Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1989
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: 39149
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
File 2 of 2
Found at i:32034 original size:60 final size:61
Alignment explanation
Indices: 31945--32274 Score: 287
Period size: 61 Copynumber: 5.4 Consensus size: 61
31935 GGGGGACGTG
*
31945 GAAAAGCCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTTGAAAA
1 GAAAAGACGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTTGAAAA
* * * * **
32006 G-AATGGCGTCTTGCTCTTTGAGGACT-AAAAGTTGCCACCAACTTGCGTGGGCTTTGAAAGA
1 GAAAAGACGTCCTGCTCTTTGAGGACTAAAAAG-TGCCACCAACTCGTATGGGCTTTGAAA-A
* * * * * *
32067 AAAAAGACGTCCAGCTCTATGAGGACTAAAAGGTGCCGCCAACTCTTGA-GGGCTTTGAAAA
1 GAAAAGACGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGT-ATGGGCTTTGAAAA
* * * * * ** * *
32128 GAAAAGGCGTCCAGCTCTTTTAGGACT-GAAAGCTGCCACCAACTTGCCTGCGCGTT-AAAA
1 GAAAAGACGTCCTGCTCTTTGAGGACTAAAAAG-TGCCACCAACTCGTATGGGCTTTGAAAA
* * * * * *
32188 GAAAAAGACGTCTTGCTTTTTGAGGACTAAAAGGTGCCACCAATTCATGTGGGCTTTG-AAA
1 G-AAAAGACGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTTGAAAA
*
32249 GAAAAAGATGT-CTCGCTCTTTGAGGA
1 G-AAAAGACGTCCT-GCTCTTTGAGGA
32275 TTGTAAGGTG
Statistics
Matches: 210, Mismatches: 48, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
59 5 0.02
60 55 0.26
61 102 0.49
62 44 0.21
63 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (61 bp):
GAAAAGACGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTTGAAAA
Found at i:32287 original size:122 final size:122
Alignment explanation
Indices: 31946--32274 Score: 401
Period size: 122 Copynumber: 2.7 Consensus size: 122
31936 GGGGACGTGG
* * * * * *
31946 AAAAGCCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTATGGGCTTTGAAAAGAATG
1 AAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAAAAAG
* * * * * * *
32011 GCGTCTTGCTCTTTGAGGACTAAAAGTTGCCACCAACTTGCGTGGGCTTTGAAAGAA
66 GCGTCTCGCTCTTTGAGGACTGAAAGCTGCCACCAACTTGCCTGCGCGTTAAAAGAA
* * * * *
32068 AAAAGACGTCCAGCTCTATGAGGACTAAAAGGTGCCGCCAACTCTTGAGGGCTTTGAAAAGAAAA
1 AAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAA-AAAA
*
32133 GGCGTC-CAGCTCTTTTAGGACTGAAAGCTGCCACCAACTTGCCTGCGCGTTAAAAG-A
65 GGCGTCTC-GCTCTTTGAGGACTGAAAGCTGCCACCAACTTGCCTGCGCGTTAAAAGAA
* * *
32190 AAAAGACGTCTTGCTTTTTGAGGACTAAAAGGTGCCACCAATTCATGTGGGCTTTGAAAGAAAAA
1 AAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAA-AAAAA
**
32255 GATGTCTCGCTCTTTGAGGA
65 GGCGTCTCGCTCTTTGAGGA
32275 TTGTAAGGTG
Statistics
Matches: 174, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
122 123 0.71
123 51 0.29
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (122 bp):
AAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAAAAAG
GCGTCTCGCTCTTTGAGGACTGAAAGCTGCCACCAACTTGCCTGCGCGTTAAAAGAA
Found at i:32957 original size:122 final size:122
Alignment explanation
Indices: 32740--32962 Score: 297
Period size: 122 Copynumber: 1.8 Consensus size: 122
32730 GGGGGAGGAG
* *
32740 GAAAAGGCATCCTGCCCTTTGAGGACTAAAAAGTGCCACCAACTCTGTGGGCGTGTGAAAGAAAA
1 GAAAAGACATCCTGCCCTTTGAGGACTAAAAAGGGCCACCAACTCTGTGGGCGTGTGAAAGAAAA
* * * *
32805 TGTATCTTGCTCTTTTGAGGACTGAAAAGGTGCCACTAACTTGCGTGGGCTTTAAAA
66 AGTATCCTACTCTTGTGAGGACTGAAAAGGTGCCACTAACTTGCGTGGGCTTTAAAA
* * * * *
32862 GAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGGGCCACCAATTCATGTGGGC-TTTGAAAGAAA
1 GAAAAGACATCCTGCCCTTTGAGGACTAAAAAGGGCCACCAACTC-TGTGGGCGTGTGAAAGAAA
* *
32926 AAGATGTCCTACTCTTGTGAGGACTG-GAAGGTGCCAC
65 AAG-TATCCTACTCTTGTGAGGACTGAAAAGGTGCCAC
32963 CAATTCATCC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
122 61 0.71
123 25 0.29
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (122 bp):
GAAAAGACATCCTGCCCTTTGAGGACTAAAAAGGGCCACCAACTCTGTGGGCGTGTGAAAGAAAA
AGTATCCTACTCTTGTGAGGACTGAAAAGGTGCCACTAACTTGCGTGGGCTTTAAAA
Found at i:32970 original size:62 final size:60
Alignment explanation
Indices: 32749--32968 Score: 221
Period size: 62 Copynumber: 3.6 Consensus size: 60
32739 GGAAAAGGCA
* * * * * * *
32749 TCCTGCCCTTTGAGGACTAAAAAGTGCCACCAACTCTGTGGGCGTGTGAAAGAAAATG-TA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAATTCTGTGGGC-TTTGAAAGAAAAAGATG
* * * *
32809 TCTTGCTCTTTTGAGGACTGAAAAGGTGCCACTAACTTGC-GTGGGCTTTAAAAG-AAAAGACG
1 TCCTGCTC-TTTGAGGACTG-AAAGGTGCCACCAA-TT-CTGTGGGCTTTGAAAGAAAAAGATG
* *
32871 TCCTGCTCTTTGAGGACTAAAAGGGGCCACCAATTCATGTGGGCTTTGAAAGAAAAAGATG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAATTC-TGTGGGCTTTGAAAGAAAAAGATG
* *
32932 TCCTACTCTTGTGAGGACTGGAAGGTGCCACCAATTC
1 TCCTGCTCTT-TGAGGACTGAAAGGTGCCACCAATTC
32969 ATCCCCATAC
Statistics
Matches: 130, Mismatches: 21, Indels: 16
0.78 0.13 0.10
Matches are distributed among these distances:
58 1 0.01
59 2 0.02
60 31 0.24
61 40 0.31
62 48 0.37
63 7 0.05
64 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAATTCTGTGGGCTTTGAAAGAAAAAGATG
Found at i:33535 original size:43 final size:43
Alignment explanation
Indices: 33487--33633 Score: 127
Period size: 43 Copynumber: 3.3 Consensus size: 43
33477 CCTACTTTTC
* *
33487 AAGGAC-AAAGAAAAAAATGAAAATGAAACGTGTCCTGCTCTTT
1 AAGGACAAAAGAAAAAAAAGAAAATGAAA-GAGTCCTGCTCTTT
* * *
33530 GAGGACTAGAAGGAAAAAAAAGTAAATGAAAGAGCATCCTGCTCTTT
1 AAGGAC-A-AAAGAAAAAAAAGAAAATGAAAGAG--TCCTGCTCTTT
* * * * *
33577 AAGGAC-AAAGGAGAAAAGGAAAACGAAATGCGTCCTGCTCTTT
1 AAGGACAAAAGAAAAAAAAGAAAATGAAA-GAGTCCTGCTCTTT
*
33620 CAGGACAAAAGAAA
1 AAGGACAAAAGAAA
33634 GAGGAAAATA
Statistics
Matches: 81, Mismatches: 16, Indels: 13
0.74 0.15 0.12
Matches are distributed among these distances:
43 21 0.26
44 21 0.26
45 4 0.05
46 19 0.23
47 16 0.20
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.17
Consensus pattern (43 bp):
AAGGACAAAAGAAAAAAAAGAAAATGAAAGAGTCCTGCTCTTT
Found at i:33660 original size:42 final size:41
Alignment explanation
Indices: 33571--33672 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 41
33561 GAGCATCCTG
* *
33571 CTCTTTAAGGACAAAGGAGAAAAGGAAAACGAAATGCGTCCTG
1 CTCTTTAAGGACAAA--AGAAAAGGAAAACGAAATGCGCCCTA
* *
33614 CTCTTTCAGGACAAAAGAAAGAGGAAAA-TAAAGTGCGCCCTA
1 CTCTTTAAGGACAAAAGAAA-AGGAAAACGAAA-TGCGCCCTA
*
33656 CTCTTTGAGGACAAAAG
1 CTCTTTAAGGACAAAAG
33673 GGAAAAGAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
41 8 0.15
42 30 0.58
43 14 0.27
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (41 bp):
CTCTTTAAGGACAAAAGAAAAGGAAAACGAAATGCGCCCTA
Found at i:34551 original size:48 final size:48
Alignment explanation
Indices: 34492--34730 Score: 167
Period size: 48 Copynumber: 5.3 Consensus size: 48
34482 AAATGAATGT
*
34492 GTCCT-GCTCTTTGAGGACTAGAGACGG-AAAAGAAGGAAATGAAGAGAC
1 GTCCTAGCTCTTTGAGGACTAGA-ACGGAAAAAGAAGGAAATAAAGAG-C
*
34540 GT-CTAGCTCTTTGAGGACTAGAAGGGAAAAAGAAGGAAATAAAGAGC
1 GTCCTAGCTCTTTGAGGACTAGAACGGAAAAAGAAGGAAATAAAGAGC
* * **
34587 GTCCTA-CTCTTTGAGGACCA-AA--GAGAAAGGAA--AACGAAA-ATGC
1 GTCCTAGCTCTTTGAGGACTAGAACGGA-AAAAGAAGGAAATAAAGA-GC
* * *
34630 GTCCT-GCTCTTTGAGGAC-A-AA-AGAAAAAG--GAAAATAAAGTGC
1 GTCCTAGCTCTTTGAGGACTAGAACGGAAAAAGAAGGAAATAAAGAGC
* * * * * *
34672 GT-CTTGCTCTTTGAGGGC-A-AAAGGGAAAAGAAGGAAATGAAGTGC
1 GTCCTAGCTCTTTGAGGACTAGAACGGAAAAAGAAGGAAATAAAGAGC
34717 GTCCTA-CTCTTTGA
1 GTCCTAGCTCTTTGA
34731 AGACAAGGGG
Statistics
Matches: 160, Mismatches: 16, Indels: 33
0.77 0.08 0.16
Matches are distributed among these distances:
41 2 0.01
42 32 0.20
43 32 0.20
44 2 0.01
45 27 0.17
46 4 0.03
47 21 0.13
48 40 0.25
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (48 bp):
GTCCTAGCTCTTTGAGGACTAGAACGGAAAAAGAAGGAAATAAAGAGC
Found at i:34686 original size:42 final size:42
Alignment explanation
Indices: 34450--34736 Score: 197
Period size: 43 Copynumber: 6.5 Consensus size: 42
34440 AAAAAGAGTA
* *
34450 CGTCCTGCT-TTTCGAGGACAAAAAAAAAAGGAAAATGAA-TG
1 CGTCCTGCTCTTT-GAGGACAAAAGAAAAAGGAAAATAAAGTG
* * * *
34491 TGTCCTGCTCTTTGAGGACTAGAGACGGAAAAGAAGG-AAATGAAGAG
1 CGTCCTGCTCTTTGAGGAC-A-A-A-AG-AAA-AAGGAAAATAAAGTG
* * *
34538 ACGT-CTAGCTCTTTGAGGACTAGAAGGGAAAAAGAAGGAAATAAAGAG
1 -CGTCCT-GCTCTTTGAGGAC-A-AA-AGAAAAAG--GAAAATAAAGTG
* * * * *
34586 CGTCCTACTCTTTGAGGACCAAAGAGAAAGGAAAACGAAAATG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAA-TAAAGTG
34629 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAATAAAGTG
* * *
34671 CGTCTTGCTCTTTGAGGGCAAAAGGGAAAAGAAGG-AAATGAAGTG
1 CGTCCTGCTCTTTGAGGACAAAA--G-AAA-AAGGAAAATAAAGTG
* *
34716 CGTCCTACTCTTTGAAGACAA
1 CGTCCTGCTCTTTGAGGACAA
34737 GGGGGAAGAG
Statistics
Matches: 200, Mismatches: 27, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
41 14 0.07
42 34 0.17
43 37 0.19
44 8 0.04
45 34 0.17
46 17 0.09
47 26 0.13
48 30 0.15
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (42 bp):
CGTCCTGCTCTTTGAGGACAAAAGAAAAAGGAAAATAAAGTG
Found at i:34834 original size:62 final size:61
Alignment explanation
Indices: 34748--35057 Score: 279
Period size: 61 Copynumber: 5.1 Consensus size: 61
34738 GGGGAAGAGG
* * * * *
34748 AAAAGGCGCCCTGCTCTTTAAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
1 AAAAGGCGTCTTGCACTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG-AAAGA
* * **
34810 AAAAGGCGTCTTGCACTTTGAGGACTGAAAGGTGCCACCAACTTGCATGGGCTTTGAAAGA
1 AAAAGGCGTCTTGCACTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGA
* * * * *
34871 AAAAGCCGTCTAGCTCTATGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAA-A
1 AAAAGGCGTCTTGCACTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGA
* * * * * * * *
34931 GAAAAGGCGTCTGGC-TTTTTAGGACTGAAAGCTGCCACCAACTTGCT-TGCGCGTT-AAAGA
1 -AAAAGGCGTCTTGCACTTTGAGGACTAAAAGGTGCCACCAACTCG-TGTGGGCTTTGAAAGA
* * * * * *
34991 AAAAGACCATCCTGCTA-TTTGAGCACTAAATGGTGCCACCAACACGTGTGGAGCTTTGAAAGA
1 AAAAG-GCGTCTTGC-ACTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGG-GCTTTGAAAGA
35054 AAAA
1 AAAA
35058 AGATGTCCTA
Statistics
Matches: 197, Mismatches: 42, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
59 8 0.04
60 37 0.19
61 92 0.47
62 51 0.26
63 9 0.05
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (61 bp):
AAAAGGCGTCTTGCACTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGA
Found at i:34902 original size:61 final size:60
Alignment explanation
Indices: 34758--35095 Score: 263
Period size: 61 Copynumber: 5.5 Consensus size: 60
34748 AAAAGGCGCC
* * * ** *
34758 CTGCTCTTTAAGGACTAAAATGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGT
1 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGCATGGGCTTTG-AAAGAAAAAGCCGT
* *
34819 CTTGCACTTTGAGGACTGAAAGGTGCCACCAACTTGCATGGGCTTTGAAAGAAAAAGCCGT
1 C-TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGCATGGGCTTTGAAAGAAAAAGCCGT
* *
34880 CTAGCTCTATGAGGACTAAAAGGTGCCACCAACTCGTG-A-GGGCTTTGAAA-AGAAAAGGCGT
1 CT-GCTCTTTGAGGACTAAAAGGTGCCACCAACT--TGCATGGGCTTTGAAAGA-AAAAGCCGT
* * * * * * *
34941 CTGGCT-TTTTAGGACTGAAAGCTGCCACCAACTTGCTTGCGCGTT-AAAGAAAAAGACCAT
1 CT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGCATGGGCTTTGAAAGAAAAAG-CCGT
* * * ** ** **
35001 CCTGCTATTTGAGCACTAAATGGTGCCACCAACACGTGTGGAGCTTTGAAAGAAAAAAGATGT
1 -CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGCATGG-GCTTTGAAAG-AAAAAGCCGT
* ** *
35064 CCTACTCTTTGAGGACTGGAAGGTGCCCCCAA
1 -CTGCTCTTTGAGGACTAAAAGGTGCCACCAA
35096 TTCGTCCCCA
Statistics
Matches: 220, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
58 2 0.01
59 8 0.04
60 36 0.16
61 93 0.42
62 43 0.20
63 32 0.15
64 6 0.03
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (60 bp):
CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGCATGGGCTTTGAAAGAAAAAGCCGT
Found at i:35026 original size:121 final size:122
Alignment explanation
Indices: 34757--35056 Score: 385
Period size: 121 Copynumber: 2.5 Consensus size: 122
34747 GAAAAGGCGC
*
34757 CCTGCTCTTTAAGGACTAAAAT-GTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCT
1 CCTGCTCTTTGAGGACT-AAATGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAGGCGTCT
* * * * *
34821 TGCACTTTGAGGACTGAAAGGTGCCACCAACTTGCATGGGCTTTGAAAGAAAAAGCCGT
64 GGCACTTTGAGGACTGAAAGCTGCCACCAACTTGCATGCGCGTTGAAAGAAAAAGCCAT
* * *
34880 -CTAGCTCTATGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAAGAAAAGGCGTCTG
1 CCT-GCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCTG
* * *
34944 GC-TTTTTAGGACTGAAAGCTGCCACCAACTTGCTTGCGCGTT-AAAGAAAAAGACCAT
65 GCACTTTGAGGACTGAAAGCTGCCACCAACTTGCATGCGCGTTGAAAGAAAAAG-CCAT
* * *
35001 CCTGCTATTTGAGCACTAAATGGTGCCACCAACACGTGTGGAGCTTTG-AAAGAAAA
1 CCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGG-GCTTTGAAAAGAAAA
35057 AAGATGTCCT
Statistics
Matches: 154, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
120 10 0.06
121 77 0.50
122 26 0.17
123 41 0.27
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (122 bp):
CCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCTGG
CACTTTGAGGACTGAAAGCTGCCACCAACTTGCATGCGCGTTGAAAGAAAAAGCCAT
Found at i:35799 original size:47 final size:46
Alignment explanation
Indices: 35741--35844 Score: 131
Period size: 47 Copynumber: 2.2 Consensus size: 46
35731 CGTCCAACTC
* *
35741 TTGAGGACAAAA-GAAAGAAAGT-GGAAAATAAAGTGTGGTCCTGCTCT
1 TTGAGGACAAAAGGAAA-AAAATAGG-AAATAAAGTG-CGTCCTGCTCT
*
35788 TTGAGGACAAAAGGGAAAAAAATAGGAAATGAAGTGCGTCCTGCTCT
1 TTGAGGACAAAA-GGAAAAAAATAGGAAATAAAGTGCGTCCTGCTCT
35835 TTGAGGACAA
1 TTGAGGACAA
35845 GGGGGAGGAG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
47 32 0.63
48 13 0.25
49 6 0.12
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (46 bp):
TTGAGGACAAAAGGAAAAAAATAGGAAATAAAGTGCGTCCTGCTCT
Found at i:36004 original size:61 final size:61
Alignment explanation
Indices: 35931--36089 Score: 187
Period size: 61 Copynumber: 2.6 Consensus size: 61
35921 AAATGTGTCT
* * *
35931 TGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGC-T-TGGGCTTTAAAAGAAAAAGACGTCC
1 TGCTCTTTGAGGACTGAAAGGGGCAACCAA-TT-CATGTGGGCTTTAAAAGAAAAAGACGTCC
* * *
35992 TGCTCTTTGAGGACTAAAAGGGGCAACCAATTCATGTGGGCTTTGAAAGAAAAAGATGTCC
1 TGCTCTTTGAGGACTGAAAGGGGCAACCAATTCATGTGGGCTTTAAAAGAAAAAGACGTCC
* * *
36053 TACCTCTTTGAGGACTGGAAGGGGGCCACCAATTCAT
1 T-GCTCTTTGAGGACT-GAAAGGGGCAACCAATTCAT
36090 CCCATACCTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
59 1 0.01
60 3 0.04
61 50 0.60
62 13 0.15
63 17 0.20
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (61 bp):
TGCTCTTTGAGGACTGAAAGGGGCAACCAATTCATGTGGGCTTTAAAAGAAAAAGACGTCC
Found at i:36755 original size:42 final size:40
Alignment explanation
Indices: 36704--36829 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 40
36694 ATGACAATGG
36704 AGAAAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGACAAA
1 AGAAAAGGAAAA-GAAATGCGTCCTGCTCTTTGAGGACAAA
* * * * *
36745 AGAAAGAGGAAAATAAAGTGCATCCTTCTCTTTAAGGAAAAAA
1 AGAAA-AGGAAAAGAAA-TGCGTCCTGCTCTTTGAGG-ACAAA
* **
36788 AGGAAAAGAAGAAATGAAGGGCGTCCTGCTCTTTGAGGACAA
1 A-GAAAAG--GAAAAGAAATGCGTCCTGCTCTTTGAGGACAA
36830 GGGGGAAGAG
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
41 8 0.12
42 23 0.35
43 10 0.15
44 19 0.29
45 6 0.09
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (40 bp):
AGAAAAGGAAAAGAAATGCGTCCTGCTCTTTGAGGACAAA
Found at i:36820 original size:44 final size:43
Alignment explanation
Indices: 36722--36826 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
36712 AAAACGAAAT
* * *
36722 GCGTCCTGCTCTTTGAGG-ACAAAAGAAAGAGGAAAATAAAGT
1 GCGTCCTGCTCTTTGAGGAAAAAAAGAAAGAAGAAAATAAAGG
* * * *
36764 GCATCCTTCTCTTTAAGGAAAAAAAGGAAAAGAAG-AAATGAAGG
1 GCGTCCTGCTCTTTGAGGAAAAAAA-G-AAAGAAGAAAATAAAGG
36808 GCGTCCTGCTCTTTGAGGA
1 GCGTCCTGCTCTTTGAGGA
36827 CAAGGGGGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 15 0.30
43 5 0.10
44 24 0.48
45 6 0.12
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (43 bp):
GCGTCCTGCTCTTTGAGGAAAAAAAGAAAGAAGAAAATAAAGG
Found at i:36937 original size:61 final size:61
Alignment explanation
Indices: 36849--37064 Score: 272
Period size: 61 Copynumber: 3.5 Consensus size: 61
36839 GGAAAAGGCA
* * *
36849 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTCCAAAAGAAAATG-TG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTT-TAAAAGAAAAAGATG
* * * * * * *
36910 TCCTGGTCTTTGAGGACTGAAAGGTGCCACTAACTTGCGTGGGCTTTAAAAAAAAAAGACG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGATG
* * *
36971 TCCTGCTCTTTGAGCACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGATG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGATG
** *
37032 TCCTGCTCTTTGAGGACTGGAAGGAGCCACCAA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAA
37065 TTCTTCCTCC
Statistics
Matches: 130, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
60 9 0.07
61 121 0.93
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.24
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGATG
Found at i:37325 original size:978 final size:970
Alignment explanation
Indices: 34883--39149 Score: 6226
Period size: 976 Copynumber: 4.4 Consensus size: 970
34873 AAGCCGTCTA
* * * *
34883 GCTCTATGAGGACTAAAAGGTGCCACCAACTCGTGAGGGCTTTGAAAAGAAAAGGCGT-CTGGCT
1 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTGTCCT-GCT
* * * * * * *
34947 -TTTTAGGACTGAAAGCTGCCACCAACTTGCTTGCGCGTT-AAAGAAAAAGACCATCCTGCTATT
65 CTTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGAAAAAGA-CGTCCTGCTCTT
* * * *
35010 TGAGCACTAAATGGTGCCACCAACACGTGTGGAGCTTTGAAAGAAAAAAGATGTCCTACTCTTTG
129 TGAGGACTAAAAGGTGCCACCAACTCATGTGG-GCTTTGAAAG-AAAAAGATGTCCTACTCTTTG
* * * * *
35075 AGGACTGGAAGGTGCCCCCAATTCGTCCCCACAACCTTTCGACCCCTCCATCTAGTAATGCTTTC
192 AGGACTGGAAGGTGCCACCAATTCGTCCCCA-TACCTTTCAACCCCTCTATCTAGTAATGCTTTG
* ** * *
35140 GATTTTCAAAAAATTAGCTCGGAC-AAATGATGGTGTCTACAGCTGCCCCTCTTTGGCTGTTTCT
256 GGTTACCGAAAAATTAGCCCGGACAAAATGA-GGTGTCTACAGCTGCCCCTCTTTGGCTGTTTCT
* * *
35204 GTGTATCACGAATAGGGCAAAGGCAAAAAGACCACCATTTTGTCCGTGAAGGAGAAAAAAAGAAA
320 GAGTATCAGGAATAGGGCAAAGAC-AAAAGA-CACCATTTTGTCCGTGAAGGA-AAAAAAAG--A
* * *
35269 ATGCATAGCTAAATGCATGTAAAAGGACGACATTCAAATTTTTTTGTTGATTTTATGGTTTTCCC
380 ATGCTTAGCTAAATGCATGTAAAAGGATGACATTCAAATTTTTTTTTTGATTTTATGGTTTTCCC
*
35334 TACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGCTACTGTAGGCTTTG
445 TACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTG
* * *
35399 GAAATGTTTGCCACCAACTTGTGT-GGCCTTTTTGGGTGCTGCCAACTTATGCAGACTTTAGAAA
510 GAAAGGTTTGCCACCAACTTGTGTGGGCTTTTTTGGGTGCTGCCAACTTATGCAGACTTTAGGAA
*
35463 GGGAAATAAATGGAAGGGTGTGTCACACTTTTTGAGGAC-AAGGAAAAGAAATGAAATAGGTCTC
575 GGGAAATAAATGGAAGGG-GTGTCCCACTTTTTGAGGACAAAGGAAAAGAAATGAAATAGGTCTC
*
35527 GCTACCTTGAGGACAAAGGAAAAAGAAGAAAAGGAAAGTGTCCTGC-TCATGAGGACAAAGTGAA
639 GCT-CCTTGAGGACAAAGG-AAAA-AAGAAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAA
* * *
35591 AAAGAGTACGTCCTGCTTTTCGGAGG-ACAAGAAAAACAGGAAAAACAAAATGTGGTCCTGCTCT
701 AAAGAGTACATCCTGCTTTTC-GAGGAAAAAGAAAAAAAGG-AAAACAAAATGT-GTCCTGCTCT
* * * *
35655 TTGAGGTCTAGAAGGGAAAAAAGGAAATGAAGA-CGTCTTGCTCTTTAA-GAACAAT-GAGAAAA
763 TTGAGGACTAGAAGGAAAAAAAGGAAATGAAGAGCATCCTGCTCTTTAATG-ACAATGGAGAAAA
* ** **
35717 GGAAAATGAAATTACGTCCAACTC-TTGAGGACAAAAGAAAGAAAGTGGAAAATAAAGTGTGGTC
827 GGAAAACGAAA-TACGTCCTGCTCTTTGAGGACAAAAGAAAG--A--GGAAAATAAAGTG-CATC
*
35781 CTGCTCTTTGAGGACAAAAGGGAAAAAAATAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAG
886 CTGCTCTTTGAGGACAAAAGGG-AAAAGA-AGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAG
*
35846 GGGGAGGAGGAAAAGGCATCCT
949 GGGGAAGAGGAAAAGGCATCCT
* * * * *
35868 ACTCTTTGAGGACTAAAAAAGTGCCACCACAATCGTGTGTGGCATTGAAAAGAAAATGTGTCTTG
1 GCTCTTTGAGGACT-AAAAAGTGCCACCA-ACTCGTGTG-GGCTTTGAAAAGAAAAGGTGTCCTG
35933 CTCTTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGAAAAAGACGTCCTGCTCT
63 CTCTTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGAAAAAGACGTCCTGCTCT
* * *
35998 TTGAGGACTAAAAGGGGCAACCAATTCATGTGGGCTTTGAAAGAAAAAGATGTCCTACCTCTTTG
128 TTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGATGTCCTA-CTCTTTG
* * *
36063 AGGACTGGAAGGGGGCCACCAATTCAT-CCCATACCTTTCAACCCC-CTATCGAGTAATGCTTTG
192 AGGACTGGAA-GGTGCCACCAATTCGTCCCCATACCTTTCAACCCCTCTATCTAGTAATGCTTTG
36126 GGTTTACCGAAAAATTAGCCCGGACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCTGTTTCT
256 GG-TTACCGAAAAATTAGCCCGGACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCTGTTTCT
* * *
36191 GAGTATCAAGAATAGGGC-AAGACAAAAGACACCCA-TTTGTCCGTG-ATGAAGAAAAAGAATGC
320 GAGTATCAGGAATAGGGCAAAGACAAAAGACA-CCATTTTGTCCGTGAAGGAAAAAAAAGAATGC
* * *
36253 ATTAGCTCAATGCAAGTAAAAGGGTGAACAATTCAAATTTTTTTTTTGATTTTTATGGTTTTTCC
384 -TTAGCTAAATGCATGTAAAAGGATG-AC-ATTCAAATTTTTTTTTTGA-TTTTATGG-TTTTCC
*
36318 CTACTAGGTTTTGAGATTTTCCAAAGCTTGACCTCCTTAGATAGGTGTTGGTTTACTGTAGGCTT
444 CTACTAGGTTTTGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGG-TTACTGTAGGCTT
* *
36383 TGGAAAGGTTTGCCAAC-ACTTGTGTGGGACTCTTTTCGGGTGCTGCCAACTTATGCAGACTTTA
508 TGGAAAGGTTTGCCACCAACTTGTGTGGG-CT-TTTTTGGGTGCTGCCAACTTATGCAGACTTTA
* *
36447 GGAAGGGAAATAAATGGAAGGGGTGTCCCACATTTT-ATGGACAAAGGAAAAGAATATGAACTAG
571 GGAAGGGAAATAAATGGAAGGGGTGTCCCACTTTTTGA-GGACAAAGGAAAAGAA-ATGAAATAG
36511 GTCTCGCTCCTTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTTCCTTGAGGACAAAG
634 GTCTCGCTCCTTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTGC-TT-CTTGAGGACAAAG
* * *
36576 TGAAAATGAGTACGTCCTGCTTTTCGAGGAAAAAGAAAAAAAAGGAAAAATGAAAATGTGTCCTG
697 TGAAAAAGAGTACATCCTGCTTTTCGAGGAAAAAG-AAAAAAAGG-AAAA-CAAAATGTGTCCTG
* *
36641 CTCTTTGAGGTCTAGAAGAGAAAAAAAGGAAATGAAGAGCATCCTGCTCGTTAATGACAATGGAG
759 CTCTTTGAGGACTAGAAG-GAAAAAAAGGAAATGAAGAGCATCCTGCTCTTTAATGACAATGGAG
*
36706 AAAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCATCCT
823 AAAAGGAAAACGAAATACGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCATCCT
* * * * *
36771 TCTCTTTAAGGAAAAAAAGGAAAAGAA-GAAATGAAGGGCGTCCTGCTCTTTGAGGACAAGGGGG
888 GCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAGGGGG
36835 AAGAGGAAAAGGCATCCT
953 AAGAGGAAAAGGCATCCT
** * *
36853 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTCCAAAAGAAAATGTGTCCTGGTC
1 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTGTCCTGCTC
* *
36918 TTTGAGGACTGAAAGGTGCCACTAACTTGCGTGGGCTTTAAAAAAAAAAGACGTCCTGCTCTTTG
66 TTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGAAAAAGACGTCCTGCTCTTTG
* *
36983 AGCACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGA
131 AGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGATGTCCTACTCTTTGAGGA
* * * *
37048 CTGGAAGGAGCCACCAATTC-T-TCC-TCCCTTTCAACCCCTCAATCTAGTAATGCTTTGGGTTA
196 CTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCAACCCCTCTATCTAGTAATGCTTTGGGTTA
* *
37110 CCGAAAAATTAGCCCCGACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCTGTTTCTAAGTAT
261 CCGAAAAATTAGCCCGGACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCTGTTTCTGAGTAT
*
37175 CAGGAATAGGGCAAAGACAAAAAGACATCATTTTGTCCGTGAAGGAAAAAAAAAGAATGCTTAGC
326 CAGGAATAGGGCAAAGAC-AAAAGACACCATTTTGTCCGTGAAGG-AAAAAAAAGAATGCTTAGC
*
37240 TAAATGCATGTAAAAGGATGACATTCAAAATTTTTTTCTTGATTTTATGGTTTTCCCTACTAGGT
389 TAAATGCATGTAAAAGGATGACATTC-AAATTTTTTTTTTGATTTTATGGTTTTCCCTACTAGGT
** *
37305 TTTGAGATTTTCTAAAGCTTGATTGTCCTTAGATAGGTGTTGGTTACTGTAGGTTTTGGAAAGGT
453 TTTGAGATTTTCTAAAGCTTGA-CCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGGT
* * * *
37370 TTGCCACCAACTTGGGTGGGCTTTTTTAGGTGTTGCCAAGTTATGCAGGACTTTAGGAAGGGAAA
517 TTGCCACCAACTTGTGTGGGCTTTTTTGGGTGCTGCCAACTTATGCA-GACTTTAGGAAGGGAAA
*
37435 TAAATGGAAAAAGGGTGTCCCACTTTTTGAGGAACAAAGGAAAAGAAAATTGAAATAGGTCTCGC
581 TAAATGG--AAGGGGTGTCCCACTTTTTGAGG-ACAAAGGAAAAG-AAA-TGAAATAGGTCTCGC
*
37500 T-CTTGAGGATAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGA
641 TCCTTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGA
* * *
37564 GTACATCCCTGCTTTTCGAGGACAACGAAAAAAAGGAAAACAAAACGTGT-CTGCTCTTTGAGGA
706 GTACAT-CCTGCTTTTCGAGGAAAAAGAAAAAAAGGAAAACAAAATGTGTCCTGCTCTTTGAGGA
* * * *
37628 CTAGAAGGAAAAAAAGGGAATGAAGAGCATCCTGCACTTTAAAGACCACTGGAGAAAAGGAAAAC
770 CTAGAAGGAAAAAAAGGAAATGAAGAGCATCCTGCTCTTTAATGA-CAATGGAGAAAAGGAAAAC
* *
37693 GAAATGCGTCCCGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGG
834 GAAATACGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGG
*
37758 ACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCTTGCTCTTTGAGGACAAGGGGGAAGAGGAAAAG
899 ACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAGGGGGAAGAGGAAAAG
* *
37823 GCGTGCT
964 GCATCCT
37830 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGG-GTCCTGCTC
1 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTGTCCTGCTC
* * *
37894 TTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGAAAAAGGCGCCCTGCTCTTTA
66 TTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGAAAAAGACGTCCTGCTCTTTG
* *
37959 AGGGCTAAAAGCTGCCACCAACTCATGTGGGCTTTGAAAG-AAAAGATGTCCTACTCTTTGAGGA
131 AGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGATGTCCTACTCTTTGAGGA
38023 CTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCAACCCCTCTATCTAGTAATGCTTTGGGTTA
196 CTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCAACCCCTCTATCTAGTAATGCTTTGGGTTA
* * *
38088 CCGAAAAATTAGCTCGGACAAAATGAGGTGTCTACAACTGCCCCTCTTTGGCTGTTTCTAAGTAT
261 CCGAAAAATTAGCCCGGACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCTGTTTCTGAGTAT
*
38153 CAGGAATAGGGCAAAGACAAAAGACACCATTTTGTCCGTGAAGGAAACAAAAGAATGCTTAGCTA
326 CAGGAATAGGGCAAAGACAAAAGACACCATTTTGTCCGTGAAGGAAAAAAAAGAATGCTTAGCTA
* * * *
38218 AATGCATGTAAAAGGGTGACATTCAATTTTTTTTTTTTGGTTTTATGGCTTTCCCTACTAGGTTT
391 AATGCATGTAAAAGGATGACATTCAA-ATTTTTTTTTTGATTTTATGGTTTTCCCTACTAGGTTT
*
38283 TGAGA-TTTCTAAAGCTTGACCTCCTTAGATA-G-GTTGGTTACTGTAGGCTTT-GAAAGGTTTA
455 TGAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGGTTTG
* * * *
38344 CCACCAACTTGTATGGGC-TTTTTGGGTGATGCCAACTTATGCAGATTTTATG-AGGGCAAATAA
520 CCACCAACTTGTGTGGGCTTTTTTGGGTGCTGCCAACTTATGCAGACTTTAGGAAGGG-AAATAA
* * *
38407 TTGGATGGGGTGTCCCAC-TTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTCACTCCTTGA
584 ATGGAAGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGA-AATGAAATAGGTCTCGCTCCTTGA
*
38471 GGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTATTGAGGACAAAGTGAAAAAGAGTACATC
648 GGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACATC
* * *
38536 CTGCTTTTCGAGGACAAAGAAAAAAAGGAAAACGAAATGTGTCCTACTCTTTGAGGACTAGAAGG
713 CTGCTTTTCGAGGAAAAAGAAAAAAAGGAAAACAAAATGTGTCCTGCTCTTTGAGGACTAGAA-G
* *
38601 GAAAAAAAGGAAATGAAGAGCATCCTGCTCTTTACTGACAATGGAGAAAAGGAAAATGAAATACG
777 GAAAAAAAGGAAATGAAGAGCATCCTGCTCTTTAATGACAATGGAGAAAAGGAAAACGAAATACG
*
38666 TCCTGTTCTTTGAGGACAAAAGAAAGAGG-AAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGG
842 TCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGG
*
38730 GAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAGGGGGAAGAGGAAAAGGCATGCT
907 GAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAGGGGGAAGAGGAAAAGGCATCCT
* *
38794 G--CTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTGGAAAAGAAAAGGTGTCCTGCTC
1 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTGTCCTGCTC
* *
38857 TTTGAGGACTGAAAGGTGCCACTAACTTGCCTGGGCTTTAAAAG-AAAAGACGCCCTGCTCTTTG
66 TTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGAAAAAGACGTCCTGCTCTTTG
* *
38921 AGGACTAAAAGCTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGATGTCCTGCTCTTTGAGGA
131 AGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGATGTCCTACTCTTTGAGGA
38986 CTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCAA-CCCTCTATCTAGTAATGCTTTGGGTTT
196 CTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCAACCCCTCTATCTAGTAATGCTTTGGG-TT
39050 ACCGAAAAATTAGCCCGGACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCTGTTT-TGAGTA
260 ACCGAAAAATTAGCCCGGACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCTGTTTCTGAGTA
39114 TCA-GAATAGGGCAAAGAC-AAAGACACCA-TTTGTCCG
325 TCAGGAATAGGGCAAAGACAAAAGACACCATTTTGTCCG
Statistics
Matches: 3005, Mismatches: 212, Indels: 156
0.89 0.06 0.05
Matches are distributed among these distances:
959 8 0.00
960 10 0.00
961 15 0.00
962 139 0.05
963 170 0.06
964 154 0.05
965 151 0.05
966 43 0.01
967 12 0.00
968 4 0.00
969 16 0.01
970 22 0.01
971 25 0.01
972 18 0.01
973 1 0.00
974 10 0.00
975 92 0.03
976 302 0.10
977 159 0.05
978 300 0.10
979 103 0.03
980 91 0.03
981 113 0.04
982 174 0.06
983 29 0.01
984 34 0.01
985 151 0.05
986 85 0.03
987 126 0.04
988 161 0.05
989 152 0.05
990 48 0.02
991 26 0.01
992 26 0.01
993 35 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (970 bp):
GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGTGTCCTGCTC
TTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGAAAAAGACGTCCTGCTCTTTG
AGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAGAAAAAGATGTCCTACTCTTTGAGGA
CTGGAAGGTGCCACCAATTCGTCCCCATACCTTTCAACCCCTCTATCTAGTAATGCTTTGGGTTA
CCGAAAAATTAGCCCGGACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCTGTTTCTGAGTAT
CAGGAATAGGGCAAAGACAAAAGACACCATTTTGTCCGTGAAGGAAAAAAAAGAATGCTTAGCTA
AATGCATGTAAAAGGATGACATTCAAATTTTTTTTTTGATTTTATGGTTTTCCCTACTAGGTTTT
GAGATTTTCTAAAGCTTGACCTCCTTAGATAGGTGTTGGTTACTGTAGGCTTTGGAAAGGTTTGC
CACCAACTTGTGTGGGCTTTTTTGGGTGCTGCCAACTTATGCAGACTTTAGGAAGGGAAATAAAT
GGAAGGGGTGTCCCACTTTTTGAGGACAAAGGAAAAGAAATGAAATAGGTCTCGCTCCTTGAGGA
CAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACATCCTG
CTTTTCGAGGAAAAAGAAAAAAAGGAAAACAAAATGTGTCCTGCTCTTTGAGGACTAGAAGGAAA
AAAAGGAAATGAAGAGCATCCTGCTCTTTAATGACAATGGAGAAAAGGAAAACGAAATACGTCCT
GCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGGGAAA
AGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAGGGGGAAGAGGAAAAGGCATCCT
Found at i:37751 original size:42 final size:42
Alignment explanation
Indices: 37680--37806 Score: 143
Period size: 45 Copynumber: 3.0 Consensus size: 42
37670 AGACCACTGG
* *
37680 AGAAA-AGGAAAACGAAA-TGCGTCCCGCTCTTTGAGGACAAA
1 AGAAAGAGGAAAA-TAAAGTGCGTCCTGCTCTTTGAGGACAAA
*
37721 AGAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAAA
1 AGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAA
* *
37763 AGGGAAAAGAAGG-AAATGAAGTGCGTCTTGCTCTTTGAGGACAA
1 A--G-AAAG-AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAA
37807 GGGGGAAGAG
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
41 8 0.11
42 30 0.41
44 1 0.01
45 32 0.43
46 3 0.04
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (42 bp):
AGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAA
Found at i:37913 original size:60 final size:61
Alignment explanation
Indices: 37817--38044 Score: 266
Period size: 60 Copynumber: 3.8 Consensus size: 61
37807 GGGGGAAGAG
* *
37817 GAAAAGGCGTGCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA
1 GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA
* * *
37878 GAAAAGG-GTCCTGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGCT-TGGGCTTT-AAAA
1 GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCG-TGTGGGCTTTGAAAA
* * * * *
37937 GAAAAAGGCGCCCTGCTCTTTAAGGGCTAAAAGCTGCCACCAACTCATGTGGGCTTTG-AAA
1 G-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA
** * ** *
37998 GAAAAGATGTCCTACTCTTTGAGGACTGGAAGGTGCCACCAATTCGT
1 GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGT
38045 CCCCATACCT
Statistics
Matches: 138, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
59 5 0.04
60 83 0.60
61 50 0.36
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (61 bp):
GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA
Found at i:37953 original size:121 final size:121
Alignment explanation
Indices: 37818--38036 Score: 334
Period size: 121 Copynumber: 1.8 Consensus size: 121
37808 GGGGAAGAGG
** * *
37818 AAAAGGCGTGCTGCTCTTTGAGGACTAAAAAG-TGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
1 AAAAGGCGCCCTGCTCTTTAAGGACT-AAAAGCTGCCACCAACTCATGTGGGCTTTG-AAAGAAA
*
37882 AG-GGTCCTGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGA
64 AGAGGTCCTACTCTTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGA
*
37939 AAAAGGCGCCCTGCTCTTTAAGGGCTAAAAGCTGCCACCAACTCATGTGGGCTTTGAAAGAAAAG
1 AAAAGGCGCCCTGCTCTTTAAGGACTAAAAGCTGCCACCAACTCATGTGGGCTTTGAAAGAAAAG
* *
38004 ATGTCCTACTCTTTGAGGACTGGAAGGTGCCAC
66 AGGTCCTACTCTTTGAGGACTGAAAGGTGCCAC
38037 CAATTCGTCC
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
120 14 0.16
121 74 0.84
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (121 bp):
AAAAGGCGCCCTGCTCTTTAAGGACTAAAAGCTGCCACCAACTCATGTGGGCTTTGAAAGAAAAG
AGGTCCTACTCTTTGAGGACTGAAAGGTGCCACTAACTTGCTTGGGCTTTAAAAGA
Found at i:38756 original size:45 final size:45
Alignment explanation
Indices: 38534--38770 Score: 192
Period size: 45 Copynumber: 5.4 Consensus size: 45
38524 AAAGAGTACA
* * * *
38534 TCCTGCT-TTTCGAGGAC-AAA--GAAAAAAAGGAAAACGAAATGTG
1 TCCTGCTCTTT-GAGGACAAAAGGGAAAAGAAGG-AAATGAAGTGCG
* * * * *
38577 TCCTACTCTTTGAGGACTAGAAGGGAAAAAAAGGAAATGAAGAGCA
1 TCCTGCTCTTTGAGGAC-AAAAGGGAAAAGAAGGAAATGAAGTGCG
* * * * *
38623 TCCTGCTCTTT-ACTGAC-AATGGAGAAAAG--GAAAATGAAATACG
1 TCCTGCTCTTTGA-GGACAAAAGG-GAAAAGAAGGAAATGAAGTGCG
* * *
38666 TCCTGTTCTTTGAGGACAAAA--G-AAAG-AGGAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
38707 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
38752 TCCTGCTCTTTGAGGACAA
1 TCCTGCTCTTTGAGGACAA
38771 GGGGGAAGAG
Statistics
Matches: 152, Mismatches: 28, Indels: 26
0.74 0.14 0.13
Matches are distributed among these distances:
40 4 0.03
41 30 0.20
43 35 0.23
44 13 0.09
45 40 0.26
46 20 0.13
47 10 0.07
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (45 bp):
TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
Found at i:38777 original size:45 final size:44
Alignment explanation
Indices: 38534--38784 Score: 173
Period size: 43 Copynumber: 5.8 Consensus size: 44
38524 AAAGAGTACA
* * * * *
38534 TCCTGCT-TTTCGAGGACAA-A-GAAAAAAAGGAAAACGAAATGTG
1 TCCTGCTCTTT-GAGGACAAGAGGGAAAAGAGG-AAATGAAGTGCG
* * * * *
38577 TCCTACTCTTTGAGGACTAGAAGGGAAAAAAAGGAAATGAAGAGCA
1 TCCTGCTCTTTGAGGACAAG-AGGG-AAAAGAGGAAATGAAGTGCG
* * * * *
38623 TCCTGCTCTTT-ACTGACAATG-GAGAAAAG-GAAAATGAAATACG
1 TCCTGCTCTTTGA-GGACAA-GAGGGAAAAGAGGAAATGAAGTGCG
* * * *
38666 TCCTGTTCTTTGAGGACAA-A-AG-AAAGAGGAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAGAGGGAAAAGAGGAAATGAAGTGCG
*
38707 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCG
1 TCCTGCTCTTTGAGGACAAGAGGGAAAAG-AGGAAATGAAGTGCG
*
38752 TCCTGCTCTTTGAGGACAAG-GGG-GAAGAGGAAA
1 TCCTGCTCTTTGAGGACAAGAGGGAAAAGAGGAAA
38785 AGGCATGCTG
Statistics
Matches: 163, Mismatches: 31, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
40 4 0.02
41 29 0.18
42 7 0.04
43 41 0.25
44 15 0.09
45 36 0.22
46 22 0.13
47 9 0.06
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.20
Consensus pattern (44 bp):
TCCTGCTCTTTGAGGACAAGAGGGAAAAGAGGAAATGAAGTGCG
Found at i:38876 original size:61 final size:60
Alignment explanation
Indices: 38790--39002 Score: 261
Period size: 61 Copynumber: 3.5 Consensus size: 60
38780 GGAAAAGGCA
* *
38790 TGCTGCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTGGAAAAGAAAAGGTGTCC
1 TGCT-CTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTT-GAAAAGAAAAGATGTCC
* * * * *
38852 TGCTCTTTGAGGACTGAAAGGTGCCACTAACT--TGCCTGGGCTTTAAAAGAAAAGACGCCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATG--TGGGCTTGAAAAGAAAAGATGTCC
*
38912 TGCTCTTTGAGGACTAAAAGCTGCCACCAACTCATGTGGGCTTTG-AAAGAAAAAGATGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGC-TTGAAAAG-AAAAGATGTCC
**
38973 TGCTCTTTGAGGACTGGAAGGTGCCACCAA
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAA
39003 TTCGTCCCCA
Statistics
Matches: 129, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
59 2 0.02
60 51 0.40
61 70 0.54
62 6 0.05
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (60 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTGAAAAGAAAAGATGTCC
Done.