Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 82 of 204
Found at i:25052659 original size:95 final size:92
Alignment explanation
Indices: 25052594--25052785 Score: 256
Period size: 95 Copynumber: 2.1 Consensus size: 92
25052584 GCCTTATACT
25052594 AATATACAC-TTCACATTCATCACATC-GCCATTAGGCCTTATCACCATATATACACCTTTCACA
1 AATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA-CATATATACA-CTTTCACA
25052657 TTCATCACATC-GCCATTAGGCCTTATCAC
64 TTCATCACATCGGCCATTAGGCCTTAT-AC
*
25052686 ACATATACAACTTTCA-AATCATCACATCGGCCATTAGGCCTTATCACATATA-ACAC-TTCACA
1 A-ATATAC-ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
*
25052748 -TCATCACATCGGCTATTAGGCCTTAT-C
64 TTCATCACATCGGCCATTAGGCCTTATAC
25052775 AAATATACACT
1 -AATATACACT
25052786 GTCTTGGCTG
Statistics
Matches: 92, Mismatches: 2, Indels: 16
0.84 0.02 0.15
Matches are distributed among these distances:
88 3 0.03
89 7 0.08
90 11 0.12
91 20 0.22
92 2 0.02
93 9 0.10
94 19 0.21
95 21 0.23
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (92 bp):
AATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATAC
Found at i:25056401 original size:40 final size:42
Alignment explanation
Indices: 25056357--25056434 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 42
25056347 CACCGGAATA
25056357 TCACTAGCACG-ATGCTCTTCGGAAC-TTAGTCCGGATACAT
1 TCACTAGCACGAATGCTCTTCGGAACTTTAGTCCGGATACAT
*
25056397 TCACTAGGACGAATGCTCTTCGGAACTTTAGTCCGGAT
1 TCACTAGCACGAATGCTCTTCGGAACTTTAGTCCGGAT
25056435 TATGGTCACT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 10 0.29
41 14 0.40
42 11 0.31
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (42 bp):
TCACTAGCACGAATGCTCTTCGGAACTTTAGTCCGGATACAT
Found at i:25056460 original size:42 final size:41
Alignment explanation
Indices: 25056357--25056467 Score: 115
Period size: 41 Copynumber: 2.7 Consensus size: 41
25056347 CACCGGAATA
*
25056357 TCACTAGCACG-ATGCTCTTCGGAACTTAGTCCGGATACAT
1 TCACTAGCACGAAAGCTCTTCGGAACTTAGTCCGGATACAT
* * *
25056397 TCACTAGGACGAATGCTCTTCGGAACTTTAGTCCGGAT-TAT
1 TCACTAGCACGAAAGCTCTTCGGAAC-TTAGTCCGGATACAT
25056438 GGTCACTTAGCAC-AAAGC-CTTCGG-ACTTAG
1 --TCAC-TAGCACGAAAGCTCTTCGGAACTTAG
25056468 CCGCGACATC
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
40 14 0.23
41 18 0.29
42 17 0.27
43 8 0.13
44 5 0.08
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (41 bp):
TCACTAGCACGAAAGCTCTTCGGAACTTAGTCCGGATACAT
Found at i:25059204 original size:50 final size:49
Alignment explanation
Indices: 25058990--25059289 Score: 405
Period size: 47 Copynumber: 6.3 Consensus size: 49
25058980 GCCCAGTCAC
* *
25058990 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTACCA-AC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
25059038 ATAT-TACACTTTCACATTCATCACATCGGCCATTAGG-CTTATTACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
25059085 A-ATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
25059130 ATA-ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
25059178 ATATATTACACTTTCACATTCATCACATCGGCCATTA-GCCTTATCACACAAT
1 ATATA-TACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CAC-AT
* *
25059230 ATATAGACACTTTCACA-TCATCACATCGG-CATTAGGCCAT-TCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
25059274 ATAT-TACACTTTCACA
1 ATATATACACTTTCACA
25059290 CCGAACCCGG
Statistics
Matches: 230, Mismatches: 9, Indels: 31
0.85 0.03 0.11
Matches are distributed among these distances:
43 11 0.05
44 4 0.02
45 36 0.16
46 14 0.06
47 76 0.33
48 8 0.03
49 14 0.06
50 46 0.20
51 14 0.06
52 7 0.03
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:25059205 original size:142 final size:142
Alignment explanation
Indices: 25058949--25059289 Score: 460
Period size: 142 Copynumber: 2.4 Consensus size: 142
25058939 CACATTTATG
* * * * *
25058949 CACTTTCACATCCATCACGTTGGTCCACTCGGCCCAGTCACATATATACACTTTCACATTCATCA
1 CACTTTCACATTCATCACATCGG-CCATTAGG-CCAGTCACATA-ATACACTTTCACATTCATCA
*
25059014 CATCGGCCATTAGGCCTTACCAACATATTACACTTTCACATTCATCACATCGGCCATTAGGCTTA
63 CATCGGCCATTAGGCCTTACCAACATATTACACTTTCACATTCATCACATCGGCCATTAGCCTTA
* *
25059079 T-TAC-ATA-ATATA
128 TACACAATATATAGA
25059091 CACTTTCACATTCATCACATCGGCCATTAGGCCTA-TCACATAATACACTTTCACATTCATCACA
1 CACTTTCACATTCATCACATCGGCCATTAGGCC-AGTCACATAATACACTTTCACATTCATCACA
* *
25059155 TCGGCTATTAGGCCTTATCACATATATATTACACTTTCACATTCATCACATCGGCCATTAGCCTT
65 TCGGCCATTAGGCCTTA-C-CA-ACATATTACACTTTCACATTCATCACATCGGCCATTAGCCTT
25059220 ATCACACAATATATAGA
127 AT-ACACAATATATAGA
* *
25059237 CACTTTCACA-TCATCACATCGG-CATTAGGCCATTCACATATTACACTTTCACA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCAGTCACATAATACACTTTCACA
25059290 CCGAACCCGG
Statistics
Matches: 179, Mismatches: 11, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
139 38 0.21
140 10 0.06
141 9 0.05
142 62 0.35
143 1 0.01
144 30 0.17
145 15 0.08
146 14 0.08
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (142 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCAGTCACATAATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTACCAACATATTACACTTTCACATTCATCACATCGGCCATTAGCCTTATAC
ACAATATATAGA
Found at i:25060660 original size:39 final size:39
Alignment explanation
Indices: 25060612--25060695 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 39
25060602 CGGAATTTAA
* * *
25060612 CCGGATATAGCT-CCTCGTTCAAGTGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCATTCAA-TGCCTTCGGGACATAAC
*
25060652 CCGG-TATAGTAACTCATTCAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCATTCAATGCCTTCGGGACATAAC
25060690 CCGGAT
1 CCGGAT
25060696 TTTAAAACTC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
38 20 0.53
39 14 0.37
40 4 0.11
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCATTCAATGCCTTCGGGACATAAC
Found at i:25060769 original size:24 final size:25
Alignment explanation
Indices: 25060729--25060777 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
25060719 CGGGACTTAA
25060729 CCCGGAATTAGTATCTCGCACAAAG
1 CCCGGAATTAGTATCTCGCACAAAG
*
25060754 CCCGGACTTA-TATCTCGCACAAAG
1 CCCGGAATTAGTATCTCGCACAAAG
25060778 GCCTTCGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (25 bp):
CCCGGAATTAGTATCTCGCACAAAG
Found at i:25060811 original size:39 final size:39
Alignment explanation
Indices: 25060754--25060830 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
25060744 TCGCACAAAG
* * *
25060754 CCCGGACTTATATCTCGCACAAAGGCCTTCGGA-CTTAA
1 CCCGGAATTATAACTCGCACAAAGACCTTCGGATCTTAA
*
25060792 CCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTA
1 CCCGGAATT-ATAACTCGCACAAAGACCTTCGGATCTTA
25060831 GTCCGGATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 8 0.24
39 21 0.64
40 4 0.12
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (39 bp):
CCCGGAATTATAACTCGCACAAAGACCTTCGGATCTTAA
Found at i:25068651 original size:78 final size:79
Alignment explanation
Indices: 25068553--25068810 Score: 224
Period size: 78 Copynumber: 3.3 Consensus size: 79
25068543 CTCGTTCAAG
* * * ** * *
25068553 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTCAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGG-AATTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA-AT
*
25068617 TA-AAACTCGCACGAA
64 TAGAAACTCGCACAAA
* *
25068632 TGCCTTC-GGACTTAACCCGGAATTAGTATCTCGCACAAAGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGAATTA
* *
25068696 GTATCTCGCACAAA
66 GAAACTCGCACAAA
* * * **
25068710 GGCCTTCGGGACTTAACCCGGAATTA-TAACTCGCACAAATACCTTC-GGATCTTAGTCCGG-AT
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCACACAAA-GCCTTCGGGA-CTTAACCCGGAAT
** *
25068772 ATAGTCACTTAGCACAAA
64 -TAGAAAC-TCGCACAAA
*
25068790 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
25068811 CAGCATTCAA
Statistics
Matches: 151, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
77 4 0.03
78 76 0.50
79 63 0.42
80 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TGCCTTCGGGACTTAACCCGGAATTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGAATTA
GAAACTCGCACAAA
Found at i:25068726 original size:40 final size:39
Alignment explanation
Indices: 25068593--25068810 Score: 239
Period size: 39 Copynumber: 5.5 Consensus size: 39
25068583 CTCATTCAAT
* * *
25068593 GCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGA-ATTAGTAACTCGCAC-AAA
*
25068633 GCCTTC-GGACTTAACCCGGAATTAGTATCTCGCACAAA
1 GCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
*
25068671 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 GCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
25068710 GGCCTTCGGGACTTAACCCGGAATTA-TAACTCGCACAAA
1 -GCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
* ** * *
25068749 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 -GCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCACAAA
*
25068790 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
25068811 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 16 0.10
39 81 0.52
40 48 0.31
41 11 0.07
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAA
Found at i:25068770 original size:79 final size:78
Alignment explanation
Indices: 25068594--25068810 Score: 230
Period size: 79 Copynumber: 2.8 Consensus size: 78
25068584 TCATTCAATG
* ** *
25068594 CCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAATGCCTTC-GGACTTAACCCGGAATTA
1 CCTTCGGGACTTAACCCGGA-TATAGTCACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTA
* *
25068657 GTATCTCGCACAAAG
64 GTAACTCGCACAAAA
25068672 CCTTCGGGACTTAACCCGGA-ATTAGT-ATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 CCTTCGGGACTTAACCCGGATA-TAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATT
25068735 A-TAACTCGCACAAATA
63 AGTAACTCGCACAAA-A
** * *
25068751 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
25068811 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
77 5 0.04
78 48 0.40
79 57 0.47
80 10 0.08
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTAGT
AACTCGCACAAAA
Found at i:25070544 original size:61 final size:61
Alignment explanation
Indices: 25070470--25070670 Score: 180
Period size: 61 Copynumber: 3.3 Consensus size: 61
25070460 CCTTTATAGA
* ** *
25070470 AAAACTCTAGATAGGAAAATCTTTGTAGCCAGTATTGAATGTAAAAGG-AAACTTTTGTGGC
1 AAAACTATAGATAGGAAAATCTTTGTAGCCAGTACCGAATGT-AAAGGAAAACTATTGTGGC
* * * *
25070531 AACACTATTGATAGGAAAGAT-TTTGTGGCTAGTACCGAATGTAAAGGAAAACTATTGTGGC
1 AAAACTATAGATAGGAAA-ATCTTTGTAGCCAGTACCGAATGTAAAGGAAAACTATTGTGGC
* * * * * *
25070592 AAAACTCTAGATAGGAAAACCTTTGT-GTCGAGT-CCTTAATGTAAAGGGCAACCT-TTGTGGC
1 AAAACTATAGATAGGAAAATCTTTGTAG-CCAGTACC-GAATGTAAA-GGAAAACTATTGTGGC
*
25070653 AAAACTCTAGATA-GAAAA
1 AAAACTATAGATAGGAAAA
25070671 GCCTTTGTGG
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
60 14 0.12
61 96 0.81
62 8 0.07
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (61 bp):
AAAACTATAGATAGGAAAATCTTTGTAGCCAGTACCGAATGTAAAGGAAAACTATTGTGGC
Found at i:25070617 original size:29 final size:29
Alignment explanation
Indices: 25070575--25070683 Score: 80
Period size: 29 Copynumber: 3.7 Consensus size: 29
25070565 CCGAATGTAA
25070575 AGGAAAA-CTATTGTGGCAAAACTCTAGAT
1 AGGAAAACCT-TTGTGGCAAAACTCTAGAT
* * ** *
25070604 AGGAAAACCTTTGTGTCGAGTC-CTTAATGTAA
1 AGGAAAACCTTTGTGGCAAAACTC-T-A-G-AT
**
25070636 AGGGCAACCTTTGTGGCAAAACTCTAGAT
1 AGGAAAACCTTTGTGGCAAAACTCTAGAT
25070665 A-GAAAAGCCTTTGTGGCAA
1 AGGAAAA-CCTTTGTGGCAA
25070684 CCTCTGTTTA
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
28 4 0.07
29 30 0.51
30 4 0.07
31 2 0.03
32 18 0.31
33 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (29 bp):
AGGAAAACCTTTGTGGCAAAACTCTAGAT
Found at i:25073273 original size:14 final size:14
Alignment explanation
Indices: 25073254--25073280 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25073244 TAAACCTTGT
25073254 AACATCATCCTATA
1 AACATCATCCTATA
25073268 AACATCATCCTAT
1 AACATCATCCTAT
25073281 CACATAAAAA
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:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (14 bp):
AACATCATCCTATA
Found at i:25080294 original size:50 final size:48
Alignment explanation
Indices: 25080225--25080421 Score: 200
Period size: 51 Copynumber: 4.0 Consensus size: 48
25080215 AAAGTGAAAG
* *
25080225 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAA
* * *
25080274 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGA
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAA
* * * * *
25080323 TAGCTTCGATCACGTGTGAAGTACTATGTGCAGGCTACTATGTGTATCGGATA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CCGA-A
* *
25080376 GTGATTGTCACATGTGTAGTACTA--TGCAGGCTACTATGTGAACCGA
1 -TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGA
25080422 TATCTTTGAA
Statistics
Matches: 121, Mismatches: 21, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
48 3 0.02
49 24 0.20
50 38 0.31
51 50 0.41
52 3 0.02
53 2 0.02
54 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (48 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAA
Found at i:25080489 original size:27 final size:27
Alignment explanation
Indices: 25080439--25080515 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
25080429 GAATATAAAG
*
25080439 GGGGTTGCTAGGTGCTGATT-CCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCCAA
*
25080465 GGGGTTGTTAAGTGCTGATTCCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCCAA
*
25080492 GGGGTTGCTAAGTGTTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
25080516 GATTCATTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 18 0.39
27 28 0.61
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (27 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:25088980 original size:21 final size:21
Alignment explanation
Indices: 25088955--25088996 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
25088945 AAACCTGGTA
*
25088955 AAAGGTATCAATTCTTTTTGT
1 AAAGGTATCAATACTTTTTGT
25088976 AAAGGTATCAATACTTTTTGT
1 AAAGGTATCAATACTTTTTGT
25088997 GTAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (21 bp):
AAAGGTATCAATACTTTTTGT
Found at i:25092505 original size:26 final size:22
Alignment explanation
Indices: 25092453--25092507 Score: 58
Period size: 26 Copynumber: 2.4 Consensus size: 22
25092443 GAGTATAGGA
25092453 ATTTAT-AATTAATTATTATTT
1 ATTTATAAATTAATTATTATTT
*
25092474 AATTATAAATTAAATTATTAATATAT
1 ATTTATAAATT-AATTATT-AT-T-T
25092500 ATTTATAA
1 ATTTATAA
25092508 TTCTTCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 7 0.26
24 2 0.07
25 1 0.04
26 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTATAAATTAATTATTATTT
Found at i:25093224 original size:18 final size:18
Alignment explanation
Indices: 25093192--25093236 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
25093182 TTTTAAAAAA
*
25093192 TAAATTTTATCAATTTTT
1 TAAATTTTATAAATTTTT
25093210 TAAAATTTT-TAAATTTTT
1 T-AAATTTTATAAATTTTT
25093228 TAAATTTTA
1 TAAATTTTA
25093237 AAAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 10 0.42
19 7 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TAAATTTTATAAATTTTT
Found at i:25135662 original size:43 final size:44
Alignment explanation
Indices: 25135602--25135685 Score: 127
Period size: 43 Copynumber: 1.9 Consensus size: 44
25135592 AGTGGCATGC
*
25135602 ACTAGAGGGTCACATTTAAATTGCATAATA-TTCAGTTTCATCGT
1 ACTAGAGAGTCACATTTAAATTGCAT-ATACTTCAGTTTCATCGT
*
25135646 ACTAGAGAGT-ACATTTAAATTGCATATACTTTAGTTTCAT
1 ACTAGAGAGTCACATTTAAATTGCATATACTTCAGTTTCAT
25135686 GCTACATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 3 0.08
43 25 0.68
44 9 0.24
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (44 bp):
ACTAGAGAGTCACATTTAAATTGCATATACTTCAGTTTCATCGT
Found at i:25142370 original size:21 final size:21
Alignment explanation
Indices: 25142325--25142387 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
25142315 TTTCAACCAT
* * *
25142325 TACCAATTCGTGCCAAATACCA
1 TACCATTTCGTACC-AATTCCA
25142347 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
25142368 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
25142388 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.32, C:0.32, G:0.06, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:25142738 original size:13 final size:12
Alignment explanation
Indices: 25142701--25142734 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
25142691 AAAGGAGTTC
25142701 GAAAAAAAAATT
1 GAAAAAAAAATT
25142713 GAAAAAAAAATT
1 GAAAAAAAAATT
25142725 GAAAAAAAAA
1 GAAAAAAAAA
25142735 ATTGCATACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (12 bp):
GAAAAAAAAATT
Found at i:25143538 original size:15 final size:15
Alignment explanation
Indices: 25143506--25143539 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25143496 GTTCAACGAA
*
25143506 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
25143521 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
25143536 GAGG
1 GAGG
25143540 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:25147230 original size:21 final size:21
Alignment explanation
Indices: 25147201--25147242 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25147191 ACCAAATACG
* *
25147201 ATACCATTTTGTACCAATTCC
1 ATACCATTTCGAACCAATTCC
*
25147222 ATACTATTTCGAACCAATTCC
1 ATACCATTTCGAACCAATTCC
25147243 CAAATACCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.36
Consensus pattern (21 bp):
ATACCATTTCGAACCAATTCC
Found at i:25164166 original size:12 final size:11
Alignment explanation
Indices: 25164133--25164162 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
25164123 AATCTTATAG
25164133 ACATTAAATAA
1 ACATTAAATAA
25164144 ACATTAAATAA
1 ACATTAAATAA
25164155 ACATTAAA
1 ACATTAAA
25164163 ATAATAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (11 bp):
ACATTAAATAA
Found at i:25166149 original size:41 final size:41
Alignment explanation
Indices: 25166102--25166195 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
25166092 TTGCAGATGT
* *
25166102 GTGCCCCTGA-TTGTACTTCGATACCCATGAATTGCACATAC
1 GTGCCCCT-ATTTGTACTTCAATACCCATAAATTGCACATAC
*
25166143 AG-GCCCCTATTTGTACTTCAATACCCCTAAATTGCACATAC
1 -GTGCCCCTATTTGTACTTCAATACCCATAAATTGCACATAC
25166184 GTGCCCCTATTT
1 GTGCCCCTATTT
25166196 ACACTCCGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
40 2 0.04
41 44 0.94
42 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (41 bp):
GTGCCCCTATTTGTACTTCAATACCCATAAATTGCACATAC
Found at i:25172839 original size:50 final size:50
Alignment explanation
Indices: 25172666--25172957 Score: 274
Period size: 49 Copynumber: 5.8 Consensus size: 50
25172656 GATAATAACA
*
25172666 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATGTAC-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGT-CG
** *
25172715 TGCCAATGCCATAACCCAGATATGGTCTTACATGGGATGTT-TCATGTAC-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGT-CG
** * * *
25172764 TGCCAATGCCATAACCAAGATATGGTCTTACATGGGA-GTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTC-G
* * ** *
25172814 TGCCAACGCCATGTCCCACACATGGTCTTACATGGGA-CCTCTCGTGTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTC-G
* **
25172864 TGCCAATGCCATGTCCCAGACATGGTTTTACATGGGA-CCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATG---TC---G
*
25172919 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
25172958 CTCTTTACCC
Statistics
Matches: 209, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
48 4 0.02
49 86 0.41
50 81 0.39
53 2 0.01
55 1 0.00
56 35 0.17
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCG
Found at i:25172951 original size:106 final size:99
Alignment explanation
Indices: 25172683--25172961 Score: 276
Period size: 99 Copynumber: 2.8 Consensus size: 99
25172673 GCCATGTCCC
* * ** *
25172683 AGACATGGTCTTACATGGGA-TGTTTCATGTAC--TGCCAATGCCATAACCCAGATATGGTCTTA
1 AGACATGGTCTTACATGGGACT-TCTCATCT-CGGTGCCAATGCCATGTCCCAGACATGGTCTTA
* *
25172745 CATGGGATGTTTCATGTACTGCCAATGCCATAACCA
64 CATGGGATCTCTCATGTACTGCCAATGCCATAACCA
* * * *
25172781 AGATATGGTCTTACATGGGAGTTCTCATCTCGGTGCCAACGCCATGTCCCACACATGGTCTTACA
1 AGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACA
* * * ** *
25172846 TGGGACCTCTCGTGTCAGTGCCAATGCCATGTCCC
66 TGGGATCTCTCATGT-ACTGCCAATGCCATAACCA
* * *
25172881 AGACATGGTTTTACATGGGACCTCTCATGATCTCAAGGATGCCAATGTCATGTCCCAGACATGGT
1 AGACATGGTCTTACATGGGA-CT-TC-TCATCTC--GG-TGCCAATGCCATGTCCCAGACATGGT
25172946 CTTACATGGGATCTCT
60 CTTACATGGGATCTCT
25172962 TTACCCAAAT
Statistics
Matches: 147, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
97 1 0.01
98 25 0.17
99 39 0.27
100 33 0.22
101 1 0.01
102 2 0.01
103 6 0.04
105 2 0.01
106 38 0.26
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (99 bp):
AGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACA
TGGGATCTCTCATGTACTGCCAATGCCATAACCA
Found at i:25180364 original size:50 final size:50
Alignment explanation
Indices: 25180243--25180527 Score: 279
Period size: 50 Copynumber: 5.6 Consensus size: 50
25180233 ACATGCGAAA
* * * *
25180243 GCCATGTCCCAAACATGGTCTTACATGGGA-TGTTTCATGTAC--TACCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCT-CGGTGCCAAT
* * * * * *
25180292 GTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAAT
** * *
25180342 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAAT
* * *
25180392 GCCGTGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAAT
* * * * *
25180442 GTCATTTCCCAGACATGGCCTTACATGGGACCTCTCACGATCTCAAGGATGTCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CT-TCTC-ATCTC--GG-TGCCAAT
25180498 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
25180528 TCTCTTTACC
Statistics
Matches: 193, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 32 0.17
50 117 0.61
51 1 0.01
52 3 0.02
53 4 0.02
55 2 0.01
56 33 0.17
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGGTGCCAAT
Found at i:25180554 original size:106 final size:99
Alignment explanation
Indices: 25180338--25180554 Score: 211
Period size: 106 Copynumber: 2.1 Consensus size: 99
25180328 ATATCGGTGC
* * * * *
25180338 CCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCGTGTCCCA
1 CCATGACATTTCCCAGACATGGCCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCA
* **
25180403 GACATGGTCTTACATGGGACCTCTCGTCTCGGTG
66 GACATGGTCTTACATGGGACCTCTCGTCCCAATG
* * * *
25180437 CCAATGTCATTTCCCAGACATGGCCTTACATGGGACCTCTCACGATCTCAAGGATGTCAATGCCA
1 CC-ATGACATTTCCCAGACATGGCCTTACAGGGGACCTCT--C-ATCTC--GG-TGCCAACGCCA
* *
25180502 TGTCCCAGACATGGTCTTACATGGGATCTCT-TTACCCAAATG
59 TGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CCC-AATG
*
25180544 TCATGACATTT
1 CCATGACATTT
25180555 GTATCCAGTA
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
99 2 0.02
100 32 0.34
102 1 0.01
103 5 0.05
105 3 0.03
106 48 0.51
107 3 0.03
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (99 bp):
CCATGACATTTCCCAGACATGGCCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCA
GACATGGTCTTACATGGGACCTCTCGTCCCAATG
Found at i:25183458 original size:40 final size:40
Alignment explanation
Indices: 25183365--25183624 Score: 288
Period size: 40 Copynumber: 6.5 Consensus size: 40
25183355 AAAATAGAAT
* * * * *
25183365 CAGGAGCATGTATATGCCTTTAGGAGTACCGAAGTACAAA
1 CAGGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAA
* * * * *
25183405 CAAGGGTACGTATGTGCATTCAGGGGCACCAAAGTACAAA
1 CAGGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAA
* *
25183445 CAGGGGCATGTATGTGAATTCAGGGGTACCAAAGTACAAA
1 CAGGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAA
* * * * * *
25183485 -AAGAGCATGTATGTGGATTCAAGGGTACTGATGTACAAA
1 CAGGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAA
** *
25183524 CAGGGGCACATATGTGCATTCAGGGGTACCGAAGTATAAA
1 CAGGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAA
**
25183564 CAGGGGCATGTATGTGCATTCAGGGGTATTGAAGTACAAA
1 CAGGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAA
* *
25183604 TAGGGGCATGTAAGTGCATTC
1 CAGGGGCATGTATGTGCATTC
25183625 CTACAATAAT
Statistics
Matches: 181, Mismatches: 38, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 32 0.18
40 149 0.82
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (40 bp):
CAGGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAA
Found at i:25187440 original size:40 final size:40
Alignment explanation
Indices: 25187396--25187716 Score: 314
Period size: 40 Copynumber: 8.1 Consensus size: 40
25187386 TGTATATGAC
*
25187396 TTCAGGGGTACCGAAATACAAACAAGGGCATGTATGTAG-A
1 TTCAGGGGTACCGAAATACAAACAAGGGCACGTATGT-GCA
* *
25187436 TTCAGGGGTACCGAAGTGCAAACAAGGGCACGTATGTGCA
1 TTCAGGGGTACCGAAATACAAACAAGGGCACGTATGTGCA
* *
25187476 TTCAGGGGTACCGAAGTATAAA-AAGAGGCACGTATGTGCA
1 TTCAGGGGTACCGAAATACAAACAAG-GGCACGTATGTGCA
* * * *
25187516 TTCAGGGTTA-CTAAAGTACAAATAGGGGCACGTATGTGCA
1 TTCAGGGGTACCGAAA-TACAAACAAGGGCACGTATGTGCA
* * * * * *
25187556 TTCAAGGGTATCGAAGTACAAA-AAGGGGCATGTATGAGAA
1 TTCAGGGGTACCGAAATACAAACAA-GGGCACGTATGTGCA
* * *
25187596 TTCAGGGGTACC-AAAGTACAAATAGGGGCACATATGTGCA
1 TTCAGGGGTACCGAAA-TACAAACAAGGGCACGTATGTGCA
*
25187636 TT-AGGGGTACC-AAAGTATAAACAAGGGCACGTATGTGCA
1 TTCAGGGGTACCGAAA-TACAAACAAGGGCACGTATGTGCA
* * * * * *
25187675 TTCAGGGGTAGCGAAGTACAAATAGGGGCTCGCATGTGCA
1 TTCAGGGGTACCGAAATACAAACAAGGGCACGTATGTGCA
25187715 TT
1 TT
25187717 AATATAATAA
Statistics
Matches: 234, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
39 45 0.19
40 181 0.77
41 8 0.03
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.21
Consensus pattern (40 bp):
TTCAGGGGTACCGAAATACAAACAAGGGCACGTATGTGCA
Found at i:25187545 original size:80 final size:80
Alignment explanation
Indices: 25187396--25187716 Score: 398
Period size: 80 Copynumber: 4.0 Consensus size: 80
25187386 TGTATATGAC
* * * * *
25187396 TTCAGGGGTACCGAAATACAAACAAGGGCATGTATGTAG-ATTCAGGGGTACCGAAGTGCAAACA
1 TTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGT-GCATTCAGGGGTACCAAAGTACAAATA
*
25187460 AGGGCACGTATGTGCA
65 GGGGCACGTATGTGCA
* * *
25187476 TTCAGGGGTACCGAAGTATAAA-AAGAGGCACGTATGTGCATTCAGGGTTACTAAAGTACAAATA
1 TTCAGGGGTACCGAAGTACAAACAAG-GGCACGTATGTGCATTCAGGGGTACCAAAGTACAAATA
25187540 GGGGCACGTATGTGCA
65 GGGGCACGTATGTGCA
* * * * *
25187556 TTCAAGGGTATCGAAGTACAAA-AAGGGGCATGTATGAGAATTCAGGGGTACCAAAGTACAAATA
1 TTCAGGGGTACCGAAGTACAAACAA-GGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAATA
*
25187620 GGGGCACATATGTGCA
65 GGGGCACGTATGTGCA
* * * *
25187636 TT-AGGGGTACCAAAGTATAAACAAGGGCACGTATGTGCATTCAGGGGTAGCGAAGTACAAATAG
1 TTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAATAG
* *
25187700 GGGCTCGCATGTGCA
66 GGGCACGTATGTGCA
25187715 TT
1 TT
25187717 AATATAATAA
Statistics
Matches: 207, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
79 68 0.33
80 138 0.67
81 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.21
Consensus pattern (80 bp):
TTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAATAG
GGGCACGTATGTGCA
Found at i:25187613 original size:120 final size:119
Alignment explanation
Indices: 25187399--25187703 Score: 382
Period size: 120 Copynumber: 2.6 Consensus size: 119
25187389 ATATGACTTC
* *
25187399 AGGGGTACCGAAA-TACAAACAAGGGCATGTATGTAG-ATTCAGGGGTACCGAAGTGCAAACAA-
1 AGGGGTACC-AAAGTACAAACAAGGGCACGTATGT-GCATTCAGGGGTACCGAAGTACAAA-AAG
* * * * *
25187461 GGGCACGTATGTGCATTCAGGGGTACCGAAGTATAAAAAGAGGCACGTATGTGCATT
63 GGGCACGTATGAGAATTCAGGGGTACCAAAGTACAAAAAGAGGCACATATGTGCATT
* * * * * *
25187518 CAGGGTTACTAAAGTACAAATAGGGGCACGTATGTGCATTCAAGGGTATCGAAGTACAAAAAGGG
1 -AGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAAAGGG
* * *
25187583 GCATGTATGAGAATTCAGGGGTACCAAAGTACAAATAGGGGCACATATGTGCATT
65 GCACGTATGAGAATTCAGGGGTACCAAAGTACAAAAAGAGGCACATATGTGCATT
* * *
25187638 AGGGGTACCAAAGTATAAACAAGGGCACGTATGTGCATTCAGGGGTAGCGAAGTACAAATAGGGG
1 AGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAAAGGGG
25187703 C
66 C
25187704 TCGCATGTGC
Statistics
Matches: 158, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
119 64 0.41
120 94 0.59
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (119 bp):
AGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAAAGGGG
CACGTATGAGAATTCAGGGGTACCAAAGTACAAAAAGAGGCACATATGTGCATT
Found at i:25189749 original size:50 final size:50
Alignment explanation
Indices: 25189679--25189778 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
25189669 GATCTGATAA
*
25189679 ATCTGAAGTAAACTCGGTTTGGTTATTCTTATGATGAAATTGAATAAGTC
1 ATCTAAAGTAAACTCGGTTTGGTTATTCTTATGATGAAATTGAATAAGTC
* *
25189729 ATCTAAAGTGAACTTGGTTTGGTTATTCTTATGATGAAATTGAATAAGTC
1 ATCTAAAGTAAACTCGGTTTGGTTATTCTTATGATGAAATTGAATAAGTC
25189779 TTAAGGGACG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (50 bp):
ATCTAAAGTAAACTCGGTTTGGTTATTCTTATGATGAAATTGAATAAGTC
Found at i:25189854 original size:62 final size:62
Alignment explanation
Indices: 25189752--25189882 Score: 235
Period size: 62 Copynumber: 2.1 Consensus size: 62
25189742 TTGGTTTGGT
*
25189752 TATTCTTATGATGAAATTGAATAAGTCTTAAGGGACGGTTCTTAAAAGATAGTATGTATATG
1 TATTCTTATGATGAAATTGAATAAGTCTTAAGGGACGGTTCTTAAAAGAAAGTATGTATATG
*
25189814 TATTCTTATGATGAAATTGAATAAGTCTTAAGGGATGGTTCTTAAAAGAAAGTATGTATATG
1 TATTCTTATGATGAAATTGAATAAGTCTTAAGGGACGGTTCTTAAAAGAAAGTATGTATATG
25189876 TAATTCT
1 T-ATTCT
25189883 AAAGAGGTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
62 61 0.92
63 5 0.08
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (62 bp):
TATTCTTATGATGAAATTGAATAAGTCTTAAGGGACGGTTCTTAAAAGAAAGTATGTATATG
Found at i:25200170 original size:26 final size:27
Alignment explanation
Indices: 25200141--25200191 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
25200131 AGCAATCAAA
25200141 AAATGGGA-AAGGGAAAATAAGAGAGC
1 AAATGGGAGAAGGGAAAATAAGAGAGC
* *
25200167 AAATGGGAGAAGTGAAAATGAGAGA
1 AAATGGGAGAAGGGAAAATAAGAGA
25200192 AATGGATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.53, C:0.02, G:0.35, T:0.10
Consensus pattern (27 bp):
AAATGGGAGAAGGGAAAATAAGAGAGC
Found at i:25201030 original size:73 final size:73
Alignment explanation
Indices: 25200921--25201073 Score: 297
Period size: 73 Copynumber: 2.1 Consensus size: 73
25200911 AAAGTCTATA
25200921 AATTTTTTAGTTTCCACACCCCTAAACTTAATTCATTTCTCATCTCAAGTAAAGCTAACTTACAA
1 AATTTTTTAGTTTCCACACCCCTAAACTTAATTCATTTCTCATCTCAAGTAAAGCTAACTTACAA
25200986 AAGAATTT
66 AAGAATTT
*
25200994 AATTTTTTAGTTTCCACACCCCTAAACTTAATTCATTTCTCATCTCAAGTAATGCTAACTTACAA
1 AATTTTTTAGTTTCCACACCCCTAAACTTAATTCATTTCTCATCTCAAGTAAAGCTAACTTACAA
25201059 AAGAATTT
66 AAGAATTT
25201067 AATTTTT
1 AATTTTT
25201074 AAGAGATTCC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 79 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (73 bp):
AATTTTTTAGTTTCCACACCCCTAAACTTAATTCATTTCTCATCTCAAGTAAAGCTAACTTACAA
AAGAATTT
Found at i:25203028 original size:11 final size:11
Alignment explanation
Indices: 25203012--25203036 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25203002 GAATTCCCCC
25203012 TTCCTTTTCTT
1 TTCCTTTTCTT
25203023 TTCCTTTTCTT
1 TTCCTTTTCTT
25203034 TTC
1 TTC
25203037 TCTACTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TTCCTTTTCTT
Found at i:25203840 original size:27 final size:27
Alignment explanation
Indices: 25203767--25203840 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
25203757 AAATGGCCAC
* *
25203767 TAAAATTACTCAAATACCCTCGAAGGG
1 TAAAACTACTGAAATACCCTCGAAGGG
25203794 TAAAACTA-TCGAAATACCCTCGAAGGG
1 TAAAACTACT-GAAATACCCTCGAAGGG
25203821 TAAAA-TACTGAAATAGCCCT
1 TAAAACTACTGAAATA-CCCT
25203841 ATAGGGTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 9 0.21
27 33 0.79
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.22
Consensus pattern (27 bp):
TAAAACTACTGAAATACCCTCGAAGGG
Found at i:25204278 original size:28 final size:30
Alignment explanation
Indices: 25204247--25204360 Score: 121
Period size: 30 Copynumber: 3.9 Consensus size: 30
25204237 TACTATTTTT
25204247 GGCTAAGGCCCACA-T-TGATACTGTATTG
1 GGCTAAGGCCCACACTCTGATACTGTATTG
* *
25204275 GGCTAAGGCCCACACTCTGTTACAGTATTG
1 GGCTAAGGCCCACACTCTGATACTGTATTG
* **
25204305 GGCTATGGCCCACACTCT-ACTACTGTATAA
1 GGCTAAGGCCCACACTCTGA-TACTGTATTG
* *
25204335 GGCTCAGGCCCAGA--CTGATACTGTAT
1 GGCTAAGGCCCACACTCTGATACTGTAT
25204361 GTTGTATGCC
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 24 0.33
29 2 0.03
30 46 0.64
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (30 bp):
GGCTAAGGCCCACACTCTGATACTGTATTG
Found at i:25205208 original size:42 final size:42
Alignment explanation
Indices: 25205161--25205252 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
25205151 AACTGCTTTT
*
25205161 CATAAAACATCTGTTAATAATTACTGGAATTATAAATTGATA
1 CATAAAACATCTGTTAATAATTACTGGAATTATAAACTGATA
* *
25205203 CATAAAAAATCTGTTAATAATTACTGGAATTATAAGCTGATA
1 CATAAAACATCTGTTAATAATTACTGGAATTATAAACTGATA
25205245 CATAAAAC
1 CATAAAAC
25205253 TTCTTAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (42 bp):
CATAAAACATCTGTTAATAATTACTGGAATTATAAACTGATA
Found at i:25211334 original size:27 final size:27
Alignment explanation
Indices: 25211268--25211366 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
25211258 AATGGGCCTC
** *
25211268 TAAAATTATTGAAATACCCTCG-ATGG
1 TAAAATTACCGAAATACCCTCGAAGGG
*
25211294 TAAAATTACTGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
25211321 TAAGATTACCGAAATATCCTCGAAGTG
1 TAAAATTACCGAAATACCCTCGAAGGG
*
25211348 TAAAACTACCGAAATACCC
1 TAAAATTACCGAAATACCC
25211367 CTATGGGGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
26 21 0.33
27 42 0.67
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.24
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGAAGGG
Found at i:25211855 original size:30 final size:28
Alignment explanation
Indices: 25211798--25211911 Score: 120
Period size: 30 Copynumber: 3.9 Consensus size: 28
25211788 GATTACTATT
25211798 TTGGGCTAAGGCCCACACTGATACTGTA
1 TTGGGCTAAGGCCCACACTGATACTGTA
* *
25211826 TTGGGTTAAGGCCCACACTCTGTTACTGTA
1 TTGGGCTAAGGCCCACA--CTGATACTGTA
* * *
25211856 TTGGGCTATGGCCCACTCGTTGCTACTGTA
1 TTGGGCTAAGGCCCACAC--TGATACTGTA
* * *
25211886 TAGGGCTCAGGCCCAGACTGATACTG
1 TTGGGCTAAGGCCCACACTGATACTG
25211912 CATGTTGTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 24 0.34
30 46 0.66
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.28
Consensus pattern (28 bp):
TTGGGCTAAGGCCCACACTGATACTGTA
Found at i:25220414 original size:18 final size:18
Alignment explanation
Indices: 25220387--25220581 Score: 147
Period size: 18 Copynumber: 10.8 Consensus size: 18
25220377 ATTTCATGTG
*
25220387 AACCTATGTTCTTATGCA
1 AACCTATGTTATTATGCA
* * *
25220405 AACTTATGTTATTATACG
1 AACCTATGTTATTATGCA
* **
25220423 AACCTATGATATTATGTG
1 AACCTATGTTATTATGCA
*
25220441 AACCTATGTTGTTATGCA
1 AACCTATGTTATTATGCA
* **
25220459 AACCTATGTTATCATGTG
1 AACCTATGTTATTATGCA
* * ** * *
25220477 AGCTTATGTTATCGTACG
1 AACCTATGTTATTATGCA
**
25220495 AACCTATGTTATTATGGG
1 AACCTATGTTATTATGCA
* **
25220513 AACCTATGTTGTTATGTG
1 AACCTATGTTATTATGCA
* *
25220531 AACCTATGTTATCATACA
1 AACCTATGTTATTATGCA
**
25220549 AACCTATGTTATTATGTG
1 AACCTATGTTATTATGCA
*
25220567 AACATATGTTATTAT
1 AACCTATGTTATTAT
25220582 AAGTGTCTTA
Statistics
Matches: 138, Mismatches: 39, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 138 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (18 bp):
AACCTATGTTATTATGCA
Found at i:25220426 original size:36 final size:36
Alignment explanation
Indices: 25220386--25220581 Score: 185
Period size: 36 Copynumber: 5.4 Consensus size: 36
25220376 TATTTCATGT
* * * *
25220386 GAACCTATGTTCTTATGCAAACTTATGTTATTATAC
1 GAACCTATGTTATTATGCGAACCTATGTTATTATGC
* * *
25220422 GAACCTATGATATTATGTGAACCTATGTTGTTATGC
1 GAACCTATGTTATTATGCGAACCTATGTTATTATGC
* * * * * ** *
25220458 AAACCTATGTTATCATGTGAGCTTATGTTATCGTAC
1 GAACCTATGTTATTATGCGAACCTATGTTATTATGC
* * *
25220494 GAACCTATGTTATTATGGGAACCTATGTTGTTATGT
1 GAACCTATGTTATTATGCGAACCTATGTTATTATGC
* * * *
25220530 GAACCTATGTTATCATACAAACCTATGTTATTATGT
1 GAACCTATGTTATTATGCGAACCTATGTTATTATGC
*
25220566 GAACATATGTTATTAT
1 GAACCTATGTTATTAT
25220582 AAGTGTCTTA
Statistics
Matches: 127, Mismatches: 33, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 127 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (36 bp):
GAACCTATGTTATTATGCGAACCTATGTTATTATGC
Found at i:25220498 original size:54 final size:54
Alignment explanation
Indices: 25220386--25220581 Score: 212
Period size: 54 Copynumber: 3.6 Consensus size: 54
25220376 TATTTCATGT
* * ** * * **
25220386 GAACCTATGTTCTTATGCAAACTTATGTTATTATACGAACCTATGATATTATGT
1 GAACCTATGTTATTATGCAAACCTATGTTATTATGTGAACCTATGTTATCATAC
* * * * *
25220440 GAACCTATGTTGTTATGCAAACCTATGTTATCATGTGAGCTTATGTTATCGTAC
1 GAACCTATGTTATTATGCAAACCTATGTTATTATGTGAACCTATGTTATCATAC
** *
25220494 GAACCTATGTTATTATGGGAACCTATGTTGTTATGTGAACCTATGTTATCATAC
1 GAACCTATGTTATTATGCAAACCTATGTTATTATGTGAACCTATGTTATCATAC
* ** *
25220548 AAACCTATGTTATTATGTGAACATATGTTATTAT
1 GAACCTATGTTATTATGCAAACCTATGTTATTAT
25220582 AAGTGTCTTA
Statistics
Matches: 118, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (54 bp):
GAACCTATGTTATTATGCAAACCTATGTTATTATGTGAACCTATGTTATCATAC
Found at i:25224623 original size:25 final size:24
Alignment explanation
Indices: 25224579--25224631 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
25224569 CCTTGTAGAA
*
25224579 AAATGTCAAGTCAAAATCCAAAAT
1 AAATGTCAAATCAAAATCCAAAAT
* *
25224603 AAATGTCCAAATCAAAGTCCATAAT
1 AAATGT-CAAATCAAAATCCAAAAT
25224628 AAAT
1 AAAT
25224632 AAACACAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.23
Consensus pattern (24 bp):
AAATGTCAAATCAAAATCCAAAAT
Found at i:25229356 original size:44 final size:43
Alignment explanation
Indices: 25229306--25229779 Score: 319
Period size: 44 Copynumber: 10.9 Consensus size: 43
25229296 GATCCAAGGT
* *
25229306 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGC
*
25229350 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
* * * * *
25229392 ATCTTCAGTCTAC-CTCACTGCAACTTCA-GGAGGATAA-A-AATAGA
1 -T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC
* * * * * * *
25229436 TGTGATCTGATCTC-C-GCAACTTCAGAGAAATAAGATCTAAGGT
1 TTTAATCTGCTC-CACTGCAACTTCAGGGAGATAAGAT-TATGGC
* *
25229479 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-TGGC
* *
25229523 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT-TGCC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
* *
25229565 ATCTTCAATCTAC-CTCACTGCAACTTCA-GGAGGATAAGAATA-GATGC
1 -T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATG--GC
* * * *
25229612 TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGGTAAGACTA--GA
1 -T--TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
** * * * * *
25229656 TGCAATCTTCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGC
* * * * *
25229699 TTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTATCAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGC
*
25229743 TTTAATCTGCTCCACTACAACTTCAGGGAGATAAGAT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
25229780 CTGCCATCTT
Statistics
Matches: 333, Mismatches: 67, Indels: 60
0.72 0.15 0.13
Matches are distributed among these distances:
40 34 0.10
41 15 0.05
42 10 0.03
43 28 0.08
44 161 0.48
45 50 0.15
47 28 0.08
48 7 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC
Found at i:25229502 original size:84 final size:84
Alignment explanation
Indices: 25229230--25229511 Score: 248
Period size: 84 Copynumber: 3.3 Consensus size: 84
25229220 CTATTAGTCT
* * * * * *
25229230 GCTCCACTGCAACTTCAGGGAAATAAGAATAGATGCGATTTGCTCTCCGTAACTTTAGAGAAATA
1 GCTCCACTGCAACTTCAGGGAGATAAAAATAGATGTGATCTGCTCTCCGCAACTTCAGAGAAATA
*
25229295 AGATCCAAGGTTTTAATCC
66 AGATCTAAGGTTTTAATCC
** * * * * *
25229314 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTC-CACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATA--AAAAT-AGATGTGATCTGCTCTC-C-GCAACTTCAGAG
* * **** * *
25229378 AGATAAGATTTGCCATCTTCAGTCTAC
61 AAATAAGATCTAAGGT-TTTAATC--C
*
25229405 -CT-CACTGCAACTTCA-GGAGGATAAAAATAGATGTGATCTGATCTCCGCAACTTCAGAGAAAT
1 GCTCCACTGCAACTTCAGGGA-GATAAAAATAGATGTGATCTGCTCTCCGCAACTTCAGAGAAAT
25229467 AAGATCTAAGGTTTTAATCC
65 AAGATCTAAGGTTTTAATCC
25229487 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
25229512 GGATTATTGG
Statistics
Matches: 148, Mismatches: 37, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
82 1 0.01
83 2 0.01
84 46 0.31
85 24 0.16
86 15 0.10
87 14 0.09
88 21 0.14
89 22 0.15
90 2 0.01
91 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGGGAGATAAAAATAGATGTGATCTGCTCTCCGCAACTTCAGAGAAATA
AGATCTAAGGTTTTAATCC
Found at i:25229526 original size:173 final size:173
Alignment explanation
Indices: 25229234--25229611 Score: 641
Period size: 173 Copynumber: 2.2 Consensus size: 173
25229224 TAGTCTGCTC
* * * * *
25229234 CACTGCAACTTCAGG-GAAATAAGAATAGATGCGATTTGCTCTCCGTAACTTTAGAGAAATAAGA
1 CACTGCAACTTCAGGAG-GATAAGAATAGATGCGATCTGATCTCCGCAACTTCAGAGAAATAAGA
25229298 TCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCC
65 TCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCC
*
25229363 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCT
130 ACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTACCT
* *
25229407 CACTGCAACTTCAGGAGGATAAAAATAGATGTGATCTGATCTCCGCAACTTCAGAGAAATAAGAT
1 CACTGCAACTTCAGGAGGATAAGAATAGATGCGATCTGATCTCCGCAACTTCAGAGAAATAAGAT
* *
25229472 CTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCA
66 CCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
*
25229537 CTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTACCT
131 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTACCT
25229580 CACTGCAACTTCAGGAGGATAAGAATAGATGC
1 CACTGCAACTTCAGGAGGATAAGAATAGATGC
25229612 TTACTTAGTC
Statistics
Matches: 191, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
173 190 0.99
174 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (173 bp):
CACTGCAACTTCAGGAGGATAAGAATAGATGCGATCTGATCTCCGCAACTTCAGAGAAATAAGAT
CCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTACCT
Found at i:25229691 original size:220 final size:220
Alignment explanation
Indices: 25229407--25229819 Score: 666
Period size: 220 Copynumber: 1.9 Consensus size: 220
25229397 CAGTCTACCT
**
25229407 CACTGCAACTTCAGGAGGATAAAAATAGATGTGATCTGATCTCCGCAACTTCAGAGAAATAAGAT
1 CACTGCAACTTCAGGAGGATAAAAATAGATGCAATCTGATCTCCGCAACTTCAGAGAAATAAGAT
* * **
25229472 CTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCA
66 CTAAGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTATCAGCTTTAATCTGCTCCA
** *
25229537 CTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTACCTCACTGCAACTTCAGGAGGATAA
131 CTACAACTTCAGGGAGATAAGATCTGCCATCTTCAATCTACCTCACTGCAACTTCAGGAGGATAA
25229602 GAATAGATGCTTACTTAGTCTGCTC
196 GAATAGATGCTTACTTAGTCTGCTC
* * ** * *
25229627 CACTGCAACTTCAGGGAGG-TAAGACTAGATGCAATCTTCTCTCTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCA-GGAGGATAAAAATAGATGCAATCTGATCTCCGCAACTTCAGAGAAATAAGA
25229691 TCTAAGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTATCAGCTTTAATCTGCTCC
65 TCTAAGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTATCAGCTTTAATCTGCTCC
*
25229756 ACTACAACTTCAGGGAGATAAGATCTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGAT
130 ACTACAACTTCAGGGAGATAAGATCTGCCATCTTCAATCTACCTCACTGCAACTTCAGGAGGAT
25229820 CAACTTCAGA
Statistics
Matches: 176, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
220 171 0.97
221 5 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (220 bp):
CACTGCAACTTCAGGAGGATAAAAATAGATGCAATCTGATCTCCGCAACTTCAGAGAAATAAGAT
CTAAGGTTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATTATCAGCTTTAATCTGCTCCA
CTACAACTTCAGGGAGATAAGATCTGCCATCTTCAATCTACCTCACTGCAACTTCAGGAGGATAA
GAATAGATGCTTACTTAGTCTGCTC
Found at i:25229825 original size:15 final size:15
Alignment explanation
Indices: 25229805--25229834 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25229795 TACCTCACTG
*
25229805 CAACTTCAGGAGGAT
1 CAACTTCAGAAGGAT
25229820 CAACTTCAGAAGGAT
1 CAACTTCAGAAGGAT
25229835 AAGACCCGAT
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:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (15 bp):
CAACTTCAGAAGGAT
Found at i:25240649 original size:14 final size:14
Alignment explanation
Indices: 25240630--25240657 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25240620 TTATTTATCC
25240630 ATTCCTTCAAAAAA
1 ATTCCTTCAAAAAA
25240644 ATTCCTTCAAAAAA
1 ATTCCTTCAAAAAA
25240658 GCTCTCAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (14 bp):
ATTCCTTCAAAAAA
Found at i:25243111 original size:63 final size:63
Alignment explanation
Indices: 25243012--25243139 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
25243002 TTAAAATTTA
25243012 ACTAAAATGCTTATGTTCAAGCTCCTAAAGTGCAAAAACTAGTTTAATCTACTACACCGAATT
1 ACTAAAATGCTTATGTTCAAGCTCCTAAAGTGCAAAAACTAGTTTAATCTACTACACCGAATT
25243075 ACTAAAATGCTTATGTTCAAGCTCCTAAAGTGCAAAAACTAGTTTAATCTACTACACCGAATT
1 ACTAAAATGCTTATGTTCAAGCTCCTAAAGTGCAAAAACTAGTTTAATCTACTACACCGAATT
25243138 AC
1 AC
25243140 GACAGATCAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (63 bp):
ACTAAAATGCTTATGTTCAAGCTCCTAAAGTGCAAAAACTAGTTTAATCTACTACACCGAATT
Found at i:25245904 original size:17 final size:17
Alignment explanation
Indices: 25245882--25245923 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
25245872 AACAAAATGA
*
25245882 GATTTTGGGGTTTTA-AG
1 GATTTTGGAG-TTTAGAG
25245899 GATTTTAGGAGTTTAGAG
1 GATTTT-GGAGTTTAGAG
25245917 GATTTTG
1 GATTTTG
25245924 AAAGAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (17 bp):
GATTTTGGAGTTTAGAG
Found at i:25246980 original size:13 final size:13
Alignment explanation
Indices: 25246946--25246980 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
25246936 TAAGGCACAC
25246946 GGCTGTGTGAGTA
1 GGCTGTGTGAGTA
**
25246959 GGCCATGTGAGTA
1 GGCTGTGTGAGTA
25246972 GGCTGTGTG
1 GGCTGTGTG
25246981 TGGCACACGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.46, T:0.29
Consensus pattern (13 bp):
GGCTGTGTGAGTA
Found at i:25247749 original size:20 final size:20
Alignment explanation
Indices: 25247724--25247803 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
25247714 GATGTATAAC
*
25247724 AGAGGCATCGAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAT
* *
25247744 AGAGGCA-CGAA-TGTACGAT
1 AGAGGCACCGAAGTGCA-AAT
* *
25247763 CAAAGGCACCGAAGTGCAAAA
1 -AGAGGCACCGAAGTGCAAAT
*
25247784 AGAGGCACCGAAGTGTAAAT
1 AGAGGCACCGAAGTGCAAAT
25247804 TCAGTGCAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
18 3 0.06
19 6 0.13
20 30 0.64
21 5 0.11
22 3 0.06
ACGTcount: A:0.41, C:0.17, G:0.29, T:0.12
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAT
Found at i:25250300 original size:230 final size:230
Alignment explanation
Indices: 25249887--25250347 Score: 814
Period size: 230 Copynumber: 2.0 Consensus size: 230
25249877 ATAAGAACAC
*
25249887 TACAAGAAGAGCTCATGTTAACTTGTTCTCCTACCTTAATTTTCCTACGCCTAGACATGATTTCC
1 TACAAGAAGAGCTCATGTTAACTTCTTCTCCTACCTTAATTTTCCTACGCCTAGACATGATTTCC
25249952 TTTAAAATTTTGGCATACTTAGGAACTTTTTCAATCAAATACAGGTTGACATCTAATGTTTTGAA
66 TTTAAAATTTTGGCATACTTAGGAACTTTTTCAATCAAATACAGGTTGACATCTAATGTTTTGAA
* *
25250017 CAAGTTTAAAAAACTTACAACCTCGTTTCCATCCCACTTTTATTTCTCTTCTAGCCTTGAAGGTT
131 CAAGTTTAAAAAACTTACAACCTCATTTCCATCCCACTTTTATTTCTCTTCTAGCCTTGAAGGGT
* *
25250082 ACGGTATCTTTGCAACGGCAAAATCTTTAATTGTT
196 ACGATATCTTTGCAACAGCAAAATCTTTAATTGTT
* * *
25250117 TACAATAAGTGCTCATGTTAACTTCTTCTCCTACCTTAATTTTCCTATGCCTAGACATGATTTCC
1 TACAAGAAGAGCTCATGTTAACTTCTTCTCCTACCTTAATTTTCCTACGCCTAGACATGATTTCC
* *
25250182 TTTAAAATTTTGGCATACTTAGGAACTTTTTCAATCAAATGCAGGTTGACATCTAATTTTTTGAA
66 TTTAAAATTTTGGCATACTTAGGAACTTTTTCAATCAAATACAGGTTGACATCTAATGTTTTGAA
25250247 CAAGTTTAAAAAACTTACAACCTCATTTCCATCCCACTTTTATTTCTCTTCTAGCCTTGAAGGGT
131 CAAGTTTAAAAAACTTACAACCTCATTTCCATCCCACTTTTATTTCTCTTCTAGCCTTGAAGGGT
* *
25250312 ATGATATCTTTGCAACAGCAGAATCTTTAATTGTT
196 ACGATATCTTTGCAACAGCAAAATCTTTAATTGTT
25250347 T
1 T
25250348 CTATCTCTAG
Statistics
Matches: 219, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
230 219 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.39
Consensus pattern (230 bp):
TACAAGAAGAGCTCATGTTAACTTCTTCTCCTACCTTAATTTTCCTACGCCTAGACATGATTTCC
TTTAAAATTTTGGCATACTTAGGAACTTTTTCAATCAAATACAGGTTGACATCTAATGTTTTGAA
CAAGTTTAAAAAACTTACAACCTCATTTCCATCCCACTTTTATTTCTCTTCTAGCCTTGAAGGGT
ACGATATCTTTGCAACAGCAAAATCTTTAATTGTT
Found at i:25250533 original size:24 final size:24
Alignment explanation
Indices: 25250501--25250546 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
25250491 GGTCAAGCGC
*
25250501 TATTGCTTCCACATGCTCCTTCGT
1 TATTGCTTCAACATGCTCCTTCGT
25250525 TATTGCTTCAACATGCTCCTTC
1 TATTGCTTCAACATGCTCCTTC
25250547 CCTTCTCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.11, T:0.41
Consensus pattern (24 bp):
TATTGCTTCAACATGCTCCTTCGT
Found at i:25260710 original size:46 final size:45
Alignment explanation
Indices: 25260643--25261179 Score: 655
Period size: 46 Copynumber: 12.6 Consensus size: 45
25260633 TTTGAGTACT
* *
25260643 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
25260689 TCTGATCAAGTGACAAAGTGATAA---GTA-C-T-G---CACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
25260725 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
25260771 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
25260807 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
25260853 TCTGATCAAGTGACAAAGTGATAA---GTA-C-T-G---CACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
25260889 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
25260935 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
25260971 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
25261017 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGTTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
25261063 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
25261109 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
25261155 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
25261180 ATCATACGTA
Statistics
Matches: 436, Mismatches: 15, Indels: 82
0.82 0.03 0.15
Matches are distributed among these distances:
36 119 0.27
37 4 0.01
39 8 0.02
40 8 0.02
42 8 0.02
43 8 0.02
44 12 0.03
45 9 0.02
46 260 0.60
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:25260780 original size:82 final size:82
Alignment explanation
Indices: 25260643--25261134 Score: 795
Period size: 82 Copynumber: 5.9 Consensus size: 82
25260633 TTTGAGTACT
*
25260643 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
25260708 GATAAGTACTGCACTTA
66 GATAAGTACTGCACTTA
*
25260725 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
25260790 GATAAGTGCTACACTTA
66 GATAAGTACTGCACTTA
25260807 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
25260872 GATAAGTACTGCACTTA
66 GATAAGTACTGCACTTA
*
25260889 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
25260954 GATAAGTGCTACACTTA
66 GATAAGTACTGCACTTA
* *
25260971 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
25261036 GATAAGTGGTAGCCTTAGTTACACTTA
66 GATAA---GTA--C-T-G---CACTTA
* *
25261063 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
25261128 GATAAGT
66 GATAAGT
25261135 GGTAGCCTTA
Statistics
Matches: 385, Mismatches: 15, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
82 303 0.79
85 2 0.01
87 1 0.00
88 1 0.00
89 2 0.01
92 76 0.20
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTACTGCACTTA
Found at i:25263757 original size:27 final size:27
Alignment explanation
Indices: 25263727--25263779 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
25263717 TAGTGAAGAC
* *
25263727 GGGGTAGTCCACTGGGACATTAAACAT
1 GGGGTAGCCCACTAGGACATTAAACAT
25263754 GGGGTAGCCCACTAGGACATTAAACA
1 GGGGTAGCCCACTAGGACATTAAACA
25263780 CGGGTGGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (27 bp):
GGGGTAGCCCACTAGGACATTAAACAT
Found at i:25267720 original size:42 final size:41
Alignment explanation
Indices: 25267654--25267739 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 41
25267644 CCAAATTTTA
*
25267654 ATATTTTATATTATTTTTTATTATATATATTTGAATTATTT
1 ATATTTTATATTATTTTTTATTATATAAATTTGAATTATTT
25267695 ATATGTTTATAATT-TTTATTT-TTATATAAATTTGAATTATTT
1 ATAT-TTTAT-ATTATTT-TTTATTATATAAATTTGAATTATTT
25267737 ATA
1 ATA
25267740 AAATTATACT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
41 4 0.10
42 31 0.76
43 6 0.15
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (41 bp):
ATATTTTATATTATTTTTTATTATATAAATTTGAATTATTT
Found at i:25267747 original size:42 final size:43
Alignment explanation
Indices: 25267659--25267756 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
25267649 TTTTAATATT
* * * ***
25267659 TTATATTATTTT-TTATTATATATATTTGAATTATTTATATGT
1 TTATAATATTTTATTTTTATATAAATTTGAATTATTTATAAAA
25267701 TTATAAT-TTTTATTTTTATATAAATTTGAATTATTTATAAAA
1 TTATAATATTTTATTTTTATATAAATTTGAATTATTTATAAAA
*
25267743 TTATACTATTTTAT
1 TTATAATATTTTAT
25267757 AATATATTAC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 4 0.09
42 37 0.79
43 6 0.13
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (43 bp):
TTATAATATTTTATTTTTATATAAATTTGAATTATTTATAAAA
Found at i:25268511 original size:15 final size:15
Alignment explanation
Indices: 25268480--25268508 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25268470 CATTTATGTA
25268480 ATTTTATTAATTTTT
1 ATTTTATTAATTTTT
25268495 ATTTTA-TAATTTTT
1 ATTTTATTAATTTTT
25268509 TATAACAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTATTAATTTTT
Found at i:25270484 original size:25 final size:25
Alignment explanation
Indices: 25270451--25270505 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
25270441 ATGCATTAAT
* *
25270451 TTTTTTAATATTTTTGTACAAATTA
1 TTTTTTAATATATTTATACAAATTA
25270476 TTTTTTAATATATTTATACAAATTA
1 TTTTTTAATATATTTATACAAATTA
*
25270501 CTTTT
1 TTTTT
25270506 CTCAGTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTTTAATATATTTATACAAATTA
Found at i:25273963 original size:2 final size:2
Alignment explanation
Indices: 25273956--25273988 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25273946 TCTTCTTCTT
25273956 TA TA 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 TA TA T
25273989 TTAAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25278701 original size:16 final size:16
Alignment explanation
Indices: 25278674--25278728 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
25278664 GTTTAATTCA
* *
25278674 CTGTGATGGAATAGGG
1 CTGTAATGGAATAGAG
*
25278690 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
25278706 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
25278722 CTGTAAT
1 CTGTAAT
25278729 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:25278932 original size:26 final size:25
Alignment explanation
Indices: 25278883--25278933 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
25278873 ATGATTATTG
*
25278883 TTATTGTTATTAAATTTTAATAAAA
1 TTATTGTTAATAAATTTTAATAAAA
* *
25278908 TTATTGTTAAATATATTTTATTAAAA
1 TTATTGTT-AATAAATTTTAATAAAA
25278934 ATAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
TTATTGTTAATAAATTTTAATAAAA
Found at i:25279056 original size:58 final size:56
Alignment explanation
Indices: 25278927--25279063 Score: 143
Period size: 58 Copynumber: 2.4 Consensus size: 56
25278917 AATATATTTT
* * * *
25278927 ATTAAAAATAATAATAAATAGTTTAATAATATTTTAACATAACTGTTATTAAATACA
1 ATTAAAAAT-ATAATATATAATTTAATAACATTTTAACATAACTATTATTAAATACA
* * *
25278984 ATTTAATAAA-ATAATATATAATTTAATAACATTCTTAATATAATTATTATTAAAT-GA
1 A-TTAA-AAATATAATATATAATTTAATAACATT-TTAACATAACTATTATTAAATACA
25279041 ATTAAAAATTCATAATATATAAT
1 ATTAAAAA-T-ATAATATATAAT
25279064 ATTATAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
55 3 0.04
56 4 0.06
57 23 0.34
58 34 0.51
59 3 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (56 bp):
ATTAAAAATATAATATATAATTTAATAACATTTTAACATAACTATTATTAAATACA
Found at i:25281955 original size:27 final size:27
Alignment explanation
Indices: 25281925--25281979 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
25281915 AATCCTTGGT
25281925 CTATAAGTATGTAGGCTATGGATGGCA
1 CTATAAGTATGTAGGCTATGGATGGCA
25281952 CTATAAGTATGTAGGCTATGGATGGCA
1 CTATAAGTATGTAGGCTATGGATGGCA
25281979 C
1 C
25281980 ACAACGTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (27 bp):
CTATAAGTATGTAGGCTATGGATGGCA
Found at i:25283172 original size:17 final size:17
Alignment explanation
Indices: 25283133--25283169 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
25283123 TTTGTCTAAA
25283133 TTTTATAATAAAATTAT
1 TTTTATAATAAAATTAT
*
25283150 ATTTATAA-AAAATTAT
1 TTTTATAATAAAATTAT
25283166 TTTT
1 TTTT
25283170 TATTGTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTATAATAAAATTAT
Found at i:25283196 original size:24 final size:22
Alignment explanation
Indices: 25283139--25283196 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 22
25283129 TAAATTTTAT
25283139 AATAAAATTA-TATTTATAAAA
1 AATAAAATTATTATTTATAAAA
* * *
25283160 AAT-TATTTTTTATTGTATATAAA
1 AATAAAATTATTATT-TATA-AAA
25283183 AATAAAATTATTAT
1 AATAAAATTATTAT
25283197 AAGTAATAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
20 3 0.11
21 7 0.26
22 4 0.15
23 6 0.22
24 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
AATAAAATTATTATTTATAAAA
Found at i:25283233 original size:14 final size:14
Alignment explanation
Indices: 25283214--25283241 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25283204 AGAAAAAGAG
25283214 TTATTATTATAAAA
1 TTATTATTATAAAA
25283228 TTATTATTATAAAA
1 TTATTATTATAAAA
25283242 GTTAAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTATTATTATAAAA
Found at i:25283506 original size:17 final size:17
Alignment explanation
Indices: 25283468--25283512 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
25283458 TCATATATCA
25283468 TTATAT-TTTTTTATAAT
1 TTATATATTTTTTAT-AT
25283485 TTATATATTTTTTAT-T
1 TTATATATTTTTTATAT
25283501 TCTATA-ATTTTT
1 T-TATATATTTTT
25283513 ATCTATTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.31
17 10 0.38
18 8 0.31
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATATTTTTTATAT
Found at i:25285331 original size:24 final size:24
Alignment explanation
Indices: 25285304--25285350 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25285294 ATTGAAATGG
25285304 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
25285328 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
25285351 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:25287432 original size:14 final size:14
Alignment explanation
Indices: 25287413--25287440 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25287403 TTGGGAATAG
25287413 GGGTAAAAAAATTC
1 GGGTAAAAAAATTC
25287427 GGGTAAAAAAATTC
1 GGGTAAAAAAATTC
25287441 AGATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
GGGTAAAAAAATTC
Found at i:25291356 original size:39 final size:39
Alignment explanation
Indices: 25291276--25291373 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 39
25291266 AAATCCTTGT
* *
25291276 TATAATTATTGTAATTATAA--TTTCAATCGAATATTAT
1 TATAATTATTGTAATTATAATTTTTCAATCGAACATTAA
* * *
25291313 TATAATTATTGTAATTGTAATTTTTCAGTCTAACATTAA
1 TATAATTATTGTAATTATAATTTTTCAATCGAACATTAA
*
25291352 TATAATTATGGTAATTATAATT
1 TATAATTATTGTAATTATAATT
25291374 ATTATATTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
37 19 0.37
39 33 0.63
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (39 bp):
TATAATTATTGTAATTATAATTTTTCAATCGAACATTAA
Found at i:25293197 original size:75 final size:75
Alignment explanation
Indices: 25293026--25293198 Score: 206
Period size: 75 Copynumber: 2.3 Consensus size: 75
25293016 ATGGATTTCT
**
25293026 GAAATGCCTTTGTGGTGAA-TCATCTAAAAAGCCTTTGTATAGAATACTCTGGAATGCCTTTGTG
1 GAAA-GCCTTTGTGGTGAATTC-TCTAAAAAGCCTTTGTATAGAATACTCTGGAACACCTTTGTG
25293090 GTGAATTCTATG
64 GTGAATTCTATG
* *** * * *
25293102 GAACGCCTTTGTGACAAATTCTCTGAAAGGCCTTTGTGGT-GAATACTCTGGAACACCTTTGTGG
1 GAAAGCCTTTGTGGTGAATTCTCTAAAAAGCCTTTGT-ATAGAATACTCTGGAACACCTTTGTGG
* *
25293166 TGAATTTTTTG
65 TGAATTCTATG
25293177 GAAAGCCTTTGTGGTGAATTCT
1 GAAAGCCTTTGTGGTGAATTCT
25293199 TTGGAAAACC
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
75 74 0.93
76 6 0.08
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (75 bp):
GAAAGCCTTTGTGGTGAATTCTCTAAAAAGCCTTTGTATAGAATACTCTGGAACACCTTTGTGGT
GAATTCTATG
Found at i:25293205 original size:25 final size:25
Alignment explanation
Indices: 25293026--25293210 Score: 162
Period size: 25 Copynumber: 7.4 Consensus size: 25
25293016 ATGGATTTCT
*
25293026 GAAATGCCTTTGTGGTGAA-TCATCTA
1 GAAA-GCCTTTGTGGTGAATTC-TCTG
* * *
25293052 AAAAGCCTTTGT-ATAGAATACTCTG
1 GAAAGCCTTTGTGGT-GAATTCTCTG
* *
25293077 GAATGCCTTTGTGGTGAATTCTATG
1 GAAAGCCTTTGTGGTGAATTCTCTG
* ***
25293102 GAACGCCTTTGTGACAAATTCTCT-
1 GAAAGCCTTTGTGGTGAATTCTCTG
*
25293126 GAAAGGCCTTTGTGGTGAATACTCTG
1 GAAA-GCCTTTGTGGTGAATTCTCTG
* *
25293152 GAACA-CCTTTGTGGTGAATTTTTTG
1 GAA-AGCCTTTGTGGTGAATTCTCTG
*
25293177 GAAAGCCTTTGTGGTGAATTCTTTG
1 GAAAGCCTTTGTGGTGAATTCTCTG
*
25293202 GAAAACCTT
1 GAAAGCCTT
25293211 CGCGGCAAAC
Statistics
Matches: 128, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
24 5 0.04
25 114 0.89
26 8 0.06
27 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (25 bp):
GAAAGCCTTTGTGGTGAATTCTCTG
Found at i:25311362 original size:99 final size:99
Alignment explanation
Indices: 25311191--25311388 Score: 378
Period size: 99 Copynumber: 2.0 Consensus size: 99
25311181 CACTTCATTG
* *
25311191 TTGAGTGTCAGATCTGCCAACAAATGAAGGATTCTTTCCTCCATCTAGTCGACCTATTACAACCA
1 TTGAGTGCCAGATCTGCCAACAAATGAAGGATTCTTTCCTCCATCTAGCCGACCTATTACAACCA
25311256 TTACCAATTTCGGAGTTGGTCTTTGAGGGTATTT
66 TTACCAATTTCGGAGTTGGTCTTTGAGGGTATTT
25311290 TTGAGTGCCAGATCTGCCAACAAATGAAGGATTCTTTCCTCCATCTAGCCGACCTATTACAACCA
1 TTGAGTGCCAGATCTGCCAACAAATGAAGGATTCTTTCCTCCATCTAGCCGACCTATTACAACCA
25311355 TTACCAATTTCGGAGTTGGTCTTTGAGGGTATTT
66 TTACCAATTTCGGAGTTGGTCTTTGAGGGTATTT
25311389 CAATAGATTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (99 bp):
TTGAGTGCCAGATCTGCCAACAAATGAAGGATTCTTTCCTCCATCTAGCCGACCTATTACAACCA
TTACCAATTTCGGAGTTGGTCTTTGAGGGTATTT
Found at i:25316516 original size:4 final size:4
Alignment explanation
Indices: 25316507--25316563 Score: 105
Period size: 4 Copynumber: 14.2 Consensus size: 4
25316497 AGTTAATCTA
*
25316507 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
25316555 ACAT ACAT A
1 ACAT ACAT A
25316564 TATAAATAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:25317433 original size:5 final size:5
Alignment explanation
Indices: 25317423--25317448 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25317413 TTCTCTCACT
25317423 TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA T
25317449 AGCATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:25324612 original size:40 final size:39
Alignment explanation
Indices: 25324521--25324649 Score: 150
Period size: 39 Copynumber: 3.3 Consensus size: 39
25324511 TATTATAGAT
* * * *
25324521 TATAACGAGATCTAGCATTTATTGCAGATTCTCGGGAAA
1 TATAATGAGATTTAGCCTTTATTGCAGATTCTCGGGTAA
*
25324560 TATAATGAGATTTAGCCTTTGTTGCAGATTCTCGGGGTAA
1 TATAATGAGATTTAGCCTTTATTGCAGATTCTC-GGGTAA
* * * * *
25324600 TATAATGAGATTTATCCTCTATTGTAGATTCTCAGATAA
1 TATAATGAGATTTAGCCTTTATTGCAGATTCTCGGGTAA
*
25324639 TATAATAAGAT
1 TATAATGAGAT
25324650 CCAACCTTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 43 0.56
40 34 0.44
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (39 bp):
TATAATGAGATTTAGCCTTTATTGCAGATTCTCGGGTAA
Found at i:25327058 original size:13 final size:13
Alignment explanation
Indices: 25327038--25327095 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
25327028 TTTAAATGTT
*
25327038 CATTTCATATATC
1 CATTTCATATAAC
*
25327051 CATGTCATATAAC
1 CATTTCATATAAC
* *
25327064 CATTTCGTAGAAC
1 CATTTCATATAAC
*
25327077 CATTTCATATATC
1 CATTTCATATAAC
25327090 CATTTC
1 CATTTC
25327096 CACCCGATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:25331630 original size:29 final size:29
Alignment explanation
Indices: 25331597--25331658 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
25331587 ACTGATATTT
*
25331597 ACATCTCACAATTTTCTCTCTCAAGACTA
1 ACATCTCACAACTTTCTCTCTCAAGACTA
25331626 ACATCTCACAACTTTCTCTCTCAAGACTA
1 ACATCTCACAACTTTCTCTCTCAAGACTA
25331655 ACAT
1 ACAT
25331659 AACACGTGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (29 bp):
ACATCTCACAACTTTCTCTCTCAAGACTA
Found at i:25337078 original size:41 final size:41
Alignment explanation
Indices: 25337021--25337098 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
25337011 AGGAAAACAG
* *
25337021 ACATAGCATAAGTAGGTAATTATTGTAAAATAGATTTCTTA
1 ACATAGCATAAATAGGTAATGATTGTAAAATAGATTTCTTA
25337062 ACATAGCATAAATAGGTAATGATTGTAAAATAGATTT
1 ACATAGCATAAATAGGTAATGATTGTAAAATAGATTT
25337099 GATAAAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (41 bp):
ACATAGCATAAATAGGTAATGATTGTAAAATAGATTTCTTA
Found at i:25342371 original size:51 final size:51
Alignment explanation
Indices: 25342308--25342408 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
25342298 CACATGACAC
* * *
25342308 CTGTACTGTCTGACTTTGACTAGTAGTTGAGACACCTTGATTACAAGCCAA
1 CTGTACTGTCTGACTTTGACTAGAAGTCGAGACACCTTGATCACAAGCCAA
25342359 CTGTAC-GTTCTGACTTTGACTAGAAGTCGAGACACCTTGATCACAAGCCA
1 CTGTACTG-TCTGACTTTGACTAGAAGTCGAGACACCTTGATCACAAGCCA
25342409 CCTGGACATC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 45 0.98
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (51 bp):
CTGTACTGTCTGACTTTGACTAGAAGTCGAGACACCTTGATCACAAGCCAA
Found at i:25342425 original size:51 final size:51
Alignment explanation
Indices: 25342319--25342427 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
25342309 TGTACTGTCT
* * * * * * *
25342319 GACTTTGACTAGTAGTTGAGACACCTTGATTACAAGCCAACTGTACGTTCT
1 GACTTTGACTAGAAGTCGAGACACCTTGATCACAAGCCAACTGGACATCCA
*
25342370 GACTTTGACTAGAAGTCGAGACACCTTGATCACAAGCCACCTGGACATCCA
1 GACTTTGACTAGAAGTCGAGACACCTTGATCACAAGCCAACTGGACATCCA
25342421 GACTTTG
1 GACTTTG
25342428 TCTAAGAGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (51 bp):
GACTTTGACTAGAAGTCGAGACACCTTGATCACAAGCCAACTGGACATCCA
Found at i:25347061 original size:24 final size:24
Alignment explanation
Indices: 25347034--25347091 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
25347024 TCATTAATAA
**
25347034 ATAAACGAGTTAATAAACGAGCTT
1 ATAAACGAGCCAATAAACGAGCTT
25347058 ATAAACGAGCCAATAAACGAGCTT
1 ATAAACGAGCCAATAAACGAGCTT
*
25347082 TTAAACGAGC
1 ATAAACGAGC
25347092 TTGTTAGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (24 bp):
ATAAACGAGCCAATAAACGAGCTT
Found at i:25347093 original size:12 final size:12
Alignment explanation
Indices: 25347034--25347093 Score: 77
Period size: 12 Copynumber: 5.0 Consensus size: 12
25347024 TCATTAATAA
25347034 ATAAACGAG-TT
1 ATAAACGAGCTT
25347045 AATAAACGAGCTT
1 -ATAAACGAGCTT
**
25347058 ATAAACGAGCCA
1 ATAAACGAGCTT
25347070 ATAAACGAGCTT
1 ATAAACGAGCTT
*
25347082 TTAAACGAGCTT
1 ATAAACGAGCTT
25347094 GTTAGTGAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
12 40 0.95
13 2 0.05
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:25350313 original size:21 final size:23
Alignment explanation
Indices: 25350271--25350313 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
25350261 TTTATTAATT
*
25350271 CATAATATTTTTATGTTATATTG
1 CATAATATTTCTATGTTATATTG
*
25350294 CATAAT-TTTCTA-GTTGTATT
1 CATAATATTTCTATGTTATATT
25350314 ATCATGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 5 0.28
23 6 0.33
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (23 bp):
CATAATATTTCTATGTTATATTG
Found at i:25353696 original size:352 final size:352
Alignment explanation
Indices: 25353052--25353762 Score: 1422
Period size: 352 Copynumber: 2.0 Consensus size: 352
25353042 ACGTAAACTT
25353052 ACCGAATAGGCTCAGTTTTTGTATTTCATAAATAGTTTCTTTGACATGCTTAAGAGATTATCCTT
1 ACCGAATAGGCTCAGTTTTTGTATTTCATAAATAGTTTCTTTGACATGCTTAAGAGATTATCCTT
25353117 ATCCTATTATAACACCAATCTCGCAAGTTAAGGAGTTTAAATAATTAAATAGCAAACATCCCTCC
66 ATCCTATTATAACACCAATCTCGCAAGTTAAGGAGTTTAAATAATTAAATAGCAAACATCCCTCC
25353182 ATATCAATGAACATAAAGTGAAAGCAAATCCTTATACATAATGGCTCAAACCAAAGCAATTCATA
131 ATATCAATGAACATAAAGTGAAAGCAAATCCTTATACATAATGGCTCAAACCAAAGCAATTCATA
25353247 TTCTTATATACATATATACAAACATTTCAGTAATGTAAATCCAACTCAAAGATAAATTTTACCTT
196 TTCTTATATACATATATACAAACATTTCAGTAATGTAAATCCAACTCAAAGATAAATTTTACCTT
25353312 AAACATATAATTTCCAAATCAATCATGAATTCAATATCAACTTACCTTAAACAAGATAGATAATC
261 AAACATATAATTTCCAAATCAATCATGAATTCAATATCAACTTACCTTAAACAAGATAGATAATC
25353377 AAGAGTATGAATTTCTAATTTCTGATA
326 AAGAGTATGAATTTCTAATTTCTGATA
25353404 ACCGAATAGGCTCAGTTTTTGTATTTCATAAATAGTTTCTTTGACATGCTTAAGAGATTATCCTT
1 ACCGAATAGGCTCAGTTTTTGTATTTCATAAATAGTTTCTTTGACATGCTTAAGAGATTATCCTT
25353469 ATCCTATTATAACACCAATCTCGCAAGTTAAGGAGTTTAAATAATTAAATAGCAAACATCCCTCC
66 ATCCTATTATAACACCAATCTCGCAAGTTAAGGAGTTTAAATAATTAAATAGCAAACATCCCTCC
25353534 ATATCAATGAACATAAAGTGAAAGCAAATCCTTATACATAATGGCTCAAACCAAAGCAATTCATA
131 ATATCAATGAACATAAAGTGAAAGCAAATCCTTATACATAATGGCTCAAACCAAAGCAATTCATA
25353599 TTCTTATATACATATATACAAACATTTCAGTAATGTAAATCCAACTCAAAGATAAATTTTACCTT
196 TTCTTATATACATATATACAAACATTTCAGTAATGTAAATCCAACTCAAAGATAAATTTTACCTT
25353664 AAACATATAATTTCCAAATCAATCATGAATTCAATATCAACTTACCTTAAACAAGATAGATAATC
261 AAACATATAATTTCCAAATCAATCATGAATTCAATATCAACTTACCTTAAACAAGATAGATAATC
25353729 AAGAGTATGAATTTCTAATTTCTGATA
326 AAGAGTATGAATTTCTAATTTCTGATA
25353756 ACCGAAT
1 ACCGAAT
25353763 GCAAAATCAC
Statistics
Matches: 359, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
352 359 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (352 bp):
ACCGAATAGGCTCAGTTTTTGTATTTCATAAATAGTTTCTTTGACATGCTTAAGAGATTATCCTT
ATCCTATTATAACACCAATCTCGCAAGTTAAGGAGTTTAAATAATTAAATAGCAAACATCCCTCC
ATATCAATGAACATAAAGTGAAAGCAAATCCTTATACATAATGGCTCAAACCAAAGCAATTCATA
TTCTTATATACATATATACAAACATTTCAGTAATGTAAATCCAACTCAAAGATAAATTTTACCTT
AAACATATAATTTCCAAATCAATCATGAATTCAATATCAACTTACCTTAAACAAGATAGATAATC
AAGAGTATGAATTTCTAATTTCTGATA
Found at i:25354088 original size:40 final size:40
Alignment explanation
Indices: 25354042--25354129 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
25354032 AAAGGAAACG
*
25354042 AAGTGC-AGAAAAAGGCACAAATGTGCAATCAGAGGCACCA
1 AAGTGCAAG-AAAAGGCACAAATGTGCAATCAAAGGCACCA
* *
25354082 AAGTGCAAGCAAAGGCACAAATGTGCAATCAAAGGCACCG
1 AAGTGCAAGAAAAGGCACAAATGTGCAATCAAAGGCACCA
25354122 AAGTGCAA
1 AAGTGCAA
25354130 ACCTGTACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.10
Consensus pattern (40 bp):
AAGTGCAAGAAAAGGCACAAATGTGCAATCAAAGGCACCA
Found at i:25354127 original size:20 final size:20
Alignment explanation
Indices: 25354052--25354129 Score: 97
Period size: 20 Copynumber: 3.9 Consensus size: 20
25354042 AAGTGCAGAA
25354052 AAAGGCA-CAAATGTGCAATC
1 AAAGGCACCAAA-GTGCAATC
* *
25354072 AGAGGCACCAAAGTGCAAGC
1 AAAGGCACCAAAGTGCAATC
25354092 AAAGGCA-CAAATGTGCAATC
1 AAAGGCACCAAA-GTGCAATC
*
25354112 AAAGGCACCGAAGTGCAA
1 AAAGGCACCAAAGTGCAA
25354130 ACCTGTACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
19 4 0.08
20 39 0.78
21 7 0.14
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (20 bp):
AAAGGCACCAAAGTGCAATC
Found at i:25355603 original size:26 final size:26
Alignment explanation
Indices: 25355574--25355642 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
25355564 CATTCCGACC
* * *
25355574 CACAACTCGTATGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
*
25355600 CACAGCTCGTGTGAGCATACCCATTT
1 CACAGCTCGTGTGAGCAGACCCATTT
25355626 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
25355643 ACGATGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCCATTT
Found at i:25357332 original size:15 final size:15
Alignment explanation
Indices: 25357314--25357349 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
25357304 CTCAGCCACG
25357314 TGTGACACACGGCCC
1 TGTGACACACGGCCC
*
25357329 TGTGACACACGGCCG
1 TGTGACACACGGCCC
25357344 TGTGAC
1 TGTGAC
25357350 CCCTGTAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (15 bp):
TGTGACACACGGCCC
Found at i:25366950 original size:45 final size:45
Alignment explanation
Indices: 25366883--25367070 Score: 238
Period size: 45 Copynumber: 4.2 Consensus size: 45
25366873 TATTACGTGT
* * *
25366883 ACCGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * *
25366928 ACCGGGTATCATTGATTTTAAAGGTGATTGTTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
25366973 ACCGGGTA-CTATTGATTATGAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * *
25367018 ACCGAGTATCATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
25367061 ACCGTGTATC
1 ACCGGGTATC
25367071 TGTTATTATT
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
43 12 0.09
44 14 0.11
45 101 0.79
46 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:25370499 original size:13 final size:13
Alignment explanation
Indices: 25370475--25370506 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
25370465 TGTTTAAAAT
25370475 TTAAAA-TTATTA
1 TTAAAATTTATTA
25370487 TTAAAATTTATTA
1 TTAAAATTTATTA
25370500 TTAAAAT
1 TTAAAAT
25370507 ACGGCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAAATTTATTA
Found at i:25370805 original size:27 final size:27
Alignment explanation
Indices: 25370769--25370836 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
25370759 AAAAATAAAA
*
25370769 ATTTAATAAAATATTATAAATTTTTTT
1 ATTTACTAAAATATTATAAATTTTTTT
*
25370796 ATTTACTAAAATATTATAACTTTTTTT
1 ATTTACTAAAATATTATAAATTTTTTT
*
25370823 ATTTACCAAAATAT
1 ATTTACTAAAATAT
25370837 ATCAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTACTAAAATATTATAAATTTTTTT
Found at i:25371193 original size:20 final size:20
Alignment explanation
Indices: 25371168--25371205 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25371158 ATTTTATTAT
25371168 TAAAGTAAA-TATATTTTACC
1 TAAAGTAAAGT-TATTTTACC
25371188 TAAAGTAAAGTTATTTTA
1 TAAAGTAAAGTTATTTTA
25371206 AAAAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (20 bp):
TAAAGTAAAGTTATTTTACC
Found at i:25371492 original size:18 final size:19
Alignment explanation
Indices: 25371463--25371521 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
25371453 TCTAATTAAG
*
25371463 TAATAACGCTATTTTAATT
1 TAATAACACTATTTTAATT
* *
25371482 TAATAA-ACTATTCTCATT
1 TAATAACACTATTTTAATT
*
25371500 TAATAACTCTATTTTAATT
1 TAATAACACTATTTTAATT
25371519 TAA
1 TAA
25371522 ATAGAGTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (19 bp):
TAATAACACTATTTTAATT
Found at i:25371570 original size:19 final size:19
Alignment explanation
Indices: 25371515--25371570 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 19
25371505 ACTCTATTTT
*
25371515 AATTTAAATAGAGTTATTA
1 AATTAAAATAGAGTTATTA
* * *
25371534 AATGAGAATAG-TTTATTA
1 AATTAAAATAGAGTTATTA
25371552 AATTAAAATAGAGTTATTA
1 AATTAAAATAGAGTTATTA
25371571 CTTAATTAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
AATTAAAATAGAGTTATTA
Found at i:25372026 original size:27 final size:27
Alignment explanation
Indices: 25371994--25372045 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
25371984 CATTTTAGTC
* *
25371994 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTAGTGCCACCAATCT
*
25372021 CTTTGGCACCTTTAGTGCCACCAAT
1 CTTTGGCACCATTAGTGCCACCAAT
25372046 GTGATTGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.33, G:0.19, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTAGTGCCACCAATCT
Found at i:25372053 original size:27 final size:27
Alignment explanation
Indices: 25371996--25372054 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
25371986 TTTTAGTCCT
* * *
25371996 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTAGTGCCACCAATCTCA
* * *
25372023 TTGGCACCTTTAGTGCCACCAATGTGA
1 TTGGCACCATTAGTGCCACCAATCTCA
25372050 TTGGC
1 TTGGC
25372055 CTGATCAGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTAGTGCCACCAATCTCA
Found at i:25372129 original size:27 final size:27
Alignment explanation
Indices: 25372095--25372162 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
25372085 GTTTTTTGAT
*
25372095 ATATTTTGATAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
*
25372122 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
25372149 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
25372163 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAATTATA
Found at i:25372356 original size:24 final size:23
Alignment explanation
Indices: 25372311--25372357 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
25372301 AATATGGTTA
*
25372311 ACTAAAACTCCATTTTCTTCTTC
1 ACTAAAACTCCATCTTCTTCTTC
*
25372334 ACTAAAAGCTTCATCTTCTTCTTC
1 ACTAAAA-CTCCATCTTCTTCTTC
25372358 TTCTTTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (23 bp):
ACTAAAACTCCATCTTCTTCTTC
Found at i:25377781 original size:29 final size:29
Alignment explanation
Indices: 25377747--25378205 Score: 373
Period size: 29 Copynumber: 15.8 Consensus size: 29
25377737 TCATCGAAAA
*** * *
25377747 ATGAAAAGGGATGGTTTTGTCCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* ** * *
25377776 ATGAAAAGGGATAGTTTCGACTA-CAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* * * *
25377804 ATGAAAAGGGAAGATGACAACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
*
25377833 ATGAAAAGGGATGGTGATGACCATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* * ** ** *
25377862 ATGAAAAGTGATAGTTTCGACTGTCGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* *** * *
25377891 ATGAAAAGGGATAGTTTTGACTATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
*
25377920 ATGAAAAAGGATGGTGACGACCATC-AGCT
1 ATGAAAAGGGATGGTGACGACCATCGA-CT
*
25377949 ATGAAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* *
25377978 ATGAAAAGGGATGATGACGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
** * *
25378007 AATGAAAAGGGATGGTTTCAACCATCGAAT
1 -ATGAAAAGGGATGGTGACGACCATCGACT
* * *
25378037 ATGGAAAGGGATGGTGACGGCCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
*
25378066 ATGAAAAGGGATGATGACGACCATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* * ** * *
25378095 ATGAAAAGAGATAGTTTCGACTATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* ** ** * *
25378124 ATGAAAACGGATATTTTCGACTATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* *
25378153 ATGAAAAGGGATGGTGATGACCATCGAAT
1 ATGAAAAGGGATGGTGACGACCATCGACT
**
25378182 ATGAAAAGGGATGGTTTCGACCAT
1 ATGAAAAGGGATGGTGACGACCAT
25378206 TATTAGCATA
Statistics
Matches: 345, Mismatches: 81, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
28 20 0.06
29 300 0.87
30 25 0.07
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGACT
Found at i:25378199 original size:87 final size:87
Alignment explanation
Indices: 25377738--25378205 Score: 471
Period size: 87 Copynumber: 5.4 Consensus size: 87
25377728 TATCGATGAT
* * * *
25377738 CATCGAAAAATGAAAAGGGATGGTTTTGTCCATCGATTATGAAAAGGGATAGTTTCGACTA-CAA
1 CATCG-AATATGAAAAGGGATGGTTTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCAA
* *
25377802 CTATGAAAAGGGAAGATGACAAC
65 CTATGAAAAGGGATGATGACGAC
* * * *
25377825 CATC-AACTATGAAAAGGGATGGTGAT-GACCATCGACTATGAAAAGTGATAGTTTCGACTGTCG
1 CATCGAA-TATGAAAAGGGATGGT-TTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCA
* ***
25377888 ATTATGAAAAGGGAT-AGTTTTGAC
64 ACTATGAAAAGGGATGA-TGACGAC
* * ** * ** *
25377912 TATC-AACTATGAAAAAGGATGGTGACGACCATC-AGCTATGAAAAGGGATGGTGACGACCATCA
1 CATCGAA-TATGAAAAGGGATGGTTTCGACCATCGA-CTATGAAAAGGGATAGTTTCGACTATCA
25377975 ACTATGAAAAGGGATGATGACGAC
64 ACTATGAAAAGGGATGATGACGAC
* * * * * ** * *
25377999 CATCGATTAATGAAAAGGGATGGTTTCAACCATCGAATATGGAAAGGGATGGTGACGGCCATCAA
1 CATCGAAT-ATGAAAAGGGATGGTTTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCAA
25378064 CTATGAAAAGGGATGATGACGAC
65 CTATGAAAAGGGATGATGACGAC
* * * * * * *
25378087 CATCGACTATGAAAAGAGATAGTTTCGACTATCGATTATGAAAACGGATATTTTCGACTATCAAC
1 CATCGAATATGAAAAGGGATGGTTTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCAAC
* *
25378152 TATGAAAAGGGATGGTGATGAC
66 TATGAAAAGGGATGATGACGAC
25378174 CATCGAATATGAAAAGGGATGGTTTCGACCAT
1 CATCGAATATGAAAAGGGATGGTTTCGACCAT
25378206 TATTAGCATA
Statistics
Matches: 314, Mismatches: 57, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
85 2 0.01
86 47 0.15
87 185 0.59
88 79 0.25
89 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (87 bp):
CATCGAATATGAAAAGGGATGGTTTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCAAC
TATGAAAAGGGATGATGACGAC
Found at i:25378200 original size:58 final size:58
Alignment explanation
Indices: 25377747--25378205 Score: 431
Period size: 58 Copynumber: 7.9 Consensus size: 58
25377737 TCATCGAAAA
*** * * *
25377747 ATGAAAAGGGATGGTTTTGTCCATCGATTATGAAAAGGGATAGTTTCGACTA-CAACT
1 ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTTTCGACCATCAACT
* * * * * * *
25377804 ATGAAAAGGGAAGATGACAACCATCAACTATGAAAAGGGATGGTGAT-GACCATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGT-TTCGACCATCAACT
* * ** ** * * *
25377862 ATGAAAAGTGATAGTTTCGACTGTCGATTATGAAAAGGGATAGTTTTGACTATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTTTCGACCATCAACT
* * **
25377920 ATGAAAAAGGATGGTGACGACCATC-AGCTATGAAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGA-TTATGAAAAGGGATGGTTTCGACCATCAACT
* *
25377978 ATGAAAAGGGATGATGACGACCATCGATTAATGAAAAGGGATGGTTTCAACCATCGAA-T
1 ATGAAAAGGGATGGTGACGACCATCGATT-ATGAAAAGGGATGGTTTCGACCATC-AACT
* * * * * ** *
25378037 ATGGAAAGGGATGGTGACGGCCATCAACTATGAAAAGGGATGATGACGACCATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTTTCGACCATCAACT
* * ** * * ** *
25378095 ATGAAAAGAGATAGTTTCGACTATCGATTATGAAAACGGATATTTTCGACTATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTTTCGACCATCAACT
* *
25378153 ATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGGGATGGTTTCGACCAT
1 ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTTTCGACCAT
25378206 TATTAGCATA
Statistics
Matches: 310, Mismatches: 84, Indels: 15
0.76 0.21 0.04
Matches are distributed among these distances:
57 41 0.13
58 219 0.71
59 48 0.15
60 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTTTCGACCATCAACT
Found at i:25384606 original size:53 final size:53
Alignment explanation
Indices: 25384517--25384667 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
25384507 AGATCGTAGC
* *
25384517 TGATGGGTTATGACATCATATGGATAGAATATCATATCGTGTAAGACCGTAAT
1 TGATGGGTTATGACATCATATGGAAAGAATACCATATCGTGTAAGACCGTAAT
* * * **
25384570 TGATGGGTTATGGCATCATATGGAAAAAATACCATATCGTCTAAGACTATTAA-
1 TGATGGGTTATGACATCATATGGAAAGAATACCATATCGTGTAAGAC-CGTAAT
* * *
25384623 TGGTGGATTATGACATCATATGGAAAGAAGACCATATCGTGTAAG
1 TGATGGGTTATGACATCATATGGAAAGAATACCATATCGTGTAAG
25384668 GTCGTAACTG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 81 0.96
54 3 0.04
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (53 bp):
TGATGGGTTATGACATCATATGGAAAGAATACCATATCGTGTAAGACCGTAAT
Found at i:25384693 original size:53 final size:52
Alignment explanation
Indices: 25384521--25384694 Score: 186
Period size: 53 Copynumber: 3.3 Consensus size: 52
25384511 CGTAGCTGAT
* * * *
25384521 GGGTTATGACATCATATGGATAGAATATCATATCGTGTAAGACCGTAATTGA
1 GGGTTATGACATCATATGGAAAGAATACCATATCGTGTAAGATCGTAATGGA
* * * ** *
25384573 TGGGTTATGGCATCATATGGAAAAAATACCATATCGTCTAAGACTATTAATGGT
1 -GGGTTATGACATCATATGGAAAGAATACCATATCGTGTAAGA-TCGTAATGGA
* * *
25384627 GGATTATGACATCATATGGAAAGAAGACCATATCGTGTAAGGTCGTAACTGGA
1 GGGTTATGACATCATATGGAAAGAATACCATATCGTGTAAGATCGTAA-TGGA
* *
25384680 GGGTTGTGGCATCAT
1 GGGTTATGACATCAT
25384695 TTGGGGAAGT
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
52 4 0.04
53 88 0.91
54 5 0.05
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (52 bp):
GGGTTATGACATCATATGGAAAGAATACCATATCGTGTAAGATCGTAATGGA
Found at i:25384915 original size:29 final size:29
Alignment explanation
Indices: 25384882--25384973 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
25384872 TGTAAAGGAT
25384882 GCCTTTGTGGCAAAACTCTAAAAAGGTAA
1 GCCTTTGTGGCAAAACTCTAAAAAGGTAA
* * ** *
25384911 GCCTTTTTGGC-AACCTCTATTTAAGG-AT
1 GCCTTTGTGGCAAAACTCTA-AAAAGGTAA
* * **
25384939 GCCTTTGCGGCAAAACTTTGGAAAGGTAA
1 GCCTTTGTGGCAAAACTCTAAAAAGGTAA
25384968 GCCTTT
1 GCCTTT
25384974 ATAGCGAACC
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
28 21 0.45
29 26 0.55
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (29 bp):
GCCTTTGTGGCAAAACTCTAAAAAGGTAA
Found at i:25384942 original size:28 final size:28
Alignment explanation
Indices: 25384875--25384955 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
25384865 TACTAAATGT
25384875 AAAGGATGCCTTTGTGGCAAAACTCTAA
1 AAAGGATGCCTTTGTGGCAAAACTCTAA
* * * *
25384903 AAAGGTAAGCCTTTTTGGC-AACCTCTATT
1 AAAGG-ATGCCTTTGTGGCAAAACTCTA-A
* *
25384932 TAAGGATGCCTTTGCGGCAAAACT
1 AAAGGATGCCTTTGTGGCAAAACT
25384956 TTGGAAAGGT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
28 22 0.54
29 19 0.46
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (28 bp):
AAAGGATGCCTTTGTGGCAAAACTCTAA
Found at i:25385056 original size:29 final size:28
Alignment explanation
Indices: 25385016--25385089 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
25385006 AAATCTCTGG
** *
25385016 AAGGAAATGCCTTTATGGTGATCTCTATCA
1 AAGGAAA-GCCTTTATGGAAATCTCCAT-A
* *
25385046 AAGGAAAGCCTCTATGGAAATCTCCGTA
1 AAGGAAAGCCTTTATGGAAATCTCCATA
25385074 AAGG-AAGCCTTTATGG
1 AAGGAAAGCCTTTATGG
25385090 CTATATCTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 11 0.29
28 5 0.13
29 15 0.39
30 7 0.18
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (28 bp):
AAGGAAAGCCTTTATGGAAATCTCCATA
Found at i:25389374 original size:21 final size:21
Alignment explanation
Indices: 25389350--25389389 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25389340 TTAAACTTCA
*
25389350 AAATTAGTTAAATTGTTGTTT
1 AAATTAGTTAAATTATTGTTT
**
25389371 AAATTTTTTAAATTATTGT
1 AAATTAGTTAAATTATTGT
25389390 ATATGAAATT
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:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
AAATTAGTTAAATTATTGTTT
Found at i:25391826 original size:27 final size:26
Alignment explanation
Indices: 25391809--25391878 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
25391799 ATATTAAGTC
25391809 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
25391836 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
25391864 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
25391879 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:25391872 original size:28 final size:28
Alignment explanation
Indices: 25391809--25391906 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
25391799 ATATTAAGTC
*
25391809 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25391836 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25391864 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25391893 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25391907 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25392370 original size:12 final size:12
Alignment explanation
Indices: 25392353--25392379 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25392343 TGGGCATACT
25392353 TATGTATATATA
1 TATGTATATATA
25392365 TATGTATATATA
1 TATGTATATATA
25392377 TAT
1 TAT
25392380 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Done.