAATTTTGTCTCGCTTGAGACA-ATTTC
* *
15501634 -TAAAAACAAATTTTGTCTCGTTTGAGACAATTTC
1 TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
* *
15501668 TTGTAAAACAAACTTCGTCTCGCTTGAGACA
1 TT-TAAAACAAATTTTGTCTCGCTTGAGACA
15501699 TTTTTCCTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
34 4 0.05
35 26 0.30
36 45 0.52
37 11 0.13
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (35 bp):
TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
Found at i:15501650 original size:71 final size:72
Alignment explanation
Indices: 15501564--15501698 Score: 195
Period size: 71 Copynumber: 1.9 Consensus size: 72
15501554 TGAGAATTTT
* * *
15501564 AAAACAAATTTTTGTCTCGCTTT-AGACAATTTCTT-TCAAAGCAAATTTTGTCTCGATTGAGAC
1 AAAACAAATTTTTGTCTCG-TTTGAGACAATTTCTTGT-AAAACAAACTTCGTCTCGATTGAGAC
15501627 AGCTTTCTA
64 AGCTTTCTA
*
15501636 AAAACAAA-TTTTGTCTCGTTTGAGACAATTTCTTGTAAAACAAACTTCGTCTCGCTTGAGACA
1 AAAACAAATTTTTGTCTCGTTTGAGACAATTTCTTGTAAAACAAACTTCGTCTCGATTGAGACA
15501699 TTTTTCCTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
70 3 0.05
71 45 0.79
72 9 0.16
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (72 bp):
AAAACAAATTTTTGTCTCGTTTGAGACAATTTCTTGTAAAACAAACTTCGTCTCGATTGAGACAG
CTTTCTA
Found at i:15501784 original size:105 final size:103
Alignment explanation
Indices: 15501664--15501910 Score: 290
Period size: 105 Copynumber: 2.4 Consensus size: 103
15501654 TTTGAGACAA
*
15501664 TTTCTTGT-AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAACCTT-GAAT
1 TTTCTT-TCAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAA-CTTCGAAT
*
15501727 TTGATTCAC-TTAAAACAAAATTAATCTCACCTT-AGATTGTT
64 TTGATTCACATT-AAACAAAATTAATCTCA-CTTGAGAATG-T
* * * *
15501768 GTTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATT
1 -TTTCTTTCAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAACTTCGAATT
* * *
15501833 TGTTTCACATTAAACAAAGTTGATCTCACTTGAGAATGT
65 TGATTCACATTAAACAAAATTAATCTCACTTGAGAATGT
* *
15501872 TTTC--TCAAAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 TTTCTTTC-AAAACAAACTTCGTCTCGCTTGAGACATTTTC
15501911 TCTAAAAACA
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
101 2 0.02
102 28 0.23
103 4 0.03
104 7 0.06
105 81 0.65
106 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (103 bp):
TTTCTTTCAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAACTTCGAATTT
GATTCACATTAAACAAAATTAATCTCACTTGAGAATGT
Found at i:15501918 original size:36 final size:36
Alignment explanation
Indices: 15501872--15501975 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
15501862 TTGAGAATGT
*
15501872 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
** *
15501907 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
* *
15501943 TATCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
15501976 TCATTTTCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.39
35 7 0.12
36 29 0.49
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
Found at i:15502248 original size:28 final size:28
Alignment explanation
Indices: 15502217--15502436 Score: 295
Period size: 28 Copynumber: 7.9 Consensus size: 28
15502207 TCTTGAGATA
15502217 GTTTCTCTTGAAAAAAATCTTTGAGTTT
1 GTTTCTCTTGAAAAAAATCTTTGAGTTT
* *
15502245 GTTTCTTTTGAAAAAAATCTTTGAGTTA
1 GTTTCTCTTGAAAAAAATCTTTGAGTTT
15502273 GTTTCTCTTGAAAAAAATCTTTGAGTTT
1 GTTTCTCTTGAAAAAAATCTTTGAGTTT
15502301 GTTTCTCTTG-AAAAAATCTTTGAGTTT
1 GTTTCTCTTGAAAAAAATCTTTGAGTTT
*
15502328 GTTCCTCTTGAAAAAAATCTTTGAGTTT
1 GTTTCTCTTGAAAAAAATCTTTGAGTTT
* * * *
15502356 GCTCCTTTTGAATAAAAATCTTGGAGTTT
1 GTTTCTCTTGAA-AAAAATCTTTGAGTTT
* * *
15502385 GTTCCTTTTGAATAAATATCTTTGAG-TT
1 GTTTCTCTTGAA-AAAAATCTTTGAGTTT
*
15502413 GTTTCTTTTG--AAAAATCTTTGAGT
1 GTTTCTCTTGAAAAAAATCTTTGAGT
15502437 CTATTTATTT
Statistics
Matches: 176, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.07
27 26 0.15
28 100 0.57
29 38 0.22
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (28 bp):
GTTTCTCTTGAAAAAAATCTTTGAGTTT
Found at i:15502342 original size:83 final size:84
Alignment explanation
Indices: 15502217--15502436 Score: 304
Period size: 83 Copynumber: 2.6 Consensus size: 84
15502207 TCTTGAGATA
* *
15502217 GTTTCTCTTGAAAAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAATCTTTGAGTTAGTTTCTCTT
1 GTTTCTCTTG-AAAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAATCTTTGAGTTAGCTCCTCTT
*
15502282 GAA-AAAAATCTTTGAGTTT
65 GAATAAAAATCTTGGAGTTT
* * * *
15502301 GTTTCTCTTGAAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAAATCTTTGAGTTTGCTCCTTTTG
1 GTTTCTCTTGAAAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAATCTTTGAGTTAGCTCCTCTTG
15502366 AATAAAAATCTTGGAGTTT
66 AATAAAAATCTTGGAGTTT
* *
15502385 GTTCCTTTTGAATAAATATCTTTGAG-TTGTTTCTTTTG--AAAAATCTTTGAGT
1 GTTTCTCTTGAA-AAA-ATCTTTGAGTTTGTTTCTTTTGAAAAAAATCTTTGAGT
15502437 CTATTTATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
83 65 0.53
84 35 0.29
85 13 0.11
86 9 0.07
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (84 bp):
GTTTCTCTTGAAAAAATCTTTGAGTTTGTTTCTTTTGAAAAAAATCTTTGAGTTAGCTCCTCTTG
AATAAAAATCTTGGAGTTT
Found at i:15502576 original size:28 final size:28
Alignment explanation
Indices: 15502537--15502605 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
15502527 AATTTTGTGA
*
15502537 AAAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAAATCTTTGAGATTGTTTCTTTGG
*
15502565 AAAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAAATCTTTGAGATTGTTTCTTTGG
15502593 AAACAAAAT-TTTG
1 AAA-AAAATCTTTG
15502606 TCTCTCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.43
Consensus pattern (28 bp):
AAAAAAATCTTTGAGATTGTTTCTTTGG
Found at i:15502641 original size:67 final size:67
Alignment explanation
Indices: 15502556--15502722 Score: 268
Period size: 67 Copynumber: 2.5 Consensus size: 67
15502546 TTTGAGATTG
15502556 TTTCTTTTG--AAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
*
15502619 AG
66 AA
*
15502621 TTT-TTTTTAAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
1 TTTCTTTTGAAAA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
15502685 TAA
65 TAA
* *
15502688 TTTCTTTTGAAAAAAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAAAAAAAATCTTTGAGTTTGTTTCT
15502723 CTTAAAATGA
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
64 4 0.04
65 3 0.03
66 2 0.02
67 76 0.82
68 8 0.09
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (67 bp):
TTTCTTTTGAAAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:15502758 original size:66 final size:66
Alignment explanation
Indices: 15502550--15502764 Score: 260
Period size: 67 Copynumber: 3.3 Consensus size: 66
15502540 AAAATCTTTG
*
15502550 AGATTGTTTCTTTTG--AAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCT
1 AGATAGTTTCTTTTGAAAAAAAAATCTTTGAGTTTGTTTCTTT-GAAACAAAATTTTGTCTCTCT
15502613 TA
65 TA
*
15502615 AGATAGTTT-TTTTTAAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTC
1 AGATAGTTTCTTTTGAAAA-AAAAATCTTTGAGTTTGTTTCTTT-GAAACAAAATTTTGTCTCTC
15502679 TTA
64 TTA
* * * * *
15502682 AGATAATTTCTTTTGAAAAAAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCTC
1 AGATAGTTTCTTTTGAAAAAAAAATCTTTGAGTTTGTTTCT-TTGAAACA-AAATTTTGTCTCTC
*
15502745 TTG
64 TTA
* *
15502748 AGACAGTTTCTCTTGAA
1 AGATAGTTTCTTTTGAA
15502765 GTAAATCTTT
Statistics
Matches: 132, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
64 4 0.03
65 9 0.07
66 33 0.25
67 76 0.58
68 10 0.08
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (66 bp):
AGATAGTTTCTTTTGAAAAAAAAATCTTTGAGTTTGTTTCTTTGAAACAAAATTTTGTCTCTCTT
A
Found at i:15503023 original size:64 final size:63
Alignment explanation
Indices: 15502944--15503068 Score: 169
Period size: 64 Copynumber: 2.0 Consensus size: 63
15502934 GATGTGATCC
* * *
15502944 ATCTTTGAGTCTGTTTATTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAA
1 ATCTTTGAGTCTGTTTACTTTGAAACAAAATTTTACCTC-TAAAGACAACTTCTTTTGAAAAAA
* * * **
15503008 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGCCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTACTTTGAAACAAAATTTTACCTCTAAAGACAACTTCTTTTGAAAA
15503069 TACCCACATT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
63 19 0.36
64 34 0.64
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (63 bp):
ATCTTTGAGTCTGTTTACTTTGAAACAAAATTTTACCTCTAAAGACAACTTCTTTTGAAAAAA
Found at i:15503113 original size:40 final size:40
Alignment explanation
Indices: 15503050--15503129 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
15503040 TTGCCTCTCG
15503050 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
* * *
15503090 AGACAATTTCTTTT-AAAACTACCCACCTTTGAGATTGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTTGAGATCGTTT
15503130 TTATTAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
Found at i:15503197 original size:31 final size:30
Alignment explanation
Indices: 15503162--15503236 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
15503152 TCTTGAGGCA
*
15503162 GTTTCTCTAGAAATACAAA-ATCTTTGAGTTC
1 GTTTCACTAGAAATA-AAACATCTTTGAG-TC
* *
15503193 GTTTCACTTGAAATAAAACCATTTTTGAGTC
1 GTTTCACTAGAAATAAAA-CATCTTTGAGTC
*
15503224 GTTTCACTTGAAA
1 GTTTCACTAGAAA
15503237 CATTTTCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 3 0.08
31 28 0.72
32 8 0.21
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (30 bp):
GTTTCACTAGAAATAAAACATCTTTGAGTC
Found at i:15503560 original size:36 final size:34
Alignment explanation
Indices: 15503509--15503604 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 34
15503499 TTTGAGAAAA
* * * *
15503509 ATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTACC
1 ATCTTTGAATCTGTTTCTTT-GAAACAAAA-TAAAC
*
15503545 ATCTTTGAATCTGTTTCCCTTGAAACAAAATAAAC
1 ATCTTTGAATCTGTTT-CTTTGAAACAAAATAAAC
15503580 ATCTTTGAGATC-GTTTCTCTTGAAA
1 ATCTTTGA-ATCTGTTTCT-TTGAAA
15503605 TGAATTTTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 1 0.02
35 21 0.41
36 26 0.51
37 3 0.06
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (34 bp):
ATCTTTGAATCTGTTTCTTTGAAACAAAATAAAC
Found at i:15503596 original size:35 final size:36
Alignment explanation
Indices: 15503530--15503604 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
15503520 TGTTTCTTTG
* *
15503530 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
15503566 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
15503601 GAAA
1 GAAA
15503605 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:15503810 original size:28 final size:28
Alignment explanation
Indices: 15503763--15503859 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 28
15503753 GAGACAGTTG
15503763 CTTTTGAAACACATTATCTTTGAG-CTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTC-TGTTT
*
15503794 -TTCTTGAAACACATCTTTGAGTCTGTTT
1 CTT-TTGAAACAAATCTTTGAGTCTGTTT
* *
15503822 CTTTTGAAACAAATCTTTGAATCGGTTT
1 CTTTTGAAACAAATCTTTGAGTCTGTTT
*
15503850 CTCTTGAAAC
1 CTTTTGAAAC
15503860 CATAATCCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
28 45 0.78
29 3 0.05
30 2 0.03
31 8 0.14
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTCTGTTT
Found at i:15504074 original size:40 final size:41
Alignment explanation
Indices: 15504012--15504124 Score: 142
Period size: 40 Copynumber: 2.7 Consensus size: 41
15504002 CTAAAGATGG
*
15504012 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCC-TCG-A
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCA-CCCTTAGAA
*
15504052 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCACCCTTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCACCCTTAG--AA
*
15504095 CCAGCCGTCCTCATCATGTAGGAACCGTGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGT
15504125 TATCACCTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
39 3 0.05
40 30 0.48
41 2 0.03
42 2 0.03
43 26 0.41
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.21
Consensus pattern (41 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCACCCTTAGAA
Found at i:15504107 original size:134 final size:134
Alignment explanation
Indices: 15503867--15504131 Score: 451
Period size: 134 Copynumber: 2.0 Consensus size: 134
15503857 AACCATAATC
* *
15503867 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAGCCGTGTCATCCCCTGACCAGATCTCCTCAT
1 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCTGACCAGACCTCCTCAT
15503932 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATCAC
66 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATCAC
15503997 CACT
131 CACT
15504001 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCAT-CCCTCGACCAGACCTCCTCA
1 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCT-GACCAGACCTCCTCA
* * * **
15504065 TCACGTAGGAGCCGTGTCACCCTTAGATAACCAGCCGTCCTCATCATGTAGGAACCGTGTTATCA
65 TCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATCA
15504130 CC
130 CC
15504132 TTTAGATGGC
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
133 4 0.03
134 119 0.97
ACGTcount: A:0.25, C:0.35, G:0.20, T:0.21
Consensus pattern (134 bp):
CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCTGACCAGACCTCCTCAT
CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATCAC
CACT
Found at i:15504435 original size:3 final size:3
Alignment explanation
Indices: 15504427--15504464 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
15504417 AATTTTAATT
15504427 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T
15504465 GTTTATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15504476 original size:22 final size:22
Alignment explanation
Indices: 15504429--15504476 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
15504419 TTTTAATTTT
*
15504429 ATTATTATTATTATTATTATTT
1 ATTATTATTATTATTATTATTA
15504451 ATTATTATTATTATGT-TTATTA
1 ATTATTATTATTAT-TATTATTA
15504473 ATTA
1 ATTA
15504477 CATATTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTATTATTATTATTATTATTA
Found at i:15507872 original size:29 final size:29
Alignment explanation
Indices: 15507839--15507896 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
15507829 ACATTAGAAC
* * * *
15507839 AAAATGACAAATTCAGGTACCATATTGGA
1 AAAATGAAAAATTCAAGTACAAAATTGGA
15507868 AAAATGAAAAATTCAAGTACAAAATTGGA
1 AAAATGAAAAATTCAAGTACAAAATTGGA
15507897 CAATAAAACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (29 bp):
AAAATGAAAAATTCAAGTACAAAATTGGA
Found at i:15513252 original size:56 final size:56
Alignment explanation
Indices: 15513166--15513365 Score: 301
Period size: 56 Copynumber: 3.6 Consensus size: 56
15513156 ACAGGGCTCA
* * *
15513166 AAAAATAAGGACCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAATAAGCAT
1 AAAAATAGGGGCCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
* *
15513222 AAAAATAGGGGCCCTGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGCAT
1 AAAAATAGGGGCCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
* * *
15513278 AAAAATAGGGGCCCTGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAGTAT
1 AAAAATAGGGGCCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
* * *
15513334 AAAAATAGAGGCCCCAAAATTGAATATATCTA
1 AAAAATAGGGGCCCCGAAATCGAATATATCTA
15513366 GAAAATAGGG
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 133 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (56 bp):
AAAAATAGGGGCCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
Found at i:15514756 original size:20 final size:19
Alignment explanation
Indices: 15514713--15514762 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
15514703 GCCAGTTTTG
* *
15514713 GTATCGGTACCCAGGGTGA
1 GTATCGATACTCAGGGTGA
*
15514732 GTATCGATACTCAGTGGTTA
1 GTATCGATACTCAG-GGTGA
15514752 GTATCGATACT
1 GTATCGATACT
15514763 AAAAGGCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (19 bp):
GTATCGATACTCAGGGTGA
Found at i:15518350 original size:2 final size:2
Alignment explanation
Indices: 15518343--15518370 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15518333 AATGACGCGC
15518343 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15518371 TATTTGTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15521083 original size:90 final size:89
Alignment explanation
Indices: 15520974--15521148 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
15520964 TCCCGAATAT
* * * *
15520974 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCATGATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCATAATATGACTAG
15521039 GCTAACTTGGATATAAAAGGATTA
66 GCTAACTTGGATATAAAAGGATTA
*
15521063 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCATAATATGACTA
* *
15521128 GGGTAACTTGGCTATAAAAGG
65 GGCTAACTTGGATATAAAAGG
15521149 GTGTGTTAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCATAATATGACTAG
GCTAACTTGGATATAAAAGGATTA
Found at i:15525840 original size:2 final size:2
Alignment explanation
Indices: 15525833--15525873 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
15525823 GAGTTGGTAT
15525833 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15525874 TATGAGTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15532745 original size:21 final size:23
Alignment explanation
Indices: 15532706--15532778 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
15532696 CACCATAACT
15532706 CACATAG-TTTG-CACCGAAGTG-C
1 CACATAGTTTTGTC-CCGAAG-GAC
15532728 CACATA-TTTT-TCCCGAAGGAC
1 CACATAGTTTTGTCCCGAAGGAC
* *
15532749 CACATAGTTTTGTCCTGAAGGAT
1 CACATAGTTTTGTCCCGAAGGAC
15532772 CACATAG
1 CACATAG
15532779 AACTCTCGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
20 1 0.02
21 13 0.30
22 14 0.32
23 16 0.36
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (23 bp):
CACATAGTTTTGTCCCGAAGGAC
Found at i:15537935 original size:38 final size:38
Alignment explanation
Indices: 15537884--15538036 Score: 159
Period size: 38 Copynumber: 4.1 Consensus size: 38
15537874 AGGGAACAAG
15537884 TTTTAGGTTGCAACCT-ATTTTTTCATATGGAAACCAGA
1 TTTTAGGTTGCAACCTGA-TTTTTCATATGGAAACCAGA
* * *
15537922 TTTTAGGTTGCAACCTGATTTTT--TGTAGAAACTAGA
1 TTTTAGGTTGCAACCTGATTTTTCATATGGAAACCAGA
* ** * *
15537958 TTTTAAGTTTTAACTTGATTTTTCATATGGAAACCAAA
1 TTTTAGGTTGCAACCTGATTTTTCATATGGAAACCAGA
* * * * *
15537996 TTTAAGGTTGAAACTTGATTTTTCACATAGAAACCAGA
1 TTTTAGGTTGCAACCTGATTTTTCATATGGAAACCAGA
15538034 TTT
1 TTT
15538037 CTAGTTGTAA
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
36 29 0.31
38 64 0.68
39 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (38 bp):
TTTTAGGTTGCAACCTGATTTTTCATATGGAAACCAGA
Found at i:15538053 original size:38 final size:37
Alignment explanation
Indices: 15537902--15538056 Score: 127
Period size: 38 Copynumber: 4.1 Consensus size: 37
15537892 TGCAACCTAT
* * * *
15537902 TTTTTCATATGGAAACCAGATTTTAGGTTGCAACCTGA
1 TTTTTCACATAGAAACCAGATTTTA-GTTGTAACTTGA
** * *
15537940 TTTTT--TGTAGAAACTAGATTTTAAGTTTTAACTTGA
1 TTTTTCACATAGAAACCAGATTTT-AGTTGTAACTTGA
* * * * *
15537976 TTTTTCATATGGAAACCAAATTTAAGGTTGAAACTTGA
1 TTTTTCACATAGAAACCAGATTTTA-GTTGTAACTTGA
15538014 TTTTTCACATAGAAACCAGATTTCTAGTTGTAA-TATGA
1 TTTTTCACATAGAAACCAGATTT-TAGTTGTAACT-TGA
15538052 TTTTT
1 TTTTT
15538057 GTACTGGAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
36 28 0.30
37 3 0.03
38 61 0.66
39 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (37 bp):
TTTTTCACATAGAAACCAGATTTTAGTTGTAACTTGA
Found at i:15544069 original size:10 final size:10
Alignment explanation
Indices: 15544056--15544124 Score: 85
Period size: 10 Copynumber: 7.4 Consensus size: 10
15544046 ATTTTTGAAA
15544056 TTTTGGCTTT
1 TTTTGGCTTT
15544066 TTTTGGCTTT
1 TTTTGGCTTT
15544076 TTTT-G-TTT
1 TTTTGGCTTT
15544084 TTTTGGCTTT
1 TTTTGGCTTT
15544094 TTTT-G-TTT
1 TTTTGGCTTT
*
15544102 TTTTGCCTTT
1 TTTTGGCTTT
*
15544112 TTTTTG-TTT
1 TTTTGGCTTT
15544121 TTTT
1 TTTT
15544125 TAAAAAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
8 14 0.27
9 10 0.19
10 28 0.54
ACGTcount: A:0.00, C:0.07, G:0.14, T:0.78
Consensus pattern (10 bp):
TTTTGGCTTT
Found at i:15544078 original size:28 final size:26
Alignment explanation
Indices: 15544047--15544106 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
15544037 CGTTTGAAAA
15544047 TTTTTGAAATTTTGGCTTTTTTTGGCTT
1 TTTTTGAAATTTTGGCTTTTTTT-G-TT
***
15544075 TTTTTGTTTTTTTGGCTTTTTTTGTT
1 TTTTTGAAATTTTGGCTTTTTTTGTT
15544101 TTTTTG
1 TTTTTG
15544107 CCTTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.28
27 1 0.03
28 20 0.69
ACGTcount: A:0.05, C:0.05, G:0.17, T:0.73
Consensus pattern (26 bp):
TTTTTGAAATTTTGGCTTTTTTTGTT
Found at i:15544112 original size:28 final size:28
Alignment explanation
Indices: 15544056--15544125 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
15544046 ATTTTTGAAA
15544056 TTTTGGCTTTTTTTGGCTTTTTTTGTTT
1 TTTTGGCTTTTTTTGGCTTTTTTTGTTT
15544084 TTTTGGCTTTTTTT-G-TTTTTTTGCCTTT
1 TTTTGGCTTTTTTTGGCTTTTTTTG--TTT
* *
15544112 TTTTTGTTTTTTTT
1 TTTTGGCTTTTTTT
15544126 AAAAAAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 8 0.21
27 1 0.03
28 29 0.76
ACGTcount: A:0.00, C:0.07, G:0.14, T:0.79
Consensus pattern (28 bp):
TTTTGGCTTTTTTTGGCTTTTTTTGTTT
Found at i:15544115 original size:19 final size:18
Alignment explanation
Indices: 15544063--15544124 Score: 106
Period size: 18 Copynumber: 3.4 Consensus size: 18
15544053 AAATTTTGGC
15544063 TTTTTTTGGCTTTTTTTG
1 TTTTTTTGGCTTTTTTTG
15544081 TTTTTTTGGCTTTTTTTG
1 TTTTTTTGGCTTTTTTTG
*
15544099 TTTTTTTGCCTTTTTTTTG
1 TTTTTTTGGC-TTTTTTTG
15544118 TTTTTTT
1 TTTTTTT
15544125 TAAAAAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
18 27 0.64
19 15 0.36
ACGTcount: A:0.00, C:0.06, G:0.13, T:0.81
Consensus pattern (18 bp):
TTTTTTTGGCTTTTTTTG
Found at i:15544125 original size:10 final size:8
Alignment explanation
Indices: 15544063--15544124 Score: 61
Period size: 8 Copynumber: 6.9 Consensus size: 8
15544053 AAATTTTGGC
15544063 TTTTTTTGG
1 TTTTTTT-G
15544072 CTTTTTTTG
1 -TTTTTTTG
15544081 TTTTTTTGG
1 TTTTTTT-G
15544090 CTTTTTTTG
1 -TTTTTTTG
15544099 TTTTTTTG
1 TTTTTTTG
15544107 CCTTTTTTTTG
1 ---TTTTTTTG
15544118 TTTTTTT
1 TTTTTTT
15544125 TAAAAAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
8 22 0.47
9 3 0.06
10 14 0.30
11 8 0.17
ACGTcount: A:0.00, C:0.06, G:0.13, T:0.81
Consensus pattern (8 bp):
TTTTTTTG
Found at i:15555467 original size:40 final size:40
Alignment explanation
Indices: 15555422--15555503 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
15555412 ACTGATTTTG
15555422 GAATGTTTGAAGGCTCAAAGAAGATTCTAAAATGGTAAAC
1 GAATGTTTGAAGGCTCAAAGAAGATTCTAAAATGGTAAAC
15555462 GAATGTTTGAAGGCTCAAAGAAGATTCTAAAATGGTAAAC
1 GAATGTTTGAAGGCTCAAAGAAGATTCTAAAATGGTAAAC
15555502 GA
1 GA
15555504 GACCAAGGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.24
Consensus pattern (40 bp):
GAATGTTTGAAGGCTCAAAGAAGATTCTAAAATGGTAAAC
Found at i:15557067 original size:3 final size:3
Alignment explanation
Indices: 15557046--15557100 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
15557036 TCCCCTTTTA
* * *
15557046 ATT ATT ATA ATT ATT -TT ATT ATT ATT ATT ACT ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15557093 A-T ATT ATT
1 ATT ATT ATT
15557101 TATATTTATG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:15567548 original size:233 final size:233
Alignment explanation
Indices: 15567136--15568049 Score: 1271
Period size: 233 Copynumber: 4.0 Consensus size: 233
15567126 TTTATAAGTT
* * * *
15567136 AAAATATGAGAAAGGCTTCTCATTAAAATTTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
1 AAAA-ATGAGAAAGGTTTCTCATTTAAATTTGAAAATTAAAATTTTTGAAAAGTAAGAAAGGTTT
*
15567201 CTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTATGTCTTTCGAGCAT
65 CTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * * * * * *
15567266 GATACTTAAATCCCTCGGGTCATTTGTAAGCCTTTGGAGCAAGATGATAAGTCCTTCGGGCCATC
130 GATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTCGAACAAGATGATAAGTCATTCGGGCCATC
* *
15567331 CATAAGACCTTTGGGTAGGATGTTTTCACATGTTTATCG
195 CATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCG
15567370 AAAAATGAGAAAGGTTTCTCATTTAAATTTGAAAATTAAAATTTTTGAAAAGTAAGAAAGGTTTC
1 AAAAATGAGAAAGGTTTCTCATTTAAATTTGAAAATTAAAATTTTTGAAAAGTAAGAAAGGTTTC
* * *
15567435 TTACCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCAGGCCATTAGTAAGTCTTTCGAGCATG
66 TTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
* * **
15567500 ATGTTTAAATCCTTCGAGTCATCTGTAAGTCTTTCGAACAAGATGATAAGTCATTCGATCCATCC
131 ATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTCGAACAAGATGATAAGTCATTCGGGCCATCC
*
15567565 ATAAGACC-TTGGAGCAGGATGTTTTCACATGTCTATTG
196 ATAAGACCTTTGG-GCAGGATGTTTTCACATGTCTATCG
* * * * ** *
15567603 AAATACGAGAAAGGTTTCTAATTTAAATCTGAAAATTGAATTTTTTTTCAAAAGTAAGAAAGGTT
1 AAAAATGAGAAAGGTTTCTCATTTAAATTTGAAAATT-AA-AATTTTTGAAAAGTAAGAAAGGTT
*
15567668 TCTTACCTAGTAAACTATTTCC---------AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
64 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
15567724 TGATGCTTAAATCCTTCGAGTCACCTGTAAGCCTTTC-AAGCAAGATGATAAGTCATTCGGGCCA
129 TGATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTCGAA-CAAGATGATAAGTCATTCGGGCCA
*
15567788 TCCATAAGACCTTTAGGCAGGATGTTTT--CATGTCTATCG
193 TCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCG
* * **
15567827 -AATATAAGAAAGGTTTCTCATTTAAATTTGAAAATCGAAATTTTTGAAAAGTAAGAAAGGTTTC
1 AAAAATGAGAAAGGTTTCTCATTTAAATTTGAAAATTAAAATTTTTGAAAAGTAAGAAAGGTTTC
* *
15567891 TTACCTAATAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCATG
66 TTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
* * * * * *
15567956 ATGCTTAAATCCTTCGGGTCATTTGTAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATTC
131 ATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTCGAACAAGATGATAAGTCATTCGGGCCATCC
* *
15568021 ATAAAACCTTTGGGCATGATGTTTTCACA
196 ATAAGACCTTTGGGCAGGATGTTTTCACA
15568050 GGTCCCTCTT
Statistics
Matches: 603, Mismatches: 60, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
221 41 0.07
222 1 0.00
223 31 0.05
224 10 0.02
225 2 0.00
226 111 0.18
227 3 0.00
230 113 0.19
231 1 0.00
232 6 0.01
233 235 0.39
234 6 0.01
235 43 0.07
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (233 bp):
AAAAATGAGAAAGGTTTCTCATTTAAATTTGAAAATTAAAATTTTTGAAAAGTAAGAAAGGTTTC
TTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
ATGCTTAAATCCTTCGAGTCATCTGTAAGCCTTTCGAACAAGATGATAAGTCATTCGGGCCATCC
ATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCG
Found at i:15568031 original size:42 final size:42
Alignment explanation
Indices: 15567918--15568024 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
15567908 TCCAAAATTT
* *
15567918 ATAAGTCCTTCGGGCCA-TCAGTAAGTCTTTTGAGCATGATGC
1 ATAAGTCCTTCGGGCCATTCA-TAAGCCTTTTGAGCAAGATGC
* * * **
15567960 TTAAATCCTTCGGGTCATTTGTAAGCCTTTTGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATTCATAAGCCTTTTGAGCAAGATGC
15568001 ATAAGTCCTTCGGGCCATTCATAA
1 ATAAGTCCTTCGGGCCATTCATAA
15568025 AACCTTTGGG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 19 0.37
42 32 0.62
43 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATTCATAAGCCTTTTGAGCAAGATGC
Found at i:15568245 original size:20 final size:20
Alignment explanation
Indices: 15568220--15568257 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15568210 TCTTGTTAAC
*
15568220 ACAAGAATTGGCAAAGAGTA
1 ACAAGAATTGACAAAGAGTA
15568240 ACAAGAATTGACAAAGAG
1 ACAAGAATTGACAAAGAG
15568258 GGGTAGCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.24, T:0.13
Consensus pattern (20 bp):
ACAAGAATTGACAAAGAGTA
Found at i:15568308 original size:3 final size:3
Alignment explanation
Indices: 15568300--15568330 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15568290 TTATAATTGC
15568300 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15568331 TGTGTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15572097 original size:25 final size:24
Alignment explanation
Indices: 15572069--15572115 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
15572059 AAGAGGGGTT
15572069 AAAATGATAAAAAAAATAAAAAACA
1 AAAATGATAAAAAAAA-AAAAAACA
* *
15572094 AAAATGTTAAAAAATAAAAAAA
1 AAAATGATAAAAAAAAAAAAAA
15572116 TGTCATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAATGATAAAAAAAAAAAAAACA
Found at i:15573417 original size:37 final size:35
Alignment explanation
Indices: 15573347--15573564 Score: 197
Period size: 39 Copynumber: 5.9 Consensus size: 35
15573337 AAAACTATAT
* *
15573347 AATATTATATTACATGTTTTCAAAAATCATTTTTAAAAA
1 AATA-TATATTATACGTTTTC-AAAA--ATTTTTAAAAA
*
15573386 ATATATATATTATACGTTTTCAAAACCTTTTTTTTAAAAA
1 A-ATATATATTATACGTTTTCAAAA----ATTTTTAAAAA
*
15573426 ACTATATATTATACGTTTTCAAAAATATTTTAAAAA
1 AATATATATTATACGTTTTCAAAAAT-TTTTAAAAA
* *
15573462 AACTATTTATTATACGTTTTCAAAAATAATTTTTTAAAA
1 AA-TATATATTATACGTTTTC--AAA-AATTTTTAAAAA
* * *
15573501 ACTATATATTATACG-CTTC-AAAATATTTAAAAA
1 AATATATATTATACGTTTTCAAAAATTTTTAAAAA
*
15573534 ACTATATATTATACGTTTTCAAAAATATTTT
1 AATATATATTATACGTTTTCAAAAAT-TTTT
15573565 TTTAAAACTA
Statistics
Matches: 152, Mismatches: 16, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
33 25 0.16
34 5 0.03
35 6 0.04
36 13 0.09
37 20 0.13
38 16 0.11
39 49 0.32
40 18 0.12
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (35 bp):
AATATATATTATACGTTTTCAAAAATTTTTAAAAA
Found at i:15573581 original size:37 final size:37
Alignment explanation
Indices: 15573352--15573631 Score: 291
Period size: 37 Copynumber: 7.6 Consensus size: 37
15573342 TATATAATAT
* * * *
15573352 TATATTACATGTTTTCAAAAATCATTTTTAAAAAATATA
1 TATATTATACGTTTTCAAAAAT-ATTTTTTAAAAA-CTA
* *
15573391 TATATTATACGTTTTCAAAACCTTTTTTTTAAAAAACTA
1 TATATTATACGTTTTCAAAA-ATATTTTTT-AAAAACTA
**
15573430 TATATTATACGTTTTCAAAAATATTTTAAAAAAACTA
1 TATATTATACGTTTTCAAAAATATTTTTTAAAAACTA
*
15573467 TTTATTATACGTTTTCAAAAATAATTTTTTAAAAACTA
1 TATATTATACGTTTTCAAAAAT-ATTTTTTAAAAACTA
* *
15573505 TATATTATACG-CTTC-AAAATA--TTTAAAAAACTA
1 TATATTATACGTTTTCAAAAATATTTTTTAAAAACTA
*
15573538 TATATTATACGTTTTCAAAAATATTTTTTTAAAACTA
1 TATATTATACGTTTTCAAAAATATTTTTTAAAAACTA
* ** * * * *
15573575 TATATTAGAAATTTTCAAATATA-CTTTTCAAAACCA
1 TATATTATACGTTTTCAAAAATATTTTTTAAAAACTA
**
15573611 TATATTATATATTTTCAAAAA
1 TATATTATACGTTTTCAAAAA
15573632 AACTACATTT
Statistics
Matches: 205, Mismatches: 29, Indels: 17
0.82 0.12 0.07
Matches are distributed among these distances:
33 22 0.11
34 3 0.01
35 7 0.03
36 33 0.16
37 61 0.30
38 28 0.14
39 45 0.22
40 6 0.03
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (37 bp):
TATATTATACGTTTTCAAAAATATTTTTTAAAAACTA
Found at i:15573590 original size:108 final size:109
Alignment explanation
Indices: 15573363--15573619 Score: 295
Period size: 108 Copynumber: 2.3 Consensus size: 109
15573353 ATATTACATG
* * * *
15573363 TTTTCAAAAATCATTTTTAAAAAATATATATATTATACGTTTTCAAAACCTTTTTTTTAAAAAAC
1 TTTTCAAAAAT-ATTTTTTAAAAA-CTATATATTATACGTCTTCAAAA----TTATTTAAAAAAC
* * **
15573428 TATATATTATACGTTTTCAAAAATATTTTAAAAAAACTATTTATTATACG
60 TATATATTATACGTTTTCAAAAATATTTTAAAAAAACTATATATTAGAAA
15573478 TTTTCAAAAATAATTTTTTAAAAACTATATATTATACG-CTTCAAAA-TATTTAAAAAACTATAT
1 TTTTCAAAAAT-ATTTTTTAAAAACTATATATTATACGTCTTCAAAATTATTTAAAAAACTATAT
***
15573541 ATTATACGTTTTCAAAAATATTTTTTTAAAACTATATATTAGAAA
65 ATTATACGTTTTCAAAAATATTTTAAAAAAACTATATATTAGAAA
* * * *
15573586 TTTTCAAATATA-CTTTTCAAAACCATATATTATA
1 TTTTCAAAAATATTTTTTAAAAACTATATATTATA
15573620 TATTTTCAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
106 19 0.15
107 1 0.01
108 64 0.51
113 7 0.06
114 13 0.10
115 22 0.17
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (109 bp):
TTTTCAAAAATATTTTTTAAAAACTATATATTATACGTCTTCAAAATTATTTAAAAAACTATATA
TTATACGTTTTCAAAAATATTTTAAAAAAACTATATATTAGAAA
Found at i:15583020 original size:13 final size:13
Alignment explanation
Indices: 15583004--15583047 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
15582994 AAAAATGAAC
15583004 TAAATAAATAAAA
1 TAAATAAATAAAA
15583017 TAAATAAATAAAA
1 TAAATAAATAAAA
*
15583030 -ATATATAATAAAAA
1 TAAATA-AAT-AAAA
15583044 TAAA
1 TAAA
15583048 AACTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 4 0.15
13 16 0.62
14 4 0.15
15 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:15583026 original size:17 final size:17
Alignment explanation
Indices: 15582990--15583054 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
15582980 GTTGTTTTCA
*
15582990 AAAAAAAAATGAACTAAAT
1 AAAAAAATAT-AA-TAAAT
15583009 AAATAAAATA-AATAAAT
1 AAA-AAAATATAATAAAT
*
15583026 AAAAATATATAATAAA-
1 AAAAAAATATAATAAAT
15583042 AATAAAAACTATA
1 AA-AAAAA-TATA
15583055 TAATATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 7 0.18
17 18 0.46
18 6 0.15
19 3 0.08
20 5 0.13
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAAAAATATAATAAAT
Found at i:15583054 original size:20 final size:19
Alignment explanation
Indices: 15583022--15583059 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
15583012 TAAAATAAAT
15583022 AAATAAAAATATATAATAA
1 AAATAAAAATATATAATAA
15583041 AAATAAAAACTATATAATA
1 AAATAAAAA-TATATAATA
15583060 TTATATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAAAATATATAATAA
Found at i:15583125 original size:36 final size:36
Alignment explanation
Indices: 15583056--15583241 Score: 189
Period size: 37 Copynumber: 5.1 Consensus size: 36
15583046 AAAACTATAT
* *
15583056 AATATTATATTACATGTTTTCAAAAATCATTTTTAAAAA
1 AATA-TATATTATACGTTTTCAAAAAT--TTTTTAAAAA
* *
15583095 AATATATATTATACATTTTCAAAACCTTTTTTAAAAA
1 AATATATATTATACGTTTTCAAAA-ATTTTTTAAAAA
* *
15583132 ACTATATATTATACGTTTTCAAAAA-TATTTAAAAA
1 AATATATATTATACGTTTTCAAAAATTTTTTAAAAA
***
15583167 GAATATATATTATACGTTTTCAAAAAAAAATTT--AAA
1 -AATATATATTATACGTTTTC-AAAAATTTTTTAAAAA
* *
15583203 ACTATATATTATACGTTTTCAAAAATATTTTCAAAAA
1 AATATATATTATACGTTTTCAAAAAT-TTTTTAAAAA
15583240 AA
1 AA
15583242 CTACATTTGA
Statistics
Matches: 124, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
34 5 0.04
35 30 0.24
36 22 0.18
37 41 0.33
38 21 0.17
39 5 0.04
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (36 bp):
AATATATATTATACGTTTTCAAAAATTTTTTAAAAA
Found at i:15583188 original size:73 final size:70
Alignment explanation
Indices: 15583061--15583241 Score: 218
Period size: 73 Copynumber: 2.5 Consensus size: 70
15583051 TATATAATAT
* * *****
15583061 TATATTACATGTTTTCAAAAATCATTTTTAAAAAAATATATATTATACATTTTCAAAACCTTTTT
1 TATATTATACGTTTTCAAAAAT-A--TTTAAAAAAATATATATTATACATTTTCAAAAAAAAATT
15583126 TAAAAAACTA
63 T--AAAACTA
*
15583136 TATATTATACGTTTTCAAAAATATTTAAAAAGAATATATATTATACGTTTTCAAAAAAAAATTTA
1 TATATTATACGTTTTCAAAAATATTTAAAAA-AATATATATTATACATTTTCAAAAAAAAATTTA
15583201 AAACTA
65 AAACTA
15583207 TATATTATACGTTTTCAAAAATATTTTCAAAAAAA
1 TATATTATACGTTTTCAAAAATA-TTT-AAAAAAA
15583242 CTACATTTGA
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
71 30 0.32
72 13 0.14
73 31 0.33
74 1 0.01
75 20 0.21
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (70 bp):
TATATTATACGTTTTCAAAAATATTTAAAAAAATATATATTATACATTTTCAAAAAAAAATTTAA
AACTA
Found at i:15583216 original size:35 final size:36
Alignment explanation
Indices: 15583091--15583227 Score: 145
Period size: 35 Copynumber: 3.8 Consensus size: 36
15583081 ATCATTTTTA
* * *****
15583091 AAAAAATATATATTATACATTTTCAAAACCTTTTTT
1 AAAAACTATATATTATACGTTTTCAAAAAAAAATTT
*
15583127 AAAAAACTATATATTATACGTTTTC--AAAAATATTT
1 -AAAAACTATATATTATACGTTTTCAAAAAAAAATTT
*
15583162 AAAAAGAATATATATTATACGTTTTCAAAAAAAAATTT
1 -AAAA-ACTATATATTATACGTTTTCAAAAAAAAATTT
15583200 -AAAACTATATATTATACGTTTTCAAAAA
1 AAAAACTATATATTATACGTTTTCAAAAA
15583228 TATTTTCAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
35 35 0.40
36 22 0.25
37 22 0.25
38 9 0.10
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (36 bp):
AAAAACTATATATTATACGTTTTCAAAAAAAAATTT
Found at i:15584854 original size:13 final size:13
Alignment explanation
Indices: 15584838--15584863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15584828 TTTATTATAT
15584838 ATATATAATAATA
1 ATATATAATAATA
15584851 ATATATAATAATA
1 ATATATAATAATA
15584864 TTATTATTAT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATATAATAATA
Found at i:15586066 original size:16 final size:16
Alignment explanation
Indices: 15586026--15586066 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
15586016 TTGATTTAGG
15586026 TTAATTAATTTTAATAT
1 TTAATT-ATTTTAATAT
15586043 TTAA-TATTTTAAT-T
1 TTAATTATTTTAATAT
15586057 ATTAATTATT
1 -TTAATTATT
15586067 ATTACAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 12 0.55
16 5 0.23
17 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATTATTTTAATAT
Found at i:15593496 original size:20 final size:20
Alignment explanation
Indices: 15593459--15593531 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
15593449 CCCATGATTT
* * *
15593459 TGTAAATCCATCGAGTCATC
1 TGTAAGTCCTTCGGGTCATC
15593479 TGTAAGTCCTTCGGGTCATC
1 TGTAAGTCCTTCGGGTCATC
*
15593499 TGTAAGTCATTCGGGTCATC
1 TGTAAGTCCTTCGGGTCATC
*
15593519 TGTAACTCCTTCG
1 TGTAAGTCCTTCG
15593532 AGCATGATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (20 bp):
TGTAAGTCCTTCGGGTCATC
Found at i:15593581 original size:20 final size:20
Alignment explanation
Indices: 15593558--15593606 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
15593548 CCTCCAGGTC
*
15593558 ATTTGTAAAGCCTCCGAGCA
1 ATTTGTAAAACCTCCGAGCA
* * * *
15593578 ATTTGAAAAACCTTCGGGTA
1 ATTTGTAAAACCTCCGAGCA
15593598 ATTTGTAAA
1 ATTTGTAAA
15593607 TCGTCCGGGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
ATTTGTAAAACCTCCGAGCA
Found at i:15593823 original size:42 final size:42
Alignment explanation
Indices: 15593771--15593918 Score: 127
Period size: 42 Copynumber: 3.3 Consensus size: 42
15593761 AACCTTCATG
15593771 GAAGAGTAGTGAAGTATTCCAACCTCGAATCTGATCTTCACA
1 GAAGAGTAGTGAAGTATTCCAACCTCGAATCTGATCTTCACA
* * * * * * *
15593813 GAAGAGTAGTGAAACATATTATGTTCAAGTTCATCAAAT-TCAACCTTCACG
1 GAAGAGTAGTG----A-AGTAT-TCCAA---CCTCGAATCT-GATCTTCACA
*
15593864 GAAGAGTAATGAAGTATTCCAACCTCGAATCTGATCTTCACA
1 GAAGAGTAGTGAAGTATTCCAACCTCGAATCTGATCTTCACA
15593906 GAAGAGTAGTGAA
1 GAAGAGTAGTGAA
15593919 ACAAATTCTT
Statistics
Matches: 79, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
42 36 0.46
43 1 0.01
45 4 0.05
46 5 0.06
47 5 0.06
48 4 0.05
50 1 0.01
51 23 0.29
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (42 bp):
GAAGAGTAGTGAAGTATTCCAACCTCGAATCTGATCTTCACA
Found at i:15593843 original size:93 final size:93
Alignment explanation
Indices: 15593704--15593921 Score: 355
Period size: 93 Copynumber: 2.3 Consensus size: 93
15593694 AATCAACTAT
* * * * *
15593704 GAATCTAATCTTCGCGGAATAGTAGTGAAACAGATTCTGTTAAAGTTCATCAAATTCAACCTTCA
1 GAATCTGATCTTCACAGAAGAGTAGTGAAACAGATTATGTTAAAGTTCATCAAATTCAACCTTCA
* *
15593769 TGGAAGAGTAGTGAAGTATTCCAACCTC
66 CGGAAGAGTAATGAAGTATTCCAACCTC
* *
15593797 GAATCTGATCTTCACAGAAGAGTAGTGAAACATATTATGTTCAAGTTCATCAAATTCAACCTTCA
1 GAATCTGATCTTCACAGAAGAGTAGTGAAACAGATTATGTTAAAGTTCATCAAATTCAACCTTCA
15593862 CGGAAGAGTAATGAAGTATTCCAACCTC
66 CGGAAGAGTAATGAAGTATTCCAACCTC
15593890 GAATCTGATCTTCACAGAAGAGTAGTGAAACA
1 GAATCTGATCTTCACAGAAGAGTAGTGAAACA
15593922 AATTCTTCTC
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 116 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (93 bp):
GAATCTGATCTTCACAGAAGAGTAGTGAAACAGATTATGTTAAAGTTCATCAAATTCAACCTTCA
CGGAAGAGTAATGAAGTATTCCAACCTC
Found at i:15593981 original size:93 final size:92
Alignment explanation
Indices: 15593704--15593966 Score: 338
Period size: 93 Copynumber: 2.9 Consensus size: 92
15593694 AATCAACTAT
* * * * * * *
15593704 GAATCTAATCTTCGCGGAATAGTAGTGAAACAGATTCTGTTAAAGTTCATCAAATTCAACCTTCA
1 GAATCTGATCTTCACAGAAGAGTAGTGAAACAAATTATGTTCAAGTT-ATCAAATTCAACCTTCA
*
15593769 TGGAAGAGTAGTGAAGTATTCCAACCTC
65 AGGAAGAGTAGTGAAGTATTCCAACCTC
*
15593797 GAATCTGATCTTCACAGAAGAGTAGTGAAACATATTATGTTCAAGTTCATCAAATTCAACCTTCA
1 GAATCTGATCTTCACAGAAGAGTAGTGAAACAAATTATGTTCAAGTT-ATCAAATTCAACCTTCA
* *
15593862 CGGAAGAGTAATGAAGTATTCCAACCTC
65 AGGAAGAGTAGTGAAGTATTCCAACCTC
* * *
15593890 GAATCTGATCTTCACAGAAGAGTAGTGAAACAAATTCT-TCTC-CG-T-T-AAATTAAACCTTCA
1 GAATCTGATCTTCACAGAAGAGTAGTGAAACAAATTATGT-TCAAGTTATCAAATTCAACCTTCA
15593950 AGGAAGAGTAGTGAAGT
65 AGGAAGAGTAGTGAAGT
15593967 CGATCAATTC
Statistics
Matches: 154, Mismatches: 15, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
88 28 0.18
89 1 0.01
91 1 0.01
92 2 0.01
93 122 0.79
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (92 bp):
GAATCTGATCTTCACAGAAGAGTAGTGAAACAAATTATGTTCAAGTTATCAAATTCAACCTTCAA
GGAAGAGTAGTGAAGTATTCCAACCTC
Found at i:15594027 original size:36 final size:35
Alignment explanation
Indices: 15593937--15594036 Score: 128
Period size: 35 Copynumber: 2.8 Consensus size: 35
15593927 TTCTCCGTTA
* *
15593937 AATTAAACCTTCAAGGAAGAGTAGTGAAGTCGATC
1 AATTCAACCTTCAAGGAAGAGTAGTGAAGTCAATC
* *
15593972 AATTCAACCTTCATGGAAGAGTGGTGAAGTCAATC
1 AATTCAACCTTCAAGGAAGAGTAGTGAAGTCAATC
* * *
15594007 ATTCTCAATCTTCACGGAAGAGTAGTGAAG
1 AAT-TCAACCTTCAAGGAAGAGTAGTGAAG
15594037 AATTACAACC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 33 0.59
36 23 0.41
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (35 bp):
AATTCAACCTTCAAGGAAGAGTAGTGAAGTCAATC
Found at i:15594111 original size:119 final size:119
Alignment explanation
Indices: 15593970--15594274 Score: 393
Period size: 119 Copynumber: 2.6 Consensus size: 119
15593960 GTGAAGTCGA
* *
15593970 TCAATTCAACCTTCA-TGGAAGAGTGGTGAAGTCAATCATTCTCAATCTTCACGGAAGAGTAGTG
1 TCAATTCAACCTTCACT-GAAGAGTAGTGAAGTCAATCATTCTCAACCTTCACGGAAGAGTAGTG
* * *
15594034 AAGAATTACAACCTCGAATCTGATCTTCATAG-AAGAGTAGTGGAACATATTCTTC
65 AAGAATTACAACCACGAATCTAATCTTCA-AGAAAGAGTAGTGAAACATATTCTTC
* * ***
15594089 TCAATTCAACCTTCACTGAAGAGTAGTGAAGTCGATCATCCTCAACCTTCATAAAAGAGTAGTGA
1 TCAATTCAACCTTCACTGAAGAGTAGTGAAGTCAATCATTCTCAACCTTCACGGAAGAGTAGTGA
* * *
15594154 AGAATTCCAACCACGAATTTAATCTTCACGAAAGAGTAGTGAAACATATTCTTC
66 AGAATTACAACCACGAATCTAATCTTCAAGAAAGAGTAGTGAAACATATTCTTC
* * * *
15594208 TCAATTCAACCTTCACGGAAGAATAGTGCAGT-AATGCAAAT-TCAACCTTCACGGAAGAGTAGT
1 TCAATTCAACCTTCACTGAAGAGTAGTGAAGTCAAT-C-ATTCTCAACCTTCACGGAAGAGTAGT
15594271 GAAG
64 GAAG
15594275 CAAATCATTT
Statistics
Matches: 160, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
118 3 0.02
119 155 0.97
120 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (119 bp):
TCAATTCAACCTTCACTGAAGAGTAGTGAAGTCAATCATTCTCAACCTTCACGGAAGAGTAGTGA
AGAATTACAACCACGAATCTAATCTTCAAGAAAGAGTAGTGAAACATATTCTTC
Found at i:15594539 original size:16 final size:16
Alignment explanation
Indices: 15594512--15594552 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
15594502 ATATTTATTA
15594512 AATATATATATAATAAT
1 AATAT-TATATAATAAT
*
15594529 AATATTATATAATATT
1 AATATTATATAATAAT
*
15594545 ATTATTAT
1 AATATTAT
15594553 TTACAAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTATATAATAAT
Found at i:15604948 original size:65 final size:65
Alignment explanation
Indices: 15604859--15605013 Score: 215
Period size: 65 Copynumber: 2.4 Consensus size: 65
15604849 TACACTAGGG
* * * * *
15604859 GTGCATCGGTACACTAATTACATTCGATGTTTTAAAA-AAGCATGTAGTGCATCGATGCATGG-T
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATAAGCAAG-AGTGCATCGATGCATGGCT
15604922 AT
65 -T
**
15604924 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATAAGCAAGAGTGCATCGATGCATGGCTT
15604989 GTGCATCGGTACACAAAATGCATTC
1 GTGCATCGGTACACAAAATGCATTC
15605014 AAAATGGGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
65 76 0.94
66 5 0.06
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATAAGCAAGAGTGCATCGATGCATGGCTT
Found at i:15607215 original size:18 final size:19
Alignment explanation
Indices: 15607188--15607228 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
15607178 AGTTTTCATG
15607188 AAAAACAACAT-AATTAAA
1 AAAAACAACATCAATTAAA
15607206 TAAAAA-AACATCAATTAAA
1 -AAAAACAACATCAATTAAA
15607225 AAAA
1 AAAA
15607229 TCAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAAACAACATCAATTAAA
Found at i:15607700 original size:23 final size:22
Alignment explanation
Indices: 15607674--15607741 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
15607664 AGTGCATTGA
15607674 TGCACATTCAAGGAATGCATCGG
1 TGCACATTCAAGG-ATGCATCGG
* * *
15607697 TGCATC-TTC-ATGATGTATCGA
1 TGCA-CATTCAAGGATGCATCGG
15607718 TGCACATTCAAGGGATGCATCGG
1 TGCACATTCAA-GGATGCATCGG
15607741 T
1 T
15607742 ACACTGTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
20 1 0.03
21 14 0.40
22 3 0.09
23 16 0.46
24 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (22 bp):
TGCACATTCAAGGATGCATCGG
Found at i:15612991 original size:108 final size:108
Alignment explanation
Indices: 15612802--15613016 Score: 421
Period size: 108 Copynumber: 2.0 Consensus size: 108
15612792 CACTAATTTG
15612802 TTCTTTCCTTTTAGGACAAAGTGTAACTTTACAACTCCTTCAAGAATTATACCACAAATTCTTGA
1 TTCTTTCCTTTTAGGACAAAGTGTAACTTTACAACTCCTTCAAGAATTATACCACAAATTCTTGA
15612867 GAACACTCTCTCCCAAAGAGAAATACACAAATTTGCAAACTTA
66 GAACACTCTCTCCCAAAGAGAAATACACAAATTTGCAAACTTA
*
15612910 TTCTTTCTTTTTAGGACAAAGTGTAACTTTACAACTCCTTCAAGAATTATACCACAAATTCTTGA
1 TTCTTTCCTTTTAGGACAAAGTGTAACTTTACAACTCCTTCAAGAATTATACCACAAATTCTTGA
15612975 GAACACTCTCTCCCAAAGAGAAATACACAAATTTGCAAACTT
66 GAACACTCTCTCCCAAAGAGAAATACACAAATTTGCAAACTT
15613017 GCAAGAAAAC
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (108 bp):
TTCTTTCCTTTTAGGACAAAGTGTAACTTTACAACTCCTTCAAGAATTATACCACAAATTCTTGA
GAACACTCTCTCCCAAAGAGAAATACACAAATTTGCAAACTTA
Found at i:15615613 original size:16 final size:16
Alignment explanation
Indices: 15615592--15615629 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
15615582 TTATTTCACT
15615592 CTCTTTATTATGTGTA
1 CTCTTTATTATGTGTA
15615608 CTCTTTATTATGTGTA
1 CTCTTTATTATGTGTA
15615624 CTCTTT
1 CTCTTT
15615630 TCTTCCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.58
Consensus pattern (16 bp):
CTCTTTATTATGTGTA
Found at i:15616391 original size:19 final size:19
Alignment explanation
Indices: 15616367--15616417 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
15616357 GTTATCTTCT
15616367 CTAAAGTTTAAATCATTAC
1 CTAAAGTTTAAATCATTAC
*
15616386 CTAAAGTTTAAATAATTAC
1 CTAAAGTTTAAATCATTAC
*
15616405 CTCAA-TTTAAATC
1 CTAAAGTTTAAATC
15616418 GTTAATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (19 bp):
CTAAAGTTTAAATCATTAC
Found at i:15619054 original size:21 final size:21
Alignment explanation
Indices: 15619030--15619070 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15619020 TGCTTTTATT
*
15619030 TAAATTATAAATGTTTAATAA
1 TAAATTATAAATATTTAATAA
*
15619051 TAAATTATATATATTTAATA
1 TAAATTATAAATATTTAATA
15619071 TTTTGGAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAATTATAAATATTTAATAA
Found at i:15623445 original size:45 final size:45
Alignment explanation
Indices: 15623396--15623486 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
15623386 ACTTGTTTTT
15623396 TCCTCAATGATCATACCAAGATGCCATGCCATAATATTCACATAA
1 TCCTCAATGATCATACCAAGATGCCATGCCATAATATTCACATAA
* *
15623441 TCCTCAATGATCATATCAAGATGTCATGCCATAATATTCACATAA
1 TCCTCAATGATCATACCAAGATGCCATGCCATAATATTCACATAA
15623486 T
1 T
15623487 GCATCATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (45 bp):
TCCTCAATGATCATACCAAGATGCCATGCCATAATATTCACATAA
Found at i:15624758 original size:21 final size:20
Alignment explanation
Indices: 15624732--15624791 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
15624722 AGACAAACAT
15624732 CAATAGATAAGGAGATGAAG
1 CAATAGATAAGGAGATGAAG
15624752 ACAATAGA-ATA-GAGATGAAG
1 -CAATAGATA-AGGAGATGAAG
**
15624772 CAATAGGATTTGGAGATGAA
1 CAATA-GATAAGGAGATGAA
15624792 ATCAAGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 5 0.15
20 12 0.36
21 16 0.48
ACGTcount: A:0.48, C:0.05, G:0.28, T:0.18
Consensus pattern (20 bp):
CAATAGATAAGGAGATGAAG
Found at i:15629953 original size:12 final size:12
Alignment explanation
Indices: 15629936--15629960 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15629926 TTGCCAATCG
15629936 TTCTATCGTGTA
1 TTCTATCGTGTA
15629948 TTCTATCGTGTA
1 TTCTATCGTGTA
15629960 T
1 T
15629961 CCTAGTGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (12 bp):
TTCTATCGTGTA
Found at i:15631464 original size:29 final size:29
Alignment explanation
Indices: 15631406--15631466 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
15631396 AGTATATATG
* *
15631406 TATATATGAAAAATCATATAAAACATATA
1 TATATATCAAAAATCATATAAAACAAATA
* *
15631435 TATATATCAAAATATCA-GTAATACAAATA
1 TATATATCAAAA-ATCATATAAAACAAATA
15631464 TAT
1 TAT
15631467 CGAGATGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (29 bp):
TATATATCAAAAATCATATAAAACAAATA
Found at i:15631911 original size:39 final size:39
Alignment explanation
Indices: 15631815--15631894 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
15631805 TAGCATAAGG
* * *
15631815 GCCTGCGGTAAGGACTTACGCTGAGCACAAAGCATAGGA
1 GCCTACGGTAAGGACTTACCCTGAGCACAAAGCAGAGGA
* *
15631854 TCCTACGGTAAGGACTTACCCTGAGCACAAAGCAGATGA
1 GCCTACGGTAAGGACTTACCCTGAGCACAAAGCAGAGGA
15631893 GC
1 GC
15631895 TTGTGGTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.25, G:0.28, T:0.16
Consensus pattern (39 bp):
GCCTACGGTAAGGACTTACCCTGAGCACAAAGCAGAGGA
Found at i:15635131 original size:20 final size:20
Alignment explanation
Indices: 15635108--15635148 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15635098 GATATGACAT
*
15635108 TGATATGTCATAGTGTGAAA
1 TGATATGTCATAGCGTGAAA
15635128 TGATATGTCATAGCGTGAAA
1 TGATATGTCATAGCGTGAAA
15635148 T
1 T
15635149 TATAATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (20 bp):
TGATATGTCATAGCGTGAAA
Found at i:15635631 original size:45 final size:45
Alignment explanation
Indices: 15635566--15635766 Score: 321
Period size: 45 Copynumber: 4.4 Consensus size: 45
15635556 GTAACCATGC
*
15635566 AAATAAGCTTACGAGCTTATGGAACAAATGGTAACTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
* *
15635611 AAATAAGCTTACGAGTTTATGGAACAAATGATAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
* *
15635656 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTAGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
** *
15635701 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTAT-GGAACAAATGGTAAGTATATTGGTA
15635747 AAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTAT
15635767 AGGATAAATG
Statistics
Matches: 145, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 103 0.71
46 42 0.29
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
Found at i:15636106 original size:12 final size:12
Alignment explanation
Indices: 15636089--15636113 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15636079 TTTTGCGAAA
15636089 TTACTGTAGCAG
1 TTACTGTAGCAG
15636101 TTACTGTAGCAG
1 TTACTGTAGCAG
15636113 T
1 T
15636114 GCATCTATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TTACTGTAGCAG
Found at i:15638526 original size:10 final size:9
Alignment explanation
Indices: 15638515--15638573 Score: 64
Period size: 10 Copynumber: 6.1 Consensus size: 9
15638505 TATATAACAG
15638515 AAAAAAGAA
1 AAAAAAGAA
*
15638524 GAAAAAGAA
1 AAAAAAGAA
15638533 AAAAATAGAA
1 AAAAA-AGAA
15638543 AAAAACAGAA
1 AAAAA-AGAA
*
15638553 AAAAGAAAAGA
1 AAAA-AAGA-A
15638564 AAAAAAGAA
1 AAAAAAGAA
15638573 A
1 A
15638574 TAATAAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
9 14 0.33
10 22 0.52
11 6 0.14
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:15638542 original size:19 final size:19
Alignment explanation
Indices: 15638515--15638588 Score: 60
Period size: 22 Copynumber: 3.6 Consensus size: 19
15638505 TATATAACAG
*
15638515 AAAAAAGAAGAAAA-AGAA
1 AAAAAAGAAAAAAACAGAA
15638533 AAAAATAGAAAAAAACAGAAAA
1 AAAAA-AGAAAAAAACAG--AA
* *
15638555 AAGAAAAGAAAAAAAGAAATA
1 AA-AAAAGAAAAAAACAGA-A
15638576 ATAAAAAGAAAAA
1 A-AAAAAGAAAAA
15638589 GTAAACGAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
18 5 0.11
19 8 0.17
20 3 0.07
21 12 0.26
22 15 0.33
23 3 0.07
ACGTcount: A:0.82, C:0.01, G:0.12, T:0.04
Consensus pattern (19 bp):
AAAAAAGAAAAAAACAGAA
Found at i:15638557 original size:36 final size:35
Alignment explanation
Indices: 15638510--15638616 Score: 98
Period size: 36 Copynumber: 3.0 Consensus size: 35
15638500 ATATATATAT
15638510 AACAGAAAAAAGAAGAAAAAGAAAAAAATAGAAAAA
1 AACAGAAAAAAGAAGAAAAAGAAAAAAAT-GAAAAA
*
15638546 AACAGAAAAAAGAA-AAGAAA-AAAAGAAAT-AATAA
1 AACAGAAAAAAGAAGAA-AAAGAAAA-AAATGAAAAA
*
15638580 AA-AG-AAAAAGTAAACGAAGAAGAAAAAAATCGAAAAA
1 AACAGAAAAAAG--AA-GAAAAAGAAAAAAAT-GAAAAA
15638617 GAAAAGACTT
Statistics
Matches: 59, Mismatches: 3, Indels: 17
0.75 0.04 0.22
Matches are distributed among these distances:
32 6 0.10
33 2 0.03
34 8 0.14
35 12 0.20
36 27 0.46
37 4 0.07
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.05
Consensus pattern (35 bp):
AACAGAAAAAAGAAGAAAAAGAAAAAAATGAAAAA
Found at i:15638586 original size:33 final size:33
Alignment explanation
Indices: 15638517--15638588 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
15638507 TATAACAGAA
* *
15638517 AAAAGAAGAAAAAGAAAAAAATAGAAAAAAACAG
1 AAAA-AAGAAAAAGAAAAAAAGAGAAAAAAAAAG
15638551 AAAAAAG-AAAAGAAAAAAAGA-AATAATAAAAAG
1 AAAAAAGAAAAAGAAAAAAAGAGAA-AA-AAAAAG
15638584 AAAAA
1 AAAAA
15638589 GTAAACGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 2 0.06
32 15 0.44
33 13 0.38
34 4 0.12
ACGTcount: A:0.82, C:0.01, G:0.12, T:0.04
Consensus pattern (33 bp):
AAAAAAGAAAAAGAAAAAAAGAGAAAAAAAAAG
Found at i:15643563 original size:15 final size:15
Alignment explanation
Indices: 15643543--15643572 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15643533 TCAAGCATTT
15643543 AACAATCCAAAAACA
1 AACAATCCAAAAACA
15643558 AACAATCCAAAAACA
1 AACAATCCAAAAACA
15643573 TTAAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.07
Consensus pattern (15 bp):
AACAATCCAAAAACA
Found at i:15648942 original size:22 final size:21
Alignment explanation
Indices: 15648900--15648939 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15648890 GAGTTTATTT
*
15648900 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
15648921 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
15648940 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:15650983 original size:65 final size:64
Alignment explanation
Indices: 15650824--15651009 Score: 216
Period size: 65 Copynumber: 2.9 Consensus size: 64
15650814 TGACCGTTGG
* * *
15650824 ATCCTTAGTGCATCGATGCACTAAG-AGTGCATCGATGCATCAAGTGCATTTGATG-TTTCAAAA
1 ATCCTCAGTGCATCGATGCA-T-GGTAGTGCATCGATGCATCAAATGCATTTGATGTTTTCAAAA
15650887 T
64 T
* ** * *
15650888 AGCCAGAGTGCATCGATACATGGCTGGTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAA
1 ATCCTCAGTGCATCGATGCATGG-TAGTGCATCGATGCATCAAATGCATTTGATGTTTTCA-AAA
15650953 -
64 T
* *
15650953 ATCCTCAGTGCATCGATGCATGGTATGTGCATCGATGCATGAAATGCATTCGATGTT
1 ATCCTCAGTGCATCGATGCATGGTA-GTGCATCGATGCATCAAATGCATTTGATGTT
15651010 CAATTTAATT
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 45 0.44
65 53 0.51
66 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (64 bp):
ATCCTCAGTGCATCGATGCATGGTAGTGCATCGATGCATCAAATGCATTTGATGTTTTCAAAAT
Found at i:15651048 original size:65 final size:63
Alignment explanation
Indices: 15650850--15651050 Score: 196
Period size: 65 Copynumber: 3.1 Consensus size: 63
15650840 TGCACTAAGA
* * * * *
15650850 GTGCATCGATGCATCAAGTGCATTTGATGTTTCA-AAATAGC-CAGAGTGCATCGATACATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
15650913 G
63 G
*
15650914 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
15650979 -
63 G
* **
15650979 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
15651042 TG
62 TG
15651044 GTGCATC
1 GTGCATC
15651051 ACTCTGAAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 50 0.42
65 57 0.48
66 5 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:15651766 original size:46 final size:45
Alignment explanation
Indices: 15651674--15651796 Score: 201
Period size: 46 Copynumber: 2.7 Consensus size: 45
15651664 GTAACCATGC
* * *
15651674 AAATAAGCTTATGAGCTTATGGAACAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
15651719 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGGA-TAAATGGTAAGTATATTGGTA
15651765 AAATAAGCTTACGAGCTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGT
15651797 GAGAAGTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 30 0.41
46 43 0.59
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:15652226 original size:21 final size:21
Alignment explanation
Indices: 15652200--15652258 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
15652190 AGTATCAGTT
15652200 ACTGTAGCAGTGCATCGGTAC
1 ACTGTAGCAGTGCATCGGTAC
*
15652221 ACTGTAGCAGTGCATTGGTAC
1 ACTGTAGCAGTGCATCGGTAC
15652242 ACTGTAGCAGTGCATCG
1 ACTGTAGCAGTGCATCG
15652259 ATAGACATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGGTAC
Found at i:15652368 original size:22 final size:22
Alignment explanation
Indices: 15652334--15652378 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15652324 GGTACACTGT
* *
15652334 TTACTATTTACGGTACTGTTCA
1 TTACTATTCACGGTACTATTCA
*
15652356 TTACTGTTCACGGTACTATTCA
1 TTACTATTCACGGTACTATTCA
15652378 T
1 T
15652379 AAAAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.44
Consensus pattern (22 bp):
TTACTATTCACGGTACTATTCA
Found at i:15665717 original size:29 final size:29
Alignment explanation
Indices: 15665675--15665748 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
15665665 TCTGAAGAGG
* *
15665675 ATCCCAAGTAGAAATAGGTTGGGGATTAA
1 ATCCCATGCAGAAATAGGTTGGGGATTAA
* *
15665704 ATCCCATGCAGAAACAGGTTGGGTATTAA
1 ATCCCATGCAGAAATAGGTTGGGGATTAA
*
15665733 ATCGCATGCAGAAATA
1 ATCCCATGCAGAAATA
15665749 AGACGGGGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (29 bp):
ATCCCATGCAGAAATAGGTTGGGGATTAA
Found at i:15665803 original size:29 final size:30
Alignment explanation
Indices: 15665737--15665808 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
15665727 TATTAAATCG
* *
15665737 CATGCAGAAA-TAAGACGGGGAAGAATGTTC
1 CATGCA-AAATTAGGACGGGGAAGAATGTCC
* *
15665767 CATCCAAAATTAGGACGGGGAAGGA-GTCC
1 CATGCAAAATTAGGACGGGGAAGAATGTCC
15665796 CATGCAAAATTAG
1 CATGCAAAATTAG
15665809 AAATGCATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 18 0.50
30 18 0.50
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.17
Consensus pattern (30 bp):
CATGCAAAATTAGGACGGGGAAGAATGTCC
Found at i:15677363 original size:19 final size:17
Alignment explanation
Indices: 15677325--15677374 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
15677315 AAACAACTCT
15677325 TTTTTCTCTTTTTTTTAA
1 TTTTT-TCTTTTTTTTAA
15677343 TTGTTTT-TTTTCTTTTCAA
1 TT-TTTTCTTTT-TTTT-AA
15677362 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
15677375 AAGCCGTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.14
18 13 0.46
19 11 0.39
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTAA
Found at i:15680086 original size:21 final size:20
Alignment explanation
Indices: 15680055--15680129 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
15680045 AATTCTGACT
* *
15680055 ATCGCATTGCGATTTTCCAA
1 ATCGCAATGCGATTATCCAA
* **
15680075 ATTCGCAATGCGAATATGTAA
1 A-TCGCAATGCGATTATCCAA
* *
15680096 ATCGCAATGCGATTAT-GACT
1 ATCGCAATGCGATTATCCA-A
15680116 ATCGCAATGCGATT
1 ATCGCAATGCGATT
15680130 CTGACTATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 29 0.64
21 15 0.33
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (20 bp):
ATCGCAATGCGATTATCCAA
Found at i:15680102 original size:20 final size:20
Alignment explanation
Indices: 15680077--15680142 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
15680067 TTTTCCAAAT
15680077 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGAATATG-ACAA
* *
15680097 TCGCAATGCGATTATGACTA
1 TCGCAATGCGAATATGACAA
* * *
15680117 TCGCAATGCGATTCTGACTA
1 TCGCAATGCGAATATGACAA
15680137 TCGCAA
1 TCGCAA
15680143 CGTGATTCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
19 1 0.02
20 41 0.98
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (20 bp):
TCGCAATGCGAATATGACAA
Found at i:15680149 original size:20 final size:20
Alignment explanation
Indices: 15680096--15680183 Score: 104
Period size: 20 Copynumber: 4.4 Consensus size: 20
15680086 GAATATGTAA
* *
15680096 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
15680116 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
15680136 ATCGCAACGTGATTCTGATT
1 ATCGCAACGCGATTCTGACT
* *
15680156 ATCGCAACGAGTTTCTGACT
1 ATCGCAACGCGATTCTGACT
*
15680176 GTCGCAAC
1 ATCGCAAC
15680184 ACTGAATTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:15682005 original size:21 final size:21
Alignment explanation
Indices: 15681979--15682019 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15681969 TAGTTACATG
15681979 TATTTCACATTTAAATGATTA
1 TATTTCACATTTAAATGATTA
** *
15682000 TATTTCTTATTTATATGATT
1 TATTTCACATTTAAATGATT
15682020 TTGTAGATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (21 bp):
TATTTCACATTTAAATGATTA
Found at i:15683334 original size:18 final size:18
Alignment explanation
Indices: 15683311--15683345 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15683301 GAAAAAAGGC
*
15683311 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
15683329 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
15683346 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:15683541 original size:20 final size:20
Alignment explanation
Indices: 15683516--15683666 Score: 170
Period size: 20 Copynumber: 7.8 Consensus size: 20
15683506 TTACACATTC
15683516 ATTTGAATATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
*
15683536 ATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
* *
15683556 ATTTGATTATCGCAACTC-A
1 ATTTGAATATCGCAACGCGA
15683575 A----AA-ATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
*
15683590 ATTTGACTATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
* *
15683610 ATTTGACTATCGCAACGTGA
1 ATTTGAATATCGCAACGCGA
* * *
15683630 ATTTGATTATCGCAACGGGT
1 ATTTGAATATCGCAACGCGA
*
15683650 ATTCGAATATCGCAACG
1 ATTTGAATATCGCAACG
15683667 AGAAAATCGC
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.08
15 3 0.03
19 3 0.03
20 98 0.87
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGAATATCGCAACGCGA
Found at i:15683676 original size:74 final size:70
Alignment explanation
Indices: 15683524--15683706 Score: 190
Period size: 74 Copynumber: 2.5 Consensus size: 70
15683514 TCATTTGAAT
*
15683524 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCAAAAATCGCAACGCG
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCAAAAATCGCAACGAG
15683589 AATTTGAC
66 AA--T-AC
* * *
15683597 TATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGATTATCGCAACGGGTATTCGAATATCG
1 -ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAAC------TCAAAAATCG
15683662 CAACGAGAA-A-
59 CAACGAGAATAC
* * * *
15683672 ATCGCAAAGCGTATTAGACTATCGCAGCGCGAATT
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATT
15683707 GACTTTCGCG
Statistics
Matches: 94, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
74 77 0.82
76 1 0.01
80 16 0.17
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (70 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCAAAAATCGCAACGAG
AATAC
Found at i:15683677 original size:94 final size:94
Alignment explanation
Indices: 15683516--15683715 Score: 260
Period size: 94 Copynumber: 2.1 Consensus size: 94
15683506 TTACACATTC
* * *
15683516 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCAAAAATC
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTCGAATATCGCAACTCAAAAATC
* *
15683581 GCAACGCGAATTTGACTATCGCAACGCGA
66 GCAAAGCGAATTAGACTATCGCAACGCGA
* * * * *
15683610 ATTTGACTATCGCAACGTGAATTTGATTATCGCAACGGGTATTCGAATATCGCAAC-GAGAAAAT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTCGAATATCGCAACTCA-AAAAT
* *
15683674 CGCAAAGCGTATTAGACTATCGCAGCGCGA
65 CGCAAAGCGAATTAGACTATCGCAACGCGA
*
15683704 A-TTGACTTTCGC
1 ATTTGACTATCGC
15683716 GTTGCGATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
93 11 0.12
94 81 0.88
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (94 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTCGAATATCGCAACTCAAAAATC
GCAAAGCGAATTAGACTATCGCAACGCGA
Found at i:15683760 original size:20 final size:20
Alignment explanation
Indices: 15683705--15683760 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
15683695 GCAGCGCGAA
*
15683705 TTGACTTTCGCGTTGCGATT
1 TTGACTTTAGCGTTGCGATT
* * *
15683725 TTGTCTTTTGCATTGCGATT
1 TTGACTTTAGCGTTGCGATT
*
15683745 TTGAGTTTAGCGTTGC
1 TTGACTTTAGCGTTGC
15683761 AAAAGTGTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.48
Consensus pattern (20 bp):
TTGACTTTAGCGTTGCGATT
Found at i:15683921 original size:14 final size:14
Alignment explanation
Indices: 15683861--15683922 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
15683851 CACAAATAAG
*
15683861 AATTATTTACACATC
1 AATT-TTTACAAATC
**
15683876 AATATTAAACAAATC
1 AAT-TTTTACAAATC
* *
15683891 AACTTTTATAAATC
1 AATTTTTACAAATC
15683905 AATTTTTACAAATC
1 AATTTTTACAAATC
15683919 AATT
1 AATT
15683923 AAACAAGCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
14 24 0.65
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:15685376 original size:42 final size:42
Alignment explanation
Indices: 15685325--15685431 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
15685315 AATGTTGGGA
* * * *
15685325 AGGACCTCTTCAACGATGACAGTGGTCTCTTGAACGGT-GGGAG
1 AGGA-CTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGG-G
* ** *
15685368 GGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATAGGGG
1 AGGACTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGGG
*
15685410 AGGCCTCTTGAACGATGACAGG
1 AGGACTCTTGAACGATGACAGG
15685432 TGAGTCGGGT
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
42 44 0.88
43 6 0.12
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (42 bp):
AGGACTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGGG
Found at i:15685968 original size:20 final size:20
Alignment explanation
Indices: 15685945--15685993 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
15685935 AACGTGAAAA
15685945 TGACTATCGCAACATGAATT
1 TGACTATCGCAACATGAATT
*
15685965 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACATGAATT
15685985 TGACTATCG
1 TGACTATCG
15685994 AAACGAGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (20 bp):
TGACTATCGCAACATGAATT
Found at i:15685998 original size:20 final size:20
Alignment explanation
Indices: 15685933--15685998 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
15685923 ACACGAATGA
**
15685933 GAAACGTGAAAATGACTATC
1 GAAACGTGAATTTGACTATC
* *
15685953 GCAACATGAATTTGACTATC
1 GAAACGTGAATTTGACTATC
*
15685973 GCAACGTGAATTTGACTATC
1 GAAACGTGAATTTGACTATC
15685993 GAAACG
1 GAAACG
15685999 AGAGAATCGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
GAAACGTGAATTTGACTATC
Found at i:15686066 original size:20 final size:20
Alignment explanation
Indices: 15686041--15686088 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
15686031 GCGATTCTCT
15686041 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
15686061 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
15686081 CGTTGCGA
1 CGTTGCGA
15686089 AAGTAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:15688029 original size:20 final size:20
Alignment explanation
Indices: 15687981--15688087 Score: 101
Period size: 20 Copynumber: 5.5 Consensus size: 20
15687971 TTTGAAACTT
* *
15687981 AAAATTGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
* *
15688001 AAAACCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** **
15688021 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACGCGAAAATG
**
15688041 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
*
15688060 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
15688079 AAAATCGCA
1 AAAATCGCA
15688088 TTGCGATTCT
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
19 24 0.33
20 49 0.67
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:15688500 original size:22 final size:22
Alignment explanation
Indices: 15688473--15688515 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15688463 GAGATAGACA
15688473 GATTTCGCCGGAGATGGGGACT
1 GATTTCGCCGGAGATGGGGACT
*
15688495 GATTTCGTCGGAGATGGGGAC
1 GATTTCGCCGGAGATGGGGAC
15688516 GGATGTCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.16, G:0.42, T:0.23
Consensus pattern (22 bp):
GATTTCGCCGGAGATGGGGACT
Found at i:15688703 original size:20 final size:20
Alignment explanation
Indices: 15688678--15688766 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
15688668 TTGAAAATCA
*
15688678 CATTGCGGTAGTCAGCATCG
1 CATTGCGATAGTCAGCATCG
15688698 CATTGCGATAGTCAGCATCG
1 CATTGCGATAGTCAGCATCG
* *
15688718 CGTTGCGATAGTCAGAATCG
1 CATTGCGATAGTCAGCATCG
* ** *
15688738 CGTTGCGATAGTCATAATCA
1 CATTGCGATAGTCAGCATCG
15688758 CATTGCGAT
1 CATTGCGAT
15688767 TTACATATTC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (20 bp):
CATTGCGATAGTCAGCATCG
Found at i:15688773 original size:20 final size:20
Alignment explanation
Indices: 15688758--15688843 Score: 154
Period size: 20 Copynumber: 4.3 Consensus size: 20
15688748 GTCATAATCA
15688758 CATTGCGATTTACATATTCG
1 CATTGCGATTTACATATTCG
15688778 CATTGCGATTTACATATTCG
1 CATTGCGATTTACATATTCG
* *
15688798 CAGTGTGATTTACATATTCG
1 CATTGCGATTTACATATTCG
15688818 CATTGCGATTTACATATTCG
1 CATTGCGATTTACATATTCG
15688838 CATTGC
1 CATTGC
15688844 AAATTCAGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (20 bp):
CATTGCGATTTACATATTCG
Found at i:15688784 original size:40 final size:40
Alignment explanation
Indices: 15688695--15688843 Score: 124
Period size: 40 Copynumber: 3.7 Consensus size: 40
15688685 GTAGTCAGCA
** * * * *
15688695 TCGCATTGCGATAGTCAGCATCGCGTTGCGATAGT-CAGAA
1 TCGCATTGCGATAGTCATAATCGCATTGCGAT-TTACATAT
* *
15688735 TCGCGTTGCGATAGTCATAATCACATTGCGATTTACATAT
1 TCGCATTGCGATAGTCATAATCGCATTGCGATTTACATAT
* * * *
15688775 TCGCATTGCGAT-TTACATATTCGCAGTGTGATTTACATAT
1 TCGCATTGCGATAGT-CATAATCGCATTGCGATTTACATAT
* *
15688815 TCGCATTGCGAT-TTACATATTCGCATTGC
1 TCGCATTGCGATAGT-CATAATCGCATTGC
15688844 AAATTCAGAA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.02
40 89 0.98
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (40 bp):
TCGCATTGCGATAGTCATAATCGCATTGCGATTTACATAT
Found at i:15688784 original size:60 final size:60
Alignment explanation
Indices: 15688715--15688843 Score: 138
Period size: 60 Copynumber: 2.1 Consensus size: 60
15688705 ATAGTCAGCA
*
15688715 TCGCGTTGCGATAGT-CAGAATCGC-GTTGCGATAGT-CATAATCACATTGCGATTTACATAT
1 TCGCATTGCGAT-GTACAGAATCGCAG-TGCGAT-GTACATAATCACATTGCGATTTACATAT
* * * * * * *
15688775 TCGCATTGCGATTTACATATTCGCAGTGTGATTTACATATTCGCATTGCGATTTACATAT
1 TCGCATTGCGATGTACAGAATCGCAGTGCGATGTACATAATCACATTGCGATTTACATAT
15688835 TCGCATTGC
1 TCGCATTGC
15688844 AAATTCAGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 2 0.03
60 55 0.95
61 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (60 bp):
TCGCATTGCGATGTACAGAATCGCAGTGCGATGTACATAATCACATTGCGATTTACATAT
Found at i:15690218 original size:2 final size:2
Alignment explanation
Indices: 15690211--15690236 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15690201 AACAAAAAGG
15690211 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
15690237 CAATGGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15690585 original size:39 final size:39
Alignment explanation
Indices: 15690519--15690619 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
15690509 ACAGAGCATA
* *
15690519 AGGA-CCTACGGTAAGGACTTACCCTGAGCACTAAGTCG
1 AGGAGCCTACGGTAAGGACTTACACTGAGCACAAAGTCG
*
15690557 AGGAGCCTGCGGTAAGGACTTACACTGAGCACAAAGTCG
1 AGGAGCCTACGGTAAGGACTTACACTGAGCACAAAGTCG
* ** *
15690596 AGGAGCTTTTGGTAAGGTCTTACA
1 AGGAGCCTACGGTAAGGACTTACA
15690620 AGTCATATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 4 0.07
39 51 0.93
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (39 bp):
AGGAGCCTACGGTAAGGACTTACACTGAGCACAAAGTCG
Found at i:15702594 original size:36 final size:36
Alignment explanation
Indices: 15702547--15702619 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
15702537 TTGCAGCTAG
* *
15702547 AGTGTATGGATACCCTACA-GGGTGTATCAATACACT
1 AGTGTATGGATACACT-CATAGGTGTATCAATACACT
*
15702583 AGTGTATGGATACACTCATAGGTGTATCAGTACACT
1 AGTGTATGGATACACTCATAGGTGTATCAATACACT
15702619 A
1 A
15702620 TTTGCATTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (36 bp):
AGTGTATGGATACACTCATAGGTGTATCAATACACT
Found at i:15702689 original size:20 final size:17
Alignment explanation
Indices: 15702646--15702677 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15702636 GAGCAGTCAT
15702646 AGGTGTATGGATACACC
1 AGGTGTATGGATACACC
15702663 A-GTGTATGGATACAC
1 AGGTGTATGGATACAC
15702678 TGCAAGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 14 0.93
17 1 0.07
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (17 bp):
AGGTGTATGGATACACC
Found at i:15704057 original size:48 final size:48
Alignment explanation
Indices: 15703971--15704063 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
15703961 AAAATCAAAA
* *
15703971 CATAATCTAGGTCAAGTATCAGATCAAAATTCAGGTCAAGTATCAGAT
1 CATAATCTAGGTCAAATATCAGATCAAAATCCAGGTCAAGTATCAGAT
* * *
15704019 CATAATCTATGTCAAATATCATAT-AAGAATCCATGTCAAGTATCA
1 CATAATCTAGGTCAAATATCAGATCAA-AATCCAGGTCAAGTATCA
15704064 TATTAGAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.05
48 37 0.95
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (48 bp):
CATAATCTAGGTCAAATATCAGATCAAAATCCAGGTCAAGTATCAGAT
Found at i:15704064 original size:24 final size:24
Alignment explanation
Indices: 15703981--15704072 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 24
15703971 CATAATCTAG
* *
15703981 GTCAAGTATCAGATCAA-AATTCAG
1 GTCAAGTATCAGAT-AAGAATCCAT
* * *
15704005 GTCAAGTATCAGATCATAATCTAT
1 GTCAAGTATCAGATAAGAATCCAT
* *
15704029 GTCAAATATCATATAAGAATCCAT
1 GTCAAGTATCAGATAAGAATCCAT
* *
15704053 GTCAAGTATCATATTAGAAT
1 GTCAAGTATCAGATAAGAAT
15704073 TCAAATATGA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 1 0.02
24 55 0.98
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
GTCAAGTATCAGATAAGAATCCAT
Found at i:15711701 original size:23 final size:24
Alignment explanation
Indices: 15711675--15711726 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
15711665 TTTTTTGAAA
*
15711675 TTTTGGCTTTTTTGTT-TTTATTTT
1 TTTTGCCTTTTTT-TTGTTTATTTT
15711699 TTTTGCCTTTTTTTTGTTT-TTTT
1 TTTTGCCTTTTTTTTGTTTATTTT
15711722 TTTTG
1 TTTTG
15711727 AAAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.02, C:0.06, G:0.12, T:0.81
Consensus pattern (24 bp):
TTTTGCCTTTTTTTTGTTTATTTT
Done.