Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 160 of 193
Found at i:49463490 original size:18 final size:18
Alignment explanation
Indices: 49463456--49463513 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
49463446 CTGACTCTCC
*
49463456 CGATGAAGAT-TCTGATGA
1 CGATGAAGATGAC-GATGA
49463474 CGATGAAGATGACGATGA
1 CGATGAAGATGACGATGA
* * *
49463492 GGATGAGGATGAGGATGA
1 CGATGAAGATGACGATGA
49463510 CGAT
1 CGAT
49463514 TCCGATGAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 33 0.97
19 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.36, T:0.21
Consensus pattern (18 bp):
CGATGAAGATGACGATGA
Found at i:49464099 original size:15 final size:16
Alignment explanation
Indices: 49464081--49464111 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
49464071 AATTTTATTA
49464081 TTATTAATT-TAAAAT
1 TTATTAATTATAAAAT
49464096 TTATTAATTATAAAAT
1 TTATTAATTATAAAAT
49464112 ACTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATTAATTATAAAAT
Found at i:49464692 original size:15 final size:16
Alignment explanation
Indices: 49464672--49464701 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49464662 TCTGCAAAAG
49464672 GGATAAAA-CAAAGAT
1 GGATAAAAGCAAAGAT
49464687 GGATAAAAGCAAAGA
1 GGATAAAAGCAAAGA
49464702 AGAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.07, G:0.23, T:0.10
Consensus pattern (16 bp):
GGATAAAAGCAAAGAT
Found at i:49465595 original size:18 final size:18
Alignment explanation
Indices: 49465574--49465611 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
49465564 TAAATTTTCA
49465574 AATTCGAAT-AACTCGAAT
1 AATTCGAATAAAC-CGAAT
49465592 AATTCGAATAAACCGAAT
1 AATTCGAATAAACCGAAT
49465610 AA
1 AA
49465612 AACTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.24
Consensus pattern (18 bp):
AATTCGAATAAACCGAAT
Found at i:49467964 original size:40 final size:40
Alignment explanation
Indices: 49467919--49468021 Score: 179
Period size: 40 Copynumber: 2.5 Consensus size: 40
49467909 AGTGGCGAAA
49467919 TATCGCAGTGTTTTATGAGAAAATGCTGCGACAAAAATCT
1 TATCGCAGTGTTTTATGAGAAAATGCTGCGACAAAAATCT
*
49467959 TATCGCAGTGTTTTATGAGAAAATGCTGCGACAAGAATCT
1 TATCGCAGTGTTTTATGAGAAAATGCTGCGACAAAAATCT
*
49467999 TATCGCAGTGTTTAATGGAGAAA
1 TATCGCAGTGTTTTAT-GAGAAA
49468022 CGCCATCAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 54 0.90
41 6 0.10
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (40 bp):
TATCGCAGTGTTTTATGAGAAAATGCTGCGACAAAAATCT
Found at i:49469196 original size:14 final size:16
Alignment explanation
Indices: 49469177--49469209 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
49469167 TTTTAGACTA
49469177 AAATA-TTAAAA-AAT
1 AAATATTTAAAATAAT
49469191 AAATATTTAAAATAAT
1 AAATATTTAAAATAAT
49469207 AAA
1 AAA
49469210 GAATTCAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 6 0.35
16 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATATTTAAAATAAT
Found at i:49471375 original size:161 final size:161
Alignment explanation
Indices: 49471093--49471390 Score: 371
Period size: 161 Copynumber: 1.9 Consensus size: 161
49471083 AGGGAGTTCT
* * *
49471093 TCATCGTGATGTGACATACTGGCTTGGTCTCGTTGTGATGACAGGATTCCTCACCACGCCGTTGC
1 TCATCGTGATGTGACATACTGACTTGGTCTCGTTGTGATGACAGGATTACTCACCACGCCATTGC
* * ** ** *
49471158 TTGAAGTTCAGAGCTCGTCATGACGACCATTGCTTGACATCGCGACATGGACTCTGTTCTGGGTA
66 CTGAAGTCCAGAGCTCGTCATGACGACCATCACCCGACATCGCGACATGAACTCTGTTCTGGGTA
49471223 CATTTTAGAAATCACTACGTGATGAAGCTCC
131 CATTTTAGAAATCACTACGTGATGAAGCTCC
* * * ** * *
49471254 TCATCGTGATGTGACCTATTGACTTGGTCTCGTTGTGATGACAGGGTTACTCATTATGCCATTTC
1 TCATCGTGATGTGACATACTGACTTGGTCTCGTTGTGATGACAGGATTACTCACCACGCCATTGC
* * * * * * * *
49471319 CTGAAGTCCAGAGTTTGTCGTGACGATCATCACCCGACATTGTGACATGAACTCTGTTTTGTGTA
66 CTGAAGTCCAGAGCTCGTCATGACGACCATCACCCGACATCGCGACATGAACTCTGTTCTGGGTA
49471384 CATTTTA
131 CATTTTA
49471391 AACCATTTGA
Statistics
Matches: 112, Mismatches: 25, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
161 112 1.00
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.33
Consensus pattern (161 bp):
TCATCGTGATGTGACATACTGACTTGGTCTCGTTGTGATGACAGGATTACTCACCACGCCATTGC
CTGAAGTCCAGAGCTCGTCATGACGACCATCACCCGACATCGCGACATGAACTCTGTTCTGGGTA
CATTTTAGAAATCACTACGTGATGAAGCTCC
Found at i:49472890 original size:14 final size:14
Alignment explanation
Indices: 49472871--49472897 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49472861 ATACTTTTTA
49472871 ATAATTAATTAATC
1 ATAATTAATTAATC
49472885 ATAATTAATTAAT
1 ATAATTAATTAAT
49472898 TAAATCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATTAATTAATC
Found at i:49472891 original size:10 final size:9
Alignment explanation
Indices: 49472872--49472917 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
49472862 TACTTTTTAA
49472872 TAAT-TAAT
1 TAATCTAAT
49472880 TAATCATAAT
1 TAATC-TAAT
49472890 TAAT-TAAT
1 TAATCTAAT
49472898 TAAATCTTAAT
1 T-AATC-TAAT
49472909 TAATCTAAT
1 TAATCTAAT
49472918 GTTAAGCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 9 0.27
9 7 0.21
10 12 0.36
11 5 0.15
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (9 bp):
TAATCTAAT
Found at i:49472932 original size:10 final size:10
Alignment explanation
Indices: 49472875--49472932 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
49472865 TTTTTAATAA
49472875 TTAATTAATC
1 TTAATTAATC
*
49472885 ATAATTAA--
1 TTAATTAATC
49472893 TTAATTAAATC
1 TTAATT-AATC
49472904 TTAATTAATC
1 TTAATTAATC
*
49472914 -TAATGTTAAGC
1 TTAA--TTAATC
49472925 TTAATTAA
1 TTAATTAA
49472933 AAAAGTTAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
8 5 0.13
9 5 0.13
10 15 0.38
11 11 0.28
12 3 0.08
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (10 bp):
TTAATTAATC
Found at i:49473930 original size:10 final size:10
Alignment explanation
Indices: 49473917--49473992 Score: 71
Period size: 11 Copynumber: 7.2 Consensus size: 10
49473907 AATTTATGGG
49473917 TTTTTATAAT
1 TTTTTATAAT
49473927 TTTTTATAAT
1 TTTTTATAAT
*
49473937 TTTTTATGAT
1 TTTTTATAAT
*
49473947 TTTTAATTAAT
1 TTTTTA-TAAT
* *
49473958 TTTATAATATT
1 TTT-TTATAAT
*
49473969 TATTTTATATT
1 T-TTTTATAAT
49473980 TGTTTTATAAT
1 T-TTTTATAAT
49473991 TT
1 TT
49473993 CAAAATGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
10 25 0.45
11 26 0.46
12 5 0.09
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:49473940 original size:11 final size:11
Alignment explanation
Indices: 49473917--49473992 Score: 54
Period size: 10 Copynumber: 7.1 Consensus size: 11
49473907 AATTTATGGG
49473917 TTTTTATAA-T
1 TTTTTATAATT
49473927 TTTTTATAA-T
1 TTTTTATAATT
*
49473937 TTTTTATGA-T
1 TTTTTATAATT
*
49473947 TTTTAATTAATT
1 TTTTTA-TAATT
* *
49473959 TTATAAT-ATT
1 TTTTTATAATT
49473969 TATTTTAT-ATT
1 T-TTTTATAATT
49473980 TGTTTTATAATT
1 T-TTTTATAATT
49473992 T
1 T
49473993 CAAAATGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
10 28 0.51
11 17 0.31
12 10 0.18
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:49482579 original size:93 final size:93
Alignment explanation
Indices: 49482417--49482661 Score: 346
Period size: 93 Copynumber: 2.6 Consensus size: 93
49482407 GTTTATTCAA
* * * * * * *
49482417 CAAGCTAAAGAAACTGAGGCCAGTGTTGAGGCCCATGTTGCTTCTAAAATGATTTCTTCTGTAGG
1 CAAGCTAAAGAAACTGAGCCCAATGGTGAGGACCAGGTTGCTTCTAAAATGATTTCTTCTGCAGA
* *
49482482 TGTTACAACTCATGCTGAACATTTTATG
66 TGTTACAACTAATGCGGAACATTTTATG
* * *
49482510 CAAGCTAAAGAAGCTGAGCCCAATGGTGAGGGCCAGGTTGCTTCTCAAATGATTTCTTCTGCAGA
1 CAAGCTAAAGAAACTGAGCCCAATGGTGAGGACCAGGTTGCTTCTAAAATGATTTCTTCTGCAGA
49482575 TGTTACAACTAATGCGGAACATTTTATG
66 TGTTACAACTAATGCGGAACATTTTATG
* * * *
49482603 CAATCTAGAGAAACTGAGCCCACTGGTGAGGACCTGGTTGCTTCTAAAATGATTTCTTC
1 CAAGCTAAAGAAACTGAGCCCAATGGTGAGGACCAGGTTGCTTCTAAAATGATTTCTTC
49482662 CGCCGACCAT
Statistics
Matches: 134, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 134 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (93 bp):
CAAGCTAAAGAAACTGAGCCCAATGGTGAGGACCAGGTTGCTTCTAAAATGATTTCTTCTGCAGA
TGTTACAACTAATGCGGAACATTTTATG
Found at i:49487351 original size:3 final size:3
Alignment explanation
Indices: 49487343--49487394 Score: 79
Period size: 3 Copynumber: 17.3 Consensus size: 3
49487333 TCTCCATTTA
*
49487343 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTTC TTT TTC -TC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC
49487388 TTC TTC T
1 TTC TTC T
49487395 ACTATCCAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:49496723 original size:21 final size:22
Alignment explanation
Indices: 49496677--49496723 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
49496667 GCAACAAAGC
* *
49496677 ATTAATTTCAAGAAAAAGAAAC
1 ATTAATTCCAAGAAAAAGAAAA
49496699 ATTAATTCCAA-AAAAA-AATAA
1 ATTAATTCCAAGAAAAAGAA-AA
49496720 ATTA
1 ATTA
49496724 GGCAAGAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 10 0.45
22 10 0.45
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.26
Consensus pattern (22 bp):
ATTAATTCCAAGAAAAAGAAAA
Found at i:49501224 original size:93 final size:93
Alignment explanation
Indices: 49501121--49501396 Score: 437
Period size: 93 Copynumber: 3.0 Consensus size: 93
49501111 ATCATGGTCG
*
49501121 GCAGAAGAAATCATTTCAGAAGCAACCAGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCAT
1 GCAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCAT
* *
49501186 AAAATGTTCGGCATGAGTTATAACATCT
66 AAAATGTTCAGCATGAGTTGTAACATCT
*
49501214 GCAGAAGAAATCA-TTCGAGAAGCAACCTGGCCCTCACCACTGGGCTCAGCTTCTTTAGCTTGCA
1 GCAGAAGAAATCATTTC-AGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCA
49501278 TAAAATGTTCAGCATGAGTTGTAACATCT
65 TAAAATGTTCAGCATGAGTTGTAACATCT
* * * * * *
49501307 GCAGAAGAAATCATTTTAGAAGCAACCTGGGCCTCAACACTGGCCTCAATTCCTTTAGCTTGCAT
1 GCAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCAT
*
49501372 AAAATGTTCTGCATGAGTTGTAACA
66 AAAATGTTCAGCATGAGTTGTAACA
49501397 CCACCATGTA
Statistics
Matches: 169, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
92 3 0.02
93 164 0.97
94 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (93 bp):
GCAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCAT
AAAATGTTCAGCATGAGTTGTAACATCT
Found at i:49502861 original size:81 final size:81
Alignment explanation
Indices: 49502722--49502935 Score: 216
Period size: 81 Copynumber: 2.6 Consensus size: 81
49502712 CAGAAGGATA
* * * * * * * * *
49502722 AGAACTT-TCAGCAACACTACCAGCATTCAAACTACCCGCAAGACTAACAGAAGTAGAACTCATT
1 AGAACTTGT-AGCAAAACTACCAACATTAAAACCAGCTGCAACACTACCAGCAGTAGAACTCATT
*** *
49502786 GCAGCACTGGAAGCTTT
65 GCAGCACCCAAAGCATT
* *
49502803 AGAACTTG-AGGCAAAGCTACCAACATTAAAACCAGCTGCAGCACTACCAGCAGTAGAACTCATT
1 AGAACTTGTA-GCAAAACTACCAACATTAAAACCAGCTGCAACACTACCAGCAGTAGAACTCATT
49502867 GCAGCACCCAAAGCATT
65 GCAGCACCCAAAGCATT
* * * * *
49502884 AGAACTTGTAGCAAAACTACCAGCATTTAAACTAGCTGTAACACCACCAGCA
1 AGAACTTGTAGCAAAACTACCAACATTAAAACCAGCTGCAACACTACCAGCA
49502936 TTGATAACAA
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
80 1 0.01
81 106 0.98
82 1 0.01
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (81 bp):
AGAACTTGTAGCAAAACTACCAACATTAAAACCAGCTGCAACACTACCAGCAGTAGAACTCATTG
CAGCACCCAAAGCATT
Found at i:49503049 original size:27 final size:27
Alignment explanation
Indices: 49502946--49503043 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
49502936 TTGATAACAA
* * **
49502946 TGGTTTTCGAACTCCCTAAAATTCCAC
1 TGGTGTTCGAACTCACTAAAACACCAC
* * * **
49502973 TGTTGTTCAAACTCGCTACGACACCAC
1 TGGTGTTCGAACTCACTAAAACACCAC
*
49503000 TGGTGTTCGAACTCACTAAAACACCAG
1 TGGTGTTCGAACTCACTAAAACACCAC
49503027 TGGGTGTT-GAACTCACT
1 T-GGTGTTCGAACTCACT
49503044 GCAACAATAC
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 50 0.89
28 6 0.11
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (27 bp):
TGGTGTTCGAACTCACTAAAACACCAC
Found at i:49504002 original size:25 final size:25
Alignment explanation
Indices: 49503973--49504024 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
49503963 AAAAAAAGCA
*
49503973 AAAAAAAAAATCTACAAGATTAGAAG
1 AAAAAAAAAA-CTACAAGATCAGAAG
*
49503999 AAAAAAAAAACTACCAGATCAGAAG
1 AAAAAAAAAACTACAAGATCAGAAG
49504024 A
1 A
49504025 GGCGAGGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (25 bp):
AAAAAAAAAACTACAAGATCAGAAG
Found at i:49506721 original size:29 final size:26
Alignment explanation
Indices: 49506655--49506708 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
49506645 AAAAAAATTT
* *
49506655 ATGTACCAAAATAGTACCCCAATTCC
1 ATGTACTAAAATAATACCCCAATTCC
49506681 ATGTACTAAAATAATACCCCAATTCC
1 ATGTACTAAAATAATACCCCAATTCC
49506707 AT
1 AT
49506709 TATTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.41, C:0.28, G:0.06, T:0.26
Consensus pattern (26 bp):
ATGTACTAAAATAATACCCCAATTCC
Found at i:49507207 original size:32 final size:32
Alignment explanation
Indices: 49507141--49507210 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
49507131 TATTAATTTT
* *
49507141 ATAATTTTTATAATTTAATTTTTATTAAATAA
1 ATAATTTTTATAATTTAATTTATATCAAATAA
*
49507173 ATAATTTTTA-AATATT-ATTTATGTCAAATAAA
1 ATAATTTTTATAAT-TTAATTTATATCAAAT-AA
49507205 ATAATT
1 ATAATT
49507211 ATTTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (32 bp):
ATAATTTTTATAATTTAATTTATATCAAATAA
Found at i:49514083 original size:12 final size:11
Alignment explanation
Indices: 49514054--49514080 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49514044 ACAGAAATCT
49514054 TTGAATTTTTA
1 TTGAATTTTTA
49514065 TTGAATTTTTA
1 TTGAATTTTTA
49514076 TTGAA
1 TTGAA
49514081 ATTGCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (11 bp):
TTGAATTTTTA
Found at i:49523627 original size:11 final size:11
Alignment explanation
Indices: 49523587--49523627 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
49523577 ATTTATTATT
49523587 TTTTAAAA-TA
1 TTTTAAAATTA
49523597 TTTTAAAATTA
1 TTTTAAAATTA
*
49523608 ATTTAAAATTA
1 TTTTAAAATTA
*
49523619 TTTTTAAAT
1 TTTTAAAAT
49523628 ATAAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:49524481 original size:13 final size:13
Alignment explanation
Indices: 49524463--49524512 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 13
49524453 TAATTTTATA
49524463 TTTAAAAAATATT
1 TTTAAAAAATATT
49524476 TTT--AAAATATT
1 TTTAAAAAATATT
49524487 TTTAAAAAATTATAT
1 TTTAAAAAA-TAT-T
49524502 TTTAAAAAATA
1 TTTAAAAAATA
49524513 ATTATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
11 11 0.33
13 7 0.21
14 5 0.15
15 10 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAAAAAATATT
Found at i:49524503 original size:16 final size:16
Alignment explanation
Indices: 49524481--49524521 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
49524471 ATATTTTTAA
49524481 AATATTTTTAAAAAAT
1 AATATTTTTAAAAAAT
*
49524497 TATA-TTTTAAAAAAT
1 AATATTTTTAAAAAAT
49524512 AATTATTTTT
1 AA-TATTTTT
49524522 TTGCTGATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTTTTAAAAAAT
Found at i:49528924 original size:47 final size:47
Alignment explanation
Indices: 49528855--49528960 Score: 194
Period size: 47 Copynumber: 2.3 Consensus size: 47
49528845 TCCTGCAACA
*
49528855 TATTAAAATTGGCGAATTAAGGAATGAGGAAAAATGGAAGACTTGAC
1 TATTAAAATTGGCAAATTAAGGAATGAGGAAAAATGGAAGACTTGAC
49528902 TATTAAAATTGGCAAATTAAGGAATGAGGAAAAATGGAAGACTTGAC
1 TATTAAAATTGGCAAATTAAGGAATGAGGAAAAATGGAAGACTTGAC
*
49528949 TACTAAAATTGG
1 TATTAAAATTGG
49528961 AGTCCACACT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (47 bp):
TATTAAAATTGGCAAATTAAGGAATGAGGAAAAATGGAAGACTTGAC
Found at i:49529976 original size:57 final size:56
Alignment explanation
Indices: 49529915--49530031 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 56
49529905 ATAGAAATGG
49529915 TGAAA-TGAAGAAATAGGAAACATTTGAAAAT-AATTATGGTTTTCTCCAAAATGAAAA
1 TGAAATTG-AGAAAT-GGAAACATTTGAAAATGAA-TATGGTTTTCTCCAAAATGAAAA
* * * *
49529972 TGAAAATTGATAAATGGAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TG-AAATTGAGAAATGGAAACATTTGAAAATGAATATGGTTTTCTCCAAAATGAAAA
49530029 TGA
1 TGA
49530032 CCTAAAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
56 1 0.02
57 40 0.75
58 10 0.19
59 2 0.04
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (56 bp):
TGAAATTGAGAAATGGAAACATTTGAAAATGAATATGGTTTTCTCCAAAATGAAAA
Found at i:49530927 original size:17 final size:16
Alignment explanation
Indices: 49530896--49530953 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
49530886 AATATATTAT
*
49530896 TATAT-TATGTAATAC
1 TATATATATGTTATAC
49530911 TATATCATATGTTATAC
1 TATAT-ATATGTTATAC
*
49530928 TAGTATATATATTA-AC
1 TA-TATATATGTTATAC
49530944 TATTATATAT
1 TA-TATATAT
49530954 CTTTTTCGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.14
16 11 0.30
17 18 0.49
18 3 0.08
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (16 bp):
TATATATATGTTATAC
Found at i:49531013 original size:21 final size:22
Alignment explanation
Indices: 49530988--49531029 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49530978 ATGCTCCTCC
*
49530988 TTTTC-TTTCTTTTTTTCTTTT
1 TTTTCTTTTCTTTTTTGCTTTT
49531009 TTTTCTTTTCTTTTTTGCTTT
1 TTTTCTTTTCTTTTTTGCTTT
49531030 GTTTACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTCTTTTCTTTTTTGCTTTT
Found at i:49531361 original size:13 final size:13
Alignment explanation
Indices: 49531328--49531361 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
49531318 GAGAATATCT
* *
49531328 TTTTATTAATATA
1 TTTTATTTAGATA
49531341 TTTTATTTAGATA
1 TTTTATTTAGATA
49531354 TTTTATTT
1 TTTTATTT
49531362 TTGTTTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTATTTAGATA
Found at i:49536480 original size:23 final size:23
Alignment explanation
Indices: 49536454--49536512 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
49536444 TTATCTTCCT
* *
49536454 TTGTGGCACGTTTTTCCTCT-ACC
1 TTGTGACACGCTTTTCCTCTGA-C
49536477 TTGTGACACGCTTTTCCTCTGAC
1 TTGTGACACGCTTTTCCTCTGAC
*
49536500 TTGTGTCACGCTT
1 TTGTGACACGCTT
49536513 CTACCTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 31 0.97
24 1 0.03
ACGTcount: A:0.10, C:0.29, G:0.19, T:0.42
Consensus pattern (23 bp):
TTGTGACACGCTTTTCCTCTGAC
Found at i:49541066 original size:24 final size:23
Alignment explanation
Indices: 49541012--49541068 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
49541002 ACTTTCCATT
49541012 AATTATATTTGGGAAATTTAGAA
1 AATTATATTTGGGAAATTTAGAA
* *
49541035 AATT-TATTTGTGAACTTTA-AA
1 AATTATATTTGGGAAATTTAGAA
49541056 GAATCTATATTTG
1 -AAT-TATATTTG
49541069 ATGGTGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 16 0.55
23 5 0.17
24 6 0.21
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.44
Consensus pattern (23 bp):
AATTATATTTGGGAAATTTAGAA
Found at i:49541576 original size:6 final size:6
Alignment explanation
Indices: 49541561--49541611 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
49541551 TCTCCATCTT
*
49541561 CCTTCA CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC
49541609 CCT
1 CCT
49541612 CGAGGGAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.02, C:0.65, G:0.00, T:0.33
Consensus pattern (6 bp):
CCTTCC
Found at i:49544220 original size:90 final size:90
Alignment explanation
Indices: 49544044--49544220 Score: 259
Period size: 90 Copynumber: 2.0 Consensus size: 90
49544034 AAAATTAATC
* *
49544044 AAACAAAATAATATGACAATCAAATATGAATATTTCATTTTCCTTATATTTACAAAATGAATATA
1 AAACAAAATAATATGACAATCAAATATAAATATTTCAGTTTCCTTATATTTACAAAATGAATATA
** *
49544109 GTAATACATTTGGGAAAAATATAGA
66 ACAATACATTTGGAAAAAATATAGA
49544134 AAACAAAATAATAT-AGCAATCAAATATAAATATTTCAGTTTCCTTATATTTACAAAATGAATAT
1 AAACAAAATAATATGA-CAATCAAATATAAATATTTCAGTTTCCTTATATTTACAAAATGAATAT
* *
49544198 AACAAT-CTTTTTGAAAATAATAT
65 AACAATACATTTGGAAAA-AATAT
49544221 TTCATTTTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 9 0.12
90 69 0.88
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (90 bp):
AAACAAAATAATATGACAATCAAATATAAATATTTCAGTTTCCTTATATTTACAAAATGAATATA
ACAATACATTTGGAAAAAATATAGA
Found at i:49547294 original size:6 final size:6
Alignment explanation
Indices: 49547269--49547311 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
49547259 ACAATTCATA
* * *
49547269 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT T
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT T
49547312 TGATCACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (6 bp):
TCACTT
Found at i:49562187 original size:27 final size:27
Alignment explanation
Indices: 49562157--49562212 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
49562147 TATAAAGTTA
49562157 TAATGTTTATAAATTACATCTTGATCT
1 TAATGTTTATAAATTACATCTTGATCT
49562184 TAATGTTTATAAATTACATCTTGATCT
1 TAATGTTTATAAATTACATCTTGATCT
49562211 TA
1 TA
49562213 TGGTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (27 bp):
TAATGTTTATAAATTACATCTTGATCT
Found at i:49567741 original size:25 final size:27
Alignment explanation
Indices: 49567713--49567762 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
49567703 AAATTCATTT
*
49567713 AAATTTTTATAA-TT-TAAATATAAAA
1 AAATTATTATAATTTATAAATATAAAA
*
49567738 AAATTATTGTAATTTATAAATATAA
1 AAATTATTATAATTTATAAATATAA
49567763 GTATAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 2 0.10
27 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AAATTATTATAATTTATAAATATAAAA
Found at i:49573700 original size:31 final size:31
Alignment explanation
Indices: 49573662--49573728 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
49573652 AGGTTTCAAT
49573662 AAAAATATAGGTCCGAAAAATAGGATTGAAC
1 AAAAATATAGGTCCGAAAAATAGGATTGAAC
* *
49573693 AAAAATATAGGTCCGAAAAATAGGTTTGAAT
1 AAAAATATAGGTCCGAAAAATAGGATTGAAC
49573724 AAAAA
1 AAAAA
49573729 ATGAGGCCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (31 bp):
AAAAATATAGGTCCGAAAAATAGGATTGAAC
Found at i:49573961 original size:12 final size:12
Alignment explanation
Indices: 49573911--49573964 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
49573901 TGTTTTAATA
*
49573911 TTTTT-TTACTG
1 TTTTTGTTATTG
*
49573922 TTTTGGTTATTG
1 TTTTTGTTATTG
* *
49573934 -TTTTGTTGTTA
1 TTTTTGTTATTG
49573945 TTTTTGTTATTG
1 TTTTTGTTATTG
49573957 TTTTTGTT
1 TTTTTGTT
49573965 GCTATTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
11 12 0.35
12 22 0.65
ACGTcount: A:0.07, C:0.02, G:0.17, T:0.74
Consensus pattern (12 bp):
TTTTTGTTATTG
Found at i:49573961 original size:24 final size:24
Alignment explanation
Indices: 49573922--49574015 Score: 91
Period size: 24 Copynumber: 3.9 Consensus size: 24
49573912 TTTTTTACTG
*
49573922 TTTTGGTTATTG-TTTTGTTGTTA
1 TTTTGGTTATTGTTTTTGTTGCTA
*
49573945 TTTTTGTTATTGTTTTTGTTGCTA
1 TTTTGGTTATTGTTTTTGTTGCTA
** * *
49573969 TTTTTATTGTTGTATTTTTGCTGCTA
1 TTTTGGTTATTG--TTTTTGTTGCTA
* *
49573995 TTTTGGTTGTTATTTTTGTTG
1 TTTTGGTTATTGTTTTTGTTG
49574016 TTTGGATGTT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
23 11 0.19
24 28 0.47
26 20 0.34
ACGTcount: A:0.09, C:0.03, G:0.19, T:0.69
Consensus pattern (24 bp):
TTTTGGTTATTGTTTTTGTTGCTA
Found at i:49573972 original size:12 final size:12
Alignment explanation
Indices: 49573934--49574017 Score: 87
Period size: 12 Copynumber: 6.8 Consensus size: 12
49573924 TTGGTTATTG
49573934 TTTTGTTGTTAT
1 TTTTGTTGTTAT
* *
49573946 TTTTGTTATTGT
1 TTTTGTTGTTAT
*
49573958 TTTTGTTGCTAT
1 TTTTGTTGTTAT
*
49573970 TTTTATTGTTGTAT
1 TTTTGTTG-T-TAT
* *
49573984 TTTTGCTGCTAT
1 TTTTGTTGTTAT
*
49573996 TTTGGTTGTTAT
1 TTTTGTTGTTAT
49574008 TTTTGTTGTT
1 TTTTGTTGTT
49574018 TGGATGTTAT
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
12 47 0.84
14 9 0.16
ACGTcount: A:0.08, C:0.04, G:0.18, T:0.70
Consensus pattern (12 bp):
TTTTGTTGTTAT
Found at i:49574004 original size:26 final size:24
Alignment explanation
Indices: 49573957--49574012 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
49573947 TTTGTTATTG
* *
49573957 TTTTTGTTGCTATTTTTATTGTTGTA
1 TTTTTGCTGCTATTTTGATTG-T-TA
*
49573983 TTTTTGCTGCTATTTTGGTTGTTA
1 TTTTTGCTGCTATTTTGATTGTTA
49574007 TTTTTG
1 TTTTTG
49574013 TTGTTTGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 8 0.30
25 1 0.04
26 18 0.67
ACGTcount: A:0.09, C:0.05, G:0.18, T:0.68
Consensus pattern (24 bp):
TTTTTGCTGCTATTTTGATTGTTA
Found at i:49574060 original size:22 final size:20
Alignment explanation
Indices: 49574025--49574064 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
49574015 GTTTGGATGT
49574025 TATTTTTCATGTCTTTTTAC
1 TATTTTTCATGTCTTTTTAC
49574045 TATTGTTTCACTGTCTTTTT
1 TATT-TTTCA-TGTCTTTTT
49574065 TAATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.12, C:0.15, G:0.07, T:0.65
Consensus pattern (20 bp):
TATTTTTCATGTCTTTTTAC
Found at i:49574071 original size:23 final size:20
Alignment explanation
Indices: 49574025--49574071 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
49574015 GTTTGGATGT
*
49574025 TATTTTTCATGTCTTTTTAC
1 TATTTTTCATGTCTTTTTAA
49574045 TATTGTTTCACTGTCTTTTTTAA
1 TATT-TTTCA-TGTC-TTTTTAA
49574068 TATT
1 TATT
49574072 ATTTGAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 5 0.22
22 4 0.17
23 10 0.43
ACGTcount: A:0.17, C:0.13, G:0.06, T:0.64
Consensus pattern (20 bp):
TATTTTTCATGTCTTTTTAA
Found at i:49574682 original size:19 final size:18
Alignment explanation
Indices: 49574658--49574710 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
49574648 TCATGCTATT
49574658 TTTTTAAATTTTTATGAA
1 TTTTTAAATTTTTATGAA
*
49574676 CTTTTTATATTTTCT-TGAA
1 -TTTTTAAATTTT-TATGAA
*
49574695 TTTTAAATATTTTTAT
1 TTTTTAA-ATTTTTAT
49574711 TTTTTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 6 0.21
19 21 0.75
20 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTTTAAATTTTTATGAA
Found at i:49581889 original size:19 final size:20
Alignment explanation
Indices: 49581844--49581890 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
49581834 ATTTTTGAAC
* *
49581844 TTTTTAATTTGTTTTTAGGA
1 TTTTTATTTTGGTTTTAGGA
**
49581864 TAATTATTTTGGTTTT-GGA
1 TTTTTATTTTGGTTTTAGGA
49581883 TTTTTATT
1 TTTTTATT
49581891 CTGTAAACAT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.66
Consensus pattern (20 bp):
TTTTTATTTTGGTTTTAGGA
Found at i:49585475 original size:2 final size:2
Alignment explanation
Indices: 49585470--49585498 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49585460 TTATCTAAAT
49585470 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49585499 TCTAATCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49588460 original size:30 final size:32
Alignment explanation
Indices: 49588398--49588474 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 32
49588388 GAAAATAAAA
49588398 AGGAAATTAGTATATATGTTGTTTTTTTAAATT
1 AGGAAA-TAGTATATATGTTGTTTTTTTAAATT
49588431 AGGAAATAGTA-ATA-GTT-TTTTTTTAAAATT
1 AGGAAATAGTATATATGTTGTTTTTTT-AAATT
49588461 AGGAACATAG-ATAT
1 AGGAA-ATAGTATAT
49588475 TTTTGCGAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.17
30 14 0.34
31 9 0.22
32 5 0.12
33 6 0.15
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.44
Consensus pattern (32 bp):
AGGAAATAGTATATATGTTGTTTTTTTAAATT
Found at i:49588478 original size:29 final size:28
Alignment explanation
Indices: 49588419--49588478 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
49588409 ATATATGTTG
49588419 TTTTTTTAAATTAGGAAATAGTAATAGTT
1 TTTTTTTAAATTAGGAAATAG-AATAGTT
49588448 TTTTTTTAAAATTAGGAACATAG-ATA-TT
1 TTTTTTT-AAATTAGGAA-ATAGAATAGTT
49588476 TTT
1 TTT
49588479 GCGAGGTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 5 0.17
29 10 0.34
30 10 0.34
31 4 0.14
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.50
Consensus pattern (28 bp):
TTTTTTTAAATTAGGAAATAGAATAGTT
Found at i:49588876 original size:16 final size:17
Alignment explanation
Indices: 49588847--49588879 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49588837 ATAATTTATT
*
49588847 TTTTTAAATTTGTTTAA
1 TTTTTAAATATGTTTAA
49588864 TTTTT-AATATGTTTAA
1 TTTTTAAATATGTTTAA
49588880 CAATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTTAAATATGTTTAA
Found at i:49594603 original size:31 final size:31
Alignment explanation
Indices: 49594559--49594619 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
49594549 ATATACATAA
*
49594559 TTAAATCAAAATTAAAATTTTAAATATATAT
1 TTAAACCAAAATTAAAATTTTAAATATATAT
* *
49594590 TTAAACCACAATTAAAATTTTACATATATA
1 TTAAACCAAAATTAAAATTTTAAATATATA
49594620 ACTACATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.39
Consensus pattern (31 bp):
TTAAACCAAAATTAAAATTTTAAATATATAT
Found at i:49599902 original size:21 final size:21
Alignment explanation
Indices: 49599875--49599928 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
49599865 AAAAAATAGT
49599875 CAAGTCTCAAGATTTA-GAGAC
1 CAAGTCTCAAGATTTACGA-AC
* * *
49599896 TAAGTCTCGAGATTTACTAAC
1 CAAGTCTCAAGATTTACGAAC
49599917 CAAGTCTCAAGA
1 CAAGTCTCAAGA
49599929 CTTATAACTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (21 bp):
CAAGTCTCAAGATTTACGAAC
Found at i:49605821 original size:30 final size:30
Alignment explanation
Indices: 49605775--49605849 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
49605765 AACTAAGAAA
*
49605775 CTCCTTTCGATCTCACCTAGGCATATAGAT
1 CTCCTTTCGGTCTCACCTAGGCATATAGAT
* *
49605805 CTTCTTTTGGTCTCACCTAGGCATATAGAT
1 CTCCTTTCGGTCTCACCTAGGCATATAGAT
49605835 CTCCTTTCGGTCTCA
1 CTCCTTTCGGTCTCA
49605850 TTATTTGGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (30 bp):
CTCCTTTCGGTCTCACCTAGGCATATAGAT
Found at i:49612654 original size:16 final size:17
Alignment explanation
Indices: 49612626--49612666 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
49612616 AAATATTTTC
* *
49612626 AAAAATATAATAAATTT
1 AAAAATATAATAAAATA
49612643 AAAAATAT-ATAAAATA
1 AAAAATATAATAAAATA
49612659 AAAAATAT
1 AAAAATAT
49612667 TTTTAACAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATATAATAAAATA
Found at i:49612703 original size:23 final size:25
Alignment explanation
Indices: 49612677--49612742 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
49612667 TTTTAACAAG
49612677 AAATA-ATAATATATAAAT-TTTT-A
1 AAATATATAATA-ATAAATATTTTCA
*
49612700 AAATATATAAAAATAAATATTTTCA
1 AAATATATAATAATAAATATTTTCA
*
49612725 AAAAATATAATAATAAAT
1 AAATATATAATAATAAAT
49612743 CTAAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 11 0.30
24 9 0.24
25 17 0.46
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATATAATAATAAATATTTTCA
Found at i:49612740 original size:55 final size:55
Alignment explanation
Indices: 49612629--49612752 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 55
49612619 TATTTTCAAA
* *
49612629 AATATAATAAA-TTTAAAAATATATAAAATAAAAAATATTTTTAACAAGAAATAAT
1 AATAT-ATAAATTTTAAAAATATATAAAATAAAAAATATTTTAAAAAAGAAATAAT
* * *
49612684 AATATATAAATTTTTAAAATATAT-AAA-AATAAATATTTTCAAAAAATATAATAAT
1 AATATATAAATTTTAAAAATATATAAAATAAAAAATATTTT-AAAAAAGA-AATAAT
*
49612739 AA-ATCTAAATTTTA
1 AATATATAAATTTTA
49612753 TATTAATATT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
53 11 0.19
54 23 0.39
55 25 0.42
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.36
Consensus pattern (55 bp):
AATATATAAATTTTAAAAATATATAAAATAAAAAATATTTTAAAAAAGAAATAAT
Found at i:49612752 original size:53 final size:54
Alignment explanation
Indices: 49612629--49612739 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 54
49612619 TATTTTCAAA
* *
49612629 AATATAATAAATTTAAAAATATATAAAATAAAAAATATTTTTAACAAGAAATAAT
1 AATAT-ATAAATTTTAAAATATATAAAATAAAAAATATTTTCAACAAGAAATAAT
*
49612684 AATATATAAATTTTTAAAATATAT-AAA-AATAAATATTTTCAA-AA-AATATAAT
1 AATATATAAA-TTTTAAAATATATAAAATAAAAAATATTTTCAACAAGAA-ATAAT
49612736 AATA
1 AATA
49612740 AATCTAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
51 2 0.04
52 11 0.22
53 13 0.25
54 8 0.16
55 17 0.33
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (54 bp):
AATATATAAATTTTAAAATATATAAAATAAAAAATATTTTCAACAAGAAATAAT
Found at i:49613619 original size:19 final size:17
Alignment explanation
Indices: 49613580--49613629 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
49613570 TACTTATATT
*
49613580 ATTGAATTTTTAATAAC
1 ATTGAATTTTTAATAAA
*
49613597 ATTGAATATTTATATTAAA
1 ATTGAAT-TTT-TAATAAA
*
49613616 ATTGAATTATTAAT
1 ATTGAATTTTTAAT
49613630 GTTATCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 12 0.44
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTGAATTTTTAATAAA
Found at i:49614216 original size:12 final size:12
Alignment explanation
Indices: 49614199--49614230 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
49614189 TGTTTTCTTT
49614199 AATATTAATATA
1 AATATTAATATA
49614211 AATATTAATATA
1 AATATTAATATA
*
49614223 AATTTTAA
1 AATATTAA
49614231 ATTTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATTAATATA
Found at i:49614243 original size:21 final size:21
Alignment explanation
Indices: 49614213--49614252 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49614203 TTAATATAAA
49614213 TATTAATATAAATTTTAAATT
1 TATTAATATAAATTTTAAATT
* **
49614234 TATTATTATATTTTTTAAA
1 TATTAATATAAATTTTAAA
49614253 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTAATATAAATTTTAAATT
Found at i:49614257 original size:20 final size:20
Alignment explanation
Indices: 49614210--49614269 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
49614200 ATATTAATAT
* **
49614210 AAATATTAATATAAATTTTA
1 AAATATTATTATATTTTTTA
*
49614230 AATTTATTATTATATTTTTTA
1 AA-ATATTATTATATTTTTTA
*
49614251 AAATATTTTTATATTTTTT
1 AAATATTATTATATTTTTT
49614270 TTTATTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATATTATTATATTTTTTA
Found at i:49614269 original size:10 final size:10
Alignment explanation
Indices: 49614225--49614286 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
49614215 TTAATATAAA
*
49614225 TTTTAAATTT
1 TTTTATATTT
49614235 ATTATTATATTT
1 -TT-TTATATTT
* * *
49614247 TTTAAAATAT
1 TTTTATATTT
49614257 TTTTATATTT
1 TTTTATATTT
*
49614267 TTTTTTATTT
1 TTTTATATTT
*
49614277 TTTTAGATTT
1 TTTTATATTT
49614287 AGGATCAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
10 29 0.73
11 4 0.10
12 7 0.17
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTATATTT
Found at i:49617668 original size:19 final size:20
Alignment explanation
Indices: 49617646--49617685 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
49617636 TATTTAAATA
*
49617646 TAATTTTTT-AATTTATTTT
1 TAATTTTTTCAATTAATTTT
49617665 TAATTTTTTCAATTAATTTT
1 TAATTTTTTCAATTAATTTT
49617685 T
1 T
49617686 TTATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (20 bp):
TAATTTTTTCAATTAATTTT
Found at i:49618905 original size:20 final size:21
Alignment explanation
Indices: 49618877--49618928 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
49618867 TCATGTCAGC
*
49618877 AAATGATTTTAAAATT-ATTA
1 AAATTATTTTAAAATTAATTA
49618897 AAATTATTTTAAAATTAATTA
1 AAATTATTTTAAAATTAATTA
*
49618918 ATAGTTATTTT
1 A-AATTATTTT
49618929 TTAAAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 15 0.54
21 5 0.18
22 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
AAATTATTTTAAAATTAATTA
Found at i:49618908 original size:11 final size:11
Alignment explanation
Indices: 49618877--49618913 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
49618867 TCATGTCAGC
*
49618877 AAATGATTTTA
1 AAATTATTTTA
49618888 AAATTA--TTA
1 AAATTATTTTA
49618897 AAATTATTTTA
1 AAATTATTTTA
49618908 AAATTA
1 AAATTA
49618914 ATTAATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:49619923 original size:18 final size:19
Alignment explanation
Indices: 49619892--49619948 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 19
49619882 ATGATGATGA
49619892 TTATAATTTTAAAATAATT
1 TTATAATTTTAAAATAATT
* *
49619911 TTAT-ATTTAAAAAAAATT
1 TTATAATTTTAAAATAATT
* *
49619929 TAATAATTTTAAAATCATT
1 TTATAATTTTAAAATAATT
49619948 T
1 T
49619949 ACTGACGTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATAATTTTAAAATAATT
Found at i:49619948 original size:19 final size:19
Alignment explanation
Indices: 49619894--49619949 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 19
49619884 GATGATGATT
*
49619894 ATAATTTTAAAATAATTTT
1 ATAATTTTAAAATAATTTA
* *
49619913 AT-ATTTAAAAAAAATTTA
1 ATAATTTTAAAATAATTTA
*
49619931 ATAATTTTAAAATCATTTA
1 ATAATTTTAAAATAATTTA
49619950 CTGACGTGAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATTTTAAAATAATTTA
Found at i:49624128 original size:15 final size:17
Alignment explanation
Indices: 49624108--49624140 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
49624098 GAACAAGTAC
49624108 TGGAATC-GGA-AGAGA
1 TGGAATCTGGAGAGAGA
49624123 TGGAATCTGGAGAGAGA
1 TGGAATCTGGAGAGAGA
49624140 T
1 T
49624141 AAGGAGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.39, T:0.18
Consensus pattern (17 bp):
TGGAATCTGGAGAGAGA
Found at i:49635259 original size:29 final size:28
Alignment explanation
Indices: 49635225--49635289 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
49635215 TGTTTTCTTC
* *
49635225 ATATTATATTTTAGTTATTTATGTATAAA
1 ATATTATATTTTAATCATTTATGT-TAAA
* *
49635254 ATATTACATTTTAATCATTTATGTTAAT
1 ATATTATATTTTAATCATTTATGTTAAA
49635282 ATATTATA
1 ATATTATA
49635290 ATATTTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (28 bp):
ATATTATATTTTAATCATTTATGTTAAA
Found at i:49635707 original size:15 final size:15
Alignment explanation
Indices: 49635687--49635716 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49635677 GAAGAGAATG
*
49635687 AAAAAAACAGAAAAA
1 AAAAAAAAAGAAAAA
49635702 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
49635717 TTCAAAGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:49636337 original size:16 final size:17
Alignment explanation
Indices: 49636316--49636357 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
49636306 ATTCAATAAA
49636316 AATTAAATTAT-AAATT
1 AATTAAATTATCAAATT
49636332 AATTAAA-TATCAAATT
1 AATTAAATTATCAAATT
*
49636348 AATTTAATTA
1 AATTAAATTA
49636358 ACTATGTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 18 0.78
17 2 0.09
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTAAATTATCAAATT
Found at i:49639063 original size:27 final size:28
Alignment explanation
Indices: 49639001--49639064 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
49638991 AGCAACTTAA
*
49639001 GAAAAAAAAATAATTTAAGTATCAATTGT
1 GAAAAAAAAATAATTTAAGTACCAA-TGT
*
49639030 G-ATAAAAAA-AATTTAAGTACCAA-GAT
1 GAAAAAAAAATAATTTAAGTACCAATG-T
49639056 GAAAAAAAA
1 GAAAAAAAA
49639065 TAGTATAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.03
26 2 0.07
27 19 0.63
28 7 0.23
29 1 0.03
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (28 bp):
GAAAAAAAAATAATTTAAGTACCAATGT
Found at i:49639851 original size:21 final size:22
Alignment explanation
Indices: 49639827--49639867 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
49639817 GTATATTAAA
*
49639827 AAAATAGTTAA-TTAGATAACT
1 AAAATAGTTAACTTAAATAACT
*
49639848 AAAATATTTAACTTAAATAA
1 AAAATAGTTAACTTAAATAA
49639868 ATTAGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (22 bp):
AAAATAGTTAACTTAAATAACT
Found at i:49645882 original size:15 final size:15
Alignment explanation
Indices: 49645858--49645887 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49645848 AAATCATATA
49645858 TGTTTATTTATTATT
1 TGTTTATTTATTATT
*
49645873 TGTTTGTTTATTATT
1 TGTTTATTTATTATT
49645888 CATGAACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTTTATTTATTATT
Found at i:49660794 original size:20 final size:18
Alignment explanation
Indices: 49660744--49660795 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
49660734 TATCAAAATA
49660744 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
49660761 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
49660781 AATATTAAATTAATA
1 AATATTAAATTAATA
49660796 AAAAACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:49670990 original size:23 final size:23
Alignment explanation
Indices: 49670942--49670993 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
49670932 TATAATATTC
* *
49670942 AAATAATATTAAAAAAGATAGTA
1 AAATAATAGTAAAAAAGATAGAA
*
49670965 AAATAATAGTAAAAACGCATA-AA
1 AAATAATAGTAAAAAAG-ATAGAA
49670988 AAATAA
1 AAATAA
49670994 CATCCAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (23 bp):
AAATAATAGTAAAAAAGATAGAA
Found at i:49671017 original size:12 final size:12
Alignment explanation
Indices: 49671000--49671111 Score: 60
Period size: 12 Copynumber: 9.8 Consensus size: 12
49670990 ATAACATCCA
49671000 AACAACAAAAAT
1 AACAACAAAAAT
* *
49671012 AACAACCAAAAC
1 AACAACAAAAAT
*
49671024 AGCAACAAAAAT
1 AACAACAAAAAT
*
49671036 AACAGC----A-
1 AACAACAAAAAT
*
49671043 AACAACATTAAA-
1 AACAACA-AAAAT
49671055 AACAACAAAAAT
1 AACAACAAAAAT
*
49671067 AGCAACAAAAAT
1 AACAACAAAAAT
* * *
49671079 AATAGC-AAAAC
1 AACAACAAAAAT
*
49671090 AAC-ACGAAAAT
1 AACAACAAAAAT
49671101 AACAACTAAAA
1 AACAAC-AAAA
49671112 CAGAAAAAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 17
0.68 0.17 0.16
Matches are distributed among these distances:
7 5 0.07
8 1 0.01
10 1 0.01
11 16 0.22
12 47 0.64
13 3 0.04
ACGTcount: A:0.68, C:0.20, G:0.04, T:0.08
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:49671039 original size:15 final size:15
Alignment explanation
Indices: 49671021--49671086 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
49671011 TAACAACCAA
49671021 AACAGCAACAAAAAT
1 AACAGCAACAAAAAT
* *
49671036 AACAGCAAACAACATT
1 AACAGC-AACAAAAAT
* *
49671052 AAAAACAACAAAAAT
1 AACAGCAACAAAAAT
49671067 ---AGCAACAAAAAT
1 AACAGCAACAAAAAT
*
49671079 AATAGCAA
1 AACAGCAA
49671087 AACAACACGA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
12 11 0.28
15 18 0.45
16 11 0.28
ACGTcount: A:0.67, C:0.18, G:0.06, T:0.09
Consensus pattern (15 bp):
AACAGCAACAAAAAT
Found at i:49671120 original size:43 final size:42
Alignment explanation
Indices: 49670986--49671121 Score: 141
Period size: 43 Copynumber: 3.1 Consensus size: 42
49670976 AAAACGCATA
* *
49670986 AAAAATAACATCCAAACAACAAAAATAACAACCAAAACAGCAAC
1 AAAAATAACA-GCAAACAACAAAAATAACAACAAAAACAG-AAC
* *
49671030 AAAAATAACAGCAAACAACATTAAA-AACAACAAAAATAGCAAC
1 AAAAATAACAGCAAACAACA-AAAATAACAACAAAAACAG-AAC
* *
49671073 AAAAATAATAGCAAAACAACACGAAAATAACAACTAAAACAGAA-
1 AAAAATAACAGC-AAACAACA--AAAATAACAACAAAAACAGAAC
49671117 AAAAA
1 AAAAA
49671122 GCACCAAAAC
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
43 36 0.46
44 26 0.33
45 5 0.06
46 12 0.15
ACGTcount: A:0.68, C:0.19, G:0.04, T:0.08
Consensus pattern (42 bp):
AAAAATAACAGCAAACAACAAAAATAACAACAAAAACAGAAC
Found at i:49671160 original size:22 final size:22
Alignment explanation
Indices: 49671135--49671185 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
49671125 CCAAAACAAT
*
49671135 AAAA-AATACAAAAACAGCAACC
1 AAAACAATAAAAAAACAGC-ACC
**
49671157 AAAACGGTAAAAAAACAGCACC
1 AAAACAATAAAAAAACAGCACC
49671179 AAAACAA
1 AAAACAA
49671186 CAATATAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.67, C:0.22, G:0.08, T:0.04
Consensus pattern (22 bp):
AAAACAATAAAAAAACAGCACC
Found at i:49675982 original size:58 final size:56
Alignment explanation
Indices: 49675904--49676020 Score: 139
Period size: 58 Copynumber: 2.1 Consensus size: 56
49675894 AATGGTTGGA
* * * *
49675904 TGATTATTTTGTAACTTTTTAT-AGTTGGGTGACAAAAATAAAATTTATCAATAATTGAG
1 TGATCATTTTATAACTTTTTATGA-TTGGATGAC-AAAA-AAAATTAAT-AATAATTGAG
*
49675963 TGATCATTTTATAA-TTTTTATGATTGGATGACCAAAAAAATTAATAATAATTGAG
1 TGATCATTTTATAACTTTTTATGATTGGATGACAAAAAAAATTAATAATAATTGAG
49676018 TGA
1 TGA
49676021 CTACTAATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
55 13 0.25
56 8 0.15
57 3 0.06
58 15 0.29
59 13 0.25
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (56 bp):
TGATCATTTTATAACTTTTTATGATTGGATGACAAAAAAAATTAATAATAATTGAG
Found at i:49676680 original size:17 final size:17
Alignment explanation
Indices: 49676658--49676694 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
49676648 AATATTTTTT
*
49676658 TAAAATTATAAAATTTA
1 TAAAATTATAAAATATA
*
49676675 TAAAATTCTAAAATATA
1 TAAAATTATAAAATATA
49676692 TAA
1 TAA
49676695 CTATAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATTATAAAATATA
Found at i:49681967 original size:26 final size:26
Alignment explanation
Indices: 49681932--49681983 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
49681922 AACAGAAATG
49681932 ATGGCAAAGTTACTTGCCAATGCTTA
1 ATGGCAAAGTTACTTGCCAATGCTTA
*
49681958 ATGGCGAAGTTACTTGCCAATGCTTA
1 ATGGCAAAGTTACTTGCCAATGCTTA
49681984 CTTGATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (26 bp):
ATGGCAAAGTTACTTGCCAATGCTTA
Found at i:49681986 original size:14 final size:14
Alignment explanation
Indices: 49681941--49681987 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
49681931 GATGGCAAAG
49681941 TTACTTGCCAATGC
1 TTACTTGCCAATGC
* * *
49681955 TTAATGGCGAA-G-
1 TTACTTGCCAATGC
49681967 TTACTTGCCAATGC
1 TTACTTGCCAATGC
49681981 TTACTTG
1 TTACTTG
49681988 ATATAACATT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
12 8 0.32
13 2 0.08
14 15 0.60
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (14 bp):
TTACTTGCCAATGC
Found at i:49682600 original size:176 final size:176
Alignment explanation
Indices: 49682298--49682651 Score: 672
Period size: 176 Copynumber: 2.0 Consensus size: 176
49682288 GTAGTAGCTA
*
49682298 AAACAATTTTTTTGAAATTTCATTTGAACCTGCCTTCTGCTTTCTGGAATAAAGAAGGTGAATCA
1 AAACAATTATTTTGAAATTTCATTTGAACCTGCCTTCTGCTTTCTGGAATAAAGAAGGTGAATCA
*
49682363 AAATGTAGATGGAACTTGATTATAATATGATGCCTTTTTGGGTTTTGTCGAATTTCTTGAAATGG
66 AAATGTAGATGGAACTTGATTATAATATGATGCCTTTTTGGGTTTTGTCGAATTCCTTGAAATGG
49682428 TGACACGGTTTTTTGGTTTCTTACTTGAACTTCACTTTCTACATAG
131 TGACACGGTTTTTTGGTTTCTTACTTGAACTTCACTTTCTACATAG
49682474 AAACAATTATTTTGAAATTTCATTTGAACCTGCCTTCTGCTTTCTGGAATAAAGAAGGTGAATCA
1 AAACAATTATTTTGAAATTTCATTTGAACCTGCCTTCTGCTTTCTGGAATAAAGAAGGTGAATCA
*
49682539 AAATGTAGATGGAACTTGATTATAATATGATGCCTTTTTGGGTTTTGTCGAGTTCCTTGAAATGG
66 AAATGTAGATGGAACTTGATTATAATATGATGCCTTTTTGGGTTTTGTCGAATTCCTTGAAATGG
*
49682604 TGACATGGTTTTTTGGTTTCTTACTTGAACTTCACTTTCTACATAG
131 TGACACGGTTTTTTGGTTTCTTACTTGAACTTCACTTTCTACATAG
49682650 AA
1 AA
49682652 TCACAGTGCG
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 174 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (176 bp):
AAACAATTATTTTGAAATTTCATTTGAACCTGCCTTCTGCTTTCTGGAATAAAGAAGGTGAATCA
AAATGTAGATGGAACTTGATTATAATATGATGCCTTTTTGGGTTTTGTCGAATTCCTTGAAATGG
TGACACGGTTTTTTGGTTTCTTACTTGAACTTCACTTTCTACATAG
Found at i:49692503 original size:22 final size:22
Alignment explanation
Indices: 49692477--49692587 Score: 150
Period size: 22 Copynumber: 4.9 Consensus size: 22
49692467 GAAACAGTAG
*
49692477 GCACACACAGTACTGAACAGAA
1 GCACACACAGTGCTGAACAGAA
* *
49692499 GCACACACAGTGCTGAATAAAA
1 GCACACACAGTGCTGAACAGAA
49692521 GCACACACAGTGCTGGGAAACAGAA
1 GCACACACAGTGCT--G-AACAGAA
49692546 GCACACACAGTGCTGAACAGAA
1 GCACACACAGTGCTGAACAGAA
* *
49692568 GCACACATAGTGCTAAACAG
1 GCACACACAGTGCTGAACAG
49692588 TAGGCGCGCA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
22 58 0.73
23 1 0.01
24 1 0.01
25 19 0.24
ACGTcount: A:0.42, C:0.25, G:0.22, T:0.11
Consensus pattern (22 bp):
GCACACACAGTGCTGAACAGAA
Found at i:49692543 original size:47 final size:44
Alignment explanation
Indices: 49692477--49692587 Score: 150
Period size: 47 Copynumber: 2.5 Consensus size: 44
49692467 GAAACAGTAG
* *
49692477 GCACACACAGTACTGAACAGAAGCACACACAGTGCTGAATAAAA
1 GCACACACAGTGCTGAACAGAAGCACACACAGTGCTGAACAAAA
*
49692521 GCACACACAGTGCTGGGAAACAGAAGCACACACAGTGCTGAACAGAA
1 GCACACACAGTGCT--G-AACAGAAGCACACACAGTGCTGAACAAAA
* *
49692568 GCACACATAGTGCTAAACAG
1 GCACACACAGTGCTGAACAG
49692588 TAGGCGCGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
44 18 0.31
46 1 0.02
47 40 0.68
ACGTcount: A:0.42, C:0.25, G:0.22, T:0.11
Consensus pattern (44 bp):
GCACACACAGTGCTGAACAGAAGCACACACAGTGCTGAACAAAA
Found at i:49697255 original size:52 final size:52
Alignment explanation
Indices: 49697177--49697280 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
49697167 GCTGAAAGAA
49697177 ATTTGAGAAAGTCCTGGATTAACTTCTTTTTTTGGGATTTACAGAACATATG
1 ATTTGAGAAAGTCCTGGATTAACTTCTTTTTTTGGGATTTACAGAACATATG
49697229 ATTTGAGAAAGTCCTGGATTAACTTCTTTTTTTGGGATTTACAGAACATATG
1 ATTTGAGAAAGTCCTGGATTAACTTCTTTTTTTGGGATTTACAGAACATATG
49697281 TTATAGATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (52 bp):
ATTTGAGAAAGTCCTGGATTAACTTCTTTTTTTGGGATTTACAGAACATATG
Found at i:49710572 original size:17 final size:17
Alignment explanation
Indices: 49710547--49710580 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49710537 ATTTTTCCTT
* *
49710547 TTTCTTTTTCTTTTTCC
1 TTTCCTTTTCTTCTTCC
49710564 TTTCCTTTTCTTCTTCC
1 TTTCCTTTTCTTCTTCC
49710581 CCTGTTTCGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCCTTTTCTTCTTCC
Found at i:49717628 original size:14 final size:14
Alignment explanation
Indices: 49717605--49717639 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
49717595 AGATATTAGT
49717605 TAATAATAATAAAA
1 TAATAATAATAAAA
* *
49717619 TAATACTAATTAAA
1 TAATAATAATAAAA
49717633 TAATAAT
1 TAATAAT
49717640 TTATATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:49725256 original size:17 final size:16
Alignment explanation
Indices: 49725213--49725245 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49725203 GTCTTCCTTT
49725213 AATTTAA-A-ATAAAA
1 AATTTAACATATAAAA
49725227 AATTTAACATATAAAA
1 AATTTAACATATAAAA
49725243 AAT
1 AAT
49725246 ATTAGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 1 0.06
16 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AATTTAACATATAAAA
Found at i:49741079 original size:27 final size:26
Alignment explanation
Indices: 49741000--49741116 Score: 82
Period size: 25 Copynumber: 4.3 Consensus size: 26
49740990 CTATTATTTT
* *
49741000 TTATTAAAAAATTAGAAAAATTTGTAAA
1 TTATT-AAAAATTA-TAAAATTTATAAA
*
49741028 --AATAAAAATTATCAAAATTGATATAAA
1 TTATTAAAAATTAT-AAAATT--TATAAA
49741055 CTTATTAAAAA-TATGAAAATTTATAAA
1 -TTATTAAAAATTAT-AAAATTTATAAA
49741082 -TATTATAAAATTATAAAA-TTATAAAA
1 TTATTA-AAAATTATAAAATTTAT-AAA
*
49741108 TTAATAAAA
1 TTATTAAAA
49741117 CTCATTTAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
25 23 0.32
26 16 0.22
27 18 0.25
29 9 0.12
30 7 0.10
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (26 bp):
TTATTAAAAATTATAAAATTTATAAA
Found at i:49741082 original size:8 final size:8
Alignment explanation
Indices: 49741032--49741116 Score: 80
Period size: 9 Copynumber: 9.5 Consensus size: 8
49741022 TGTAAAAATA
49741032 AAAATTAT
1 AAAATTAT
49741040 CAAAATTGAT
1 -AAAATT-AT
49741050 ATAAACTTATT
1 A-AAA-TTA-T
*
49741061 AAAAATAT
1 AAAATTAT
49741069 GAAAATTTAT
1 -AAAA-TTAT
49741079 AAATATTAT
1 AAA-ATTAT
49741088 AAAATTAT
1 AAAATTAT
49741096 AAAATTAT
1 AAAATTAT
49741104 AAAATTAAT
1 AAAATT-AT
49741113 AAAA
1 AAAA
49741117 CTCATTTAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
8 20 0.30
9 29 0.44
10 13 0.20
11 4 0.06
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (8 bp):
AAAATTAT
Found at i:49741678 original size:9 final size:9
Alignment explanation
Indices: 49741666--49741851 Score: 71
Period size: 9 Copynumber: 20.0 Consensus size: 9
49741656 TTTGATAGTT
49741666 TTTTTATAA
1 TTTTTATAA
*
49741675 TTTTTATGA
1 TTTTTATAA
*
49741684 TTTTTACAGAA
1 TTTTT--ATAA
* *
49741695 TTTTAATACG
1 TTTTTATA-A
49741705 TTTTTATAAA
1 TTTTTAT-AA
*
49741715 TATTTA-AA
1 TTTTTATAA
*
49741723 TATTTTAAATA
1 T-TTTTATA-A
*
49741734 TATTTTATTA
1 T-TTTTATAA
*
49741744 CTTTTATAA
1 TTTTTATAA
49741753 TTTTT-TATA
1 TTTTTATA-A
*
49741762 TTTTTACAA
1 TTTTTATAA
*
49741771 TATTTTACAA
1 T-TTTTATAA
49741781 TATTTTATAA
1 T-TTTTATAA
* *
49741791 GTTTATATTTA
1 -TTTTTA-TAA
*
49741802 TTTTCAT-A
1 TTTTTATAA
49741810 TTTTT-TAA
1 TTTTTATAA
*
49741818 TATTTAATAA
1 T-TTTTATAA
49741828 -TTTT-T-A
1 TTTTTATAA
*
49741834 TTTTTATGA
1 TTTTTATAA
49741843 TTTTTATAA
1 TTTTTATAA
49741852 GAAAATATTA
Statistics
Matches: 134, Mismatches: 25, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
6 1 0.01
7 6 0.04
8 16 0.12
9 51 0.38
10 42 0.31
11 18 0.13
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:49744080 original size:30 final size:32
Alignment explanation
Indices: 49744029--49744093 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
49744019 TAATAAAAAT
* *
49744029 AAAATTGTATTTTAATATTTTTATAAATGATA
1 AAAATTGTAATTTAATATTTTTAAAAATGATA
*
49744061 AAAATT-TAATTTAAT-TTTTTAAAAATTATA
1 AAAATTGTAATTTAATATTTTTAAAAATGATA
49744091 AAA
1 AAA
49744094 TTATTGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 16 0.53
31 8 0.27
32 6 0.20
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (32 bp):
AAAATTGTAATTTAATATTTTTAAAAATGATA
Found at i:49749533 original size:3 final size:3
Alignment explanation
Indices: 49749525--49749562 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
49749515 AGGGTATAAA
*
49749525 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
49749563 AATAAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:49749913 original size:16 final size:16
Alignment explanation
Indices: 49749892--49749932 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
49749882 GTAATTTTGT
49749892 TGGTTGTTGCTTCTCA
1 TGGTTGTTGCTTCTCA
* *
49749908 TGGTTGTTACTTCTTA
1 TGGTTGTTGCTTCTCA
49749924 TGGTTGTTG
1 TGGTTGTTG
49749933 GTTTGTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.07, C:0.12, G:0.27, T:0.54
Consensus pattern (16 bp):
TGGTTGTTGCTTCTCA
Found at i:49750248 original size:13 final size:13
Alignment explanation
Indices: 49750230--49750254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49750220 TTGCCAAATT
49750230 TGATAGGAAACTA
1 TGATAGGAAACTA
49750243 TGATAGGAAACT
1 TGATAGGAAACT
49750255 TTACAAAAAG
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:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (13 bp):
TGATAGGAAACTA
Found at i:49750274 original size:12 final size:12
Alignment explanation
Indices: 49750257--49750281 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49750247 AGGAAACTTT
49750257 ACAAAAAGTTCA
1 ACAAAAAGTTCA
49750269 ACAAAAAGTTCA
1 ACAAAAAGTTCA
49750281 A
1 A
49750282 AAATTGTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
ACAAAAAGTTCA
Found at i:49750670 original size:18 final size:18
Alignment explanation
Indices: 49750647--49750688 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
49750637 CTTTTGTCTA
* * *
49750647 GAGGCAGCTTGTTGATTT
1 GAGGCAGATTCTTGAGTT
49750665 GAGGCAGATTCTTGAGTT
1 GAGGCAGATTCTTGAGTT
49750683 GAGGCA
1 GAGGCA
49750689 TTATCCATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.31
Consensus pattern (18 bp):
GAGGCAGATTCTTGAGTT
Found at i:49751398 original size:21 final size:21
Alignment explanation
Indices: 49751374--49751443 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
49751364 AAAGCCAACA
49751374 TAAAACACAATCCAAGACACC
1 TAAAACACAATCCAAGACACC
* * *
49751395 TAAAA-A-ATATCATTAAGCCAACA
1 TAAAACACA-ATC--CAAGAC-ACC
49751418 TAAAACACAATCCAAGACACC
1 TAAAACACAATCCAAGACACC
49751439 TAAAA
1 TAAAA
49751444 AACATCATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 12 0.32
22 8 0.22
23 7 0.19
24 4 0.11
25 1 0.03
ACGTcount: A:0.56, C:0.26, G:0.04, T:0.14
Consensus pattern (21 bp):
TAAAACACAATCCAAGACACC
Found at i:49751401 original size:23 final size:23
Alignment explanation
Indices: 49751375--49751447 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
49751365 AAGCCAACAT
49751375 AAAACACAATCCAAGACACCTAA
1 AAAACACAATCCAAGACACCTAA
* * * * *
49751398 AAAATATC-AT-TAAGCCAAC-AT
1 AAAACA-CAATCCAAGACACCTAA
49751419 AAAACACAATCCAAGACACCTAA
1 AAAACACAATCCAAGACACCTAA
49751442 AAAACA
1 AAAACA
49751448 TCATTCAATA
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
20 1 0.03
21 8 0.22
22 12 0.33
23 14 0.39
24 1 0.03
ACGTcount: A:0.58, C:0.26, G:0.04, T:0.12
Consensus pattern (23 bp):
AAAACACAATCCAAGACACCTAA
Found at i:49751413 original size:44 final size:44
Alignment explanation
Indices: 49751365--49751452 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
49751355 ATCCAATATA
*
49751365 AAGCCAACATAAAACACAATCCAAGACACCTAAAAAATATCATT
1 AAGCCAACATAAAACACAATCCAAGACACCTAAAAAACATCATT
49751409 AAGCCAACATAAAACACAATCCAAGACACCTAAAAAACATCATT
1 AAGCCAACATAAAACACAATCCAAGACACCTAAAAAACATCATT
49751453 CAATATAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.55, C:0.26, G:0.05, T:0.15
Consensus pattern (44 bp):
AAGCCAACATAAAACACAATCCAAGACACCTAAAAAACATCATT
Found at i:49751486 original size:11 final size:11
Alignment explanation
Indices: 49751457--49751513 Score: 71
Period size: 11 Copynumber: 5.1 Consensus size: 11
49751447 ATCATTCAAT
49751457 ATAAAGCCAAC
1 ATAAAGCCAAC
49751468 ATTAAAGCCAAC
1 A-TAAAGCCAAC
49751480 ATAAAG-CAGAC
1 ATAAAGCCA-AC
* *
49751491 ATAAAGTCATC
1 ATAAAGCCAAC
49751502 ATAAAGCCAAC
1 ATAAAGCCAAC
49751513 A
1 A
49751514 AAACACATCA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
10 2 0.05
11 25 0.62
12 13 0.32
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.14
Consensus pattern (11 bp):
ATAAAGCCAAC
Found at i:49751531 original size:33 final size:33
Alignment explanation
Indices: 49751470--49751532 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
49751460 AAGCCAACAT
*
49751470 TAAAGCCAACATAAAGCAGACATAAAGTCATCA
1 TAAAGCCAACATAAAGCACACATAAAGTCATCA
49751503 TAAAGCCAACA-AAA-CACATCATACAAGTCA
1 TAAAGCCAACATAAAGCACA-CATA-AAGTCA
49751533 GAATAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 3 0.11
32 7 0.26
33 17 0.63
ACGTcount: A:0.52, C:0.24, G:0.10, T:0.14
Consensus pattern (33 bp):
TAAAGCCAACATAAAGCACACATAAAGTCATCA
Found at i:49753896 original size:30 final size:29
Alignment explanation
Indices: 49753853--49753949 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 29
49753843 GCTCGGGGGC
49753853 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGGTAATTTTT-G-GAAATCGGGGTTA
*
49753884 AAAATGG-GA-TTTTGGAAAGTTCGAGGG-T-
1 AAAATGGTAATTTTTGGAAA--TCG-GGGTTA
*
49753912 AAAATGGTAATTTTTTGAAAAATCGGGGTTA
1 AAAATGGTAA-TTTTTG-GAAATCGGGGTTA
49753943 AAAATGG
1 AAAATGG
49753950 GATTTTGGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
27 4 0.07
28 8 0.15
29 12 0.22
30 8 0.15
31 19 0.35
32 3 0.06
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAATCGGGGTTA
Found at i:49753919 original size:59 final size:58
Alignment explanation
Indices: 49753853--49754026 Score: 233
Period size: 59 Copynumber: 3.0 Consensus size: 58
49753843 GCTCGGGGGC
*
49753853 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTAGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTC-AGGGT
* ** *
49753912 AAAATGGTAATTTTTTGAAAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGAGGT
1 AAAATGGTAATTTTTAGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAG-GGT
* * * **
49753971 AAAACGGTAATTTTTAGTGAAAT-AGGGTTAAAAATGAGATTTTATAAAGTTCAGGG
1 AAAATGGTAATTTTTAGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGG
49754027 ACTAGAGAGC
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
57 2 0.02
58 28 0.28
59 71 0.70
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTTAGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGT
Found at i:49753955 original size:30 final size:30
Alignment explanation
Indices: 49753853--49753960 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 30
49753843 GCTCGGGGGC
* **
49753853 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGG-GATTTTTGGAAAAATCGGGGTTA
**
49753884 AAAATGGGA-TTTTGGAAAGTTCGAGGG-T-
1 AAAATGGGATTTTTGGAAAAATCG-GGGTTA
* *
49753912 AAAATGGTAATTTTTTGAAAAATCGGGGTTA
1 AAAATGG-GATTTTTGGAAAAATCGGGGTTA
49753943 AAAATGGGA-TTTTGGAAA
1 AAAATGGGATTTTTGGAAA
49753961 GTTTAGAGGT
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
28 7 0.11
29 23 0.38
30 17 0.28
31 14 0.23
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (30 bp):
AAAATGGGATTTTTGGAAAAATCGGGGTTA
Found at i:49755762 original size:17 final size:17
Alignment explanation
Indices: 49755742--49755804 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
49755732 TTTTCAATGT
49755742 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
49755759 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
* **
49755775 ATTTAAAATTAATTCAA
1 ATTTAAATTTAAAACAA
*
49755792 ACTT-AATTTAAAA
1 ATTTAAATTTAAAA
49755805 TCCAAGTTGG
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:49755788 original size:27 final size:27
Alignment explanation
Indices: 49755745--49755797 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
49755735 TCAATGTATT
* *
49755745 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTCAAACTTAAA
**
49755772 TAAATTTAAAATTAATTCAAACTTAA
1 TAAATTTAAAACAAATTCAAACTTAA
49755798 TTTAAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAACAAATTCAAACTTAAA
Found at i:49756497 original size:200 final size:200
Alignment explanation
Indices: 49756142--49756971 Score: 1209
Period size: 200 Copynumber: 4.1 Consensus size: 200
49756132 TTGACCTGGC
* * * ** * *
49756142 ATTCTTCTCCGTGTCTCATCAGGAGGATGACCGTAAT-CATCTGTTTTAATTCGCTTCTCTGAAT
1 ATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCATGC-T-TGTTTTGATTCGCTTCTCTGGAT
* * * * *
49756206 CTTCTCAGGAAGACGAATTTGGTCCACTTCTCTATGTCTCATCAGGAAGCTAACCTTTTTATTGC
64 CTCCTCAAGAAGACGAATCTAGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGC
* ** * ** *
49756271 TTCGACCTACTTCTCAGTACCTCATCAGAAAGCTGGGTTCGAAGGTTTGCTCGCGTTGAGCGTTG
129 TTCAACCTACTTCTCAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCATGTTGAGCGCTG
49756336 AGTTGGT
194 AGTTGGT
*
49756343 ATTCTTCTCTGTATCTCATCAGGAAGATGACCGTC-TCGCTTGTTTTGATTCGCTTCTCTGGATC
1 ATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCAT-GCTTGTTTTGATTCGCTTCTCTGGATC
* ** *
49756407 TCCTCAAGAAGATGAATCTAGTCCACTTCTCTGTGTCTCATCAGGAAGCTGCCCTTTTTATTGCC
65 TCCTCAAGAAGACGAATCTAGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCT
* * *
49756472 TCGACCT-GTTCCTCAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCGTGTTGAGCGCTG
130 TCAACCTACTT-CTCAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCATGTTGAGCGCTG
49756536 AGTTGGT
194 AGTTGGT
* * *
49756543 GTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCATGCTTATTTTGATTCGTTTCTCTGGATCT
1 ATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCATGCTTGTTTTGATTCGCTTCTCTGGATCT
49756608 CCTCAAGAAGACGAATCTAGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTG-TT
66 CCTCAAGAAGACGAATCTAGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTT
*
49756672 CAACCTACTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCATGTTTGAGCGCTGA
131 CAACCTACTTCTCAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCATG-TTGAGCGCTGA
*
49756737 GATGGT
195 GTTGGT
* * *
49756743 TTTCTTCTCTGTATCTCATCAGGAAGATGACTGCCATGCTTGTTTTGATTCGCTTCTCTAGATCT
1 ATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCATGCTTGTTTTGATTCGCTTCTCTGGATCT
*
49756808 CCTCAGGAAGACGAATCTAGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTT
66 CCTCAAGAAGACGAATCTAGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTT
* * *
49756873 CAACCTACTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTACTCATGTTGGAGCACTGA
131 CAACCTACTTCTCAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCATGTT-GAGCGCTGA
49756938 GTTGGT
195 GTTGGT
* *
49756944 GTTCTTCTCTGTATCTCATCAAGAAGAT
1 ATTCTTCTCTGTATCTCATCAGGAAGAT
49756972 TATCGCCTTA
Statistics
Matches: 576, Mismatches: 45, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
199 49 0.09
200 400 0.69
201 126 0.22
202 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (200 bp):
ATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCATGCTTGTTTTGATTCGCTTCTCTGGATCT
CCTCAAGAAGACGAATCTAGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTT
CAACCTACTTCTCAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCATGTTGAGCGCTGAG
TTGGT
Found at i:49769099 original size:29 final size:27
Alignment explanation
Indices: 49769067--49769166 Score: 71
Period size: 29 Copynumber: 3.4 Consensus size: 27
49769057 TGGTAAAATC
49769067 GGGGTTAAAATGAGATTTTAGAAAGTTTA
1 GGGG-TAAAATG-GATTTTAGAAAGTTTA
*
49769096 GGGGTAAAATGGTAATTTTTGGTGAAA--TT-
1 GGGGTAAAATGG--A-TTTT--AGAAAGTTTA
*
49769125 GGGGTTAAAAATGGGATTTTAGAAAGTTCA
1 GGGG-T-AAAAT-GGATTTTAGAAAGTTTA
49769155 GGGGTAAAATGG
1 GGGGTAAAATGG
49769167 TAATTTATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 24
0.68 0.04 0.29
Matches are distributed among these distances:
27 7 0.12
28 12 0.21
29 15 0.26
30 12 0.21
31 5 0.09
32 6 0.11
ACGTcount: A:0.35, C:0.01, G:0.32, T:0.32
Consensus pattern (27 bp):
GGGGTAAAATGGATTTTAGAAAGTTTA
Found at i:49769161 original size:59 final size:59
Alignment explanation
Indices: 49769043--49769335 Score: 446
Period size: 59 Copynumber: 5.0 Consensus size: 59
49769033 GCCCGAGGGC
* * * *
49769043 AAAATGGTAATTTTTGGTAAAATCGGGGTT-AAAATGAGATTTTAGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGT
* *
49769101 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGT
** * *
49769160 AAAATGGTAATTTATTTATGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTT-TTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGT
*
49769220 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGT
* *
49769279 AAAATGGTAATTTTTGGTGAAATCGGGATTAAAAATGAGATTTTGGAAAGTTC-GGGG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGG
49769336 ACTAGAGAGC
Statistics
Matches: 215, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
58 32 0.15
59 130 0.60
60 53 0.25
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGT
Found at i:49769284 original size:119 final size:117
Alignment explanation
Indices: 49769043--49769330 Score: 479
Period size: 119 Copynumber: 2.4 Consensus size: 117
49769033 GCCCGAGGGC
* *
49769043 AAAATGGTAATTTTTGGTAAAATCGGGGTT-AAAATGAGATTTTAGAAAGTTTAGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATC-GGGTTAAAAATGAGATTTTGGAAAGTTTAGGGGTAAAATG
49769107 GTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGAAAGTTCAGGGGT
65 GTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGAAAGTTCAGGGGT
** *
49769160 AAAATGGTAATTTATTTATGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTAAAAT
1 AAAATGGTAATTT-TTGGTGAAATCG-GGTTAAAAATGAGATTTTGGAAAGTTTAGGGGTAAAAT
*
49769225 GGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGT
64 GGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGAAAGTTCAGGGGT
49769279 AAAATGGTAATTTTTGGTGAAATCGGGATTAAAAATGAGATTTTGGAAAGTT
1 AAAATGGTAATTTTTGGTGAAATCGGG-TTAAAAATGAGATTTTGGAAAGTT
49769331 CGGGGACTAG
Statistics
Matches: 158, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
117 16 0.10
118 45 0.28
119 97 0.61
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.34
Consensus pattern (117 bp):
AAAATGGTAATTTTTGGTGAAATCGGGTTAAAAATGAGATTTTGGAAAGTTTAGGGGTAAAATGG
TAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTAGAAAGTTCAGGGGT
Found at i:49770316 original size:20 final size:20
Alignment explanation
Indices: 49770291--49770332 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49770281 TTTTTTCTTT
49770291 TTTATTAAAAATTAATATTA
1 TTTATTAAAAATTAATATTA
* * *
49770311 TTTATTAATATTTATTATTA
1 TTTATTAAAAATTAATATTA
49770331 TT
1 TT
49770333 ATCATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATTAAAAATTAATATTA
Found at i:49771153 original size:17 final size:17
Alignment explanation
Indices: 49771133--49771195 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
49771123 TTTTAAATGT
49771133 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
49771150 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
* **
49771166 ATTTAAAATTAATTCAA
1 ATTTAAATTTAAAACAA
*
49771183 ACTT-AATTTAAAA
1 ATTTAAATTTAAAA
49771196 TCCAAGTTGG
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:49771179 original size:27 final size:27
Alignment explanation
Indices: 49771117--49771188 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
49771107 TTTAAGTTTC
* * **
49771117 AAATTATTTTAAATGTATTTAAATTTA
1 AAATTAATTTAAATTTAAATAAATTTA
**
49771144 AAACAAATTTAAATTTAAATAAATTTA
1 AAATTAATTTAAATTTAAATAAATTTA
* *
49771171 AAATTAATTCAAACTTAA
1 AAATTAATTTAAATTTAA
49771189 TTTAAAATCC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (27 bp):
AAATTAATTTAAATTTAAATAAATTTA
Found at i:49772615 original size:22 final size:22
Alignment explanation
Indices: 49772585--49772682 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 22
49772575 AACCAAGTCA
* *
49772585 AACCATTGACTGACCGTTGACC
1 AACCGTTGACTGACCGTTGATC
*
49772607 AACCGTTGA-TCGATCGTTGAT-
1 AACCGTTGACT-GACCGTTGATC
** * *
49772628 AGGTCGTTGACCGATCGTTGATC
1 A-ACCGTTGACTGACCGTTGATC
*
49772651 GACCGTTGACTGACCGTTGATC
1 AACCGTTGACTGACCGTTGATC
*
49772673 GACCGTTGAC
1 AACCGTTGAC
49772683 CGTTGACTGT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.03
22 59 0.97
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28
Consensus pattern (22 bp):
AACCGTTGACTGACCGTTGATC
Found at i:49772624 original size:11 final size:11
Alignment explanation
Indices: 49772596--49772681 Score: 84
Period size: 11 Copynumber: 7.8 Consensus size: 11
49772586 ACCATTGACT
*
49772596 GACCGTTGACC
1 GACCGTTGATC
*
49772607 AACCGTTGATC
1 GACCGTTGATC
* *
49772618 GATCGTTGATA
1 GACCGTTGATC
** *
49772629 GGTCGTTGACC
1 GACCGTTGATC
*
49772640 GATCGTTGATC
1 GACCGTTGATC
49772651 GACCGTTGA-C
1 GACCGTTGATC
49772661 TGACCGTTGATC
1 -GACCGTTGATC
49772673 GACCGTTGA
1 GACCGTTGA
49772682 CCGTTGACTG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
10 1 0.02
11 60 0.97
12 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (11 bp):
GACCGTTGATC
Found at i:49772669 original size:33 final size:33
Alignment explanation
Indices: 49772590--49772681 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
49772580 AGTCAAACCA
* *
49772590 TTGACTGACCGTTGACCAACCGTTGATCGATCG
1 TTGACTGACCGTTGACCGACCGTTGATCGACCG
** *
49772623 TTGA-TAGGTCGTTGACCGATCGTTGATCGACCG
1 TTGACT-GACCGTTGACCGACCGTTGATCGACCG
*
49772656 TTGACTGACCGTTGATCGACCGTTGA
1 TTGACTGACCGTTGACCGACCGTTGA
49772682 CCGTTGACTG
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
32 1 0.02
33 46 0.96
34 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (33 bp):
TTGACTGACCGTTGACCGACCGTTGATCGACCG
Done.