Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 97 of 214
Found at i:28087784 original size:506 final size:503
Alignment explanation
Indices: 28086822--28088205 Score: 2014
Period size: 506 Copynumber: 2.8 Consensus size: 503
28086812 ACTCCCTTTC
* * **
28086822 TCTCATACTTTATCTTCTTCCATTTCTTTTACATCAAATTTTACATATTTTTGTTACTGAATTAT
1 TCTCATATTTTATCTTCTTCCATTTCTTTTACATCAAATTTTACATATTTTTGCTACAAAATTAT
*
28086887 TATTGCTTTTCACAAATCAAAGTCAATCTTCATTAACTCATTTTTCTACAGGAATCAAAATTGTC
66 TATCGCTTTTC-CAAATCAAAGTCAATCTTCATTAACTC-TTTTTCTAC-GGAAT-AAAATTGTC
*
28086952 GTTAGAAACCCCTCAATCTCTACCAAGAAGCAGTAGGGATGCATAAAATCTTGAAGTTGATCTTA
127 GTTAGAAACCCCTCAATCTCTACCAAGAAGCAGTAAGGATGCATAAAATCTTGAAGTTGATCTTA
* *
28087017 AA-TATTTAGAGATTTTCTATCTAACGATAATCTTGCGATTGATTAAAATGATCTTTCTCGATTA
192 AACTA--TAGATA-TTTCTATCTAACGATAATCTTGCGATCGATTAAAATGATCTTTCTCGATTA
28087081 TTCATCGAATCTTTCAATAATCTTGACAAATCTTGAAAATCATTATTAATTCTTGTTAAATCTCG
254 TTCATCGAATCTTTCAATAATCTTGACAAATCTTGAAAATCATTATTAATTCTTGTTAAATCTCG
* *
28087146 TTTCAAGGACT-AGTTTTAGGTGCCCTAAATCAAATTTAAACGTGAGGATTATTGTTCAAGAGGA
319 TTTCAAGGACTCA-TTTTAGGTACCCCAAATCAAATTTAAACGTGAGGATTATTGTTCAAGAGGA
* *
28087210 AAATTACTCCTGTCACCCTTGGGTTCACAAACCCTAGATATTTAATCAAAATTTTCCAATAGGAA
383 AAATTACTCCTGTCACCCTTGGGTTCACAAACCCTAGATATTTAATCAAAATTTTCCAACAAGAA
28087275 TAGGATTTTGTTTCCTCTCCAAAACCAAATAGAATTTCTTTCACCTCCATA-TTAT
448 TAGGATTTTGTTTCCTCTCCAAAACCAAATAGAATTTCTTTCACCTCCATATTTAT
28087330 TCTCATATTTTATCTTCTTCCATTTCTTTTACATCAAATTTTACATATTTTTGCTACAAAATTAT
1 TCTCATATTTTATCTTCTTCCATTTCTTTTACATCAAATTTTACATATTTTTGCTACAAAATTAT
*
28087395 TATCGCTTTTTCTAAATCAAAGTCAATCTTCATTAACTCGTTTTTCTACGGGAATTAAAATTGTC
66 TATCGC-TTTTCCAAATCAAAGTCAATCTTCATTAACTC-TTTTTCTAC-GGAA-TAAAATTGTC
* * * *
28087460 GTTAGAAACCCCTCAATCTCTACCAAAAAGCGGTAAGGATGCATAAAATCTTGAAGTTGACCCTA
127 GTTAGAAACCCCTCAATCTCTACCAAGAAGCAGTAAGGATGCATAAAATCTTGAAGTTGATCTTA
**
28087525 AACCCTAGATATTTCTATCTAACGATAATCTTGCGATCGATTAAAATGATCTTTCTCGATTATTC
192 AACTATAGATATTTCTATCTAACGATAATCTTGCGATCGATTAAAATGATCTTTCTCGATTATTC
28087590 ATCGAATCTTTCAATAATCTTGACAAATCTTGAAAATCATTATTAATTCTTGTTAAATCTCGTTT
257 ATCGAATCTTTCAATAATCTTGACAAATCTTGAAAATCATTATTAATTCTTGTTAAATCTCGTTT
*
28087655 CAAGGACTCATTTTAGGTACCCCGAATCAAATTTAAACGTGAGGATTATTGTTCAAGAGGAAAAT
322 CAAGGACTCATTTTAGGTACCCCAAATCAAATTTAAACGTGAGGATTATTGTTCAAGAGGAAAAT
*
28087720 TACTCTTGTCACCCTTGGGTTCACAAACCCTAGATATTTAATCAAAATTTTCCAACAAGAATAGG
387 TACTCCTGTCACCCTTGGGTTCACAAACCCTAGATATTTAATCAAAATTTTCCAACAAGAATAGG
*
28087785 ATTTTGTTTCCTCTCCAAAACCAAATAGAATTTCTTTCACCTCCCTATTTAT
452 ATTTTGTTTCCTCTCCAAAACCAAATAGAATTTCTTTCACCTCCATATTTAT
* *
28087837 TCTCATATTTTATCTTCTTCCATTTATTTTACATCAAATTTTACATATTTTTGCTAAAAAATTAT
1 TCTCATATTTTATCTTCTTCCATTTCTTTTACATCAAATTTTACATATTTTTGCTACAAAATTAT
* * *
28087902 TATCGCCTTTTCCAAATCAAAGTTAATCTTTATTAA--C----T-T---G----AAATTGTCATT
66 TATCG-CTTTTCCAAATCAAAGTCAATCTTCATTAACTCTTTTTCTACGGAATAAAATTGTCGTT
* * * * * *
28087953 AGAAACCCCTCAATCTATACCAAGAAGCAGTAAGGACGCATTAAATTTTAAAGTTGATCTTGAAT
130 AGAAACCCCTCAATCTCTACCAAGAAGCAGTAAGGATGCATAAAATCTTGAAGTTGATCTT-AAA
* ** * ** *
28088018 CTGTATAGAT-TTTTTATCTAAAAATAATTTTATGATCGATTAAAACGATCTTTCTCGATTATTC
194 C--TATAGATATTTCTATCTAACGATAATCTTGCGATCGATTAAAATGATCTTTCTCGATTATTC
* * * *
28088082 ATTGGATCTTTCAATAATCTTGACAAATCTTGAAAA-CTGTTATTAATTCTTGTGTAAATCTTGT
257 ATCGAATCTTTCAATAATCTTGACAAATCTTGAAAATC-ATTATTAATTCTTGT-TAAATCTCGT
* * ** * **
28088146 ATGAAGGACTCATTTTAGGTACCCCAAATCAGGTTTGAACGTGAGGACCATTGTTCAAGA
320 TTCAAGGACTCATTTTAGGTACCCCAAATCAAATTTAAACGTGAGGATTATTGTTCAAGA
28088206 TCTCAGTGAT
Statistics
Matches: 804, Mismatches: 61, Indels: 37
0.89 0.07 0.04
Matches are distributed among these distances:
490 62 0.08
491 4 0.00
492 95 0.12
493 66 0.08
495 1 0.00
499 1 0.00
500 1 0.00
505 1 0.00
506 286 0.36
507 104 0.13
508 177 0.22
509 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (503 bp):
TCTCATATTTTATCTTCTTCCATTTCTTTTACATCAAATTTTACATATTTTTGCTACAAAATTAT
TATCGCTTTTCCAAATCAAAGTCAATCTTCATTAACTCTTTTTCTACGGAATAAAATTGTCGTTA
GAAACCCCTCAATCTCTACCAAGAAGCAGTAAGGATGCATAAAATCTTGAAGTTGATCTTAAACT
ATAGATATTTCTATCTAACGATAATCTTGCGATCGATTAAAATGATCTTTCTCGATTATTCATCG
AATCTTTCAATAATCTTGACAAATCTTGAAAATCATTATTAATTCTTGTTAAATCTCGTTTCAAG
GACTCATTTTAGGTACCCCAAATCAAATTTAAACGTGAGGATTATTGTTCAAGAGGAAAATTACT
CCTGTCACCCTTGGGTTCACAAACCCTAGATATTTAATCAAAATTTTCCAACAAGAATAGGATTT
TGTTTCCTCTCCAAAACCAAATAGAATTTCTTTCACCTCCATATTTAT
Found at i:28090211 original size:14 final size:15
Alignment explanation
Indices: 28090183--28090220 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
28090173 ATGTTTCACC
28090183 TCCTTCATT-CTCTTT
1 TCCTTC-TTCCTCTTT
28090198 TCC-TCTTCCTCTTT
1 TCCTTCTTCCTCTTT
28090212 TCCTTCTTC
1 TCCTTCTTC
28090221 TTGCCTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (15 bp):
TCCTTCTTCCTCTTT
Found at i:28093786 original size:25 final size:25
Alignment explanation
Indices: 28093730--28093836 Score: 97
Period size: 25 Copynumber: 4.3 Consensus size: 25
28093720 GGTTACCGAT
* * *
28093730 TTCAGCTCTTATGAGTTTACTGATA
1 TTCAGCTCATATGAGCTTACTGTTA
* * *
28093755 CTAAGCTCATATGAGCTTACTGTTC
1 TTCAGCTCATATGAGCTTACTGTTA
** * *
28093780 TTCAGCTCGGAAGAGCTTACCGTTA
1 TTCAGCTCATATGAGCTTACTGTTA
* * *
28093805 TTCAGCTCAAAGGAGCTTACTTTTA
1 TTCAGCTCATATGAGCTTACTGTTA
28093830 TTCAGCT
1 TTCAGCT
28093837 TGGAGGAACT
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (25 bp):
TTCAGCTCATATGAGCTTACTGTTA
Found at i:28093843 original size:25 final size:25
Alignment explanation
Indices: 28093767--28093849 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
28093757 AAGCTCATAT
* *
28093767 GAGCTTACTGTTCTTCAGCTCGGAA
1 GAGCTTACTGTTATTCAGCTCGGAG
* **
28093792 GAGCTTACCGTTATTCAGCTCAAAG
1 GAGCTTACTGTTATTCAGCTCGGAG
* *
28093817 GAGCTTACTTTTATTCAGCTTGGAG
1 GAGCTTACTGTTATTCAGCTCGGAG
*
28093842 GAACTTAC
1 GAGCTTAC
28093850 CATTTACAGC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTACTGTTATTCAGCTCGGAG
Found at i:28102539 original size:14 final size:15
Alignment explanation
Indices: 28102511--28102548 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
28102501 ATGTTTCACA
28102511 TCCTTCGTT-CTCTTT
1 TCCTTC-TTCCTCTTT
28102526 TCC-TCTTCCTCTTT
1 TCCTTCTTCCTCTTT
28102540 TCCTTCTTC
1 TCCTTCTTC
28102549 TTGCCTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.00, C:0.39, G:0.03, T:0.58
Consensus pattern (15 bp):
TCCTTCTTCCTCTTT
Found at i:28102998 original size:6 final size:6
Alignment explanation
Indices: 28102984--28103018 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
28102974 TTATGCACAG
*
28102984 ACTTCA ACTTTA ACTTCA ACTTCA ACTTCA ACTTC
1 ACTTCA ACTTCA ACTTCA ACTTCA ACTTCA ACTTC
28103019 GCCATATGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (6 bp):
ACTTCA
Found at i:28107666 original size:31 final size:30
Alignment explanation
Indices: 28107619--28107752 Score: 125
Period size: 30 Copynumber: 4.5 Consensus size: 30
28107609 ATCCAATGCT
28107619 CAAATC-AATTCGGCAA-TATATTTCCATATA
1 CAAATCAAATTCGGCAAGTATATTT--ATATA
* *
28107649 CGAATCAAATTTGGCAATGTATATTTATATA
1 CAAATCAAATTCGGCAA-GTATATTTATATA
** *
28107680 CAAATC-AATTCGATAATGTATATCTATATA
1 CAAATCAAATTCGGCAA-GTATATTTATATA
* *
28107710 CAAATC-AATTCGACAATGTATATTTTTATA
1 CAAATCAAATTCGGCAA-GTATATTTATATA
28107740 CAAATC-AATTCGG
1 CAAATCAAATTCGG
28107753 TAATTTATAA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
30 64 0.71
31 19 0.21
33 7 0.08
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (30 bp):
CAAATCAAATTCGGCAAGTATATTTATATA
Found at i:28107700 original size:30 final size:30
Alignment explanation
Indices: 28107664--28107761 Score: 151
Period size: 30 Copynumber: 3.3 Consensus size: 30
28107654 CAAATTTGGC
28107664 AATGTATATTTATATACAAATCAATTCGAT
1 AATGTATATTTATATACAAATCAATTCGAT
* *
28107694 AATGTATATCTATATACAAATCAATTCGAC
1 AATGTATATTTATATACAAATCAATTCGAT
* *
28107724 AATGTATATTTTTATACAAATCAATTCGGT
1 AATGTATATTTATATACAAATCAATTCGAT
*
28107754 AATTTATA
1 AATGTATA
28107762 AAACATATAC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (30 bp):
AATGTATATTTATATACAAATCAATTCGAT
Found at i:28107747 original size:60 final size:61
Alignment explanation
Indices: 28107619--28107761 Score: 189
Period size: 60 Copynumber: 2.4 Consensus size: 61
28107609 ATCCAATGCT
* * * * *
28107619 CAAATCAATTCGGCAATATATTTCCATATACGAATCAAATTTGGCAATGTATATTTATATA
1 CAAATCAATTCGGTAATATATATCCATATACAAATCAAATTCGACAATGTATATTTATATA
* * * *
28107680 CAAATCAATTCGATAATGTATATCTATATACAAATC-AATTCGACAATGTATATTTTTATA
1 CAAATCAATTCGGTAATATATATCCATATACAAATCAAATTCGACAATGTATATTTATATA
*
28107740 CAAATCAATTCGGTAATTTATA
1 CAAATCAATTCGGTAATATATA
28107762 AAACATATAC
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 41 0.58
61 30 0.42
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (61 bp):
CAAATCAATTCGGTAATATATATCCATATACAAATCAAATTCGACAATGTATATTTATATA
Found at i:28109762 original size:60 final size:60
Alignment explanation
Indices: 28109681--28109811 Score: 192
Period size: 60 Copynumber: 2.2 Consensus size: 60
28109671 TACAAACTAC
*
28109681 GCCATGAAGGCGTACTTACTTTCAAAGGTGG-CTGTAGAAATCTTTCCTTTGACATAGATA
1 GCCATAAAGGCGTACTTACTTTCAAAGGTGGTC-GTAGAAATCTTTCCTTTGACATAGATA
* * **
28109741 GCCATAAAGGTGTCCTTACTTTCGGAGGTGGTCGTAGAAATCTTTCCTTTGACATAGATA
1 GCCATAAAGGCGTACTTACTTTCAAAGGTGGTCGTAGAAATCTTTCCTTTGACATAGATA
*
28109801 GCCATAGAGGC
1 GCCATAAAGGC
28109812 ATCCTTGAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
60 62 0.98
61 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (60 bp):
GCCATAAAGGCGTACTTACTTTCAAAGGTGGTCGTAGAAATCTTTCCTTTGACATAGATA
Found at i:28109867 original size:28 final size:28
Alignment explanation
Indices: 28109796--28109893 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
28109786 CCTTTGACAT
* * *
28109796 AGATAGCCATAGAGGCATCCTTGAA-CAA
1 AGATAGCCACAAAGGCATCCAT-AAGCAA
* *
28109824 TAGATAGCCATC-AAGGCGTCCATAAGTAA
1 -AGATAGCCA-CAAAGGCATCCATAAGCAA
* *
28109853 CGATAGCCACAAAGGCATCCATGAGCAA
1 AGATAGCCACAAAGGCATCCATAAGCAA
28109881 AGATAGCCACAAA
1 AGATAGCCACAAA
28109894 TTTATCCATT
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
27 1 0.02
28 36 0.64
29 19 0.34
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.15
Consensus pattern (28 bp):
AGATAGCCACAAAGGCATCCATAAGCAA
Found at i:28110007 original size:29 final size:29
Alignment explanation
Indices: 28109975--28110144 Score: 168
Period size: 29 Copynumber: 5.9 Consensus size: 29
28109965 CCACAAATTT
*
28109975 TCTCTTATAAAAAAATCAGCCACAAAGGC
1 TCTCATATAAAAAAATCAGCCACAAAGGC
* * *
28110004 TCTCATATAACAGAATCATCCACAAAGGC
1 TCTCATATAAAAAAATCAGCCACAAAGGC
* * * * *
28110033 TCTCATATAACAGATTTAGCAACAAAGGC
1 TCTCATATAAAAAAATCAGCCACAAAGGC
*
28110062 TCT--TATAAAATAGAATTAGCCAC-AAGGC
1 TCTCATATAAAA-A-AATCAGCCACAAAGGC
* *
28110090 TCTCATATAACAGAATCAGCCACAAAGGC
1 TCTCATATAAAAAAATCAGCCACAAAGGC
*
28110119 TCTCATA-AAATAGAATCAGCCACAAA
1 TCTCATATAAA-AAAATCAGCCACAAA
28110145 AGCTTCTTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
27 6 0.05
28 19 0.16
29 88 0.74
30 6 0.05
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (29 bp):
TCTCATATAAAAAAATCAGCCACAAAGGC
Found at i:28110115 original size:57 final size:57
Alignment explanation
Indices: 28109988--28110143 Score: 231
Period size: 57 Copynumber: 2.7 Consensus size: 57
28109978 CTTATAAAAA
* * *
28109988 AATCAGCCACAAAGGCTCTCATATAACAGAATCATCCACAAAGGCTCTCATATAACAG
1 AATCAGCCACAAAGGCTCTCATAAAATAGAATCAGCCAC-AAGGCTCTCATATAACAG
* * * * *
28110046 ATTTAGCAACAAAGGCTCTTATAAAATAGAATTAGCCACAAGGCTCTCATATAACAG
1 AATCAGCCACAAAGGCTCTCATAAAATAGAATCAGCCACAAGGCTCTCATATAACAG
28110103 AATCAGCCACAAAGGCTCTCATAAAATAGAATCAGCCACAA
1 AATCAGCCACAAAGGCTCTCATAAAATAGAATCAGCCACAA
28110144 AAGCTTCTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
57 54 0.64
58 31 0.36
ACGTcount: A:0.43, C:0.24, G:0.13, T:0.20
Consensus pattern (57 bp):
AATCAGCCACAAAGGCTCTCATAAAATAGAATCAGCCACAAGGCTCTCATATAACAG
Found at i:28110144 original size:86 final size:85
Alignment explanation
Indices: 28109976--28110144 Score: 250
Period size: 86 Copynumber: 2.0 Consensus size: 85
28109966 CACAAATTTT
* *
28109976 CTCTTATAAAAAAATCAGCCACAAAGGCTCTCATATAACAGAATCATCCACAAAGGCTCTCATAT
1 CTCTTATAAAAAAATCAGCCACAAAGGCTCTCATATAACAGAATCAGCCACAAAGGCTCTCATAA
* *
28110041 AACAGATTTAGCAACAAAGG
66 AACAGAATCAGCAACAAAGG
*
28110061 CTCTTATAAAATAGAATTAGCCAC-AAGGCTCTCATATAACAGAATCAGCCACAAAGGCTCTCAT
1 CTCTTATAAAA-A-AATCAGCCACAAAGGCTCTCATATAACAGAATCAGCCACAAAGGCTCTCAT
* *
28110125 AAAATAGAATCAGCCACAAA
64 AAAACAGAATCAGCAACAAA
28110145 AGCTTCTTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
85 11 0.15
86 55 0.73
87 9 0.12
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (85 bp):
CTCTTATAAAAAAATCAGCCACAAAGGCTCTCATATAACAGAATCAGCCACAAAGGCTCTCATAA
AACAGAATCAGCAACAAAGG
Found at i:28112404 original size:85 final size:85
Alignment explanation
Indices: 28112257--28112412 Score: 258
Period size: 85 Copynumber: 1.8 Consensus size: 85
28112247 AGATTTGATT
* *
28112257 ATGAACCAAGTGGCAATTTGTTTAATCTACAAATATGTTCTGCACTCACAACAAGTTACAGTAAC
1 ATGAACCAAGTGGCAATATGTTTAATCTACAAATATGTTCTGCACTCACAACAAGTGACAGTAAC
*
28112322 TGCAAATATGTGGTTCGATC
66 AGCAAATATGTGGTTCGATC
* * *
28112342 ATGAACCAAGTGGCAGTATGTTTAATCTACAAATATGTTTTGCACTCACAACAAGTGGCAGTAAC
1 ATGAACCAAGTGGCAATATGTTTAATCTACAAATATGTTCTGCACTCACAACAAGTGACAGTAAC
28112407 AGCAAA
66 AGCAAA
28112413 ATAGTAGTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (85 bp):
ATGAACCAAGTGGCAATATGTTTAATCTACAAATATGTTCTGCACTCACAACAAGTGACAGTAAC
AGCAAATATGTGGTTCGATC
Found at i:28115875 original size:43 final size:43
Alignment explanation
Indices: 28115822--28116073 Score: 344
Period size: 43 Copynumber: 5.9 Consensus size: 43
28115812 TTTTAGAAAT
* * *
28115822 AAACACCGCTATAGATTAGGACCTTTAGTGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* *
28115865 AAACGCCGCTATAGATTAGGACCTTTAGCGGCGC-TTTTGCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* * *
28115907 AAACACTGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* * * *
28115950 AAATGCCGCTATAGATCAAGACCTTTAGCGGTGCTTTTTCTAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* * *
28115993 AAACGCCGCTATAGATCAAGACCTTTAGCAGCGCTTTTTCTAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
* *
28116036 AAACGCCGCTATAGATCAGGATCTTTAGCAGCGCTTTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT
28116074 GCACAGCTAT
Statistics
Matches: 188, Mismatches: 20, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
42 38 0.20
43 150 0.80
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCAC
Found at i:28115965 original size:85 final size:85
Alignment explanation
Indices: 28115822--28116078 Score: 370
Period size: 85 Copynumber: 3.0 Consensus size: 85
28115812 TTTTAGAAAT
* * *
28115822 AAACACCGCTATAGATTAGGACCTTTAGTGGCGCTTTTTCCACAAACGCCGCTATAGATTAGGAC
1 AAACACCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGGAC
28115887 CTTTAGCGGCGCTTTTGCAC
66 CTTTAGCGGCGCTTTTGCAC
* * * *
28115907 AAACACTGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGATCAAGAC
1 AAACACCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGGAC
* *
28115972 CTTTAGCGGTGCTTTTTCTAC
66 CTTTAGCGGCGCTTTTGC-AC
* * * * *
28115993 AAACGCCGCTATAGATCAAGACCTTTAGCAGCGCTTTTTCTACAAACGCCGCTATAGATCAGGAT
1 AAACACCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGGAC
*
28116058 CTTTAGCAGCGCTTTTGCAC
66 CTTTAGCGGCGCTTTTGCAC
28116078 A
1 A
28116079 GCTATAGATC
Statistics
Matches: 150, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
85 77 0.51
86 73 0.49
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (85 bp):
AAACACCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGGAC
CTTTAGCGGCGCTTTTGCAC
Found at i:28116107 original size:25 final size:25
Alignment explanation
Indices: 28116079--28116131 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
28116069 CTTTTGCACA
*
28116079 GCTATAGATCAAGACCTTTAGCAGC
1 GCTATAGATCAAGAACTTTAGCAGC
*
28116104 GCTATAGATCAAGAACTTTAGCGGC
1 GCTATAGATCAAGAACTTTAGCAGC
28116129 GCT
1 GCT
28116132 TTTCCCGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
GCTATAGATCAAGAACTTTAGCAGC
Found at i:28119914 original size:7 final size:7
Alignment explanation
Indices: 28119902--28120011 Score: 73
Period size: 7 Copynumber: 15.7 Consensus size: 7
28119892 CTAATTAATT
28119902 TAAACCC
1 TAAACCC
28119909 TAAACCC
1 TAAACCC
28119916 T-AACTCC
1 TAAAC-CC
28119923 TAAACCC
1 TAAACCC
*
28119930 TAAAGCC
1 TAAACCC
*
28119937 TAAATCCT
1 TAAA-CCC
*
28119945 TAACCCC
1 TAAACCC
*
28119952 T-AACCT
1 TAAACCC
*
28119958 TGAACCC
1 TAAACCC
28119965 T-AACCC
1 TAAACCC
*
28119971 TTAAACCG
1 -TAAACCC
*
28119979 TAAACCA
1 TAAACCC
**
28119986 TAAACTA
1 TAAACCC
* *
28119993 TAAATCA
1 TAAACCC
28120000 TAAACCC
1 TAAACCC
28120007 TAAAC
1 TAAAC
28120012 TCATAATCCA
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
6 12 0.15
7 59 0.72
8 11 0.13
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:28119996 original size:21 final size:22
Alignment explanation
Indices: 28119972--28120027 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
28119962 CCCTAACCCT
*
28119972 TAAACCGTAAACCATAAACT-A
1 TAAACCATAAACCATAAACTCA
* *
28119993 TAAATCATAAACCCTAAACTCA
1 TAAACCATAAACCATAAACTCA
*
28120015 TAATCCATAAACC
1 TAAACCATAAACC
28120028 TTTAAATAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.21
Consensus pattern (22 bp):
TAAACCATAAACCATAAACTCA
Found at i:28120061 original size:14 final size:14
Alignment explanation
Indices: 28120044--28120094 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
28120034 TAGTATGTTT
*
28120044 TAAACCTTAAACCC
1 TAAACCATAAACCC
*
28120058 TAAACCATATACCC
1 TAAACCATAAACCC
* *
28120072 -CAACCCTAAACCC
1 TAAACCATAAACCC
*
28120085 TAAACTATAA
1 TAAACCATAA
28120095 TGGTAATTAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
13 10 0.36
14 18 0.64
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:28120221 original size:7 final size:8
Alignment explanation
Indices: 28120201--28120229 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
28120191 TTAACCCGAC
28120201 CCCTAAAT
1 CCCTAAAT
28120209 CCCTAAA-
1 CCCTAAAT
28120216 CCCTAAAT
1 CCCTAAAT
28120224 CCCTAA
1 CCCTAA
28120230 CTCTTAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (8 bp):
CCCTAAAT
Found at i:28120221 original size:15 final size:15
Alignment explanation
Indices: 28120201--28120229 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
28120191 TTAACCCGAC
28120201 CCCTAAATCCCTAAA
1 CCCTAAATCCCTAAA
28120216 CCCTAAATCCCTAA
1 CCCTAAATCCCTAA
28120230 CTCTTAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCCCTAAA
Found at i:28120256 original size:21 final size:21
Alignment explanation
Indices: 28120227--28120280 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
28120217 CCTAAATCCC
* * *
28120227 TAACTCTTAACTTTTAACCCT
1 TAACCCTTAACGTCTAACCCT
28120248 TAACCCTTAACGTCTAACCCT
1 TAACCCTTAACGTCTAACCCT
28120269 TAAACCCTTAAC
1 T-AACCCTTAAC
28120281 CCTAATGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.31, C:0.33, G:0.02, T:0.33
Consensus pattern (21 bp):
TAACCCTTAACGTCTAACCCT
Found at i:28120276 original size:8 final size:7
Alignment explanation
Indices: 28120209--28120283 Score: 55
Period size: 7 Copynumber: 10.6 Consensus size: 7
28120199 ACCCCTAAAT
*
28120209 CCCTAAA
1 CCCTTAA
*
28120216 CCCTAAA
1 CCCTTAA
28120223 TCCC-TAA
1 -CCCTTAA
*
28120230 CTCTTAA
1 CCCTTAA
**
28120237 CTTTTAA
1 CCCTTAA
28120244 CCCTTAA
1 CCCTTAA
28120251 CCCTTAA
1 CCCTTAA
*
28120258 -CGTCTAA
1 CCCT-TAA
28120265 CCCTTAAA
1 CCCTT-AA
28120273 CCCTTAA
1 CCCTTAA
28120280 CCCT
1 CCCT
28120284 AATGATACGC
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
6 4 0.07
7 40 0.71
8 12 0.21
ACGTcount: A:0.31, C:0.39, G:0.01, T:0.29
Consensus pattern (7 bp):
CCCTTAA
Found at i:28121672 original size:20 final size:21
Alignment explanation
Indices: 28121614--28121711 Score: 91
Period size: 20 Copynumber: 4.9 Consensus size: 21
28121604 AGCTAATAAC
*
28121614 GAGCTC-AATAAGCTGAA-TT
1 GAGCTCGAATGAGCTGAACTT
*** *
28121633 GAGCTCGTGGGAGTTG-ACTT
1 GAGCTCGAATGAGCTGAACTT
28121653 GAGCTCGAATGAGCT-AACTT
1 GAGCTCGAATGAGCTGAACTT
28121673 GAGCTC-AAGTGAGCTGAA-TT
1 GAGCTCGAA-TGAGCTGAACTT
*
28121693 GAGCTCGAGTGAGCTGAAC
1 GAGCTCGAATGAGCTGAAC
28121712 CGCATGGAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
19 9 0.15
20 50 0.81
21 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (21 bp):
GAGCTCGAATGAGCTGAACTT
Found at i:28121676 original size:40 final size:40
Alignment explanation
Indices: 28121614--28121710 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
28121604 AGCTAATAAC
* ** * *
28121614 GAGCTC-AATAAGCTGAATTGAGCTCGTGGGAGTTGACTT
1 GAGCTCGAATGAGCTGAATTGAGCTCAAGGGAGCTGAATT
*
28121653 GAGCTCGAATGAGCT-AACTTGAGCTCAAGTGAGCTGAATT
1 GAGCTCGAATGAGCTGAA-TTGAGCTCAAGGGAGCTGAATT
*
28121693 GAGCTCGAGTGAGCTGAA
1 GAGCTCGAATGAGCTGAA
28121711 CCGCATGGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 8 0.17
40 38 0.79
41 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (40 bp):
GAGCTCGAATGAGCTGAATTGAGCTCAAGGGAGCTGAATT
Found at i:28122346 original size:41 final size:39
Alignment explanation
Indices: 28122246--28122564 Score: 228
Period size: 41 Copynumber: 7.8 Consensus size: 39
28122236 TAAAATGTCT
* **
28122246 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGACCCTAGCA
1 TTAGCGGCCCTTT-TCAAAAACGCCGCTAAA-G-CCAAAGCA
*
28122288 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCAAAAGCA
1 TTAGCGGCCCTT-TTCAAAAACGCCGCTAAAGCC-AAAGCA
* *
28122329 TTAGCGGACCCTTTTCAAAAACGCCGCTAAAGAACATAGCA
1 TTAGCGG-CCCTTTTCAAAAACGCCGCTAAAG-CCAAAGCA
* * * * * ***
28122370 TTAGCGGCGCTTTTGAAAAAGTGCCGCTTAAGAACTCTGCA
1 TTAGCGGCCCTTTTCAAAAA-CGCCGCTAAAG-CCAAAGCA
* *
28122411 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCTCAGAGCA
1 TTAGCGGC-CCTTTTCAAAAACGCCGCTAAAGC-CAAAGCA
* * * * *
28122452 TTAGTGGCGCTTCTCCAAAAAAGCCGCTAAAGCCCCAAGCA
1 TTAGCGGCCCTT-TTCAAAAACGCCGCTAAAG-CCAAAGCA
* * **
28122493 TTAGCAGTG-CTTTTTCAAAAACGTCGCTAAAGTCCCCAGCA
1 TTAGC-G-GCCCTTTTCAAAAACGCCGCTAAAG-CCAAAGCA
* *
28122534 TTAGCGG-CGTTTTCAAAAAACGCCACTAAAG
1 TTAGCGGCCCTTTTC-AAAAACGCCGCTAAAG
28122565 ATCCGAAAGG
Statistics
Matches: 226, Mismatches: 39, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
39 7 0.03
40 30 0.13
41 140 0.62
42 47 0.21
43 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (39 bp):
TTAGCGGCCCTTTTCAAAAACGCCGCTAAAGCCAAAGCA
Found at i:28122412 original size:82 final size:80
Alignment explanation
Indices: 28122246--28122564 Score: 279
Period size: 82 Copynumber: 3.9 Consensus size: 80
28122236 TAAAATGTCT
* * *
28122246 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGACCCTAGCATTAGCGGCGCTTCTTCAAAAACG
1 TTAGCGGCCCTTT-TCAAAAACGCCGCTAAA-GAACATAGCATTAGCGGCGCTTCTTCAAAAACG
28122311 CCGCTAAAGCCAAAAGCA
64 CCGCTAAAG-CAAAAGCA
* *
28122329 TTAGCGGACCCTTTTCAAAAACGCCGCTAAAGAACATAGCATTAGCGGCGCTT-TTGAAAAAGTG
1 TTAGCGG-CCCTTTTCAAAAACGCCGCTAAAGAACATAGCATTAGCGGCGCTTCTTCAAAAA-CG
* **
28122393 CCGCTTAAG-AACTCTGCA
64 CCGCTAAAGCAA--AAGCA
* ** * * * *
28122411 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCTCAGAGCATTAGTGGCGCTTCTCCAAAAAAGC
1 TTAGCGGC-CCTTTTCAAAAACGCCGCTAAAGAACATAGCATTAGCGGCGCTTCTTCAAAAACGC
**
28122476 CGCTAAAGCCCCAAGCA
65 CGCTAAAG-CAAAAGCA
* * ** **
28122493 TTAGCAGTG-CTTTTTCAAAAACGTCGCTAAAGTCCCCAGCATTAGCGGCG-TT-TTCAAAAAAC
1 TTAGC-G-GCCCTTTTCAAAAACGCCGCTAAAGAACATAGCATTAGCGGCGCTTCTTC-AAAAAC
*
28122555 GCCACTAAAG
63 GCCGCTAAAG
28122565 ATCCGAAAGG
Statistics
Matches: 195, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
80 4 0.02
81 24 0.12
82 130 0.67
83 31 0.16
84 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (80 bp):
TTAGCGGCCCTTTTCAAAAACGCCGCTAAAGAACATAGCATTAGCGGCGCTTCTTCAAAAACGCC
GCTAAAGCAAAAGCA
Found at i:28122471 original size:123 final size:124
Alignment explanation
Indices: 28122246--28122564 Score: 357
Period size: 123 Copynumber: 2.6 Consensus size: 124
28122236 TAAAATGTCT
*
28122246 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGACCCTAGCATTAGCGGCGCTTCTTCAAAAACG
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGAACCCTAGCATTAGCGGCGCTTCTTCAAAAACG
* *
28122311 CCGCTAAAGCCAAAAGCATTAGCGGACCCTTTTCAAAAACGCCGCTAAAGAACATAGCA
66 CCGCTAAAGCCAAAAGCATTAGCGGACCCTTTCCAAAAAAGCCGCTAAAGAACATAGCA
* * * * *
28122370 TTAGCGGCGCTTT-TGAAAAAGTGCCGCTTAAGAACTCT-GCATTAGCGGCGCTTTTTCAAAAAC
1 TTAGCGGCGCTTTCTCAAAAA-CGCCGCTAAAGAACCCTAGCATTAGCGGCGCTTCTTCAAAAAC
* * * **
28122433 GCCGCTAAAGCTC-AGAGCATTAGTGG-CGCTTCTCCAAAAAAGCCGCTAAAGCCCCA-AGCA
65 GCCGCTAAAGC-CAAAAGCATTAGCGGACCCTT-TCCAAAAAAGCCGCTAAAG-AACATAGCA
* * * * * *
28122493 TTAGCAGTGCTTTTTCAAAAACGTCGCTAAAG-TCCCCAGCATTAGCGGCG-TT-TTCAAAAAAC
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGAACCCTAGCATTAGCGGCGCTTCTTC-AAAAAC
*
28122555 GCCACTAAAG
65 GCCGCTAAAG
28122565 ATCCGAAAGG
Statistics
Matches: 165, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
121 3 0.02
122 23 0.14
123 104 0.63
124 35 0.21
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (124 bp):
TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGAACCCTAGCATTAGCGGCGCTTCTTCAAAAACG
CCGCTAAAGCCAAAAGCATTAGCGGACCCTTTCCAAAAAAGCCGCTAAAGAACATAGCA
Found at i:28122674 original size:39 final size:39
Alignment explanation
Indices: 28122623--28122737 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 39
28122613 GTTTTTGGTA
*
28122623 AAAACGCTCTAATGCTC-ATTTTTATCGGCGTTTTTCAG
1 AAAACGCGCTAATGCTCGATTTTTATCGGCGTTTTTCAG
* * * * *
28122661 AAAACGCAGCTAATGCTCGATCTTTAGT-GGTGATTTCCAT
1 AAAACGC-GCTAATGCTCGATTTTTA-TCGGCGTTTTTCAG
* *
28122701 AAAGCGCCGCTAATGCTCGATTTTTACCGGCGTTTTT
1 AAAACG-CGCTAATGCTCGATTTTTATCGGCGTTTTT
28122738 TTTCCAAGCG
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
38 7 0.12
39 9 0.15
40 42 0.70
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (39 bp):
AAAACGCGCTAATGCTCGATTTTTATCGGCGTTTTTCAG
Found at i:28123935 original size:29 final size:31
Alignment explanation
Indices: 28123903--28123961 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
28123893 TAATTTTTTT
28123903 AAAGTT-ATGGTA-AAAAATATTATAATAAA
1 AAAGTTAATGGTATAAAAATATTATAATAAA
* *
28123932 AAAGTTACATGTTATAAAAGTATTATAATA
1 AAAGTTA-ATGGTATAAAAATATTATAATA
28123962 TATTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
31 5 0.20
32 14 0.56
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (31 bp):
AAAGTTAATGGTATAAAAATATTATAATAAA
Found at i:28126048 original size:21 final size:21
Alignment explanation
Indices: 28125975--28126084 Score: 91
Period size: 23 Copynumber: 5.1 Consensus size: 21
28125965 GTTCTTAAAT
28125975 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
28125997 -ATAATAAATAATTTAATGATAA
1 TTTAATAAATTA-TTAAT-ATAA
*
28126019 TTTAAAATAATTATTAAATATAA
1 TTTAATA-AATTATT-AATATAA
* *
28126042 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
28126061 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
28126083 TT
1 TT
28126085 ATTCTTATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
19 12 0.17
20 6 0.09
21 14 0.20
22 14 0.20
23 16 0.23
24 7 0.10
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:28126539 original size:77 final size:77
Alignment explanation
Indices: 28126407--28126568 Score: 297
Period size: 77 Copynumber: 2.1 Consensus size: 77
28126397 ATTTTTTGTC
28126407 CACTTTAACAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTAAAATATATAAAATT
1 CACTTTAACAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTAAAATATATAAAATT
*
28126472 TTATTGGCATAA
66 TTATTGACATAA
* *
28126484 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAACAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTAAAATATATAAAATT
28126549 TTATTGACATAA
66 TTATTGACATAA
28126561 CACTTTAA
1 CACTTTAA
28126569 GATTGTCTCA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 82 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (77 bp):
CACTTTAACAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTAAAATATATAAAATT
TTATTGACATAA
Found at i:28129707 original size:19 final size:20
Alignment explanation
Indices: 28129680--28129729 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
28129670 AATATAGAAA
*
28129680 ATTTGGAATTTTT-ATAAA-T
1 ATTTTGAATTTTTGA-AAATT
28129699 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
28129719 ATTTTGAATTT
1 ATTTTGAATTT
28129730 CTTTTGCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:28135844 original size:29 final size:29
Alignment explanation
Indices: 28135801--28136071 Score: 269
Period size: 29 Copynumber: 9.3 Consensus size: 29
28135791 GTGTGCTAAA
*
28135801 CGATGGTCGTAACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *
28135830 CGATGGTCATCACCATCCCATTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
28135859 CGATGGTCGTCACCGTCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* * * *
28135888 CAATGTTCG-GAGCCATCCCTTTTCATCAAT
1 CGATGGTCGTCA-CCATCCCTTTTCAT-ATT
* * * *
28135918 CGATGATCGCCACTATCCCTTTTTATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
*
28135948 -GATGGTCGTCACCATCCCTTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *** *
28135976 CGATAGTCAAAACTATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *
28136005 TGATGGTCGTCACCATCCCTTTTTATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* * *
28136035 -GATGGTTGTTACCATCCCTTTTCATAGT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
28136063 CGATAGTCG
1 CGATGGTCG
28136072 AAACTATCCA
Statistics
Matches: 194, Mismatches: 41, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
28 3 0.02
29 166 0.86
30 24 0.12
31 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.38
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATATT
Found at i:28136021 original size:117 final size:117
Alignment explanation
Indices: 28135815--28136027 Score: 268
Period size: 117 Copynumber: 1.8 Consensus size: 117
28135805 GGTCGTAACC
* * *** *
28135815 ATCCCTTTTCATATTCGATGGTCATCACCATCCCATTTCATATTCGATGGTCGTCACCGTCCCTT
1 ATCCCTTTTCATATTCGATGGTCATCACCATCCCATTTCATAGTCGATAGTCAAAACCATCCCTT
* *
28135880 TTCATATTCAATGTTCGGAGCCATCCCTTTTCATCAATCGATGATCGCCACT
66 TTCATATTCAATGGTCGCAGCCATCCCTTTTCATCAATCGATGATCGCCACT
* * * *
28135932 ATCCCTTTTTATAGTT-GATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACTATCCCT
1 ATCCCTTTTCATA-TTCGATGGTCATCACCATCCCATTTCATAGTCGATAGTCAAAACCATCCCT
**
28135996 TTTCATATTTGATGGTCGTCA-CCATCCCTTTT
65 TTTCATATTCAATGGTCG-CAGCCATCCCTTTT
28136028 TATAGTTGAT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
117 77 0.96
118 3 0.04
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.38
Consensus pattern (117 bp):
ATCCCTTTTCATATTCGATGGTCATCACCATCCCATTTCATAGTCGATAGTCAAAACCATCCCTT
TTCATATTCAATGGTCGCAGCCATCCCTTTTCATCAATCGATGATCGCCACT
Found at i:28136049 original size:87 final size:87
Alignment explanation
Indices: 28135801--28136086 Score: 342
Period size: 87 Copynumber: 3.3 Consensus size: 87
28135791 GTGTGCTAAA
* * * * * *
28135801 CGATGGTCGTAACCATCCCTTTTCATATTCGATGGTCATCACCATCCCATTTCATA-TTCGATGG
1 CGATAGTCGAAACTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTTATAGTT-GATGG
* *
28135865 TCGTCACCGTCCCTTTTCATATT
65 TCGTCACCATCCCTTTTCATAGT
* * * * * * * *
28135888 CAAT-GTTCGGAGCCATCCCTTTTCATCAATCGATGATCGCCACTATCCCTTTTTATAGTTGATG
1 CGATAG-TCGAAACTATCCCTTTTCAT-ATTCGATGGTCGTCACCATCCCTTTTTATAGTTGATG
28135952 GTCGTCACCATCCCTTTTCATAGT
64 GTCGTCACCATCCCTTTTCATAGT
* *
28135976 CGATAGTCAAAACTATCCCTTTTCATATTTGATGGTCGTCACCATCCCTTTTTATAGTTGATGGT
1 CGATAGTCGAAACTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTTATAGTTGATGGT
* *
28136041 TGTTACCATCCCTTTTCATAGT
66 CGTCACCATCCCTTTTCATAGT
*
28136063 CGATAGTCGAAACTATCCATTTTC
1 CGATAGTCGAAACTATCCCTTTTC
28136087 TTTAATATTT
Statistics
Matches: 169, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
86 1 0.01
87 97 0.57
88 68 0.40
89 3 0.02
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (87 bp):
CGATAGTCGAAACTATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTTATAGTTGATGGT
CGTCACCATCCCTTTTCATAGT
Found at i:28142620 original size:34 final size:34
Alignment explanation
Indices: 28142575--28142641 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
28142565 TCAGTTTAGT
* * *
28142575 TGGGCCTTAGCCCATTATAGTGACAGTATCAGTG
1 TGGGCCCTAGCCCATTACAGTGACAGTAACAGTG
*
28142609 TGGGCCCTAGCCCATTACAGTGATAGTAACAGT
1 TGGGCCCTAGCCCATTACAGTGACAGTAACAGT
28142642 TCAGACATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (34 bp):
TGGGCCCTAGCCCATTACAGTGACAGTAACAGTG
Found at i:28142951 original size:27 final size:27
Alignment explanation
Indices: 28142916--28143036 Score: 145
Period size: 27 Copynumber: 4.5 Consensus size: 27
28142906 AAGCATACAA
*
28142916 TCATTTTATAACATAGGGGCATAATAG
1 TCATTTTATAACATAGAGGCATAATAG
* **
28142943 TTATTTTATAACATAGAGGCATAACCG
1 TCATTTTATAACATAGAGGCATAATAG
*
28142970 TTATTTTATAACATAGAGGCATAATAG
1 TCATTTTATAACATAGAGGCATAATAG
* ** *
28142997 TCATCTTACCACGT-GAGGGCATAATAG
1 TCATTTTATAACATAGA-GGCATAATAG
28143024 TCATTTTATAACA
1 TCATTTTATAACA
28143037 GTTTGAGGGT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.03
27 76 0.97
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (27 bp):
TCATTTTATAACATAGAGGCATAATAG
Found at i:28153556 original size:23 final size:23
Alignment explanation
Indices: 28153526--28153580 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
28153516 TCTAAAGTTT
*
28153526 GCATATCATTCTTATTAGGGTTC
1 GCATATCATTCTTAGTAGGGTTC
28153549 GCATATCATTCTTAGTAGGGTTC
1 GCATATCATTCTTAGTAGGGTTC
* *
28153572 ACAAATCAT
1 GCATATCAT
28153581 ACCAAGAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (23 bp):
GCATATCATTCTTAGTAGGGTTC
Found at i:28153859 original size:15 final size:15
Alignment explanation
Indices: 28153839--28153892 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
28153829 CACACCCTTA
28153839 GGTAGCTCGCACAAG
1 GGTAGCTCGCACAAG
*
28153854 GGTAGCTAGCACAAG
1 GGTAGCTCGCACAAG
* * * * *
28153869 AGTAGATCGTAGAAA
1 GGTAGCTCGCACAAG
28153884 GGTAGCTCG
1 GGTAGCTCG
28153893 TATAAGGATA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.33, T:0.17
Consensus pattern (15 bp):
GGTAGCTCGCACAAG
Found at i:28164101 original size:24 final size:23
Alignment explanation
Indices: 28164074--28164124 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
28164064 TTAAAACTAC
28164074 TTCTATAG-AAAACTCAAGAGAAAA
1 TTCT-TAGAAAAACTCAA-AGAAAA
* *
28164098 TTCTTGGAAAAACTCAAAGAGAA
1 TTCTTAGAAAAACTCAAAGAAAA
28164121 TTCT
1 TTCT
28164125 CATTCAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (23 bp):
TTCTTAGAAAAACTCAAAGAAAA
Found at i:28169195 original size:27 final size:27
Alignment explanation
Indices: 28169157--28169230 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
28169147 GGTGACCCCA
28169157 TTCGCCAGGCCTACTAGCGATCCTTAC
1 TTCGCCAGGCCTACTAGCGATCCTTAC
* *
28169184 TTCGCCAGGCCTATTAGTGATCCTTAC
1 TTCGCCAGGCCTACTAGCGATCCTTAC
* *
28169211 TTCGCCAAGCCTACTGGCGA
1 TTCGCCAGGCCTACTAGCGA
28169231 AAACCAACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.19, C:0.34, G:0.20, T:0.27
Consensus pattern (27 bp):
TTCGCCAGGCCTACTAGCGATCCTTAC
Found at i:28176646 original size:31 final size:30
Alignment explanation
Indices: 28176611--28176676 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
28176601 ATTTCTTCAA
*
28176611 AAATTGGCAAAAAACTCTC-AAATTTCTCTTT
1 AAATT-GCAAAAAACTCTCAAAATTT-TCCTT
* **
28176642 AAATTTCTCAAAACTCTCAAAATTTTCCTT
1 AAATTGCAAAAAACTCTCAAAATTTTCCTT
28176672 AAATT
1 AAATT
28176677 TCTCAAAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (30 bp):
AAATTGCAAAAAACTCTCAAAATTTTCCTT
Found at i:28176657 original size:30 final size:30
Alignment explanation
Indices: 28176621--28176689 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
28176611 AAATTGGCAA
*
28176621 AAAACTCTC-AAATTTCTCTTTAAATTTCTC
1 AAAACTCTCAAAATTT-TCCTTAAATTTCTC
28176651 AAAACTCTCAAAATTTTCCTTAAATTTCTC
1 AAAACTCTCAAAATTTTCCTTAAATTTCTC
*
28176681 AAAGCTCTC
1 AAAACTCTC
28176690 TTTAATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 30 0.83
31 6 0.17
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (30 bp):
AAAACTCTCAAAATTTTCCTTAAATTTCTC
Found at i:28178087 original size:18 final size:18
Alignment explanation
Indices: 28178064--28178123 Score: 102
Period size: 18 Copynumber: 3.3 Consensus size: 18
28178054 GCCAGGTGTA
*
28178064 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
28178082 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
28178100 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
28178118 TTTCCT
1 TATCCT
28178124 TTTCCCAGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.23, C:0.28, G:0.07, T:0.42
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:28178608 original size:58 final size:59
Alignment explanation
Indices: 28178498--28178612 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 59
28178488 GTACAAACTT
* * ****
28178498 TTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTTAATATTTTAATAGTAAATTA
1 TTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG-AAATTA
28178558 TTTTTATATT-TTT-ATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAGAAAT
1 TTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAGAAAT
28178613 AATGCGACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
57 4 0.08
58 32 0.65
59 3 0.06
60 10 0.20
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.50
Consensus pattern (59 bp):
TTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAGAAATTA
Found at i:28182003 original size:126 final size:126
Alignment explanation
Indices: 28181778--28182050 Score: 438
Period size: 126 Copynumber: 2.2 Consensus size: 126
28181768 TAAGGCCAAA
**
28181778 CAAGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGATTTTTTCATCAATTTTGCTAACAGTGC
1 CAAGAACTACTGCAGAAAAAGAGCGTCCACGTGGGAGATTTTTTCATCAATTTTGCTAACAGTGC
* * *
28181843 ATCTTGCTTGAACCATTTTTGACACTATTTGTTCAGAACCATCTTCTTAAAATTATTTTTT
66 ATCCTGCTTGAACCATTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATAATTTTTT
* * *
28181904 CAAGAACTACTGCAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
1 CAAGAACTACTGCAGAAAAAGAGCGTCCACGTGGGAGATTTTTTCATCAATTTTGCTAACAGTGC
* * *
28181969 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACTATCTTCTCAAAATAATTTTTT
66 ATCCTGCTTGAACCATTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATAATTTTTT
28182030 CAAGAACTACTGCAAGAAAAA
1 CAAGAACTACTGC-AGAAAAA
28182051 AATCATTATT
Statistics
Matches: 135, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
126 128 0.95
127 7 0.05
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (126 bp):
CAAGAACTACTGCAGAAAAAGAGCGTCCACGTGGGAGATTTTTTCATCAATTTTGCTAACAGTGC
ATCCTGCTTGAACCATTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATAATTTTTT
Found at i:28182226 original size:33 final size:33
Alignment explanation
Indices: 28182105--28182230 Score: 128
Period size: 34 Copynumber: 3.8 Consensus size: 33
28182095 CACAAAGTTA
*
28182105 TTTTCAAAA-ACTAAACCCTAATTTAATTAATT
1 TTTTAAAAACACTAAACCCTAATTTAATTAATT
* * * * *
28182137 TTCTTAAAAACTCTAAATCATAATTTTATTTATT
1 TT-TTAAAAACACTAAACCCTAATTTAATTAATT
* * *
28182171 TATTTAAAACCCCTAAAACCTAATTTAATTAATT
1 T-TTTAAAAACACTAAACCCTAATTTAATTAATT
**
28182205 TTAAAAAAACACTAAACCCTAATTTA
1 TTTTAAAAACACTAAACCCTAATTTA
28182231 TTTTTTAAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
32 2 0.03
33 26 0.35
34 45 0.61
35 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (33 bp):
TTTTAAAAACACTAAACCCTAATTTAATTAATT
Found at i:28183940 original size:29 final size:30
Alignment explanation
Indices: 28183908--28183971 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
28183898 TTGAACCATT
*
28183908 CATCAAAATTCAAACATCAA-TAAAGT-GTC
1 CATCAAAATACAAACATCAATTAAA-TCGTC
*
28183937 CATCAAAATACAACCATCAATTAAATCGTC
1 CATCAAAATACAAACATCAATTAAATCGTC
28183967 CATCA
1 CATCA
28183972 CTGAAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.47, C:0.25, G:0.05, T:0.23
Consensus pattern (30 bp):
CATCAAAATACAAACATCAATTAAATCGTC
Found at i:28189720 original size:21 final size:24
Alignment explanation
Indices: 28189680--28189724 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 24
28189670 CTACCTAATG
28189680 ACTTGTCAGTATCATTTCCCCACT
1 ACTTGTCAGTATCATTTCCCCACT
28189704 ACTT-TCAGTA-C-TTTCCCCACT
1 ACTTGTCAGTATCATTTCCCCACT
28189725 CTCAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 1 0.05
23 6 0.29
24 4 0.19
ACGTcount: A:0.20, C:0.36, G:0.07, T:0.38
Consensus pattern (24 bp):
ACTTGTCAGTATCATTTCCCCACT
Found at i:28190331 original size:4 final size:4
Alignment explanation
Indices: 28190317--28190360 Score: 52
Period size: 4 Copynumber: 10.2 Consensus size: 4
28190307 ACAGTGCTAA
*
28190317 ACAT AACAT ACAT ACAT ACAT AACAT ACAT AATAT ACAT ACAT A
1 ACAT -ACAT ACAT ACAT ACAT -ACAT ACAT -ACAT ACAT ACAT A
28190361 ACATTAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 24 0.69
5 11 0.31
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:28190342 original size:9 final size:9
Alignment explanation
Indices: 28190317--28190595 Score: 99
Period size: 9 Copynumber: 30.6 Consensus size: 9
28190307 ACAGTGCTAA
28190317 ACATAACAT
1 ACATAACAT
28190326 ACAT-ACAT
1 ACATAACAT
28190334 ACATAACAT
1 ACATAACAT
*
28190343 ACATAATAT
1 ACATAACAT
28190352 ACAT-ACAT
1 ACATAACAT
* *
28190360 AACATTAATAA
1 -ACA-TAACAT
*
28190371 ACA-ATCAT
1 ACATAACAT
28190379 ACACATAACAAT
1 --ACATAAC-AT
*
28190391 AATATACCACAT
1 -ACATA--ACAT
28190403 A-ATATACAT
1 ACATA-ACAT
28190412 ACATAACAT
1 ACATAACAT
28190421 ACATAA-A-
1 ACATAACAT
28190428 A-ATATACAT
1 ACATA-ACAT
28190437 A-ATATACA-
1 ACATA-ACAT
28190445 ACCATAACAGT
1 A-CATAACA-T
*
28190456 A-ATATA-AC
1 ACATA-ACAT
*
28190464 ACATAACAA
1 ACATAACAT
*
28190473 ACAT-AGA-
1 ACATAACAT
28190480 A-ATATACAT
1 ACATA-ACAT
* *
28190489 AAATAATAT
1 ACATAACAT
28190498 ACATAACATT
1 ACATAACA-T
*
28190508 ACTTAACAT
1 ACATAACAT
28190517 AACAT-ACAT
1 -ACATAACAT
*
28190526 ACA-AATAT
1 ACATAACAT
28190534 ACA-AACAT
1 ACATAACAT
28190542 AACAGTAAACAT
1 -ACA-T-AACAT
28190554 AGCAT-ACAT
1 A-CATAACAT
* *
28190563 ATATAATAGT
1 ACATAACA-T
28190573 ACATAACAT
1 ACATAACAT
*
28190582 ACATAATAT
1 ACATAACAT
28190591 ACATA
1 ACATA
28190596 GCAGTTTAAA
Statistics
Matches: 208, Mismatches: 27, Indels: 70
0.68 0.09 0.23
Matches are distributed among these distances:
6 5 0.02
7 3 0.01
8 37 0.18
9 100 0.48
10 38 0.18
11 12 0.06
12 11 0.05
13 2 0.01
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.25
Consensus pattern (9 bp):
ACATAACAT
Found at i:28190424 original size:65 final size:65
Alignment explanation
Indices: 28190334--28190498 Score: 169
Period size: 65 Copynumber: 2.5 Consensus size: 65
28190324 ATACATACAT
* *
28190334 ACATAACATACATAATATACATACATAACATTAATAAACAATCATAC-A-CATAACAATAATATA
1 ACATAACATACATAATATACATACATAAAAAT-ATAAACAAT-ATACAACCATAACAATAATATA
*
28190397 CC
64 AC
* * * *
28190399 ACATAATATACATACATA-ACATACATAAAAATATACATAATATACAACCATAACAGTAATATAA
1 ACATAACATACATA-ATATACATACATAAAAATATAAACAATATACAACCATAACAATAATATAA
28190463 C
65 C
* *
28190464 ACATAACAAACATAGA-A-ATATACATAAATAATATA
1 ACATAACATACATA-ATATACATACATAAA-AATATA
28190499 CATAACATTA
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
63 4 0.05
64 19 0.22
65 59 0.69
66 3 0.04
ACGTcount: A:0.58, C:0.17, G:0.01, T:0.24
Consensus pattern (65 bp):
ACATAACATACATAATATACATACATAAAAATATAAACAATATACAACCATAACAATAATATAAC
Found at i:28190554 original size:65 final size:60
Alignment explanation
Indices: 28190403--28190554 Score: 139
Period size: 65 Copynumber: 2.4 Consensus size: 60
28190393 TATACCACAT
* * *
28190403 AATATACATACATAACAT-ACATAAAAATATACATAATATACAACCATAACAGTAATATA
1 AATATACAAACATAACATAACATAAAAATATACATAACATACAACCATAACAGTAATACA
* *
28190462 ACACATAACAAACATAGAAATATACATAAATAATATACATAACATTACTTAA-CATAACA-TACA
1 A-ATAT-ACAAACATA-ACATA-ACATAAA-AATATACATAACA-TAC--AACCATAACAGTA-A
28190525 TACA
57 TACA
28190529 AATATACAAACATAACAGTAAACATA
1 AATATACAAACATAACA-T-AACATA
28190555 GCATACATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
59 1 0.01
60 3 0.04
61 8 0.11
62 3 0.04
64 9 0.12
65 27 0.36
66 9 0.12
67 12 0.16
68 2 0.03
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.24
Consensus pattern (60 bp):
AATATACAAACATAACATAACATAAAAATATACATAACATACAACCATAACAGTAATACA
Found at i:28190582 original size:23 final size:25
Alignment explanation
Indices: 28190550--28190596 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
28190540 ATAACAGTAA
*
28190550 ACATAGCATACAT-ATATA-ATAGT
1 ACATAACATACATAATATACATAGT
28190573 ACATAACATACATAATATACATAG
1 ACATAACATACATAATATACATAG
28190597 CAGTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 5 0.24
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (25 bp):
ACATAACATACATAATATACATAGT
Found at i:28191242 original size:21 final size:22
Alignment explanation
Indices: 28191216--28191268 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
28191206 GATATATGTC
*
28191216 ATATATATATGTTA-ACTTAAT
1 ATATATATATGTTATAATTAAT
*
28191237 ATATATTTATGTTATAATTAAT
1 ATATATATATGTTATAATTAAT
*
28191259 AAATAGTATA
1 ATATA-TATA
28191269 AATGTATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 13 0.50
22 10 0.38
23 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (22 bp):
ATATATATATGTTATAATTAAT
Found at i:28191276 original size:29 final size:30
Alignment explanation
Indices: 28191244--28191300 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
28191234 AATATATATT
28191244 TATGTTATAATTA-ATAA-ATAGT-ATAAATG
1 TATG-TAT-ATTATATAATATAGTAATAAATG
28191273 TATGTATATTATATAATATAGTAATAAA
1 TATGTATATTATATAATATAGTAATAAA
28191301 ATGAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 4 0.16
28 7 0.28
29 9 0.36
30 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (30 bp):
TATGTATATTATATAATATAGTAATAAATG
Found at i:28191542 original size:10 final size:10
Alignment explanation
Indices: 28191527--28191555 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
28191517 TGTCATAATT
28191527 TTTAGTATTG
1 TTTAGTATTG
28191537 TTTAGTATTG
1 TTTAGTATTG
28191547 TTTAGTATT
1 TTTAGTATT
28191556 TTAGATGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (10 bp):
TTTAGTATTG
Found at i:28191585 original size:36 final size:36
Alignment explanation
Indices: 28191544--28191617 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
28191534 TTGTTTAGTA
*
28191544 TTGTTTAGTATTTTAGATGTTGTCATTGTTGAGCAG
1 TTGTTTAGTATTCTAGATGTTGTCATTGTTGAGCAG
*
28191580 TTGTTTAGTATTCTAGATGTTGTCATTGTTGAGTAG
1 TTGTTTAGTATTCTAGATGTTGTCATTGTTGAGCAG
28191616 TT
1 TT
28191618 TAAGTATTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.05, G:0.24, T:0.51
Consensus pattern (36 bp):
TTGTTTAGTATTCTAGATGTTGTCATTGTTGAGCAG
Found at i:28193347 original size:20 final size:21
Alignment explanation
Indices: 28193308--28193348 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
28193298 TATTTTGGCA
* *
28193308 TGTTTTGAGTATGTTTAAATG
1 TGTTTTGAATATGGTTAAATG
28193329 TGTTTTGAATA-GGTTAAATG
1 TGTTTTGAATATGGTTAAATG
28193349 GTTGGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (21 bp):
TGTTTTGAATATGGTTAAATG
Found at i:28194098 original size:82 final size:82
Alignment explanation
Indices: 28193959--28194113 Score: 256
Period size: 82 Copynumber: 1.9 Consensus size: 82
28193949 GCTTGCGATG
* * *
28193959 AAATTAAATGTTTTGATTGGTTAGTAATGCCCATGACCCTAATCTGACGATGTAGAGGGGTTAGG
1 AAATTAAATGTTTTGATTGGTTAGTAATGCCCATGACCCTAATCTAACAATGGAGAGGGGTTAGG
28194024 GGTGTTACATTTAGTTT
66 GGTGTTACATTTAGTTT
* * *
28194041 AAATTAAATGTTTTGATTGGTTAGTAATGCCCGTGACCCTAATTTAATAATGGAGAGGGGTTAGG
1 AAATTAAATGTTTTGATTGGTTAGTAATGCCCATGACCCTAATCTAACAATGGAGAGGGGTTAGG
28194106 GGTGTTAC
66 GGTGTTAC
28194114 GGCAAAATAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.35
Consensus pattern (82 bp):
AAATTAAATGTTTTGATTGGTTAGTAATGCCCATGACCCTAATCTAACAATGGAGAGGGGTTAGG
GGTGTTACATTTAGTTT
Found at i:28195975 original size:28 final size:28
Alignment explanation
Indices: 28195943--28196110 Score: 241
Period size: 28 Copynumber: 6.0 Consensus size: 28
28195933 TAGTACAGTA
28195943 TGGGCCTTAGCCCAATACAGTAATAGTG
1 TGGGCCTTAGCCCAATACAGTAATAGTG
*
28195971 TGGGCCTTAGCCCAATACAGTAACAGTG
1 TGGGCCTTAGCCCAATACAGTAATAGTG
*
28195999 TGGGCCTTAGCCCAATATAG-AATCAGTG
1 TGGGCCTTAGCCCAATACAGTAAT-AGTG
* * *
28196027 TGGGCCTTGGCCTAATACAGTAATAATG
1 TGGGCCTTAGCCCAATACAGTAATAGTG
28196055 TGGGCCTTAGCCCAATACAG-AATCAGTG
1 TGGGCCTTAGCCCAATACAGTAAT-AGTG
* *
28196083 TGGGCCTTAGTCCAATACAGTAACAGTG
1 TGGGCCTTAGCCCAATACAGTAATAGTG
28196111 CAGTGTAATA
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
27 5 0.04
28 114 0.92
29 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTAATAGTG
Found at i:28196011 original size:56 final size:56
Alignment explanation
Indices: 28195937--28196110 Score: 269
Period size: 56 Copynumber: 3.1 Consensus size: 56
28195927 TAGTGATAGT
*
28195937 ACAGTATGGGCCTTAGCCCAATACAGTAAT-AGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAG-AATCAGTGTGGGCCTTAGCCCAATACAGTA
* * *
28195993 ACAGTGTGGGCCTTAGCCCAATATAGAATCAGTGTGGGCCTTGGCCTAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTA
* * *
28196049 ATAATGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGTCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTA
28196105 ACAGTG
1 ACAGTG
28196111 CAGTGTAATA
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 3 0.03
56 102 0.97
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (56 bp):
ACAGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:28196543 original size:27 final size:27
Alignment explanation
Indices: 28196526--28196716 Score: 242
Period size: 27 Copynumber: 7.1 Consensus size: 27
28196516 GGGTATAACA
*
28196526 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
28196553 GTCATATTACCATATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
28196580 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
28196607 GTCATTTTACCCTAT-GGGGTTATTTCG
1 GTCATTTTACCCTATAGGGG-TATTTCG
* *
28196634 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
28196661 ATCATTTTACCTTATAGTGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
28196688 GTCATTTTACCCTAT-GACGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTCG
28196715 GT
1 GT
28196717 ATAGATATCG
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.03
27 135 0.94
28 4 0.03
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:28198243 original size:21 final size:21
Alignment explanation
Indices: 28198175--28198244 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
28198165 CACTTATTAA
* *
28198175 AATC-TTTTAAAATAATTTTT
1 AATCATTTTAGAATAATTTTG
* *
28198195 CATCATTTT-GAA-AACTTTGG
1 AATCATTTTAGAATAA-TTTTG
28198215 ACA-CATTTTAGAATAATTTTG
1 A-ATCATTTTAGAATAATTTTG
28198236 AATCATTTT
1 AATCATTTT
28198245 CAAGGTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
19 2 0.05
20 15 0.39
21 19 0.50
22 2 0.05
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
AATCATTTTAGAATAATTTTG
Found at i:28199677 original size:18 final size:19
Alignment explanation
Indices: 28199654--28199692 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
28199644 TGGAGGATGT
*
28199654 AATTG-AGATCAATTTTAA
1 AATTGAAGATCAAATTTAA
*
28199672 AATTGAAGCTCAAATTTAA
1 AATTGAAGATCAAATTTAA
28199691 AA
1 AA
28199693 GATATTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (19 bp):
AATTGAAGATCAAATTTAA
Found at i:28200118 original size:6 final size:6
Alignment explanation
Indices: 28200107--28200135 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
28200097 TGATTGAATG
28200107 ATATGT ATATGT ATATGT ATATGT ATATG
1 ATATGT ATATGT ATATGT ATATGT ATATG
28200136 CTATTACAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:28205796 original size:20 final size:18
Alignment explanation
Indices: 28205749--28205840 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 18
28205739 CAAGGTAAAC
28205749 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
28205766 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
*
28205786 ATTAAATTAATA--AAAT
1 ATTAAATTAATATTTAAT
* *
28205802 ACT--ATTAAGA--TAAGT
1 ATTAAATTAATATTTAA-T
28205817 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
28205834 ATTAAAT
1 ATTAAAT
28205841 CTATTAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
14 8 0.13
15 3 0.05
16 6 0.10
17 21 0.35
18 4 0.07
19 3 0.05
20 15 0.25
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:28207050 original size:11 final size:12
Alignment explanation
Indices: 28207020--28207052 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
28207010 ATTACAAGTG
28207020 AATTAATTCACA
1 AATTAATTCACA
*
28207032 AATAAATTCA-A
1 AATTAATTCACA
28207043 AATTAATTCA
1 AATTAATTCA
28207053 TTATGGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:28217224 original size:21 final size:20
Alignment explanation
Indices: 28217187--28217237 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
28217177 CTAATTTAGT
*
28217187 GATTAATAATGAATTAATTAAA
1 GATTAATTAT-AATTAATT-AA
28217209 GATTAATTATAATTAATTAA
1 GATTAATTATAATTAATTAA
*
28217229 GGTTAATTA
1 GATTAATTA
28217238 ATCATTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 10 0.37
21 8 0.30
22 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (20 bp):
GATTAATTATAATTAATTAA
Found at i:28217244 original size:21 final size:21
Alignment explanation
Indices: 28217187--28217246 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
28217177 CTAATTTAGT
*
28217187 GATTAATAATGAATTAATTAAA
1 GATTAATTAT-AATTAATTAAA
28217209 GATTAATTATAATTAATT-AA
1 GATTAATTATAATTAATTAAA
* *
28217229 GGTTAATTAATCATTAAT
1 GATTAATT-ATAATTAAT
28217247 CATATTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.26
21 16 0.47
22 9 0.26
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (21 bp):
GATTAATTATAATTAATTAAA
Found at i:28218415 original size:48 final size:48
Alignment explanation
Indices: 28218361--28218465 Score: 151
Period size: 47 Copynumber: 2.2 Consensus size: 48
28218351 TCAAACAGTA
*
28218361 AAAACCATTGTTACCAGG-CAACCTAGGATGGTAAAGTGTGTATATAG-T
1 AAAACCATCGTTACC-GGAC-ACCTAGGATGGTAAAGTGTGTATATAGTT
* *
28218409 GAAACCATCGTTGCCGGACACCTAGGATGGTAAAGTGTGTATATAGTT
1 AAAACCATCGTTACCGGACACCTAGGATGGTAAAGTGTGTATATAGTT
28218457 AAAACCATC
1 AAAACCATC
28218466 ATTGTCAGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
47 29 0.57
48 22 0.43
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (48 bp):
AAAACCATCGTTACCGGACACCTAGGATGGTAAAGTGTGTATATAGTT
Found at i:28243981 original size:15 final size:16
Alignment explanation
Indices: 28243961--28243997 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
28243951 TTTATTATTA
28243961 TTTTTTGA-AGATTTT
1 TTTTTTGACAGATTTT
*
28243976 TTTTTTTACAGATTTT
1 TTTTTTGACAGATTTT
28243992 TTTTTT
1 TTTTTT
28243998 TTTTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.73
Consensus pattern (16 bp):
TTTTTTGACAGATTTT
Found at i:28245189 original size:21 final size:20
Alignment explanation
Indices: 28245152--28245202 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
28245142 CTAATTTAGT
*
28245152 GATTAATAATGAATTAATTAAA
1 GATTAATTAT-AATTAATT-AA
28245174 GATTAATTATAATTAATTAA
1 GATTAATTATAATTAATTAA
*
28245194 GGTTAATTA
1 GATTAATTA
28245203 ATCATTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 10 0.37
21 8 0.30
22 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (20 bp):
GATTAATTATAATTAATTAA
Found at i:28245209 original size:21 final size:21
Alignment explanation
Indices: 28245152--28245211 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
28245142 CTAATTTAGT
*
28245152 GATTAATAATGAATTAATTAAA
1 GATTAATTAT-AATTAATTAAA
28245174 GATTAATTATAATTAATT-AA
1 GATTAATTATAATTAATTAAA
* *
28245194 GGTTAATTAATCATTAAT
1 GATTAATT-ATAATTAAT
28245212 CATATTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.26
21 16 0.47
22 9 0.26
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (21 bp):
GATTAATTATAATTAATTAAA
Found at i:28246376 original size:49 final size:49
Alignment explanation
Indices: 28246323--28246429 Score: 171
Period size: 49 Copynumber: 2.2 Consensus size: 49
28246313 TCAAACAGTA
*
28246323 AAAACCATTGTTACCAGG-CAACCTAGGATGGTAAAGTGTGTATATAGTG
1 AAAACCATCGTTACC-GGACAACCTAGGATGGTAAAGTGTGTATATAGTG
* *
28246372 AAAACCATCGTTGCCGGACAACCTAGGATGGTAAAGTGTGTATATAGTT
1 AAAACCATCGTTACCGGACAACCTAGGATGGTAAAGTGTGTATATAGTG
28246421 AAAACCATC
1 AAAACCATC
28246430 ATTGTCAGGC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 2 0.04
49 52 0.96
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (49 bp):
AAAACCATCGTTACCGGACAACCTAGGATGGTAAAGTGTGTATATAGTG
Found at i:28268013 original size:23 final size:23
Alignment explanation
Indices: 28267982--28268053 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
28267972 TGATAAGATC
* *
28267982 TATTATGTGATGCCTTTTTGGCA
1 TATTTTGTGATGCCTTTGTGGCA
**
28268005 TATTTTGTGATGCCTTTGTGGTG
1 TATTTTGTGATGCCTTTGTGGCA
*
28268028 TA-TTTGTGATGTCTTTGTGGCA
1 TATTTTGTGATGCCTTTGTGGCA
28268050 TATT
1 TATT
28268054 CTATAACGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 19 0.46
23 22 0.54
ACGTcount: A:0.14, C:0.10, G:0.25, T:0.51
Consensus pattern (23 bp):
TATTTTGTGATGCCTTTGTGGCA
Found at i:28268022 original size:11 final size:11
Alignment explanation
Indices: 28268008--28268046 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
28267998 TTTGGCATAT
*
28268008 TTTGTGATGCC
1 TTTGTGATGTC
* *
28268019 TTTGTGGTGTA
1 TTTGTGATGTC
28268030 TTTGTGATGTC
1 TTTGTGATGTC
28268041 TTTGTG
1 TTTGTG
28268047 GCATATTCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.08, C:0.08, G:0.31, T:0.54
Consensus pattern (11 bp):
TTTGTGATGTC
Found at i:28268036 original size:22 final size:22
Alignment explanation
Indices: 28267982--28268053 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
28267972 TGATAAGATC
*
28267982 TATTATGTGATGCCTTTTTGGCA
1 TATT-TGTGATGCCTTTGTGGCA
**
28268005 TATTTTGTGATGCCTTTGTGGTG
1 TA-TTTGTGATGCCTTTGTGGCA
*
28268028 TATTTGTGATGTCTTTGTGGCA
1 TATTTGTGATGCCTTTGTGGCA
28268050 TATT
1 TATT
28268054 CTATAACGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 21 0.50
23 19 0.45
24 2 0.05
ACGTcount: A:0.14, C:0.10, G:0.25, T:0.51
Consensus pattern (22 bp):
TATTTGTGATGCCTTTGTGGCA
Found at i:28270535 original size:19 final size:19
Alignment explanation
Indices: 28270511--28270621 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
28270501 AATCTTCGAG
28270511 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28270530 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
28270549 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28270568 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
28270587 GATATATAATCTTAGATAA
1 GATATGCAATCTTAGATAT
28270606 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
28270622 AGATATGATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:28270561 original size:38 final size:38
Alignment explanation
Indices: 28270518--28270621 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
28270508 GAGGATATGC
28270518 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
28270556 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
28270594 AATCTTAGATAAGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
28270622 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:28270585 original size:57 final size:55
Alignment explanation
Indices: 28270501--28270628 Score: 168
Period size: 57 Copynumber: 2.3 Consensus size: 55
28270491 ATGGAAACAT
* * * *
28270501 AATCTTCGAGGATATGCAATCTTAGATATGATATGCAATCTTAGATATA-ATATAT
1 AATCTTAGAAGATATGCAATCTTAGATATGATATACAATCTTAGATA-AGATATAC
* *
28270556 AATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATAAGATATGC
1 AATCTTAGA-A-GATATGCAATCTTAGATATGATATACAATCTTAGATAAGATATAC
28270613 AATCTTAGAAGATATG
1 AATCTTAGAAGATATG
28270629 ATTTTGTAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
55 14 0.22
56 2 0.03
57 48 0.75
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (55 bp):
AATCTTAGAAGATATGCAATCTTAGATATGATATACAATCTTAGATAAGATATAC
Found at i:28270855 original size:22 final size:19
Alignment explanation
Indices: 28270814--28270856 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
28270804 TAAAGGTGGC
*
28270814 TTATTTTTTTTTCTTTCGA
1 TTATTTTTTTTTATTTCGA
28270833 TTATTTTTTTACTTATTTACGA
1 TTATTTTTTT--TTATTT-CGA
28270855 TT
1 TT
28270857 TTAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (19 bp):
TTATTTTTTTTTATTTCGA
Found at i:28276969 original size:388 final size:390
Alignment explanation
Indices: 28276253--28277542 Score: 2006
Period size: 388 Copynumber: 3.3 Consensus size: 390
28276243 GCAGATCTTG
** * * *
28276253 TCTCCCTAAGCAGTAGCAGAACAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTGGA
* *
28276318 GTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCT
66 GTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCT
* * *
28276383 TATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAGTG
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTG
* * *
28276448 GAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGT
196 GAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGAT
* * * *
28276513 CTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATTGTGGATTTTACCTCTCTGTGGTTACAG
261 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAG
28276578 TGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGG-AACAGTGGAATAGATTGAAGA-TTTCA
326 TGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTTCA
*
28276641 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCTTATGGTTACAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTGGA
* *
28276706 GTACATTGCAGCCAGTAATTCTACTTTCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCT
66 GTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCT
* * *
28276771 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTATGGTTATACTG
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTG
28276836 GAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGAT
196 GAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGAT
28276901 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAG
261 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAG
*
28276966 TGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCTACAGTGGAATAGATTGAAGATTTTAG
326 TGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGA--TT--
*
28277031 ATTTA
387 -TTCA
* * * * *
28277036 TCTCCCTAAGTAGTTGTGGAGCATATCAAAGATGGCAGATTTTACCTCCCTATGGTTACAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTGGA
*
28277101 GTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGT-G----G--TGAAGATTTCAGATCT
66 GTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCT
28277159 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTG
131 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTG
*
28277224 GAGTATATTGAAGCCACTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGAT
196 GAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGAT
*
28277289 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAG
261 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAG
* * *
28277354 TTGAGTACATTGAAGCCAGTAATTTTACTTCCTTGGGCAACAGTGGAATAGATTGAAGATTTCAG
326 TGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT---
28277419 ATCTTA
388 -TC--A
* * *
28277425 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTGGA
* * * * *
28277490 GTACATTGAAGCCAGTAATCCTA-TCTCCCTGGTCAGCAATGGAATAGGTTGAA
66 GTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAACAGTGGAATAGATTGAA
28277543 AATCGTGAAC
Statistics
Matches: 824, Mismatches: 57, Indels: 34
0.90 0.06 0.04
Matches are distributed among these distances:
383 1 0.00
386 2 0.00
387 1 0.00
388 601 0.73
389 111 0.13
390 2 0.00
392 1 0.00
394 2 0.00
395 99 0.12
396 4 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (390 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTGGA
GTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCT
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTACAGTG
GAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGAT
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAG
TGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTTCA
Found at i:28277225 original size:520 final size:520
Alignment explanation
Indices: 28276244--28277542 Score: 2102
Period size: 520 Copynumber: 2.5 Consensus size: 520
28276234 TTAAAAATAG
* ** * *
28276244 CAGATCTTGTCTCCCTAAGCAGTAGCAGAACAGATCGAAGATGGTGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
*
28276309 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
* * *
28276374 TTCAGGTCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTG
131 TTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTG
28276439 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAG
196 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAG
* * * ** * *
28276504 ATTTCAGGTCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATTGTGGATTTTACCTCTCTG
261 ATTTCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTA
28276569 TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGAACAGTGGAATAGATTGAA
326 TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGAACAGTGGAATAGATTGAA
*
28276634 GATTTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCTTATGGTTA
391 GATTTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTA
* * *
28276699 CAGTGGAGTACATTGCAGCCAGTAATTCTACTTTCCTGGGCAACAGTGGAATAGATTGAAGATTT
456 CAGTGGAGTACATTGAAGCCACTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT
* *
28276764 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTATGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* * *
28276829 TATACTGGAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28276894 TTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTG
131 TTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTG
* *
28276959 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCTACAGTGGAATAGATTGAAG
196 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAG
* * * * *
28277024 ATTTTAGAT-TTATCTCCCTAAGTAGTTGTGGAGCATATCAAAGATGGCAGATTTTACCTCCCTA
261 ATTTCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTA
* * *
28277088 TGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGTGA-AGATTT
326 TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGG-AACAGTGG-AATAGATTG
*
28277152 CAGATCTT-ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGG
389 AAGAT-TTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGG
*
28277216 TTACAGTGGAGTATATTGAAGCCACTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGA
453 TTACAGTGGAGTACATTGAAGCCACTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGA
28277281 TTT
518 TTT
*
28277284 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* * *
28277349 TACAGTTGAGTACATTGAAGCCAGTAATTTTACTTCCTTGGGCAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
* *
28277414 TTCAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTG
131 TTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTG
* * * * *
28277479 GTTACAGTGGAGTACATTGAAGCCAGTAATCCTA-TCTCCCTGGTCAGCAATGGAATAGGTTGAA
196 GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAA
28277543 AATCGTGAAC
Statistics
Matches: 721, Mismatches: 54, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
519 91 0.13
520 627 0.87
521 3 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (520 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
TTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTG
GTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAG
ATTTCAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTA
TGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGAACAGTGGAATAGATTGAA
GATTTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTA
CAGTGGAGTACATTGAAGCCACTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTT
Found at i:28277580 original size:132 final size:132
Alignment explanation
Indices: 28276244--28277542 Score: 2047
Period size: 132 Copynumber: 10.0 Consensus size: 132
28276234 TTAAAAATAG
* ** * *
28276244 CAGATCTTGTCTCCCTAAGCAGTAGCAGAACAGATCGAAGATGGTGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
*
28276309 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28276374 TT
131 TT
* * *
28276376 CAGGTCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
*
28276441 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28276506 TT
131 TT
* * * * *
28276508 CAGGTCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATTGTGGATTTTACCTCTCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
28276573 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGG-AACAGTGGAATAGATTGAAGA-
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28276636 TT
131 TT
* *
28276638 ----TC--ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCTTATGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* *
28276697 TACAGTGGAGTACATTGCAGCCAGTAATTCTACTTTCCTGGGCAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28276762 TT
131 TT
* *
28276764 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTATGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* * *
28276829 TATACTGGAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28276894 TT
131 TT
28276896 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
*
28276961 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCTACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28277026 TT
131 TT
* * * * * * *
28277028 TAGAT-TTATCTCCCTAAGTAGTTGTGGAGCATATCAAAGATGGCAGATTTTACCTCCCTATGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
*
28277092 TACAGTGGAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGT-G----G--TGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28277150 TT
131 TT
*
28277152 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* *
28277217 TACAGTGGAGTATATTGAAGCCACTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28277282 TT
131 TT
*
28277284 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* * *
28277349 TACAGTTGAGTACATTGAAGCCAGTAATTTTACTTCCTTGGGCAACAGTGGAATAGATTGAAGAT
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
28277414 TT
131 TT
* *
28277416 CAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
* * * * *
28277481 TACAGTGGAGTACATTGAAGCCAGTAATCCTA-TCTCCCTGGTCAGCAATGGAATAGGTTGAA
66 TACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAACAGTGGAATAGATTGAA
28277543 AATCGTGAAC
Statistics
Matches: 1084, Mismatches: 66, Indels: 34
0.92 0.06 0.03
Matches are distributed among these distances:
124 104 0.10
125 123 0.11
126 6 0.01
130 6 0.01
131 122 0.11
132 723 0.67
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGT
TACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGAT
TT
Found at i:28277879 original size:44 final size:44
Alignment explanation
Indices: 28277782--28277944 Score: 126
Period size: 44 Copynumber: 3.8 Consensus size: 44
28277772 GAAGAAAGCA
* *
28277782 AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGACTAAATCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATCCAAT
* ** *
28277826 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAT-CACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAATCCA-AT
* * * *
28277870 GATCTTATCTCTCTGAAGTTGCA---GAG-AG-C-AGATCGCATTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATC-CA-AT
* *
28277910 AGTCTTATCTCCCTCAAGTTGCAGTGGAGCAGACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
28277945 CAAGAAAGCA
Statistics
Matches: 90, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
37 3 0.03
39 2 0.02
40 20 0.22
41 3 0.03
43 3 0.03
44 53 0.59
45 6 0.07
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATCCAAT
Found at i:28278360 original size:19 final size:19
Alignment explanation
Indices: 28278336--28278446 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
28278326 AATCTTCGAG
28278336 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28278355 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
28278374 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28278393 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
28278412 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28278431 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
28278447 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:28278386 original size:38 final size:38
Alignment explanation
Indices: 28278343--28278446 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
28278333 GAGGATATGC
28278343 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
28278381 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
28278419 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
28278447 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:28278410 original size:57 final size:55
Alignment explanation
Indices: 28278326--28278453 Score: 175
Period size: 57 Copynumber: 2.3 Consensus size: 55
28278316 ATGGAAACAT
* * * *
28278326 AATCTTCGAGGATATGCAATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGAAGATATGCAATCTTAGATATGATATACAATCTTAGATATAATATAC
* * *
28278381 AATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATATGATATGC
1 AATCTTAGA-A-GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATAC
28278438 AATCTTAGAAGATATG
1 AATCTTAGAAGATATG
28278454 ATTTTGTAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
55 14 0.22
56 1 0.02
57 49 0.77
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (55 bp):
AATCTTAGAAGATATGCAATCTTAGATATGATATACAATCTTAGATATAATATAC
Found at i:28278472 original size:22 final size:21
Alignment explanation
Indices: 28278336--28278472 Score: 114
Period size: 19 Copynumber: 6.9 Consensus size: 21
28278326 AATCTTCGAG
*
28278336 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
28278355 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
28278374 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
28278393 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
28278412 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
28278431 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
28278453 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
28278473 TTAATTTGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
19 79 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:28280356 original size:119 final size:117
Alignment explanation
Indices: 28280187--28280424 Score: 368
Period size: 119 Copynumber: 2.0 Consensus size: 117
28280177 GCATGATATT
*
28280187 AACATCCTTTTGGAAAGAATATAATTGATATATGAATTTGATTCATACAAAATATTAGTTGTATA
1 AACATCCTTTTGGAAAGAATATAATTGATATATGAATTTGATTCATACAAAATATTAATTGTATA
* * **
28280252 TATTTTACTGAATTTATTAATATAAATAGTTATATGAATTAATTTTGGTCAA
66 TATTTTACCGAATTTATTAATATAAACAGTTATATGAATTAATTTCAGTCAA
* * * *
28280304 AACATTCTTTTGGGAAGAATATAATTAATATATATTAATTTGATTCATACAAAATATTAATTGTA
1 AACATCCTTTTGGAAAGAATATAATT--GATATATGAATTTGATTCATACAAAATATTAATTGTA
*
28280369 TATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTTCAGTCAA
64 TATATTTTACCGAATTTATTAATATAAACAGTTATATGAATTAATTTCAGTCAA
28280423 AA
1 AA
28280425 TATAAAAGAC
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
117 24 0.22
119 85 0.78
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (117 bp):
AACATCCTTTTGGAAAGAATATAATTGATATATGAATTTGATTCATACAAAATATTAATTGTATA
TATTTTACCGAATTTATTAATATAAACAGTTATATGAATTAATTTCAGTCAA
Found at i:28282665 original size:18 final size:19
Alignment explanation
Indices: 28282644--28282684 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
28282634 CCACAAGGAC
*
28282644 AAGGACAAAGG-AAAGGCT
1 AAGGACAAAGGTAAAGCCT
*
28282662 AAGG-CTAAGGTAAAGCCT
1 AAGGACAAAGGTAAAGCCT
28282680 AAGGA
1 AAGGA
28282685 AAATAGCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.12, G:0.32, T:0.10
Consensus pattern (19 bp):
AAGGACAAAGGTAAAGCCT
Found at i:28284018 original size:50 final size:50
Alignment explanation
Indices: 28283955--28284194 Score: 356
Period size: 50 Copynumber: 4.8 Consensus size: 50
28283945 CATTTGGGTA
* *
28283955 AAGAGGTCCCATGTAAGACCATGTATGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
*
28284005 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *
28284055 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * *
28284105 AAGAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * *
28284154 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
28284195 TAGTATAGGA
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
49 42 0.24
50 131 0.76
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:28284181 original size:99 final size:100
Alignment explanation
Indices: 28283961--28284194 Score: 353
Period size: 99 Copynumber: 2.4 Consensus size: 100
28283951 GGTAAAGAGG
* *
28283961 TCCCATGTAAGACCATGTATGGGACATGGCGTTGGCACCGAGATAAGAGGTCTCATGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCTCACGTAAGACCA
* **
28284026 TGTCTGGGACATGGCATTGGCACCGAGATAAGAGG
66 TGTCTGGGACATGGCATGGGCACCGAGATAAGAAC
* *
28284061 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTC-CCCGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCTCACGTAAGACCA
* *
28284125 TGTCTGGGACATGGCATGGGCACCGATATGAGAAC
66 TGTCTGGGACATGGCATGGGCACCGAGATAAGAAC
* * *
28284160 TCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
28284195 TAGTATAGGA
Statistics
Matches: 121, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
99 71 0.59
100 50 0.41
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (100 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCTCACGTAAGACCA
TGTCTGGGACATGGCATGGGCACCGAGATAAGAAC
Found at i:28290100 original size:138 final size:138
Alignment explanation
Indices: 28289897--28290456 Score: 838
Period size: 138 Copynumber: 4.1 Consensus size: 138
28289887 GAGAACATAG
*
28289897 ATATAATTAATATATGAGTTTGATTCATACAAAAATATTAATTGTATATATTTTACCGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATAC-AAAATATTAATTGTATATATTTTACCGAATTTAT
* * *
28289962 TAATATAAACATTTATATTAATTGATTTCGGTCAAAATATAAAAGACATGGAAATTAATGTTCTT
65 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
28290027 TTGGAAAGA
130 TTGGAAAGA
* *
28290036 ATATAACTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTACC-AGATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGA-ATTTAT
* * **
28290100 TAATATAAACAGTTATGTTAATTAGTTTCTATCAAAATATAAAAGACATGGAAATTAATATTCTT
65 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
28290165 TTGGAAAGA
130 TTGGAAAGA
28290174 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
** * * *
28290239 AATATAAGGAGTTATATTAATTAATTTTGGTCAAAATATAAAAGATATGGAAAGTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
28290304 TGGAAAGA
131 TGGAAAGA
* *
28290312 ATATAATCAATATATGAATTTGATTCATACAAAATATTAATTGCATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
** ** * * *
28290377 AATATAAAC-GATTATATTAATTAATTT-TTTTTAAATATAAAAAACACGAAAATTAATATTCTT
66 AATATAAACAG-TTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
*
28290440 TTGGAAATA
130 TTGGAAAGA
*
28290449 ATACAATT
1 ATATAATT
28290457 CCTTTTTTCT
Statistics
Matches: 381, Mismatches: 37, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
137 43 0.11
138 309 0.81
139 29 0.08
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
TGGAAAGA
Found at i:28290568 original size:74 final size:75
Alignment explanation
Indices: 28290432--28290655 Score: 294
Period size: 74 Copynumber: 3.0 Consensus size: 75
28290422 ACGAAAATTA
* * * *
28290432 ATATTCTTTTGGAAATAATACAATTCCTTTTTTCTAACTTTCCATTTGTATTCTCTAGTAATAAA
1 ATATTCTTTTGGAAATAATATAATTCC-TTTTTCTAACTTTCCATTTGTCTTTTCTATTAATAAA
28290497 TGAATAATCCT
65 TGAATAATCCT
*
28290508 ATATT-TTTTGGAAATAATATAATTCGTTTTTCTAACTTTCCATTTGTCTTTTCTATTAAT-AAT
1 ATATTCTTTTGGAAATAATATAATTCCTTTTTCTAACTTTCCATTTGTCTTTTCTATTAATAAAT
28290571 GGAATAATCCT
66 -GAATAATCCT
* * * * *
28290582 ATATTCTTTTGG-AAGAATATAATTCCTTTTTCTAACTTTCTATTTCTCGTCTT-TATTAATAAG
1 ATATTCTTTTGGAAATAATATAATTCCTTTTTCTAACTTTCCATTTGTC-TTTTCTATTAATAAA
*
28290645 GGAATAATCCT
65 TGAATAATCCT
28290656 GGTTTTCCTT
Statistics
Matches: 132, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
73 3 0.02
74 95 0.72
75 29 0.22
76 5 0.04
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (75 bp):
ATATTCTTTTGGAAATAATATAATTCCTTTTTCTAACTTTCCATTTGTCTTTTCTATTAATAAAT
GAATAATCCT
Found at i:28293928 original size:13 final size:13
Alignment explanation
Indices: 28293910--28293952 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
28293900 CAAACCCGAC
28293910 CTAGATGTTATGG
1 CTAGATGTTATGG
** *
28293923 CTAGATTGAGAAGG
1 CTAGA-TGTTATGG
28293937 CTAGATGTTATGG
1 CTAGATGTTATGG
28293950 CTA
1 CTA
28293953 AGCTAACTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (13 bp):
CTAGATGTTATGG
Found at i:28298525 original size:12 final size:12
Alignment explanation
Indices: 28298508--28298538 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
28298498 AAACAGTAAT
28298508 TAGTAACGGTAG
1 TAGTAACGGTAG
28298520 TAGTAACGGTAG
1 TAGTAACGGTAG
*
28298532 CAGTAAC
1 TAGTAAC
28298539 AGTAACAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (12 bp):
TAGTAACGGTAG
Found at i:28298543 original size:6 final size:6
Alignment explanation
Indices: 28298521--28298554 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
28298511 TAACGGTAGT
* *
28298521 AGTAAC GGTAGC AGTAAC AGTAAC AGTAAC AGTA
1 AGTAAC AGTAAC AGTAAC AGTAAC AGTAAC AGTA
28298555 TTCAACACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.18
Consensus pattern (6 bp):
AGTAAC
Found at i:28298586 original size:45 final size:45
Alignment explanation
Indices: 28298534--28298638 Score: 165
Period size: 45 Copynumber: 2.3 Consensus size: 45
28298524 AACGGTAGCA
*
28298534 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
* * *
28298579 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTTGAGTCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
*
28298624 GTAATAGTAACAGTA
1 GTAACAGTAACAGTA
28298639 GTCGGCATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
Found at i:28299677 original size:17 final size:17
Alignment explanation
Indices: 28299655--28299689 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
28299645 GAATGGTCTC
*
28299655 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
28299672 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
28299689 T
1 T
28299690 ATTTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:28306024 original size:46 final size:46
Alignment explanation
Indices: 28305968--28306061 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
28305958 CAAAGAAAAG
* * *
28305968 ACCTCAACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGA
1 ACCTCAACCCACTATCAAGAATGATAAGAACCTTGGAATATAATGA
* *
28306014 ACCTCGACCCACTATCAAGGATGATAAGAACCTTGGAATATAATGA
1 ACCTCAACCCACTATCAAGAATGATAAGAACCTTGGAATATAATGA
28306060 AC
1 AC
28306062 GCCACACAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (46 bp):
ACCTCAACCCACTATCAAGAATGATAAGAACCTTGGAATATAATGA
Found at i:28306728 original size:21 final size:23
Alignment explanation
Indices: 28306681--28306730 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
28306671 TCACTTGCAA
* *
28306681 TAAACACATTAAAATGAGTTAAT
1 TAAACACATTAAAATCACTTAAT
28306704 TAAACACATTAAAA-CACTT-AT
1 TAAACACATTAAAATCACTTAAT
28306725 TAAACA
1 TAAACA
28306731 GAACACACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
22 3 0.12
23 14 0.56
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAACACATTAAAATCACTTAAT
Found at i:28313610 original size:17 final size:17
Alignment explanation
Indices: 28313588--28313622 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
28313578 TTATTGCATG
28313588 GTGCTTGGACTGCAATT
1 GTGCTTGGACTGCAATT
*
28313605 GTGCTTGGACTGCGATT
1 GTGCTTGGACTGCAATT
28313622 G
1 G
28313623 AGTACTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.34, T:0.34
Consensus pattern (17 bp):
GTGCTTGGACTGCAATT
Found at i:28318333 original size:40 final size:38
Alignment explanation
Indices: 28318259--28318397 Score: 120
Period size: 40 Copynumber: 3.5 Consensus size: 38
28318249 AGCTCACGTG
* * * * *
28318259 GGGAGCTTCACTGATCCACAGCTTATCC-TTAGCTCATA
1 GGGAGCTTCATTAATACACAGCTTGTCCATAAGCTCA-A
* * *
28318297 GAGGAGCTTTACTAATACACAG-TTGATCTATAAGCTCACA
1 G-GGAGCTTCATTAATACACAGCTTG-TCCATAAGCTCA-A
*
28318337 GGGGAGCTTCATTGATACACAGCTTGTCCATAAGCTTACAA
1 -GGGAGCTTCATTAATACACAGCTTGTCCATAAGC-T-CAA
28318378 GGGAGCTTCATTAATACACA
1 GGGAGCTTCATTAATACACA
28318398 ACTTATCCTT
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
38 3 0.04
39 19 0.23
40 52 0.63
41 6 0.07
42 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (38 bp):
GGGAGCTTCATTAATACACAGCTTGTCCATAAGCTCAA
Found at i:28318393 original size:80 final size:80
Alignment explanation
Indices: 28318247--28318397 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
28318237 CTTCATCACT
* * * *
28318247 TAAGCTCACGTGGGGAGCTTCACTGATCCACAGCTTATCCTTAGCTCATAGAGGAGCTTTACTAA
1 TAAGCTCACGAGGGGAGCTTCACTGATACACAGCTTATCCTAAGCTCATAGAGGAGCTTCACTAA
28318312 TACACAGTTGATCTA
66 TACACAGTTGATCTA
* * *
28318327 TAAGCTCAC-AGGGGAGCTTCATTGATACACAGCTTGTCCATAAGCTTACA-AG-GGAGCTTCAT
1 TAAGCTCACGAGGGGAGCTTCACTGATACACAGCTTATCC-TAAGC-T-CATAGAGGAGCTTCAC
28318389 TAATACACA
63 TAATACACA
28318398 ACTTATCCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
79 26 0.43
80 30 0.49
81 3 0.05
82 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (80 bp):
TAAGCTCACGAGGGGAGCTTCACTGATACACAGCTTATCCTAAGCTCATAGAGGAGCTTCACTAA
TACACAGTTGATCTA
Found at i:28318732 original size:52 final size:52
Alignment explanation
Indices: 28318670--28318829 Score: 203
Period size: 52 Copynumber: 3.1 Consensus size: 52
28318660 AATTCCAAAC
28318670 CACTCACACTTTTAAAAACTTAGTAAAAAACATACTCATAACGGAGCCCAAT
1 CACTCACACTTTTAAAAACTTAGTAAAAAACATACTCATAACGGAGCCCAAT
* * * * * *
28318722 CACTCCCACTTTTAAAAGCTTAGTAAAGAACATAATCATAATGGAGCCTAAT
1 CACTCACACTTTTAAAAACTTAGTAAAAAACATACTCATAACGGAGCCCAAT
* * * * * * *
28318774 CACTCATACTTTTATAACCTTAGTAAATAACATACTTATAGCGGAGCCCGAT
1 CACTCACACTTTTAAAAACTTAGTAAAAAACATACTCATAACGGAGCCCAAT
28318826 CACT
1 CACT
28318830 TATCAAAAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 91 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (52 bp):
CACTCACACTTTTAAAAACTTAGTAAAAAACATACTCATAACGGAGCCCAAT
Found at i:28320403 original size:22 final size:22
Alignment explanation
Indices: 28320378--28320422 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
28320368 ATACACTTCT
*
28320378 TCATGTCAACATTCTATCAAAA
1 TCATATCAACATTCTATCAAAA
28320400 TCATATCAACATTCTATCAAAA
1 TCATATCAACATTCTATCAAAA
28320422 T
1 T
28320423 GTAATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.33
Consensus pattern (22 bp):
TCATATCAACATTCTATCAAAA
Found at i:28328447 original size:324 final size:324
Alignment explanation
Indices: 28327858--28328826 Score: 1704
Period size: 324 Copynumber: 3.0 Consensus size: 324
28327848 GTTGATGAAG
* *
28327858 ACCCTGGCATGTTTTTGACTCTCTCTCGTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTGTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
*
28327923 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
66 TCTGTCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
* *
28327988 GGGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTATTTTATTTCAAGCAAGCAACGGAGG
131 GGGATAATAACGTAGAGAAGGGAAATCATAGTGTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
* * *
28328053 AGGTTGAGACACTTATTATTGTCTGGGGTAATTTATACATATAGGAACTGGTCGAGTAAATGCCT
196 AGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCGAGTAAATGCCT
*
28328118 TTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATAAGTGGTTACCTTTTTATTTT
261 TTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
*
28328182 ACCCTGGCATGTTTTTGACTGTGTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
1 ACCCTGGCATGTTTTTGACTCTGTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
*
28328247 TCTGTCTATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
66 TCTGTCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
* *
28328312 GGGATAATAACGTAGAAAAGGGAAATCATAGTGTTTTTTATTTTATTTCAAGCAAGCAACAGAAG
131 GGGATAATAACGTAGAGAAGGGAAATCATAGTGTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
*
28328377 AGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCGAGAAAATGCCT
196 AGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCGAGTAAATGCCT
* *
28328442 TTATGATCAGTTTAATCTTAAATAACCTTGGGGCTTTACCCATACGTGGTTACCTTTTTATTTT
261 TTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
*
28328506 ACCCTGGCATGTTTTTGACTCTGTCTCTTCATCTTGGAAACAATCATTGTATCAACACAATAATT
1 ACCCTGGCATGTTTTTGACTCTGTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
28328571 TCTGTCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
66 TCTGTCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
*
28328636 GGGATAATAACGTAGAGAAGGGAAATCACAGTGTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
131 GGGATAATAACGTAGAGAAGGGAAATCATAGTGTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
** * *
28328701 AGGTTGAGACACTTACCGTTGTATGGGGTAATTTAGCCATATAGCAACTGGTCTTGAGTAAATGC
196 AGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTC--GAGTAAATGC
**
28328766 CTTCCTGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTT
259 CTTTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTT
28328827 CTCCAAAGGA
Statistics
Matches: 612, Mismatches: 31, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
324 546 0.89
326 66 0.11
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (324 bp):
ACCCTGGCATGTTTTTGACTCTGTCTCTTCATCTTGGAAACAATCATTGTATCAAGACAATAATT
TCTGTCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAACATTTTAGA
GGGATAATAACGTAGAGAAGGGAAATCATAGTGTTTTTTATTTTATTTCAAGCAAGCAACAGAGG
AGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCGAGTAAATGCCT
TTATGATCAGTTTAATCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
Found at i:28344601 original size:18 final size:20
Alignment explanation
Indices: 28344554--28344591 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
28344544 TATATATTTT
*
28344554 TTAGGATTTTTTAAAAAAAA
1 TTAGAATTTTTTAAAAAAAA
28344574 TTAGAATTTTTTAAAAAA
1 TTAGAATTTTTTAAAAAA
28344592 TATAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (20 bp):
TTAGAATTTTTTAAAAAAAA
Found at i:28344613 original size:18 final size:19
Alignment explanation
Indices: 28344592--28344628 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
28344582 TTTTAAAAAA
28344592 TATAAAT-TTTGGAATTTT
1 TATAAATGTTTGGAATTTT
*
28344610 TATAAATGTTTTGAATTTT
1 TATAAATGTTTGGAATTTT
28344629 CAAAGTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (19 bp):
TATAAATGTTTGGAATTTT
Found at i:28344640 original size:19 final size:20
Alignment explanation
Indices: 28344618--28344665 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
28344608 TTTATAAATG
*
28344618 TTTTGAATTT-TCAAAGTTA
1 TTTTGAATTTATCAAAATTA
*
28344637 TTTTGAATTTATGAAAATTA
1 TTTTGAATTTATCAAAATTA
28344657 TTTTGAATT
1 TTTTGAATT
28344666 ATTTTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTTGAATTTATCAAAATTA
Found at i:28349528 original size:13 final size:13
Alignment explanation
Indices: 28349510--28349534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28349500 TATTTTAATA
28349510 TTATTTTGTGTGT
1 TTATTTTGTGTGT
28349523 TTATTTTGTGTG
1 TTATTTTGTGTG
28349535 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:28351163 original size:41 final size:41
Alignment explanation
Indices: 28351118--28351219 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
28351108 GCTTAGCGCT
*
28351118 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
28351159 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
28351200 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
28351220 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:28354888 original size:4 final size:4
Alignment explanation
Indices: 28354881--28354938 Score: 116
Period size: 4 Copynumber: 14.5 Consensus size: 4
28354871 ATATCTATGT
28354881 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28354929 ATAC ATAC AT
1 ATAC ATAC AT
28354939 TTTGATAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:28360592 original size:50 final size:50
Alignment explanation
Indices: 28360538--28361087 Score: 433
Period size: 50 Copynumber: 11.2 Consensus size: 50
28360528 GCAATGGAAC
* **
28360538 AGATTGAAGCTACGACAACGAATCTTGTTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAT
* * ** ** *
28360588 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACGGTGCAGTGGAAC
1 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAT
* * * **
28360638 AGATTGAAGCTACAACGGCGAATATTTTTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAT
** **** *
28360688 AGATTG-A-C-A--ACAGCGAATCTTACTTCCTTGGTGGTGCAG-TAGAAC
1 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTA-AAT
** * *
28360733 AGATTGAAGCTACGAC-GACGAATCTTGTTTCCTCGACATTGCAATTAAAT
1 AGATTGAAGCTACGACAG-CGAATCTTACTTCCCCGACATTGCAGTTAAAT
* * * ** * * ** *
28360783 AGATTGAAGCTACAACAACGAATCTTGCTTCCTTGGCAGTGCAGTCGAAC
1 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAT
** * *
28360833 AGATTGAAGCTACGACAGTAAATCTTATTTCCCCAACATTGCAGTTAAAT
1 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAT
* * * * * * * * *
28360883 AGATTGAAGCTACAACAGTGAATCTCACTACCCTGGCAGTGCA-ATAGAAC
1 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTA-AAT
* * * *
28360933 AGATTGAAGCTACGA-TGTCGAATCTTGCTTCCCCAACATTGCAGTTAGAT
1 AGATTGAAGCTACGACAG-CGAATCTTACTTCCCCGACATTGCAGTTAAAT
* ** * **
28360983 AGATTGAAGCTAC-A-A-CGAATCTTACTT-CCCGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAT
*
28361029 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTACAGTTAAAT
1 AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAT
28361079 AGATTGAAG
1 AGATTGAAG
28361088 ATGGTGAACC
Statistics
Matches: 379, Mismatches: 105, Indels: 32
0.73 0.20 0.06
Matches are distributed among these distances:
44 2 0.01
45 28 0.07
46 25 0.07
47 14 0.04
48 3 0.01
49 18 0.05
50 285 0.75
51 4 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAT
Found at i:28360660 original size:100 final size:100
Alignment explanation
Indices: 28360516--28361087 Score: 707
Period size: 100 Copynumber: 5.8 Consensus size: 100
28360506 CAGATCCTAT
** * *
28360516 TTCCCTGGCTTTGCAATGGAACAGATTGAAGCTACGACAACGAATCTTGTTTCCCCGACATTGCA
1 TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACAGCGAATCTTGTTTCCCCGACATTGCA
28360581 GTTAAATAGATTGAAGCTACAACAGCGAATCTTAC
66 GTTAAATAGATTGAAGCTACAACAGCGAATCTTAC
* * * * *
28360616 TTCCCTGACGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATATTTTTTCCCCGACATTGCA
1 TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACAGCGAATCTTGTTTCCCCGACATTGCA
28360681 GTTAAATAGATT---G--ACAACAGCGAATCTTAC
66 GTTAAATAGATTGAAGCTACAACAGCGAATCTTAC
* * * *
28360711 TTCCTTGGTGGTGCAGTAGAACAGATTGAAGCTACGAC-GACGAATCTTGTTTCCTCGACATTGC
1 TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACAG-CGAATCTTGTTTCCCCGACATTGC
* * *
28360775 AATTAAATAGATTGAAGCTACAACAACGAATCTTGC
65 AGTTAAATAGATTGAAGCTACAACAGCGAATCTTAC
* * * ** * *
28360811 TTCCTTGGCAGTGCAGTCGAACAGATTGAAGCTACGACAGTAAATCTTATTTCCCCAACATTGCA
1 TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACAGCGAATCTTGTTTCCCCGACATTGCA
* *
28360876 GTTAAATAGATTGAAGCTACAACAGTGAATCTCAC
66 GTTAAATAGATTGAAGCTACAACAGCGAATCTTAC
* * * * * * *
28360911 TACCCTGGCAGTGCAATAGAACAGATTGAAGCTACGA-TGTCGAATCTTGCTTCCCCAACATTGC
1 TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACAG-CGAATCTTGTTTCCCCGACATTGC
*
28360975 AGTTAGATAGATTGAAGCTAC-A-A-CGAATCTTAC
65 AGTTAAATAGATTGAAGCTACAACAGCGAATCTTAC
* * ** *
28361008 TTCCC-GGCGGTGTAGTGGAATAGATTGAAGCTACGACAGCGAATCTTACTTCCCCGACATTACA
1 TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACAGCGAATCTTGTTTCCCCGACATTGCA
28361072 GTTAAATAGATTGAAG
66 GTTAAATAGATTGAAG
28361088 ATGGTGAACC
Statistics
Matches: 407, Mismatches: 56, Indels: 22
0.84 0.12 0.05
Matches are distributed among these distances:
94 1 0.00
95 83 0.20
96 63 0.15
97 14 0.03
98 2 0.00
99 2 0.00
100 241 0.59
101 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (100 bp):
TTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACGACAGCGAATCTTGTTTCCCCGACATTGCA
GTTAAATAGATTGAAGCTACAACAGCGAATCTTAC
Done.