Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1594
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: 184112
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:6637 original size:5 final size:5
Alignment explanation
Indices: 6614--6700 Score: 67
Period size: 5 Copynumber: 17.8 Consensus size: 5
6604 GCGTCCTCCG
* *
6614 CAAAA AAAAA C-AAA C-AAA CAAAA CAAAA CAAAA AAAGAGA CAAAA -AAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAA-A-A CAAAA CAAAA
* * *
6663 C-AAA CAAAA GAAAA GAAAA -AAAA CAAAAA AAAAA CAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA C-AAAA CAAAA CAAA
6701 CGAACAAACA
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
4 20 0.29
5 39 0.57
6 6 0.09
7 3 0.04
ACGTcount: A:0.83, C:0.13, G:0.05, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:6656 original size:22 final size:20
Alignment explanation
Indices: 6630--6700 Score: 79
Period size: 22 Copynumber: 3.3 Consensus size: 20
6620 AAAACAAACA
6630 AACAAAACAAAACAAAAAAAG
1 AACAAAA-AAAACAAAAAAAG
6651 AGACAAAAAAAACAAACAAAAG
1 A-ACAAAAAAAACAAA-AAAAG
* *
6673 AAAAGAAAAAAAACAAAAAAAA
1 --AACAAAAAAAACAAAAAAAG
6695 AACAAA
1 AACAAA
6701 CGAACAAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
20 5 0.12
21 9 0.21
22 15 0.35
23 13 0.30
24 1 0.02
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (20 bp):
AACAAAAAAAACAAAAAAAG
Found at i:6671 original size:35 final size:35
Alignment explanation
Indices: 6617--6718 Score: 120
Period size: 35 Copynumber: 2.9 Consensus size: 35
6607 TCCTCCGCAA
*
6617 AAAAAAACAAACAAACAAAACAAAACAAAAAAAGAG
1 AAAAAAA-AAACAAACAAAACAAAACAAAAAAAGAC
* * *
6653 ACAAAAAAAACAAACAAAAGAAAAGAAAAAAA-AC
1 AAAAAAAAAACAAACAAAACAAAACAAAAAAAGAC
*
6687 AAAAAAAAAACAAAC-GAAC-AAACAACAAAAAG
1 AAAAAAAAAACAAACAAAACAAAACAA-AAAAAG
6719 GGTCCGGATG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
32 5 0.09
33 7 0.12
34 15 0.27
35 23 0.41
36 6 0.11
ACGTcount: A:0.80, C:0.14, G:0.06, T:0.00
Consensus pattern (35 bp):
AAAAAAAAAACAAACAAAACAAAACAAAAAAAGAC
Found at i:8183 original size:30 final size:30
Alignment explanation
Indices: 8142--8581 Score: 493
Period size: 30 Copynumber: 15.1 Consensus size: 30
8132 ATTCCTCACC
*
8142 TTTCAAAAGCCCACAAGTTAGTGGCACCCTT
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCTT
* * *
8173 TTTCAAAGCCCACAAGTTAGCGGCA-TCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
8202 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
* *
8232 TTTCAAAGCCCACAAGTTAGTGGCA-TCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
*
8261 TTTCAAAGCCCACAAGTCAGTGGCAACC--
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
* *
8289 -ATCAAAGCCCACAAATCAGTGGCACCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
* *
8318 TTTCAAAGCCCACAAGTTAGTGGCAACC--
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
*
8346 -TTCAAAGCCCACAAATCAGTGGCA-CCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
*
8374 TTTCCAAAGCCCACAAGTCAGTGGCAACC--
1 TTT-CAAAGCCCACAAGTCAGTGGCACCCTT
*
8403 -TTCGAAAGCCCACAAGTTAGTGGCACCCTT
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCTT
*
8433 TTTCAAAGCCCACAAGTCAGTGGCAACC--
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
8461 -TTCAAAAGCCCACAAGTCAGTGGCACCCTT
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCTT
* *
8491 TTTCGAAGCCCACAAGTCAGTGGCA-TCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * *
8520 TTTCAAAGCCCACAAGCCAGCGGCAACC-T
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
8549 TCT-AAAGTCCACAACTCCGTGGCACCTTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTT
8578 TTTC
1 TTTC
8582 TTTTTAAAGC
Statistics
Matches: 349, Mismatches: 39, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
26 2 0.01
27 50 0.14
28 64 0.18
29 86 0.25
30 135 0.39
31 12 0.03
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (30 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:8212 original size:59 final size:57
Alignment explanation
Indices: 8142--8549 Score: 516
Period size: 59 Copynumber: 7.0 Consensus size: 57
8132 ATTCCTCACC
* * * * *
8142 TTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTTCAAAGCCCACAAGTTAGCGGCA-TCTT
1 TTTC-AAAGCCCACAAGTCAGTGGCAACC---TTCAAAGCCCACAAGTCAGTGGCACCCTT
* * *
8202 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTTAGTGGCA-TCTT
1 TTTCAAAGCCCACAAGTCAGTGGCAACC---TTCAAAGCCCACAAGTCAGTGGCACCCTT
* *
8261 TTTCAAAGCCCACAAGTCAGTGGCAACCATCAAAGCCCACAAATCAGTGGCACCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTT
* *
8318 TTTCAAAGCCCACAAGTTAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCA-CCTT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTT
*
8374 TTTCCAAAGCCCACAAGTCAGTGGCAACCTTCGAAAGCCCACAAGTTAGTGGCACCCTT
1 TTT-CAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGTCAGTGGCACCCTT
8433 TTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAAGTCAGTGGCACCCTT
* * * * * *
8491 TTTCGAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGCCAGCGGCAACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAGCCCACAAGTCAGTGGCACCCTT
8550 CTAAAGTCCA
Statistics
Matches: 322, Mismatches: 20, Indels: 13
0.91 0.06 0.04
Matches are distributed among these distances:
56 28 0.09
57 80 0.25
58 97 0.30
59 110 0.34
60 7 0.02
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (57 bp):
TTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:8439 original size:145 final size:143
Alignment explanation
Indices: 8142--8581 Score: 514
Period size: 145 Copynumber: 3.0 Consensus size: 143
8132 ATTCCTCACC
* * * *
8142 TTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTTCAAAGCCCACAAGTTAGCGGCATCTTTTTCA
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTTAGTGGCAAC--CTTCA
* * *
8207 AAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAGCCC
63 AAGCCCACAAGTCAGTGGCA-CCTTTTTCAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAGCCC
*
8272 ACAAGTCAGTGGCAACC--
125 ACAAGTCAGTGGCACCCTT
* *
8289 -ATCAAAGCCCACAAATCAGTGGCACCCTTTTTCAAAGCCCACAAGTTAGTGGCAACCTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTTAGTGGCAACCTTCAAAG
*
8353 CCCACAAATCAGTGGCACCTTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCGAAAGCCCACAA
66 CCCACAAGTCAGTGGCACCTTTTT-CAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCACAA
*
8418 GTTAGTGGCACCCTT
129 GTCAGTGGCACCCTT
* * *
8433 TTTCAAAGCCCACAAGTCAGTGGCAACC---TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTTC-AAAGCCCACAAGTTAGTGGCAACC---TTC
* * * * *
8495 GAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGCCAGCGGCAACCTTCTAAAGTCCA
62 AAAGCCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTC-AAAGCCCA
* * *
8560 CAACTCCGTGGCACCTTT
126 CAAGTCAGTGGCACCCTT
8578 TTTC
1 TTTC
8582 TTTTTAAAGC
Statistics
Matches: 256, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
141 3 0.01
142 32 0.12
143 67 0.26
145 124 0.48
146 30 0.12
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (143 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTTAGTGGCAACCTTCAAAG
CCCACAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGT
CAGTGGCACCCTT
Found at i:8738 original size:34 final size:35
Alignment explanation
Indices: 8546--8786 Score: 269
Period size: 34 Copynumber: 7.0 Consensus size: 35
8536 CCAGCGGCAA
* * *
8546 CCTTCTAAAGTCCACAACTCCGTGGCAC-CTTTTTT
1 CCTTTTAAAGCCCACAACTCTGTGGCACTC-TTTTT
*
8581 CTTTTTAAAGCCCACAACTCTGTGGCACTC-TTTT
1 CCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
* * *
8615 CCTTCT-AAGTCCACAACTCCGTGGCA-TCTTTCTT
1 CCTTTTAAAGCCCACAACTCTGTGGCACTCTTT-TT
* * *
8649 CTTTTTAAAGCCTACAACTCTGTGGCGCTCTTTTT
1 CCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
8684 CCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 CC-TTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
* **
8720 CCTTTT-AACCCCACAACTCCATGGCACTCTTTTT
1 CCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
* * *
8754 CCTTTT-AAGTCCACAACTCTGTGACACCCTTTT
1 CCTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
8787 AAGCCCACAA
Statistics
Matches: 174, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
32 2 0.01
33 20 0.11
34 66 0.38
35 47 0.27
36 39 0.22
ACGTcount: A:0.20, C:0.32, G:0.11, T:0.37
Consensus pattern (35 bp):
CCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
Found at i:8770 original size:104 final size:103
Alignment explanation
Indices: 8546--8786 Score: 326
Period size: 104 Copynumber: 2.3 Consensus size: 103
8536 CCAGCGGCAA
* * *
8546 CCTTCTAAAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTC
1 CCTTTTAAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCACTC
** *
8611 TTTTCCTTCTAAGTCCACAACTCCGTGGCATCTTTCTT
66 TTTTCCTTCTAACCCCACAACTCCATGGCATCTTTCTT
* *
8649 CTTTTTAAAG-CCTACAACTCTGTGGCGCTCTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCAC
1 CCTTTTAAAGTCC-ACAACTCTGTGGCAC-CTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCAC
*
8713 TCTTTTTCCTTTTAACCCCACAACTCCATGGCACTCTTT-TT
64 TC-TTTTCCTTCTAACCCCACAACTCCATGGCA-TCTTTCTT
* *
8754 CCTTTT-AAGTCCACAACTCTGTGACACCCTTTT
1 CCTTTTAAAGTCCACAACTCTGTGGCACCTTTTT
8787 AAGCCCACAA
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
102 2 0.02
103 26 0.22
104 52 0.43
105 35 0.29
106 5 0.04
ACGTcount: A:0.20, C:0.32, G:0.11, T:0.37
Consensus pattern (103 bp):
CCTTTTAAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCACTC
TTTTCCTTCTAACCCCACAACTCCATGGCATCTTTCTT
Found at i:8833 original size:29 final size:27
Alignment explanation
Indices: 8754--8840 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
8744 CACTCTTTTT
* * * *
8754 CCTTTTAAGTCCACAACTCTGTGACAC
1 CCTTTTAAGCCCACAAGTCAGTGGCAC
**
8781 CCTTTTAAGCCCACAAGTTGGTGGCAC
1 CCTTTTAAGCCCACAAGTCAGTGGCAC
8808 CCTTTTCAAAGCCCACAAGTCAGTGGCAAC
1 CCTTTT--AAGCCCACAAGTCAGTGGC-AC
8838 CCT
1 CCT
8841 CAAAAGCACA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 28 0.56
29 17 0.34
30 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (27 bp):
CCTTTTAAGCCCACAAGTCAGTGGCAC
Found at i:9019 original size:43 final size:43
Alignment explanation
Indices: 8958--9373 Score: 301
Period size: 43 Copynumber: 8.9 Consensus size: 43
8948 TCTTTAAAAC
* *
8958 CCAATATCGCTTGCCTTGAATCAGCATATTGACACCTTGAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGAAGT
* *
9001 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGAAGT
* *
9044 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG--------AAGT
* * *
9096 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGAAGT
*
9139 CCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTGTCATCTTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---------AAGT
* * * * *
9192 CTAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--CTTGAAGT
* * *
9241 CCAATATCGCTGGCCTTGAATCAGAATATTGGCGCCTTTGTCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG--------AAGT
* * * * * *
9293 CCAATGTCGTTGGCCTTGAATTAGCACATTGGCAACTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGAAGT
*
9336 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
9374 CGTCATCTTT
Statistics
Matches: 293, Mismatches: 46, Indels: 68
0.72 0.11 0.17
Matches are distributed among these distances:
43 145 0.49
44 6 0.02
45 1 0.00
49 32 0.11
51 4 0.01
52 68 0.23
53 33 0.11
57 1 0.00
58 2 0.01
59 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGAAGT
Found at i:9114 original size:52 final size:52
Alignment explanation
Indices: 9036--9480 Score: 421
Period size: 52 Copynumber: 8.9 Consensus size: 52
9026 ACATTGGCAC
* * *
9036 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
*
9088 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-------C--
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* * *
9131 CTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* *
9183 CTTTTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCACC--T-TCAT
1 C-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* * * *
9233 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGAATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* * *
9285 CTTTAAGACCAATGTCGTTGGCCTTGAATTAGCACATTGGCA--------A-
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* * * *
9328 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
** * * * *
9380 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACGTTGGCA-TTCTTCTCAT
1 CTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTGTCAT
* * * * *
9433 CTTCAAGTCTAATGTCGCTGACCATGAATCAGCACATTGACATCCTTT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
9481 TTCTCATCTT
Statistics
Matches: 315, Mismatches: 52, Indels: 51
0.75 0.12 0.12
Matches are distributed among these distances:
43 74 0.23
44 1 0.00
45 1 0.00
49 37 0.12
50 6 0.02
51 3 0.01
52 113 0.36
53 79 0.25
54 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (52 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
Found at i:9114 original size:95 final size:95
Alignment explanation
Indices: 9001--9422 Score: 628
Period size: 95 Copynumber: 4.4 Consensus size: 95
8991 ACCTTGAAGT
* *
9001 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
9066 AGCATATTGGCACCTTTGTCATCTTTAAGA
66 AGCATATTGGCACCTTTGTCATCTTTAAGA
*
9096 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCTTTGAATC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
*
9161 AGCATATTGGCACCTTTGTCATCTTTTAAGT
66 AGCATATTGGCACCTTTGTCATC-TTTAAGA
* *
9192 CTAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCT
* *
9257 TGAATCAGAATATTGGCGCCTTTGTCATCTTTAAGA
60 TGAATCAGCATATTGGCACCTTTGTCATCTTTAAGA
* * * *
9293 CCAATGTCGTTGGCCTTGAATTAGCACATTGGCAACTTTAAGTCTAATATCGCTGGCCTTGAATC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
* *
9358 AGCATATTGGCACCTTCGTCATCTTTAAAA
66 AGCATATTGGCACCTTTGTCATCTTTAAGA
* *
9388 CCCAATGTCGTTGGCCTTGAATCAGCACGTTGGCA
1 -CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
9423 TTCTTCTCAT
Statistics
Matches: 297, Mismatches: 22, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
95 140 0.47
96 70 0.24
100 1 0.00
101 36 0.12
102 50 0.17
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (95 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
AGCATATTGGCACCTTTGTCATCTTTAAGA
Found at i:9212 original size:53 final size:52
Alignment explanation
Indices: 9131--9480 Score: 330
Period size: 53 Copynumber: 6.9 Consensus size: 52
9121 ACATTGGCAC
* * *
9131 CTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* *
9183 CTTTTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCACC--T-TCAT
1 C-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* * * *
9233 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGAATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* * *
9285 CTTTAAGACCAATGTCGTTGGCCTTGAATTAGCACATTGGCA--------A-
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
* * * *
9328 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
** * * * *
9380 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACGTTGGCA-TTCTTCTCAT
1 CTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTGTCAT
* * * * *
9433 CTTCAAGTCTAATGTCGCTGACCATGAATCAGCACATTGACATCCTTT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
9481 TTCTCATCTT
Statistics
Matches: 237, Mismatches: 44, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
43 36 0.15
44 1 0.00
49 37 0.16
50 5 0.02
51 3 0.01
52 75 0.32
53 79 0.33
54 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
Found at i:9262 original size:197 final size:196
Alignment explanation
Indices: 9001--9480 Score: 646
Period size: 197 Copynumber: 2.4 Consensus size: 196
8991 ACCTTGAAGT
* * *
9001 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATCGTTGGCCTT
1 CCAATGTCACTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCGCTGGCCTT
9061 GAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
66 GAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
* * * * *
9126 GGCACCTTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTGTCATCTTTTAAG
131 GGCAACTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
*
9191 T
196 C
*
9192 CTAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCT
1 CCAATGTCACTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATCGCTGGCCT
* * * *
9257 TGAATCAGAATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCGTTGGCCTTGAATTAGCACAT
65 TGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
*
9322 TGGCAACTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAA
130 TGGCAACTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAA
9387 AC
195 AC
** * * * * *
9389 CCAATGTCGTTGGCCTTGAATCAGCACGTTGGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGA
1 CCAATGTCACTGGCCTTGAATCAGCACATTGGCA--C-T-TCATCTTTAAGTCCAATATCGCTGG
* * *
9454 CCATGAATCAGCACATTGACATCCTTT
62 CCTTGAATCAGCATATTGGCA-CCTTT
9481 TTCTCATCTT
Statistics
Matches: 250, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
191 31 0.12
195 1 0.00
197 174 0.70
198 1 0.00
199 1 0.00
200 37 0.15
201 5 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (196 bp):
CCAATGTCACTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
GGCAACTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
C
Found at i:10190 original size:13 final size:13
Alignment explanation
Indices: 10172--10196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10162 TTCAACAATT
10172 TGTATCGATACAA
1 TGTATCGATACAA
10185 TGTATCGATACA
1 TGTATCGATACA
10197 TAAGTTTTGT
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:10286 original size:13 final size:13
Alignment explanation
Indices: 10268--10292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10258 ATTACTCAAA
10268 TGTATCGATACAT
1 TGTATCGATACAT
10281 TGTATCGATACA
1 TGTATCGATACA
10293 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:10345 original size:52 final size:52
Alignment explanation
Indices: 10301--10481 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
10291 CACTGATCTT
*
10301 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATGAAA
10353 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATGAAA
* * * *
10405 TGTATCGATACATACAGGCAAATTTGCCTAGATGGATCGATACATTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATGAAA
10457 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
10482 TCATATTTCG
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 123 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATGAAA
Found at i:12637 original size:24 final size:26
Alignment explanation
Indices: 12610--12660 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
12600 ACCAAAATTT
12610 TATTCAT-T-GGGGACACTCCAACCC
1 TATTCATCTAGGGGACACTCCAACCC
*
12634 TATTCCTCTAAGGGGACACTCCAACCC
1 TATTCATCT-AGGGGACACTCCAACCC
12661 CGTTTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 1 0.04
27 16 0.70
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (26 bp):
TATTCATCTAGGGGACACTCCAACCC
Found at i:19382 original size:13 final size:13
Alignment explanation
Indices: 19364--19389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19354 ACACCAAAGT
19364 ATGTATCGATACA
1 ATGTATCGATACA
19377 ATGTATCGATACA
1 ATGTATCGATACA
19390 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:19405 original size:33 final size:33
Alignment explanation
Indices: 19345--19409 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
19335 TAGCCAAACT
* * *
19345 TGTATCGATACACCAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGCATCGATACAA
19378 TGTATCGATACACAAAAA-ATTGCATCGATACA
1 TGTATCGATACACAAAAATA-TGCATCGATACA
19410 TTGACATGTA
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):
TGTATCGATACACAAAAATATGCATCGATACAA
Found at i:22080 original size:20 final size:20
Alignment explanation
Indices: 22035--22086 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
22025 GTAGCCAAAC
*
22035 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACCAAATA
22055 -TGTATCGATACA-CAAATAA
1 TTGTATCGATACACCAAAT-A
22074 TTGTATCGATACA
1 TTGTATCGATACA
22087 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 12 0.41
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACACCAAATA
Found at i:24321 original size:21 final size:21
Alignment explanation
Indices: 24288--24332 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24278 TTGCAAGATG
*
24288 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
24310 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
24330 AAA
1 AAA
24333 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:26155 original size:15 final size:15
Alignment explanation
Indices: 26135--26165 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26125 TAAAAATGTC
*
26135 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
26150 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
26165 C
1 C
26166 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:28264 original size:13 final size:13
Alignment explanation
Indices: 28246--28271 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28236 ACATTTTTCC
28246 TTGTATCGATACA
1 TTGTATCGATACA
28259 TTGTATCGATACA
1 TTGTATCGATACA
28272 GGGTGATTAT
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:28435 original size:20 final size:20
Alignment explanation
Indices: 28392--28437 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
28382 AAATCTTTTG
28392 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
28413 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
28433 CAAAA
1 CAAAA
28438 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:30501 original size:13 final size:13
Alignment explanation
Indices: 30483--30508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30473 CAATTTTTTG
30483 TGTATCGATACAT
1 TGTATCGATACAT
30496 TGTATCGATACAT
1 TGTATCGATACAT
30509 ACTTGGTGTA
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:30523 original size:32 final size:33
Alignment explanation
Indices: 30463--30526 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
30453 TACAAGCCAA
** *
30463 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
30496 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
30527 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:31280 original size:21 final size:21
Alignment explanation
Indices: 31217--31280 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 21
31207 CTCCCCTTTA
* *
31217 TCTCCCCCGTTTATTAA-TAAT
1 TCTCCCCC-TTAATCAAGTAAT
31238 TCTCCCCCTTAATCAAGT-AT
1 TCTCCCCCTTAATCAAGTAAT
31258 TCTCCCCCTTAATCAAGTAAT
1 TCTCCCCCTTAATCAAGTAAT
31279 TC
1 TC
31281 ATATAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 26 0.67
21 13 0.33
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (21 bp):
TCTCCCCCTTAATCAAGTAAT
Found at i:33099 original size:13 final size:13
Alignment explanation
Indices: 33081--33106 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33071 ATAATCACCC
33081 TGTATCGATACAA
1 TGTATCGATACAA
33094 TGTATCGATACAA
1 TGTATCGATACAA
33107 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:35206 original size:15 final size:15
Alignment explanation
Indices: 35186--35216 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35176 ATTTCGTTTG
*
35186 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
35201 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
35216 G
1 G
35217 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:37049 original size:21 final size:21
Alignment explanation
Indices: 37020--37064 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37010 AAGTTTTCAT
*
37020 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
37040 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
37062 TTT
1 TTT
37065 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:39303 original size:13 final size:13
Alignment explanation
Indices: 39285--39310 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39275 CAATTTTTTG
39285 TGTATCGATACAT
1 TGTATCGATACAT
39298 TGTATCGATACAT
1 TGTATCGATACAT
39311 ACTTGGTGTA
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:39325 original size:32 final size:33
Alignment explanation
Indices: 39265--39328 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
39255 TACAAGCCAA
** *
39265 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
39298 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
39329 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:40082 original size:21 final size:21
Alignment explanation
Indices: 40019--40082 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 21
40009 CTCCCCTTTA
* *
40019 TCTCCCCCGTTTATTAA-TAAT
1 TCTCCCCC-TTAATCAAGTAAT
40040 TCTCCCCCTTAATCAAGT-AT
1 TCTCCCCCTTAATCAAGTAAT
40060 TCTCCCCCTTAATCAAGTAAT
1 TCTCCCCCTTAATCAAGTAAT
40081 TC
1 TC
40083 ATATAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 26 0.67
21 13 0.33
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (21 bp):
TCTCCCCCTTAATCAAGTAAT
Found at i:41043 original size:21 final size:21
Alignment explanation
Indices: 41002--41045 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
40992 CTCCCCTTTA
* *
41002 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
41023 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
41044 TC
1 TC
41046 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:41795 original size:13 final size:13
Alignment explanation
Indices: 41777--41802 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41767 TACACCAAGT
41777 ATGTATCGATACA
1 ATGTATCGATACA
41790 ATGTATCGATACA
1 ATGTATCGATACA
41803 TAAAAAATTG
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:43209 original size:41 final size:41
Alignment explanation
Indices: 43149--43613 Score: 283
Period size: 41 Copynumber: 11.2 Consensus size: 41
43139 GCCTCTTTTA
43149 GGCTTTATCAGTTTTGTCCTAGCCAACCTTTCTAA-TTAATT
1 GGCTTTATCAGTTTTGTCCTAGCCAACCTTTCTAACTT-ATT
* *
43190 GGCTTTATCAGTTTCGTCCTAGCCAACCTCTT-TAACTTGTT
1 GGCTTTATCAGTTTTGTCCTAGCCAACCT-TTCTAACTTATT
* * * * *
43231 AGCTTTATCTA-TTTTGCCCTGGCTAACCCCTCAACCTTTCTACCTTGTT
1 GGCTTTATC-AGTTTTG---T-CCT-A--GC-CAACCTTTCTAACTTATT
* * * *
43280 GGCTTTATCAGTTTT-ACCTTGTCCAACCTCTCTAACTTGTT
1 GGCTTTATCAGTTTTGTCCTAG-CCAACCTTTCTAACTTATT
* * * *
43321 GGCTTTATCAGTTTTG-CCTCGGCCAACCCTACTAACCTATT
1 GGCTTTATCAGTTTTGTCCT-AGCCAACCTTTCTAACTTATT
* * * * *
43362 GGTTTTAACAGTTTCGCCCTAGCCAACCATTT-TAACCTATT
1 GGCTTTATCAGTTTTGTCCTAGCCAACC-TTTCTAACTTATT
* * *
43403 GACTTTATCAGTTTTG-CATTGGCCAACC-TTCTAACTTATT
1 GGCTTTATCAGTTTTGTC-CTAGCCAACCTTTCTAACTTATT
* *
43443 GGCTTTATCAGTTTTGGCCTAGCCAACCTCTCTAAC-TAGTT
1 GGCTTTATCAGTTTTGTCCTAGCCAACCTTTCTAACTTA-TT
** * * *
43484 GGCTTTATTGGTTTTG-CCTTGTCTAACCCTTT-TAACTTGTT
1 GGCTTTATCAGTTTTGTCCTAG-CCAA-CCTTTCTAACTTATT
** * * ** *
43525 GATTTTATCAATTTTG-CCTTGGCCAACCCCTCTAA-TTGTT
1 GGCTTTATCAGTTTTGTCC-TAGCCAACCTTTCTAACTTATT
* ** *
43565 GGCTTTATC-GATTTCGTCCTAGCCAACCCCTCTAACTTGTT
1 GGCTTTATCAG-TTTTGTCCTAGCCAACCTTTCTAACTTATT
43606 GGCTTTAT
1 GGCTTTAT
43614 TTTTTTTACC
Statistics
Matches: 336, Mismatches: 57, Indels: 62
0.74 0.13 0.14
Matches are distributed among these distances:
39 2 0.01
40 72 0.21
41 208 0.62
42 18 0.05
44 3 0.01
45 2 0.01
46 1 0.00
48 4 0.01
49 26 0.08
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (41 bp):
GGCTTTATCAGTTTTGTCCTAGCCAACCTTTCTAACTTATT
Found at i:43590 original size:40 final size:40
Alignment explanation
Indices: 43269--44099 Score: 259
Period size: 41 Copynumber: 20.5 Consensus size: 40
43259 CCTCAACCTT
* * * *
43269 TCTACCTTGTTGGCTTTATC-AGTTTTACCTTGTCCAACCTC
1 TCTAACTTGTTGGCTTTATCGA-TTTTGCCTAG-CCAACCCC
*
43310 TCTAACTTGTTGGCTTTATC-AGTTTTGCCTCGGCCAA-CCC
1 TCTAACTTGTTGGCTTTATCGA-TTTTGCCT-AGCCAACCCC
* * * * * **
43350 TACTAACCTATTGGTTTTAAC-AGTTTCGCCCTAGCCAACCAT
1 T-CTAACTTGTTGGCTTTATCGA-TTTTG-CCTAGCCAACCCC
* * * * * * *
43392 TTTAACCTATTGACTTTATC-AGTTTTGCATTGGCCAA-CCT
1 TCTAACTTGTTGGCTTTATCGA-TTTTGC-CTAGCCAACCCC
* *
43432 TCTAACTTATTGGCTTTATC-AGTTTTGGCCTAGCCAACCTC
1 TCTAACTTGTTGGCTTTATCGA-TTTT-GCCTAGCCAACCCC
* * * * * *
43473 TCTAACTAGTTGGCTTTATTGGTTTTGCCTTGTCTAACCCT
1 TCTAACTTGTTGGCTTTATCGATTTTGCCTAG-CCAACCCC
* ** * *
43514 TTTAACTTGTTGATTTTATCAATTTTGCCTTGGCCAACCCC
1 TCTAACTTGTTGGCTTTATCGATTTTGCC-TAGCCAACCCC
*
43555 TCTAA-TTGTTGGCTTTATCGATTTCGTCCTAGCCAACCCC
1 TCTAACTTGTTGGCTTTATCGATTTTG-CCTAGCCAACCCC
*** * * ** *
43595 TCTAACTTGTTGGCTTTATTTTTTTTACCCTGGTTAACCACA
1 TCTAACTTGTTGGCTTTATCGATTTT-GCCTAGCCAACC-CC
* ** * *
43637 T-TAACATGTTGGCTTTATCGATTTCACCTTGGCCAAGCCC
1 TCTAACTTGTTGGCTTTATCGATTTTGCC-TAGCCAACCCC
* * ** * * * *
43677 TCTAGCTTATTGG-TTTAAAGGTTTTGCTGTGGCCGA-CCC
1 TCTAACTTGTTGGCTTTATCGATTTTGC-CTAGCCAACCCC
* * * * ** *
43716 -CTAACTTGCTAGCTTTATTG-TTTTCACCTTAGTTAACCCT
1 TCTAACTTGTTGGCTTTATCGATTTT-GCC-TAGCCAACCCC
* * * * * * *
43756 TTTAACATGTAGACTTTATC-ATTTCGCCCT-GATC-ACCCT
1 TCTAACTTGTTGGCTTTATCGATTTTG-CCTAG-CCAACCCC
* * ** * * *
43795 TTTAA-TCTATTAACTTTATC-AGTTTTGCTTAAGTCTACCCC
1 TCTAACT-TGTTGGCTTTATCGA-TTTTGCCT-AGCCAACCCC
* * ** *
43836 TTTAACGTGTTGGCTTTATC-AGTTTCACCCTAGCCAACCCT
1 TCTAACTTGTTGGCTTTATCGA-TTT-TGCCTAGCCAACCCC
* * * *
43877 TCTAACTTATTGGTTTTATCGGTTTCAT-CGT-GCCAACCCC
1 TCTAACTTGTTGGCTTTATCGATTT--TGCCTAGCCAACCCC
* * * * * *
43917 TATAACTAGTTGACTTTATTGATTTTGCGCTAGTCAACCTC
1 TCTAACTTGTTGGCTTTATCGATTTTGC-CTAGCCAACCCC
* * *
43958 TTTAACATT-TTGGCTTTATCGATTTCGCCATGGCCAACCCC
1 TCTAAC-TTGTTGGCTTTATCGATTTTGCC-TAGCCAACCCC
* * ** * * *
43999 TTTAACTTGTTGGTTTTATTAATTTTTCCCTAACCAATCCC
1 TCTAACTTGTTGGCTTTATCGA-TTTTGCCTAGCCAACCCC
* *
44040 TCTAACTTGTTGGCTTTAT-TAGTTTTGCCCTAACCAACCCC
1 TCTAACTTGTTGGCTTTATCGA-TTTTG-CCTAGCCAACCCC
*
44081 TCTAACTTGTTGACTTTAT
1 TCTAACTTGTTGGCTTTAT
44100 TGGCTTCACC
Statistics
Matches: 586, Mismatches: 162, Indels: 84
0.70 0.19 0.10
Matches are distributed among these distances:
38 13 0.02
39 37 0.06
40 136 0.23
41 382 0.65
42 18 0.03
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.41
Consensus pattern (40 bp):
TCTAACTTGTTGGCTTTATCGATTTTGCCTAGCCAACCCC
Found at i:43633 original size:122 final size:123
Alignment explanation
Indices: 43151--44099 Score: 451
Period size: 122 Copynumber: 7.7 Consensus size: 123
43141 CTCTTTTAGG
* **
43151 CTTTATCAGTTTTGTCC-TAGCCAACCTTTCTAA-TTAATTGGCTTTATCAGTTTCGTCCTAGCC
1 CTTTATCAGTTTTG-CCTTGGCCAACCCCTCTAACTT-ATTGGCTTTATCAGTTTCGTCCTAGCC
* * * * *
43214 AACCTCTTTAACTTGTTAGCTTTATCTATTTTGCCCTGGCTAACCCCTCAACCTTTCTACCTTGT
64 AACCCCTCTAACTTGTTGGCTTTATCTGTTTTGCCCTGGCTAA-----C--CCTTT-TAACTTGT
*
43279 TGG
121 TGA
* * * * * *
43282 CTTTATCAGTTTTACCTTGTCCAACCTCTCTAACTTGTTGGCTTTATCAGTTTTG-CCTCGGCCA
1 CTTTATCAGTTTTGCCTTGGCCAACCCCTCTAACTTATTGGCTTTATCAGTTTCGTCCT-AGCCA
* * * * * * * * * * *
43346 A-CCCTACTAACCTATTGGTTTTAACAGTTTCGCCCTAGCCAACCATTTTAACCTATTGA
65 ACCCCT-CTAACTTGTTGGCTTTATCTGTTTTGCCCTGGCTAACCCTTTTAACTTGTTGA
* * * *
43405 CTTTATCAGTTTTGCATTGGCCAA-CCTTCTAACTTATTGGCTTTATCAGTTTTGGCCTAGCCAA
1 CTTTATCAGTTTTGCCTTGGCCAACCCCTCTAACTTATTGGCTTTATCAGTTTCGTCCTAGCCAA
* * * *
43469 CCTCTCTAACTAGTTGGCTTTAT-TGGTTTTGCCTTGTCTAACCCTTTTAACTTGTTGA
66 CCCCTCTAACTTGTTGGCTTTATCT-GTTTTGCCCTGGCTAACCCTTTTAACTTGTTGA
* * *
43527 TTTTATCAATTTTGCCTTGGCCAACCCCTCTAA-TTGTTGGCTTTATC-GATTTCGTCCTAGCCA
1 CTTTATCAGTTTTGCCTTGGCCAACCCCTCTAACTTATTGGCTTTATCAG-TTTCGTCCTAGCCA
* * * * * * *
43590 ACCCCTCTAACTTGTTGGCTTTATTTTTTTTACCCTGGTTAACCAC-ATTAACATGTTGG
65 ACCCCTCTAACTTGTTGGCTTTATCTGTTTTGCCCTGGCTAACC-CTTTTAACTTGTTGA
** * * * * * *
43649 CTTTATC-GATTTCACCTTGGCCAAGCCCTCTAGCTTATTGG-TTTA-AAGGTTTTG-CTGTGGC
1 CTTTATCAG-TTTTGCCTTGGCCAACCCCTCTAACTTATTGGCTTTATCA-GTTTCGTC-CTAGC
* * * * * * *
43710 CGA-CCC-CTAACTTGCTAGCTTTAT-TGTTTT-CACCTTAGTTAACCCTTTTAACATGTAGA
63 CAACCCCTCTAACTTGTTGGCTTTATCTGTTTTGC-CC-TGGCTAACCCTTTTAACTTGTTGA
* * ** * * ** * * *
43769 CTTTATCA-TTTCGCCCTGATC-ACCCTTTTAA-TCTATTAACTTTATCAGTTTTG-CTTAAGTC
1 CTTTATCAGTTTTGCCTTGGCCAACCCCTCTAACT-TATTGGCTTTATCAGTTTCGTCCT-AGCC
* * * * ** * * * * *
43830 TACCCCTTTAACGTGTTGGCTTTATCAGTTTCACCCTAGCCAACCCTTCTAACTTATTGG
64 AACCCCTCTAACTTGTTGGCTTTATCTGTTTTGCCCTGGCTAACCCTTTTAACTTGTTGA
* * * * * * * *
43890 TTTTATC-GGTTT-CATCGTGCCAACCCCTATAAC-TAGTTGACTTTAT-TGATTTTG-CGCTAG
1 CTTTATCAGTTTTGCCTTG-GCCAACCCCTCTAACTTA-TTGGCTTTATCAG-TTTCGTC-CTAG
* * * * * * * *
43950 TCAACCTCTTTAACATT-TTGGCTTTATC-GATTTCGCCATGGCCAACCCCTTTAACTTGTTGG
62 CCAACCCCTCTAAC-TTGTTGGCTTTATCTG-TTTTGCCCTGGCTAACCCTTTTAACTTGTTGA
* * * * * ** * * * * * *
44012 TTTTATTAATTTTTCCCTAACCAATCCCTCTAACTTGTTGGCTTTATTAGTTTTGCCCTAACCAA
1 CTTTATCAGTTTTGCCTTGGCCAACCCCTCTAACTTATTGGCTTTATCAGTTTCGTCCTAGCCAA
*
44077 CCCCTCTAACTTGTTGACTTTAT
66 CCCCTCTAACTTGTTGGCTTTAT
44100 TGGCTTCACC
Statistics
Matches: 625, Mismatches: 150, Indels: 94
0.72 0.17 0.11
Matches are distributed among these distances:
117 1 0.00
118 12 0.02
119 31 0.05
120 47 0.08
121 49 0.08
122 288 0.46
123 105 0.17
124 8 0.01
126 1 0.00
130 8 0.01
131 73 0.12
132 2 0.00
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (123 bp):
CTTTATCAGTTTTGCCTTGGCCAACCCCTCTAACTTATTGGCTTTATCAGTTTCGTCCTAGCCAA
CCCCTCTAACTTGTTGGCTTTATCTGTTTTGCCCTGGCTAACCCTTTTAACTTGTTGA
Found at i:44053 original size:82 final size:79
Alignment explanation
Indices: 43831--44058 Score: 213
Period size: 81 Copynumber: 2.8 Consensus size: 79
43821 GCTTAAGTCT
* * * * *
43831 ACCCCTTTAACGTGTTGGCTTTATCAGTTTCACCCTAGCCAACCCTTCTAACTTATTGGTTTTAT
1 ACCCCTTTAACTTGTTGGCTTTATTAATTTTACCCTAGCCAACCC-TCTAACTT-TTGGCTTTAT
* * *
43896 CGGTTTCATCGTGCCA
64 CGATTTCACCATGCCA
* * * * * * * *
43912 ACCCCTATAACTAGTTGACTTTATTGATTTTGCGCTAGTCAACCTCTTTAACATTTTGGCTTTAT
1 ACCCCTTTAACTTGTTGGCTTTATTAATTTTACCCTAGCCAACC-CTCTAAC-TTTTGGCTTTAT
*
43977 CGATTTCGCCATGGCCA
64 CGATTTCACCAT-GCCA
* * *
43994 ACCCCTTTAACTTGTTGGTTTTATTAATTTTTCCCTAACCAATCCCTCTAACTTGTTGGCTTTAT
1 ACCCCTTTAACTTGTTGGCTTTATTAATTTTACCCTAGCCAA-CCCTCTAACTT-TTGGCTTTAT
44059 TAGTTTTGCC
Statistics
Matches: 115, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
81 57 0.50
82 56 0.49
83 2 0.02
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (79 bp):
ACCCCTTTAACTTGTTGGCTTTATTAATTTTACCCTAGCCAACCCTCTAACTTTTGGCTTTATCG
ATTTCACCATGCCA
Found at i:44112 original size:41 final size:41
Alignment explanation
Indices: 43991--44112 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 41
43981 TTCGCCATGG
* ** ** **
43991 CCAACCCCTTTAACTTGTTGGTTTTATTAATTTTTCCCTAA
1 CCAACCCCTCTAACTTGTTGACTTTATTAGCTTCACCCTAA
* * * **
44032 CCAATCCCTCTAACTTGTTGGCTTTATTAGTTTTGCCCTAA
1 CCAACCCCTCTAACTTGTTGACTTTATTAGCTTCACCCTAA
*
44073 CCAACCCCTCTAACTTGTTGACTTTATTGGCTTCACCCTA
1 CCAACCCCTCTAACTTGTTGACTTTATTAGCTTCACCCTA
44113 GTTAACTTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.20, C:0.29, G:0.10, T:0.41
Consensus pattern (41 bp):
CCAACCCCTCTAACTTGTTGACTTTATTAGCTTCACCCTAA
Found at i:46216 original size:25 final size:25
Alignment explanation
Indices: 46172--46257 Score: 106
Period size: 24 Copynumber: 3.5 Consensus size: 25
46162 TATAATTAAA
* *
46172 TAAAAAAACTA-CTCACTTTTTACT
1 TAAAAAAATTATCTCACTTTTTATT
*
46196 TAAAAAAATTATC-CACATTTTATT
1 TAAAAAAATTATCTCACTTTTTATT
*
46220 TAGAAAAATT-TCTCACCTTTTTATT
1 TAAAAAAATTATCTCA-CTTTTTATT
46245 TAAAAAAATTATC
1 TAAAAAAATTATC
46258 AATCTTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.04
24 30 0.58
25 18 0.35
26 2 0.04
ACGTcount: A:0.43, C:0.15, G:0.01, T:0.41
Consensus pattern (25 bp):
TAAAAAAATTATCTCACTTTTTATT
Found at i:46264 original size:25 final size:24
Alignment explanation
Indices: 46172--46272 Score: 98
Period size: 24 Copynumber: 4.1 Consensus size: 24
46162 TATAATTAAA
* *
46172 TAAAAAAACTA-CTCACTTTTTACT
1 TAAAAAAATTATC-CACTTTTTATT
*
46196 TAAAAAAATTATCCACATTTTATT
1 TAAAAAAATTATCCACTTTTTATT
*
46220 TAGAAAAATT-TCTCACCTTTTTATT
1 TAAAAAAATTATC-CA-CTTTTTATT
*
46245 TAAAAAAATTATCAATCTTTTTAATT
1 TAAAAAAATTATCCA-CTTTTT-ATT
46271 TA
1 TA
46273 TTATTTATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
23 2 0.03
24 30 0.47
25 25 0.39
26 7 0.11
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.44
Consensus pattern (24 bp):
TAAAAAAATTATCCACTTTTTATT
Found at i:46265 original size:24 final size:25
Alignment explanation
Indices: 46189--46272 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
46179 ACTACTCACT
* *
46189 TTTTACTTAAAAAAATTATCCA-CA
1 TTTTATTTAAAAAAATTATCAATCA
* * * *
46213 TTTTATTTAGAAAAATT-TCTCACCT
1 TTTTATTTAAAAAAATTATC-AATCA
*
46238 TTTTATTTAAAAAAATTATCAATCT
1 TTTTATTTAAAAAAATTATCAATCA
46263 TTTTAATTTA
1 TTTT-ATTTA
46273 TTATTTATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.04
24 17 0.34
25 24 0.48
26 7 0.14
ACGTcount: A:0.39, C:0.12, G:0.01, T:0.48
Consensus pattern (25 bp):
TTTTATTTAAAAAAATTATCAATCA
Found at i:48958 original size:2 final size:2
Alignment explanation
Indices: 48953--48981 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48943 TACACACGCG
48953 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
48982 CTAATTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:61643 original size:13 final size:13
Alignment explanation
Indices: 61625--61650 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61615 ACACCAAAGT
61625 ATGTATCGATACA
1 ATGTATCGATACA
61638 ATGTATCGATACA
1 ATGTATCGATACA
61651 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:61648 original size:33 final size:33
Alignment explanation
Indices: 61606--61670 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
61596 TAGCCAAACT
* *
61606 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
61639 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
61671 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:68000 original size:20 final size:20
Alignment explanation
Indices: 67957--68002 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
67947 AAATCTTTTG
67957 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
67978 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
67998 CAAAA
1 CAAAA
68003 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:70423 original size:13 final size:13
Alignment explanation
Indices: 70405--70430 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70395 ACACCAAAGT
70405 ATGTATCGATACA
1 ATGTATCGATACA
70418 ATGTATCGATACA
1 ATGTATCGATACA
70431 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:74801 original size:28 final size:28
Alignment explanation
Indices: 74762--75664 Score: 866
Period size: 28 Copynumber: 32.5 Consensus size: 28
74752 CACCGACTTA
*
74762 TGTGTGCTTTGAAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
* *
74790 TGTGGGCTTTGAAATG-GTGCCACTAACT
1 TGTGGGCTTTGAAA-GAATGCCACTGACT
*
74818 TGTGGGCTTTG-AA-CATAGACCACTGACT
1 TGTGGGCTTTGAAAGAAT-G-CCACTGACT
*
74846 TGTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGAATGCCACTGACT
* * *
74875 TATGAGC---G--AG--TGTCACTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
** * *
74896 TGTGGGCTTTGAAAGGGTGCTAGTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
* * *
74924 TATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
* *
74952 TGTGGGCTTTGAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
* *
74980 TGTGGGCTTT-AAACGGATGCCACTTACT
1 TGTGGGCTTTGAAA-GAATGCCACTGACT
*
75008 TGTGGGCTTTGAAA-AGATGCCACTAACT
1 TGTGGGCTTTGAAAGA-ATGCCACTGACT
* *
75036 TGTGGGCTTT-AAACGGATGCCACTTACT
1 TGTGGGCTTTGAAA-GAATGCCACTGACT
*
75064 TGTCGGCTTTGGAAAG-ATGCCACTGACT
1 TGTGGGCTTT-GAAAGAATGCCACTGACT
* *
75092 TGTGGGCTTT-AAAAAAGTGCCACTAACT
1 TGTGGGCTTTGAAAGAA-TGCCACTGACT
* * ** *
75120 TATGGGCTTGGAAA-AGATGCCGTTAACT
1 TGTGGGCTTTGAAAGA-ATGCCACTGACT
* * *
75148 TGTGGGTTTTGAAAGAATGCCAGTAACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
* *
75176 TGTGGGCTTTGAAAGGATGCCACCGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
75204 TGTGGGCTTTG-AAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAGA-ATGCCACTGACT
* * *
75232 TCTGGGCTTTGAAA-AGGTGTCACTGACT
1 TGTGGGCTTTGAAAGA-ATGCCACTGACT
* * *
75260 TGTGGACTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
* *
75288 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
* *
75316 TATGGGCTTTG-AAGAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGA-ATGCCACTGACT
** *
75344 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
* * *
75372 TGTGGACTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
* *
75400 TGTAGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
75428 TGTGGGCTTTG-AAGAAGTGCCACTGACT
1 TGTGGGCTTTGAAAGAA-TGCCACTGACT
* **
75456 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
*
75484 TGTGGGCTTTG-AAGAAGTGCCACTAACT
1 TGTGGGCTTTGAAAGAA-TGCCACTGACT
*
75512 TGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGAATGCCACTGACT
*
75540 TGTGGGCTTTGAAA-AGATGCCACTAACT
1 TGTGGGCTTTGAAAGA-ATGCCACTGACT
*
75568 TGTGGACTTTGAAA-AGATGCCACTGACT
1 TGTGGGCTTTGAAAGA-ATGCCACTGACT
* *
75596 TGTGGACTTTG-AAGAGATGCCACTAACT
1 TGTGGGCTTTGAAAGA-ATGCCACTGACT
* * *
75624 TGTGGGTTTTGAAA-AGATGTCACTAACT
1 TGTGGGCTTTGAAAGA-ATGCCACTGACT
*
75652 TTTGGGCTTTGAA
1 TGTGGGCTTTGAA
75665 GAAATGAACG
Statistics
Matches: 745, Mismatches: 92, Indels: 76
0.82 0.10 0.08
Matches are distributed among these distances:
21 15 0.02
23 2 0.00
24 1 0.00
25 1 0.00
26 6 0.01
27 26 0.03
28 644 0.86
29 42 0.06
30 6 0.01
31 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGAATGCCACTGACT
Found at i:74989 original size:84 final size:84
Alignment explanation
Indices: 74730--75664 Score: 994
Period size: 84 Copynumber: 11.2 Consensus size: 84
74720 CACCAACTTG
* * * * *
74730 TGTGGGCTTTAGAGAAAGTTGCCACCGACTTATGTGTGCTTTGAAAGAATGCCACTGACTTGTGG
1 TGTGGGCTTT-GA-AAGGATGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
*
74795 GCTTTGAAATGG-TGCCACTAACT
62 GCTTTGAAA-GGATGCCACTGACT
* * *
74818 TGTGGGCTTTG-AA-CATAGACCACTGACTTGTGGGCTTTTGAAAGGATGCCACTGACTTATGAG
1 TGTGGGCTTTGAAAGGAT-G-CCACTGACTTGTGGGC-TTTGAAAGGATGCCACTGACTTGTGGG
*
74881 C---G--A-G-TGTCACTGACT
63 CTTTGAAAGGATGCCACTGACT
* * * * *
74896 TGTGGGCTTTGAAAGGGTGCTAGTGACTTATGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
*
74961 TGAAAGGATGCCACTGATT
66 TGAAAGGATGCCACTGACT
* * *
74980 TGTGGGCTTT-AAACGGATGCCACTTACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCT
1 TGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
*
75044 TT-AAACGGATGCCACTTACT
65 TTGAAA-GGATGCCACTGACT
* ** * *
75064 TGTCGGCTTTGGAAA-GATGCCACTGACTTGTGGGCTTT-AAAAAAGTGCCACTAACTTATGGGC
1 TGTGGGCTTT-GAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGC
* * ** *
75127 TTGGAAAAGATGCCGTTAACT
64 TTTGAAAGGATGCCACTGACT
* * * * *
75148 TGTGGGTTTTGAAAGAATGCCAGTAACTTGTGGGCTTTGAAAGGATGCCACCGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
75213 TG-AAGAGATGCCACTGACT
66 TGAAAG-GATGCCACTGACT
* * * *
75232 TCTGGGCTTTGAAAAGG-TGTCACTGACTTGTGGACTTTGAAAGGATGCCATTGACTTGTGGGCT
1 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
*
75296 TTGAAAGGATGCCATTGACT
65 TTGAAAGGATGCCACTGACT
* * * *
75316 TATGGGCTTTGAAGAGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGACT
1 TGTGGGCTTTGAA-AGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
*
75380 TTGAAAGGATGCCATTGACT
65 TTGAAAGGATGCCACTGACT
* * *
75400 TGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAGAAGTGCCACTGACTTATGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCT
*
75464 TTGAAAGGGTGCCACTGACT
65 TTGAAAGGATGCCACTGACT
* *
75484 TGTGGGCTTTG-AAGAAGTGCCACTAACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGC
* *
75547 TTTGAAAAGATGCCACTAACT
64 TTTGAAAGGATGCCACTGACT
* * * * *
75568 TGTGGACTTTGAAAAGATGCCACTGACTTGTGGACTTTG-AAGAGATGCCACTAACTTGTGGGTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCT
* * *
75632 TTGAAAAGATGTCACTAACT
65 TTGAAAGGATGCCACTGACT
*
75652 TTTGGGCTTTGAA
1 TGTGGGCTTTGAA
75665 GAAATGAACG
Statistics
Matches: 723, Mismatches: 93, Indels: 66
0.82 0.11 0.07
Matches are distributed among these distances:
77 25 0.03
78 34 0.05
79 3 0.00
80 3 0.00
82 2 0.00
83 32 0.04
84 553 0.76
85 50 0.07
86 10 0.01
87 1 0.00
88 10 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (84 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
TGAAAGGATGCCACTGACT
Found at i:93521 original size:20 final size:20
Alignment explanation
Indices: 93498--93570 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
93488 ACAATTCAAA
93498 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
93518 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
93539 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
93559 GTATCGATACAT
1 GTATCGATACAT
93571 AAAAAAGATG
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:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:93541 original size:21 final size:21
Alignment explanation
Indices: 93515--93591 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
93505 TACATGTTGC
93515 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
93536 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
93556 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
93576 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
93592 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:93549 original size:41 final size:41
Alignment explanation
Indices: 93498--93591 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
93488 ACAATTCAAA
93498 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
93539 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
93580 GTATCGATACAT
1 GTATCGATACAT
93592 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:93648 original size:13 final size:13
Alignment explanation
Indices: 93630--93655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93620 TACAGCAAGT
93630 ATGTATCGATACA
1 ATGTATCGATACA
93643 ATGTATCGATACA
1 ATGTATCGATACA
93656 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:97737 original size:15 final size:15
Alignment explanation
Indices: 97717--97747 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
97707 TAAAAATGTC
*
97717 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
97732 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
97747 C
1 C
97748 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:99844 original size:13 final size:13
Alignment explanation
Indices: 99826--99864 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
99816 ACATTTTTCC
99826 TTGTATCGATACA
1 TTGTATCGATACA
99839 TTGTATCGATACA
1 TTGTATCGATACA
*
99852 CTGTATCGATACA
1 TTGTATCGATACA
99865 GGGTGATTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:101671 original size:12 final size:12
Alignment explanation
Indices: 101656--101681 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
101646 AAATTTTGAT
101656 ATGAATTACTTG
1 ATGAATTACTTG
101668 ATGAATTACTTG
1 ATGAATTACTTG
101680 AT
1 AT
101682 TAAGGGGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGAATTACTTG
Found at i:102341 original size:20 final size:20
Alignment explanation
Indices: 102318--102390 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
102308 ACAATTCAAA
102318 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
102338 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
102359 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
102379 GTATCGATACAT
1 GTATCGATACAT
102391 AAAAAAGATG
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:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:102361 original size:21 final size:21
Alignment explanation
Indices: 102335--102411 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
102325 TACATGTTGC
102335 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
102356 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
102376 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
102396 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
102412 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:102369 original size:41 final size:41
Alignment explanation
Indices: 102318--102411 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
102308 ACAATTCAAA
102318 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
102359 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
102400 GTATCGATACAT
1 GTATCGATACAT
102412 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:102468 original size:13 final size:13
Alignment explanation
Indices: 102450--102475 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102440 TACAGCAAGT
102450 ATGTATCGATACA
1 ATGTATCGATACA
102463 ATGTATCGATACA
1 ATGTATCGATACA
102476 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:107661 original size:13 final size:13
Alignment explanation
Indices: 107643--107668 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107633 CAATTTTTTG
107643 TGTATCGATACAT
1 TGTATCGATACAT
107656 TGTATCGATACAT
1 TGTATCGATACAT
107669 ACTTTGGTGT
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:107665 original size:33 final size:33
Alignment explanation
Indices: 107623--107687 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
107613 TACAAGCCAA
* *
107623 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
107656 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
107688 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:108369 original size:39 final size:40
Alignment explanation
Indices: 108314--108404 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 40
108304 TTTTCTTTCT
*
108314 CCCTTAATTAAAGTAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAATTAAAGTAATTTTAACAAATTCATACATTCTCC
* * * *
108354 CCCTTAA-TAAGGTAATTTTAGCAAATTTATGCATTCTCC
1 CCCTTAATTAAAGTAATTTTAACAAATTCATACATTCTCC
* *
108393 CCTTTTATTAAA
1 CCCTTAATTAAA
108405 AAATCTCCCC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 32 0.76
40 10 0.24
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (40 bp):
CCCTTAATTAAAGTAATTTTAACAAATTCATACATTCTCC
Found at i:109783 original size:21 final size:20
Alignment explanation
Indices: 109759--109801 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
109749 GGCTAGTATG
*
109759 GGGACTACCCGGTTGCGACCT
1 GGGACT-CCCGGTCGCGACCT
* *
109780 GGGAGTGCCGGTCGCGACCT
1 GGGACTCCCGGTCGCGACCT
109800 GG
1 GG
109802 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTCCCGGTCGCGACCT
Found at i:110260 original size:13 final size:13
Alignment explanation
Indices: 110242--110266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110232 ATAATCCCCC
110242 TGTATCGATACAG
1 TGTATCGATACAG
110255 TGTATCGATACA
1 TGTATCGATACA
110267 AAGCAAAATG
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:116356 original size:13 final size:13
Alignment explanation
Indices: 116338--116363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116328 CAATTTTTTG
116338 TGTATCGATACAT
1 TGTATCGATACAT
116351 TGTATCGATACAT
1 TGTATCGATACAT
116364 ACTTTGGTGT
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:116360 original size:33 final size:33
Alignment explanation
Indices: 116318--116382 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
116308 TACAAGCCAA
* *
116318 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
116351 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
116383 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:120028 original size:13 final size:13
Alignment explanation
Indices: 120010--120051 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 13
120000 CACATCCAGA
120010 TGTATCGATACAT
1 TGTATCGATACAT
120023 TGTATCGATACATAAT
1 TGTATCGATAC---AT
120039 TGTATCGATACAT
1 TGTATCGATACAT
120052 GAAGTTGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 13 0.50
16 13 0.50
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:120042 original size:16 final size:15
Alignment explanation
Indices: 120010--120051 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
120000 CACATCCAGA
120010 TGTATCGATAC--AT
1 TGTATCGATACATAT
120023 TGTATCGATACATAAT
1 TGTATCGATACAT-AT
120039 TGTATCGATACAT
1 TGTATCGATACAT
120052 GAAGTTGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.42
16 15 0.58
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
TGTATCGATACATAT
Found at i:121209 original size:19 final size:20
Alignment explanation
Indices: 121164--121214 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
121154 GAGCCTAAAA
*
121164 GTATCGATACATATTGCTTT
1 GTATCGATACATATTGCATT
* *
121184 ATATCGATACAT-TTTCATT
1 GTATCGATACATATTGCATT
121203 GTATCGATACAT
1 GTATCGATACAT
121215 GAAAAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (20 bp):
GTATCGATACATATTGCATT
Found at i:121282 original size:13 final size:13
Alignment explanation
Indices: 121264--121290 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
121254 CTACCATTGT
121264 TTGTATCGATACA
1 TTGTATCGATACA
121277 TTGTATCGATACA
1 TTGTATCGATACA
121290 T
1 T
121291 AGTAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:129166 original size:20 final size:20
Alignment explanation
Indices: 129141--129181 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
129131 GGAGCGACTG
129141 TTTTATAAAAGAGATTATTT
1 TTTTATAAAAGAGATTATTT
*
129161 TTTTATGAAAGAGATTATTT
1 TTTTATAAAAGAGATTATTT
129181 T
1 T
129182 GGAAACAAAA
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:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
TTTTATAAAAGAGATTATTT
Found at i:134934 original size:19 final size:20
Alignment explanation
Indices: 134910--134961 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
134900 ACGATTGAGT
* * *
134910 ATGTATCAATACAATG-AAC
1 ATGTATCGATACAAAGAAAA
134929 ATGTATCGATACAAAGAAAA
1 ATGTATCGATACAAAGAAAA
134949 ATGTATCGATACA
1 ATGTATCGATACA
134962 TCTTGATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (20 bp):
ATGTATCGATACAAAGAAAA
Found at i:136977 original size:21 final size:20
Alignment explanation
Indices: 136930--136987 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
136920 CGTATCGATA
**
136930 CAATGTATCGATACATGATT
1 CAATGTATCGATACATGACC
*
136950 CAATGTATCGATACATTACC
1 CAATGTATCGATACATGACC
136970 CAAATGTATTC-ATACATG
1 C-AATGTA-TCGATACATG
136988 CATGCAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 18 0.56
21 12 0.38
22 2 0.06
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (20 bp):
CAATGTATCGATACATGACC
Found at i:141213 original size:20 final size:21
Alignment explanation
Indices: 141183--141221 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
141173 ATCTGGGTTT
141183 TTCAGATGTATCGATACATCA
1 TTCAGATGTATCGATACATCA
141204 TTCA-ATGTATCGATACAT
1 TTCAGATGTATCGATACAT
141222 TCTGGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (21 bp):
TTCAGATGTATCGATACATCA
Found at i:143240 original size:15 final size:15
Alignment explanation
Indices: 143220--143251 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
143210 AACCATCAAA
143220 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
143235 GATGATGATGATAAT
1 GATGATGAAGATAAT
143250 GA
1 GA
143252 CGAAGTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:150267 original size:52 final size:52
Alignment explanation
Indices: 150189--150317 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
150179 CGAAATATGA
* *
150189 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
150241 AAATTTACCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
150293 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTACATGTATCGATACA
150318 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:150330 original size:52 final size:51
Alignment explanation
Indices: 150189--150337 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
150179 CGAAATATGA
*
150189 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
150241 AAATTTACCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
150293 AAATTTGCCTACATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTACATGTATCGATACATTA-AT-AGTGTATCGATACA
150338 ATGTATCAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTACATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:150432 original size:32 final size:33
Alignment explanation
Indices: 150391--150456 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
150381 AGTAGCTTAA
*
150391 ATTGTATCGATACAAAAC-TTAGGTATTGATAC
1 ATTGTATCGATACAAAACTTTAGGTATCGATAC
* *
150423 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTAGGTATCGATAC
150456 A
1 A
150457 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTAGGTATCGATAC
Found at i:151271 original size:43 final size:43
Alignment explanation
Indices: 151210--151479 Score: 315
Period size: 43 Copynumber: 5.9 Consensus size: 43
151200 GATGGAAAAT
151210 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
151253 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAG
*
151302 GTGCCAAAATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
151345 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--G
* *
151392 AAAATGTGCCAATATGCTGACTCAAGGCCAACTATATTGGACTTAAAG
1 -----GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* * *
151440 ATGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
151480 GAAGAAGATG
Statistics
Matches: 195, Mismatches: 17, Indels: 30
0.81 0.07 0.12
Matches are distributed among these distances:
43 111 0.57
44 3 0.02
45 1 0.01
47 1 0.01
48 2 0.01
49 39 0.20
50 1 0.01
51 2 0.01
52 35 0.18
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
Found at i:151465 original size:95 final size:95
Alignment explanation
Indices: 151157--151484 Score: 527
Period size: 95 Copynumber: 3.5 Consensus size: 95
151147 TGAGAAAAAG
* *
151157 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGC
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATGTGCCAATATGC
151222 TGATTCAAGGCCAGCTATATTGGACTTAAA
66 TGATTCAAGGCCAGCTATATTGGACTTAAA
* * * *
151252 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAAATGC
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATGTGCCAATATGC
151314 TGATTCAAGGCCAGCTATATTGGACTTAAA
66 TGATTCAAGGCCAGCTATATTGGACTTAAA
*
151344 GGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATGTGCCAATATGC
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATGTGCCAATATGC
* *
151409 TGACTCAAGGCCAACTATATTGGACTTAAA
66 TGATTCAAGGCCAGCTATATTGGACTTAAA
* *
151439 GATGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAGAAGA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA-AAGA
151485 AGATGCCACC
Statistics
Matches: 215, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
92 89 0.41
95 122 0.57
96 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (95 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTTAAA
Found at i:151529 original size:31 final size:31
Alignment explanation
Indices: 151488--151571 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 31
151478 TAGAAGAAGA
151488 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGT
151520 TG-CACCAACTTGTGT--GCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
**
151547 TGCCACTGAC-T-TGTGGGCTTTTGAA
1 TGCCACCAACTTGTGTGGGCTTTTGAA
151572 GAGATACCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
26 3 0.07
27 6 0.13
28 14 0.30
29 8 0.17
31 13 0.28
32 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.35
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
Found at i:151588 original size:57 final size:58
Alignment explanation
Indices: 151501--152295 Score: 859
Period size: 57 Copynumber: 13.7 Consensus size: 58
151491 CACCAACTTG
* * ** * * *
151501 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAA-AGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACT
* * * * * *
151558 TGTGGGCTTTTGAAGAGATACCATTGACTTGTGAGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAA-GATGCCACTGACT
* * *
151617 TGTGAGCTTTGGAAAAGATGCCACTGACTTGTGGG-TTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTT-GAAAA-GATGCCACTGACT
* * *
151676 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTAGGCTTTGGAAAAGATGCCACTTACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACT
* * * *
151734 TGTGGGCTTTTG-AAGGTTGCCACTGACTTATGGGC-TTTGAAAAAGATGCCACTAACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTG-AAAAGATGCCACTGACT
* * * *
151791 TGTGGGC-TTTGAAAAAGATACCACTGGCTGGTGGG-TTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAAGATGCCACTGACTTGTGGGCTTTT-GAAAA-GATGCCACTGACT
*
151850 TGTGGGCTTTTGAAAAGATGCCACTAACTTGTGGGC-TTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTG-AAAAGATGCCACTGACT
* * * *
151908 TGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACT
* *
151965 TATGGGC-TTTGAAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACT
* * * * *
152023 TGTGGGCTTTTG-AAGGTTGCCACTGACTTATGGGC-TTTGAAAAAGATACCACTGGCT
1 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTG-AAAAGATGCCACTGACT
* * *
152080 GGTGGG-TTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTT-GAAAA-GATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACT
* * *
152139 TGTGGGCTTTTG-AAGGTTGCCACTGACTTATGGGC-TTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTG-AAAAGATGCCACTGACT
* * *
152196 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACT
* * * **
152253 TATAGGC-TTTGAAAAAGATACCACTGACTTAAGGGCTTTTGAA
1 TGTGGGCTTTTG-AAAAGATGCCACTGACTTGTGGGCTTTTGAA
152296 GGGTGAGGAA
Statistics
Matches: 626, Mismatches: 83, Indels: 57
0.82 0.11 0.07
Matches are distributed among these distances:
56 25 0.04
57 250 0.40
58 144 0.23
59 193 0.31
60 14 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (58 bp):
TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACT
Found at i:151595 original size:29 final size:29
Alignment explanation
Indices: 151501--152295 Score: 859
Period size: 29 Copynumber: 27.5 Consensus size: 29
151491 CACCAACTTG
* * **
151501 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-AGATGCCACTGACT
* * *
151530 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* * *
151558 TGTGGGCTTTTGAAGAGATACCATTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* * *
151587 TGTGAGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAA-GATGCCACTGACT
* *
151617 TGTGAGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
*
151646 TGTGGG-TTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTT-GAAAA-GATGCCACTGACT
151676 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* * *
151705 TGTAGGCTTTGGAAAAGATGCCACTTACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
151734 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
151762 TATGGGC-TTTGAAAAAGATGCCACTAACT
1 TGTGGGCTTTTG-AAAAGATGCCACTGACT
* *
151791 TGTGGGC-TTTGAAAAAGATACCACTGGCT
1 TGTGGGCTTTTG-AAAAGATGCCACTGACT
* *
151820 GGTGGG-TTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTT-GAAAA-GATGCCACTGACT
*
151850 TGTGGGCTTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
151879 TGTGGGC-TTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAAAGATGCCACTGACT
* *
151908 TGTGGGCTTTGGAAAAGATGCCACTAACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
151937 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
*
151965 TATGGGC-TTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAAAGATGCCACTGACT
*
151994 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
152023 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* * *
152051 TATGGGC-TTTGAAAAAGATACCACTGGCT
1 TGTGGGCTTTTG-AAAAGATGCCACTGACT
* *
152080 GGTGGG-TTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTT-GAAAA-GATGCCACTGACT
*
152110 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
152139 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
*
152167 TATGGGC-TTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAAAGATGCCACTGACT
*
152196 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
152225 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* * *
152253 TATAGGC-TTTGAAAAAGATACCACTGACT
1 TGTGGGCTTTTG-AAAAGATGCCACTGACT
**
152282 TAAGGGCTTTTGAA
1 TGTGGGCTTTTGAA
152296 GGGTGAGGAA
Statistics
Matches: 648, Mismatches: 89, Indels: 58
0.82 0.11 0.07
Matches are distributed among these distances:
27 25 0.04
28 123 0.19
29 385 0.59
30 104 0.16
31 11 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAAGATGCCACTGACT
Found at i:151799 original size:86 final size:87
Alignment explanation
Indices: 151547--152295 Score: 851
Period size: 86 Copynumber: 8.6 Consensus size: 87
151537 TTTTGAAGGT
* * * * *
151547 TGCCACTGACTTGTGGGCTTTTG-AAGAGATACCATTGACTTGTGAGCTTTGGAAAAGGGTGCCA
1 TGCCACTGACTTGTGGGCTTTTGAAAG-GATGCCACTGACTTGTGGGCTTTTGAAAA-GATGCCA
* *
151611 CTGACTTGTGAGCTTTGGAAAAGA
64 CTGACTTGTGGGCTTTGAAAAAGA
*
151635 TGCCACTGACTTGTGGG-TTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCA
1 TGCCACTGACTTGTGGGCTTTT-G-AAAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCA
* *
151699 CTGACTTGTAGGCTTTGGAAAAGA
64 CTGACTTGTGGGCTTTGAAAAAGA
* * *
151723 TGCCACTTACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTATGGGC-TTTGAAAAAGATGCCAC
1 TGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTTG-AAAAGATGCCAC
*
151786 TAACTTGTGGGCTTTGAAAAAGA
65 TGACTTGTGGGCTTTGAAAAAGA
* * * *
151809 TACCACTGGCTGGTGGG-TTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATGCCA
1 TGCCACTGACTTGTGGGCTTTT-G-AAAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCA
*
151873 CTAACTTGTGGGCTTTGAAAAAGA
64 CTGACTTGTGGGCTTTGAAAAAGA
* * * * *
151897 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTAACTTGTGGGCTTTTG-AAGGTTGCCACT
1 TGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACT
*
151961 GACTTATGGGCTTTGAAAAAGA
66 GACTTGTGGGCTTTGAAAAAGA
* * * *
151983 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACT
1 TGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACT
*
152047 GACTTATGGGCTTTGAAAAAGA
66 GACTTGTGGGCTTTGAAAAAGA
* * * * *
152069 TACCACTGGCTGGTGGG-TTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCA
1 TGCCACTGACTTGTGGGCTTTT-G-AAAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCA
* *
152133 CTGACTTGTGGGCTTTTG--AAGGT
64 CTGACTTGTGGGC-TTTGAAAAAGA
* * *
152156 TGCCACTGACTTATGGGC-TTTGAAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCAC
1 TGCCACTGACTTGTGGGCTTTTG-AAAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCAC
* *
152220 TGACTTGTGGGCTTTTG--AAGGT
65 TGACTTGTGGGC-TTTGAAAAAGA
* * * * **
152242 TGCCACTGACTTATAGGC-TTTGAAAAAGATACCACTGACTTAAGGGCTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTG-AAAGGATGCCACTGACTTGTGGGCTTTTGAA
152296 GGGTGAGGAA
Statistics
Matches: 591, Mismatches: 55, Indels: 32
0.87 0.08 0.05
Matches are distributed among these distances:
85 11 0.02
86 309 0.52
87 75 0.13
88 154 0.26
89 39 0.07
90 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (87 bp):
TGCCACTGACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACT
GACTTGTGGGCTTTGAAAAAGA
Found at i:153753 original size:17 final size:17
Alignment explanation
Indices: 153731--153773 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
153721 ATCCAGACCC
153731 TTTTTGTTGCTATTTTT
1 TTTTTGTTGCTATTTTT
* *
153748 TTTTTGTTTTCTGTTTTT
1 TTTTTG-TTGCTATTTTT
153766 TTTTTGTT
1 TTTTTGTT
153774 TTTTTGTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.81
Consensus pattern (17 bp):
TTTTTGTTGCTATTTTT
Found at i:167641 original size:52 final size:52
Alignment explanation
Indices: 167563--167693 Score: 217
Period size: 52 Copynumber: 2.5 Consensus size: 52
167553 CCCGAAATAT
* * *
167563 GAAAATTTGCCTGCATGTATCAATACATTTAATAGTGTATCGATACATTTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
* *
167615 GAAAATTTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
167667 GAAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
167694 AAGATCAGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
Found at i:168078 original size:32 final size:33
Alignment explanation
Indices: 168039--168103 Score: 98
Period size: 35 Copynumber: 2.0 Consensus size: 33
168029 CCTTACAACA
168039 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCT
168071 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
168104 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (33 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCT
Found at i:168591 original size:13 final size:13
Alignment explanation
Indices: 168572--168610 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
168562 ACTATTTATG
168572 ATGTATCGATACA
1 ATGTATCGATACA
*
168585 CTGTATCGATACA
1 ATGTATCGATACA
168598 ATGTATCGATACA
1 ATGTATCGATACA
168611 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:168707 original size:10 final size:10
Alignment explanation
Indices: 168688--168718 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
168678 GTATCGATAC
168688 ATGAACAGTG
1 ATGAACAGTG
*
168698 ATGAATAGTG
1 ATGAACAGTG
168708 ATGAACAGTG
1 ATGAACAGTG
168718 A
1 A
168719 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:168806 original size:53 final size:53
Alignment explanation
Indices: 168742--168878 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
168732 CTACTACCAA
168742 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
* * *
168795 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCATTGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
168848 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
168879 TATGTAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
Found at i:168914 original size:21 final size:20
Alignment explanation
Indices: 168848--168920 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
168838 GCCATTGTCC
**
168848 TGTATCGATACATAT-TTGTG
1 TGTATCGATAC-TATGTAATG
*
168868 TGTATCGATACTATGTAATC
1 TGTATCGATACTATGTAATG
*
168888 TGTATCGATAC-ATTTAAAATG
1 TGTATCGATACTATGT--AATG
168909 TGTATCGATACT
1 TGTATCGATACT
168921 TTTCAGGGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 6 0.14
20 24 0.55
21 14 0.32
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (20 bp):
TGTATCGATACTATGTAATG
Found at i:172741 original size:19 final size:19
Alignment explanation
Indices: 172717--172753 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
172707 TGCATTGATA
172717 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
172736 CATTGTATCGATACATGT
1 CATTGTATCGATACATGT
172754 ATAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:172769 original size:20 final size:19
Alignment explanation
Indices: 172722--172771 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
172712 TGATACATTG
* *
172722 TATCGATACATGTTCATTG
1 TATCGATACATGTTAATTA
172741 TATCGATACATGTATAATTA
1 TATCGATACATGT-TAATTA
*
172761 TATCAATACAT
1 TATCGATACAT
172772 AAACTGGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
TATCGATACATGTTAATTA
Found at i:175845 original size:18 final size:19
Alignment explanation
Indices: 175803--175855 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
175793 TGCCAGTTTT
* *
175803 ATGTATCAATACAATTGAGC
1 ATGTATCGATACAA-TGAAC
175823 ATGTATCGATA-AATGAAC
1 ATGTATCGATACAATGAAC
175841 ATGTAT-GATACAATG
1 ATGTATCGATACAATG
175856 TATCGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 4 0.13
18 14 0.47
19 2 0.07
20 10 0.33
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:178172 original size:32 final size:33
Alignment explanation
Indices: 178131--178193 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
178121 CAATTTGGCC
*
178131 ATGTATCGATACAATGA-A-CATGTATCGATATA
1 ATGTATCGATACAA-AACAGCATGTATCGATATA
178163 ATGTATCGATACAAAACAGCATGTATCGATA
1 ATGTATCGATACAAAACAGCATGTATCGATA
178194 CATCTGGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.04
32 15 0.54
33 12 0.43
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAACAGCATGTATCGATATA
Found at i:178798 original size:19 final size:19
Alignment explanation
Indices: 178721--178798 Score: 56
Period size: 18 Copynumber: 4.3 Consensus size: 19
178711 GTCGTTTTTC
178721 TCCCCTTAAAA-A-TATTCT
1 TCCCCTTAAAAGATTA-TCT
* *
178739 CCCCCTTAAATGATTATC-
1 TCCCCTTAAAAGATTATCT
* * *
178757 TCCTCTAAAAAGAAT-TCT
1 TCCCCTTAAAAGATTATCT
* *
178775 CCCCCTTAAACGATTATCT
1 TCCCCTTAAAAGATTATCT
178794 TCCCC
1 TCCCC
178799 CCCTTTTTAT
Statistics
Matches: 43, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
17 2 0.05
18 29 0.67
19 10 0.23
20 2 0.05
ACGTcount: A:0.29, C:0.33, G:0.04, T:0.33
Consensus pattern (19 bp):
TCCCCTTAAAAGATTATCT
Found at i:180638 original size:13 final size:13
Alignment explanation
Indices: 180620--180688 Score: 111
Period size: 13 Copynumber: 5.2 Consensus size: 13
180610 TAAATAGTAC
180620 CAATGTATCGATA
1 CAATGTATCGATA
180633 CAATGTATCGATA
1 CAATGTATCGATA
*
180646 CAATTTATCGATA
1 CAATGTATCGATA
180659 CAAATGTATCGATA
1 C-AATGTATCGATA
*
180673 CAATTTATCGATA
1 CAATGTATCGATA
180686 CAA
1 CAA
180689 GGAATATTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
13 40 0.77
14 12 0.23
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:180672 original size:27 final size:27
Alignment explanation
Indices: 180620--180688 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
180610 TAAATAGTAC
*
180620 CAATGTATCGATAC-AATGTATCGATA
1 CAATTTATCGATACAAATGTATCGATA
180646 CAATTTATCGATACAAATGTATCGATA
1 CAATTTATCGATACAAATGTATCGATA
180673 CAATTTATCGATACAA
1 CAATTTATCGATACAA
180689 GGAATATTGT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 13 0.32
27 28 0.68
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (27 bp):
CAATTTATCGATACAAATGTATCGATA
Done.