Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 81 of 145
Found at i:27434332 original size:22 final size:22
Alignment explanation
Indices: 27434292--27434335 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
27434282 CTATTTTGAC
*
27434292 TTTGATTTTTTTTTATTTTTTT
1 TTTGATTTTTTATTATTTTTTT
27434314 TTTGATTTTTTGATT-TTTTTTT
1 TTTGATTTTTT-ATTATTTTTTT
27434336 GAGTCTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (22 bp):
TTTGATTTTTTATTATTTTTTT
Found at i:27434333 original size:11 final size:11
Alignment explanation
Indices: 27434292--27434337 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
27434282 CTATTTTGAC
27434292 TTTGATTTTTT
1 TTTGATTTTTT
27434303 TTT-ATTTTTTT
1 TTTGA-TTTTTT
27434314 TTTGA---TTT
1 TTTGATTTTTT
27434322 TTTGATTTTTT
1 TTTGATTTTTT
27434333 TTTGA
1 TTTGA
27434338 GTCTGAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 8 0.27
10 1 0.03
11 20 0.67
12 1 0.03
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (11 bp):
TTTGATTTTTT
Found at i:27446267 original size:39 final size:39
Alignment explanation
Indices: 27446213--27446292 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
27446203 GTTCAGACAC
*
27446213 ATTAACAGCAAGGAAGGTTGTCTAGTGCAACACATAAAT
1 ATTAACAGCAAGGAAGGTTGTCTAGTGCAACACAGAAAT
27446252 ATTAACAGCAAGGAAGGTTGTCTAGTGCAACACAGAAAT
1 ATTAACAGCAAGGAAGGTTGTCTAGTGCAACACAGAAAT
27446291 AT
1 AT
27446293 AACTAGTACC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (39 bp):
ATTAACAGCAAGGAAGGTTGTCTAGTGCAACACAGAAAT
Found at i:27451200 original size:3 final size:3
Alignment explanation
Indices: 27451192--27451242 Score: 79
Period size: 3 Copynumber: 17.3 Consensus size: 3
27451182 ACTAGGCTGT
27451192 AGA AGA AGA AG- AGA A-A TAGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA AGA AGA
27451236 AGA AGA A
1 AGA AGA A
27451243 ATTGAGATGT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 3 0.07
3 41 0.91
4 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:27452216 original size:30 final size:31
Alignment explanation
Indices: 27452150--27452218 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
27452140 ATGTTAATGG
*
27452150 GTGACTGATTTGTCACTTTTCGATAACGTTA
1 GTGACTGATTTGTCACTTTTCGATAAAGTTA
* *
27452181 GTGACTGATTTGTTATTTTTC-A-AAAGTTGA
1 GTGACTGATTTGTCACTTTTCGATAAAGTT-A
27452211 GTGACTGA
1 GTGACTGA
27452219 ATTGAAAGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 10 0.29
31 19 0.56
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.42
Consensus pattern (31 bp):
GTGACTGATTTGTCACTTTTCGATAAAGTTA
Found at i:27454117 original size:14 final size:14
Alignment explanation
Indices: 27454086--27454137 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
27454076 AAATTATTAT
* *
27454086 TTAATTAATTAAAA
1 TTAAATAATTGAAA
*
27454100 TTAAATAATTGAAG
1 TTAAATAATTGAAA
*
27454114 TTAAA-AAATGAAA
1 TTAAATAATTGAAA
27454127 TTAAATTAATT
1 TTAAA-TAATT
27454138 AGACCTTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 11 0.37
14 16 0.53
15 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (14 bp):
TTAAATAATTGAAA
Found at i:27454262 original size:16 final size:18
Alignment explanation
Indices: 27454235--27454267 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27454225 CAGAACTGAC
27454235 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
27454252 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
27454268 GTTAATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:27475946 original size:27 final size:27
Alignment explanation
Indices: 27475908--27475990 Score: 130
Period size: 27 Copynumber: 3.1 Consensus size: 27
27475898 TTACACTATT
27475908 ATGACCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCTCATAGGGTAAA
* * *
27475935 ATGACCAAAATACCTTGATAGGGTAAA
1 ATGACCGAAATACCCTCATAGGGTAAA
*
27475962 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCTCATAGGGTAAA
27475989 AT
1 AT
27475991 AACTGTTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCTCATAGGGTAAA
Found at i:27493640 original size:186 final size:187
Alignment explanation
Indices: 27493317--27493663 Score: 502
Period size: 186 Copynumber: 1.9 Consensus size: 187
27493307 GTGTTTTGAA
* * * * *
27493317 TGCATGATTATAGGTACATTTGGGTTGTGCAATTGGCTGGTCATTAGGTGAGAAAAATGGCTTGG
1 TGCATGATTATAGGTACATATGGGTTGTGCAAGTGGCTGGTCATTAGGTGAGAAAAATGACCTAG
*
27493382 AAATAGCCTATTTTTCGACCACATGGCCAAAGACACAGACGTGTGTCTCAGCCATGTGCGACACA
66 AAATAGCCTATTTTTCGACCACACGGCCAAAGACACAGACGTGTGTCTCAGCCATGTGCGACACA
*
27493447 AGGCCAGGCGACACGGTCGTGTGTCCCCTATCTTCAAAAGGTTGCAAGGCAGGTTGT
131 AGGCCAGGCGACACGGTCATGTGTCCCCTATCTTCAAAAGGTTGCAAGGCAGGTTGT
* * *
27493504 TGCATGATTATAGGTACA-ATGGGTTGTGCAAGTGGCTGGTCTTTGGGTGAGGAAAATGACCTAG
1 TGCATGATTATAGGTACATATGGGTTGTGCAAGTGGCTGGTCATTAGGTGAGAAAAATGACCTAG
** * * * *
27493568 AAATAGTTTATTTTTC-ATCCACACGGCTAGAGACAC-GAACGTGTGTCTTAGCCATGTGTGACA
66 AAATAGCCTATTTTTCGA-CCACACGGCCAAAGACACAG-ACGTGTGTCTCAGCCATGTGCGACA
*
27493631 CATGGCCAGGCGACACGGTCATGTGTCCCCTAT
129 CAAGGCCAGGCGACACGGTCATGTGTCCCCTAT
27493664 AGCTTTAAAG
Statistics
Matches: 141, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
185 2 0.01
186 121 0.86
187 18 0.13
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (187 bp):
TGCATGATTATAGGTACATATGGGTTGTGCAAGTGGCTGGTCATTAGGTGAGAAAAATGACCTAG
AAATAGCCTATTTTTCGACCACACGGCCAAAGACACAGACGTGTGTCTCAGCCATGTGCGACACA
AGGCCAGGCGACACGGTCATGTGTCCCCTATCTTCAAAAGGTTGCAAGGCAGGTTGT
Found at i:27499101 original size:54 final size:54
Alignment explanation
Indices: 27499027--27499132 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
27499017 TACACATAAA
27499027 TGCGCATATCACATACTATCACAAATAGCCAATTCATTACTAATTTCACATTAT
1 TGCGCATATCACATACTATCACAAATAGCCAATTCATTACTAATTTCACATTAT
*
27499081 TGCGCATATCACATACTATCACAGATAGCCAATTCATTACTAATTTCACATT
1 TGCGCATATCACATACTATCACAAATAGCCAATTCATTACTAATTTCACATT
27499133 CTCAAAACAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (54 bp):
TGCGCATATCACATACTATCACAAATAGCCAATTCATTACTAATTTCACATTAT
Found at i:27499129 original size:27 final size:27
Alignment explanation
Indices: 27499045--27499130 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
27499035 TCACATACTA
27499045 TCACAAATAGCCAATTCATTACTAATT
1 TCACAAATAGCCAATTCATTACTAATT
* * *
27499072 TCACATTATTGCGC-ATATCACATACT-A--
1 TCACA-AATAGC-CAAT-TCA-TTACTAATT
*
27499099 TCACAGATAGCCAATTCATTACTAATT
1 TCACAAATAGCCAATTCATTACTAATT
27499126 TCACA
1 TCACA
27499131 TTCTCAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 4 0.09
25 5 0.11
26 6 0.13
27 15 0.33
28 6 0.13
29 5 0.11
30 4 0.09
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (27 bp):
TCACAAATAGCCAATTCATTACTAATT
Found at i:27499862 original size:26 final size:26
Alignment explanation
Indices: 27499812--27499864 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
27499802 GATGTCATAG
*
27499812 CCCAGCTATGGTCTTACACATAATCA
1 CCCAGCTATGGTCTTACACAGAATCA
*
27499838 CCCAGCTATGGTCTTACACGGAATCA
1 CCCAGCTATGGTCTTACACAGAATCA
27499864 C
1 C
27499865 ATTATCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (26 bp):
CCCAGCTATGGTCTTACACAGAATCA
Found at i:27502532 original size:50 final size:50
Alignment explanation
Indices: 27502394--27502641 Score: 224
Period size: 50 Copynumber: 5.0 Consensus size: 50
27502384 ATTAATGATA
* * **
27502394 CCGATTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCTT
1 CCGATACAGATAGTAGCCTGCACATAGTACTACACATGTGACCA-TAGCTT
* *
27502445 CCGATACAGGTAGTAGCCTGCACATAGTACTACACATGTGATCGA-AGCTAT
1 CCGATACAGATAGTAGCCTGCACATAGTACTACACATGTGA-CCATAGCT-T
* * *
27502496 CCTATAC-GCAT-GTAGCCTGCACATAGTACTACACATGAGACC-TATCATT
1 CCGATACAG-ATAGTAGCCTGCACATAGTACTACACATGTGACCATAGC-TT
* * *
27502545 CCGGTACACG-TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATT
1 CCGATACA-GATAGTAGCCTGCACATAGTACTACACATGTGACCATAGC-TT
* * * *
27502595 CCGGTACACG-CAGTAGCATGCACATAGTACTACACACGTGACC-TAGC
1 CCGATACA-GATAGTAGCCTGCACATAGTACTACACATGTGACCATAGC
27502642 AACTTCACTT
Statistics
Matches: 170, Mismatches: 19, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
49 10 0.06
50 111 0.65
51 47 0.28
52 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
CCGATACAGATAGTAGCCTGCACATAGTACTACACATGTGACCATAGCTT
Found at i:27502611 original size:100 final size:98
Alignment explanation
Indices: 27502405--27502639 Score: 294
Period size: 100 Copynumber: 2.3 Consensus size: 98
27502395 CGATTCACAT
* *
27502405 AGTAGCCTGCACATAGTACTACACATGTGACCATTTTCTTCCGATACAGGTAGTAGCCTGCACAT
1 AGTAGCCTGCACATAGTACTACACATGTGACC--TATCTTCCGATACACGTAGTAGCCTGCACAT
* * *
27502470 AGTACTACACATGTGATCGAAGCTATCCTATACGC
64 AGTACTACACATGCGATCCAAGCTATCCTACACGC
* *
27502505 ATGTAGCCTGCACATAGTACTACACATGAGACCTATCATTCCGGTACACGTAGTAGCCTGCACAT
1 A-GTAGCCTGCACATAGTACTACACATGTGACCTATC-TTCCGATACACGTAGTAGCCTGCACAT
* *
27502570 AGTACTACACATGCGA-CCTATC-ATTCCGGTACACGC
64 AGTACTACACATGCGATCCAAGCTA-TCC--TACACGC
* *
27502606 AGTAGCATGCACATAGTACTACACACGTGACCTA
1 AGTAGCCTGCACATAGTACTACACATGTGACCTA
27502640 GCAACTTCAC
Statistics
Matches: 118, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
98 1 0.01
99 9 0.08
100 71 0.60
101 37 0.31
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (98 bp):
AGTAGCCTGCACATAGTACTACACATGTGACCTATCTTCCGATACACGTAGTAGCCTGCACATAG
TACTACACATGCGATCCAAGCTATCCTACACGC
Found at i:27503835 original size:26 final size:26
Alignment explanation
Indices: 27503762--27503868 Score: 133
Period size: 26 Copynumber: 4.1 Consensus size: 26
27503752 AACACACCAA
*
27503762 TATCGCAGCAAAGCTGCTAGTAATAG
1 TATCGCAGCAAAGCTGCTAGTAACAG
* * * *
27503788 TATCACAGTAAAACTGCTAGTAATAG
1 TATCGCAGCAAAGCTGCTAGTAACAG
* * *
27503814 TATCGCAGCAAAGCTACCAGTACCAG
1 TATCGCAGCAAAGCTGCTAGTAACAG
*
27503840 TATCGCCGCAAAGCTGCTAGTAACAG
1 TATCGCAGCAAAGCTGCTAGTAACAG
27503866 TAT
1 TAT
27503869 ACTTCCTCCA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCTAGTAACAG
Found at i:27511218 original size:40 final size:40
Alignment explanation
Indices: 27511151--27511232 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 40
27511141 GATAAAGCAG
27511151 GAAAACGCTTCCTTAAGGAAGCGCTTTG-TCCACGTGGACA
1 GAAAACGCTTCCTTAAGG-AGCGCTTTGCTCCACGTGGACA
*
27511191 GAAAACGCTTCCTTGAGG-GCGTACTTTGTCTCCACGTGGACA
1 GAAAACGCTTCCTTAAGGAGCG--CTTTG-CTCCACGTGGACA
27511233 AAGCACTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 3 0.08
40 22 0.59
42 12 0.32
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (40 bp):
GAAAACGCTTCCTTAAGGAGCGCTTTGCTCCACGTGGACA
Found at i:27512722 original size:21 final size:22
Alignment explanation
Indices: 27512677--27512722 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
27512667 AGAGAAAAAT
*
27512677 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
27512699 AAAA-TGAAAAAGGCGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
27512720 AAA
1 AAA
27512723 GCGAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:27512821 original size:36 final size:33
Alignment explanation
Indices: 27512756--27512822 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
27512746 GTGAATGAAG
*
27512756 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
27512789 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
27512823 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:27515579 original size:32 final size:32
Alignment explanation
Indices: 27515543--27515608 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
27515533 CCACCATAAA
*
27515543 AACTTGTACCACAGTTTATATAATCATTGTAC
1 AACTTGTACCACAATTTATATAATCATTGTAC
* *
27515575 AACTTGTACCGCAATTTATATAATCATTTTAC
1 AACTTGTACCACAATTTATATAATCATTGTAC
27515607 AA
1 AA
27515609 ACCGACTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (32 bp):
AACTTGTACCACAATTTATATAATCATTGTAC
Found at i:27523903 original size:25 final size:25
Alignment explanation
Indices: 27523875--27523944 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
27523865 CAGGCCCATT
* *
27523875 TTCACAGCTTGTGTGAGCATTTTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
*
27523900 TTCACAGCTCATGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
* *
27523925 TTTACAGCTCGTGAGAGCAT
1 TTCACAGCTCGTGTGAGCAT
27523945 ACATGTTCAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:27526145 original size:16 final size:15
Alignment explanation
Indices: 27526113--27526151 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27526103 TAATAATAAC
27526113 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
27526129 TTATTATAATGTATAT
1 TAATTATAAT-TATAT
27526145 TAATTAT
1 TAATTAT
27526152 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:27534394 original size:19 final size:19
Alignment explanation
Indices: 27534370--27534410 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
27534360 GTATTAAATG
27534370 GATTGAATTTTTCTATTTA
1 GATTGAATTTTTCTATTTA
27534389 GATTGAATTTTTCTATTTA
1 GATTGAATTTTTCTATTTA
27534408 GAT
1 GAT
27534411 CAAGATAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (19 bp):
GATTGAATTTTTCTATTTA
Found at i:27535628 original size:19 final size:19
Alignment explanation
Indices: 27535604--27535665 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
27535594 ATATTGGTTG
27535604 ATTGGTTTAAGGTTATTGA
1 ATTGGTTTAAGGTTATTGA
* *
27535623 ATTGG-TT--GATTGGTTG-
1 ATTGGTTTAAGGTT-ATTGA
27535639 ATTGGTTTAAGGTTATTGA
1 ATTGGTTTAAGGTTATTGA
27535658 ATTGGTTT
1 ATTGGTTT
27535666 TGATGTCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
16 8 0.24
17 5 0.15
18 5 0.15
19 16 0.47
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (19 bp):
ATTGGTTTAAGGTTATTGA
Found at i:27535635 original size:35 final size:35
Alignment explanation
Indices: 27535596--27535664 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
27535586 GAAATGGAAT
27535596 ATTGGTTGATTGGTTTAAGGTTATTGAATTGGTTG
1 ATTGGTTGATTGGTTTAAGGTTATTGAATTGGTTG
27535631 ATTGGTTGATTGGTTTAAGGTTATTGAATTGGTT
1 ATTGGTTGATTGGTTTAAGGTTATTGAATTGGTT
27535665 TTGATGTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.49
Consensus pattern (35 bp):
ATTGGTTGATTGGTTTAAGGTTATTGAATTGGTTG
Found at i:27536055 original size:20 final size:20
Alignment explanation
Indices: 27536018--27536055 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27536008 CATGCAGTAA
* *
27536018 AAATTTTCTAACTTTTTCTT
1 AAATTTTCTAAATGTTTCTT
27536038 AAATTTTCTAAATGTTTC
1 AAATTTTCTAAATGTTTC
27536056 CAATTTAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.55
Consensus pattern (20 bp):
AAATTTTCTAAATGTTTCTT
Found at i:27536334 original size:28 final size:28
Alignment explanation
Indices: 27536298--27536405 Score: 123
Period size: 28 Copynumber: 3.9 Consensus size: 28
27536288 ATTGGAGTGC
* *
27536298 GCCACGAAGGCATT-CATTTCCATAGATT
1 GCCAAGAAGGC-TTCCATTTTCATAGATT
27536326 GCCAAGAAGGCTTCCATTTTCATAGATT
1 GCCAAGAAGGCTTCCATTTTCATAGATT
*
27536354 GCCACA-AAGGCTTCCATTTTCATATATT
1 GCCA-AGAAGGCTTCCATTTTCATAGATT
* *
27536382 GCCCCA-AAGACTTCCATTTTCATA
1 G-CCAAGAAGGCTTCCATTTTCATA
27536406 CTTTTTCACG
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
27 2 0.03
28 67 0.93
29 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (28 bp):
GCCAAGAAGGCTTCCATTTTCATAGATT
Found at i:27536372 original size:56 final size:56
Alignment explanation
Indices: 27536298--27536405 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
27536288 ATTGGAGTGC
* *
27536298 GCCACGAAGGCATTCATTTCCATAGATTG-CCAAGAAGGCTTCCATTTTCATAGATT
1 GCCACAAAGGCATTCATTTCCATAGATTGCCCAA-AAGACTTCCATTTTCATAGATT
* * *
27536354 GCCACAAAGGC-TTCCATTTTCATATATTGCCCCAAAGACTTCCATTTTCATA
1 GCCACAAAGGCATT-CATTTCCATAGATTGCCCAAAAGACTTCCATTTTCATA
27536406 CTTTTTCACG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
55 2 0.04
56 40 0.89
57 3 0.07
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (56 bp):
GCCACAAAGGCATTCATTTCCATAGATTGCCCAAAAGACTTCCATTTTCATAGATT
Found at i:27537790 original size:18 final size:17
Alignment explanation
Indices: 27537764--27537806 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
27537754 TTGTTCAAAG
27537764 AATTCTTATACTTAATCA
1 AATTCTTATACTTAA-CA
*
27537782 AATTTTTATACTTAACA
1 AATTCTTATACTTAACA
*
27537799 AATACTTA
1 AATTCTTA
27537807 AAACTGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTCTTATACTTAACA
Found at i:27542777 original size:27 final size:28
Alignment explanation
Indices: 27542721--27542807 Score: 122
Period size: 28 Copynumber: 3.1 Consensus size: 28
27542711 CGTTCCATTC
* * *
27542721 CATAGATCGCCACGAAGACTTCAATTTT
1 CATAGATTGCCACAAAGGCTTCAATTTT
*
27542749 CATAGATTGCCAC-AAGGCTTCCATTTT
1 CATAGATTGCCACAAAGGCTTCAATTTT
*
27542776 CATAGATTTCCACAAAGGCTTCAATTTT
1 CATAGATTGCCACAAAGGCTTCAATTTT
27542804 CATA
1 CATA
27542808 CGTTTTTCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
27 24 0.45
28 29 0.55
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (28 bp):
CATAGATTGCCACAAAGGCTTCAATTTT
Found at i:27546278 original size:101 final size:102
Alignment explanation
Indices: 27546196--27546381 Score: 261
Period size: 101 Copynumber: 1.8 Consensus size: 102
27546186 AAAGTGATGG
*
27546196 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCAGAAT-G-ATGGGTCGCATGTGTAGT
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGGAAT-GGTCACATGTGTAGT
***
27546259 ACTATGTGCAGGCTACTATG-CGTACCGAATAGCTTCGA
64 ACTATGTGCAGGCTACTATGTAAAACCGAATAGCTTCGA
*
27546297 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGAAATGGTCACATGTGTAGTA
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGG-AATGGTCACATGTGTAGTA
* *
27546362 CAATGTGCAGGCTGCTATGT
65 CTATGTGCAGGCTACTATGT
27546382 GAATCGAGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
100 2 0.03
101 41 0.53
102 32 0.42
103 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGAATGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGTAAAACCGAATAGCTTCGA
Found at i:27546325 original size:51 final size:50
Alignment explanation
Indices: 27546196--27546374 Score: 175
Period size: 51 Copynumber: 3.5 Consensus size: 50
27546186 AAAGTGATGG
* * * *
27546196 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCAGAATGATGGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCAGAATGATCGA
* * * * *
27546246 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTA-CCGAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCAGAAT-G-ATCGA
* *
27546297 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGGAAAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCAGAAT-G--ATCGA
* *
27546348 TCACATGTGTAGTACAATGTGCAGGCT
1 TCACGTGTGTAGTACTATGTGCAGGCT
27546375 GCTATGTGAA
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 5 0.05
50 33 0.31
51 64 0.61
52 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCAGAATGATCGA
Found at i:27548363 original size:14 final size:14
Alignment explanation
Indices: 27548344--27548371 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27548334 GTAAATATGA
27548344 AAAATTTGAAGGAC
1 AAAATTTGAAGGAC
27548358 AAAATTTGAAGGAC
1 AAAATTTGAAGGAC
27548372 CAATAGTGTA
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):
AAAATTTGAAGGAC
Found at i:27549942 original size:22 final size:22
Alignment explanation
Indices: 27549895--27549943 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
27549885 AGAATTGAAC
*
27549895 TATTATTGGTAATAGGTAGAAT
1 TATTATTGGTAATAGGTAGAAG
* *
27549917 TATTATTGGTAATATGTATAAG
1 TATTATTGGTAATAGGTAGAAG
27549939 TATTA
1 TATTA
27549944 GATGTTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (22 bp):
TATTATTGGTAATAGGTAGAAG
Found at i:27555901 original size:39 final size:39
Alignment explanation
Indices: 27555858--27555960 Score: 109
Period size: 39 Copynumber: 2.7 Consensus size: 39
27555848 CCTAAGATAA
* * * * *
27555858 AAGCATATATCACCATACTCATATAATCTCATAACGTTT
1 AAGCATATATCACAATACTCATAAAATCACATAACATTC
* * *
27555897 AAGCATATGTCAGAATACTCGTAAAATCACATAACATTC
1 AAGCATATATCACAATACTCATAAAATCACATAACATTC
* *
27555936 AAACATATACCACAATACTC-TAAAA
1 AAGCATATATCACAATACTCATAAAA
27555961 CATTTTATAG
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
38 5 0.10
39 47 0.90
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATAAAATCACATAACATTC
Found at i:27556055 original size:67 final size:67
Alignment explanation
Indices: 27555969--27556110 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 67
27555959 AACATTTTAT
* * * * *
27555969 AGATAAATTGCATAGTGGTCACATGTCGTAAAAACACATATCATAATACACACATATTCATAAGT
1 AGATAATTTGCATAATGGTCACATGTCATAAAAACACATATCACAATACACACATACTCATAAGT
27556034 TA
66 TA
* * * *
27556036 AGATAATTTGCATAATGGTCGCGTGTCATATAAACACATATCACAATACACACATACTCATAATT
1 AGATAATTTGCATAATGGTCACATGTCATAAAAACACATATCACAATACACACATACTCATAAGT
27556101 TA
66 TA
27556103 AGATAATT
1 AGATAATT
27556111 GGCACTTGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (67 bp):
AGATAATTTGCATAATGGTCACATGTCATAAAAACACATATCACAATACACACATACTCATAAGT
TA
Found at i:27558972 original size:17 final size:17
Alignment explanation
Indices: 27558939--27558972 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27558929 AGTAACACTA
*
27558939 AAAATGCAAGGATAATG
1 AAAATGCAAGGACAATG
*
27558956 AAAATGCAATGACAATG
1 AAAATGCAAGGACAATG
27558973 TATACTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.09, G:0.21, T:0.18
Consensus pattern (17 bp):
AAAATGCAAGGACAATG
Found at i:27559440 original size:18 final size:18
Alignment explanation
Indices: 27559417--27559474 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
27559407 TTCTTTCTCA
*
27559417 TTTTCAATAACTTCCTCT
1 TTTTCAACAACTTCCTCT
27559435 TTTTCAGCAACAACTTCCTCT
1 TTTT---CAACAACTTCCTCT
* * *
27559456 TCTGCAAGAACTTCCTCT
1 TTTTCAACAACTTCCTCT
27559474 T
1 T
27559475 CTACAGCATC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 18 0.55
21 15 0.45
ACGTcount: A:0.22, C:0.31, G:0.05, T:0.41
Consensus pattern (18 bp):
TTTTCAACAACTTCCTCT
Found at i:27559451 original size:21 final size:20
Alignment explanation
Indices: 27559425--27559492 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
27559415 CATTTTCAAT
27559425 AACTTCCTCTTTTTCAGCAAC
1 AACTTCCTC-TTTTCAGCAAC
* *
27559446 AACTTCCTC--TTCTGCAAG
1 AACTTCCTCTTTTCAGCAAC
* *
27559464 AACTTCCTCTTCTACAGCATC
1 AACTTCCTCTT-TTCAGCAAC
27559485 AACTTCCT
1 AACTTCCT
27559493 TCTCAACAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 16 0.42
21 22 0.58
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (20 bp):
AACTTCCTCTTTTCAGCAAC
Found at i:27559475 original size:18 final size:18
Alignment explanation
Indices: 27559441--27559476 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27559431 CTCTTTTTCA
27559441 GCAACAACTTCCTCTTCT
1 GCAACAACTTCCTCTTCT
*
27559459 GCAAGAACTTCCTCTTCT
1 GCAACAACTTCCTCTTCT
27559477 ACAGCATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.36, G:0.08, T:0.33
Consensus pattern (18 bp):
GCAACAACTTCCTCTTCT
Found at i:27571447 original size:17 final size:18
Alignment explanation
Indices: 27571422--27571464 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
27571412 CATAAAGACT
27571422 CAAACTTAGACCTTTTTA
1 CAAACTTAGACCTTTTTA
*
27571440 CAAA-TTAGTCCTTTTT-
1 CAAACTTAGACCTTTTTA
27571456 CTAAACTTA
1 C-AAACTTA
27571465 TAGGTTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 14 0.64
18 7 0.32
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (18 bp):
CAAACTTAGACCTTTTTA
Found at i:27576610 original size:41 final size:41
Alignment explanation
Indices: 27576545--27576644 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
27576535 TACGGATACT
*
27576545 CCACAGCTCGTGTGAGTAGCATCGTGTAGCTACGTTTCAAC
1 CCACAGCTCGTGTGAGCAGCATCGTGTAGCTACGTTTCAAC
* * * *
27576586 CCACAACTTGTGTGAGCAGTATCGTGTAGCTACGTTTCGAC
1 CCACAGCTCGTGTGAGCAGCATCGTGTAGCTACGTTTCAAC
*
27576627 CGACAGCTCGTGTGAGCA
1 CCACAGCTCGTGTGAGCA
27576645 TTGTGATTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (41 bp):
CCACAGCTCGTGTGAGCAGCATCGTGTAGCTACGTTTCAAC
Found at i:27579909 original size:19 final size:21
Alignment explanation
Indices: 27579885--27579925 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27579875 TAGAATGATT
27579885 AATTTAA-TCAT-TTAGCTTG
1 AATTTAATTCATGTTAGCTTG
*
27579904 AATTTAATTCATGTTAGGTTG
1 AATTTAATTCATGTTAGCTTG
27579925 A
1 A
27579926 TAGCATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (21 bp):
AATTTAATTCATGTTAGCTTG
Found at i:27587216 original size:25 final size:25
Alignment explanation
Indices: 27587180--27587237 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
27587170 CTCCTAAATT
* *
27587180 TTAATTTAATTATCTAAT-TTTTCAA
1 TTAATTAAATTAT-TAATATTTTAAA
*
27587205 TTTATTAAATTATTAATATTTTAAA
1 TTAATTAAATTATTAATATTTTAAA
27587230 TTAATTAA
1 TTAATTAA
27587238 TTTTTTGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTAAA
Found at i:27587230 original size:16 final size:16
Alignment explanation
Indices: 27587203--27587242 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
27587193 CTAATTTTTC
27587203 AATTTATTAAATT-ATT
1 AATTT-TTAAATTAATT
27587219 AATATTTTAAATTAATT
1 AAT-TTTTAAATTAATT
27587236 AATTTTT
1 AATTTTT
27587243 TGAGAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTTTAAATTAATT
Found at i:27592779 original size:20 final size:21
Alignment explanation
Indices: 27592754--27592813 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
27592744 TTTAAGGATT
* *
27592754 TATTTTGGTAAATTTTTAG-G
1 TATTTTGGTAAAGTTTTAGAA
*
27592774 TATTTTAGTAAAGTTTTAGAAA
1 TATTTTGGTAAAGTTTTAG-AA
27592796 TATTTTGGTAAAAGTTTT
1 TATTTTGGT-AAAGTTTT
27592814 TCCTAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 17 0.52
22 8 0.24
23 8 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.52
Consensus pattern (21 bp):
TATTTTGGTAAAGTTTTAGAA
Found at i:27594188 original size:22 final size:22
Alignment explanation
Indices: 27594162--27594216 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
27594152 ATACATGATT
*
27594162 AATTTTATTGAACTACCTATAA
1 AATTTTATTGAAATACCTATAA
* *
27594184 CATTTTATTCAAATACCTATAA
1 AATTTTATTGAAATACCTATAA
27594206 AATTTTATTGA
1 AATTTTATTGA
27594217 TAATTAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.44
Consensus pattern (22 bp):
AATTTTATTGAAATACCTATAA
Found at i:27601763 original size:50 final size:51
Alignment explanation
Indices: 27601688--27601884 Score: 220
Period size: 51 Copynumber: 3.9 Consensus size: 51
27601678 GTGAAGTTGC
* * *
27601688 TAGGTCACGTGTGTAGTACCATGTGCAGGCTACTACATGTACCGGAATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAA
* * * **
27601738 TAGGTCACATGTGTAGTATTATGTGCAGGCTACTATGCGTACCGGAGA-GCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATGAA
* * * *
27601789 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAA
* * *
27601839 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
27601885 GTACCATTTA
Statistics
Matches: 120, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 42 0.35
51 77 0.64
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (51 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAA
Found at i:27601873 original size:102 final size:101
Alignment explanation
Indices: 27601692--27601876 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
27601682 AGTTGCTAGG
* *
27601692 TCACGTGTGTAGTACCATGTGCAGGCTACTACATGTACCGGAATGATAGGTCACATGTGTAGTAT
1 TCACGTGTGTAGTACCATGTGCAGGCTACTACATGTACCGGAATGAAAGGTCACATGTGTAGTAC
27601757 TATGTGCAGGCTACTATGCGTACCGGAGAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGAGAGCTTCGA
* * *
27601793 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGAAAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACCATGTGCAGGCTACTACATGTACCGGAATG-AAA-GGTCACATGTGTAGT
27601857 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
27601877 TGAACCGGGT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 3 0.04
101 40 0.52
102 34 0.44
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACCATGTGCAGGCTACTACATGTACCGGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGAGAGCTTCGA
Found at i:27601878 original size:26 final size:26
Alignment explanation
Indices: 27601798--27601878 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
27601788 TTCGATCACG
27601798 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
27601824 CGTGTA-T-CGGATGAAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGCA-GGCT-ACTA
27601849 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
27601875 TGTG
1 TGTG
27601879 AACCGGGTAC
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:27601914 original size:102 final size:100
Alignment explanation
Indices: 27601696--27601884 Score: 245
Period size: 102 Copynumber: 1.9 Consensus size: 100
27601686 GCTAGGTCAC
* * *
27601696 GTGTGTAGTACCATGTGCAGGCTACTACATGTACCGGAATGATAGGTCACATGTGTAGTATTATG
1 GTGTGTA-TACTATGTGCAGGCTACTACATGTACCGGAATGAAAGGTCACATGTGTAGTACTATG
* * * *
27601761 TGCAGGCTACTATGCGTACCGGAGAGCTTCGATCAC
65 TGCAGGCTACTATGCGAACCGGAGACCTTCGATAAA
* *
27601797 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGAAAATGGTCACATGTGTAGTACTA
1 GTGTGTA-TACTATGTGCAGGCTACTACATGTACCGGAATG-AAA-GGTCACATGTGTAGTACTA
*
27601861 TGTGCAGGCTACTATGTGAACCGG
63 TGTGCAGGCTACTATGCGAACCGG
27601885 GTACCATTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 3 0.04
101 36 0.46
102 40 0.51
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (100 bp):
GTGTGTATACTATGTGCAGGCTACTACATGTACCGGAATGAAAGGTCACATGTGTAGTACTATGT
GCAGGCTACTATGCGAACCGGAGACCTTCGATAAA
Found at i:27607681 original size:26 final size:26
Alignment explanation
Indices: 27607601--27607681 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
27607591 TTCGATCACG
27607601 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
27607627 CGTGTA-T-CGGATGAAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGCA-GGCT-ACTA
27607652 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
27607678 TGTG
1 TGTG
27607682 AACCGGATAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:27613952 original size:26 final size:26
Alignment explanation
Indices: 27613872--27613952 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
27613862 TTCGATCACG
27613872 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
27613898 CGTGTA-T-CGGATGAAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGCA-GGCT-ACTA
27613923 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
27613949 TGTG
1 TGTG
27613953 AACCGGATAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:27616173 original size:16 final size:16
Alignment explanation
Indices: 27616134--27616166 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27616124 TAAAATTCTA
27616134 AGAAATTTTTTGAGGG
1 AGAAATTTTTTGAGGG
27616150 AGAAATTTTTTGAGGG
1 AGAAATTTTTTGAGGG
27616166 A
1 A
27616167 TATATTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (16 bp):
AGAAATTTTTTGAGGG
Found at i:27630952 original size:236 final size:236
Alignment explanation
Indices: 27630539--27631010 Score: 926
Period size: 236 Copynumber: 2.0 Consensus size: 236
27630529 TTACACTTCA
27630539 ATTAGCAGATCGATTCTTAGCACATCCAGAAGGAAAAATCGATGACGTATTGGTACGTGTAGATA
1 ATTAGCAGATCGATTCTTAGCACATCCAGAAGGAAAAATCGATGACGTATTGGTACGTGTAGATA
27630604 AATTTATCTTTCCTGTTGACTTTGTGATTCTAGACTTTGAAGCAGACAAAGAGGTGTCAATCATC
66 AATTTATCTTTCCTGTTGACTTTGTGATTCTAGACTTTGAAGCAGACAAAGAGGTGTCAATCATC
27630669 CTAAGAAGACCATTCTTAGCAACCGGAAGGACCCTTATTGATGTGCAGAAAGGCGAGCTTACTAT
131 CTAAGAAGACCATTCTTAGCAACCGGAAGGACCCTTATTGATGTGCAGAAAGGCGAGCTTACTAT
27630734 GCCTGTTCAGGATGACCAGGTAACATTTAACGTTTTTAAGT
196 GCCTGTTCAGGATGACCAGGTAACATTTAACGTTTTTAAGT
27630775 ATTAGCAGATCGATTCTTAGCACATCCAGAAGGAAAAATCGATGACGTATTGGTACGTGTAGATA
1 ATTAGCAGATCGATTCTTAGCACATCCAGAAGGAAAAATCGATGACGTATTGGTACGTGTAGATA
27630840 AATTTATCTTTCCTGTTGACTTTGTGATTCTAGACTTTGAAGCAGACAAAGAGGTGTCAATCATC
66 AATTTATCTTTCCTGTTGACTTTGTGATTCTAGACTTTGAAGCAGACAAAGAGGTGTCAATCATC
*
27630905 CTAAGAAGACCATTCTTAGCAACCGGAAGGACCCTTATTGATGTGCAGAAGGGCGAGCTTACTAT
131 CTAAGAAGACCATTCTTAGCAACCGGAAGGACCCTTATTGATGTGCAGAAAGGCGAGCTTACTAT
*
27630970 GTCTGTTCAGGATGACCAGGTAACATTTAACGTTTTTAAGT
196 GCCTGTTCAGGATGACCAGGTAACATTTAACGTTTTTAAGT
27631011 CCATGTGATT
Statistics
Matches: 234, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
236 234 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (236 bp):
ATTAGCAGATCGATTCTTAGCACATCCAGAAGGAAAAATCGATGACGTATTGGTACGTGTAGATA
AATTTATCTTTCCTGTTGACTTTGTGATTCTAGACTTTGAAGCAGACAAAGAGGTGTCAATCATC
CTAAGAAGACCATTCTTAGCAACCGGAAGGACCCTTATTGATGTGCAGAAAGGCGAGCTTACTAT
GCCTGTTCAGGATGACCAGGTAACATTTAACGTTTTTAAGT
Found at i:27634341 original size:22 final size:22
Alignment explanation
Indices: 27634299--27634343 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
27634289 TTATTAACCC
*
27634299 AAATTAAATTGTATATAAATTA
1 AAATTAAATTATATATAAATTA
*
27634321 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATA-TATAAATTA
27634343 A
1 A
27634344 TACATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAATTAAATTATATATAAATTA
Found at i:27637648 original size:44 final size:44
Alignment explanation
Indices: 27637596--27637748 Score: 128
Period size: 44 Copynumber: 3.3 Consensus size: 44
27637586 CTTACCTCCC
*
27637596 TAAAGTTGTAGTGGAGTAAGATAAAACTACAAATCCTATATCCT
1 TAAAGTTGCAGTGGAGTAAGATAAAACTACAAATCCTATATCCT
* * * * * * * *
27637640 TGAAGTTGTAGTGGAAT-GGATTGAAATTACAGTAGCGAATCTTATCTCCC
1 TAAAGTTGCAGTGGAGTAAGA-T-AAA--AC--TA-CAAATCCTATATCCT
* * *
27637690 TAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCT
1 TAAAGTTGCAGTGGAGTAAGATAAAACTACAAATCCTATATCCT
27637734 TAAAGTTGCAGTGGA
1 TAAAGTTGCAGTGGA
27637749 ATGGATTGAA
Statistics
Matches: 83, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
43 2 0.02
44 42 0.51
45 5 0.06
47 3 0.04
49 4 0.05
50 25 0.30
51 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
TAAAGTTGCAGTGGAGTAAGATAAAACTACAAATCCTATATCCT
Found at i:27637703 original size:94 final size:93
Alignment explanation
Indices: 27637539--27638084 Score: 499
Period size: 94 Copynumber: 5.8 Consensus size: 93
27637529 AGTGACTCCC
* * ** * * * *
27637539 ATATCCTTGAAGATGTAGTGGATCAGATCAAAATTACAATTGAAAATCTTACCTCCCTAAAGTTG
1 ATATCCTTGAAGTTGTAGTGGAT-GGATTGAAATTACAGTAGCAAATCTTATCTCCCTAAAGTTG
* * *
27637604 TAGTGGAGTAAGATAAAACTACAAATCCT
65 CAGTGGAGCAAGATAAAGCTACAAATCCT
*
27637633 ATATCCTTGAAGTTGTAGTGGAATGGATTGAAATTACAGTAGCGAATCTTATCTCCCTAAAGTTG
1 ATATCCTTGAAGTTGTAGTGG-ATGGATTGAAATTACAGTAGCAAATCTTATCTCCCTAAAGTTG
*
27637698 CAGTGGAGCAAGATGAAGCTACAAATCCT
65 CAGTGGAGCAAGATAAAGCTACAAATCCT
* * ** * * *
27637727 ATATCCTTAAAGTTGCAGTGGAATGGATTGAAATTATTGTAGCAAATATTATCTCCCTGAAGTTA
1 ATATCCTTGAAGTTGTAGTGG-ATGGATTGAAATTACAGTAGCAAATCTTATCTCCCTAAAGTTG
* * * *
27637792 CAGTGGAGCAAGATGAAGTTAGAAACCCT
65 CAGTGGAGCAAGATAAAGCTACAAATCCT
* * * * * * * *
27637821 ATATCCTTAAAATTATAGTGGCAGGGATTAAAATTACAGTAGCAAATCCTATCTCCCTGAAGGTG
1 ATATCCTTGAAGTTGTAGTGG-ATGGATTGAAATTACAGTAGCAAATCTTATCTCCCTAAAGTTG
* *
27637886 CAATGGAGCAAGGTAAAGCTACAAATCCT
65 CAGTGGAGCAAGATAAAGCTACAAATCCT
* * * * * *
27637915 ATACCCTTGAAGTTGCAGTGGGTCGGGA-TGAAGTTACCA-TGGCAAATCTTATCTCCTTAAAGT
1 ATATCCTTGAAGTTGTAGTGGAT--GGATTGAAATTA-CAGTAGCAAATCTTATCTCCCTAAAGT
** * *
27637978 TGCAGTGGAGCAAGATAAAATTATAAATTCT
63 TGCAGTGGAGCAAGATAAAGCTACAAATCCT
* * * * ** * *
27638009 ATA-CCTCTGAAGTAGT-G-GGTTGGAGTGAAACTACAACAGCAAATCTTATCTCCTTGAAGTTG
1 ATATCCT-TGAAGTTGTAGTGGATGGATTGAAATTACAGTAGCAAATCTTATCTCCCTAAAGTTG
* *
27638071 CAATGAAGCAAGAT
65 CAGTGGAGCAAGAT
27638085 GTAACTGTGA
Statistics
Matches: 373, Mismatches: 72, Indels: 17
0.81 0.16 0.04
Matches are distributed among these distances:
90 5 0.01
91 41 0.11
92 3 0.01
93 4 0.01
94 313 0.84
95 7 0.02
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (93 bp):
ATATCCTTGAAGTTGTAGTGGATGGATTGAAATTACAGTAGCAAATCTTATCTCCCTAAAGTTGC
AGTGGAGCAAGATAAAGCTACAAATCCT
Found at i:27643698 original size:183 final size:183
Alignment explanation
Indices: 27643385--27643755 Score: 715
Period size: 183 Copynumber: 2.0 Consensus size: 183
27643375 TAATTATGGA
* *
27643385 AAATTTGGTATCCAAATAGCATAAATGTGAAACATCTGAGAACAGTAAAGAGATGCAACTTGCAC
1 AAATCTGGTATCCAAATAGCATAAATGTGAAACATCTGAGAACAGTAAAGAGATGCAACTCGCAC
27643450 GGATTAAAAGTTGGAACAAATTTTCATTGACAGAACTCTTCCTGTAAGGTGCCATGCATGTCAGA
66 GGATTAAAAGTTGGAACAAATTTTCATTGACAGAACTCTTCCTGTAAGGTGCCATGCATGTCAGA
*
27643515 AATACAAACAATATAATATGGCATCACTATATGGTCACTGAAATATATGAAAT
131 AATACAAACAATATAATATGGCATCACTATATGGTCACTGAAATATATAAAAT
27643568 AAATCTGGTATCCAAATAGCATAAATGTGAAACATCTGAGAACAGTAAAGAGATGCAACTCGCAC
1 AAATCTGGTATCCAAATAGCATAAATGTGAAACATCTGAGAACAGTAAAGAGATGCAACTCGCAC
27643633 GGATTAAAAGTTGGAACAAATTTTCATTGACAGAACTCTTCCTGTAAGGTGCCATGCATGTCAGA
66 GGATTAAAAGTTGGAACAAATTTTCATTGACAGAACTCTTCCTGTAAGGTGCCATGCATGTCAGA
27643698 AATACAAACAATATAATATGGCATCACTATATGGTCACTGAAATATATAAAAT
131 AATACAAACAATATAATATGGCATCACTATATGGTCACTGAAATATATAAAAT
27643751 AAATC
1 AAATC
27643756 ATAATTTATT
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 185 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (183 bp):
AAATCTGGTATCCAAATAGCATAAATGTGAAACATCTGAGAACAGTAAAGAGATGCAACTCGCAC
GGATTAAAAGTTGGAACAAATTTTCATTGACAGAACTCTTCCTGTAAGGTGCCATGCATGTCAGA
AATACAAACAATATAATATGGCATCACTATATGGTCACTGAAATATATAAAAT
Found at i:27649598 original size:16 final size:15
Alignment explanation
Indices: 27649563--27649598 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
27649553 AGACCTTTTA
27649563 TTAAACAAAAAAGGT
1 TTAAACAAAAAAGGT
*
27649578 TTAAACAGAAAAGGT
1 TTAAACAAAAAAGGT
27649593 TCTAAA
1 T-TAAA
27649599 ATATGGTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.22
Consensus pattern (15 bp):
TTAAACAAAAAAGGT
Found at i:27658876 original size:69 final size:69
Alignment explanation
Indices: 27658762--27659204 Score: 539
Period size: 69 Copynumber: 6.4 Consensus size: 69
27658752 ATAATGATAA
* * *
27658762 GCAGGGGTGCTTGGAACAGAATCTGCAAAAATAGATGAGCTCTTCCCCTTGAACATGTTATCTGC
1 GCAGGAGTGCTTGGAACAGAATCTGCAAAAATAGATGAACCCTTCCCCTTGAACATGTTATCTGC
27658827 ATAG
66 ATAG
* * * *
27658831 GCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAACCCTTCCCCTTGAACAAGTTATCTGC
1 GCAGGAGTGCTTGGAACAGAATCTGCAAAAATAGATGAACCCTTCCCCTTGAACATGTTATCTGC
27658896 ATAG
66 ATAG
* * * ** * *
27658900 GCAGGAGTGCTTGGAACAGAATCTCCAAATATGGATGAACCCTGACCCTTAAACAAGTTATCTGC
1 GCAGGAGTGCTTGGAACAGAATCTGCAAAAATAGATGAACCCTTCCCCTTGAACATGTTATCTGC
27658965 ATAG
66 ATAG
* * * * *
27658969 GCAGGAGTGCTTGGAACAGAATCTGCAAACAA-GGACGAACTCTTCCCCTTAAACATGCTATCTG
1 GCAGGAGTGCTTGGAACAGAATCTGCAAA-AATAGATGAACCCTTCCCCTTGAACATGTTATCTG
27659033 CATAG
65 CATAG
* * * *
27659038 GCCGGAGTGCTTGGAACAGAATCTGCAAAAACAGATGAGCCCTTCCCCTGGAACATGTTATCTGC
1 GCAGGAGTGCTTGGAACAGAATCTGCAAAAATAGATGAACCCTTCCCCTTGAACATGTTATCTGC
*
27659103 ATAA
66 ATAG
* * ** * * * * *
27659107 GCAGGGGTGCTTGGAACAGATTCCCCAAAAACAGATGAGCTCTT-CCCTTGGAACATGTCACCTG
1 GCAGGAGTGCTTGGAACAGAATCTGCAAAAATAGATGAACCCTTCCCCTT-GAACATGTTATCTG
*
27659171 CGTAG
65 CATAG
*
27659176 GCAGGGGTGCTTGGAACAGAATCTGCAAA
1 GCAGGAGTGCTTGGAACAGAATCTGCAAA
27659205 CAATGGACCT
Statistics
Matches: 328, Mismatches: 43, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
68 6 0.02
69 321 0.98
70 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (69 bp):
GCAGGAGTGCTTGGAACAGAATCTGCAAAAATAGATGAACCCTTCCCCTTGAACATGTTATCTGC
ATAG
Found at i:27659123 original size:207 final size:208
Alignment explanation
Indices: 27658762--27659212 Score: 611
Period size: 207 Copynumber: 2.2 Consensus size: 208
27658752 ATAATGATAA
* * * * *
27658762 GCAGGGGTGCTTGGAACAGAATCTGCAAA-AATAGATGAGCTCTTCCCCTTGAACATGTTATCTG
1 GCAGGGGTGCTTGGAACAGAATCTGCAAACAATGGACGAACTCTTCCCCTTAAACATGCTATCTG
* ** *
27658826 CATAGGCAGGAGTGCTTGGAACAGAATCTGCAAATATGGACGAACCCTTCCCCTTGAACAAGTTA
66 CATAGGCAGGAGTGCTTGGAACAGAATCTGCAAAAACAGACGAACCCTTCCCCTGGAACAAGTTA
* * * **
27658891 TCTGCATAGGCAGGAGTGCTTGGAACAGAATCTCCAAATATGGATGAACCCTGACCCTT-AAACA
131 TCTGCATAAGCAGGAGTGCTTGGAACAGAATCCCCAAAAACAGATGAACCCT-ACCCTTGAAACA
* *
27658955 AGTTATCTGCATAG
195 AGTCACCTGCATAG
*
27658969 GCAGGAGTGCTTGGAACAGAATCTGCAAACAA-GGACGAACTCTTCCCCTTAAACATGCTATCTG
1 GCAGGGGTGCTTGGAACAGAATCTGCAAACAATGGACGAACTCTTCCCCTTAAACATGCTATCTG
* * * *
27659033 CATAGGCCGGAGTGCTTGGAACAGAATCTGCAAAAACAGATGAGCCCTTCCCCTGGAACATGTTA
66 CATAGGCAGGAGTGCTTGGAACAGAATCTGCAAAAACAGACGAACCCTTCCCCTGGAACAAGTTA
* * * * * * *
27659098 TCTGCATAAGCAGGGGTGCTTGGAACAGATTCCCCAAAAACAGATGAGCTCTTCCCTTGGAACAT
131 TCTGCATAAGCAGGAGTGCTTGGAACAGAATCCCCAAAAACAGATGAACCCTACCCTTGAAACAA
*
27659163 GTCACCTGCGTAG
196 GTCACCTGCATAG
27659176 GCAGGGGTGCTTGGAACAGAATCTGCAAACAATGGAC
1 GCAGGGGTGCTTGGAACAGAATCTGCAAACAATGGAC
27659213 CTTTCCCAGG
Statistics
Matches: 211, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
206 5 0.02
207 200 0.95
208 6 0.03
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (208 bp):
GCAGGGGTGCTTGGAACAGAATCTGCAAACAATGGACGAACTCTTCCCCTTAAACATGCTATCTG
CATAGGCAGGAGTGCTTGGAACAGAATCTGCAAAAACAGACGAACCCTTCCCCTGGAACAAGTTA
TCTGCATAAGCAGGAGTGCTTGGAACAGAATCCCCAAAAACAGATGAACCCTACCCTTGAAACAA
GTCACCTGCATAG
Found at i:27673978 original size:6 final size:6
Alignment explanation
Indices: 27673967--27674014 Score: 78
Period size: 6 Copynumber: 7.7 Consensus size: 6
27673957 GGTTTTCTTC
27673967 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATGG AGAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAAA
27674015 CATTTAGACA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 32 0.80
7 4 0.10
8 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:27675328 original size:3 final size:3
Alignment explanation
Indices: 27675320--27675359 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
27675310 GATTTAGTCC
*
27675320 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
27675360 GCCTATTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:27679950 original size:28 final size:27
Alignment explanation
Indices: 27679894--27679951 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
27679884 AAGAAAAAAG
* * **
27679894 AAAAATCAAAGTCAAAATGAAAATGAA
1 AAAAATCAAAATCAAAATAAAAAACAA
27679921 AAAAATCAAAAATCAAAATAAAAAACAA
1 AAAAATC-AAAATCAAAATAAAAAACAA
27679949 AAA
1 AAA
27679952 GAAGAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.74, C:0.09, G:0.05, T:0.12
Consensus pattern (27 bp):
AAAAATCAAAATCAAAATAAAAAACAA
Found at i:27680938 original size:7 final size:7
Alignment explanation
Indices: 27680926--27680967 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
27680916 TCTGAGTCAA
27680926 AAAAATG
1 AAAAATG
27680933 AAAAATG
1 AAAAATG
*
27680940 -AGAATG
1 AAAAATG
27680946 AAAAATG
1 AAAAATG
*
27680953 -AAAACG
1 AAAAATG
27680959 AAAAATG
1 AAAAATG
27680966 AA
1 AA
27680968 GAGGCTAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:27680947 original size:13 final size:13
Alignment explanation
Indices: 27680927--27680967 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
27680917 CTGAGTCAAA
27680927 AAAATGAAAAATG
1 AAAATGAAAAATG
*
27680940 AGAATGAAAAATG
1 AAAATGAAAAATG
*
27680953 AAAACGAAAAATG
1 AAAATGAAAAATG
27680966 AA
1 AA
27680968 GAGGCTAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.68, C:0.02, G:0.17, T:0.12
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:27682248 original size:44 final size:44
Alignment explanation
Indices: 27682185--27683740 Score: 659
Period size: 44 Copynumber: 35.8 Consensus size: 44
27682175 TGTTCCCAGA
*
27682185 AGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGGTTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* *
27682229 AGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* * * *
27682273 AGTGGAGCAGATTGAAG-CTAGTA-ACCCTATCTCCCTGAGATTAT
1 AGTGGAGCAGATTGAAGAC-AG-AGATCTTATCTCCCTGAGGTTAC
** * * * * *
27682317 AGTGGAGTGGATT-AAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTGAGGTTAC
* * * * * * * *
27682361 AGTAGAGTAGATCGTA-TCAG-G-TTTTATCTCCTTGAGATTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* * * * * *
27682402 AGCGGAGCAGATTAAAGATATTA-ATCCTATCTCCCTGAGATTAC
1 AGTGGAGCAGATTGAAGACA-GAGATCTTATCTCCCTGAGGTTAC
** * * * * *
27682446 AGTGGAGTGGATT-AAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTGAGGTTAC
* * * * * *
27682490 AGTAGAGTAGATCGTA-TCAG-G-TCTTATCTCCCTGAGATTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* * * *
27682531 AGCGGAGCAAATTGAAG-CTAGTA-ATCCTATCTCCCTGAGATTAC
1 AGTGGAGCAGATTGAAGAC-AG-AGATCTTATCTCCCTGAGGTTAC
* * * * *
27682575 AGTGGAGCGGATT-AAAATAAAGGATCTTATCTCTCTGAGGTTAC
1 AGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTGAGGTTAC
* * * * * *
27682619 AGTAGAGTAGA-TCATA-TCAG-G-TCTTATCTCTCTGAGATTAC
1 AGTGGAGCAGATTGA-AGACAGAGATCTTATCTCCCTGAGGTTAC
** * * *
27682660 AGCAGAGCATATTGAAG-CTAGTA-ATCCTATCTCCCTGAGATTAC
1 AGTGGAGCAGATTGAAGAC-AG-AGATCTTATCTCCCTGAGGTTAC
* * * * * *
27682704 AGTGGAGCGGATT-AAAATAAATGATCTTATCTCTCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTGAGGTTAC
** * * * * * *
27682748 AGCAGAGTAGATCGCA-TCAG-G-TATTATCTCCCTAAGGTTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* ** *
27682789 AGTGGAGTAGACCGAAGA-ATTCCAGATCTTATCTCCCTGAGGTTAC
1 AGTGGAGCAGATTGAAGACA---GAGATCTTATCTCCCTGAGGTTAC
* * *
27682835 AGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* * ** * *
27682879 AGCGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
** * * * * *
27682922 AGTGGAGTGGATT-AAAATAAATGATCTTATCTCTCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTGAGGTTAC
** * * * * **
27682966 AGCAGAGTAGATCGCA-TCAG-G-TCTTATCTCTTTGAGGTTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* * * * *
27683007 AGTGGAGCAGACTAAAG-CTAGGGATCTTATCTCCCTGAGATTAT
1 AGTGGAGCAGATTGAAGAC-AGAGATCTTATCTCCCTGAGGTTAC
* * ** * *
27683051 AGCGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* * * * * * *
27683094 AGTGGAGCGGATT-AAAATAAAGGATCTCATCTCTCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTGAGGTTAC
* * * * * * *
27683138 AGTGGAGCGGATT-AAAATAAAGAATCTCATCTCTCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGAG-ATCTTATCTCCCTGAGGTTAC
* * * *
27683182 AGTAGAGTC-GATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTAC
1 AGTGGAG-CAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* ** *
27683223 AGTGGAGTAGACCGAAGA-ATTTCGA-ATCTTATCTCCCTGAGATTAC
1 AGTGGAGCAGATTGAAGACA----GAGATCTTATCTCCCTGAGGTTAC
** * * * *
27683269 AGTGGAGCAGATCCAAGA-A-ACTATCCTATCTCCCTAAAGTTAC
1 AGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTGAGGTTAC
* * * * * * *
27683312 AGTGGAGCGGATT-AAAATAAAGGATCTCATCTCTCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTGAGGTTAC
* * ** * * *
27683356 AATAGAATAGATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* *
27683397 AGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* * * * * * *
27683441 AGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* * * *
27683485 AGTGGGGCAGGTTGAATATGCA-AG-CCTTATCTCCCTGAGGTTAC
1 AGTGGAGCAGATTGAAGA--CAGAGATCTTATCTCCCTGAGGTTAC
* * *
27683529 AGTGGAGCAGATTGGAG-CTAGTA-ATCCTATCTCCCTGAAGTTAC
1 AGTGGAGCAGATTGAAGAC-AG-AGATCTTATCTCCCTGAGGTTAC
* * * * * * *
27683573 AGTGGAGCGGATT-AAAATAAAGGATCTCATCTCTCTGAAGTTAC
1 AGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTGAGGTTAC
* * * * *
27683617 AGTAGG-GTAGATCGCA-ACA-A-ATCTTATCTCCCTAAGTTTAC
1 AGT-GGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
* * ** *
27683658 AGTGGAGTAAACCGAAGA-ATTTCAGATCTTATCTCCCTGAGGTTAC
1 AGTGGAGCAGATTGAAGACA---GAGATCTTATCTCCCTGAGGTTAC
* * **
27683704 AGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCT
1 AGTGGAGCAGATTGAAGACAG-AGATCTTATCTCCCT
27683741 AAGCAGTAGT
Statistics
Matches: 1136, Mismatches: 287, Indels: 177
0.71 0.18 0.11
Matches are distributed among these distances:
40 2 0.00
41 224 0.20
42 36 0.03
43 106 0.09
44 632 0.56
45 32 0.03
46 103 0.09
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
AGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAGGTTAC
Found at i:27682415 original size:85 final size:85
Alignment explanation
Indices: 27682209--27683140 Score: 323
Period size: 85 Copynumber: 10.8 Consensus size: 85
27682199 AAGCCAGAGA
* * * ***
27682209 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCCCTGAGATTAC
1 TCTTATCTCCTTGAGATTACAGTGGAGCAGATTAAAATAAAG-GATCTTATCTCCCTGAGATTAC
* * ** *
27682273 AGTGGAGCAGATTGAAGCTA-G
65 AGTAGAGTAGATCAAATC-AGG
* * * ** *
27682294 TAACCCTATCTCCCTGAGATTATAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGA-AGT
1 T---CTTATCTCCTTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGA-T
**
27682358 TACAGTAGAGTAGATCGTATCAGG
62 TACAGTAGAGTAGATCAAATCAGG
* * * *
27682382 TTTTATCTCCTTGAGATTACAGCGGAGCAGATTAAAGATATTA--ATCCTATCTCCCTGAGATTA
1 TCTTATCTCCTTGAGATTACAGTGGAGCAGATTAAA-ATA-AAGGATCTTATCTCCCTGAGATTA
* * * *
27682445 CAGTGGAGTGGATTAAAATAAAGG
64 CAGTAGAGTAGA-TCAAAT-CAGG
* * *** *
27682469 ATCTTATCT-CTCTGA-AGTTACAGTAGAGTAGA-TCGTAT-CAGG-TCTTATCTCCCTGAGATT
1 -TCTTATCTCCT-TGAGA-TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGATT
** * * ** * *
27682529 ACAGCGGAGCAAATTGAAGCTAGTAA
63 ACAGTAGAGTAGATCAAATC-AG--G
* * * * *
27682555 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACA
1 TCTTATCTCCTTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGATTACA
*
27682620 GTAGAGTAGATCATATCAGG
66 GTAGAGTAGATCAAATCAGG
** * ** * *
27682640 TCTTATCT-CTCTGAGATTACAGCAGAGCATATTGAAGCT--AGTAATCCTATCTCCCTGAGATT
1 TCTTATCTCCT-TGAGATTACAGTGGAGCAGATT-AAAATAAAG-GATCTTATCTCCCTGAGATT
* ** * * *
27682702 ACAGTGGAGCGGATTAAAATAAATGA
63 ACAGTAGAGTAGA-TCAAAT-CA-GG
** * *** * * * *
27682728 TCTTATCT-CTCTGA-AGTTACAGCAGAGTAGA-TCGCAT-CAGG-TATTATCTCCCTAAGGTTA
1 TCTTATCTCCT-TGAGA-TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGATTA
* * *
27682788 CAGTGGAGTAGACCGAAGAATTCCAGA
64 CAGTAGAGTAGATC--A-AA-T-CAGG
* * * * ***
27682815 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATT-GAAGCCAGAGATCTTATCTCCCTGAGATTAC
1 TCTTATCTCCTTGAGATTACAGTGGAGCAGATTAAAATAAAG-GATCTTATCTCCCTGAGATTAC
** * **
27682879 AGCGGAGCAGATCGAAGA-CACTA
65 AGTAGAGTAGATC-AA-ATCA-GG
* * ** * *
27682902 TCCTATCTCCCTGA-AGTTACAGTGGAGTGGATTAAAATAAATGATCTTATCTCTCTGA-AGTTA
1 TCTTATCTCCTTGAGA-TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGA-TTA
* **
27682965 CAGCAGAGTAGATCGCATCAGG
64 CAGTAGAGTAGATCAAATCAGG
* * * * * *
27682987 TCTTATCTCTTTGAGGTTACAGTGGAGCAGACTAAAGCT-AGGGATCTTATCTCCCTGAGATTAT
1 TCTTATCTCCTTGAGATTACAGTGGAGCAGATTAAA-ATAAAGGATCTTATCTCCCTGAGATTAC
** * **
27683051 AGCGGAGCAGATCGAAGA-CACTA
65 AGTAGAGTAGATC-AA-ATCA-GG
* * * * *
27683074 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGA-AGTTA
1 TCTTATCTCCTTGAGA-TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGA-TTA
27683137 CAGT
64 CAGT
27683141 GGAGCGGATT
Statistics
Matches: 626, Mismatches: 164, Indels: 112
0.69 0.18 0.12
Matches are distributed among these distances:
84 9 0.01
85 238 0.38
86 34 0.05
87 161 0.26
88 150 0.24
89 7 0.01
90 27 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (85 bp):
TCTTATCTCCTTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCCCTGAGATTACA
GTAGAGTAGATCAAATCAGG
Found at i:27682431 original size:129 final size:129
Alignment explanation
Indices: 27682207--27683140 Score: 888
Period size: 129 Copynumber: 7.2 Consensus size: 129
27682197 TGAAGCCAGA
* * * * * * *
27682207 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA-TCAG-G-TCTTATCTCCCTGAGATTA
* * * *
27682272 CAGTGGAGCAGATTGAAGCTAGTAACCCTATCTCCCTGAGATTATAGTGGAGTGGATTAAAATAA
63 CAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
27682337 AG
128 AG
* *
27682339 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTTTTATCTCCTTGAGATTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAG
* * * *
27682404 CGGAGCAGATTAAAGATATTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAG
66 CGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
27682468 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAG
*
27682533 CGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
66 CGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
* * *
27682597 GATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCATATCAGGTCTTATCTCTCTGAGATTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAG
* * *
27682662 CAGAGCATATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAT
66 CGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
* * * * *
27682726 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTATTATCTCCCTAAGGTTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAG
* * ** * * * * ** * ***
27682791 TGGAGTAGACCGAAG-AATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATT-GAAGCC
66 CGGAGCAGATTGAAGCTAGT--A-ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAA
27682854 AG
128 AG
* ** * * * ** *
27682856 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA-AGT
1 -GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGTA-TCA-GGTCTTATCTCCCTGAGA-T
* ** ** * * * * ** ** ***
27682919 TACAGTGGAGTGGATT-AAAATAAATGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGC
61 TACAGCGGAGCAGATTGAAGCT-AGTAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGATTAAA
*
27682981 AT-CAG
124 ATAAAG
* * * * *
27682986 G-TCTTATCTCTTTGAGGTTACAGTGGAGCAGA-C-TAAAGCTAGGGATCTTATCTCCCTGAGAT
1 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGT--ATC-A-GG-TCTTATCTCCCTGAGAT
* * *
27683048 TATAGCGGAGCAGATCGAAGAC-ACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA
61 TACAGCGGAGCAGATTGAAG-CTAGTAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGATTAAA
27683110 ATAAAG
124 ATAAAG
*
27683116 GATCTCATCTCTCTGAAGTTACAGT
1 GATCTTATCTCTCTGAAGTTACAGT
27683141 GGAGCGGATT
Statistics
Matches: 671, Mismatches: 108, Indels: 47
0.81 0.13 0.06
Matches are distributed among these distances:
127 2 0.00
128 55 0.08
129 421 0.63
130 17 0.03
131 113 0.17
132 36 0.05
133 25 0.04
134 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGATTACAG
CGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
Found at i:27682936 original size:218 final size:215
Alignment explanation
Indices: 27682597--27683713 Score: 974
Period size: 218 Copynumber: 5.1 Consensus size: 215
27682587 TAAAATAAAG
* * * * * * *
27682597 GATCTTATCTCTCTGAGGTTACAGTAGAGTAGA-TCATATC-AGGTCTTATCTCTCTGAGATTAC
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGA-AGCAAGATCTTATCTCCCTGAGATTAC
** * *
27682660 AGCAGAGCATATTGAAG-CTAGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATA
65 AGTGGAGCAGATAGAAGAC-AGT-ATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATA
* * *
27682723 AATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTATTATCTCCCTAAGGTTA
127 AA-GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTA
27682788 CAGTGGAGTAGACCGAAGAATTCCA
191 CAGTGGAGTAGACCGAAGAATTCCA
*
27682813 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG-CA-AGATCTTATCTCCCTGAGATTA
* * * *
27682878 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAA
64 CAGTGGAGCAGATAGAAGACAGTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAA
* **
27682943 TGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCTTTGAGGTTACA
129 -GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
* * ** ***
27683008 GTGGAGCAGA-CTAA-AGCTAGG
193 GTGGAGTAGACCGAAGAATTCCA
* * * * ** *
27683029 GATCTTATCTCCCTGAGATTATAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA-AGTTA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG-CAAGATCTTATCTCCCTGAGA-TTA
* * * * * *
27683093 CAGTGGAGCGGATTAAAATAAAGGAT-CTCATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATA
64 CAGTGGAGCAGA-TAGAAGACAGTATCCT-ATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
* *
27683157 AAGAATCTCATCTCTCTGAAGTTACAGTAGAGTCGATCGCATCAGGTCTTATCTCCCTGAGGTTA
127 AAG-ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTA
*
27683222 CAGTGGAGTAGACCGAAGAATTTC-
191 CAGTGGAGTAGACCGAAGAATTCCA
* ** * * * *
27683246 GAATCTTATCTCCCTGAGATTACAGTGGAGCAGATCCAAGAAACTATCCTATCTCCCT-AAAGTT
1 G-ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCAA-GATCTTATCTCCCTGAGA-TT
* * * * * * * * *** ***
27683310 ACAGTGGAGCGGATTAAAATAAAGGAT-CTCATCTCTCTGAAGTTACAATAGAATAGA-TCGCAT
63 ACAGTGGAGCAGA-TAGAAGACAGTATCCT-ATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
* * * * * * * * * *
27683373 -CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGA
126 AAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAG-G-TCTTATCTCCCTGAGG
* * * *
27683437 TTACAGAGGAGCAGATCGAAG---CCACA
188 TTACAGTGGAGTAGACCGAAGAATTC-CA
* * * * * * *
27683463 AACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAG-CCTTATCTCCCTGAGGTT
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTG-A-A-GCAAGATCTTATCTCCCTGAGATT
* *
27683527 ACAGTGGAGCAGATTGGAG-CTAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
63 ACAGTGGAGCAGATAGAAGAC-AGT-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
* * * ** * *
27683591 AAAGGATCTCATCTCTCTGAAGTTACAGTAGGGTAGATCGCAACAAATCTTATCTCCCTAAGTTT
126 AAA-GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTT
* *
27683656 ACAGTGGAGTAAACCGAAGAATTTCA
190 ACAGTGGAGTAGACCGAAGAATTCCA
27683682 GATCTTATCTCCCTGAGGTTACAGTGGAGCAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAG
27683714 GTCGAAGATG
Statistics
Matches: 731, Mismatches: 137, Indels: 63
0.79 0.15 0.07
Matches are distributed among these distances:
214 1 0.00
215 58 0.08
216 217 0.30
217 95 0.13
218 255 0.35
219 75 0.10
220 30 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (215 bp):
GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCAAGATCTTATCTCCCTGAGATTACA
GTGGAGCAGATAGAAGACAGTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGA
TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTG
GAGTAGACCGAAGAATTCCA
Found at i:27683035 original size:172 final size:173
Alignment explanation
Indices: 27682470--27683140 Score: 695
Period size: 172 Copynumber: 3.9 Consensus size: 173
27682460 AAATAAAGGA
* * * * * *
27682470 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATC-AG-G-TCTTATCTCCCTGAGATTACA
1 TCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTAGAGATCTTATCTCCCTGAGATTACA
* * *
27682532 GCGGAGCAAATTGAAG-CTAGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATAA
66 GCGGAGCAGATCGAAGAC-ACTAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATAA
*
27682595 AGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATC-ATATCAGG
129 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGA-ATCAGG
* ** * *
27682640 TCTTATCTCTCTGAGATTACAGCAGAGCATATTGAAGCTAGTA-ATCCTATCTCCCTGAGATTAC
1 TCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTAG-AGATCTTATCTCCCTGAGATTAC
* * * * * * * * * ** ** *** *
27682704 AGTGGAGCGGAT-TAAAATAAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGCAT-C
65 AGCGGAGCAGATCGAAGA-CACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
* * * * *
27682766 AGG-TATTATCTCCCT-AAGGTTACAGTGGAGTAGACCGAAGAATTCCAGA
129 AGGATCTTATCTCTCTGAA-GTTACAGTAGAGTAGATC---GAA-T-CAGG
* * *
27682815 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
1 TCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTAGAGATCTTATCTCCCTGAGATTACA
* *
27682880 GCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAT
66 GCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
* *
27682944 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGG
131 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGG
* * * * *
27682987 TCTTATCTCTTTGAGGTTACAGTGGAGCAGACTAAAGCTAGGGATCTTATCTCCCTGAGATTATA
1 TCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTAGAGATCTTATCTCCCTGAGATTACA
27683052 GCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
66 GCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
*
27683116 GATCTCATCTCTCTGAAGTTACAGT
131 GATCTTATCTCTCTGAAGTTACAGT
27683141 GGAGCGGATT
Statistics
Matches: 405, Mismatches: 76, Indels: 38
0.78 0.15 0.07
Matches are distributed among these distances:
169 1 0.00
170 56 0.14
171 5 0.01
172 150 0.37
173 55 0.14
174 34 0.08
175 72 0.18
176 5 0.01
177 25 0.06
178 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (173 bp):
TCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTAGAGATCTTATCTCCCTGAGATTACA
GCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGG
Found at i:27683131 original size:390 final size:388
Alignment explanation
Indices: 27682209--27683489 Score: 1310
Period size: 390 Copynumber: 3.3 Consensus size: 388
27682199 AAGCCAGAGA
*
27682209 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAGAGATCTTATCTCCCTGAGATTACA
* * * * * *
27682274 GTGGAGCAGATTGAAGCTAGTAACCCTATCTCCCTGAGATTATAGTGGAGTGGATTAAAATAAAG
66 GCGGAGCAGATCGAAGCTACTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
* * * * *
27682339 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTTTTATCTCCTTGAGATTACAG
131 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGGTATTATCTCCCTAAGGTTACAG
* * * * * * * *
27682404 CGGAGCAGATTAAAGATATT-A-ATCCTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAA
196 TGGAGTAGA-TCAAGA-ATTCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGA-AG
* * * * * ** *
27682466 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGTA-TCA-GGTCTTATCTCCCTG-AGA
258 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAG-
* ** ** * * * * * ** **
27682527 TTACAGCGGAGCAAATTGAAGCT-AGTAATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAA
320 TTACAGTGGAGCGGATT-AAAATAAATGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGA-TCG
* *
27682590 AATAAAGG
382 CAT-CAGG
* * * * * * *
27682598 ATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCATA-TCAG-G-TCTTATCTCTCTGAGATTAC
1 -TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAGAGATCTTATCTCCCTGAGATTAC
* * * *
27682660 AGCAGAGCATATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAA
65 AGCGGAGCAGATCGAAGCTACTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAA
* * *
27682725 TGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTATTATCTCCCTAAGGTTACA
130 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGGTATTATCTCCCTAAGGTTACA
* *
27682790 GTGGAGTAGACCGAAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCA
195 GTGGAGTAGATC-AAGAATT-CAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAG-AA
*
27682855 GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTT
257 GAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTT
* *
27682920 ACAGTGGAGTGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
322 ACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
27682985 GG
387 GG
** * * * *
27682987 TCTTATCTCTTTGAGGTTACAGTGGAGCAGACTAAAGCTAGGGATCTTATCTCCCTGAGATTATA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAGAGATCTTATCTCCCTGAGATTACA
27683052 GCGGAGCAGATCGAAGAC-ACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAA
66 GCGGAGCAGATCGAAG-CTACTAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGATTAAAATAA
* * ** ** * * * *
27683114 AGGATCTCATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTCATCTCTCTGAA-G
129 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGAATCAGGTAT-T-ATCTCCCT-AAGG
* * * * **
27683178 TTACAGTAGAGTCGATC--GCA-TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
190 TTACAGTGGAGTAGATCAAGAATTCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAG
* *
27683240 AATTTCGA-ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCCAAGAAACTATCCTATCTCCCT
255 AA----GAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACACTATCCTATCTCCCT
* * * * *
27683304 AAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAATAGAATAGATC
316 GAAGTTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
27683369 GCATCAGG
381 GCATCAGG
*
27683377 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAGAGATCTTATCTCCCTGAGATTACA
* * *
27683442 GAGGAGCAGATCGAAGCCAC-AAACCTTATCTCCCTGA-AGTTACAGTGG
66 GCGGAGCAGATCGAAGCTACTAATCC-TATCTCCCTGAGA-TTACAGTGG
27683490 GGCAGGTTGA
Statistics
Matches: 751, Mismatches: 112, Indels: 55
0.82 0.12 0.06
Matches are distributed among these distances:
386 3 0.00
387 149 0.20
388 70 0.09
389 73 0.10
390 311 0.41
391 115 0.15
392 6 0.01
393 22 0.03
394 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (388 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAGAGATCTTATCTCCCTGAGATTACA
GCGGAGCAGATCGAAGCTACTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGAATCAGGTATTATCTCCCTAAGGTTACAG
TGGAGTAGATCAAGAATTCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATTGAAGAAGAGA
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
Found at i:27683341 original size:174 final size:173
Alignment explanation
Indices: 27683122--27683489 Score: 535
Period size: 174 Copynumber: 2.1 Consensus size: 173
27683112 AAAGGATCTC
* *
27683122 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTCATCTCTCTGAAGTTACAGTAG
1 ATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTCATCTCTCTGAAGTTACAATAG
* * * *
27683187 AGTCGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCGA-AT
66 AATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGCCA----GAGAT
* * *
27683250 CTTATCTCCCTGAGATTACAGTGGAGCAGATCCAAGAAACTATCC-T
127 CTTATCTCCCTGAGATTACAGAGGAGCAGATCCAAGAAACAAACCTT
* *
27683296 ATCTCCCTAAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAATAG
1 ATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTCATCTCTCTGAAGTTACAATAG
**
27683361 AATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTA
66 AATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGCCAGAGATCTTA
* **
27683426 TCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTT
131 TCTCCCTGAGATTACAGAGGAGCAGATCCAAGAAACAAACCTT
27683469 ATCTCCCTGAAGTTACAGTGG
1 ATCTCCCTGAAGTTACAGTGG
27683490 GGCAGGTTGA
Statistics
Matches: 174, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
171 2 0.01
172 41 0.24
173 21 0.12
174 109 0.63
175 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (173 bp):
ATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTCATCTCTCTGAAGTTACAATAG
AATAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGCCAGAGATCTTA
TCTCCCTGAGATTACAGAGGAGCAGATCCAAGAAACAAACCTT
Found at i:27683763 original size:44 final size:44
Alignment explanation
Indices: 27683704--27684236 Score: 343
Period size: 44 Copynumber: 12.3 Consensus size: 44
27683694 CTGAGGTTAC
* *
27683704 AGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGT
* * * * * *
27683748 AGTGGAGCAGATCGAAAATAGCAAATCTCATCTTCCTAAGGAGT
1 AGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGT
* ** **** *
27683792 AGTGCAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGT
* * * * * * *
27683835 AGTGGAGTAGGTCAAATATGGTAGATCCTATCTCCCTAAGTAGT
1 AGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGT
* *
27683879 AGTGGAGCAGATCG--CA--CCA-AGTCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGGCAGA-TCTTATCTCCCTAAGCAGT
*** * ** *
27683919 AGTGGAGCAGA-CAGAAGAAACCA-ATCCTATCTCCCTAAAGTTGC
1 AGTGGAGCAGATC-GAAGATGGCAGATCTTATCTCCCT-AAGCAGT
* * * * *
27683963 AGTGGAGCGGAT-TAAAATGGTAGATCTTATCTTCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGT
* * * * *
27684006 AGTGGAGCAAATCGAAAATGGCAAATCTCATCTTCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGT
* ** **** *
27684050 AGTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGT
* * * *
27684093 AATGGAGCAGATCGAAGACGGC-GAATCTCATCTTCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGGCAG-ATCTTATCTCCCTAAGCAGT
* * *** *
27684137 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGT
* * * * *
27684181 AATGGAGCAGATCGAAGACGGC-GAATCTCATCTTCCTAAGCAGA
1 AGTGGAGCAGATCGAAGATGGCAG-ATCTTATCTCCCTAAGCAGT
*
27684225 AGTGAAGCAGAT
1 AGTGGAGCAGAT
27684237 TTAAGCCACC
Statistics
Matches: 365, Mismatches: 109, Indels: 30
0.72 0.22 0.06
Matches are distributed among these distances:
39 2 0.01
40 30 0.08
42 3 0.01
43 89 0.24
44 240 0.66
45 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (44 bp):
AGTGGAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGT
Found at i:27683834 original size:87 final size:87
Alignment explanation
Indices: 27683732--27684265 Score: 498
Period size: 87 Copynumber: 6.2 Consensus size: 87
27683722 TGGTAGATCT
* * *
27683732 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATAGCAAATCTCATCTTCCTAAGGAGTAGTGC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTCATCTTCCTAAGCAGTAGTGG
27683797 AGCAGATTTAAGCCACCAGTCC
66 AGCAGATTTAAGCCACCAGTCC
* * * * * *
27683819 TATCTCCCTAAGCAGTAGTGGAGTAGGTC-AAATATGGTAGATC-CTATCTCCCTAAGTAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-ATGGCAAATCTC-ATCTTCCTAAGCAGTAGT
* *
27683882 GGAGCAGA--T-CG-CACCAAGTCT
64 GGAGCAGATTTAAGCCACC-AGTCC
* * * ** *
27683903 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAA--ACCAATC-CTATCTCCCTAAAGTTGCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAA-AATGGCAAATCTC-ATCTTCCT-AAGCAGTA
* * ** * *
27683964 GTGGAGCGGATTAAAATGGTA-GA-TCT
62 GTGGAGCAGATT-TAA-GCCACCAGTCC
* * *
27683990 TATCTTCCTAAGCAGTAGTGGAGCAAATCGAAAATGGCAAATCTCATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTCATCTTCCTAAGCAGTAGTGG
27684055 AGCAGATTTAAGCCACCAGTCC
66 AGCAGATTTAAGCCACCAGTCC
* * * *
27684077 TATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTCATCTTCCTAAGCAGTAGTGG
* ** ** **
27684142 AGCAGGTCAAAGATATTAGATCC
66 AGCAGATTTAAGCCACCAG-TCC
* * * * * *
27684165 TATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGAAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTCATCTTCCTAAGCAGTAGTGG
*
27684230 AGCAGATTTAAGCCACCGGTCC
66 AGCAGATTTAAGCCACCAGTCC
27684252 TATCTCCCTAAGCA
1 TATCTCCCTAAGCA
27684266 NAAATATCAT
Statistics
Matches: 365, Mismatches: 62, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
83 18 0.05
84 45 0.12
85 6 0.02
86 10 0.03
87 192 0.53
88 91 0.25
89 2 0.01
90 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (87 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAAATCTCATCTTCCTAAGCAGTAGTGG
AGCAGATTTAAGCCACCAGTCC
Found at i:27684175 original size:131 final size:131
Alignment explanation
Indices: 27683704--27684192 Score: 501
Period size: 131 Copynumber: 3.8 Consensus size: 131
27683694 CTGAGGTTAC
* *
27683704 AGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATAG
1 AGTGGAGCAGATCGAAGATGGTAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATAG
* * *
27683769 CAAATCTCATCTTCCTAAGGAGTAGTGCAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAG
66 CAAATCTCATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAG
27683834 T
131 T
* * * * * *
27683835 AGTGGAGTAGGTCAAATATGGTAGATC-CTATCTCCCTAAGTAGTAGTGGAGCAGATCG----CA
1 AGTGGAGCAGATCGAAGATGGTAGATCTC-ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATA
* * * *** ** * *
27683895 CCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGT
65 GCAAATCTCATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCAGTCCTATCTCCCT-AAGC
* *
27683960 TGC
129 AGT
* * * * * * *
27683963 AGTGGAGCGGAT-TAAAATGGTAGATCTTATCTTCCTAAGCAGTAGTGGAGCAAATCGAAAATGG
1 AGTGGAGCAGATCGAAGATGGTAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATAG
* *
27684027 CAAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAG
66 CAAATCTCATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAG
27684092 T
131 T
* * * * *
27684093 AATGGAGCAGATCGAAGACGG-CGAATCTCATCTTCCTAAGCAGTAGTGGAGCAGGTC-AAAGAT
1 AGTGGAGCAGATCGAAGATGGTAG-ATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-AT
** * *
27684156 ATTAGATC-CTATCTCCCTAAGCAGTAATGGAGCAGAT
64 AGCAAATCTC-ATCTCCCTAAGCAGTAGTGGAGCAGAT
27684193 CGAAGACGGC
Statistics
Matches: 285, Mismatches: 62, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
127 87 0.31
128 13 0.05
130 19 0.07
131 166 0.58
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (131 bp):
AGTGGAGCAGATCGAAGATGGTAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATAG
CAAATCTCATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAG
T
Found at i:27685382 original size:27 final size:28
Alignment explanation
Indices: 27685352--27685408 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
27685342 TTTCATGATT
*
27685352 TTGTTAATATA-ATAATTTTA-GTGTTAA
1 TTGTGAATATATATAATTTTATGT-TTAA
* *
27685379 TTGTGAATTTATTTAATTTTATGTTTAA
1 TTGTGAATATATATAATTTTATGTTTAA
27685407 TT
1 TT
27685409 TGCCAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 9 0.36
28 14 0.56
29 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (28 bp):
TTGTGAATATATATAATTTTATGTTTAA
Found at i:27686159 original size:23 final size:23
Alignment explanation
Indices: 27686132--27686175 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
27686122 GGGTTTGAGT
*
27686132 AAAAATATAAGTCCGAATTTGAA
1 AAAAATATAAGCCCGAATTTGAA
27686155 AAAAATATAAGCCCGAATTTG
1 AAAAATATAAGCCCGAATTTG
27686176 CCACCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (23 bp):
AAAAATATAAGCCCGAATTTGAA
Found at i:27686226 original size:11 final size:11
Alignment explanation
Indices: 27686211--27686249 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
27686201 TTTTTTTTAC
27686211 TATTTTGCTAT
1 TATTTTGCTAT
* *
27686222 CATTTCGCTAT
1 TATTTTGCTAT
*
27686233 TATATTGCTAT
1 TATTTTGCTAT
27686244 TATTTT
1 TATTTT
27686250 ATTGTTATTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.59
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:27686738 original size:18 final size:19
Alignment explanation
Indices: 27686705--27686741 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
27686695 AAGACATTTT
27686705 CCGTGCTCTCCTCTCTATC
1 CCGTGCTCTCCTCTCTATC
27686724 CCGTGCTCT-CTCTCTATC
1 CCGTGCTCTCCTCTCTATC
27686742 GCCTCCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.05, C:0.46, G:0.11, T:0.38
Consensus pattern (19 bp):
CCGTGCTCTCCTCTCTATC
Found at i:27687096 original size:14 final size:15
Alignment explanation
Indices: 27687074--27687111 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
27687064 CAATCAAACA
27687074 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
27687088 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
27687103 ACAGAAAAT
1 CCAGAAAAT
27687112 TAAAACATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:27687133 original size:34 final size:35
Alignment explanation
Indices: 27687078--27687145 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
27687068 CAAACACCAG
*
27687078 AAAATATTTTCCAGTAAATCATTTTACAGAAAATT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAATT
* *
27687113 AAAACATTTTCCCG-AAATCATTTTACGGAAAAT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAT
27687146 ATTTTACTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAATT
Found at i:27690537 original size:2 final size:2
Alignment explanation
Indices: 27690530--27690561 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27690520 ATTCCTACAA
27690530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27690562 TACAAATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27696320 original size:28 final size:28
Alignment explanation
Indices: 27696265--27696329 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
27696255 CAGAAACTCT
* * * *
27696265 TTTA-TTATTATTTGTTTTAAATTTTTA
1 TTTATTTATTATTTATTGTAAACTATTA
27696292 TTTATTTATTATTTATTGTAAACTATTA
1 TTTATTTATTATTTATTGTAAACTATTA
* *
27696320 TATATATATT
1 TTTATTTATT
27696330 TAAATTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTATTTATTATTTATTGTAAACTATTA
Found at i:27696378 original size:19 final size:18
Alignment explanation
Indices: 27696354--27696399 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
27696344 ATATATGTAC
27696354 ATACATATATT-TTTGTGAT
1 ATACATATATTGTTT-T-AT
*
27696373 ATACATACATTGTTTTAT
1 ATACATATATTGTTTTAT
27696391 A-ACATATAT
1 ATACATATAT
27696400 ATATACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 11 0.46
20 3 0.12
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.48
Consensus pattern (18 bp):
ATACATATATTGTTTTAT
Found at i:27699854 original size:21 final size:21
Alignment explanation
Indices: 27699821--27699861 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27699811 TGGAAACATG
** *
27699821 AATGATTTTAATGATAATCCA
1 AATGATTGCAATGAAAATCCA
27699842 AATGATTGCAATGAAAATCC
1 AATGATTGCAATGAAAATCC
27699862 TTCCGTTGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (21 bp):
AATGATTGCAATGAAAATCCA
Found at i:27702583 original size:19 final size:19
Alignment explanation
Indices: 27702559--27702595 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27702549 TAATGACAAC
*
27702559 AATGATTTATTATTAAACG
1 AATGATCTATTATTAAACG
27702578 AATGATCTATTATTAAAC
1 AATGATCTATTATTAAAC
27702596 AGTGACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (19 bp):
AATGATCTATTATTAAACG
Found at i:27710089 original size:23 final size:23
Alignment explanation
Indices: 27710063--27710107 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
27710053 GTGCATCTAG
*
27710063 GTTGCATTTTGTATGATCATTTT
1 GTTGCATTTTGCATGATCATTTT
*
27710086 GTTGCATTTTGCATGTTCATTT
1 GTTGCATTTTGCATGATCATTT
27710108 GGTATAGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.56
Consensus pattern (23 bp):
GTTGCATTTTGCATGATCATTTT
Found at i:27710318 original size:14 final size:14
Alignment explanation
Indices: 27710299--27710325 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27710289 AAAAATGGGA
27710299 TGTCTTATACTCTG
1 TGTCTTATACTCTG
27710313 TGTCTTATACTCT
1 TGTCTTATACTCT
27710326 ATGGTTTTTT
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:0.15, C:0.22, G:0.11, T:0.52
Consensus pattern (14 bp):
TGTCTTATACTCTG
Found at i:27717621 original size:27 final size:27
Alignment explanation
Indices: 27717591--27717648 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
27717581 GTCACTCCCA
27717591 AAGAAATAACTGTTATTCCACTTGTAC
1 AAGAAATAACTGTTATTCCACTTGTAC
27717618 AAGAAATAACTGTTATTCCACTTGTAC
1 AAGAAATAACTGTTATTCCACTTGTAC
27717645 AAGA
1 AAGA
27717649 TAAGGAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (27 bp):
AAGAAATAACTGTTATTCCACTTGTAC
Found at i:27724093 original size:17 final size:19
Alignment explanation
Indices: 27724071--27724105 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27724061 AAATGTGGTA
27724071 TATTG-AATGG-TAATTAT
1 TATTGAAATGGTTAATTAT
27724088 TATTGAAATGGTTAATTA
1 TATTGAAATGGTTAATTA
27724106 AATAACATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (19 bp):
TATTGAAATGGTTAATTAT
Found at i:27724727 original size:27 final size:27
Alignment explanation
Indices: 27724670--27724729 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
27724660 TTGTCCCGAT
* *
27724670 GGACTATCCCCTGATTACCATCCTAGT
1 GGACTATCCCATGATTACCATCCTAGC
* * *
27724697 GGACTATCCCATGATTACCGTCTTGGC
1 GGACTATCCCATGATTACCATCCTAGC
27724724 GGACTA
1 GGACTA
27724730 CCCTACCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (27 bp):
GGACTATCCCATGATTACCATCCTAGC
Found at i:27724931 original size:56 final size:56
Alignment explanation
Indices: 27724842--27724949 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
27724832 ATCCCCATGT
* * *
27724842 TTAATGTCCTGGCAGACTTTAACGAATGCCATAGTCGAGCTATGGTCTTACAATGG
1 TTAATGTCATGGAAGAATTTAACGAATGCCATAGTCGAGCTATGGTCTTACAATGG
* * * *
27724898 TTAATGTCATGGAAGAATTTAACGGATGTCATAGTCGGGGTATGGTCTTACA
1 TTAATGTCATGGAAGAATTTAACGAATGCCATAGTCGAGCTATGGTCTTACA
27724950 CATGTAATCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (56 bp):
TTAATGTCATGGAAGAATTTAACGAATGCCATAGTCGAGCTATGGTCTTACAATGG
Found at i:27728664 original size:93 final size:96
Alignment explanation
Indices: 27728465--27728664 Score: 225
Period size: 93 Copynumber: 2.1 Consensus size: 96
27728455 AGCCCTCAAA
*
27728465 CTTTAAAAAATAAAAAAAGCAATTAAGCCTCTCCTCATTTTTTGCACTCAACTGAGCACTTAAAC
1 CTTT-AAAAA-AAAAAAAGCAATTAAGCCTCTCCTCATTTTTTCCACTCAACTGAGCACTTAAAC
* *
27728530 TTTCAAAATGCATCAAAAAAGGCCCTCAAACTT
64 TTTCAAAATGCATCAAAAAAGACCCTCAAAATT
* * * * * *
27728563 CTTT--AAAAAAAAAAGCGATTAAGCC-CTTGCT-TTTTTTTCCACTCAATTGTGTACTTAAACT
1 CTTTAAAAAAAAAAAAGCAATTAAGCCTC-TCCTCATTTTTTCCACTCAACTGAGCACTTAAACT
*
27728624 TTCGAAATGCATC-AAAAAGA-CCTCCAAAATT
65 TTCAAAATGCATCAAAAAAGACCCT-CAAAATT
27728655 -TTTAAAAAAA
1 CTTTAAAAAAA
27728665 GCAATTAAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
91 6 0.07
92 12 0.14
93 43 0.49
94 20 0.23
95 3 0.03
98 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (96 bp):
CTTTAAAAAAAAAAAAGCAATTAAGCCTCTCCTCATTTTTTCCACTCAACTGAGCACTTAAACTT
TCAAAATGCATCAAAAAAGACCCTCAAAATT
Found at i:27728709 original size:19 final size:19
Alignment explanation
Indices: 27728685--27728746 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
27728675 CCCTACTCTT
27728685 ATTAAAAATTAGAAAAATA
1 ATTAAAAATTAGAAAAATA
* *
27728704 ATTAAAAA--ATAATAATAA
1 ATTAAAAATTAGAAAAAT-A
**
27728722 ATTAAATTTTAGAAAAATA
1 ATTAAAAATTAGAAAAATA
27728741 ATTAAA
1 ATTAAA
27728747 TTTTAATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 6 0.18
18 7 0.21
19 15 0.44
20 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
ATTAAAAATTAGAAAAATA
Found at i:27728754 original size:37 final size:37
Alignment explanation
Indices: 27728693--27728764 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
27728683 TTATTAAAAA
27728693 TTAGAAAAATAATTAAAAAATAATAATAAAT-TAAATT
1 TTAGAAAAATAATTAAAAAATAATAA-AAATATAAATT
***
27728730 TTAGAAAAATAATTAAATTTTAATAAAAATATAAA
1 TTAGAAAAATAATTAAAAAATAATAAAAATATAAA
27728765 AAATTTAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (37 bp):
TTAGAAAAATAATTAAAAAATAATAAAAATATAAATT
Found at i:27728757 original size:19 final size:19
Alignment explanation
Indices: 27728698--27728757 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
27728688 AAAAATTAGA
***
27728698 AAAATAATTAAAAAATAAT
1 AAAATAATTAAATTTTAAT
*
27728717 AATA-AATTAAATTTTAGA-
1 AAAATAATTAAATTTTA-AT
27728735 AAAATAATTAAATTTTAAT
1 AAAATAATTAAATTTTAAT
27728754 AAAA
1 AAAA
27728758 ATATAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 13 0.39
19 20 0.61
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATAATTAAATTTTAAT
Found at i:27728757 original size:20 final size:20
Alignment explanation
Indices: 27728711--27728760 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27728701 ATAATTAAAA
*
27728711 AATAATAATAAATTAAATTTT
1 AATAAAAAT-AATTAAATTTT
*
27728732 -AGAAAAATAATTAAATTTT
1 AATAAAAATAATTAAATTTT
27728751 AATAAAAATA
1 AATAAAAATA
27728761 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AATAAAAATAATTAAATTTT
Found at i:27731466 original size:58 final size:58
Alignment explanation
Indices: 27731345--27731464 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 58
27731335 TAGAAATGGC
* * *
27731345 GAAAATGGAGAAATGAGAAACATTTGGAAACGAATGTGGTTTTCTCTAAAAGGAAAAT
1 GAAAATGGAGAAATGAGAAACATTTGAAAACGAATGTGGTTTTCTCCAAAAGGAAAAA
* * *
27731403 GAAAATGGAGAAATG-GAAATATTTGAAAATGAATGTGGTTTTCTCCAAAATGAAAAA
1 GAAAATGGAGAAATGAGAAACATTTGAAAACGAATGTGGTTTTCTCCAAAAGGAAAAA
27731460 GAAAA
1 GAAAA
27731465 ATAAAAAAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 41 0.73
58 15 0.27
ACGTcount: A:0.47, C:0.06, G:0.23, T:0.24
Consensus pattern (58 bp):
GAAAATGGAGAAATGAGAAACATTTGAAAACGAATGTGGTTTTCTCCAAAAGGAAAAA
Found at i:27731490 original size:57 final size:56
Alignment explanation
Indices: 27731371--27731545 Score: 159
Period size: 52 Copynumber: 3.2 Consensus size: 56
27731361 GAAACATTTG
* * * * * *
27731371 GAAACGAATGTGGTTTTCTCTAAAAGGAAAATG-AAAATGGAGAAATGGAAAT-A-TTT
1 GAAATGAATGTGGTTTTCTC-AAAATGAAAAAGAAAAAT--AAAAAAGAAAATGACTTT
27731427 GAAAATGAATGTGGTTTTCTCCAAAATGAAAAAGAAAAATAAAAAAGAAAATGACTTT
1 G-AAATGAATGTGGTTTTCT-CAAAATGAAAAAGAAAAATAAAAAAGAAAATGACTTT
** *
27731485 GAAATGAAT-T--TATGGCT--TAATGAAAAAGAAAAATAAAAAAGAAAATGACTTT
1 GAAATGAATGTGGT-TTTCTCAAAATGAAAAAGAAAAATAAAAAAGAAAATGACTTT
27731537 GAAATGAAT
1 GAAATGAAT
27731546 TTATGGCTTT
Statistics
Matches: 104, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
52 43 0.41
54 1 0.01
55 3 0.03
56 11 0.11
57 36 0.35
58 10 0.10
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.25
Consensus pattern (56 bp):
GAAATGAATGTGGTTTTCTCAAAATGAAAAAGAAAAATAAAAAAGAAAATGACTTT
Found at i:27731515 original size:52 final size:52
Alignment explanation
Indices: 27731451--27731554 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
27731441 TTTTCTCCAA
27731451 AATGAAAAAGAAAAATAAAAAAGAAAATGACTTTGAAATGAATTTATGGCTT
1 AATGAAAAAGAAAAATAAAAAAGAAAATGACTTTGAAATGAATTTATGGCTT
27731503 AATGAAAAAGAAAAATAAAAAAGAAAATGACTTTGAAATGAATTTATGGCTT
1 AATGAAAAAGAAAAATAAAAAAGAAAATGACTTTGAAATGAATTTATGGCTT
27731555 TTGAATTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.25
Consensus pattern (52 bp):
AATGAAAAAGAAAAATAAAAAAGAAAATGACTTTGAAATGAATTTATGGCTT
Found at i:27740320 original size:17 final size:17
Alignment explanation
Indices: 27740298--27740330 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27740288 GATATTGCTT
27740298 CCATATGCCACTACATG
1 CCATATGCCACTACATG
27740315 CCATATGCCACTACAT
1 CCATATGCCACTACAT
27740331 AGATTGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.24
Consensus pattern (17 bp):
CCATATGCCACTACATG
Found at i:27743354 original size:21 final size:21
Alignment explanation
Indices: 27743328--27743368 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27743318 AGCATACAAA
27743328 TTATAACTCATAATTATTTTT
1 TTATAACTCATAATTATTTTT
* **
27743349 TTATAATTTTTAATTATTTT
1 TTATAACTCATAATTATTTT
27743369 CCAAAGTCAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATAACTCATAATTATTTTT
Found at i:27743949 original size:51 final size:50
Alignment explanation
Indices: 27743887--27744064 Score: 166
Period size: 51 Copynumber: 3.5 Consensus size: 50
27743877 CCGGTTCACT
* * *
27743887 TAGTAGCCTGCACATGGTACTACACATGTGACCATTTTCATCCGATACACG
1 TAGTAGGCTGCACATAGTACTACACATGTGACCA-TATCATCCGATACACG
* * * * * *
27743938 TAGTAGGCTGCACATAGTACTACACAAGTGATCGA-AGCTAT-CTAGTACGCA
1 TAGTAGGCTGCACATAGTACTACACATGTGA-CCATATC-ATCCGA-TACACG
*
27743989 TAGTA-GCTTGCACATAGTACTACACATGCGACC-TATCATTCCGATACACG
1 TAGTAGGC-TGCACATAGTACTACACATGTGACCATATCA-TCCGATACACG
* *
27744039 TATTAGTCTGCACATAGTACTACACA
1 TAGTAGGCTGCACATAGTACTACACA
27744065 CATGACCTAG
Statistics
Matches: 101, Mismatches: 18, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
49 1 0.01
50 35 0.35
51 63 0.62
52 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGGCTGCACATAGTACTACACATGTGACCATATCATCCGATACACG
Found at i:27753792 original size:37 final size:37
Alignment explanation
Indices: 27753737--27753828 Score: 166
Period size: 37 Copynumber: 2.5 Consensus size: 37
27753727 AGCAAGGGTG
*
27753737 TTCAGACACTTAACCACTTGGAACCACTTCGAATACA
1 TTCACACACTTAACCACTTGGAACCACTTCGAATACA
*
27753774 TTCACACACTTAACCACTTGGAACCACTTGGAATACA
1 TTCACACACTTAACCACTTGGAACCACTTCGAATACA
27753811 TTCACACACTTAACCACT
1 TTCACACACTTAACCACT
27753829 AGGTTATTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.35, C:0.32, G:0.09, T:0.25
Consensus pattern (37 bp):
TTCACACACTTAACCACTTGGAACCACTTCGAATACA
Found at i:27757395 original size:17 final size:19
Alignment explanation
Indices: 27757373--27757407 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27757363 AAGAGAAAAT
27757373 ATGAG-AGAAAAA-GAAAG
1 ATGAGAAGAAAAATGAAAG
27757390 ATGAGAAGAAAAATGAAA
1 ATGAGAAGAAAAATGAAA
27757408 AAATAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 7 0.44
19 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (19 bp):
ATGAGAAGAAAAATGAAAG
Found at i:27763354 original size:53 final size:53
Alignment explanation
Indices: 27763277--27763382 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
27763267 AGATGTCTTC
27763277 AGAGTGACCCTCTTAGAAGCACACTCTAAACTGCTTGGTGTTCCACTAACCAG
1 AGAGTGACCCTCTTAGAAGCACACTCTAAACTGCTTGGTGTTCCACTAACCAG
27763330 AGAGTGACCCTCTTAGAAGCACACTCTAAACTGCTTGGTGTTCCACTAACCAG
1 AGAGTGACCCTCTTAGAAGCACACTCTAAACTGCTTGGTGTTCCACTAACCAG
27763383 TCTATACATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (53 bp):
AGAGTGACCCTCTTAGAAGCACACTCTAAACTGCTTGGTGTTCCACTAACCAG
Found at i:27765581 original size:50 final size:50
Alignment explanation
Indices: 27765506--27765613 Score: 198
Period size: 50 Copynumber: 2.2 Consensus size: 50
27765496 CAACGGGCAC
*
27765506 GAAAAGGAAAGGAACGGTAAGTGTTCAAATGAAATATATCATGTATTAAT
1 GAAAAGGAAAGGAACGGTAAGTGTTCAAATAAAATATATCATGTATTAAT
*
27765556 GAAAAGGAAAGGAATGGTAAGTGTTCAAATAAAATATATCATGTATTAAT
1 GAAAAGGAAAGGAACGGTAAGTGTTCAAATAAAATATATCATGTATTAAT
27765606 GAAAAGGA
1 GAAAAGGA
27765614 TTGAAATGGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.48, C:0.05, G:0.22, T:0.25
Consensus pattern (50 bp):
GAAAAGGAAAGGAACGGTAAGTGTTCAAATAAAATATATCATGTATTAAT
Found at i:27767515 original size:14 final size:13
Alignment explanation
Indices: 27767493--27767526 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
27767483 AAAGTATTTT
*
27767493 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
27767507 AAAAATAAAAATA
1 AAAAATAAAAATA
27767520 AAAAATA
1 AAAAATA
27767527 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:27772269 original size:4 final size:4
Alignment explanation
Indices: 27772255--27772295 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
27772245 AAATATTTGT
* *
27772255 TAAA AAAA TAAA TAAA TAAA TAAA TAATA TATA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TAAA TAAA TAAA
27772296 AACTAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:27777663 original size:20 final size:20
Alignment explanation
Indices: 27777638--27777676 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
27777628 GTAAAATAAA
27777638 AATAAAATAATAAATAAAAT
1 AATAAAATAATAAATAAAAT
27777658 AATAAAATAATAAATAAAA
1 AATAAAATAATAAATAAAA
27777677 AACCTTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AATAAAATAATAAATAAAAT
Found at i:27777676 original size:12 final size:12
Alignment explanation
Indices: 27777629--27777663 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
27777619 ATAGGTTTAG
27777629 TAAAATAA-AAA
1 TAAAATAATAAA
27777640 TAAAATAATAAA
1 TAAAATAATAAA
27777652 TAAAATAATAAA
1 TAAAATAATAAA
27777664 ATAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
TAAAATAATAAA
Found at i:27780849 original size:145 final size:145
Alignment explanation
Indices: 27780586--27780865 Score: 560
Period size: 145 Copynumber: 1.9 Consensus size: 145
27780576 TCTATAGGCC
27780586 TTAGCACGGTACCCTGCAATGTTTTGTCTTCATTCTATACAAACACTACTCTATGTCTAGAGTTT
1 TTAGCACGGTACCCTGCAATGTTTTGTCTTCATTCTATACAAACACTACTCTATGTCTAGAGTTT
27780651 ACTTCAAGTATTTGATCGAATACTCACTTGCATCATTCAATTTTGGTCTAACTAATCCAACCTTT
66 ACTTCAAGTATTTGATCGAATACTCACTTGCATCATTCAATTTTGGTCTAACTAATCCAACCTTT
27780716 TCAAATTTTTAATAG
131 TCAAATTTTTAATAG
27780731 TTAGCACGGTACCCTGCAATGTTTTGTCTTCATTCTATACAAACACTACTCTATGTCTAGAGTTT
1 TTAGCACGGTACCCTGCAATGTTTTGTCTTCATTCTATACAAACACTACTCTATGTCTAGAGTTT
27780796 ACTTCAAGTATTTGATCGAATACTCACTTGCATCATTCAATTTTGGTCTAACTAATCCAACCTTT
66 ACTTCAAGTATTTGATCGAATACTCACTTGCATCATTCAATTTTGGTCTAACTAATCCAACCTTT
27780861 TCAAA
131 TCAAA
27780866 ATTAGATTCA
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 135 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (145 bp):
TTAGCACGGTACCCTGCAATGTTTTGTCTTCATTCTATACAAACACTACTCTATGTCTAGAGTTT
ACTTCAAGTATTTGATCGAATACTCACTTGCATCATTCAATTTTGGTCTAACTAATCCAACCTTT
TCAAATTTTTAATAG
Found at i:27781756 original size:30 final size:31
Alignment explanation
Indices: 27781687--27781758 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
27781677 AATCATTGGC
* * *
27781687 TAATGAAAAGGGATAGCTTCGGCTATCAAAA
1 TAATGAAAAGGAATAACCTCGGCTATCAAAA
27781718 TAATGAAAAGGAATAACCTCGGCTATC-AAA
1 TAATGAAAAGGAATAACCTCGGCTATCAAAA
*
27781748 TTATGAAAAGG
1 TAATGAAAAGG
27781759 GATGGTGACG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 13 0.35
31 24 0.65
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.22
Consensus pattern (31 bp):
TAATGAAAAGGAATAACCTCGGCTATCAAAA
Found at i:27781788 original size:29 final size:30
Alignment explanation
Indices: 27781750--27781822 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 30
27781740 CTATCAAATT
* * *
27781750 ATGAAAAGGGATGGTGACGATCATC-AATA
1 ATGAAAAGGGATAGTGACGACCATCGAACA
27781779 ATGAAAAGGGATAGTGACGACCATCGAACA
1 ATGAAAAGGGATAGTGACGACCATCGAACA
27781809 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
27781823 CTTCGGCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 23 0.57
30 17 0.43
ACGTcount: A:0.44, C:0.11, G:0.29, T:0.16
Consensus pattern (30 bp):
ATGAAAAGGGATAGTGACGACCATCGAACA
Found at i:27781835 original size:59 final size:59
Alignment explanation
Indices: 27781688--27781835 Score: 129
Period size: 59 Copynumber: 2.5 Consensus size: 59
27781678 ATCATTGGCT
* * * *
27781688 AATGAAAAGGGATAGCTTCGGCTATCAAAATAATGAAAAGGAATAACCTCGGCTATCAAAT
1 AATGAAAAGGGATAGCTTCGGCTATC--AATAATGAAAAGGAATAACCACGACCATCAAAC
* * * * * *** *
27781749 TATGAAAAGGGAT-GGTGAC-GATCATCAATAATGAAAAGGGATAGTGACGACCATCGAAC
1 AATGAAAAGGGATAGCT-TCGGCT-ATCAATAATGAAAAGGAATAACCACGACCATCAAAC
27781808 AATGAAAAGGGATAGCTTCGGCTATCAA
1 AATGAAAAGGGATAGCTTCGGCTATCAA
27781836 ATTGTGAAAT
Statistics
Matches: 66, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
59 42 0.64
60 8 0.12
61 16 0.24
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (59 bp):
AATGAAAAGGGATAGCTTCGGCTATCAATAATGAAAAGGAATAACCACGACCATCAAAC
Found at i:27781844 original size:30 final size:30
Alignment explanation
Indices: 27781687--27781893 Score: 188
Period size: 30 Copynumber: 6.9 Consensus size: 30
27781677 AATCATTGGC
27781687 TAATGAAAAGGGATAGCTTCGGCTATCAAAA
1 TAATGAAAAGGGATAGCTTCGGCTATC-AAA
* * *
27781718 TAATGAAAAGGAATAACCTCGGCTATCAAA
1 TAATGAAAAGGGATAGCTTCGGCTATCAAA
* * * *
27781748 TTATGAAAAGGGAT-G-GT-GACGATCATCAA
1 TAATGAAAAGGGATAGCTTCGGCTATCA--AA
* * * *
27781777 TAATGAAAAGGGATAG-TGACGACCATCGAA
1 TAATGAAAAGGGATAGCT-TCGGCTATCAAA
*
27781807 CAATGAAAAGGGATAGCTTCGGCTATCAAA
1 TAATGAAAAGGGATAGCTTCGGCTATCAAA
** *
27781837 TTGTGAAATGGGATAGCTTCGGCTATCAAA
1 TAATGAAAAGGGATAGCTTCGGCTATCAAA
* * *
27781867 TTATAAAAAGGGATAACTTCGGCTATC
1 TAATGAAAAGGGATAGCTTCGGCTATC
27781894 GAGCTATGAA
Statistics
Matches: 143, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
27 6 0.04
28 1 0.01
29 15 0.10
30 90 0.63
31 25 0.17
32 6 0.04
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (30 bp):
TAATGAAAAGGGATAGCTTCGGCTATCAAA
Found at i:27800647 original size:18 final size:18
Alignment explanation
Indices: 27800616--27800658 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
27800606 AAAAAAAAAT
* *
27800616 TCGAGTTAATTCGAATAAC
1 TCGA-TTAACTCGAACAAC
27800635 TCGATTAACTCGAACAAC
1 TCGATTAACTCGAACAAC
27800653 TCGATT
1 TCGATT
27800659 CGTTTAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (18 bp):
TCGATTAACTCGAACAAC
Found at i:27811361 original size:15 final size:15
Alignment explanation
Indices: 27811315--27811366 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
27811305 GATTACTCTC
27811315 TTCACTCGTTTCTTT
1 TTCACTCGTTTCTTT
27811330 TTCAAGCCCTC-TTTCTTT
1 TTC-A---CTCGTTTCTTT
27811348 TTCACTCGTTTCTTT
1 TTCACTCGTTTCTTT
27811363 TTCA
1 TTCA
27811367 GTCTCTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.09
15 14 0.44
16 1 0.03
17 1 0.03
18 10 0.31
19 3 0.09
ACGTcount: A:0.10, C:0.29, G:0.06, T:0.56
Consensus pattern (15 bp):
TTCACTCGTTTCTTT
Found at i:27811379 original size:18 final size:17
Alignment explanation
Indices: 27811323--27811382 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
27811313 TCTTCACTCG
*
27811323 TTTCTTTTTCAAGCCCTC
1 TTTCTTTTTC-AGCTCTC
*
27811341 TTTCTTTTTCA-CTC-G
1 TTTCTTTTTCAGCTCTC
*
27811356 TTTCTTTTTCAGTCTCTT
1 TTTCTTTTTCAG-CTCTC
27811374 TTTCTTTTT
1 TTTCTTTTT
27811383 TTACGCTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.31
16 2 0.06
17 4 0.11
18 19 0.53
ACGTcount: A:0.07, C:0.25, G:0.05, T:0.63
Consensus pattern (17 bp):
TTTCTTTTTCAGCTCTC
Done.