Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1609
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: 69996
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Found at i:1129 original size:13 final size:13
Alignment explanation
Indices: 1111--1135 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1101 CATAAAATGT
1111 TGTATCGATACAA
1 TGTATCGATACAA
1124 TGTATCGATACA
1 TGTATCGATACA
1136 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:1133 original size:33 final size:33
Alignment explanation
Indices: 1091--1160 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1081 TTCAACGATT
1091 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1124 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1157 TGTA
1 TGTA
1161 AGGTACTGCC
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:1262 original size:52 final size:53
Alignment explanation
Indices: 1199--1344 Score: 199
Period size: 52 Copynumber: 2.8 Consensus size: 53
1189 CATTACTCAC
***
1199 ATGTATCGATACACTGAT-CTTTATATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTGATAAAATATATCGATACATGCAGGCAAATTTGCCCAG
* *
1251 ATGTATCGATACA-TTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTGATAAAATATATCGATACATGCAGGCAAATTTGCCCAG
* * *
1303 ATGTATCGATACACT-ATTAAATGTATCGATACATGCAAGCAA
1 ATGTATCGATACACTGATAAAATATATCGATACATGCAGGCAA
1345 CTTTTCATAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 3 0.04
52 81 0.95
53 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (53 bp):
ATGTATCGATACACTGATAAAATATATCGATACATGCAGGCAAATTTGCCCAG
Found at i:9493 original size:31 final size:30
Alignment explanation
Indices: 9455--9606 Score: 182
Period size: 31 Copynumber: 4.9 Consensus size: 30
9445 ATACCTTTTT
*
9455 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
*
9486 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT-C-TC
9518 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
9548 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC-TC
* * *
9579 AAAGCCCACAACTTC-GTGGCACCTTTTC
1 AAAGTCCACGAC-TCAGTGGCATCTTTTC
9607 CTTTAAAGCC
Statistics
Matches: 108, Mismatches: 7, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
30 31 0.29
31 51 0.47
32 26 0.24
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTC
Found at i:9554 original size:30 final size:31
Alignment explanation
Indices: 9455--9708 Score: 205
Period size: 34 Copynumber: 8.0 Consensus size: 31
9445 ATACCTTTTT
*
9455 AAAGTCCACGACTCAGTGGCAATCTCTTC-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTTC
*
9486 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT-CTTC
9518 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTTC
*
9548 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
* * * *
9579 AAAGCCCACAACTTC-GTGGCACCTTTTCCTTT
1 AAAGTCCACGAC-TCAGTGGCATCTTTT-CTTC
* * * *
9611 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
1 AAAGTCCACGACTCAGTGGCATCTT-TTC--TTC
* * * *
9645 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
1 AAAGTCCACGACTCAGTGGCATCTT-TTC--TTC
* * *
9679 AAAGCCCACAACTCCGTGGCA-CTTTT-TTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
9708 A
1 A
9709 TCTTTAAGTC
Statistics
Matches: 203, Mismatches: 9, Indels: 24
0.86 0.04 0.10
Matches are distributed among these distances:
29 4 0.02
30 31 0.15
31 52 0.26
32 54 0.27
33 5 0.02
34 57 0.28
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTTC
Found at i:9567 original size:62 final size:63
Alignment explanation
Indices: 9452--9575 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 63
9442 CAAATACCTT
9452 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
1 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
* *
9515 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATTTTTTC
1 TTTAAAGTCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCTTTTC
9576 TTCAAAGCCC
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 2 0.03
62 33 0.57
63 23 0.40
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.32
Consensus pattern (63 bp):
TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
Found at i:9614 original size:93 final size:96
Alignment explanation
Indices: 9455--10241 Score: 342
Period size: 102 Copynumber: 7.9 Consensus size: 96
9445 ATACCTTTTT
* * * * *
9455 AAAGTCCACGACTCAGTGGCAATCTCTTC-TCAAAGTCCACGAC-TCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGC-ATTTTTTCTTCAAAGCCCACAACTTC-GTGGCACCTTTTCCTTT
* *
9518 AAAGTCCACGACTCAGTGGCA-TT-TT-GTCTC
64 AAAGTCCACAACTCCGTGGCACTTCTTCGTCTC
9548 AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCCTTTAA
1 AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCCTTTAA
* * *
9613 AGCCCACAACTCCGTGGCACCTTCTTCTTTTC
66 AGTCCACAACTCCGTGGCA-CTTCTTCGTCTC
* * * * *
9645 AAAGCCCACAACTCCGTGGCACCTTCTTCTT-TTCAAAGCCCACAACTCCGTGGCACTTTTTTCA
1 AAAGTCCACGACTCAGTGGCA--TT-TT-TTCTTCAAAGCCCACAACTTCGTGGCAC-CTTTTC-
* * * *
9709 TCTTT-AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
60 -CTTTAAAGTCCACAACTCCGTGGCA-CTTCTTCGTCTC
* * * * *
9747 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAAC-TCTGTGGCACACTTTTTC
1 AAAGTCCACGACTCAGTGGCA--TTTTT-TCTTCAAAGCCCACAACTTC-GTGGCAC-C-TTTTC
* * ** * * *
9811 TTTTTAAAGCCCAGGACTCCGTGGCACTCTTTTCCT-TT
60 -CTTTAAAGTCCACAACTCCGTGGCACT-TCTTCGTCTC
* * * * * * *
9849 TAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAAC-TCTGTAGCACTCTTTTT
1 AAAGTCCACGACTCAGTGG--CA-TTTTT-TCTTCAAAGCCCACAACTTC-GTGGCAC-C-TTTT
* * * * *
9913 CCCTTTTCAAAGCCCACAACTCTGTGGCACCTT-TTCTTTTT
59 -CC-TTT-AAAGTCCACAACTCCGTGGCA-CTTCTTCGTCTC
* * * * *
9954 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTT
1 AAAGTCCACGACTCAGTGGCA-T-TTTTT--C--TTCAAAGCCCACAACTTCGTGGCA-C--CTT
* * *
10019 TTCCTTCT-AAGCCCACAACTTCGTGGGCAC-CCTT--T-T-
57 TTCCTT-TAAAGTCCACAACTCCGT-GGCACTTCTTCGTCTC
* * * * *
10055 -AAGTCCACGACTTC-GTGGCATTATGTTCCTT-TAAGTCCACGACTCCGTGGCACTCTTTTCCT
1 AAAGTCCACGAC-TCAGTGGCATT-T-TTTCTTCAAAGCCCACAACTTCGTGGCAC-CTTTTCCT
* * * *
10117 TTAAAGCCCACAACTACGTGGCACTCTTTTCCT-TC
62 TTAAAGTCCACAACTCCGTGGCACT-TCTTCGTCTC
* * * * * *
10152 TAAGCCCACAACTCCA-TGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGTCCACGACT-CAGTGGCA-T-TTTTTCTTCAAAGCCCACAACTTCGTGGCAC-C-TTTTCC
*
10216 TTCT-AAGCCCACAACTCCGTGGCACT
61 TT-TAAAGTCCACAACTCCGTGGCACT
10242 CTTTTTTTTC
Statistics
Matches: 581, Mismatches: 59, Indels: 101
0.78 0.08 0.14
Matches are distributed among these distances:
92 12 0.02
93 91 0.16
94 5 0.01
95 20 0.03
96 6 0.01
97 22 0.04
98 23 0.04
99 28 0.05
100 74 0.13
101 14 0.02
102 102 0.18
103 76 0.13
104 14 0.02
105 55 0.09
106 8 0.01
107 23 0.04
108 6 0.01
109 2 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.32
Consensus pattern (96 bp):
AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCCTTTAA
AGTCCACAACTCCGTGGCACTTCTTCGTCTC
Found at i:9654 original size:34 final size:33
Alignment explanation
Indices: 9548--10316 Score: 687
Period size: 34 Copynumber: 22.8 Consensus size: 33
9538 ATTTTGTCTC
* * * * *
9548 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
9579 AAAGCCCACAACTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
9611 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
9644 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
9678 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
9714 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
9747 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
*
9781 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
** *
9816 AAAGCCCAGGACTCCGTGGCACTCTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
*
9850 -AAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
* *
9884 AAAGCCCACAACTCTGTAGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
*
9920 CAAAGCCCACAACTCTGTGGCACC-TTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
9954 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--C-TTTT
*
9991 AAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACC-T-TTTT-CTTTT
*
10027 -AAGCCCACAACTTCGTGGGCACC-----CTTTT
1 AAAGCCCACAACTCCGT-GGCACCTTTTTCTTTT
* * * *
10055 -AAGTCCACGACTTCGTGGCA--TTATGTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTT-T-TTCTTTT
* * *
10087 -AAGTCCACGACTCCGTGGCA-CTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTT
* * *
10119 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
* * *
10153 -AAGCCCACAACTCCATGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
*
10186 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT
10220 -AAGCCCACAACTCCGTGGCACTCTTTTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C---TTTTT-C-TTTT
* * *
10258 AAAGCCTACAACTCTGTGGCACCTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * * *
10291 TAAGTCCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
10317 CACCTTCTCT
Statistics
Matches: 639, Mismatches: 58, Indels: 80
0.82 0.07 0.10
Matches are distributed among these distances:
27 4 0.01
28 18 0.03
31 22 0.03
32 54 0.08
33 156 0.24
34 188 0.29
35 91 0.14
36 19 0.03
37 60 0.09
38 8 0.01
39 19 0.03
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:10362 original size:34 final size:33
Alignment explanation
Indices: 10319--10454 Score: 197
Period size: 32 Copynumber: 4.2 Consensus size: 33
10309 GCATCTTTCA
*
10319 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAAC
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGC-AAC
**
10353 CCTTCTCTAAAGCCCACACAAGTTGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAAC
* *
10386 CC-CCTC-AAAGCCCACACAAGTCAATGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAAC
10417 CC-TCTCTAAAGCCCACACAAGTCAGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAAC
10449 CCTTCT
1 CCTTCT
10455 AAGCCCAATA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
31 27 0.29
32 29 0.31
33 8 0.09
34 29 0.31
ACGTcount: A:0.29, C:0.38, G:0.15, T:0.18
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCAGTGGCAAC
Found at i:10433 original size:32 final size:32
Alignment explanation
Indices: 10322--10461 Score: 196
Period size: 31 Copynumber: 4.4 Consensus size: 32
10312 TCTTTCACCT
*
10322 TCTCTAAAGCCCACACAAGTCGGTGGCAAACCC
1 TCTCTAAAGCCCACACAAGTCAGTGGC-AACCC
**
10355 TTCTCTAAAGCCCACACAAGTTGGTGGCAACCC
1 -TCTCTAAAGCCCACACAAGTCAGTGGCAACCC
* *
10388 CCTC-AAAGCCCACACAAGTCAATGGCAACCC
1 TCTCTAAAGCCCACACAAGTCAGTGGCAACCC
10419 TCTCTAAAGCCCACACAAGTCAGTGGCAACCC
1 TCTCTAAAGCCCACACAAGTCAGTGGCAACCC
10451 T-TCT-AAGCCCA
1 TCTCTAAAGCCCA
10462 ATATAGCTGG
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
30 7 0.07
31 30 0.31
32 30 0.31
33 5 0.05
34 26 0.27
ACGTcount: A:0.31, C:0.37, G:0.16, T:0.16
Consensus pattern (32 bp):
TCTCTAAAGCCCACACAAGTCAGTGGCAACCC
Found at i:10445 original size:63 final size:65
Alignment explanation
Indices: 10327--10450 Score: 198
Period size: 63 Copynumber: 1.9 Consensus size: 65
10317 CACCTTCTCT
** **
10327 AAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTC
1 AAAGCCCACACAAGTCAATGGCAAACCCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCCCTC
10392 AAAGCCCACACAAGTCAATGGC-AACCC-TCTCTAAAGCCCACACAAGTCAGTGGCAACCC
1 AAAGCCCACACAAGTCAATGGCAAACCCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCC
10451 TTCTAAGCCC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 30 0.55
64 5 0.09
65 20 0.36
ACGTcount: A:0.32, C:0.37, G:0.17, T:0.14
Consensus pattern (65 bp):
AAAGCCCACACAAGTCAATGGCAAACCCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCCCTC
Found at i:10518 original size:49 final size:49
Alignment explanation
Indices: 10454--11710 Score: 1532
Period size: 49 Copynumber: 26.6 Consensus size: 49
10444 GCAACCCTTC
* * *
10454 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * *
10503 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
10552 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
10601 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
10644 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
10693 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
10742 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
10791 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGG---C---ATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
10834 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * *
10883 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * * * * *
10932 TAAGCCCGATATCGCTGGCCTTGAATAAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
10981 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * *
11024 TAAG-CTCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTT
1 TAAGTC-CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
11073 TAAGTCCAATGTAGCTGGCCTTAAATCAGCACATT-G-A-C---ACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
11116 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
11165 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
11208 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
11257 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
11306 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
11355 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGG---C---ATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
11398 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * *
11447 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * * * * *
11496 TAAGCCCGATATCGCTGGCCTTGAATTAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
11545 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * * *
11588 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
11637 TAAGTCCAATGTAGCTGGCCTTAAATCAGCACATT-G-A-C---ACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
11680 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCA
11711 TATAGCTGGC
Statistics
Matches: 1044, Mismatches: 120, Indels: 94
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.00
43 293 0.28
44 5 0.00
45 1 0.00
46 7 0.01
47 2 0.00
48 6 0.01
49 728 0.70
50 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
Found at i:10670 original size:92 final size:92
Alignment explanation
Indices: 10549--11713 Score: 1747
Period size: 92 Copynumber: 12.4 Consensus size: 92
10539 GCACCTTCAT
10549 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
10614 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
10641 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
10706 GCTGGCCTTGACTCAGCACATTGGCACC
66 GCTGGCCTTGACTCAGCACATTGGCA-C
* * *
10734 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCA
* *
10799 ATGTAGCTGGCCTTGACTCAACACATTGGCAT
61 ATGTAGCTGGCCTTGACTCAGCACATTGGCAC
*
10831 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
10896 GCTGGCCTTGACTCAGCACATTGGCCCCTTCAC
66 GCTGGCCTTGACTCAGCACATTGG------CAC
* * * * * *
10929 CTTTAAGCCCGATATCGCTGGCCTTGAATAAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
* *
10994 GCTGGCCTTGAATTAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
* * *
11021 CTTTAAG-CTCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGT
1 CTTTAAGTC-CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * *
11085 AGCTGGCCTTAAATCAGCACATTGACAC
65 AGCTGGCCTTGACTCAGCACATTGGCAC
11113 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
11178 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
11205 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
11270 GCTGGCCTTGACTCAGCACATTGGCACC
66 GCTGGCCTTGACTCAGCACATTGGCA-C
* *
11298 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCA
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCA
* *
11363 ATGTAGCTGGCCTTGACTCAACACATTGGCAT
61 ATGTAGCTGGCCTTGACTCAGCACATTGGCAC
*
11395 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
11460 GCTGGCCTTGACTCAGCACATTGGCCCCTTCAC
66 GCTGGCCTTGACTCAGCACATTGG------CAC
* * * * * *
11493 CTTTAAGCCCGATATCGCTGGCCTTGAATTAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
*
11558 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
* * * *
11585 CTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
* * *
11650 GCTGGCCTTAAATCAGCACATTGACAC
66 GCTGGCCTTGACTCAGCACATTGGCAC
11677 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
11714 AGCTGGCATA
Statistics
Matches: 988, Mismatches: 59, Indels: 52
0.90 0.05 0.05
Matches are distributed among these distances:
91 1 0.00
92 644 0.65
93 3 0.00
98 340 0.34
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCAC
Found at i:10782 original size:190 final size:190
Alignment explanation
Indices: 10449--11713 Score: 2007
Period size: 190 Copynumber: 6.7 Consensus size: 190
10439 CAGTGGCAAC
* *
10449 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
*
10514 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATC
*
10579 AGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
130 AGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
10640 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * *
10705 AGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCA
* *
10770 GCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCA
131 GCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
* *
10830 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * * * *
10895 AGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTTTAAGCCCGATATCGCTGGCCTTGAATAA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCA
* * *
10960 GCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA
131 GCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
* * *
11020 CCTTTAAG-CTCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATG
1 CCTTTAAGTC-CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
* *
11084 TAGCTGGCCTTAAATCAGCACATT-G-A----CACCTTTAAGTCCAATATAGCTGGCCTTGAATC
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATC
*
11143 AGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
130 AGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
11204 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * *
11269 AGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCA
* * *
11334 GCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCA
131 GCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
* *
11394 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* * * * *
11459 AGCTGGCCTTGACTCAGCACATTGGCCCCTTCACCTTTAAGCCCGATATCGCTGGCCTTGAATTA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCA
* *
11524 GCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 GCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
* * * *
11584 CCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
* *
11649 AGCTGGCCTTAAATCAGCACATT-G-A----CACCTTTAAGTCCAATATAGCTGGCCTTGAATCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCA
11708 GCATAT
131 GCATAT
11714 AGCTGGCATA
Statistics
Matches: 990, Mismatches: 76, Indels: 23
0.91 0.07 0.02
Matches are distributed among these distances:
184 203 0.21
185 2 0.00
186 1 0.00
189 3 0.00
190 777 0.78
191 4 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (190 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCA
GCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
Found at i:14845 original size:33 final size:33
Alignment explanation
Indices: 14808--14874 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
14798 TTCAATGATT
14808 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
14841 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
14874 T
1 T
14875 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:14846 original size:13 final size:13
Alignment explanation
Indices: 14828--14852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14818 CATAAAATGT
14828 TGTATCGATACAA
1 TGTATCGATACAA
14841 TGTATCGATACA
1 TGTATCGATACA
14853 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:15004 original size:52 final size:52
Alignment explanation
Indices: 14948--15067 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
14938 CACTGATCTC
*
14948 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTA-TATAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTA-AA
*
15000 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTAAA
15052 TGTATCGATACATGCA
1 TGTATCGATACATGCA
15068 AGCAACTTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 63 0.97
53 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:28977 original size:20 final size:20
Alignment explanation
Indices: 28948--29022 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
28938 AAAAAGACAT
28948 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
* * * *
28968 AATATATCGATAAATTCATA
1 AATGTATCGATACATTGAAA
* *
28988 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
29008 AATGTATCGATACAT
1 AATGTATCGATACAT
29023 CTAGGTAAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:35872 original size:13 final size:13
Alignment explanation
Indices: 35854--35879 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35844 TACAGCAAGT
35854 ATGTATCGATACA
1 ATGTATCGATACA
35867 ATGTATCGATACA
1 ATGTATCGATACA
35880 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:38127 original size:21 final size:21
Alignment explanation
Indices: 38094--38138 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
38084 TTGCAAGTTG
*
38094 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
38116 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
38136 AAA
1 AAA
38139 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:39962 original size:15 final size:15
Alignment explanation
Indices: 39942--39972 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39932 TAAAAATGTC
*
39942 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
39957 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
39972 C
1 C
39973 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:42070 original size:13 final size:13
Alignment explanation
Indices: 42052--42090 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
42042 ACATTTTTCC
42052 TTGTATCGATACA
1 TTGTATCGATACA
42065 TTGTATCGATACA
1 TTGTATCGATACA
42078 TTGTATCGATACA
1 TTGTATCGATACA
42091 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:42254 original size:20 final size:20
Alignment explanation
Indices: 42211--42256 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
42201 AAATCTTTTG
42211 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
42232 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
42252 CAAAA
1 CAAAA
42257 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:44664 original size:13 final size:13
Alignment explanation
Indices: 44646--44671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44636 TACAGCAAGT
44646 ATGTATCGATACA
1 ATGTATCGATACA
44659 ATGTATCGATACA
1 ATGTATCGATACA
44672 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:46637 original size:42 final size:42
Alignment explanation
Indices: 46474--47435 Score: 732
Period size: 42 Copynumber: 23.0 Consensus size: 42
46464 TTAAACTTCT
* * * * * * * *
46474 GAGACTTTCCTTCCCTTAGTCTGTCTGTTGGCTTTTAACCTTA
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGC-TTTGACCCTG
* * * * * * *
46517 GAGACTTTCCTACCCTTAGTTTGCTTATCAGCTTTGACCTTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* ** * * *
46559 GAGACTT-TCTTTCCTAAGTCTGTCTGTCGACTTTGACCCTA
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * * *
46600 GAGACTTCCCAACCCTTAGTCTACCTATCAGTTTTGACCCTA
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * *
46642 AAGACTTTCCTTCCCTAAGTCTGCCTGTCGGCTTTGACCTTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
** * *
46684 GAGACTT-TTTTCCCTAAGTCTGCCTGTCGGCTTTGACTCTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * *
46725 GAGATTTCCCTACCCTTAGTCTGCCTGTCGGTTTTGACCCTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * *
46767 GAGACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCCTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * *
46809 GAGACTT-TCTTCCCTAAGCCTGCCTATCGGCTTTAACCCTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
** * *
46850 GAGACTTTTCTACCCTTAGTCTGCCTGTCGACTTTGACCCTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * * *
46892 GAGACTT-CTTTCCCTAAGTCTGTCTATCGACTTTGACCTTA
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * *
46933 GAGACTTCCCTACCCTTAGTTTGCCTGTCGGTTTTGACCTTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * * * *
46975 GAGACTTCCTTACCCTCAGTTTGCCTATCAGTTTTAACCTTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
** * * *
47017 GAGACTTTTCTTCCCTAAGTCTCCCTGTCGACTTTGA-CCTCG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCT-G
* * * *
47059 GAGACTT-CTTTCCCTAAGTCTGCCTGTCGGTTTTGACCTTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* *
47100 GAGACTTCCCTACCCTTAGTCTGCCTGTCGGTTTTGACCCTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * *
47142 GAGACTTTCCTACCCTCAGTCTGCCTGTCAGCTTTGAACCTA
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * * * *
47184 AAGACTTTCTTGCCCTTAGTTTGCCTGTCGACTTTGATCCTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * *
47226 GAGACTT-CCTTCCCTAAGTCTGCCTATCGACTTTGACCTTG
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * *
47267 GAGACTTTCCTACCCTCAGTCTGCCTATCGACTTTGATCCTA
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * ** *
47309 GAAACTTTCTTTCCCTTAGTCTGCCTGTCAACTTTGACCCTA
1 GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * *
47351 GAGATTTTCCTATTCCTTAGTCTGCCTGTCAGCTTTGACCCTC
1 GAGACTTCCCTA-CCCTAAGTCTGCCTGTCGGCTTTGACCCTG
*** * *
47394 GAGACTTTTTTATCCCTCAGTCTGCTTGTCGGCTTTGACCCT
1 GAGACTTCCCTA-CCCTAAGTCTGCCTGTCGGCTTTGACCCT
47436 AAAAACTGCC
Statistics
Matches: 745, Mismatches: 165, Indels: 18
0.80 0.18 0.02
Matches are distributed among these distances:
41 202 0.27
42 456 0.61
43 87 0.12
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.37
Consensus pattern (42 bp):
GAGACTTCCCTACCCTAAGTCTGCCTGTCGGCTTTGACCCTG
Found at i:46700 original size:125 final size:125
Alignment explanation
Indices: 46474--47433 Score: 926
Period size: 125 Copynumber: 7.6 Consensus size: 125
46464 TTAAACTTCT
* * * ** * * * * *
46474 GAGACTTTCCTTCCCTTAGTCTGTCTGTTGGCTTTTAACCTTAGAGACTTTCCTACCCTTAGTTT
1 GAGACTTCCCTACCCTTAGTCTGCCTGTCAG-TTTTGACCCTGGAGACTTTCCTACCCTCAGTCT
* * * * *
46539 GCTTATCAGCTTTGACCTTGGAGACTTTCTTT-CCTAAGTCTGTCTGTCGACTTTGACCCTA
65 GCCTATCGGCTTTGACCTTGGAGACTTT-TTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * ** * *
46600 GAGACTTCCCAACCCTTAGTCTACCTATCAGTTTTGACCCTAAAGACTTTCCTTCCCTAAGTCTG
1 GAGACTTCCCTACCCTTAGTCTGCCTGTCAGTTTTGACCCTGGAGACTTTCCTACCCTCAGTCTG
* *
46665 CCTGTCGGCTTTGACCTTGGAGACTTTTTTCCCTAAGTCTGCCTGTCGGCTTTGACTCTG
66 CCTATCGGCTTTGACCTTGGAGACTTTTTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* *
46725 GAGATTTCCCTACCCTTAGTCTGCCTGTCGGTTTTGACCCTGGAGACTTTCCTACCCTCAGTCTG
1 GAGACTTCCCTACCCTTAGTCTGCCTGTCAGTTTTGACCCTGGAGACTTTCCTACCCTCAGTCTG
* * * * *
46790 CCTATCGGCTTTGACCCTGGAGACTTTCTTCCCTAAGCCTGCCTATCGGCTTTAACCCTG
66 CCTATCGGCTTTGACCTTGGAGACTTTTTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTG
** * * * *
46850 GAGACTTTTCTACCCTTAGTCTGCCTGTC-GACTTTGACCCTGGAGAC-TTCTTTCCCTAAGTCT
1 GAGACTTCCCTACCCTTAGTCTGCCTGTCAG-TTTTGACCCTGGAGACTTTCCTACCCTCAGTCT
* * * ** * * * * *
46913 GTCTATCGACTTTGACCTTAGAGACTTCCCTACCCTTAGTTTGCCTGTCGGTTTTGACCTTG
65 GCCTATCGGCTTTGACCTTGGAGACTT-TTTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * * * * * *
46975 GAGACTTCCTTACCCTCAGTTTGCCTATCAGTTTTAACCTTGGAGACTTTTCTTCCCTAAGTCTC
1 GAGACTTCCCTACCCTTAGTCTGCCTGTCAGTTTTGACCCTGGAGACTTTCCTACCCTCAGTCTG
* * * * * *
47040 CCTGTCGACTTTGACCTCGGAGACTTCTTTCCCTAAGTCTGCCTGTCGGTTTTGACCTTG
66 CCTATCGGCTTTGACCTTGGAGACTTTTTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTG
*
47100 GAGACTTCCCTACCCTTAGTCTGCCTGTCGGTTTTGACCCTGGAGACTTTCCTACCCTCAGTCTG
1 GAGACTTCCCTACCCTTAGTCTGCCTGTCAGTTTTGACCCTGGAGACTTTCCTACCCTCAGTCTG
* * ** * * * * *
47165 CCTGTCAGCTTTGAACC-TAAAGACTTTCTTGCCCTTAGTTTGCCTGTCGACTTTGATCCTG
66 CCTATCGGCTTTG-ACCTTGGAGACTTT-TTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * *
47226 GAGACTT-CCTTCCCTAAGTCTGCCTATC-GACTTTGACCTTGGAGACTTTCCTACCCTCAGTCT
1 GAGACTTCCCTACCCTTAGTCTGCCTGTCAG-TTTTGACCCTGGAGACTTTCCTACCCTCAGTCT
* * * * ** *
47289 GCCTATCGACTTTGATCC-TAGAAACTTTCTTTCCCTTAGTCTGCCTGTCAACTTTGACCCTA
65 GCCTATCGGCTTTGA-CCTTGGAGACTTT-TTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * **
47351 GAGATTTTCCTATTCCTTAGTCTGCCTGTCAGCTTTGACCCTCGAGACTTTTTTATCCCTCAGTC
1 GAGACTTCCCTA-CCCTTAGTCTGCCTGTCAGTTTTGACCCTGGAGACTTTCCTA-CCCTCAGTC
* *
47416 TGCTTGTCGGCTTTGACC
64 TGCCTATCGGCTTTGACC
47434 CTAAAAACTG
Statistics
Matches: 693, Mismatches: 128, Indels: 25
0.82 0.15 0.03
Matches are distributed among these distances:
124 42 0.06
125 494 0.71
126 99 0.14
127 35 0.05
128 23 0.03
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.37
Consensus pattern (125 bp):
GAGACTTCCCTACCCTTAGTCTGCCTGTCAGTTTTGACCCTGGAGACTTTCCTACCCTCAGTCTG
CCTATCGGCTTTGACCTTGGAGACTTTTTTCCCTAAGTCTGCCTGTCGGCTTTGACCCTG
Found at i:46773 original size:167 final size:166
Alignment explanation
Indices: 46474--47435 Score: 977
Period size: 167 Copynumber: 5.7 Consensus size: 166
46464 TTAAACTTCT
* * ** * * *
46474 GAGACTTTCCTTCCCTTAGTCTGTCTGTTGGCTTTTAACCTTAGAGACTTTCCTACCCTTAGTTT
1 GAGACTTTCCTTCCCTAAGTCTGCCTGTCAGC-TTTAACCTTAGAGACTTTTCTTCCCTTAGTCT
* * * * * *
46539 GCTTATC-AGCTTTGACCTTGGAGACTTTCTTTCCTAAGTCTGTCTGTCGACTTTGACCCTAGAG
65 GCCTGTCGA-CTTTGACC-TGGAGACTTCCTTCCCTAAGTCTGCCTGTCGACTTTGACCCTGGAG
* * * *
46603 ACTTCCCAACCCTTAGTCTACCTATCAGTTTTGACCCTA
128 ACTTCCCTACCCTTAGTCTGCCTATCGGTTTTGACCCTG
* * * * *
46642 AAGACTTTCCTTCCCTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTT-TTCCCTAAGTCTG
1 GAGACTTTCCTTCCCTAAGTCTGCCTGTCAGCTTTAACCTTAGAGACTTTTCTTCCCTTAGTCTG
* * * * **
46706 CCTGTCGGCTTTGACTCTGGAGATTTCCCTACCCTTAGTCTGCCTGTCGGTTTTGACCCTGGAGA
66 CCTGTCGACTTTGAC-CTGGAGACTT-CCTTCCCTAAGTCTGCCTGTCGACTTTGACCCTGGAGA
* * *
46771 CTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCCTG
129 CTTCCCTACCCTTAGTCTGCCTATCGGTTTTGACCCTG
* * * * * *
46809 GAGACTTT-CTTCCCTAAGCCTGCCTATCGGCTTTAACCCTGGAGACTTTTCTACCCTTAGTCTG
1 GAGACTTTCCTTCCCTAAGTCTGCCTGTCAGCTTTAACCTTAGAGACTTTTCTTCCCTTAGTCTG
* * * * *
46873 CCTGTCGACTTTGACCCTGGAGACTTCTTTCCCTAAGTCTGTCTATCGACTTTGACCTTAGAGAC
66 CCTGTCGACTTTGA-CCTGGAGACTTCCTTCCCTAAGTCTGCCTGTCGACTTTGACCCTGGAGAC
* * *
46938 TTCCCTACCCTTAGTTTGCCTGTCGGTTTTGACCTTG
130 TTCCCTACCCTTAGTCTGCCTATCGGTTTTGACCCTG
* * * * * *
46975 GAGAC-TTCCTTACCCTCAGTTTGCCTATCAGTTTTAACCTTGGAGACTTTTCTTCCCTAAGTCT
1 GAGACTTTCCTT-CCCTAAGTCTGCCTGTCAGCTTTAACCTTAGAGACTTTTCTTCCCTTAGTCT
* * ** *
47039 CCCTGTCGACTTTGACCTCGGAGACTTCTTTCCCTAAGTCTGCCTGTCGGTTTTGACCTTGGAGA
65 GCCTGTCGACTTTGACCT-GGAGACTTCCTTCCCTAAGTCTGCCTGTCGACTTTGACCCTGGAGA
*
47104 CTTCCCTACCCTTAGTCTGCCTGTCGGTTTTGACCCTG
129 CTTCCCTACCCTTAGTCTGCCTATCGGTTTTGACCCTG
* * * *
47142 GAGACTTTCCTACCCTCAGTCTGCCTGTCAGCTTTGAACC-TAAAGAC-TTTCTTGCCCTTAGTT
1 GAGACTTTCCTTCCCTAAGTCTGCCTGTCAGCTTT-AACCTTAGAGACTTTTCTT-CCCTTAGTC
* *
47205 TGCCTGTCGACTTTGATCCTGGAGACTTCCTTCCCTAAGTCTGCCTATCGACTTTGACCTTGGAG
64 TGCCTGTCGACTTTGA-CCTGGAGACTTCCTTCCCTAAGTCTGCCTGTCGACTTTGACCCTGGAG
* * ** * *
47270 ACTTTCCTACCCTCAGTCTGCCTATCGACTTTGATCCTA
128 ACTTCCCTACCCTTAGTCTGCCTATCGGTTTTGACCCTG
* * * * * * *
47309 GAAACTTTCTTTCCCTTAGTCTGCCTGTCAACTTTGACCCTAGAGA-TTTTCCTATTCCTTAGTC
1 GAGACTTTCCTTCCCTAAGTCTGCCTGTCAGCTTTAACCTTAGAGACTTTT-CT-TCCCTTAGTC
* ** * * *
47373 TGCCTGTC-AGCTTTGACCCTCGAGACTTTTTTATCCCTCAGTCTGCTTGTCGGCTTTGACCCT
64 TGCCTGTCGA-CTTTGA-CCTGGAGAC-TTCCT-TCCCTAAGTCTGCCTGTCGACTTTGACCCT
47436 AAAAACTGCC
Statistics
Matches: 668, Mismatches: 107, Indels: 36
0.82 0.13 0.04
Matches are distributed among these distances:
165 2 0.00
166 148 0.22
167 417 0.62
168 72 0.11
169 4 0.01
170 25 0.04
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.37
Consensus pattern (166 bp):
GAGACTTTCCTTCCCTAAGTCTGCCTGTCAGCTTTAACCTTAGAGACTTTTCTTCCCTTAGTCTG
CCTGTCGACTTTGACCTGGAGACTTCCTTCCCTAAGTCTGCCTGTCGACTTTGACCCTGGAGACT
TCCCTACCCTTAGTCTGCCTATCGGTTTTGACCCTG
Found at i:48259 original size:138 final size:138
Alignment explanation
Indices: 48011--48315 Score: 522
Period size: 138 Copynumber: 2.2 Consensus size: 138
48001 AATGCAATGT
* *
48011 AGCATGCAATCATGAGGAACATAAGCAAATGGAAAGAAAACAAAGCAATGTGCAAATGAAAAAGT
1 AGCATGCAATCATGAGGAACACAAGCAAATGGAAAGAAAACAAAGCAACGTGCAAATGAAAAAGT
*
48076 GATGGGAGATGCAAATCATGAAGAAACTTATGACAAACAAAATGAATTGGAGGCCACATGGAGAA
66 GATGGGAGATGCAAATCATGAAGAAACATATGACAAACAAAATGAATTGGAGGCCACATGGAGAA
48141 AATCATGA
131 AATCATGA
* *
48149 AGCATGCAATCACGAGGAACACAAGCAAATGGAAAGAAAGCAAAGCAACGTGCAAATGAAAAAGT
1 AGCATGCAATCATGAGGAACACAAGCAAATGGAAAGAAAACAAAGCAACGTGCAAATGAAAAAGT
* *
48214 GATGGGAGATGCAAATCATGAAGAAACATATGGA-AAACAAAATGAATTTGAGGCCTCATGGAGA
66 GATGGGAGATGCAAATCATGAAGAAACATAT-GACAAACAAAATGAATTGGAGGCCACATGGAGA
48278 AAATCATGA
130 AAATCATGA
*
48287 AGCATGCAATCATGAGAAACACAAGCAAA
1 AGCATGCAATCATGAGGAACACAAGCAAA
48316 AAGCAACGTG
Statistics
Matches: 157, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
138 155 0.99
139 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.23, T:0.15
Consensus pattern (138 bp):
AGCATGCAATCATGAGGAACACAAGCAAATGGAAAGAAAACAAAGCAACGTGCAAATGAAAAAGT
GATGGGAGATGCAAATCATGAAGAAACATATGACAAACAAAATGAATTGGAGGCCACATGGAGAA
AATCATGA
Found at i:52374 original size:16 final size:17
Alignment explanation
Indices: 52336--52376 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
52326 TTTTATAGTA
*
52336 AATTTTTTAACAAATTG
1 AATTTTATAACAAATTG
*
52353 AA-TTTATAATAAATT-
1 AATTTTATAACAAATTG
52368 AATTTTATA
1 AATTTTATA
52377 TTCTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 17 0.81
17 2 0.10
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
AATTTTATAACAAATTG
Found at i:54815 original size:20 final size:20
Alignment explanation
Indices: 54787--54824 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
54777 AAAATACCCA
54787 AATGCATCGATACATTCTTC
1 AATGCATCGATACATTCTTC
*
54807 AATGTATCGATACATTCT
1 AATGCATCGATACATTCT
54825 GTGTTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
AATGCATCGATACATTCTTC
Found at i:61853 original size:16 final size:16
Alignment explanation
Indices: 61834--61881 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
61824 AAAAAAAGTC
61834 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
61850 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
61864 AAAAGTGCAAAAGCAAA
1 AAAA-TGCAAAAGCAAA
61881 A
1 A
61882 TAAAAAAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 14 0.50
17 5 0.18
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:63201 original size:27 final size:27
Alignment explanation
Indices: 63163--63752 Score: 431
Period size: 27 Copynumber: 21.5 Consensus size: 27
63153 GGCGTTTCTT
63163 TTTAAAGTCCACAACTTCGTGGCATCC
1 TTTAAAGTCCACAACTTCGTGGCATCC
*
63190 TTTAAAGTCCACAACTCCGTGGCATCC
1 TTTAAAGTCCACAACTTCGTGGCATCC
*
63217 TTTAAAGTCCACAACTCCGTGGCATCC
1 TTTAAAGTCCACAACTTCGTGGCATCC
*
63244 TTTTAAGTCCACAAC-TCTGTGGCATCC
1 TTTAAAGTCCACAACTTC-GTGGCATCC
63271 TTTTAAAGTCCACAAC-TCTGTGGCA-CTC
1 -TTTAAAGTCCACAACTTC-GTGGCATC-C
* * *
63299 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTAAAGTCCACAACTTCGTGGCATCC
*
63326 TTTTAAGTCCACAACTTCGTGGCA-CC
1 TTTAAAGTCCACAACTTCGTGGCATCC
* *
63352 TTTTTAAGTCCACAACTTCGTGGCACCC
1 -TTTAAAGTCCACAACTTCGTGGCATCC
* * * *
63380 TTTTAAGTCCATAACTCCGTGGCACTCT
1 TTTAAAGTCCACAACTTCGTGGCA-TCC
* *
63408 TTTAAAGTCCACAA-TTCCATGGTATCC
1 TTTAAAGTCCACAACTT-CGTGGCATCC
* ** *
63435 TTTTAAGTCCACAACCCCGTGGCACCC
1 TTTAAAGTCCACAACTTCGTGGCATCC
* * *
63462 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTAAAGTCCACAACTTCGTGGCATCC
* * *
63489 TTTTAAGTTCACAAC-TCTGTGGCACTCT
1 TTTAAAGTCCACAACTTC-GTGGCA-TCC
63517 TTTGAAA-TCCACAAC-TCTGTGGCATCC
1 TTT-AAAGTCCACAACTTC-GTGGCATCC
*
63544 TTTTAAGTCCACAAC-TCTGTGGCA-CC
1 TTTAAAGTCCACAACTTC-GTGGCATCC
* *
63570 TTTCAAAGCCCACAA-GTCAGTGGCATCC
1 TTT-AAAGTCCACAACTTC-GTGGCATCC
* * *
63598 TTCTCAAAGCCCACAA-GTCAGTGGCATCT
1 TT-T-AAAGTCCACAACTTC-GTGGCATCC
* *
63627 TTTCAAAGCCCACAA-GTCAGTGGCATCC
1 TTT-AAAGTCCACAACTTC-GTGGCATCC
* * *
63655 TTTCAAA-TCCCACAA-GTCAGTAGCA-CTA
1 TTT-AAAGT-CCACAACTTC-GTGGCATC-C
* *
63683 TTTCAAAGCCCACAA-GTCAGTGGCATCC
1 TTT-AAAGTCCACAACTTC-GTGGCATCC
* * * *
63711 TTTCAAAGCCCACAAGTTAGTGGCATCA
1 TTT-AAAGTCCACAACTTCGTGGCATCC
*
63739 TTTCAAAGCCCACA
1 TTT-AAAGTCCACA
63753 CAAGTCGGTG
Statistics
Matches: 494, Mismatches: 46, Indels: 45
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.02
27 276 0.56
28 176 0.36
29 31 0.06
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (27 bp):
TTTAAAGTCCACAACTTCGTGGCATCC
Found at i:63317 original size:109 final size:109
Alignment explanation
Indices: 63162--63657 Score: 612
Period size: 109 Copynumber: 4.5 Consensus size: 109
63152 TGGCGTTTCT
* *
63162 TTTTAAAGTCCACAACT-TCGTGGCA-TCCTTTAAAGTCCACAACTCCGTGGCATCCTTTAAAGT
1 TTTTAAAGTCCACAACTCT-GTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGT
*
63225 CCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCC
65 CCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCTGTGGCACCC
*
63271 TTTTAAAGTCCACAACTCTGTGGCACTCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 TTTTAAAGTCCACAACTCTGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
*
63335 CACAACTTCGTGGCACCTTTTTAAGTCCACAACT-TCGTGGCACCC
66 CACAACTCCGTGGCACC-TTTTAAGTCCACAACTCT-GTGGCACCC
* * * * *
63380 TTTT-AAGTCCATAACTCCGTGGCACTCTTTTAAAGTCCACAATTCCATGGTATCCTTTTAAGTC
1 TTTTAAAGTCCACAACTCTGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
* *
63444 CACAACCCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
66 CACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCTGTGGCACCC
* *
63489 TTTT-AAGTTCACAACTCTGTGGCACTCTTTTGAAA-TCCACAACTCTGTGGCATCCTTTTAAGT
1 TTTTAAAGTCCACAACTCTGTGGCACTCTTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAAGT
* * * * * *
63552 CCACAACTCTGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCATCC
65 CCACAACTCCGTGGCACCTTT-TAAGTCCACAACTCTGTGGCACCC
* * * * * * *
63598 TTCTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTT
1 TT-TTAAAGTCCACAACTCTGTGGCACTCTTTT-AAAGTCCACAACTCCGTGGCATCCTTT
63658 CAAATCCCAC
Statistics
Matches: 338, Mismatches: 37, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
108 33 0.10
109 248 0.73
110 21 0.06
111 36 0.11
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (109 bp):
TTTTAAAGTCCACAACTCTGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
CACAACTCCGTGGCACCTTTTAAGTCCACAACTCTGTGGCACCC
Found at i:63368 original size:136 final size:136
Alignment explanation
Indices: 63162--63657 Score: 574
Period size: 136 Copynumber: 3.6 Consensus size: 136
63152 TGGCGTTTCT
* *
63162 TTTTAAAGTCCACAACTTCGTGGCATCCTTTAAAGTCCACAACTCCGTGGCATCC-TTTAAAGTC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTC
63226 CACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCTG
64 CACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCTG
63291 TGGCACTC
129 TGGCACTC
* * *
63299 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTAAGTCCA
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCA
* * * * * **
63364 CAACTTCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCA-CTCTTTTAAAGTCCACAATTCCAT
66 CAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATC-CTTTTAAAGTCCACAACTCTGT
*
63428 GGTA-TCC
130 GGCACT-C
* * *
63435 TTTTAAGTCCACAACCCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTTC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCC
* *
63499 ACAACTCTGTGGCA-CTCTTTTGAAATCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCT
65 ACAACTCCGTGGCATC-CTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCT
63562 GTGGCAC-C
128 GTGGCACTC
* * * * * * * * *
63570 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG
1 TTT-TAAGTCCACAACTCCGTGGCACCCTT-T-AAAGTCCACAACTCCGTGGCACCTTTT-AAAG
* * *
63635 CCCACAAGTCAGTGGCATCCTTT
62 TCCACAACTCCGTGGCATCCTTT
63658 CAAATCCCAC
Statistics
Matches: 305, Mismatches: 40, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
135 9 0.03
136 219 0.72
137 38 0.12
138 18 0.06
139 20 0.07
140 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (136 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCTTTTAAAGTCCA
CAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCTGTG
GCACTC
Found at i:63661 original size:56 final size:56
Alignment explanation
Indices: 63181--64400 Score: 729
Period size: 56 Copynumber: 21.2 Consensus size: 56
63171 CCACAACTTC
* * * * * * *
63181 GTGGCATCCTTT-AAAGTCCACAACTCCGTGGCATCCTTT-AAAGTCCACAACTCC
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * * *
63235 GTGGCATCCTTTT--AAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCT
1 GTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * * *
63290 GTGGCACTCTTTT--AAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTTC-
1 GTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAA-GTCA
* * * * * * * * * *
63344 GTGGCACCTTTT-TAAGTCCACAACTTC-GTGGCACCCTTT-TAAGTCCATAACTCC
1 GTGGCATCTTTTCAAAGCCCACAA-GTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * ** *
63398 GTGGCACTCTTTT-AAAGTCCACAATTCCA-TGGTATCCTTT-TAAGTCCACAACCCC
1 GTGGCA-TCTTTTCAAAGCCCACAAGT-CAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * * ** * *
63453 GTGGCACCCTTTT--AAGTCCACAACTCCGTGGCACCCTTT-TAAGTTCACAACTCT
1 GTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * * * *
63507 GTGGCACTCTTTTGAAA-TCCACAACTCTGTGGCATCCTTT-TAAGTCCACAACTCT
1 GTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
*
63562 GTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCA
*
63618 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAATCCCACAAGTCA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* *
63674 GTAGCA-CTATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTA
1 GTGGCATCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
63730 GTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAGCCCATTTCAAAGCCCACAAGTCG
1 GTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGCA-TCC-TTTCAAAGCCCACAAGTCA
* * **
63790 GTGGCATCTTTTCAAAGCCCACAAAAGTCGGTGGCACCCTTTCAAAGCCCACACAAGTTG
1 GTGGCATCTTTTCAAAGCCCAC--AAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCA
* * ** * **
63850 GTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTTG
1 GTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* ** * * *
63914 GTGGCAACCTATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTGAAAGCCCACACAAGTCG
1 GTGGC-ATCT-TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* ** * ** *
63978 GTGGCAACCCATTTGAAAAGCCCACACAAGTCGGTGGCAACTGATTTCAAAGCCCACACAAGTCG
1 GTGGC-A-TC-TTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CACAAGTCA
* * * * *
64043 GTGGCAACCCATTTCAAAGCCCACACAAGTCAATGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* ** *
64107 GTGGCATCTTTTCAAAGCCCGCAAGTCAGTGATACCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * *
64163 GTGACATCCTTTCAATGTCCACAAGTCGGTGGCATCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * * * * *
64219 ATGGTATCTTTTCCAAGCCCACAAGTCATTGGCAACTTTTCAAAGCCCACGAGTTA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
64275 GTGGCAACTTTTCAAAGCCCACGAGTCAGTGGCATCCTTCCAAAGCCCACAAGTCA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
64331 GTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCAT-CTCTTCAAAGCCCACAGAAGTTA
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCAC--AAGTCA
*
64389 GTGGCACCTTTT
1 GTGGCATCTTTT
64401 TTTAAAAAGC
Statistics
Matches: 1003, Mismatches: 122, Indels: 78
0.83 0.10 0.06
Matches are distributed among these distances:
53 15 0.01
54 151 0.15
55 153 0.15
56 284 0.28
57 36 0.04
58 48 0.05
59 13 0.01
60 68 0.07
61 3 0.00
62 28 0.03
63 8 0.01
64 138 0.14
65 57 0.06
66 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (56 bp):
GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:63778 original size:32 final size:31
Alignment explanation
Indices: 63553--64213 Score: 562
Period size: 32 Copynumber: 22.1 Consensus size: 31
63543 CTTTTAAGTC
* *
63553 CACAACTCTGTGGCA-CC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
* *
63580 CACAAGTCAGTGGCATCC-TTCTCAAAG-CC-
1 CACAAGTCGGTGGCACCCATT-TCAAAGCCCA
* * *
63609 CACAAGTCAGTGGCA-TCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
* * *
63637 CACAAGTCAGTGGCATCC-TTTCAAA-TCC-
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
* * *
63665 CACAAGTCAGTAGCA-CTATTTCAAAG-CC-
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
* *
63693 CACAAGTCAGTGGCATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
** *
63721 CACAAGTTAGTGGCA-TCATTTCAAAGCCCA
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
63751 CACAAGTCGGTGGCAGCCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCA-CCCATTTCAAAGCCCA
* *
63781 CACAAGTCGGTGGCA-TCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
*
63811 CAAAAGTCGGTGGCACCC-TTTCAAAGCCCA
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
* * *
63841 CACAAGTTGGTGGCAACTCATTTGAAAGCCCA
1 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
*
63873 CACAAGTTGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
* *
63905 CACAAGTTGGTGGCAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
* *
63937 CACAAGTTGGTGGCAACCCATTTGAAAGCCCA
1 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
*
63969 CACAAGTCGGTGGCAACCCATTTGAAAAGCCCA
1 CACAAGTCGGTGGC-ACCCATTT-CAAAGCCCA
**
64002 CACAAGTCGGTGGCAACTGATTTCAAAGCCCA
1 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
64034 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
**
64066 CACAAGTCAATGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGC-ACCCATTTCAAAGCCCA
* *
64098 CACAAGTCGGTGGCA-TCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
* * **
64126 CGCAAGTCAGTGATACCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
* * * * *
64154 CACAAGTCAGTGACATCC-TTTCAATG-TC-
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
* *
64182 CACAAGTCGGTGGCA-TCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCACCCATTTCAAAGCCCA
64212 CA
1 CA
64214 AGTCAATGGT
Statistics
Matches: 557, Mismatches: 54, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
27 16 0.03
28 179 0.32
29 35 0.06
30 77 0.14
31 7 0.01
32 214 0.38
33 29 0.05
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (31 bp):
CACAAGTCGGTGGCACCCATTTCAAAGCCCA
Found at i:63811 original size:28 final size:28
Alignment explanation
Indices: 63498--64400 Score: 637
Period size: 28 Copynumber: 30.8 Consensus size: 28
63488 CTTTTAAGTT
* * * *
63498 CACAACTCTGTGGCACTCTTTTGAAA-TC
1 CACAAGTCAGTGGCA-TCTTTTCAAAGCC
* * *
63526 CACAACTCTGTGGCATCCTTTT--AAGTC
1 CACAAGTCAGTGGCAT-CTTTTCAAAGCC
* * *
63553 CACAACTCTGTGGCA-CCTTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
*
63580 CACAAGTCAGTGGCATCCTTCTCAAAGCC
1 CACAAGTCAGTGGCAT-CTTTTCAAAGCC
63609 CACAAGTCAGTGGCATCTTTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* *
63637 CACAAGTCAGTGGCATCCTTTCAAATCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
*
63665 CACAAGTCAGTAGCA-CTATTTCAAAGCC
1 CACAAGTCAGTGGCATCT-TTTCAAAGCC
*
63693 CACAAGTCAGTGGCATCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* *
63721 CACAAGTTAGTGGCATCATTTCAAAGCCC
1 CACAAGTCAGTGGCATCTTTTCAAAG-CC
* * *
63750 ACACAAGTCGGTGGCAGCCCATTTCAAAGCC
1 -CACAAGTCAGTGGCA--TCTTTTCAAAGCC
*
63781 CACAAGTCGGTGGCATCTTTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* * *
63809 CACAAAAGTCGGTGGCACCCTTTCAAAGCCC
1 CAC--AAGTCAGTGGCATCTTTTCAAAG-CC
** * *
63840 ACACAAGTTGGTGGCAACTCATTTGAAAGCCC
1 -CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC
** * *
63872 ACACAAGTTGGTGGCAACCCATTTCAAAGCCC
1 -CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC
** *
63904 ACACAAGTTGGTGGCAACCTATTTCAAAGCCC
1 -CACAAGTCAGTGGC-ATCT-TTTCAAAG-CC
** * * *
63936 ACACAAGTTGGTGGCAACCCATTTGAAAGCCC
1 -CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC
* * **
63968 ACACAAGTCGGTGGCAACCCATTTGAAAAGCCC
1 -CACAAGTCAGTGGC-A-TC-TTTTCAAAG-CC
* *
64001 ACACAAGTCGGTGGCAACTGATTTCAAAGCCC
1 -CACAAGTCAGTGGCATCT--TTTCAAAG-CC
* * *
64033 ACACAAGTCGGTGGCAACCCATTTCAAAGCCC
1 -CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC
* * *
64065 ACACAAGTCAATGGCAACCCATTTCAAAGCCC
1 -CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC
*
64097 ACACAAGTCGGTGGCATCTTTTCAAAGCC
1 -CACAAGTCAGTGGCATCTTTTCAAAGCC
* ** * *
64126 CGCAAGTCAGTGATACCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* * * *
64154 CACAAGTCAGTGACATCCTTTCAATGTC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
*
64182 CACAAGTCGGTGGCATCTTTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* * *
64210 CACAAGTCAATGGTATCTTTTCCAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* *
64238 CACAAGTCATTGGCAACTTTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* * *
64266 CACGAGTTAGTGGCAACTTTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* * *
64294 CACGAGTCAGTGGCATCCTTCCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* *
64322 CACAAGTCAGTGGCATCCTTTCAAAGCT
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
*
64350 CACAAGTCAGTGGCATCTCTTCAAAGCC
1 CACAAGTCAGTGGCATCTTTTCAAAGCC
* *
64378 CACAGAAGTTAGTGGCACCTTTT
1 CAC--AAGTCAGTGGCATCTTTT
64401 TTTAAAAAGC
Statistics
Matches: 761, Mismatches: 87, Indels: 52
0.85 0.10 0.06
Matches are distributed among these distances:
25 4 0.01
26 2 0.00
27 36 0.05
28 360 0.47
29 31 0.04
30 84 0.11
31 9 0.01
32 207 0.27
33 27 0.04
34 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (28 bp):
CACAAGTCAGTGGCATCTTTTCAAAGCC
Found at i:64034 original size:129 final size:128
Alignment explanation
Indices: 63570--64112 Score: 579
Period size: 129 Copynumber: 4.5 Consensus size: 128
63560 CTGTGGCACC
* * * * *
63570 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTCTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATT-TCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * * * *
63627 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAA-TCC-CACAAGTCAGTAGC-A-CTA
65 TTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTA
* * ** *
63683 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTTAGTGGC-A-TCAT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * *
63740 TTCAAAGCCCACACAAGTCGGTGGCAGCCCATTTCAAAG-CC-CACAAGTCGGTGGC-ATCT-
66 TTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTA
* * *
63799 TTTCAAAGCCCACAAAAGTCGGTGGC-ACCC-TTTCAAAGCCCACACAAGTTGGTGGCAACTCAT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
63862 TTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCTA
66 TTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTA
* *
63925 TTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTGAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
** *
63990 TTGAAAAGCCCACACAAGTCGGTGGCAACTGATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
66 TTG-AAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTA
**
64054 TTTCAAAGCCCACACAAGTCAATGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCA
64113 TCTTTTCAAA
Statistics
Matches: 381, Mismatches: 30, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
112 32 0.08
113 32 0.08
114 13 0.03
115 2 0.01
116 30 0.08
117 4 0.01
118 23 0.06
119 2 0.01
120 13 0.03
121 1 0.00
122 40 0.10
123 2 0.01
124 13 0.03
125 3 0.01
126 24 0.06
127 4 0.01
128 33 0.09
129 110 0.29
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (128 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
TTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTA
Found at i:64535 original size:45 final size:45
Alignment explanation
Indices: 64471--64641 Score: 164
Period size: 45 Copynumber: 3.7 Consensus size: 45
64461 AAATCCGATA
* *
64471 TCGCTGGCATTGGATCAGCATATTGG-CACCTTTATTAGCTCAATG
1 TCGCTGGCATTGAATCAGCACATTGGCCA-CTTTATTAGCTCAATG
* ** * * *
64516 TCGCTGGCCTTGAATCAGCACATTATCCATTTTCCCTTAGCTCAATA
1 TCGCTGGCATTGAATCAGCACATTGGCCACTTT--ATTAGCTCAATG
** * * * *
64563 TTACTGACATTGAATCAGTACATTGTCCACTTTATTAGCCCAATG
1 TCGCTGGCATTGAATCAGCACATTGGCCACTTTATTAGCTCAATG
*
64608 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTT
1 TCGCTGGCATTGAATCAGCACATTGG-CCACTTT
64642 TCCCTTAGTC
Statistics
Matches: 98, Mismatches: 24, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
45 53 0.54
46 9 0.09
47 36 0.37
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (45 bp):
TCGCTGGCATTGAATCAGCACATTGGCCACTTTATTAGCTCAATG
Found at i:64576 original size:47 final size:47
Alignment explanation
Indices: 64525--64655 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 47
64515 GTCGCTGGCC
* * *
64525 TTGAATCAGCACATTATCCATTTTCCCTTAGCTCAATATTACTGACA
1 TTGAATCAGCACATTGTCCATTTTCCCTTAGCCCAATATCACTGACA
* * * * * * *
64572 TTGAATCAGTACATTGTCCACTTT--ATTAGCCCAATGTCGCTGGCC
1 TTGAATCAGCACATTGTCCATTTTCCCTTAGCCCAATATCACTGACA
*
64617 TTGAATCAGCACATTGGTCCACTTTTCCCTTAGTCCAAT
1 TTGAATCAGCACATT-GTCCA-TTTTCCCTTAGCCCAAT
64656 GTCGCTAGCC
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
45 28 0.42
46 5 0.08
47 24 0.36
49 9 0.14
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (47 bp):
TTGAATCAGCACATTGTCCATTTTCCCTTAGCCCAATATCACTGACA
Found at i:64667 original size:49 final size:47
Alignment explanation
Indices: 64505--64681 Score: 182
Period size: 47 Copynumber: 3.7 Consensus size: 47
64495 GGCACCTTTA
*
64505 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTATCCA-TTTTCCC
1 TTAGC-CAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* ** * * * *
64552 TTAGCTCAATATTACTGACATTGAATCAGTACATTGTCCAC-TTT--A
1 TTAGC-CAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
64597 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCC
1 TTAG-CCAATGTCGCTGGCCTTGAATCAGCACATT-GTCCACTTTTCCC
* **
64646 TTAGTCCAATGTCGCTAGCCTTGAATTGGCACATTG
1 TTAG-CCAATGTCGCTGGCCTTGAATCAGCACATTG
64682 GTAATCCTCT
Statistics
Matches: 105, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
45 27 0.26
46 7 0.07
47 39 0.37
48 1 0.01
49 31 0.30
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (47 bp):
TTAGCCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:68698 original size:20 final size:20
Alignment explanation
Indices: 68651--68726 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
68641 AAAAAGACAT
*
68651 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
68670 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
68691 CATGTATCGATATATTGAAAA
1 AATGTATCGATACATT-CATA
68712 AATGTATCGATACAT
1 AATGTATCGATACAT
68727 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 28 0.62
21 17 0.38
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:69343 original size:32 final size:32
Alignment explanation
Indices: 69255--69946 Score: 914
Period size: 33 Copynumber: 21.1 Consensus size: 32
69245 AATATGGTGA
* * **
69255 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
69287 TTTTG-AATGGGTTTGCCACCGACTTGTGTGGG-
1 -TTTGAAATGGG-TTGCCACCGACTTGTGTGGGC
*
69319 TTTGAAATGAGTTGCCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTG-CCACCGACTTGTGTGGGC
* *
69352 TTTGGAAT-GGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
69383 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
69415 TTTGAAATGGGTTTGCCACCCGAC-TGTGTGGGGC
1 TTTGAAATGGG-TTGCCA-CCGACTTGTGT-GGGC
69449 TTTGAAATGGGTTTGCCACCGACTTGT-TGGGC
1 TTTGAAATGGG-TTGCCACCGACTTGTGTGGGC
*
69481 TTTGAAATGGGTTACCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTT-GCCACCGACTTGTGTGGGC
*
69514 TTTGGAATGGGTTGCCACCG-CTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
69545 TTTGGAATGGGTTTCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
69577 TTTGGAATGGGTTGCCACCGACTTGTGTGGGTT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGG-C
*
69610 TTTGAAATGGGTTGCCACCGACTTGTGTGGGTG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGG-C
69643 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
69675 TTTGAAATGAGTTGCCACCGGACTTGTGGTTGGGC
1 TTTGAAATGGGTTGCCACC-GACTTGT-G-TGGGC
*
69710 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
69742 TTTGAAATGGGTTGCCACCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCA-CCGACTTGTGTGGGC
69775 TTTGAAATGGGTTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TTGCCACCGACTTGTGTGGGC
69808 TTTGAAAT-GGTTG-CACCACGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCA-C-CGACTTGTGTGGGC
*
69840 TTTGGAATGGGTTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TTGCCACCGACTTGTGTGGGC
* *
69873 TTTGGAATGGGTTGCCCACCGACTTGTGTGGGGG
1 TTTGAAATGGGTTG-CCACCGACTTGTGT-GGGC
* * *
69907 TTTGCAATGGGTATTTTGCCCCCGCCTTGTGTGGGC
1 TTTGAAATGGG----TTGCCACCGACTTGTGTGGGC
69943 TTTG
1 TTTG
69947 CCCTGCGTTC
Statistics
Matches: 601, Mismatches: 29, Indels: 55
0.88 0.04 0.08
Matches are distributed among these distances:
30 2 0.00
31 67 0.11
32 203 0.34
33 222 0.37
34 61 0.10
35 24 0.04
36 7 0.01
37 12 0.02
38 3 0.00
ACGTcount: A:0.14, C:0.19, G:0.34, T:0.33
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:69360 original size:65 final size:64
Alignment explanation
Indices: 69255--69946 Score: 914
Period size: 65 Copynumber: 10.6 Consensus size: 64
69245 AATATGGTGA
* * **
69255 TTTGAAAAGGGTTGCCACTGACTTGCATGGGCTTTTG-AATGGGTTTGCCACCGACTTGTGTGGG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC-TTTGAAATGGG-TTGCCACCGACTTGTGTGGG
69319 -
64 C
* * *
69319 TTTGAAATGAGTTGCCCACCGACTTGTGTGGGCTTTGGAAT-GGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTG-CCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
69383 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTTGCCACCCGAC-TGTGTGGG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGG-TTGCCA-CCGACTTGTGT-GG
69447 GC
63 GC
*
69449 TTTGAAATGGGTTTGCCACCGACTTGT-TGGGCTTTGAAATGGGTTACCCACCGACTTGTGTGGG
1 TTTGAAATGGG-TTGCCACCGACTTGTGTGGGCTTTGAAATGGGTT-GCCACCGACTTGTGTGGG
69513 C
64 C
* * *
69514 TTTGGAATGGGTTGCCACCG-CTTGTGTGGGCTTTGGAATGGGTTTCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
69577 TTTGGAATGGGTTGCCACCGACTTGTGTGGGTTTTTGAAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGG-CTTTGAAATGGGTTGCCACCGACTTGTGTGGG-
*
69642 G
64 C
*
69643 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGGACTTGTGGTTGG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC-GACTTGT-G-TGG
69708 GC
63 GC
*
69710 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCA-CCGACTTGTGTGGGC
69775 TTTGAAATGGGTTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTG-CACCACGACTTGTGTGG
1 TTTGAAATGGG-TTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCA-C-CGACTTGTGTGG
69838 GC
63 GC
* *
69840 TTTGGAATGGGTTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCCACCGACTTGTGTGGG
1 TTTGAAATGGG-TTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTG-CCACCGACTTGTGT-GG
*
69905 GG
63 GC
* * *
69907 TTTGCAATGGGTATTTTGCCCCCGCCTTGTGTGGGCTTTG
1 TTTGAAATGGG----TTGCCACCGACTTGTGTGGGCTTTG
69947 CCCTGCGTTC
Statistics
Matches: 572, Mismatches: 29, Indels: 48
0.88 0.04 0.07
Matches are distributed among these distances:
63 88 0.15
64 73 0.13
65 170 0.30
66 125 0.22
67 84 0.15
68 8 0.01
70 24 0.04
ACGTcount: A:0.14, C:0.19, G:0.34, T:0.33
Consensus pattern (64 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Done.