Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1705
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: 88495
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Found at i:9645 original size:13 final size:12
Alignment explanation
Indices: 9619--9695 Score: 79
Period size: 13 Copynumber: 6.4 Consensus size: 12
9609 CTTTACACCC
9619 AAAAAAAAAC--
1 AAAAAAAAACAA
*
9629 AAAAAAAAGC-A
1 AAAAAAAAACAA
9640 AAAAAAAAACAA
1 AAAAAAAAACAA
9652 AACAAAAAAACAAA
1 AA-AAAAAAAC-AA
9666 AAAAAAAAACAA
1 AAAAAAAAACAA
* *
9678 GAAAAAATAGCAA
1 -AAAAAAAAACAA
9691 AAAAA
1 AAAAA
9696 TAGAAGGGTC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.16
11 9 0.16
12 10 0.17
13 26 0.45
14 4 0.07
ACGTcount: A:0.86, C:0.09, G:0.04, T:0.01
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:9645 original size:21 final size:20
Alignment explanation
Indices: 9619--9684 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
9609 CTTTACACCC
9619 AAAAAAAAACAAAAAAAAGCA
1 AAAAAAAAACAAAAAAAAG-A
9640 AAAAAAAAACAAAACAAAA-A
1 AAAAAAAAACAAAA-AAAAGA
*
9660 AACAAAAAAA-AAAAACAAGA
1 AA-AAAAAAACAAAAAAAAGA
9680 AAAAA
1 AAAAA
9685 TAGCAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 6 0.15
20 10 0.24
21 21 0.51
22 4 0.10
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (20 bp):
AAAAAAAAACAAAAAAAAGA
Found at i:9648 original size:26 final size:26
Alignment explanation
Indices: 9619--9695 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
9609 CTTTACACCC
9619 AAAAAAAAACAAAAAAAAGCAAAAAA
1 AAAAAAAAACAAAAAAAAGCAAAAAA
*
9645 AAAACAAAAC-AAAAAAA-CAAAAAA
1 AAAAAAAAACAAAAAAAAGCAAAAAA
* * *
9669 AAAAAACAAGAAAAAATAGCAAAAAA
1 AAAAAAAAACAAAAAAAAGCAAAAAA
9695 A
1 A
9696 TAGAAGGGTC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
24 14 0.32
25 13 0.30
26 17 0.39
ACGTcount: A:0.86, C:0.09, G:0.04, T:0.01
Consensus pattern (26 bp):
AAAAAAAAACAAAAAAAAGCAAAAAA
Found at i:9695 original size:1 final size:1
Alignment explanation
Indices: 9619--9684 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
9609 CTTTACACCC
* ** * * * * *
9619 AAAAAAAAACAAAAAAAAGCAAAAAAAAAACAAAACAAAAAAACAAAAAAAAAAAACAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9684 A
1 A
9685 TAGCAAAAAA
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:11049 original size:28 final size:28
Alignment explanation
Indices: 10915--11874 Score: 1148
Period size: 28 Copynumber: 33.6 Consensus size: 28
10905 GAATGTTCAT
10915 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
10943 CTCCTTTCAAAGCCCACAAGACAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
10972 CTCTTTTCAAAGCCCACAAATCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
11001 CTCTTTTTAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
11030 CCATTTCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
11058 CCCTTTCGAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
11086 CCCTTGCGAAGCCCACAATTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
11114 CTCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
11142 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
11170 CCCTTTCGAAGCCCACAAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
11198 CCCTTGCGAAGCCCACAATTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
11226 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
11254 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
11282 CCCTTTCAAAGGCCACACAAGTCAGTGGCA
1 CCCTTTCAAA-GCC-CACAAGTCAGTGGCA
* *
11312 CTCCTTTTAGAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
11341 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
11369 CCCTTTCAAAGCCCACACAAGTTAGTGGCA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCA
* * *
11399 CTCCTTTTAGAGCCCACAAGTCAGTGGTA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
** * *
11428 CCCTTTTGAAGCACACAAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
11456 CCCTTGCAAAGCCCACAATTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
11484 CTCTTTTAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
11512 CCCTTTCAAAGCCCACACAAGTCAGTGGCA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCA
* **
11542 CTCCTTTTAAAGCCCATGAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
11571 CCCTTTC-AAGCCCACGAGTTAGTGGAA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
11598 CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
11626 CTCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
11654 TCTTTTCAAAGCCCACGCAAGTTAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * *
11684 CCTTTTTAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
11712 CCTTTTTCAAAGCCCACGAGTCAGTGGCA
1 CC-CTTTCAAAGCCCACAAGTCAGTGGCA
* *
11741 CTCTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
11769 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
11797 TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * **
11827 CCCTTTTAAAGCCCACGCAAGTTAGTAACA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
*
11857 CTCTTTTCAAAGCCCACA
1 C-CCTTTCAAAGCCCACA
11875 CGTGTCAGTG
Statistics
Matches: 818, Mismatches: 97, Indels: 33
0.86 0.10 0.03
Matches are distributed among these distances:
27 23 0.03
28 481 0.59
29 159 0.19
30 119 0.15
31 36 0.04
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:11383 original size:143 final size:140
Alignment explanation
Indices: 10917--11874 Score: 1180
Period size: 143 Copynumber: 6.7 Consensus size: 140
10907 ATGTTCATCC
* *
10917 CTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGACAGTGGCACTCTTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTT-AA
* * * * *
10982 AGCCCACAAATCAGTGGCACTCTTTTTAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCATA
64 AGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
*
11047 AGTCAGTGGCACC
128 AGTCAGTGGCACT
* * * * * * *
11060 CTTTCGAAGCCCACAAGTCAGTGGCACCCTTGCGAAGCCCACAATTTAGTGGCACTCTTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAG
* * *
11125 CCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCCCACAAGT
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
* *
11190 CAGTGGTACC
131 CAGTGGCACT
* * * * * *
11200 CTTGCGAAGCCCACAATTTAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAG
* *
11265 CCCACAAGTCAGTGGCACCCTTTCAAAGGCCACACAAGTCAGTGGCACTCCTTTTAGAGCCCACA
66 CCCACAAGTCAGTGGCACCCTTTCAAA-GCC-CACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA
11330 AGTCAGTGGCACT
128 AGTCAGTGGCACT
*
11343 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTTAGTGGCACTCCTTTTA
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTTA
* * ** * * *
11408 GAGCCCACAAGTCAGTGGTACCCTTTTGAAGCACACAAGTCAATGGCACCCTTGCAAAGCCCACA
63 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
* *
11473 ATTTAGTGGCACT
128 AGTCAGTGGCACT
*
11486 CTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTTA
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCAC-CCTTTTA
** * * * * *
11551 AAGCCCATGAGTCAGTGGCACCCTTTC-AAGCCCACGAGTTAGTGGAACCTTTTCAAAGCCCACG
63 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
11615 AGTCAGTGGCACT
128 AGTCAGTGGCACT
* * * * *
11628 CTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACGCAAGTTAGTGGCACCTTTTTAA
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTTAA
* * * * *
11693 AGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACG
64 AGCCCACAAGTCAGTGGCACC-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA
11758 AGTCAGTGGCACT
128 AGTCAGTGGCACT
*
11771 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTTAA
1 CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTTAA
* ** *
11836 AGCCCACGCAAGTTAGTAACACTCTTTTCAAAGCCCACA
64 AGCCCA--CAAGTCAGTGGCAC-CCTTTCAAAGCCCACA
11875 CGTGTCAGTG
Statistics
Matches: 714, Mismatches: 88, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
140 134 0.19
141 52 0.07
142 133 0.19
143 304 0.43
144 17 0.02
145 41 0.06
146 33 0.05
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (140 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAG
CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
CAGTGGCACT
Found at i:12515 original size:20 final size:20
Alignment explanation
Indices: 12488--12539 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
12478 TACCTAGATG
* *
12488 TATCGATACATTTTTCGATA
1 TATCGATACATTCTTCAATA
* * *
12508 TTTCGATATATTCTTCAATG
1 TATCGATACATTCTTCAATA
12528 TATCGATACATT
1 TATCGATACATT
12540 ATATCTTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TATCGATACATTCTTCAATA
Found at i:17226 original size:150 final size:150
Alignment explanation
Indices: 16945--17334 Score: 443
Period size: 150 Copynumber: 2.6 Consensus size: 150
16935 GGGTTATCGG
* *
16945 GCACTTCTAAGTCGATGGTAAACTTTAGGGA--TATGTTAGCATTTTCTCCC--AAACCTAGTCT
1 GCACTTCTAAGTCGATGGTAAACCTTAGGGACCT-TTTTAGCATTTT-TCCCTGAAACCTAGTCT
* * * * * *
17006 TATAAAACTA-CTAGGTCCGCTTCTACGCCGAAAGCATGAATTAGAAGTAGATTCGCTTTTGGTT
64 TGTGAAACTACCGA-GT-CGCTTCTATGCCGAAAGCATGAATTAGAAGTAGATTAGCTTTTGCTT
* *
17070 TTTCAAGTTCTCTAGGATCACCAC
127 TTTCAAGTCCTCTAAGATCACCAC
*
17094 GCACTTCTAAGTCGATGGTAAACCTTAGGAACCTTTTTAGCATTTTTCCCTGAAACCTAGTCTTG
1 GCACTTCTAAGTCGATGGTAAACCTTAGGGACCTTTTTAGCATTTTTCCCTGAAACCTAGTCTTG
* * *
17159 TGAAACTACCGAGTCTGCTTCTATGCCG-AAG-ATATAATTAGGAGTAGGTTAGCTTTTGCTTTT
66 TGAAACTACCGAGTC-GCTTCTATGCCGAAAGCAT-GAATTAGAAGTAGATTAGCTTTTGCTTTT
****
17222 TCAAGTCCTCTAAGATCATTGG
129 TCAAGTCCTCTAAGATCACCAC
* * * * *
17244 GCACTTCCAAGCCGATGGTAGACCTTAGGGACCTTTTTAGCATTTTTTCCTGAAATCTAGTCTTG
1 GCACTTCTAAGTCGATGGTAAACCTTAGGGACCTTTTTAGCATTTTTCCCTGAAACCTAGTCTTG
* * *
17309 TGAAACTACTGGGTCACTTCTATGCC
66 TGAAACTACCGAGTCGCTTCTATGCC
17335 AAGGGTACGT
Statistics
Matches: 207, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
149 45 0.22
150 127 0.61
151 33 0.16
152 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (150 bp):
GCACTTCTAAGTCGATGGTAAACCTTAGGGACCTTTTTAGCATTTTTCCCTGAAACCTAGTCTTG
TGAAACTACCGAGTCGCTTCTATGCCGAAAGCATGAATTAGAAGTAGATTAGCTTTTGCTTTTTC
AAGTCCTCTAAGATCACCAC
Found at i:22667 original size:13 final size:13
Alignment explanation
Indices: 22649--22674 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22639 ACACCAAAGT
22649 ATGTATCGATACA
1 ATGTATCGATACA
22662 ATGTATCGATACA
1 ATGTATCGATACA
22675 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:22672 original size:33 final size:33
Alignment explanation
Indices: 22630--22694 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
22620 TACCCAAACT
* *
22630 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
22663 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
22695 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:26302 original size:13 final size:13
Alignment explanation
Indices: 26284--26308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26274 CATAAAATGT
26284 TGTATCGATACAA
1 TGTATCGATACAA
26297 TGTATCGATACA
1 TGTATCGATACA
26309 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:26306 original size:33 final size:33
Alignment explanation
Indices: 26264--26333 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
26254 TTCAACGATT
26264 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
26297 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
26330 TGTA
1 TGTA
26334 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:26393 original size:13 final size:13
Alignment explanation
Indices: 26375--26399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26365 ATTACTCACA
26375 TGTATCGATACAT
1 TGTATCGATACAT
26388 TGTATCGATACA
1 TGTATCGATACA
26400 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:26464 original size:52 final size:52
Alignment explanation
Indices: 26408--26532 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
26398 CACTGATCTT
*
26408 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
26460 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTATA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
26512 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
26533 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:32412 original size:13 final size:13
Alignment explanation
Indices: 32394--32432 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
32384 ACATTTTTCT
32394 TTGTATCGATACA
1 TTGTATCGATACA
32407 TTGTATCGATACA
1 TTGTATCGATACA
*
32420 CTGTATCGATACA
1 TTGTATCGATACA
32433 GGGGGATTAT
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:35010 original size:13 final size:13
Alignment explanation
Indices: 34992--35017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34982 ACACCAAAGT
34992 ATGTATCGATACA
1 ATGTATCGATACA
35005 ATGTATCGATACA
1 ATGTATCGATACA
35018 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:35030 original size:33 final size:33
Alignment explanation
Indices: 34973--35037 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
34963 TAGCCAAACT
* *
34973 TGTATCGATACACCAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
*
35006 TGTATCGATACACAAAAA-ATTGTATTGATACA
1 TGTATCGATACACAAAAATA-TGTATCGATACA
35038 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:39202 original size:20 final size:20
Alignment explanation
Indices: 39156--39212 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
39146 ACTGCTAAGG
*
39156 AAATGTATCGATACATTAGT
1 AAATGTATCGATACATTACT
*
39176 AAATGTATCGATACATTTCT
1 AAATGTATCGATACATTACT
* * *
39196 CATTGTATCAATACATT
1 AAATGTATCGATACATT
39213 CTGGGTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:41823 original size:21 final size:21
Alignment explanation
Indices: 41799--41839 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
41789 ATCCATATAT
41799 GTCTCTAATATTGTCATTTTG
1 GTCTCTAATATTGTCATTTTG
41820 GTCTCTAATATTGTCATTTT
1 GTCTCTAATATTGTCATTTT
41840 TGTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.54
Consensus pattern (21 bp):
GTCTCTAATATTGTCATTTTG
Found at i:47652 original size:22 final size:21
Alignment explanation
Indices: 47610--47656 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
47600 GCTCTTGGTG
*
47610 ATATTTGCATTTTTTTATTAT
1 ATATTTGCATTGTTTTATTAT
47631 CATATTTGC-TTGTTTTATTTAT
1 -ATATTTGCATTGTTTTA-TTAT
47653 ATAT
1 ATAT
47657 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.64
Consensus pattern (21 bp):
ATATTTGCATTGTTTTATTAT
Found at i:51443 original size:55 final size:54
Alignment explanation
Indices: 51350--51834 Score: 435
Period size: 55 Copynumber: 8.8 Consensus size: 54
51340 TGGCATTTCT
* * *
51350 TTTTAAAGTCCACGACTCCATTGCATCC-TTTTAAGTCCACAACTCTGTGGCATCC
1 TTTTAAAGTCCACAACT-CGTGGCA-CCTTTTTAAGTCCACAACTCTGTGGCATCC
* *
51405 TTTT-AAGTCCACAACATCGTGGCATCCTTTTTAAGTCCATAATTCTGTGGCATCC
1 TTTTAAAGTCCACAAC-TCGTGGCA-CCTTTTTAAGTCCACAACTCTGTGGCATCC
* *
51460 TTTTAAAGTCCATAACTCCGTGACATCC-TTTTAAGTCCACAACT-TAGTGGCATCC
1 TTTTAAAGTCCACAACT-CGTGGCA-CCTTTTTAAGTCCACAACTCT-GTGGCATCC
* * *
51515 TTTT-AAGTCCACAACTTTGTGGCACCTTGTTAAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGTCCACAAC-TCGTGGCACCTT-TTTAAGTCCACAACTCTGTGGCATCC
* ** * * *
51570 TTCT-AAGTCCACAACTTTATGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCT
1 TTTTAAAGTCCACAAC-TCGTGGCA-CCTTTTTAAGTCCACAACTCTGTGGCATCC
* * * * *
51625 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAATTCCACAACTCCGTGGTACCC
1 TTTTAAAGTCCACAACTC-GTGGCA-CCTTTTTAAGTCCACAACTCTGTGGCATCC
** * * * * * *
51681 TTTTAAAGTTTAGAGCTCCATGGCACCCTTTTAAAGTCCACAAGTCTGTGGCACCC
1 TTTTAAAGTCCACAACT-CGTGGCA-CCTTTTTAAGTCCACAACTCTGTGGCATCC
* * * * * *
51737 TTTTAAAGTCCATAAGTCCGTGGCACCTTTTTAAAGTCTACAACTCTATGACACCC
1 TTTTAAAGTCCACAACT-CGTGGCACCTTTTT-AAGTCCACAACTCTGTGGCATCC
51793 TTTT-AAGTCCACAACTTCGTGGCACTCTTTTTAAGTCCACAA
1 TTTTAAAGTCCACAAC-TCGTGGCAC-CTTTTTAAGTCCACAA
51835 GTCAATGGCA
Statistics
Matches: 367, Mismatches: 47, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
53 2 0.01
54 35 0.10
55 169 0.46
56 160 0.44
57 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.32
Consensus pattern (54 bp):
TTTTAAAGTCCACAACTCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCC
Found at i:51843 original size:28 final size:28
Alignment explanation
Indices: 51377--52992 Score: 679
Period size: 28 Copynumber: 57.2 Consensus size: 28
51367 CCATTGCATC
* *
51377 CTTTT-AAGTCCACAACTCTGTGGCA-T
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
*
51403 CCTTTT-AAGTCCACAACATC-GTGGCA-T
1 -CTTTTAAAGTCCACAA-GTCAGTGGCACT
* * * *
51430 CCTTTTTAAGTCCATAATTCTGTGGCA-T
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
* * * *
51458 CCTTTTAAAGTCCATAACTCCGTGACA-T
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
* *
51486 CCTTTT-AAGTCCACAACTTAGTGGCA-T
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
* **
51513 CCTTTT-AAGTCCACAACTTTGTGGCAC-
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
* *
51540 CTTGTTAAAGTCCACAACTCCGTGGCA-T
1 CTT-TTAAAGTCCACAAGTCAGTGGCACT
* * * *
51568 CCTTCT-AAGTCCACAACTTTA-TGGCACC
1 -CTTTTAAAGTCCACAA-GTCAGTGGCACT
* *
51596 CTTTTAAAGTCCACAACTCCGTGGCA-T
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
* * *
51623 CTTTTTAAAGTCCACAACTCTGTGGCACC
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* * * * *
51652 CTTTTAAATTCCACAACTCCGTGGTACC
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
** * *
51680 CTTTTAAAGTTTA-GAGCTCCA-TGGCACC
1 CTTTTAAAGTCCACAAG-T-CAGTGGCACT
* *
51708 CTTTTAAAGTCCACAAGTCTGTGGCACC
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
* *
51736 CTTTTAAAGTCCATAAGTCCGTGGCAC-
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
* * * *
51763 CTTTTTAAAGTCTACAACTCTA-TGACACC
1 C-TTTTAAAGTCCACAAGTC-AGTGGCACT
*
51792 CTTTT-AAGTCCACAACTTC-GTGGCACT
1 CTTTTAAAGTCCACAA-GTCAGTGGCACT
* * *
51819 CTTTTTAAGTCCACAAGTCAATGGCATTCC
1 CTTTTAAAGTCCACAAGTCAGTGGCA--CT
* * * *
51849 CTTCTAAAGCCCACAAGTTAGTGGCACC
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
51877 CTTTTCAAAG-CTCACAAGTCAGTGGCACT
1 CTTTT-AAAGTC-CACAAGTCAGTGGCACT
*
51906 CTTTTCAAAGTCCACACAAGTCGGTGGCAACT
1 CTTTT-AAAGT-C-CACAAGTCAGTGGC-ACT
* * *
51938 CTTTTCAAAGCCCACAAGTCAATGGCATTCC
1 CTTTT-AAAGTCCACAAGTCAGTGGCA--CT
* * *
51969 CTTCTAAAG-CCTACAAGTTAGTGGCACC
1 CTTTTAAAGTCC-ACAAGTCAGTGGCACT
* *
51997 CTTTTCAAAG-CTTACAAGTTAGTGGCACT
1 CTTTT-AAAGTC-CACAAGTCAGTGGCACT
*
52026 CTTTTCAAAGTCCACACAAGTCGGTGGCAACT
1 CTTTT-AAAGT-C-CACAAGTCAGTGGC-ACT
* *
52058 CTTTTCAAAGCCCACAAGTCAATGGCA-T
1 CTTTT-AAAGTCCACAAGTCAGTGGCACT
* * * * *
52086 CATTTCAAAGCCCATAAATCAGTGACA-T
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* * *
52114 CATTTCAAAG-CCTAAAAGTCAGGGGCA-T
1 C-TTTTAAAGTCC-ACAAGTCAGTGGCACT
* *
52142 CATTTCAAAGCCCACAAGTCAGTGGCA-T
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* * *
52170 CATTTCAAAGCCCACAAGTCAATGGCA-T
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* *
52198 CTTTTCAAAGCCCACAACTCAGTGGCAC-
1 CTTTT-AAAGTCCACAAGTCAGTGGCACT
* * *
52226 CATTTCAAAGCCCATAAGTCAGTGGCAC-
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* * *
52254 CATTTCAAAGCCCACAAGTCAGTGTCA-T
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* * **
52282 CCTTTCAAAG-CCAACAAGTTAGAAGCA-T
1 -CTTTTAAAGTCC-ACAAGTCAGTGGCACT
*
52310 CCTTTTAAAGCCCACAAGTCAGTGGCA-T
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
* ** *
52338 CATTTCAAACCCCACAAGTTAGTGGCACT
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* ** * *
52367 ATTACAAAGCCCACAAGTCAGCGGCA-T
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
* *
52394 CCTTTCAAAGCCCACAAGTCAGTGGCA-T
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
*
52422 CATTTCAAAG-CTCACAAGTCAGTGGCAC-
1 C-TTTTAAAGTC-CACAAGTCAGTGGCACT
* ** * *
52450 CATTTCAAAACCCATAAGTCAGTGGC-GT
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* ** *
52478 CTTTTCAAAGCCCATGAGTTAGTGGCA-T
1 CTTTT-AAAGTCCACAAGTCAGTGGCACT
* * *
52506 CATTTCAAAGCCCACGAGTCAGTGGCA-T
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* *
52534 CATTTCAAAGCCCACGAA-TCAGTGGCA-T
1 C-TTTTAAAGTCCAC-AAGTCAGTGGCACT
* *
52562 CATTTCAAAGCCCACAAGTCAGTGGCAGC-
1 C-TTTTAAAGTCCACAAGTCAGTGGCA-CT
* * *
52591 ATTTCAAAGCCCACAAGTCAGTGGCAC-
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
* * ** *
52618 CATTTCAAAGCCCATGAGTTAGTGGCA-T
1 C-TTTTAAAGTCCACAAGTCAGTGGCACT
* *
52646 CCTTTCAAAGCCCACAAGTCAGTGGCA-T
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
* *
52674 CCTTTCAAAGCCCACAAGTCAGTGGCA-T
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
* * * * *
52702 CCTTTCAAAG-CCTACAGGTTAGTAGTA-T
1 -CTTTTAAAGTCC-ACAAGTCAGTGGCACT
* *
52730 CCTTTTAATGCCCACAAGTCAGTGGCA-T
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
*
52758 CATTTCAAAGTCCACAAGTCAGTGGCAAC-
1 C-TTTTAAAGTCCACAAGTCAGTGGC-ACT
* * * *
52787 ATTTAAAAGCCCACAAGTCAGTAGCACT
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
* * * * *
52815 ATTTCAAAGCCCATAAGTTAGTGGCA-T
1 CTTTTAAAGTCCACAAGTCAGTGGCACT
*
52842 CATTTCAAAG-CCTACAAGTCAGTGGCA-T
1 C-TTTTAAAGTCC-ACAAGTCAGTGGCACT
* * * *
52870 CCTTTCAAAGCCCATAAGTCAGTGGTA-T
1 -CTTTTAAAGTCCACAAGTCAGTGGCACT
* ** * *
52898 CATTTCAAAACCCACAAGTCAATGGCATACC
1 C-TTTTAAAGTCCACAAGTCAGTGGC--ACT
* * * *
52929 CTTTCAAAGCCCATACAAGTCGGTAGCAACT
1 CTTTTAAAGTCC--ACAAGTCAGTGGC-ACT
*
52960 CTTTTCAAA-TCACACAAGTTAGTGGCAC-
1 CTTTT-AAAGTC-CACAAGTCAGTGGCACT
52988 CTTTT
1 CTTTT
52993 TTTTAAAAGC
Statistics
Matches: 1322, Mismatches: 181, Indels: 171
0.79 0.11 0.10
Matches are distributed among these distances:
26 3 0.00
27 145 0.11
28 913 0.69
29 97 0.07
30 83 0.06
31 41 0.03
32 40 0.03
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (28 bp):
CTTTTAAAGTCCACAAGTCAGTGGCACT
Found at i:52133 original size:56 final size:56
Alignment explanation
Indices: 51829--52986 Score: 1224
Period size: 56 Copynumber: 20.3 Consensus size: 56
51819 CTTTTTAAGT
* ** * * *
51829 CCACAAGTCAATGGCATTCCCTTCTAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGC
1 CCACAAGTCAGTGGCA-TCATTTC-AAAGCCCACAAGTCAGTGGCA-TCATTTCAAAGC
* * * *
51888 TCACAAGTCAGTGGCACTCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCA-TCATTTCAAAG-CC-CACAAGTCAGTGGC-A-TCATTTCAAAGC
* ** * * * *
51949 CCACAAGTCAATGGCATTCCCTTCTAAAGCCTACAAGTTAGTGGCACCCTTTTCAAAGC
1 CCACAAGTCAGTGGCA-TCATTTC-AAAGCCCACAAGTCAGTGGCA-TCATTTCAAAGC
** * * * *
52008 TTACAAGTTAGTGGCACTCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCAAAGC
1 CCACAAGTCAGTGGCA-TCATTTCAAAG-CC-CACAAGTCAGTGGC-A-TCATTTCAAAGC
* * * *
52069 CCACAAGTCAATGGCATCATTTCAAAGCCCATAAATCAGTGACATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * *
52125 CTAAAAGTCAGGGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * * *
52181 CCACAAGTCAATGGCATCTTTTCAAAGCCCACAACTCAGTGGCACCATTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * * *
52237 CCATAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGTCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * ** * * *
52293 CAACAAGTTAGAAGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCATTTCAAACC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * * *
52349 CCACAAGTTAGTGGCA-CTATTACAAAGCCCACAAGTCAGCGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATC-ATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * *
52405 CCACAAGTCAGTGGCATCATTTCAAAGCTCACAAGTCAGTGGCACCATTTCAAAAC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * * ** *
52461 CCATAAGTCAGTGGCGTCTTTTCAAAGCCCATGAGTTAGTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
*
52517 CCACGAGTCAGTGGCATCATTTCAAAGCCCACGAA-TCAGTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCAC-AAGTCAGTGGCATCATTTCAAAGC
* *
52573 CCACAAGTCAGTGGCAGCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
** * * *
52629 CCATGAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * * * * * * * *
52685 CCACAAGTCAGTGGCATCCTTTCAAAGCCTACAGGTTAGTAGTATCCTTTTAATGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * *
52741 CCACAAGTCAGTGGCATCATTTCAAAGTCCACAAGTCAGTGGCAACATTTAAAAGC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * *
52797 CCACAAGTCAGTAGCA-CTATTTCAAAGCCCATAAGTTAGTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATC-ATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * * * *
52853 CTACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGTATCATTTCAAAAC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
* * * * * *
52909 CCACAAGTCAATGGCATACCCTTTCAAAGCCCATACAAGTCGGTAGCAACTCTTTTCAAATC
1 CCACAAGTCAGTGGCAT--CATTTCAAAGCCC--ACAAGTCAGTGGC-A-TCATTTCAAAGC
* *
52971 ACACAAGTTAGTGGCA
1 CCACAAGTCAGTGGCA
52987 CCTTTTTTTT
Statistics
Matches: 923, Mismatches: 157, Indels: 35
0.83 0.14 0.03
Matches are distributed among these distances:
55 4 0.00
56 689 0.75
57 4 0.00
58 31 0.03
59 55 0.06
60 53 0.06
61 60 0.07
62 27 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (56 bp):
CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGC
Found at i:52159 original size:84 final size:84
Alignment explanation
Indices: 51829--52986 Score: 1224
Period size: 84 Copynumber: 13.5 Consensus size: 84
51819 CTTTTTAAGT
* ** * * * *
51829 CCACAAGTCAATGGCATTCCCTTCTAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCTCACAA
1 CCACAAGTCAGTGGCA-TCATTTC-AAAGCCCACAAGTCAGTGGCA-TCATTTCAAAGCCCACAA
*
51894 GTCAGTGGCACTCTTTTCAAAGTC
63 GTCAGTGGCA-TCATTTCAAAG-C
* * * ** *
51918 CACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAATGGCATTCCCTTCTAAAGCCTAC
1 C-CACAAGTCAGTGGC-A-TCATTTCAAAGCCCACAAGTCAGTGGCA-TCATTTC-AAAGCCCAC
* * *
51983 AAGTTAGTGGCACCCTTTTCAAAGC
61 AAGTCAGTGGCA-TCATTTCAAAGC
** * * * *
52008 TTACAAGTTAGTGGCACTCTTTTCAAAGTCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCAC
1 CCACAAGTCAGTGGCA-TCATTTCAAAG-CC-CACAAGTCAGTGGC-A-TCATTTCAAAGCCCAC
*
52073 AAGTCAATGGCATCATTTCAAAGC
61 AAGTCAGTGGCATCATTTCAAAGC
* * * * * *
52097 CCATAAATCAGTGACATCATTTCAAAGCCTAAAAGTCAGGGGCATCATTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
52162 AGTGGCATCATTTCAAAGC
66 AGTGGCATCATTTCAAAGC
* * * * *
52181 CCACAAGTCAATGGCATCTTTTCAAAGCCCACAACTCAGTGGCACCATTTCAAAGCCCATAAGTC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
*
52246 AGTGGCACCATTTCAAAGC
66 AGTGGCATCATTTCAAAGC
* * * * ** * *
52265 CCACAAGTCAGTGTCATCCTTTCAAAGCCAACAAGTTAGAAGCATCCTTTTAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
*
52330 AGTGGCATCATTTCAAACC
66 AGTGGCATCATTTCAAAGC
* * * *
52349 CCACAAGTTAGTGGCA-CTATTACAAAGCCCACAAGTCAGCGGCATCCTTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATC-ATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGT
52413 CAGTGGCATCATTTCAAAGC
65 CAGTGGCATCATTTCAAAGC
* * * * * * ** *
52433 TCACAAGTCAGTGGCACCATTTCAAAACCCATAAGTCAGTGGCGTCTTTTCAAAGCCCATGAGTT
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
52498 AGTGGCATCATTTCAAAGC
66 AGTGGCATCATTTCAAAGC
*
52517 CCACGAGTCAGTGGCATCATTTCAAAGCCCACGAA-TCAGTGGCATCATTTCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCAC-AAGTCAGTGGCATCATTTCAAAGCCCACAAGT
*
52581 CAGTGGCAGCATTTCAAAGC
65 CAGTGGCATCATTTCAAAGC
* ** * *
52601 CCACAAGTCAGTGGCACCATTTCAAAGCCCATGAGTTAGTGGCATCCTTTCAAAGCCCACAAGTC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
*
52666 AGTGGCATCCTTTCAAAGC
66 AGTGGCATCATTTCAAAGC
* * * * * * * * *
52685 CCACAAGTCAGTGGCATCCTTTCAAAGCCTACAGGTTAGTAGTATCCTTTTAATGCCCACAAGTC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
*
52750 AGTGGCATCATTTCAAAGT
66 AGTGGCATCATTTCAAAGC
* * * *
52769 CCACAAGTCAGTGGCAACATTTAAAAGCCCACAAGTCAGTAGCA-CTATTTCAAAGCCCATAAGT
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATC-ATTTCAAAGCCCACAAGT
*
52833 TAGTGGCATCATTTCAAAGC
65 CAGTGGCATCATTTCAAAGC
* * * * *
52853 CTACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGTATCATTTCAAAACCCACAAGTC
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
* *
52918 AATGGCATACCCTTTCAAAGC
66 AGTGGCAT--CATTTCAAAGC
* * * * * *
52939 CCATACAAGTCGGTAGCAACTCTTTTCAAATCACACAAGTTAGTGGCA
1 CC--ACAAGTCAGTGGC-A-TCATTTCAAAGCCCACAAGTCAGTGGCA
52987 CCTTTTTTTT
Statistics
Matches: 897, Mismatches: 154, Indels: 35
0.83 0.14 0.03
Matches are distributed among these distances:
83 3 0.00
84 668 0.74
85 5 0.01
86 21 0.02
87 2 0.00
88 34 0.04
89 35 0.04
90 88 0.10
91 41 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (84 bp):
CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTC
AGTGGCATCATTTCAAAGC
Found at i:53536 original size:17 final size:16
Alignment explanation
Indices: 53514--53545 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
53504 ACTTATTTGA
53514 AAAAAATACAAAAAAAT
1 AAAAAATA-AAAAAAAT
53531 AAAAAATAAAAAAAA
1 AAAAAATAAAAAAAA
53546 GAAAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:54800 original size:49 final size:49
Alignment explanation
Indices: 54650--55765 Score: 675
Period size: 48 Copynumber: 23.7 Consensus size: 49
54640 GAATGACAAC
* * ** * *
54650 ATGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAA--TGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* ** * * * * *
54697 GTGCTGAGACAAGGCCAGCGACATTAGG-CTTAGGAATGTTAAAGATGCCAAT
1 ATGCTGATTCAAGGCCAGCGATA-TCGGACTTA--AA-GATGAAGGTGCCAAT
* * * *
54749 ATGCTAATTCAAGGCCAACGATGTCGGACTTAAAGGTGAAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
** *
54798 ATGCTGATTCAAGGCCAGCGATAAT-GGTTTTAAAGATAAAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGAT-ATCGGACTTAAAGATGAAGGTGCCAAT
*
54847 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * * * * * *
54896 GTCCTTATTCAAGCCCAGCGACATTGGACTTAAAAATGGTTAAGGTGTCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAT-G--AAGGTGCCAAT
* * * * *
54948 GTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * *
54997 ATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----CTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * *
55036 ATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAAGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * *
55084 ATGTTGATTCAAGGCCAGCGATATTGGGC-T-----T--A--TGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * * * *
55123 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * *
55171 ATGCTGATTCAAGGCCAGCGATATTGGAC-TCATGATGGTAAAGGTGTCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAT-G--AAGGTGCCAAT
*
55222 ATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * * *
55265 GTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGA-CAAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
*
55313 ATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * * * **
55356 GTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGCACCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * *
55404 ATGCTGATTCAAGGCTAGCGATATTGGAC-TCAAGATGGTAAAGGTGTCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAT-G--AAGGTGCCAAT
* *
55455 ATGCTAATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * * * * *
55498 GTGCTTATTCAAGGCTAACGACATTGGACTTAAAGA-CAAGGTGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * * *
55546 ATGTTGATTCAAGGCTAGAGATATTGGACTT----A--AAGGTGCTAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * * * * *
55589 GTGCTGATTCAAAGCCAGCGACATTGGTCTTAAAGA-CAAGATGCCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* * * * *
55637 ATGCTGATTCAAGGCCAACGATATTGGA-GTCAAGATGGTAAAGGTGTCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAT-G--AAGGTGCCAAT
* ** * * *
55688 ATGCTGATTCAATGCCATTGATATTGGA-TT-----TAAAGGTGTCAAT
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
* *
55731 GTGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAG
55766 GTGAGAAAAA
Statistics
Matches: 860, Mismatches: 139, Indels: 139
0.76 0.12 0.12
Matches are distributed among these distances:
39 66 0.08
40 2 0.00
41 1 0.00
42 1 0.00
43 183 0.21
44 4 0.00
45 1 0.00
46 2 0.00
47 40 0.05
48 214 0.25
49 159 0.18
50 7 0.01
51 113 0.13
52 67 0.08
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAAT
Found at i:55340 original size:91 final size:90
Alignment explanation
Indices: 55116--55765 Score: 587
Period size: 91 Copynumber: 6.9 Consensus size: 90
55106 ATTGGGCTTA
* * *
55116 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATATGCTGATTC
**
55181 AAGGCCAGCGATATTGGACTCATGATGGTAAAGG
61 AAGGCCAGCGATATTGGACT--T-AAAG-AAAGG
* *
55215 TGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGC
* *
55280 TAGCGACATTGGACTTAAAGACAAGG
66 CAGCGATATTGGACTTAAAGA-AAGG
*
55306 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGC
* *
55371 CAGCGACATTGGTCTTAAAGACAAGG
66 CAGCGATATTGGACTTAAAGA-AAGG
** * * *
55397 CACCAATATGCTGATTCAAGGCTAGCGATATTGGACTCAAGATGGTAAAGGTGTCAATATGCTAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGA--C----T--TAAAGGTGCCAATATGCTGA
55462 TTCAAGGCCAGCGATATTGGACTT----AAAGG
58 TTCAAGGCCAGCGATATTGGACTTAAAGAAAGG
* * * * * *
55491 TGCCAATGTGCTTATTCAAGGCTAACGACATTGGACTTAAAGACAAGGTGCCAATATGTTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATATGCTGATTC
* *
55556 AAGGCTAGAGATATTGGACTT----AAAGG
61 AAGGCCAGCGATATTGGACTTAAAGAAAGG
* * * * *
55582 TGCTAATGTGCTGATTCAAAGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG----G-TGCCAATATGCTGATTC
* * *
55647 AAGGCCAACGATATTGGAGTCAAGATGGTAAAGG
61 AAGGCCAGCGATATTGGACTTAA-A--G-AAAGG
* * ** * * *
55681 TGTCAATATGCTGATTCAATGCCATTGATATTGGATTTAAAGGTGTCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGC
55746 CAGCGATATTGGACTTAAAG
66 CAGCGATATTGGACTTAAAG
55766 GTGAGAAAAA
Statistics
Matches: 467, Mismatches: 57, Indels: 62
0.80 0.10 0.11
Matches are distributed among these distances:
86 4 0.01
87 1 0.00
88 1 0.00
90 3 0.01
91 233 0.50
92 2 0.00
93 2 0.00
94 106 0.23
95 3 0.01
97 1 0.00
99 111 0.24
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (90 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGC
CAGCGATATTGGACTTAAAGAAAGG
Found at i:55426 original size:233 final size:233
Alignment explanation
Indices: 54787--55765 Score: 1287
Period size: 233 Copynumber: 4.2 Consensus size: 233
54777 CTTAAAGGTG
* * * ** *
54787 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATAATGGTTTTAAAGATAAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-CAAGGTGCCAATATGCT
* * * *
54852 GATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTCCTTATTCAAGCCCAGCGA
65 GATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCGA
* ** * * * ** * *
54917 CATTGGACTTAAAAATGGTTAAGGTGTCAATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAA
124 CATTGGTCTT--AAA--GACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-TCAA
* *
54982 GAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-
184 GATGGTAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * * * *
55028 ---CTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGTGCCAATATGTTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTG
*
55090 ATTCAAGGCCAGCGATATTGGGCTT--A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
66 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
* * *
55151 CTTAGAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCATGATGGTAAAGGT
131 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTCAAGATGGTAAAGGT
55216 GTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
196 GTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
*
55254 AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTG
55319 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
66 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
** * *
55384 CTTAAAGACAAGGCACCAATATGCTGATTCAAGGCTAGCGATATTGGACTCAAGATGGTAAAGGT
131 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTCAAGATGGTAAAGGT
*
55449 GTCAATATGCTAATTCAAGGCCAGCGATATTGGACTTA
196 GTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * *
55487 AAGGTGCCAATGTGCTTATTCAAGGCTAACGACATTGGACTTAAAGACAAGGTGCCAATATGTTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTG
* * * *
55552 ATTCAAGGCTAGAGATATTGGACTTAAAGGTGCTAATGTGCTGATTCAAAGCCAGCGACATTGGT
66 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
* *
55617 CTTAAAGACAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGAGTCAAGATGGTAAAGGT
131 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTCAAGATGGTAAAGGT
* ** *
55682 GTCAATATGCTGATTCAATGCCATTGATATTGGATTTA
196 GTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* *
55720 AAGGTGTCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
55766 GTGAGAAAAA
Statistics
Matches: 663, Mismatches: 64, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
222 5 0.01
223 35 0.05
225 42 0.06
227 34 0.05
229 79 0.12
231 1 0.00
233 389 0.59
237 38 0.06
238 40 0.06
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (233 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTCAAGATGGTAAAGGT
GTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:55485 original size:142 final size:137
Alignment explanation
Indices: 55029--55768 Score: 592
Period size: 142 Copynumber: 5.3 Consensus size: 137
55019 ATTGGGCTTC
* * * *
55029 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGTGCCAATATGTTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG-----GTGCCAATGTGCTGATTC
* * * * * *
55094 AAGGCCAGCGATATTGGGCTT-------ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTC
61 AAGGCCAGCGACATTGGACTTAAAGACAAGGCCAATATGCTGATTCAAGGCTAGCGACATTGGAC
*
55152 TTAGAGACAAGG
126 TAAGAGACAAGG
* *
55164 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCATGATGGTAAAGGTGTCAATATGCTGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGA--C----T--TAAAGGTGCCAATGTGCTGA
* *
55229 TTCAAGGCCAGCGATATTGGACTTAAAG----GTGCCAATGTGCTGATTCAAGGCTAGCGACATT
58 TTCAAGGCCAGCGACATTGGACTTAAAGACAAG-GCCAATATGCTGATTCAAGGCTAGCGACATT
55290 GGACTTAA-AGACAAGG
122 GGAC-TAAGAGACAAGG
55306 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
* *
55371 CAGCGACATTGGTCTTAAAGACAAGGCACCAATATGCTGATTCAAGGCTAGCGATATTGGACTCA
66 CAGCGACATTGGACTTAAAGACAAGG--CCAATATGCTGATTCAAGGCTAGCGACATTGGACT-A
55436 AGATGGTA-AAGG
128 AGA--G-ACAAGG
* * *
55448 TGTCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTTATTCAAGGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
* * * * *
55513 TAACGACATTGGACTTAAAGACAAGGTGCCAATATGTTGATTCAAGGCTAGAGATATTGGACT--
66 CAGCGACATTGGACTTAAAGACAA-G-GCCAATATGCTGATTCAAGGCTAGCGACATTGGACTAA
*
55576 --TA-AAGG
129 GAGACAAGG
* * * * * *
55582 TGCTAATGTGCTGATTCAAAGCCAGCGACATTGGTCTTAAAGACAAGATGCCAATATGCTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG----G-TGCCAATGTGCTGATTC
* * * * * * * ** *
55647 AAGGCCAACGATATTGGAGTCAAGATGGTA-AAGGTGTCAATATGCTGATTCAATGCCATTGATA
61 AAGGCCAGCGACATTGGACTTAA-A--G-ACAA-G-GCCAATATGCTGATTCAAGGCTAGCGACA
**
55711 TTGGA-T---TTA-AAGG
120 TTGGACTAAGAGACAAGG
* *
55724 TGTCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
55769 AGAAAAAAGA
Statistics
Matches: 520, Mismatches: 48, Indels: 72
0.81 0.08 0.11
Matches are distributed among these distances:
134 84 0.16
135 33 0.06
136 1 0.00
137 4 0.01
138 40 0.08
139 68 0.13
140 3 0.01
141 2 0.00
142 274 0.53
143 10 0.02
144 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (137 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGC
CAGCGACATTGGACTTAAAGACAAGGCCAATATGCTGATTCAAGGCTAGCGACATTGGACTAAGA
GACAAGG
Found at i:55931 original size:33 final size:33
Alignment explanation
Indices: 55785--56346 Score: 438
Period size: 33 Copynumber: 17.7 Consensus size: 33
55775 AAGATAAATG
* *
55785 GATGCCACGGAGGTGTAGG-CTTAAAAGGGAAAAG
1 GATGCCACGGAGTTGT-GGACTTAAAA-GGAAAAA
* * *
55819 GGTGCCACGGAGTCGTGGACTTAAAAAGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
55852 G-TGCCATGGAGTTGTGGATTTAAAAGGAACAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * * * *
55884 GGTGTCGCAGAGTTGTGGACGTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
***
55917 GATGCCATAAAGTTGTGGACTTAAAAGG-----
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
55945 G-TGCCACGGAGTTGTGCACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * * *
55977 GAGTGCCATGAAGTTGTGGACTCAAAAGGAACAA
1 GA-TGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
56011 GGTGCCACGAAGTTGTGGACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
56044 GATGCCACGGAATTGTGGACTTAAAAGG-----
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* **
56072 G-TACCATAGAGTTGTGGACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* ** * *
56104 GAGTACCACAAAGTTGTAGACTTAAAAGGAACAA
1 GA-TGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
56138 GGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
56171 GATGCCACAGAGTTGTGGACATAAAAGG-----
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
56199 G-TGCCACGAAGTTGTGGACATAAAAGG-----
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
56226 G-TGCCACGAAATTATGGACTTAAAAGGAAAAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* ** *
56258 GAGTGCCATGGAGTCATGGACTTAAAAGGAACAA
1 GA-TGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * * *
56292 GGTGCCATGGAGTCGTGGACTTAAAAGGAACAA
1 GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
56325 GGTGCCATGGAGTTGTGGACTT
1 GATGCCACGGAGTTGTGGACTT
56347 TGAGAAGAGA
Statistics
Matches: 434, Mismatches: 71, Indels: 47
0.79 0.13 0.09
Matches are distributed among these distances:
27 92 0.21
28 3 0.01
32 30 0.07
33 207 0.48
34 102 0.24
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.19
Consensus pattern (33 bp):
GATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
Found at i:55950 original size:27 final size:27
Alignment explanation
Indices: 55919--55971 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
55909 AGGAAAAAGA
* *
55919 TGCCATAAAGTTGTGGACTTAAAAGGG
1 TGCCACAAAGTTGTGCACTTAAAAGGG
**
55946 TGCCACGGAGTTGTGCACTTAAAAGG
1 TGCCACAAAGTTGTGCACTTAAAAGG
55972 AAAAAGAGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
TGCCACAAAGTTGTGCACTTAAAAGGG
Found at i:56024 original size:94 final size:93
Alignment explanation
Indices: 55806--56319 Score: 373
Period size: 94 Copynumber: 5.4 Consensus size: 93
55796 GGTGTAGGCT
* * * * * *
55806 TAAAAGGGAAAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAAAGTGCCATGGAGTTGTGGAT
1 TAAAA-GGAAAAAGGTGCCACGAAGTTGTGGACTT-AAAAG----GGTGCCACGGAGTTGTGGAC
*
55871 TTAAAAGGAACAAG-GTGTCGCA-G-AGTTGTGGAC
60 TTAAAAGGAAAAAGAGTG-C-CATGAAGTTGTGGAC
* ** *
55904 GTAAAAGGAAAAAGATGCCATAAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGCACTTAAA
1 -TAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA
55969 AGGAAAAAGAGTGCCATGAAGTTGTGGAC
65 AGGAAAAAGAGTGCCATGAAGTTGTGGAC
* *
55998 TCAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAATTGTGGA
1 T-AAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG-----G-TGCCACGGAGTTGTGGA
*
56063 CTTAAAA-G-----G-GTACCAT-AGAGTTGTGGAC
59 CTTAAAAGGAAAAAGAGTGCCATGA-AGTTGTGGAC
* * *
56091 TTAAAAGGAAAAAGAGTACCACAAAGTTGTAGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGG
1 -TAAAAGGAAAAAG-GTGCCACGAAGTTGTGGACTTAAAA-G-----GGTGCCACGGAGTTGTGG
* *
56156 GCTTAAAAGGAAAAAGA-TGCCA-CAGAGTTGTGGAC
58 ACTTAAAAGGAAAAAGAGTGCCATGA-AGTTGTGGAC
* * * *
56191 ATAAAA-G-----GGTGCCACGAAGTTGTGGACATAAAAGGGTGCCACGAAATTATGGACTTAAA
1 -TAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA
* **
56250 AGGAAAAAGAGTGCCATGGAGTCATGGAC
65 AGGAAAAAGAGTGCCATGAAGTTGTGGAC
* * * *
56279 TTAAAAGGAACAAGGTGCCATGGAGTCGTGGACTTAAAAGG
1 -TAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
56320 AACAAGGTGC
Statistics
Matches: 337, Mismatches: 43, Indels: 75
0.74 0.09 0.16
Matches are distributed among these distances:
87 31 0.09
88 18 0.05
89 1 0.00
92 4 0.01
93 80 0.24
94 119 0.35
95 3 0.01
97 5 0.01
98 23 0.07
99 8 0.02
100 45 0.13
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (93 bp):
TAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
GGAAAAAGAGTGCCATGAAGTTGTGGAC
Found at i:56025 original size:127 final size:126
Alignment explanation
Indices: 55814--56319 Score: 566
Period size: 127 Copynumber: 4.0 Consensus size: 126
55804 CTTAAAAGGG
* * * *
55814 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAAG-AAAA-AGTGCCATGGAGTTGTGGATTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGAAGTTGTGGACTTAAAA
* *
55877 GGAACAAGGTGTCGCA-GAGTTGTGGACGTAAAAGGAAAAAGATGCCATAAAGTTGTGGACTT
66 GGAACAAGGTG-C-CACGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAAAGTTGTGGACTT
* *
55939 AAAAGGGTGCCACGGAGTTGTGCACTTAAAAGGAAAAAGAGTGCCATGAAGTTGTGGACTCAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGAAGTTGTGGACTTAAAA
*
56004 GGAACAAGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAA-TTGTGGACTT
66 GGAACAAGGTGCCACG-AGTTGTGGACTTAAAAGGAAAAAGATGCCAC-AAAGTTGTGGACTT
* ** * ** *
56066 AAAAGGGTACCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTACCACAAAGTTGTAGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGAAGTTGTGGACTTAAAA
* * *
56131 GGAACAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACAT
66 GGAACAAGGTGCCAC-GAGTTGTGGACTTAAAAGGAAAAAGATGCCACAAAGTTGTGGACTT
* * * * *
56193 AAAAGGGTGCCACGAAGTTGTGGACATAAAA-G-----G-GTGCCACGAAATTATGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGAAGTTGTGGACTTAAAA
* * ** * * *** *
56251 GGAAAAAGAGTGCCATGGAGTCATGGACTTAAAAGGAACAAGGTGCCATGGAGTCGTGGACTT
66 GGAACAAG-GTGCCA-CGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAAAGTTGTGGACTT
56314 AAAAGG
1 AAAAGG
56320 AACAAGGTGC
Statistics
Matches: 329, Mismatches: 43, Indels: 22
0.84 0.11 0.06
Matches are distributed among these distances:
120 27 0.08
121 50 0.15
125 32 0.10
126 8 0.02
127 209 0.64
128 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (126 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGAAGTTGTGGACTTAAAA
GGAACAAGGTGCCACGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAAAGTTGTGGACTT
Found at i:56204 original size:27 final size:27
Alignment explanation
Indices: 56173--56252 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
56163 AGGAAAAAGA
56173 TGCCAC-AGAGTTGTGGACATAAAAGGG
1 TGCCACGA-AGTTGTGGACATAAAAGGG
56200 TGCCACGAAGTTGTGGACATAAAAGGG
1 TGCCACGAAGTTGTGGACATAAAAGGG
* * *
56227 TGCCACGAAATTATGGACTTAAAAGG
1 TGCCACGAAGTTGTGGACATAAAAGG
56253 AAAAAGAGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACATAAAAGGG
Found at i:56223 original size:154 final size:154
Alignment explanation
Indices: 55954--56344 Score: 450
Period size: 154 Copynumber: 2.5 Consensus size: 154
55944 GGTGCCACGG
* * *
55954 AGTTGTGCACTTAAAAGGAAAAAGAGTGCCATGAAGTTGTGGACTCAAAAGGAACAAGGTGCCAC
1 AGTTGTG-ACTTAAAAGGAACAAG-GTGCCATGGAGTTGTGGACTTAAAAGGAACAAGGTGCCAC
* * *
56019 GAAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAATTGTGGACTTAAAAGGGTACCATAG-AG
64 G-AGTTGTGGACATAAAAGG----AGATGCCACGGAATTGTGGACATAAAAGGGTACCA-AGAAA
*
56083 TTGTGGACTTAAAAGGAAAAAGAGTACCACAA
123 TTATGGACTTAAAAGGAAAAAGAGTACCACAA
* * * *
56115 AGTTGTAGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGATGCCACA
1 AGTTGT-GACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAAGGAACAAGGTGCCAC-
* *
56180 GAGTTGTGGACATAAAAGG-G-TGCCAC-GAAGTTGTGGACATAAAAGGGTGCCACGAAATTATG
64 GAGTTGTGGACATAAAAGGAGATGCCACGGAA-TTGTGGACATAAAAGGGTACCAAGAAATTATG
* ***
56242 GACTTAAAAGGAAAAAGAGTGCCATGG
128 GACTTAAAAGGAAAAAGAGTACCACAA
*
56269 AGTCATG-GACTTAAAAGGAACAAGGTGCCATGGAGTCGTGGACTTAAAAGGAACAAGGTGCCAT
1 AGT--TGTGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAAGGAACAAGGTGCCA-
*
56333 GGAGTTGTGGAC
63 CGAGTTGTGGAC
56345 TTTGAGAAGA
Statistics
Matches: 200, Mismatches: 23, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
153 4 0.02
154 119 0.60
155 1 0.00
156 2 0.01
160 51 0.25
161 22 0.11
162 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (154 bp):
AGTTGTGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGA
GTTGTGGACATAAAAGGAGATGCCACGGAATTGTGGACATAAAAGGGTACCAAGAAATTATGGAC
TTAAAAGGAAAAAGAGTACCACAA
Found at i:58010 original size:472 final size:472
Alignment explanation
Indices: 57089--58025 Score: 1507
Period size: 471 Copynumber: 2.0 Consensus size: 472
57079 ATGACTAGTG
** *
57089 TCGTAACGTGCGCTCGACCCCGGTGATAGGGCAAATGAGGCACATTCGACTTAATATCCCTCGCG
1 TCGTAACGTGCGCTCGACCCCGACGATAGGGCAAATGAGGCACATTCGACTTAATATCCCTCGCA
* ** *
57154 ATTGGGGATTTCTTATGGCATGATGGGAAGTATATTGATTAAAGGGGGAAGATCGGTAGATGAAT
66 ATTAGGGATTTCTTATGGCATGATGGGAAGTATATTGATTAAAAAGGGAAGACCGGTAGATGAAT
*
57219 CGCTCATCTAATTGATCTTCAATGGTCACTACGAAGTGACCAAAATTTTGAAGTCGCCACCGATC
131 CGCCCATCTAATTGATCTTCAATGGTCACTACGAAGTGACCAAAATTTTGAAGTCGCCACCGATC
* *
57284 ATTTCAGGCTAGGCATGATCGGATGCCTATTGAAACCTATGTCTTGAGTTACGAAACTCAAAACA
196 ATTTCAGGCTAGGCATGATCAGATGCCTATTGAAACCTATATCTTGAGTTACGAAACTCAAAACA
* * * * * *** *
57349 TCGATCCCGTGGTTTACATAATTAGAGATTCGCTGGTTGGGTTTGGGAGTTGGTTACGCGCAAAG
261 TCGATCCCGGGGTCTACATAATTAGAGATTAGCCGATTGGGTTCAAGAGTTGGTTACGAGCAAAG
*
57414 AGGTATGAACCCCTTCGCGACGCCCGAAATCAGTACCTTACAAGCAATGTTTTAACTTGATGTTG
326 AGGTACGAACCCCTTCGCGACGCCCGAAATCAGTACCTTACAAGCAATGTTTTAACTTGATGTTG
57479 ATTACATTGATTTCGATTTATCATTATTTCAATATGATCCCCTTTAAATGCATGAATTTTGCAGG
391 ATTACATTGATTTCGATTTATCATTATTTCAATATGATCCCCTTTAAATGCATGAATTTTGCAGG
57544 AAAATAAATCCAAGCTA
456 AAAATAAATCCAAGCTA
* ** *
57561 TCGTAACGTGTGCTCGA-CCCGACGATAGGGCAAATGAGGCATGTTCGATTTAATATCCCTCGCA
1 TCGTAACGTGCGCTCGACCCCGACGATAGGGCAAATGAGGCACATTCGACTTAATATCCCTCGCA
*
57625 ATTAGGGATTTCTTATGGCATGATGGGAAGTATGTTGATTAAAAAGGGAAGACCGGTAGATGAAT
66 ATTAGGGATTTCTTATGGCATGATGGGAAGTATATTGATTAAAAAGGGAAGACCGGTAGATGAAT
* * * * *
57690 TGCCCATCTAATTGATCTTCAATGGTCACTACGAATTGACCGAAATTTTGGAGTCGCCACTGATC
131 CGCCCATCTAATTGATCTTCAATGGTCACTACGAAGTGACCAAAATTTTGAAGTCGCCACCGATC
*
57755 ATTTCGGGCTAGGCATGATCAGATGCCTATTGAAACCTATATCTTGAGTTACGAAACTCAAAACA
196 ATTTCAGGCTAGGCATGATCAGATGCCTATTGAAACCTATATCTTGAGTTACGAAACTCAAAACA
*
57820 TCGATCCCGGGGTCTACATAATTCAGAGATTAGCCGATTGGGTTCAAGAGTTGGTTACGAGCGAA
261 TCGATCCCGGGGTCTACATAATT-AGAGATTAGCCGATTGGGTTCAAGAGTTGGTTACGAGCAAA
* * *
57885 GAGGTACGAACCCCTTCGCGACGCCCGAAATCGGTACCTTACTAGCAATGTTTTGACTTGATGTT
325 GAGGTACGAACCCCTTCGCGACGCCCGAAATCAGTACCTTACAAGCAATGTTTTAACTTGATGTT
* * * *
57950 GATTACATTGATTTTGATTTATCGTTATTTCGATATGATCCCCTTTAAATGCATGAATTTTGCAT
390 GATTACATTGATTTCGATTTATCATTATTTCAATATGATCCCCTTTAAATGCATGAATTTTGCAG
58015 GAAAATAAATC
455 GAAAATAAATC
58026 TAGGTTTTGA
Statistics
Matches: 425, Mismatches: 39, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
471 243 0.57
472 182 0.43
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (472 bp):
TCGTAACGTGCGCTCGACCCCGACGATAGGGCAAATGAGGCACATTCGACTTAATATCCCTCGCA
ATTAGGGATTTCTTATGGCATGATGGGAAGTATATTGATTAAAAAGGGAAGACCGGTAGATGAAT
CGCCCATCTAATTGATCTTCAATGGTCACTACGAAGTGACCAAAATTTTGAAGTCGCCACCGATC
ATTTCAGGCTAGGCATGATCAGATGCCTATTGAAACCTATATCTTGAGTTACGAAACTCAAAACA
TCGATCCCGGGGTCTACATAATTAGAGATTAGCCGATTGGGTTCAAGAGTTGGTTACGAGCAAAG
AGGTACGAACCCCTTCGCGACGCCCGAAATCAGTACCTTACAAGCAATGTTTTAACTTGATGTTG
ATTACATTGATTTCGATTTATCATTATTTCAATATGATCCCCTTTAAATGCATGAATTTTGCAGG
AAAATAAATCCAAGCTA
Found at i:60719 original size:13 final size:13
Alignment explanation
Indices: 60701--60725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60691 AAAATTCCCA
60701 AATGTATCGATAC
1 AATGTATCGATAC
60714 AATGTATCGATA
1 AATGTATCGATA
60726 TATTGAGTAA
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:61556 original size:52 final size:52
Alignment explanation
Indices: 61461--62084 Score: 272
Period size: 49 Copynumber: 12.6 Consensus size: 52
61451 ATGATTAAGG
* * **
61461 TGCCAATAAGCTGATTC-AGGACCAGTGATATTAGGCTTAAAGATGTA-AAGAA
1 TGCCAATATGCTGATTCAAGG-CCAGCGACCTTAGGCTTAAAGATG-AGAAGAA
* * * * *
61513 TGTCAATATGCTGATTCATGGTCAGCGACCTTAGTCTTGAAGATGAGAAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGGCTTAAAGATGAGAAGAA
* * * * *
61565 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAGATGACGAAG-G
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGG-CTTAAAGATGA-GAAGAA
* * * ** *
61618 TGCCAATATGCTAATTCAAGGCTAGAGATATT-GGACTTAAAGAT--GAAG-G
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGG-CTTAAAGATGAGAAGAA
* * * * *
61667 TGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGACTTAAAGGTGAG--G-G
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGG-CTTAAAGATGAGAAGAA
* * * * *
61716 TGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGACTTAAAGGTGAG--G-G
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGG-CTTAAAGATGAGAAGAA
* * * * * *
61765 TGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGACTTACAGGTGAG--G-G
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGG-CTTAAAGATGAGAAGAA
* * * * * *
61814 TGCCAATGTGCTGATTCAAGGCCAGCAACGTT-GGACTTACAGGTGAG--G-G
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGG-CTTAAAGATGAGAAGAA
* * * * *
61863 TGTCAATGTGTTGATTCAAGGCCAGCGACATTAGGCTTAGGAATG-TTA-AAG-A
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGGCTTA--AA-GATGAGAAGAA
* ** * * *
61915 TGCCAATATGCTGATTCAAGGCCAACGATATCAGACCTAAAGAT--GAAG-A
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGGCTTAAAGATGAGAAGAA
* * * *
61964 TACCAATGTGCTGATTCAAGGCCAACGACATT-GGACTT----A--A-AAG--
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGG-CTTAAAGATGAGAAGAA
**
62007 TGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGAT--GAAG-A
1 TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGG-CTTAAAGATGAGAAGAA
* *
62056 TGCCAATGTGCTGATTCAAGGCCAACGAC
1 TGCCAATATGCTGATTCAAGGCCAGCGAC
62085 ATTGGTTTAA
Statistics
Matches: 486, Mismatches: 63, Indels: 49
0.81 0.11 0.08
Matches are distributed among these distances:
43 34 0.07
44 3 0.01
45 1 0.00
47 1 0.00
48 4 0.01
49 282 0.58
50 5 0.01
51 5 0.01
52 109 0.22
53 38 0.08
54 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (52 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACCTTAGGCTTAAAGATGAGAAGAA
Found at i:61684 original size:49 final size:49
Alignment explanation
Indices: 61565--62089 Score: 502
Period size: 49 Copynumber: 10.7 Consensus size: 49
61555 ATGAGAAGAA
* **
61565 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAGATGACGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGAGACATT-GGACTTAAAGAT---GAAGG
* * * *
61618 TGCCAATATGCTAATTCAAGGCTAGAGATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGAAGG
* *
61667 TGCCAATGTGCTGATTCAAGGCCAGCA-ACATTGGACTTAAAGGTGAGGG
1 TGCCAATGTGCTGATTCAAGGCCAG-AGACATTGGACTTAAAGATGAAGG
* *
61716 TGCCAATGTGCTGATTCAAGGCCAGCA-ACATTGGACTTAAAGGTGAGGG
1 TGCCAATGTGCTGATTCAAGGCCAG-AGACATTGGACTTAAAGATGAAGG
* * *
61765 TGCCAATGTGCTGATTCAAGGCCAGCA-ACATTGGACTTACAGGTGAGGG
1 TGCCAATGTGCTGATTCAAGGCCAG-AGACATTGGACTTAAAGATGAAGG
* * * *
61814 TGCCAATGTGCTGATTCAAGGCCAGCA-ACGTTGGACTTACAGGTGAGGG
1 TGCCAATGTGCTGATTCAAGGCCAG-AGACATTGGACTTAAAGATGAAGG
* * * * * *
61863 TGTCAATGTGTTGATTCAAGGCCAGCGACATTAGG-CTTAGGAATGTTAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGAGACATT-GGACTTA--AA-GATGAAGG
* * ** * *
61915 TGCCAATATGCTGATTCAAGGCCA-ACGATATCAGACCTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGA-GACATTGGACTTAAAGATGAAGG
*
61964 TACCAATGTGCTGATTCAAGGCCA-ACGACATTGGACTT--A-A--AA-G
1 TGCCAATGTGCTGATTCAAGGCCAGA-GACATTGGACTTAAAGATGAAGG
* * * *
62007 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGAAGG
62056 TGCCAATGTGCTGATTCAAGGCCA-ACGACATTGG
1 TGCCAATGTGCTGATTCAAGGCCAGA-GACATTGG
62090 TTTAAAGGTG
Statistics
Matches: 407, Mismatches: 49, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
43 33 0.08
44 2 0.00
45 1 0.00
46 2 0.00
47 1 0.00
48 2 0.00
49 290 0.71
50 5 0.01
51 2 0.00
52 42 0.10
53 27 0.07
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGAAGG
Found at i:61767 original size:98 final size:97
Alignment explanation
Indices: 61565--62138 Score: 616
Period size: 98 Copynumber: 5.9 Consensus size: 97
61555 ATGAGAAGAA
**
61565 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAGATGACGAAGGTGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAG-TGA-G--GGTGCCAATATGCT
* *
61630 AATTCAAGGCTAG-AGATATTGGACTTAAAGATGAAGG
61 GATTCAAGGCCAGCA-ATATTGGACTTAAAGATGAAGG
* *
61667 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAGGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA-GTGAGGGTGCCAATATGCTGATT
* * *
61732 CAAGGCCAGCAACATTGGACTTAAAGGTGAGGG
65 CAAGGCCAGCAATATTGGACTTAAAGATGAAGG
* * *
61765 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTACAGGTGAGGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGTGAGGGTGCCAATATGCTGATT
** * * *
61830 CAAGGCCAGCAACGTTGGACTTACAGGTGAGGG
65 CAAGGCCAGCAATATTGGACTTAAAGATGAAGG
* * * * *
61863 TGTCAATGTGTTGATTCAAGGCCAGCGACATTAGG-CTTAGGAATGTTAAAGATGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTA--AA-G-TGAGGGTGCCAATATGCT
* * ** * *
61927 GATTCAAGGCCAACGATATCAGACCTAAAGATGAAGA
61 GATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
* *
61964 TACCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAA---A--GTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGTGAGGGTGCCAATATGCTGATTC
* *
62024 AAGGCCAGCGATATTGGACTTAAAGATGAAGA
66 AAGGCCAGCAATATTGGACTTAAAGATGAAGG
* * *
62056 TGCCAATGTGCTGATTCAAGGCCAACGACATTGG--TTTAA---A-GGTGCTAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGTGAGGGTGCCAATATGCTGATTC
*
62115 AAGGCCATCAATATTGGACTTAAA
66 AAGGCCAGCAATATTGGACTTAAA
62139 AGAAAATGCC
Statistics
Matches: 417, Mismatches: 46, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
90 5 0.01
91 39 0.09
92 78 0.19
94 1 0.00
98 169 0.41
99 7 0.02
100 4 0.01
101 82 0.20
102 32 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (97 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGTGAGGGTGCCAATATGCTGATTC
AAGGCCAGCAATATTGGACTTAAAGATGAAGG
Found at i:61836 original size:147 final size:148
Alignment explanation
Indices: 61565--62138 Score: 597
Period size: 147 Copynumber: 3.9 Consensus size: 148
61555 ATGAGAAGAA
* ** *
61565 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTTAAAGATGACGAAGGTGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGGACTTAAAGAT---GAAGATGCCAATATGCT
* * * *
61630 AATTCAAGGCTAGA-GATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCA
63 GATTCAAGGCCA-ACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCA
61694 ACATTGGACTTAAAGGTGAGGG
127 ACATTGGACTTAAAGGTGAGGG
* * * * *
61716 TGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGACTTAAAGGTGAGGGTGCCAATGTGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGGACTTAAAGATGAAGATGCCAATATGCTGAT
* * * * *
61780 TCAAGGCCAGCAACATTGGACTTACAGGTGAGGGTGCCAATGTGCTGATTCAAGGCCAGCAACGT
66 TCAAGGCCAACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACAT
*
61845 TGGACTTACAGGTGAGGG
131 TGGACTTAAAGGTGAGGG
* * * *
61863 TGTCAATGTGTTGATTCAAGGCCAGCGACATTAGG-CTTAGGAATGTTAAAGATGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGGACTTA--AA-GATGAAGATGCCAATATGCT
* * ** * * * * *
61927 GATTCAAGGCCAACGATATCAGACCTAAAGATGAAGATACCAATGTGCTGATTCAAGGCCAACGA
63 GATTCAAGGCCAACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAA
61992 CATTGGACTTAAA----A--G
128 CATTGGACTTAAAGGTGAGGG
* * *
62007 TGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGAAGATGCCAATGTGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGGACTTAAAGATGAAGATGCCAATATGCTGAT
* * * * * *
62071 TCAAGGCCAACGACATTGG--TT-----TAAAGGTGCTAATATGCTGATTCAAGGCCATCAATAT
66 TCAAGGCCAACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACAT
62129 TGGACTTAAA
131 TGGACTTAAA
62139 AGAAAATGCC
Statistics
Matches: 359, Mismatches: 58, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
134 39 0.11
139 1 0.00
141 36 0.10
142 2 0.01
143 2 0.01
144 33 0.09
146 1 0.00
147 123 0.34
148 2 0.01
149 2 0.01
150 87 0.24
151 31 0.09
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (148 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGGACTTAAAGATGAAGATGCCAATATGCTGAT
TCAAGGCCAACAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACAT
TGGACTTAAAGGTGAGGG
Found at i:62027 original size:43 final size:44
Alignment explanation
Indices: 61910--62141 Score: 227
Period size: 49 Copynumber: 5.1 Consensus size: 44
61900 TAGGAATGTT
** *
61910 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATCAGACCTAAA
1 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGA-CT-TA
* * *
61956 GATGAAGATACCAATGTGCTGATTCAAGGCCAACGACATTGGACTTA
1 -A--AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
*
62003 AAAG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT--A
* * *
62048 GATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGG--TTT
1 -A--AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
* * * *
62093 AAAGGTGCTAATATGCTGATTCAAGGCCATCAATATTGGACTTA
1 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
62137 AAAGA
1 AAAGA
62142 AAATGCCACC
Statistics
Matches: 153, Mismatches: 22, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
42 32 0.21
43 34 0.22
44 10 0.07
45 1 0.01
46 2 0.01
47 4 0.03
48 5 0.03
49 65 0.42
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (44 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
Found at i:62141 original size:92 final size:92
Alignment explanation
Indices: 61908--62138 Score: 356
Period size: 92 Copynumber: 2.5 Consensus size: 92
61898 CTTAGGAATG
* ** *
61908 TTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCAGACCTAAAGATGAAGATACCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATACCAATGT
61973 GCTGATTCAAGGCCAACGACATTGGAC
66 GCTGATTCAAGGCCAACGACATTGGAC
* * *
62000 TTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATACCAATGT
*
62065 GCTGATTCAAGGCCAACGACATTGG-T
66 GCTGATTCAAGGCCAACGACATTGGAC
* * *
62091 TTAAAGGTGCTAATATGCTGATTCAAGGCCATCAATATTGGACTTAAA
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAA
62139 AGAAAATGCC
Statistics
Matches: 127, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
91 44 0.35
92 83 0.65
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (92 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATACCAATGT
GCTGATTCAAGGCCAACGACATTGGAC
Found at i:62252 original size:56 final size:57
Alignment explanation
Indices: 62192--62346 Score: 206
Period size: 57 Copynumber: 2.7 Consensus size: 57
62182 CAACTCGTGT
62192 GCTTTTGAAGGTTGCCACTGACTTGT-GGCTTTTGAAAAGATACCACTGACTTATGG
1 GCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTATGG
* * * *
62248 GCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCATTGACTTGTGG
1 GCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTATGG
* * *
62305 GCTTTGGAAAAGAG-TGCCACTAACTTGTGGGTTTTTGAAAAG
1 GCTTTTG--AAG-GTTGCCACTGACTTGTGGGCTTTTGAAAAG
62347 GTAAGGAATG
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
56 26 0.30
57 32 0.37
59 28 0.32
60 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (57 bp):
GCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTATGG
Found at i:62256 original size:29 final size:29
Alignment explanation
Indices: 62204--62346 Score: 182
Period size: 29 Copynumber: 5.0 Consensus size: 29
62194 TTTTGAAGGT
62204 TGCCACTGACTTGT-GGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* * * *
62232 TACCACTGACTTATGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
*
62260 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* *
62289 TGCCATTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* *
62318 GTGCCACTAACTTGTGGGTTTTTGAAAAG
1 -TGCCACTGACTTGTGGGCTTTTGAAAAG
62347 GTAAGGAATG
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
28 35 0.36
29 39 0.40
30 24 0.24
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGA
Found at i:63786 original size:1 final size:1
Alignment explanation
Indices: 63782--63831 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
63772 CTTTTTGTTG
* * * * *
63782 TTTTTTTGTTTTTTTGTTTTTTTTTTTGTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
63832 GCGGAGGACG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:63790 original size:8 final size:8
Alignment explanation
Indices: 63773--63828 Score: 71
Period size: 8 Copynumber: 6.9 Consensus size: 8
63763 ATCCGGACCC
63773 TTTTTGTTG
1 TTTTT-TTG
63782 TTTTTTTG
1 TTTTTTTG
63790 TTTTTTTG
1 TTTTTTTG
63798 TTTTTTT-
1 TTTTTTTG
63805 TTTTGTTT-
1 TTTT-TTTG
63813 TTTGTTTTG
1 TTT-TTTTG
63822 TTTTTTT
1 TTTTTTT
63829 TTTGCGGAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
7 4 0.09
8 31 0.70
9 9 0.20
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:63797 original size:19 final size:19
Alignment explanation
Indices: 63773--63828 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
63763 ATCCGGACCC
63773 TTTTTGTTGTTTTTTTGTT
1 TTTTTGTTGTTTTTTTGTT
*
63792 TTTTTGTTTTTTTTTTTGTT
1 TTTTTG-TTGTTTTTTTGTT
*
63812 TTTTGTTTTGTTTTTTT
1 TTTT-TGTTGTTTTTTT
63829 TTTGCGGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.19
20 25 0.78
21 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (19 bp):
TTTTTGTTGTTTTTTTGTT
Found at i:63805 original size:12 final size:12
Alignment explanation
Indices: 63785--63831 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
63775 TTTGTTGTTT
63785 TTTTGTTTTTTTG
1 TTTT-TTTTTTTG
63798 TTTTTTTTTTTG
1 TTTTTTTTTTTG
*
63810 TTTTTTGTTTTG
1 TTTTTTTTTTTG
63822 TTTTTTTTTT
1 TTTTTTTTTT
63832 GCGGAGGACG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 28 0.88
13 4 0.12
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:77666 original size:13 final size:13
Alignment explanation
Indices: 77648--77675 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
77638 ATACAAAGAT
77648 CAATGTATCGATA
1 CAATGTATCGATA
77661 CAATGTATCGATA
1 CAATGTATCGATA
77674 CA
1 CA
77676 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:77672 original size:33 final size:33
Alignment explanation
Indices: 77630--77695 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
77620 AAATTCCCAG
77630 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
77663 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
77696 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:77751 original size:19 final size:19
Alignment explanation
Indices: 77727--77783 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
77717 AGTAATACAT
77727 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
77746 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
77759 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
77778 TGTATC
1 TGTATC
77784 AATTCAGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.28
14 1 0.03
16 6 0.19
18 1 0.03
19 15 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:77762 original size:32 final size:32
Alignment explanation
Indices: 77721--77783 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
77711 CTTTGTAGTA
77721 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
77753 ATACATTGTATCGATACAACACTTATGTATC
1 ATACATTGTATCGATACAACACTTATGTATC
77784 AATTCAGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCG
Found at i:77764 original size:13 final size:13
Alignment explanation
Indices: 77746--77770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77736 ACAACACTTA
77746 TGTATCGATACAT
1 TGTATCGATACAT
77759 TGTATCGATACA
1 TGTATCGATACA
77771 ACACTTATGT
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:78658 original size:15 final size:16
Alignment explanation
Indices: 78631--78696 Score: 80
Period size: 16 Copynumber: 4.0 Consensus size: 16
78621 CTTTGCACTC
*
78631 TTTTTTTTGTGTTTTT
1 TTTTTTTTGTATTTTT
78647 TTTGTTTTTGTTATTTTGT
1 TTT-TTTTTG-TATTTT-T
78666 TTTTTTTTGT-TTTTT
1 TTTTTTTTGTATTTTT
*
78681 TTTTTTTTGTGTTTTT
1 TTTTTTTTGTATTTTT
78697 ACTTATGAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
15 11 0.24
16 12 0.27
17 7 0.16
18 11 0.24
19 4 0.09
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (16 bp):
TTTTTTTTGTATTTTT
Found at i:78663 original size:25 final size:26
Alignment explanation
Indices: 78635--78696 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 26
78625 GCACTCTTTT
78635 TTTTGTGTTTTTTTTG-TTTTTGTTA
1 TTTTGTGTTTTTTTTGTTTTTTGTTA
* *
78660 TTTTGT-TTTTTTTTGTTTTTTTTTT
1 TTTTGTGTTTTTTTTGTTTTTTGTTA
78685 TTTTGTGTTTTT
1 TTTTGTGTTTTT
78697 ACTTATGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 9 0.27
25 19 0.58
26 5 0.15
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (26 bp):
TTTTGTGTTTTTTTTGTTTTTTGTTA
Found at i:78696 original size:1 final size:1
Alignment explanation
Indices: 78631--78688 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
78621 CTTTGCACTC
* * * * * * *
78631 TTTTTTTTGTGTTTTTTTTGTTTTTGTTATTTTGTTTTTTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
78689 GTGTTTTTAC
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:83500 original size:27 final size:27
Alignment explanation
Indices: 83462--83535 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
83452 TTTAGTTGAA
*
83462 AATGGGGTTGGAGTGTCCCCTCGGAGG
1 AATGGGGTTGGAGTGTCCCCTCAGAGG
83489 AATGGGGTTGGAGTGTCCCCTCAGAGG
1 AATGGGGTTGGAGTGTCCCCTCAGAGG
* *
83516 AATAGGGTTAGAGTGTCCCC
1 AATGGGGTTGGAGTGTCCCC
83536 GATGAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.19, C:0.19, G:0.39, T:0.23
Consensus pattern (27 bp):
AATGGGGTTGGAGTGTCCCCTCAGAGG
Found at i:84732 original size:32 final size:33
Alignment explanation
Indices: 84691--84754 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
84681 TAGCCAAACT
*
84691 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
84723 TGTATCGATATACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
84755 TTGGTTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:85007 original size:31 final size:32
Alignment explanation
Indices: 84972--85036 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 32
84962 AGTAGAACCA
84972 AGCAAGAAACATCTAACATTCAAAG-TTTCTT
1 AGCAAGAAACATCTAACATTCAAAGTTTTCTT
85003 AGCAAGAAACATCTAACATTCAAAGTTTTCTT
1 AGCAAGAAACATCTAACATTCAAAGTTTTCTT
85035 AG
1 AG
85037 ATCAAAGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 25 0.76
32 8 0.24
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (32 bp):
AGCAAGAAACATCTAACATTCAAAGTTTTCTT
Done.