Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 13 of 59
Found at i:4886079 original size:31 final size:30
Alignment explanation
Indices: 4886039--4886118 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
4886029 GTAATATAAG
*
4886039 GTTTAGTTCAATGTAATCCCTATACTATAGAA
1 GTTT-GTTCAATTTAATCCCTATACTATAG-A
* *
4886071 GTTTGTTCAATTTAATCCTTATATTATAGA
1 GTTTGTTCAATTTAATCCCTATACTATAGA
4886101 GTTTTGTTCAATTTAATC
1 G-TTTGTTCAATTTAATC
4886119 TCTACACTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.05
31 38 0.86
32 4 0.09
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.46
Consensus pattern (30 bp):
GTTTGTTCAATTTAATCCCTATACTATAGA
Found at i:4886566 original size:59 final size:59
Alignment explanation
Indices: 4886434--4886566 Score: 135
Period size: 60 Copynumber: 2.3 Consensus size: 59
4886424 CCAGAAAGAA
* * * *
4886434 AAACATTTAAGTA-TTTTGAGCATTTTGGAGTAGTTTTTAATACAAGAAGAAAACCTTT
1 AAACATTTTAGCATTTTTAAGCATTTTGGAGTAGATTTTAATACAAGAAGAAAACCTTT
* *** * * *
4886492 GAGTGTTTTGAGCATTTTTAAGCATTTTGGAGT-GATTTTGATATATGAAGAAAAACCTTT
1 AAACATTTT-AGCATTTTTAAGCATTTTGGAGTAGATTTTAATACAAGAAG-AAAACCTTT
4886552 AAACATTTTAGCATT
1 AAACATTTTAGCATT
4886567 CTTTGTCAAG
Statistics
Matches: 57, Mismatches: 15, Indels: 5
0.74 0.19 0.06
Matches are distributed among these distances:
58 4 0.07
59 22 0.39
60 31 0.54
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (59 bp):
AAACATTTTAGCATTTTTAAGCATTTTGGAGTAGATTTTAATACAAGAAGAAAACCTTT
Found at i:4886771 original size:23 final size:22
Alignment explanation
Indices: 4886745--4886788 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4886735 TGCGTAACTG
4886745 GTTGATATGACATTGCATGACTA
1 GTTGATA-GACATTGCATGACTA
* *
4886768 GTTGATAGGCATTGCGTGACT
1 GTTGATAGACATTGCATGACT
4886789 TGTTAGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (22 bp):
GTTGATAGACATTGCATGACTA
Found at i:4886804 original size:23 final size:23
Alignment explanation
Indices: 4886776--4886881 Score: 151
Period size: 23 Copynumber: 4.6 Consensus size: 23
4886766 TAGTTGATAG
*
4886776 GCATTGCGTGACTTGTTAGTAAA
1 GCATTGTGTGACTTGTTAGTAAA
*
4886799 GCATTGCGTGACTTGTTAGT-AA
1 GCATTGTGTGACTTGTTAGTAAA
*
4886821 GACATTGTGTGACTTGTTAGTAAG
1 G-CATTGTGTGACTTGTTAGTAAA
* *
4886845 GCATTGTGTGACTAGTTAGTAAG
1 GCATTGTGTGACTTGTTAGTAAA
4886868 GCATTGTGTGACTT
1 GCATTGTGTGACTT
4886882 ATGTATTGCT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
22 3 0.04
23 72 0.94
24 2 0.03
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (23 bp):
GCATTGTGTGACTTGTTAGTAAA
Found at i:4886834 original size:46 final size:46
Alignment explanation
Indices: 4886755--4886881 Score: 168
Period size: 46 Copynumber: 2.8 Consensus size: 46
4886745 GTTGATATGA
* * *
4886755 CATTGCATGACTAGTT-G-ATAGGCATTGCGTGACTTGTTAGTAAAG
1 CATTGCGTGACTAGTTAGTA-AGACATTGTGTGACTTGTTAGTAAAG
* *
4886800 CATTGCGTGACTTGTTAGTAAGACATTGTGTGACTTGTTAGTAAGG
1 CATTGCGTGACTAGTTAGTAAGACATTGTGTGACTTGTTAGTAAAG
* *
4886846 CATTGTGTGACTAGTTAGTAAGGCATTGTGTGACTT
1 CATTGCGTGACTAGTTAGTAAGACATTGTGTGACTT
4886882 ATGTATTGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
45 14 0.19
46 57 0.79
47 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (46 bp):
CATTGCGTGACTAGTTAGTAAGACATTGTGTGACTTGTTAGTAAAG
Found at i:4886920 original size:22 final size:22
Alignment explanation
Indices: 4886892--4886973 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
4886882 ATGTATTGCT
4886892 TAAAAATCAGTCACGCAATGCC
1 TAAAAATCAGTCACGCAATGCC
* **
4886914 TAAAAATTAGTCACAAAATGCC
1 TAAAAATCAGTCACGCAATGCC
* * * *
4886936 TAAAACT-AATCACGTAATGTC
1 TAAAAATCAGTCACGCAATGCC
4886957 TAAAAA-CTAGTCACGCA
1 TAAAAATC-AGTCACGCA
4886974 GTGATTAAGT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
21 15 0.32
22 32 0.68
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.22
Consensus pattern (22 bp):
TAAAAATCAGTCACGCAATGCC
Found at i:4890298 original size:28 final size:28
Alignment explanation
Indices: 4890266--4890330 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
4890256 TGACAGCTTT
* * *
4890266 AACATTTTTGTCTTAATTTAGACAAGAA
1 AACATATTTGTCTCAATTTAAACAAGAA
4890294 AACATATTTGTCTCAATTTAAACAAGATA
1 AACATATTTGTCTCAATTTAAACAAGA-A
4890323 AA-ATATTT
1 AACATATTT
4890331 TTTTTCTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 30 0.91
29 3 0.09
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (28 bp):
AACATATTTGTCTCAATTTAAACAAGAA
Found at i:4896810 original size:11 final size:11
Alignment explanation
Indices: 4896794--4896818 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4896784 AATTATTATT
4896794 TTTCATAATAG
1 TTTCATAATAG
4896805 TTTCATAATAG
1 TTTCATAATAG
4896816 TTT
1 TTT
4896819 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (11 bp):
TTTCATAATAG
Found at i:4899069 original size:50 final size:49
Alignment explanation
Indices: 4898994--4899117 Score: 194
Period size: 50 Copynumber: 2.5 Consensus size: 49
4898984 TTCTAGTAGT
* *
4898994 AATAAGACTGGAAGCCCAAATATTTTTCAACTTCAGTGTAAGACTATAAC
1 AATAAGACTGGAAG-CCAAATATTTTCCAACTTCAGTGTAAGAATATAAC
*
4899044 AATAAGACCGGAAGCGCAAATATTTTCCAACTTCAGTGTAAGAATATAAC
1 AATAAGACTGGAAGC-CAAATATTTTCCAACTTCAGTGTAAGAATATAAC
4899094 AATAAGACTGGAAGCCGAAATATT
1 AATAAGACTGGAAGCC-AAATATT
4899118 AATTATCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
49 2 0.03
50 66 0.97
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (49 bp):
AATAAGACTGGAAGCCAAATATTTTCCAACTTCAGTGTAAGAATATAAC
Found at i:4901580 original size:15 final size:15
Alignment explanation
Indices: 4901560--4901671 Score: 76
Period size: 15 Copynumber: 7.7 Consensus size: 15
4901550 ATAGGATATT
4901560 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
4901575 TTAAATTTAAA-AAA
1 TTAAATTTAAACAAA
* * *
4901589 -TAAA--TAATCCTTAT
1 TTAAATTTAA-AC-AAA
4901603 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
*
4901618 TTAAATTTAAATACAA
1 TTAAATTTAAACA-AA
* * * *
4901634 -TAGA--TAGATAAT
1 TTAAATTTAAACAAA
4901646 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
4901661 TTAAATTTAAA
1 TTAAATTTAAA
4901672 TTTATCCTAT
Statistics
Matches: 73, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
11 3 0.04
12 1 0.01
13 12 0.16
14 4 0.05
15 47 0.64
16 3 0.04
17 3 0.04
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (15 bp):
TTAAATTTAAACAAA
Found at i:4901606 original size:43 final size:43
Alignment explanation
Indices: 4901554--4901672 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
4901544 ATAGAGATAG
*
4901554 GATATTTTAAATTTAAACAAATTAAATTTAAA-A-AATAAATA
1 GATAATTTAAATTTAAACAAATTAAATTTAAATACAATAAATA
* *
4901595 -ATCCTTATTTAAATTTAAACAAATTAAATTTAAATACAATAGATA
1 GA---TAATTTAAATTTAAACAAATTAAATTTAAATACAATAAATA
4901640 GATAATTTAAATTTAAACAAATTAAATTTAAAT
1 GATAATTTAAATTTAAACAAATTAAATTTAAAT
4901673 TTATCCTATC
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
40 1 0.01
43 58 0.85
44 1 0.01
45 7 0.10
46 1 0.01
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (43 bp):
GATAATTTAAATTTAAACAAATTAAATTTAAATACAATAAATA
Found at i:4903084 original size:28 final size:29
Alignment explanation
Indices: 4903038--4903101 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
4903028 GTCTATGGGC
**
4903038 AATTTTTCAATTT-TTGGGGCAAAAATAT
1 AATTTTTCAATTTACGGGGGCAAAAATAT
* * *
4903066 AATTTTTCACTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTACGGGGGCAAAAATAT
4903095 AATTTTT
1 AATTTTT
4903102 AAAAATTTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (29 bp):
AATTTTTCAATTTACGGGGGCAAAAATAT
Found at i:4904273 original size:13 final size:13
Alignment explanation
Indices: 4904255--4904279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4904245 GGAAAATGGG
4904255 ATTTTATAAAATA
1 ATTTTATAAAATA
4904268 ATTTTATAAAAT
1 ATTTTATAAAAT
4904280 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:4910235 original size:47 final size:47
Alignment explanation
Indices: 4910110--4910480 Score: 532
Period size: 47 Copynumber: 7.9 Consensus size: 47
4910100 TGCATACAAG
* *
4910110 TTTACTTAACAAATAAGTAAAATAATTGCA-CTATGCATTTTATAAAT
1 TTTACCTAACAAATAAGTAAAATAATTACATC-ATGCATTTTATAAAT
** * * *
4910157 TTTACCTTTTCAAATAGGTAAAATAATTACATTAGGCATTTTATAAAT
1 TTTACC-TAACAAATAAGTAAAATAATTACATCATGCATTTTATAAAT
* *
4910205 TTTACCTAACAAATAAGTAAAATAAATACATCATACATTTTATAAAT
1 TTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATAAAT
* *
4910252 TTTACCTAACAAATAAGTAAAATAAATGCATCATGCATTTTATAAAT
1 TTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATAAAT
* *
4910299 TTTACCTGACAAATAAGTAAAATAATTACATCATGCATTTTATAAGT
1 TTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATAAAT
* ** *
4910346 TTTGCCTTTTCAAATAAGTAAAATAATTACATTATGCATTTTATAAAT
1 TTTACC-TAACAAATAAGTAAAATAATTACATCATGCATTTTATAAAT
*
4910394 TTTACCTAACAAATAAGTAAAATAAATACATCATGCATTTTATAAAT
1 TTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATAAAT
4910441 TTTACCTAACAAATAAGTAAAATAATTACAT-A-GCATTTTA
1 TTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTA
4910481 CAACATATGT
Statistics
Matches: 290, Mismatches: 31, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
45 8 0.03
46 1 0.00
47 199 0.69
48 82 0.28
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (47 bp):
TTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATAAAT
Found at i:4910366 original size:142 final size:139
Alignment explanation
Indices: 4910110--4910480 Score: 546
Period size: 142 Copynumber: 2.6 Consensus size: 139
4910100 TGCATACAAG
* * ** *
4910110 TTTACTTAACAAATAAGTAAAATAATTGCA-CTATGCATTTTATAAATTTTACCTTTTCAAATAG
1 TTTACCTAACAAATAAGTAAAATAAATGCATC-ATGCATTTTATAAATTTTACC-TAACAAATAA
4910174 GTAAAATAATTACATTAGGCATTTTATAAATTTTACCTAACAAATAAGTAAAATAAATACATCAT
64 GTAAAATAATTACA-TA-GCATTTTATAAATTTTACCTAACAAATAAGTAAAATAAATACATCAT
4910239 ACATTTTATAAAT
127 ACATTTTATAAAT
*
4910252 TTTACCTAACAAATAAGTAAAATAAATGCATCATGCATTTTATAAATTTTACCTGACAAATAAGT
1 TTTACCTAACAAATAAGTAAAATAAATGCATCATGCATTTTATAAATTTTACCTAACAAATAAGT
* * ** * * *
4910317 AAAATAATTACATCATGCATTTTATAAGTTTTGCCTTTTCAAATAAGTAAAATAATTACATTATG
66 AAAATAATTACAT-A-GCATTTTATAAATTTTACC-TAACAAATAAGTAAAATAAATACATCATA
4910382 CATTTTATAAAT
128 CATTTTATAAAT
*
4910394 TTTACCTAACAAATAAGTAAAATAAATACATCATGCATTTTATAAATTTTACCTAACAAATAAGT
1 TTTACCTAACAAATAAGTAAAATAAATGCATCATGCATTTTATAAATTTTACCTAACAAATAAGT
4910459 AAAATAATTACATAGCATTTTA
66 AAAATAATTACATAGCATTTTA
4910481 CAACATATGT
Statistics
Matches: 211, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
140 9 0.04
141 40 0.19
142 161 0.76
143 1 0.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (139 bp):
TTTACCTAACAAATAAGTAAAATAAATGCATCATGCATTTTATAAATTTTACCTAACAAATAAGT
AAAATAATTACATAGCATTTTATAAATTTTACCTAACAAATAAGTAAAATAAATACATCATACAT
TTTATAAAT
Found at i:4910438 original size:189 final size:189
Alignment explanation
Indices: 4910118--4910465 Score: 626
Period size: 189 Copynumber: 1.8 Consensus size: 189
4910108 AGTTTACTTA
* *
4910118 ACAAATAAGTAAAATAATTGCACTATGCATTTTATAAATTTTACCTTTTCAAATAGGTAAAATAA
1 ACAAATAAGTAAAATAATTACACTATGCATTTTATAAATTTTACCTTTTCAAATAAGTAAAATAA
4910183 TTACATTAGGCATTTTATAAATTTTACCTAACAAATAAGTAAAATAAATACATCATACATTTTAT
66 TTACATTAGGCATTTTATAAATTTTACCTAACAAATAAGTAAAATAAATACATCATACATTTTAT
4910248 AAATTTTACCTAACAAATAAGTAAAATAAATGCATCATGCATTTTATAAATTTTACCTG
131 AAATTTTACCTAACAAATAAGTAAAATAAATGCATCATGCATTTTATAAATTTTACCTG
* *
4910307 ACAAATAAGTAAAATAATTACA-TCATGCATTTTATAAGTTTTGCCTTTTCAAATAAGTAAAATA
1 ACAAATAAGTAAAATAATTACACT-ATGCATTTTATAAATTTTACCTTTTCAAATAAGTAAAATA
* *
4910371 ATTACATTATGCATTTTATAAATTTTACCTAACAAATAAGTAAAATAAATACATCATGCATTTTA
65 ATTACATTAGGCATTTTATAAATTTTACCTAACAAATAAGTAAAATAAATACATCATACATTTTA
4910436 TAAATTTTACCTAACAAATAAGTAAAATAA
130 TAAATTTTACCTAACAAATAAGTAAAATAA
4910466 TTACATAGCA
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 1 0.01
189 151 0.99
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (189 bp):
ACAAATAAGTAAAATAATTACACTATGCATTTTATAAATTTTACCTTTTCAAATAAGTAAAATAA
TTACATTAGGCATTTTATAAATTTTACCTAACAAATAAGTAAAATAAATACATCATACATTTTAT
AAATTTTACCTAACAAATAAGTAAAATAAATGCATCATGCATTTTATAAATTTTACCTG
Found at i:4911474 original size:15 final size:15
Alignment explanation
Indices: 4911454--4911565 Score: 67
Period size: 15 Copynumber: 7.7 Consensus size: 15
4911444 TAGGAAAAAT
4911454 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
4911469 TTAAATTTAAA-AAA
1 TTAAATTTAAACAAA
* * *
4911483 -TAAA--TAATCTTTAT
1 TTAAATTTAAAC--AAA
4911497 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
*
4911512 TTAAATTTAAATACAA
1 TTAAATTTAAACA-AA
** * * *
4911528 -TGGA--TAGATAAT
1 TTAAATTTAAACAAA
4911540 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
4911555 TTAAATTTAAA
1 TTAAATTTAAA
4911566 TTTATCCTAT
Statistics
Matches: 71, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
11 3 0.04
12 1 0.01
13 11 0.15
14 4 0.06
15 46 0.65
16 2 0.03
17 4 0.06
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (15 bp):
TTAAATTTAAACAAA
Found at i:4911499 original size:43 final size:43
Alignment explanation
Indices: 4911451--4911566 Score: 157
Period size: 43 Copynumber: 2.7 Consensus size: 43
4911441 AGATAGGAAA
4911451 AATTTAAATTTAAACAAATTAAATTTAAA-A-AATAAATA-ATCTT
1 AATTTAAATTTAAACAAATTAAATTTAAATACAATAAATAGA---T
* **
4911494 TATTTAAATTTAAACAAATTAAATTTAAATACAATGGATAGAT
1 AATTTAAATTTAAACAAATTAAATTTAAATACAATAAATAGAT
4911537 AATTTAAATTTAAACAAATTAAATTTAAAT
1 AATTTAAATTTAAACAAATTAAATTTAAAT
4911567 TTATCCTATC
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
43 58 0.88
44 1 0.02
45 6 0.09
46 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (43 bp):
AATTTAAATTTAAACAAATTAAATTTAAATACAATAAATAGAT
Found at i:4911950 original size:42 final size:42
Alignment explanation
Indices: 4911887--4912013 Score: 191
Period size: 42 Copynumber: 3.0 Consensus size: 42
4911877 ATAGCTTAGA
* * * *
4911887 GCTTTTATACGGATGGCTGTTTTTGGATTCAGGATAGATGGT
1 GCTTTTGTACGGATGGTTGTTTTTGGATACAGGGTAGATGGT
4911929 GCTTTTGTACGGATGGTTGTTTTTGGATACAGGGTAGATGGT
1 GCTTTTGTACGGATGGTTGTTTTTGGATACAGGGTAGATGGT
* * *
4911971 GCTTTTGTACAGATGATTGTTTTTGGATACAGGGTAAATGGT
1 GCTTTTGTACGGATGGTTGTTTTTGGATACAGGGTAGATGGT
4912013 G
1 G
4912014 ATTTGGTTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.20, C:0.08, G:0.32, T:0.40
Consensus pattern (42 bp):
GCTTTTGTACGGATGGTTGTTTTTGGATACAGGGTAGATGGT
Found at i:4911968 original size:25 final size:25
Alignment explanation
Indices: 4911940--4912012 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
4911930 CTTTTGTACG
4911940 GATGGTTGTTTTTGGATACAGGGTA
1 GATGGTTGTTTTTGGATACAGGGTA
*
4911965 GATGG-TGCTTTT-G-TAC-----A
1 GATGGTTGTTTTTGGATACAGGGTA
*
4911982 GATGATTGTTTTTGGATACAGGGTA
1 GATGGTTGTTTTTGGATACAGGGTA
*
4912007 AATGGT
1 GATGGT
4912013 GATTTGGTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 16
0.62 0.09 0.29
Matches are distributed among these distances:
17 5 0.14
18 6 0.17
19 1 0.03
20 3 0.09
22 3 0.09
23 1 0.03
24 6 0.17
25 10 0.29
ACGTcount: A:0.22, C:0.05, G:0.33, T:0.40
Consensus pattern (25 bp):
GATGGTTGTTTTTGGATACAGGGTA
Found at i:4920279 original size:9 final size:9
Alignment explanation
Indices: 4920265--4920294 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4920255 TTACTTCAAC
4920265 AAAAATAAT
1 AAAAATAAT
4920274 AAAAATAAT
1 AAAAATAAT
*
4920283 AATAATAAT
1 AAAAATAAT
4920292 AAA
1 AAA
4920295 TTCAAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATAAT
Found at i:4921787 original size:39 final size:39
Alignment explanation
Indices: 4921732--4921832 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
4921722 CTTTATAGGT
4921732 ATTACGTGACTGAATATTTGTTAGCATTGCGTGACAGAC
1 ATTACGTGACTGAATATTTGTTAGCATTGCGTGACAGAC
* * *
4921771 GTTACGTGACTGAATATTTGTTAGCATTTCGTGACAGGC
1 ATTACGTGACTGAATATTTGTTAGCATTGCGTGACAGAC
4921810 ATTACGTGACTGAATATTTGTTA
1 ATTACGTGACTGAATATTTGTTA
4921833 AGCACTGTGT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (39 bp):
ATTACGTGACTGAATATTTGTTAGCATTGCGTGACAGAC
Found at i:4921866 original size:22 final size:23
Alignment explanation
Indices: 4921824--4921867 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4921814 CGTGACTGAA
4921824 TATTTGTTAAGCACTGTGTGACC
1 TATTTGTTAAGCACTGTGTGACC
* *
4921847 TATTTG-TAGGCATTGTGTGAC
1 TATTTGTTAAGCACTGTGTGAC
4921868 TTTAGCTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (23 bp):
TATTTGTTAAGCACTGTGTGACC
Found at i:4922433 original size:30 final size:30
Alignment explanation
Indices: 4922397--4922456 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4922387 AGAGGTGCCT
4922397 TTGAGTGTGAGGGACCAGTTGCACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
4922427 TTGAGTGTGAGGGACCAGTTGCACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
4922457 CAACAGGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (30 bp):
TTGAGTGTGAGGGACCAGTTGCACATATTC
Found at i:4923470 original size:117 final size:118
Alignment explanation
Indices: 4923316--4923541 Score: 301
Period size: 118 Copynumber: 1.9 Consensus size: 118
4923306 GTGGTGGCGT
* *
4923316 GTGACTTGTGCAATTCATATGTTGTTTAGAGGCTTTTGTTTTGT-GTTTTTTAAGGCTACGTGAC
1 GTGACTTGTGCAATTCATATGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAAGACTACGTGAC
* * * *
4923380 CGATTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGTAC
66 CGATTTTTATATATTACGTGACCTGTTGTTATATATTACGAGAGTGGTTGTAC
* * * * ** *
4923433 GTGACTTGTGTAATTCATGTGTTGTTTAGAGGTTTTTGTTTAGTAGTTTTTTAAGATTGTGTTAC
1 GTGACTTGTGCAATTCATATGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAAGACTACGTGAC
* * *
4923498 TGGTTTTTATGTATTACGTGACCTGTTGTTATATATTACGAGAG
66 CGATTTTTATATATTACGTGACCTGTTGTTATATATTACGAGAG
4923542 CGGTGGCGCG
Statistics
Matches: 92, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
117 40 0.43
118 52 0.57
ACGTcount: A:0.19, C:0.09, G:0.24, T:0.48
Consensus pattern (118 bp):
GTGACTTGTGCAATTCATATGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAAGACTACGTGAC
CGATTTTTATATATTACGTGACCTGTTGTTATATATTACGAGAGTGGTTGTAC
Found at i:4923566 original size:118 final size:117
Alignment explanation
Indices: 4923095--4923566 Score: 481
Period size: 110 Copynumber: 4.1 Consensus size: 117
4923085 GATGCGTGAC
* * *
4923095 TGACTTGTGTAATTCATGTGTTGCTTT-GAAGCTTTTGTTTAGTAGTTTTTTAGGCATTGCGTGA
1 TGACTTGTGCAATTCATGTGTTG-TTTAGAGGCTTTTGTTTAGTAGTTTTTTAAG-ATTGCGTGA
* *
4923159 CTGGTTTTTATATATTGCGTTACCTGTTG----TA--CCGAGAGTGGTGGCGCG
64 CTGGTTTTTATATATTACGTTACCTGTTGTTATTATTGCGAGAGTGGTGGCGCG
* * * * *
4923207 TGACTTGTGCAATTCAAGTATTGTTCT-GAGGCTTTTGTTCAGTAG-TTTTTAGGCTTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTT-TAGAGGCTTTTGTTTAGTAGTTTTTTAAGATTGCGTGAC
* * *
4923270 TGGTTTTTATATATTACTTTACCTGTTG----TA--GCGTGAGTGGTGGCGTG
65 TGGTTTTTATATATTACGTTACCTGTTGTTATTATTGCGAGAGTGGTGGCGCG
* * ** * *
4923317 TGACTTGTGCAATTCATATGTTGTTTAGAGGCTTTTGTTTTGT-GTTTTTTAAGGCTACGTGACC
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAAGATTGCGTGACT
* * * **
4923381 GATTTTTATATATTGCGTTACCTGTTGTTATGTATTGCGAGAGTGGTTGTACG
66 GGTTTTTATATATTACGTTACCTGTTGTTAT-TATTGCGAGAGTGGTGGCGCG
* * * *
4923434 TGACTTGTGTAATTCATGTGTTGTTTAGAGGTTTTTGTTTAGTAGTTTTTTAAGATTGTGTTACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAAGATTGCGTGACT
* * * *
4923499 GGTTTTTATGTATTACGTGACCTGTTGTTATATATTACGAGAGCGGTGGCGCG
66 GGTTTTTATATATTACGTTACCTGTTGTTAT-TATTGCGAGAGTGGTGGCGCG
* *
4923552 TGAATTTTGCAATTC
1 TGACTTGTGCAATTC
4923567 GCCTATTGTT
Statistics
Matches: 297, Mismatches: 52, Indels: 16
0.81 0.14 0.04
Matches are distributed among these distances:
109 2 0.01
110 125 0.42
111 10 0.03
112 37 0.12
115 2 0.01
117 51 0.17
118 70 0.24
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (117 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAAGATTGCGTGACT
GGTTTTTATATATTACGTTACCTGTTGTTATTATTGCGAGAGTGGTGGCGCG
Found at i:4923576 original size:118 final size:117
Alignment explanation
Indices: 4923191--4923590 Score: 262
Period size: 118 Copynumber: 3.5 Consensus size: 117
4923181 CCTGTTGTAC
* * * ** *
4923191 CGAGAGTGGTGGCGCGTGACTTGTGCAATTCAAGTATTGTTCT-GAGGCTTTTGTTCAGTAG-TT
1 CGAGAGCGGTGGCACGTGAATTGTGCAATTCACCTATTGTT-TAGAGGCTTTTGTTTAGT-GTTT
* * * * * * *
4923254 TTT-AGGCTTGCGTGACTGGTTTTTATATATTACTTTACCTGTTG-----TA--G
64 TTTAAGAC-TACGTGACCGATTTTTATATATTACGTGACCTGTTGTTATATATTA
* * ** * ** * *
4923301 CGTGAGTGGTGGCGTGTGACTTGTGCAATTCATATGTTGTTTAGAGGCTTTTGTTTTGTGTTTTT
1 CGAGAGCGGTGGCACGTGAATTGTGCAATTCACCTATTGTTTAGAGGCTTTTGTTTAGTGTTTTT
* * * * *
4923366 TAAGGCTACGTGACCGATTTTTATATATTGCGTTACCTGTTGTTATGTATTG
66 TAAGACTACGTGACCGATTTTTATATATTACGTGACCTGTTGTTATATATTA
* * * * * ** * *
4923418 CGAGAGTGGTTGTACGTGACTTGTGTAATTCATGTGTTGTTTAGAGGTTTTTGTTTAGTAGTTTT
1 CGAGAGCGGTGGCACGTGAATTGTGCAATTCACCTATTGTTTAGAGGCTTTTGTTTAGT-GTTTT
* ** * * * *
4923483 TTAAGATTGTGTTACTGGTTTTTATGTATTACGTGACCTGTTGTTATATATTA
65 TTAAGACTACGTGACCGATTTTTATATATTACGTGACCTGTTGTTATATATTA
* * * * *
4923536 CGAGAGCGGTGGCGCGTGAATTTTGCAATTCGCCTATTGTTTAGGGGCGTTTGTT
1 CGAGAGCGGTGGCACGTGAATTGTGCAATTCACCTATTGTTTAGAGGCTTTTGTT
4923591 CACTAGTTAT
Statistics
Matches: 232, Mismatches: 47, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
109 2 0.01
110 86 0.37
111 4 0.02
115 2 0.01
117 51 0.22
118 87 0.38
ACGTcount: A:0.17, C:0.11, G:0.27, T:0.44
Consensus pattern (117 bp):
CGAGAGCGGTGGCACGTGAATTGTGCAATTCACCTATTGTTTAGAGGCTTTTGTTTAGTGTTTTT
TAAGACTACGTGACCGATTTTTATATATTACGTGACCTGTTGTTATATATTA
Found at i:4931896 original size:26 final size:26
Alignment explanation
Indices: 4931859--4931908 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
4931849 ATGAATGAAT
*
4931859 ATAAAGAATAATATGTAAATGATACA
1 ATAAAGAATAATATGGAAATGATACA
*
4931885 ATAAA-AACTAATATGGAGATGATA
1 ATAAAGAA-TAATATGGAAATGATA
4931909 TAGAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.56, C:0.04, G:0.14, T:0.26
Consensus pattern (26 bp):
ATAAAGAATAATATGGAAATGATACA
Found at i:4933515 original size:24 final size:24
Alignment explanation
Indices: 4933488--4933533 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4933478 CATCGTTAGC
*
4933488 TGGATCTCCAACTGCATTGACTGA
1 TGGATCTCCAACTACATTGACTGA
*
4933512 TGGATCTCCAACTATATTGACT
1 TGGATCTCCAACTACATTGACT
4933534 ACATCTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (24 bp):
TGGATCTCCAACTACATTGACTGA
Found at i:4935468 original size:23 final size:21
Alignment explanation
Indices: 4935428--4935486 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
4935418 TTTACAATAA
*
4935428 TAGTCACGCAATGCCTAATCAAT
1 TAGTCACGCAATGACTAA-C-AT
*
4935451 TAGTCACGCAATTACTAACAT
1 TAGTCACGCAATGACTAACAT
*
4935472 TAAATCACGCAATGA
1 T-AGTCACGCAATGA
4935487 TTTATAAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 12 0.39
23 16 0.52
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (21 bp):
TAGTCACGCAATGACTAACAT
Found at i:4939151 original size:13 final size:13
Alignment explanation
Indices: 4939130--4939164 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
4939120 ACCAAACACT
*
4939130 AAAAACATTAGGG
1 AAAATCATTAGGG
4939143 AAAATCATTAGGG
1 AAAATCATTAGGG
4939156 AAAATCATT
1 AAAATCATT
4939165 TTTCATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (13 bp):
AAAATCATTAGGG
Found at i:4947901 original size:23 final size:22
Alignment explanation
Indices: 4947875--4947923 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4947865 ATGATAATTA
4947875 TATTCTAAGAAAATTAATGTTTT
1 TATT-TAAGAAAATTAATGTTTT
* * *
4947898 TATTTTATATAATTAATGTTTT
1 TATTTAAGAAAATTAATGTTTT
4947920 TATT
1 TATT
4947924 ATTGCAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (22 bp):
TATTTAAGAAAATTAATGTTTT
Found at i:4957494 original size:68 final size:68
Alignment explanation
Indices: 4957337--4957576 Score: 257
Period size: 68 Copynumber: 3.5 Consensus size: 68
4957327 TACATATTTG
4957337 GTATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATAAGAGGTGATTAAG
1 GTATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATAAGAGGTGATTAAG
4957402 TAT
66 TAT
* *** * * * *
4957405 GTATGATGCATTATATAAGATTGA-CTATATGATGTAAATTTCATATACCATATGATGTGATTAA
1 GTATGATGAATGCCATAAGATT-ATGTATATGATGTAAATTCCATATACCATAAGAGGTGATTAA
4957469 GTAT
65 GTAT
* * * * * * * * * *
4957473 GTGTGATAAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATTATTGAG
1 GTATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATAAGAGGTGATTAAG
* *
4957538 AAA
66 TAT
* * *
4957541 GCATGATGAATGCCATGAGCTTATGTATATGATGTA
1 GTATGATGAATGCCATAAGATTATGTATATGATGTA
4957577 TTTTTCATAT
Statistics
Matches: 140, Mismatches: 30, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
67 1 0.01
68 138 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (68 bp):
GTATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATATACCATAAGAGGTGATTAAG
TAT
Found at i:4963833 original size:11 final size:10
Alignment explanation
Indices: 4963814--4963847 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4963804 AAATAGGTTC
4963814 TTATAATTAA
1 TTATAATTAA
4963824 TTATTAATTAA
1 TTA-TAATTAA
*
4963835 TTATCATTAA
1 TTATAATTAA
4963845 TTA
1 TTA
4963848 AAATATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
TTATAATTAA
Found at i:4970831 original size:26 final size:26
Alignment explanation
Indices: 4970795--4970851 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
4970785 ATAAAACACT
4970795 TGTGATACCTCAAATCCCACATATGA
1 TGTGATACCTCAAATCCCACATATGA
4970821 TGTGATACCTCAAATCCCACATATGA
1 TGTGATACCTCAAATCCCACATATGA
4970847 TGTGA
1 TGTGA
4970852 ATATAATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (26 bp):
TGTGATACCTCAAATCCCACATATGA
Found at i:4973544 original size:28 final size:30
Alignment explanation
Indices: 4973503--4973562 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
4973493 GTCTATGGGC
*
4973503 AATTTTTCAGTTTT-TT-GGACAAAAATGT
1 AATTTTTCACTTTTATTGGGACAAAAATGT
*
4973531 AATTTTTCACTTTTATTGGGGCAAAAATGT
1 AATTTTTCACTTTTATTGGGACAAAAATGT
4973561 AA
1 AA
4973563 ATTTCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 13 0.46
29 2 0.07
30 13 0.46
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
AATTTTTCACTTTTATTGGGACAAAAATGT
Found at i:4974125 original size:28 final size:30
Alignment explanation
Indices: 4974084--4974143 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
4974074 GTCTATGGGC
4974084 AATTTTTCAATTTT-TT-GGGCAAAAATGT
1 AATTTTTCAATTTTATTGGGGCAAAAATGT
*
4974112 AATTTTTCACTTTTATTGGGGCAAAAATGT
1 AATTTTTCAATTTTATTGGGGCAAAAATGT
4974142 AA
1 AA
4974144 ATTTCAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 13 0.45
29 2 0.07
30 14 0.48
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
AATTTTTCAATTTTATTGGGGCAAAAATGT
Found at i:4974148 original size:29 final size:28
Alignment explanation
Indices: 4974088--4974150 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 28
4974078 ATGGGCAATT
*
4974088 TTTCAATTTTTTGGGCAAAAATGTAATT
1 TTTCAATTTTTTGGGCAAAAATGTAATA
*
4974116 TTTCACTTTTATTGGGGCAAAAATGTAA-A
1 TTTCAATTTT-TT-GGGCAAAAATGTAATA
4974145 TTTCAA
1 TTTCAA
4974151 AAATTACTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 9 0.30
29 7 0.23
30 14 0.47
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (28 bp):
TTTCAATTTTTTGGGCAAAAATGTAATA
Found at i:4974196 original size:581 final size:581
Alignment explanation
Indices: 4973093--4974248 Score: 2276
Period size: 581 Copynumber: 2.0 Consensus size: 581
4973083 CTCGGTATTG
4973093 TACCTAACGGTACACTTGAGTTGATTTAACCTCGAACTAGTTCAAATAGGAATCGTAGGATGAAA
1 TACCTAACGGTACACTTGAGTTGATTTAACCTCGAACTAGTTCAAATAGGAATCGTAGGATGAAA
4973158 TTTAATATTTTACAGTCCAGGAATAACTAAAAATGATTGTTCGGAGTTCGAGGGTTTATTTGGAA
66 TTTAATATTTTACAGTCCAGGAATAACTAAAAATGATTGTTCGGAGTTCGAGGGTTTATTTGGAA
4973223 AAAAATTAGAAATTTTGATGTTCATGGGCAAAATCGTCATTTTACCACCTAAGATAATAATTTGA
131 AAAAATTAGAAATTTTGATGTTCATGGGCAAAATCGTCATTTTACCACCTAAGATAATAATTTGA
*
4973288 TCATGGAGTGAAATTTTTGACCAAGATTAACTATTTGGAGTATGATTTAATGATAAGAAGTGAAA
196 TCATGGAGTGAAATTTTTGACCAAGATTAACTATTTGGAGTATAATTTAATGATAAGAAGTGAAA
4973353 AAGTTTAATTCTGGTGATTTCTGGAGTGTAGGGGCAAAATTGTAATTTTACCACCTGCGGACAAA
261 AAGTTTAATTCTGGTGATTTCTGGAGTGTAGGGGCAAAATTGTAATTTTACCACCTGCGGACAAA
4973418 ATTTGAGATTTTGAGAGAATTTAGATCAAATTTGACAAATTGGGGAATGGTATGAGTATAAGGGA
326 ATTTGAGATTTTGAGAGAATTTAGATCAAATTTGACAAATTGGGGAATGGTATGAGTATAAGGGA
*
4973483 TGAAAAATATGTCTATGGGCAATTTTTCAGTTTTTTGGACAAAAATGTAATTTTTCACTTTTATT
391 TGAAAAATATGTCTATGGGCAATTTTTCAATTTTTTGGACAAAAATGTAATTTTTCACTTTTATT
4973548 GGGGCAAAAATGTAAATTTCAAAAATTACTCCACCAAGACTTTGGATAAGTCTGAGAATTTTATC
456 GGGGCAAAAATGTAAATTTCAAAAATTACTCCACCAAGACTTTGGATAAGTCTGAGAATTTTATC
*
4973613 TAAGCTATGGATATGTGGGACAGGTGTATGGTGAAAATTTGGAAACAAATGGATGAAATTT
521 TAAGCTATGGATATGTGGGACAAGTGTATGGTGAAAATTTGGAAACAAATGGATGAAATTT
4973674 TACCTAACGGTACACTTGAGTTGATTTAACCTCGAACTAGTTCAAATAGGAATCGTAGGATGAAA
1 TACCTAACGGTACACTTGAGTTGATTTAACCTCGAACTAGTTCAAATAGGAATCGTAGGATGAAA
4973739 TTTAATATTTTACAGTCCAGGAATAACTAAAAATGATTGTTCGGAGTTCGAGGGTTTATTTGGAA
66 TTTAATATTTTACAGTCCAGGAATAACTAAAAATGATTGTTCGGAGTTCGAGGGTTTATTTGGAA
4973804 AAAAATTAGAAATTTTGATGTTCATGGGCAAAATCGTCATTTTACCACCTAAGATAATAATTTGA
131 AAAAATTAGAAATTTTGATGTTCATGGGCAAAATCGTCATTTTACCACCTAAGATAATAATTTGA
4973869 TCATGGAGTGAAATTTTTGACCAAGATTAACTATTTGGAGTATAATTTAATGATAAGAAGTGAAA
196 TCATGGAGTGAAATTTTTGACCAAGATTAACTATTTGGAGTATAATTTAATGATAAGAAGTGAAA
4973934 AAGTTTAATTCTGGTGATTTCTGGAGTGTAGGGGCAAAATTGTAATTTTACCACCTGCGGACAAA
261 AAGTTTAATTCTGGTGATTTCTGGAGTGTAGGGGCAAAATTGTAATTTTACCACCTGCGGACAAA
4973999 ATTTGAGATTTTGAGAGAATTTAGATCAAATTTGACAAATTGGGGAATGGTATGAGTATAAGGGA
326 ATTTGAGATTTTGAGAGAATTTAGATCAAATTTGACAAATTGGGGAATGGTATGAGTATAAGGGA
*
4974064 TGAAAAATATGTCTATGGGCAATTTTTCAATTTTTTGGGCAAAAATGTAATTTTTCACTTTTATT
391 TGAAAAATATGTCTATGGGCAATTTTTCAATTTTTTGGACAAAAATGTAATTTTTCACTTTTATT
4974129 GGGGCAAAAATGTAAATTTCAAAAATTACTCCACCAAGACTTTGGATAAGTCTGAGAATTTTATC
456 GGGGCAAAAATGTAAATTTCAAAAATTACTCCACCAAGACTTTGGATAAGTCTGAGAATTTTATC
4974194 TAAGCTATGGATATGTGGGACAAGTGTATGGTGAAAATTTGGAAACAAATGGATG
521 TAAGCTATGGATATGTGGGACAAGTGTATGGTGAAAATTTGGAAACAAATGGATG
4974249 NNNNNNNNNN
Statistics
Matches: 571, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
581 571 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.33
Consensus pattern (581 bp):
TACCTAACGGTACACTTGAGTTGATTTAACCTCGAACTAGTTCAAATAGGAATCGTAGGATGAAA
TTTAATATTTTACAGTCCAGGAATAACTAAAAATGATTGTTCGGAGTTCGAGGGTTTATTTGGAA
AAAAATTAGAAATTTTGATGTTCATGGGCAAAATCGTCATTTTACCACCTAAGATAATAATTTGA
TCATGGAGTGAAATTTTTGACCAAGATTAACTATTTGGAGTATAATTTAATGATAAGAAGTGAAA
AAGTTTAATTCTGGTGATTTCTGGAGTGTAGGGGCAAAATTGTAATTTTACCACCTGCGGACAAA
ATTTGAGATTTTGAGAGAATTTAGATCAAATTTGACAAATTGGGGAATGGTATGAGTATAAGGGA
TGAAAAATATGTCTATGGGCAATTTTTCAATTTTTTGGACAAAAATGTAATTTTTCACTTTTATT
GGGGCAAAAATGTAAATTTCAAAAATTACTCCACCAAGACTTTGGATAAGTCTGAGAATTTTATC
TAAGCTATGGATATGTGGGACAAGTGTATGGTGAAAATTTGGAAACAAATGGATGAAATTT
Found at i:4977226 original size:19 final size:19
Alignment explanation
Indices: 4977202--4977239 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4977192 CTTCTTAATC
4977202 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
4977221 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
4977240 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:4981455 original size:108 final size:108
Alignment explanation
Indices: 4981262--4981463 Score: 280
Period size: 108 Copynumber: 1.9 Consensus size: 108
4981252 GCATTATCAA
* *
4981262 GGATACTAGGAACAACAAAAATAAAATTAGAAAAGACGCAACAAGAGCAGGAAAGTAAAGAAGAG
1 GGATACTAGGAACAACAAAAATAAAATCAGAAAAGACCCAACAAGAGCAGGAAAGTAAAGAAGAG
* * ***
4981327 GAAGGCAGAGAGAGTGGAAAACAAAGAAATGCAAACTAATAAG
66 AAAGGCAAAGAGACCAGAAAACAAAGAAATGCAAACTAATAAG
* * * *
4981370 GGATATTATGAACAATAAAAATAAAATCAGAAAAGACCCAGCAAGAGCAGGAAAGTAAAGAAGAG
1 GGATACTAGGAACAACAAAAATAAAATCAGAAAAGACCCAACAAGAGCAGGAAAGTAAAGAAGAG
*
4981435 AAAGGCAAAG-GAACCAGAAAATAAAGAAA
66 AAAGGCAAAGAG-ACCAGAAAACAAAGAAA
4981464 AACAATAACT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 1 0.01
108 80 0.99
ACGTcount: A:0.57, C:0.10, G:0.23, T:0.09
Consensus pattern (108 bp):
GGATACTAGGAACAACAAAAATAAAATCAGAAAAGACCCAACAAGAGCAGGAAAGTAAAGAAGAG
AAAGGCAAAGAGACCAGAAAACAAAGAAATGCAAACTAATAAG
Found at i:4981829 original size:122 final size:123
Alignment explanation
Indices: 4981594--4981817 Score: 342
Period size: 122 Copynumber: 1.8 Consensus size: 123
4981584 CAAATCAAGA
* * *
4981594 GAGTTATAAAATTTCAATTAGCAAGTAGGTAGAGTTTGAGATTGTTTCAACTAGAATGAGTCAAA
1 GAGTTATAAAATCTCAATCAGCAAGTAGGTAGAGTTTGAGAGTGTTTCAACTAGAATGAGTCAAA
* * *
4981659 GGTTGAGAAAATATAAATCCAAGGTACAAAAAGTTCATTCGGACCTAACCCATCAGGG
66 GGCTGAGAAAAAATAAAACCAAGGTACAAAAAGTTCATTCGGACCTAACCCATCAGGG
* * *
4981717 GAGTTATAAAA-CTCAATCAGCATGTAGGTAGAGTTTGAGAGTGTTTCAACTGGAATGGGTCAAA
1 GAGTTATAAAATCTCAATCAGCAAGTAGGTAGAGTTTGAGAGTGTTTCAACTAGAATGAGTCAAA
* *
4981781 GGCTGAGAAAAAATAAAACTAATGTACAAAAAGTTCA
66 GGCTGAGAAAAAATAAAACCAAGGTACAAAAAGTTCA
4981818 CTTGGGCCTA
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
122 79 0.88
123 11 0.12
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (123 bp):
GAGTTATAAAATCTCAATCAGCAAGTAGGTAGAGTTTGAGAGTGTTTCAACTAGAATGAGTCAAA
GGCTGAGAAAAAATAAAACCAAGGTACAAAAAGTTCATTCGGACCTAACCCATCAGGG
Found at i:4985020 original size:13 final size:12
Alignment explanation
Indices: 4984987--4985021 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
4984977 GAAGTATAAG
4984987 AAGAAACAGAGC
1 AAGAAACAGAGC
4984999 AA-AAACAGAGC
1 AAGAAACAGAGC
4985010 AAGAGAACAGAG
1 AAGA-AACAGAG
4985022 TGGAGAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.52
12 3 0.14
13 7 0.33
ACGTcount: A:0.60, C:0.14, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGAAACAGAGC
Found at i:4986564 original size:40 final size:41
Alignment explanation
Indices: 4986481--4986570 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
4986471 TTAAAGTACA
* * * *
4986481 AGCATTGTTAGAAGGAAAACAGGTATCAAAAAATACATGTG
1 AGCATTTTTAGAAGGAAAACACGTATCAAAAAAGACACGTG
* * *
4986522 AGCATTTTTAGAAGGACATCACTTATC-AAAAAGACACGTG
1 AGCATTTTTAGAAGGAAAACACGTATCAAAAAAGACACGTG
4986562 AGCATTTTT
1 AGCATTTTT
4986571 TTTTTTTTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 20 0.48
41 22 0.52
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (41 bp):
AGCATTTTTAGAAGGAAAACACGTATCAAAAAAGACACGTG
Found at i:4991685 original size:17 final size:18
Alignment explanation
Indices: 4991663--4991696 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4991653 CATCTACCAT
4991663 CTTTTCAG-TATAGTTTA
1 CTTTTCAGATATAGTTTA
*
4991680 CTTTTCTGATATAGTTT
1 CTTTTCAGATATAGTTT
4991697 TGTTTAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (18 bp):
CTTTTCAGATATAGTTTA
Found at i:5005755 original size:30 final size:31
Alignment explanation
Indices: 5005693--5005756 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
5005683 ATCAAATAGT
*
5005693 TATTCAACTGAATAGAAATATATTAAAAGTG
1 TATTCAACTGAATAGAAATATAATAAAAGTG
* * *
5005724 TATTGAACTGAAT-GACATATAATAAATGTG
1 TATTCAACTGAATAGAAATATAATAAAAGTG
5005754 TAT
1 TAT
5005757 GACCAATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.34
Consensus pattern (31 bp):
TATTCAACTGAATAGAAATATAATAAAAGTG
Found at i:5009630 original size:2 final size:2
Alignment explanation
Indices: 5009625--5009659 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
5009615 AAAAAATCCT
*
5009625 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5009660 TTTATGGAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5019755 original size:22 final size:22
Alignment explanation
Indices: 5019730--5019851 Score: 56
Period size: 22 Copynumber: 5.5 Consensus size: 22
5019720 GAAGAAAAAA
5019730 AAGAAAGAGAGGGAAAAAAGCG
1 AAGAAAGAGAGGGAAAAAAGCG
* ** *
5019752 AAGAGAGAGAAAGAATAAAG-G
1 AAGAAAGAGAGGGAAAAAAGCG
* *
5019773 -AGAAAGA-AGGAAAAAGAGAGGG
1 AAGAAAGAGAGGGAAAA-A-AGCG
* * *
5019795 AGAGAGAGAGAGAGAAGAAATA-AG
1 A-AGAAAGAGAGGGAA-AAA-AGCG
*
5019819 -AGAAAGAGAGGGAAAGAAGCG
1 AAGAAAGAGAGGGAAAAAAGCG
* *
5019840 AGGAGAGAGAGG
1 AAGAAAGAGAGG
5019852 AAAGGAAGGA
Statistics
Matches: 71, Mismatches: 20, Indels: 18
0.65 0.18 0.17
Matches are distributed among these distances:
19 4 0.06
20 8 0.11
21 6 0.08
22 38 0.54
24 7 0.10
25 6 0.08
26 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.40, T:0.02
Consensus pattern (22 bp):
AAGAAAGAGAGGGAAAAAAGCG
Found at i:5019793 original size:88 final size:87
Alignment explanation
Indices: 5019699--5019928 Score: 252
Period size: 88 Copynumber: 2.6 Consensus size: 87
5019689 AGTTTGAGAG
5019699 AGAGAGGGAAGGAATGAGAGAGAAGAAAAAAAAGAAAGAGAGGGAAAAAAGCGAAGAGAGAGAAA
1 AGAGAGGGAAGGAA-GAGAGAGAAGAAAAAAAAGAAAGAGAGGGAAAAAAGCGAAGAGAGAG-AA
*
5019764 GAATA-AAGGAGAAAGAAG-GAAAA
64 GAA-AGAAGGACAAAGAAGAGAAAA
* * * * *
5019787 AGAGAGGG-AGAGAGAGAGAGAGAAGAAATAAGAGAAAGAGAGGGAAAGAAGCGAGGAGAGAGAG
1 AGAGAGGGAAG-GA-AGAGAGAGAAGAAAAAAAAGAAAGAGAGGGAAAAAAGCGAAGAGAGAGAA
*
5019851 GAAAGGAAGGACAAAGAAGACGAAAG
64 GAAA-GAAGGACAAAGAAGA-GAAAA
* *
5019877 AGAGAGGCAAGGAAGGAGAAAGAA-AAAGAAAAAGAAAGAGAGAAGGAAAAAA
1 AGAGAGGGAAGGAA-GAGAGAGAAGAAA-AAAAAGAAAGAGAG--GGAAAAAA
5019929 ACAGTAGGGA
Statistics
Matches: 119, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
86 1 0.01
87 6 0.05
88 65 0.55
89 5 0.04
90 33 0.28
91 2 0.02
92 7 0.06
ACGTcount: A:0.59, C:0.02, G:0.37, T:0.01
Consensus pattern (87 bp):
AGAGAGGGAAGGAAGAGAGAGAAGAAAAAAAAGAAAGAGAGGGAAAAAAGCGAAGAGAGAGAAGA
AAGAAGGACAAAGAAGAGAAAA
Found at i:5019805 original size:46 final size:48
Alignment explanation
Indices: 5019714--5019850 Score: 139
Period size: 44 Copynumber: 3.0 Consensus size: 48
5019704 GGGAAGGAAT
* * *
5019714 GAGAGAGAAGAAAAAAAAGAAAGAGAGGGAAA-AA-AG-CGA-AGAGA
1 GAGAGAGAAGAAATAAGAGAAAGAGAGGGAAAGAAGAGAGGAGAGAGA
* * *
5019758 GAGAAAGAA-TAA-AGGAGAAAGA-A-GGAAA-AAGAGAGGGAGAGAGA
1 GAGAGAGAAGAAATAAGAGAAAGAGAGGGAAAGAAGAGA-GGAGAGAGA
*
5019802 GAGAGAGAAGAAATAAGAGAAAGAGAGGGAAAGAAGCGAGGAGAGAGA
1 GAGAGAGAAGAAATAAGAGAAAGAGAGGGAAAGAAGAGAGGAGAGAGA
5019850 G
1 G
5019851 GAAAGGAAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
40 7 0.09
41 3 0.04
42 8 0.11
43 4 0.05
44 21 0.28
45 2 0.03
46 9 0.12
47 1 0.01
48 15 0.20
49 5 0.07
ACGTcount: A:0.58, C:0.01, G:0.39, T:0.01
Consensus pattern (48 bp):
GAGAGAGAAGAAATAAGAGAAAGAGAGGGAAAGAAGAGAGGAGAGAGA
Found at i:5019828 original size:30 final size:30
Alignment explanation
Indices: 5019714--5019828 Score: 71
Period size: 30 Copynumber: 3.9 Consensus size: 30
5019704 GGGAAGGAAT
* * *
5019714 GAGAGAGAAGAAAAAAAAGAAAGAGAG-G-
1 GAGAAAGAAGGAAAAAGAGAAAGAGAGAGA
* * *
5019742 GA-AAA-AAGCGAAGAGAGAGAAAGA-ATAAA
1 GAGAAAGAAG-GAA-AAAGAGAAAGAGAGAGA
**
5019771 GGAGAAAGAAGGAAAAAGAGAGGGAGAGAGA
1 -GAGAAAGAAGGAAAAAGAGAAAGAGAGAGA
*
5019802 GAGAGAGAA-GAAATAAGAGAAAGAGAG
1 GAGAAAGAAGGAAA-AAGAGAAAGAGAG
5019829 GGAAAGAAGC
Statistics
Matches: 64, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
26 3 0.05
27 5 0.08
28 11 0.17
29 4 0.06
30 29 0.45
31 9 0.14
32 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.37, T:0.02
Consensus pattern (30 bp):
GAGAAAGAAGGAAAAAGAGAAAGAGAGAGA
Found at i:5020027 original size:20 final size:20
Alignment explanation
Indices: 5020000--5020089 Score: 59
Period size: 19 Copynumber: 4.7 Consensus size: 20
5019990 ACGGCGGCCA
5020000 AAAG-GAGAAGAAAAGAAAG
1 AAAGAGAGAAGAAAAGAAAG
*
5020019 GAAGAGAG-AGAGAAAG-AAG
1 AAAGAGAGAAGA-AAAGAAAG
*
5020038 GAA-AG-GAAGAAAA-ACAA-
1 AAAGAGAGAAGAAAAGA-AAG
* * *
5020055 AAAGAGAGAGGGAAAGAAAA
1 AAAGAGAGAAGAAAAGAAAG
5020075 AAAGAGAGAAAGAAA
1 AAAGAGAG-AAGAAA
5020090 GTCGGCCAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 18
0.70 0.08 0.23
Matches are distributed among these distances:
17 6 0.11
18 9 0.16
19 20 0.36
20 16 0.29
21 4 0.07
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (20 bp):
AAAGAGAGAAGAAAAGAAAG
Found at i:5020085 original size:16 final size:16
Alignment explanation
Indices: 5020025--5020089 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 16
5020015 AAAGGAAGAG
**
5020025 AGAGAGAAAGAAGGAA
1 AGAGAGAAAGAAAAAA
*
5020041 AG-GAAGAAAAACAAAAA
1 AGAG-AGAAAGA-AAAAA
5020058 GAGAGAGGGAAAGAAAAAA
1 -AGAGA--GAAAGAAAAAA
5020077 AGAGAGAAAGAAA
1 AGAGAGAAAGAAA
5020090 GTCGGCCAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
15 1 0.03
16 16 0.41
17 3 0.08
18 8 0.21
19 6 0.15
20 5 0.13
ACGTcount: A:0.68, C:0.02, G:0.31, T:0.00
Consensus pattern (16 bp):
AGAGAGAAAGAAAAAA
Found at i:5020090 original size:20 final size:21
Alignment explanation
Indices: 5020044--5020090 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
5020034 GAAGGAAAGG
5020044 AAGAAA-AACAAAAAGAGAGA
1 AAGAAAGAACAAAAAGAGAGA
**
5020064 GGGAAAGAA-AAAAAGAGAGA
1 AAGAAAGAACAAAAAGAGAGA
5020084 AAGAAAG
1 AAGAAAG
5020091 TCGGCCAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGAAAGAACAAAAAGAGAGA
Found at i:5020122 original size:14 final size:13
Alignment explanation
Indices: 5020097--5020130 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
5020087 AAAGTCGGCC
5020097 AAGAAAAAAAGAA
1 AAGAAAAAAAGAA
*
5020110 AAGAAAAAGAAGAG
1 AAGAAAAA-AAGAA
5020124 AAGAAAA
1 AAGAAAA
5020131 GCTTGTGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:5021092 original size:121 final size:120
Alignment explanation
Indices: 5020741--5021086 Score: 424
Period size: 120 Copynumber: 2.9 Consensus size: 120
5020731 TTAAGTGCGG
* * * * * *
5020741 AGTTCGAGATAGATTATCACCGAAGCGTCGGGATAAATCTAAACTTTATGCTCCAATATCCATTA
1 AGTTCGAGACAGATTATCACCGAAGCGTCAGGATGAATCTAAATTTTATACTCCAATACCCATTA
* *
5020806 ACTCAAATAATCGTTGTTAAAAAATAATATGTATTGAAAAAATAAATTTACATAA
66 ACTCAAATAATCGTTGTTAAAAAATAATATATATTAAAAAAATAAATTTACATAA
* * * * * *** *
5020861 AGTTTGAGACAGATTTTCACCGAGGCGTCAGGATGAATTTGAATAACATACTCCAATACCTATTA
1 AGTTCGAGACAGATTATCACCGAAGCGTCAGGATGAATCTAAATTTTATACTCCAATACCCATTA
* * *
5020926 ACTCAAATAATTGTTGTTAAAAAATAATATATATTTTAAAAAATAAATTTATATAA
66 ACTCAAATAATCGTTGTTAAAAAATAATATATA-TTAAAAAAATAAATTTACATAA
* * * * * *
5020982 AGTTCGAGACGGATTCTCACTGAAGCATCAGGATGAATCCAAATTTTATACTCTAATACCCATTA
1 AGTTCGAGACAGATTATCACCGAAGCGTCAGGATGAATCTAAATTTTATACTCCAATACCCATTA
* *
5021047 ACTCAAATAATCATTG-TAAAAAATAATATACATTAAAAAA
66 ACTCAAATAATCGTTGTTAAAAAATAATATATATTAAAAAA
5021087 TAATAACGTT
Statistics
Matches: 188, Mismatches: 37, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
119 7 0.04
120 96 0.51
121 85 0.45
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (120 bp):
AGTTCGAGACAGATTATCACCGAAGCGTCAGGATGAATCTAAATTTTATACTCCAATACCCATTA
ACTCAAATAATCGTTGTTAAAAAATAATATATATTAAAAAAATAAATTTACATAA
Found at i:5021965 original size:30 final size:31
Alignment explanation
Indices: 5021900--5021973 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
5021890 CTAGCATCCG
**
5021900 AGATGTTTAAGCCTAGTTATGTTGGCACAAA
1 AGATGTTTAAGCCTAGTTACATTGGCACAAA
*
5021931 AGATGATTAAGCCTAGTTACATTGGCAC-AA
1 AGATGTTTAAGCCTAGTTACATTGGCACAAA
5021961 AGATGTTTAAGCC
1 AGATGTTTAAGCC
5021974 CAATTTACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (31 bp):
AGATGTTTAAGCCTAGTTACATTGGCACAAA
Found at i:5022049 original size:92 final size:92
Alignment explanation
Indices: 5021875--5022066 Score: 221
Period size: 92 Copynumber: 2.1 Consensus size: 92
5021865 GATTTGAGCC
* * * * *
5021875 TTAAGCCCAATTTAACTAGCATCCGAGATGTTTAAGCCTAGTTATGTTGGCACAAAAGATGATTA
1 TTAAGCCCAATTTAACAAGCATCCAAGATGTATAAGCCTAATTACGTTGGCACAAAAGATGATTA
5021940 AGCCTAGTTACATTGGCA-CAAAGATGT
66 AGCCTAGTTACA-TGGCATCAAAGATGT
* *
5021967 TTAAGCCCAATTTACCAAGCATCCAAGATGTATAAGTCC-AATTACGTTGGCACAAAAAGA-GTT
1 TTAAGCCCAATTTAACAAGCATCCAAGATGTATAAG-CCTAATTACGTTGGCAC-AAAAGATGAT
* * *
5022030 TCAGCCTAATTTAGC-TGGCATCCAAGATGT
64 TAAGCCT-AGTTA-CATGGCATCAAAGATGT
5022060 TTAAGCC
1 TTAAGCC
5022067 TAGTTATATT
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
92 57 0.67
93 27 0.32
94 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (92 bp):
TTAAGCCCAATTTAACAAGCATCCAAGATGTATAAGCCTAATTACGTTGGCACAAAAGATGATTA
AGCCTAGTTACATGGCATCAAAGATGT
Found at i:5022067 original size:31 final size:30
Alignment explanation
Indices: 5021875--5022102 Score: 94
Period size: 31 Copynumber: 7.5 Consensus size: 30
5021865 GATTTGAGCC
* * * *
5021875 TTAAGCCCAATTTAACTAGCATCCGAGATGT
1 TTAAGCCTAATTTAGCTGGCA-CCAAGATGT
* * * *
5021906 TTAAGCCT-AGTTATGTTGGCACAAAAGATGA
1 TTAAGCCTAATTTA-GCTGGCAC-CAAGATGT
* *
5021937 TTAAGCCT-AGTTA-CATTGGCACAAAGATGT
1 TTAAGCCTAATTTAGC--TGGCACCAAGATGT
* * **
5021967 TTAAGCCCAATTTACCAAGCATCCAAGATGT
1 TTAAGCCTAATTTAGCTGGCA-CCAAGATGT
* * *
5021998 ATAAGTCC-AA-TTACGTTGGCACAAAAAGA-GT
1 TTAAG-CCTAATTTA-GCTGGCAC--CAAGATGT
*
5022029 TTCAGCCTAATTTAGCTGGCATCCAAGATGT
1 TTAAGCCTAATTTAGCTGGCA-CCAAGATGT
* * *
5022060 TTAAGCCTAGTTATA-TTGGC-CCCAGATGT
1 TTAAGCCTAATT-TAGCTGGCACCAAGATGT
*
5022089 TTAAGCCCAATTTA
1 TTAAGCCTAATTTA
5022103 AATAGCATCC
Statistics
Matches: 150, Mismatches: 31, Indels: 35
0.69 0.14 0.16
Matches are distributed among these distances:
28 2 0.01
29 18 0.12
30 32 0.21
31 85 0.57
32 13 0.09
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (30 bp):
TTAAGCCTAATTTAGCTGGCACCAAGATGT
Found at i:5022079 original size:62 final size:61
Alignment explanation
Indices: 5021930--5022140 Score: 198
Period size: 62 Copynumber: 3.5 Consensus size: 61
5021920 GTTGGCACAA
*
5021930 AAGATGATTAAGCCTAGTTACATTGGCACAAAGATGTTTAAGCCCAATTTACCAAGCATCC
1 AAGATGTTTAAGCCTAGTTACATTGGCACAAAGATGTTTAAGCCCAATTTACCAAGCATCC
* * * * * * **
5021991 AAGATGTATAAGTCC-AATTACGTTGGCACAAAAAGA-GTTTCAGCCTAATTTAGCTGGCATCC
1 AAGATGTTTAAG-CCTAGTTACATTGGCAC--AAAGATGTTTAAGCCCAATTTACCAAGCATCC
* ** *
5022053 AAGATGTTTAAGCCTAGTTATATTGGC-CCCAGATGTTTAAGCCCAATTTA-AATAGCATCC
1 AAGATGTTTAAGCCTAGTTACATTGGCACAAAGATGTTTAAGCCCAATTTACCA-AGCATCC
* * *
5022113 AAAACGTTTAAGCCCAGTTATC-TTGGCA
1 AAGATGTTTAAGCCTAGTTA-CATTGGCA
5022141 TGAGAGAATT
Statistics
Matches: 118, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
59 3 0.03
60 42 0.36
61 25 0.21
62 43 0.36
63 5 0.04
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (61 bp):
AAGATGTTTAAGCCTAGTTACATTGGCACAAAGATGTTTAAGCCCAATTTACCAAGCATCC
Found at i:5022222 original size:21 final size:21
Alignment explanation
Indices: 5022191--5022252 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
5022181 AACAATTTTT
5022191 TCTTCTAAAACCTCTAGGTACA
1 TCTTC-AAAACCTCTAGGTACA
* *
5022213 TCTTCAAAACCTCCAAGTACA
1 TCTTCAAAACCTCTAGGTACA
* *
5022234 TTTTCAAAACTTCTAGGTA
1 TCTTCAAAACCTCTAGGTA
5022253 ATTAGTTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (21 bp):
TCTTCAAAACCTCTAGGTACA
Found at i:5022445 original size:122 final size:121
Alignment explanation
Indices: 5022313--5022938 Score: 645
Period size: 122 Copynumber: 5.1 Consensus size: 121
5022303 AACAACTTTT
* * * *
5022313 TCTTCTAAAACCTCTAGGTACATTCCCAAAACTTTCGGGTAATTAGTTTCAAAATTTCTTCAAGG
1 TCTTC-AAAACCTC-CGGTACATTCTCAAAACCTTCGGGTAATTAGTTTCAAAATTTCTTCAAAG
* * *
5022378 TTACGTGGCCTCATTTTGAGATAAAGAACAA-CTTTTTTGTCTAAAACCTCCGGGTACA
64 TTACGTAGCCTCATTTTGAGATGAAGAACAATCTTTTCT-TCTAAAACCTCCGGGTACA
* * * * * * * *
5022436 TCTTCAAAACCTCCGGGTGCATT-TCTAAAACGTTCAGATTATTAGTTTTAAGATTTCTTTAAAG
1 TCTTCAAAACCTCC-GGTACATTCTC-AAAACCTTCGGGTAATTAGTTTCAAAATTTCTTCAAAG
* * *
5022500 TTAC-TAGCCTCTTTTTGAGAGGAAGAACAATCTTTTCTTCTAAAACCTCCGAGTACA
64 TTACGTAGCCTCATTTTGAGATGAAGAACAATCTTTTCTTCTAAAACCTCCGGGTACA
* * *
5022557 TCTTCAAAACCTCTCGTTACATTCTCAAAACC-TCTGGGTAATTAGTTTCAAAATTTTTTCAAGG
1 TCTTCAAAACCTC-CGGTACATTCTCAAAACCTTC-GGGTAATTAGTTTCAAAATTTCTTCAAAG
* ** * *
5022621 ATACGTA-CCATTGTTTTGAGATGACGAACAA-CATTTTCTTCTAAAACCTCCGGGTATA
64 TTACGTAGCC-TCATTTTGAGATGAAGAACAATC-TTTTCTTCTAAAACCTCCGGGTACA
* * * ** *
5022679 TCTTTAAAACATCCGACTACATTCTCAAAACCTTCAAGTAATTAGTTTCAAAATTTTTTCAAAGT
1 TCTTCAAAACCTCCG-GTACATTCTCAAAACCTTCGGGTAATTAGTTTCAAAATTTCTTCAAAGT
* * * * *
5022744 TATGTGGCCTCATTCTGAGAT-AAGGAACAACCTTTTCTTCTAAAACCTTCGGGTACA
65 TACGTAGCCTCATTTTGAGATGAA-GAACAATCTTTTCTTCTAAAACCTCCGGGTACA
* * * * * * * *
5022801 TATTCAAAACCTCCGAGTGCATTTTTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTTAAAGT
1 TCTTCAAAACCTCCG-GTACATTCTCAAAACCTTCGGGTAATTAGTTTCAAAATTTCTTCAAAGT
* * * * *
5022866 TACGTAGCCTCATTCTAAGATGAGGAACAATCTTTTCTCCTAAAACCTCCGCGTACA
65 TACGTAGCCTCATTTTGAGATGAAGAACAATCTTTTCTTCTAAAACCTCCGGGTACA
5022923 TCTTCAAAACCTCCGG
1 TCTTCAAAACCTCCGG
5022939 GTGCATGCCT
Statistics
Matches: 415, Mismatches: 73, Indels: 32
0.80 0.14 0.06
Matches are distributed among these distances:
120 2 0.00
121 96 0.23
122 306 0.74
123 11 0.03
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.35
Consensus pattern (121 bp):
TCTTCAAAACCTCCGGTACATTCTCAAAACCTTCGGGTAATTAGTTTCAAAATTTCTTCAAAGTT
ACGTAGCCTCATTTTGAGATGAAGAACAATCTTTTCTTCTAAAACCTCCGGGTACA
Found at i:5022446 original size:21 final size:21
Alignment explanation
Indices: 5022417--5022466 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
5022407 AACTTTTTTG
5022417 TCTAAAACCTCCGGGTACATCT
1 TCTAAAACCTCCGGGTACAT-T
*
5022439 TC-AAAACCTCCGGGTGCATT
1 TCTAAAACCTCCGGGTACATT
5022459 TCTAAAAC
1 TCTAAAAC
5022467 GTTCAGATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 21 0.81
22 2 0.08
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (21 bp):
TCTAAAACCTCCGGGTACATT
Found at i:5022453 original size:101 final size:100
Alignment explanation
Indices: 5022213--5022453 Score: 297
Period size: 101 Copynumber: 2.4 Consensus size: 100
5022203 TCTAGGTACA
* **
5022213 TCTTC-AAAACCTCCAAGTACATTTTCAAAACTTCTAGGTAATTAGTTTCAAAATTTCTTCAAGG
1 TCTTCTAAAACCTCCAGGTACA-TTTCAAAACTTCCGGGTAATTAGTTTCAAAATTTCTTCAAGG
* **
5022277 ATACGTACCCTCGTTTTAAGATGGAGAACAACTTTT
65 ATACGTACCCTCATTTTAAGATAAAGAACAACTTTT
* * *
5022313 TCTTCTAAAACCTCTAGGTACATTCCCAAAACTTTCGGGTAATTAGTTTCAAAATTTCTTCAAGG
1 TCTTCTAAAACCTCCAGGTACATT-TCAAAACTTCCGGGTAATTAGTTTCAAAATTTCTTCAAGG
* ** *
5022378 TTACGTGGCCTCATTTTGAGATAAAGAACAACTTTT
65 ATACGTACCCTCATTTTAAGATAAAGAACAACTTTT
* *
5022414 T-TGTCTAAAACCTCCGGGTACATCTTCAAAACCTCCGGGT
1 TCT-TCTAAAACCTCCAGGTACAT-TTCAAAACTTCCGGGT
5022454 GCATTTCTAA
Statistics
Matches: 119, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
100 8 0.07
101 110 0.92
102 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (100 bp):
TCTTCTAAAACCTCCAGGTACATTTCAAAACTTCCGGGTAATTAGTTTCAAAATTTCTTCAAGGA
TACGTACCCTCATTTTAAGATAAAGAACAACTTTT
Found at i:5022566 original size:21 final size:21
Alignment explanation
Indices: 5022535--5022596 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
5022525 AACAATCTTT
5022535 TCTTCTAAAACCTC-CGAGTACA
1 TCTTC-AAAACCTCTCG-GTACA
*
5022557 TCTTCAAAACCTCTCGTTACA
1 TCTTCAAAACCTCTCGGTACA
*
5022578 T-TCTCAAAACCTCTGGGTA
1 TCT-TCAAAACCTCTCGGTA
5022597 ATTAGTTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 1 0.03
21 27 0.77
22 7 0.20
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (21 bp):
TCTTCAAAACCTCTCGGTACA
Found at i:5022811 original size:21 final size:21
Alignment explanation
Indices: 5022785--5022840 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
5022775 CTTTTCTTCT
*
5022785 AAAACCTTCGGGTACATATTC
1 AAAACCTCCGGGTACATATTC
* * * *
5022806 AAAACCTCCGAGTGCATTTTT
1 AAAACCTCCGGGTACATATTC
5022827 AAAACCTCCGGGTA
1 AAAACCTCCGGGTA
5022841 ATTAGTTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (21 bp):
AAAACCTCCGGGTACATATTC
Found at i:5022911 original size:244 final size:240
Alignment explanation
Indices: 5022447--5023235 Score: 719
Period size: 244 Copynumber: 3.3 Consensus size: 240
5022437 CTTCAAAACC
* * *
5022447 TCCGGGTGCATT-TCTAAAACGTTCAGATTATTAGTTTTAAGATTTCTTT-AAAGTTACTAGCCT
1 TCCGGGTGCATTCTCTAAAAC-TTCA-AGTATTAGTTTCAA-ATTT-TTTCAAAGTTAATAGCCT
* * * *
5022510 CTTTTTGAGAGGAA-GAACAATCTTTTCTTCTAAAACCTCCGAGTACATCTTCAAAACCTCTCG-
62 CATTTTGAGA-TAAGGAACAACCTTTTCTTCTAAAACCTCCGGGTACATCTTCAAAACCTC-CGA
* * * * * **
5022573 TTACATTCTCAAAACCTCTGGGTAATTAGTTTCAAAATTT-TTTCAAGGATACGTA-CCATTGTT
125 GTACATTTTCAAAACCTCCGGGTAATTAGTTTCAAAATTTCTTT-AAAGTTACGTAGCC-TCATT
* * * *
5022636 TTGAGATGACGAACAACATTTTCTTCTAAAACCTCCGGGTATATCTTTAAAACA
188 TTGAGATGAGGAACAAC-TTTTCTTCTAAAACCTCCGGGTACATCTTCAAAACC
** * * *
5022690 TCCGACTACATTCTC-AAAACCTTCAAGTAATTAGTTTCAAAATTTTTTCAAAGTTATGTGGCCT
1 TCCGGGTGCATTCTCTAAAA-CTTCAAGT-ATTAGTTTC-AAATTTTTTCAAAGTTA-ATAGCCT
* * *
5022754 CATTCTGAGATAAGGAACAACCTTTTCTTCTAAAACCTTCGGGTACATATTCAAAACCTCCGAGT
62 CATTTTGAGATAAGGAACAACCTTTTCTTCTAAAACCTCCGGGTACATCTTCAAAACCTCCGAGT
* * * * * *
5022819 GCATTTTTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTTAAAGTTACGTAGCCTCATTCTAA
127 ACATTTTCAAAACCTCCGGGTAATTAGTTTCAAAATTTCTTTAAAGTTACGTAGCCTCATTTTGA
* *
5022884 GATGAGGAACAATCTTTTCTCCTAAAACCTCCGCGTACATCTTCAAAACC
192 GATGAGGAACAA-CTTTTCTTCTAAAACCTCCGGGTACATCTTCAAAACC
*
5022934 TCCGGGTGCATGC-CTAAAA---CAAG----A-TTTC-------TTCAAAGTTACATAGCCTCAT
1 TCCGGGTGCATTCTCTAAAACTTCAAGTATTAGTTTCAAATTTTTTCAAAGTTA-ATAGCCTCAT
* * *
5022983 TTTGAGATAAGGAACAACTTTTTCTTCTAAAACCTCCGGGTATATCTTCAAAACCTCCGAGTATA
65 TTTGAGATAAGGAACAACCTTTTCTTCTAAAACCTCCGGGTACATCTTCAAAACCTCCGAGTACA
* * * * *
5023048 TTCTCCAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTTAAAGTCACGTAGCCTTATTTTGAGA
130 TT-TTCAAAACCTCCGGGTAATTAGTTTCAAAATTTCTTTAAAGTTACGTAGCCTCATTTTGAGA
* * *
5023113 TGAGGAACAATCTTTTCTTCTAAAACTTTCGGGTACATTTTCAAAACC
194 TGAGGAACAA-CTTTTCTTCTAAAACCTCCGGGTACATCTTCAAAACC
* * * * ** *
5023161 TCTGGGTACGTTCT-TAAAACTTCCAAATAATTAACTTCAAGATTTCTTT-TAAGTTATATAGCC
1 TCCGGGTGCATTCTCTAAAACTT-CAAGT-ATTAGTTTCAA-ATTT-TTTCAAAGTTA-ATAGCC
*
5023224 TCGTTTTGAGAT
61 TCATTTTGAGAT
5023236 GAAGAGTTAT
Statistics
Matches: 446, Mismatches: 67, Indels: 64
0.77 0.12 0.11
Matches are distributed among these distances:
226 78 0.17
227 113 0.25
231 3 0.01
234 4 0.01
235 1 0.00
236 1 0.00
237 3 0.01
240 4 0.01
242 5 0.01
243 41 0.09
244 162 0.36
245 29 0.07
246 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.35
Consensus pattern (240 bp):
TCCGGGTGCATTCTCTAAAACTTCAAGTATTAGTTTCAAATTTTTTCAAAGTTAATAGCCTCATT
TTGAGATAAGGAACAACCTTTTCTTCTAAAACCTCCGGGTACATCTTCAAAACCTCCGAGTACAT
TTTCAAAACCTCCGGGTAATTAGTTTCAAAATTTCTTTAAAGTTACGTAGCCTCATTTTGAGATG
AGGAACAACTTTTCTTCTAAAACCTCCGGGTACATCTTCAAAACC
Found at i:5022952 original size:21 final size:20
Alignment explanation
Indices: 5022903--5022953 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
5022893 CAATCTTTTC
5022903 TCCTAAAACCTCCGCGTACA
1 TCCTAAAACCTCCGCGTACA
* * *
5022923 TCTTCAAAACCTCCGGGTGCA
1 TCCT-AAAACCTCCGCGTACA
5022944 TGCCTAAAAC
1 T-CCTAAAAC
5022954 AAGATTTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 20 0.80
22 2 0.08
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.22
Consensus pattern (20 bp):
TCCTAAAACCTCCGCGTACA
Found at i:5022983 original size:104 final size:104
Alignment explanation
Indices: 5022850--5023041 Score: 296
Period size: 104 Copynumber: 1.8 Consensus size: 104
5022840 AATTAGTTTT
* * *
5022850 AAGATTTCTTTAAAGTTACGTAGCCTCATTCTAAGATGAGGAACAA-TCTTTTCTCCTAAAACCT
1 AAGATTTCTTCAAAGTTACATAGCCTCATTCTAAGATAAGGAACAACT-TTTTCTCCTAAAACCT
5022914 CCGCGTACATCTTCAAAACCTCCGGGTGCATGCCTAAAAC
65 CCGCGTACATCTTCAAAACCTCCGGGTGCATGCCTAAAAC
* * *
5022954 AAGATTTCTTCAAAGTTACATAGCCTCATTTTGAGATAAGGAACAACTTTTTCTTCTAAAACCTC
1 AAGATTTCTTCAAAGTTACATAGCCTCATTCTAAGATAAGGAACAACTTTTTCTCCTAAAACCTC
* *
5023019 CGGGTATATCTTCAAAACCTCCG
66 CGCGTACATCTTCAAAACCTCCG
5023042 AGTATATTCT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
104 78 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (104 bp):
AAGATTTCTTCAAAGTTACATAGCCTCATTCTAAGATAAGGAACAACTTTTTCTCCTAAAACCTC
CGCGTACATCTTCAAAACCTCCGGGTGCATGCCTAAAAC
Found at i:5023009 original size:226 final size:227
Alignment explanation
Indices: 5022731--5023167 Score: 660
Period size: 227 Copynumber: 1.9 Consensus size: 227
5022721 TAGTTTCAAA
* ** * *
5022731 ATTTTTTCAAAGTTATGTGGCCTCATTCTGAGATAAGGAACAACCTTTTCTTCTAAAACCTTCGG
1 ATTTCTTCAAAGTTACATAGCCTCATTCTGAGATAAGGAACAACCTTTTCTTCTAAAACCTCCGG
* **
5022796 GTACATATTCAAAACCTCCGAGTGCATT-TTTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTT
66 GTACATATTCAAAACCTCCGAGTACATTCTCCAAAACCTCCGGGTAATTAGTTTTAAGATTTCTT
*
5022860 TAAAGTTACGTAGCCTCATTCTAAGATGAGGAACAATCTTTTCTCCTAAAACCTCCGCGTACATC
131 TAAAGTCACGTAGCCTCATTCTAAGATGAGGAACAATCTTTTCTCCTAAAACCTCCGCGTACATC
5022925 TTCAAAACCTCCGGGTGCATGCCTAAAACAAG
196 TTCAAAACCTCCGGGTGCATGCCTAAAACAAG
* *
5022957 ATTTCTTCAAAGTTACATAGCCTCATTTTGAGATAAGGAACAACTTTTTCTTCTAAAACCTCCGG
1 ATTTCTTCAAAGTTACATAGCCTCATTCTGAGATAAGGAACAACCTTTTCTTCTAAAACCTCCGG
* * *
5023022 GTATATCTTCAAAACCTCCGAGTATATTCTCCAAAACCTCCGGGTAATTAGTTTTAAGATTTCTT
66 GTACATATTCAAAACCTCCGAGTACATTCTCCAAAACCTCCGGGTAATTAGTTTTAAGATTTCTT
* * * * * * * *
5023087 TAAAGTCACGTAGCCTTATTTTGAGATGAGGAACAATCTTTTCTTCTAAAACTTTCGGGTACATT
131 TAAAGTCACGTAGCCTCATTCTAAGATGAGGAACAATCTTTTCTCCTAAAACCTCCGCGTACATC
*
5023152 TTCAAAACCTCTGGGT
196 TTCAAAACCTCCGGGT
5023168 ACGTTCTTAA
Statistics
Matches: 187, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
226 82 0.44
227 105 0.56
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.34
Consensus pattern (227 bp):
ATTTCTTCAAAGTTACATAGCCTCATTCTGAGATAAGGAACAACCTTTTCTTCTAAAACCTCCGG
GTACATATTCAAAACCTCCGAGTACATTCTCCAAAACCTCCGGGTAATTAGTTTTAAGATTTCTT
TAAAGTCACGTAGCCTCATTCTAAGATGAGGAACAATCTTTTCTCCTAAAACCTCCGCGTACATC
TTCAAAACCTCCGGGTGCATGCCTAAAACAAG
Found at i:5023036 original size:21 final size:22
Alignment explanation
Indices: 5023004--5023067 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
5022994 GAACAACTTT
5023004 TTCTTCTAAAACCTCCGGGTATA
1 TTCTTC-AAAACCTCCGGGTATA
*
5023027 -TCTTCAAAACCTCCGAGTATA
1 TTCTTCAAAACCTCCGGGTATA
*
5023048 TTCTCCAAAACCTCCGGGTA
1 TTCTTCAAAACCTCCGGGTA
5023068 ATTAGTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.41
22 22 0.59
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (22 bp):
TTCTTCAAAACCTCCGGGTATA
Found at i:5023059 original size:22 final size:21
Alignment explanation
Indices: 5023011--5023063 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
5023001 TTTTTCTTCT
* *
5023011 AAAACCTCCGGGTATATCTTC
1 AAAACCTCCGAGTATATCTCC
5023032 AAAACCTCCGAGTATATTCTCC
1 AAAACCTCCGAGTATA-TCTCC
5023054 AAAACCTCCG
1 AAAACCTCCG
5023064 GGTAATTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.25
Consensus pattern (21 bp):
AAAACCTCCGAGTATATCTCC
Found at i:5023212 original size:123 final size:123
Alignment explanation
Indices: 5022953--5023235 Score: 318
Period size: 123 Copynumber: 2.3 Consensus size: 123
5022943 ATGCCTAAAA
* *
5022953 CAAGATTTCTTCAAAGTTACATAGCCTCATTTTGAGATAAGGAACAACTTTTTCTTCTAAAACCT
1 CAAGATTTCTTTAAAGTCACATAGCCTCATTTTGAGATAAGGAACAACTTTTTCTTCTAAAACCT
* * *** **
5023018 CCGGGTATATCTTCAAAACCTCCGAGTATATTCTCCAAAACCTCCGGGTAATTAGTTT
66 CCGGGTACATCTTCAAAACCTCCGAGTACATTCTCCAAAACCTCCAAATAATTAACTT
* * * * *
5023076 TAAGATTTCTTTAAAGTCACGTAGCCTTATTTTGAGATGAGGAACAA-TCTTTTCTTCTAAAACT
1 CAAGATTTCTTTAAAGTCACATAGCCTCATTTTGAGATAAGGAACAACT-TTTTCTTCTAAAACC
* * * * * * *
5023140 TTCGGGTACATTTTCAAAACCTCTGGGTACGTTCT-TAAAACTTCCAAATAATTAACTT
65 TCCGGGTACATCTTCAAAACCTCCGAGTACATTCTCCAAAACCTCCAAATAATTAACTT
* * * *
5023198 CAAGATTTCTTTTAAGTTATATAGCCTCGTTTTGAGAT
1 CAAGATTTCTTTAAAGTCACATAGCCTCATTTTGAGAT
5023236 GAAGAGTTAT
Statistics
Matches: 131, Mismatches: 28, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
122 48 0.37
123 83 0.63
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (123 bp):
CAAGATTTCTTTAAAGTCACATAGCCTCATTTTGAGATAAGGAACAACTTTTTCTTCTAAAACCT
CCGGGTACATCTTCAAAACCTCCGAGTACATTCTCCAAAACCTCCAAATAATTAACTT
Found at i:5023435 original size:13 final size:12
Alignment explanation
Indices: 5023419--5023457 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
5023409 TTAAAAAATT
*
5023419 AAAAATGAAGAA
1 AAAAAAGAAGAA
5023431 AAAAAAG-A-AA
1 AAAAAAGAAGAA
5023441 AAAAAAGAAGAA
1 AAAAAAGAAGAA
5023453 AAAAA
1 AAAAA
5023458 TAAAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.38
11 2 0.08
12 13 0.54
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAAGAAGAA
Found at i:5023443 original size:10 final size:10
Alignment explanation
Indices: 5023429--5023465 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
5023419 AAAAATGAAG
5023429 AAAAAAAAGA
1 AAAAAAAAGA
5023439 AAAAAAAAGA
1 AAAAAAAAGA
*
5023449 AGAAAAAAATA
1 A-AAAAAAAGA
5023460 AAAAAA
1 AAAAAA
5023466 GAAGCATGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:5023444 original size:22 final size:21
Alignment explanation
Indices: 5023419--5023465 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5023409 TTAAAAAATT
*
5023419 AAAAATGAAGAAAAAAAAGAAA
1 AAAAAAGAAG-AAAAAAAGAAA
*
5023441 AAAAAAGAAGAAAAAAATAAA
1 AAAAAAGAAGAAAAAAAGAAA
5023462 AAAA
1 AAAA
5023466 GAAGCATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (21 bp):
AAAAAAGAAGAAAAAAAGAAA
Found at i:5023462 original size:19 final size:19
Alignment explanation
Indices: 5023411--5023469 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
5023401 AAATAAAATT
*
5023411 AAAAAATTAAAAATGAAGAA-
1 AAAAAAATAAAAA--AAGAAG
*
5023431 AAAAAAGAAAAAAAAAGAAG
1 AAAAAA-ATAAAAAAAGAAG
5023451 AAAAAAATAAAAAAAGAAG
1 AAAAAAATAAAAAAAGAAG
5023470 CATGGTCTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 17 0.50
20 12 0.35
21 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (19 bp):
AAAAAAATAAAAAAAGAAG
Found at i:5024048 original size:32 final size:31
Alignment explanation
Indices: 5024012--5024078 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 31
5024002 GCGAGGAGAT
* *
5024012 AGAGGGAAGGAAGGAGAGAA-AAGAAGAAATAG
1 AGAGGGAAAGAAGGAGA-AAGAAGAA-AAAGAG
5024044 AGAGGGAAAGAAGGAGAAAGAAGAAAAAGAG
1 AGAGGGAAAGAAGGAGAAAGAAGAAAAAGAG
5024075 AGAG
1 AGAG
5024079 AGAACAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 11 0.34
32 21 0.66
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.01
Consensus pattern (31 bp):
AGAGGGAAAGAAGGAGAAAGAAGAAAAAGAG
Found at i:5024074 original size:29 final size:32
Alignment explanation
Indices: 5024012--5024076 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 32
5024002 GCGAGGAGAT
* *
5024012 AGAGGGAAGGAAGGAGAGAAAAGAAGAAATAG
1 AGAGGGAAAGAAGGAGAGAAAAGAAGAAAAAG
5024044 AGAGGGAAAGAA-G-GAG-AAAGAAGAAAAAG
1 AGAGGGAAAGAAGGAGAGAAAAGAAGAAAAAG
5024073 AGAG
1 AGAG
5024077 AGAGAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 16 0.52
30 3 0.10
31 1 0.03
32 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (32 bp):
AGAGGGAAAGAAGGAGAGAAAAGAAGAAAAAG
Found at i:5024097 original size:107 final size:108
Alignment explanation
Indices: 5023966--5024190 Score: 260
Period size: 107 Copynumber: 2.1 Consensus size: 108
5023956 AGGGAAGGAA
* * * * *
5023966 AGAGAGAGAAGAAAAAAGAGAAAGAGAGGGCAAA-AAGCGAGGAGATAGAG-GG-AAGGAAGGAG
1 AGAGAGAGAACAAAAAAGACAAAGAGAGAG-AAAGAA-AGAGGAGA-AGAGAGGAAAGGAAGGAC
* *
5024028 AGAAAAGAAGAAATAGAGAGGGAAAGAAGGAGAAAGAAGAA-AAAG
63 AGAAAAGAAGAAAGAGAGAGGGAAAGAAGGAGAAAGAAAAAGAAAG
* * * *
5024073 AGAGAGAGAACAAATAAGACAAAGAGATAGAAAGAAATAGGATAAGAGAGGAAAGGAAGGACAGA
1 AGAGAGAGAACAAAAAAGACAAAGAGAGAGAAAGAAAGAGGAGAAGAGAGGAAAGGAAGGACAGA
* * * *
5024138 GAAGAAGAAAGAGTGAGGGAAGGAAGGAGAACGAAAAAGAAAG
66 AAAGAAGAAAGAGAGAGGGAAAGAAGGAGAAAGAAAAAGAAAG
5024181 AGAGAGAGAA
1 AGAGAGAGAA
5024191 AGAAAGAAGC
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
105 4 0.04
106 10 0.10
107 71 0.72
108 14 0.14
ACGTcount: A:0.58, C:0.03, G:0.36, T:0.03
Consensus pattern (108 bp):
AGAGAGAGAACAAAAAAGACAAAGAGAGAGAAAGAAAGAGGAGAAGAGAGGAAAGGAAGGACAGA
AAAGAAGAAAGAGAGAGGGAAAGAAGGAGAAAGAAAAAGAAAG
Found at i:5024122 original size:24 final size:23
Alignment explanation
Indices: 5024070--5024122 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
5024060 AAAGAAGAAA
5024070 AAGAGAGAGAGAACAAATAAGAC
1 AAGAGAGAGAGAACAAATAAGAC
* * * *
5024093 AA-AGAGATAGAAAGAAATAGGAT
1 AAGAGAGAGAG-AACAAATAAGAC
5024116 AAGAGAG
1 AAGAGAG
5024123 GAAAGGAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 7 0.29
23 13 0.54
24 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.28, T:0.08
Consensus pattern (23 bp):
AAGAGAGAGAGAACAAATAAGAC
Found at i:5024178 original size:32 final size:32
Alignment explanation
Indices: 5024120--5024192 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
5024110 TAGGATAAGA
*
5024120 GAGGAAAGGAAGGACAGAGAAGAAGAAAGAGT
1 GAGGAAAGGAAGGACAGAGAAAAAGAAAGAGT
* * *
5024152 GAGGGAAGGAAGGAGA-ACGAAAAAGAAAGAGA
1 GAGGAAAGGAAGGACAGA-GAAAAAGAAAGAGT
5024184 GAGAGAAAG
1 GAG-GAAAG
5024193 AAAGAAGCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 1 0.03
32 29 0.85
33 4 0.12
ACGTcount: A:0.55, C:0.03, G:0.41, T:0.01
Consensus pattern (32 bp):
GAGGAAAGGAAGGACAGAGAAAAAGAAAGAGT
Found at i:5024192 original size:16 final size:16
Alignment explanation
Indices: 5024142--5024197 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
5024132 GACAGAGAAG
* *
5024142 AAGAAAGAGTGAGGGA
1 AAGAAAGAGAGAGAGA
* * *
5024158 AGGAAGGAGA-ACGAAA
1 AAGAAAGAGAGA-GAGA
5024174 AAGAAAGAGAGAGAGA
1 AAGAAAGAGAGAGAGA
5024190 AAGAAAGA
1 AAGAAAGA
5024198 AGCGGCAAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.38, T:0.02
Consensus pattern (16 bp):
AAGAAAGAGAGAGAGA
Found at i:5024316 original size:36 final size:36
Alignment explanation
Indices: 5024276--5024380 Score: 97
Period size: 40 Copynumber: 2.8 Consensus size: 36
5024266 GCCAAAAGGT
*
5024276 AAAGAAAAGAAAGAAAAGAA-AGGAAGAGAGAGAGAG
1 AAAGAAAAGAAAGAAAA-AACAGAAAGAGAGAGAGAG
* * *
5024312 AAAGAAGTAAATGAAGGAAAAAACAGAAAGAGAGAGGGAT
1 AAAG-A--AAA-GAAAGAAAAAACAGAAAGAGAGAGAGAG
*
5024352 AAA-AAAAGAAAGAAAAAAGGAGAAAGAGA
1 AAAGAAAAGAAAGAAAAAA-CAGAAAGAGA
5024381 AAGTCAACCA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
35 10 0.18
36 16 0.28
37 1 0.02
38 1 0.02
39 5 0.09
40 24 0.42
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.03
Consensus pattern (36 bp):
AAAGAAAAGAAAGAAAAAACAGAAAGAGAGAGAGAG
Found at i:5025196 original size:116 final size:116
Alignment explanation
Indices: 5025035--5025343 Score: 370
Period size: 121 Copynumber: 2.6 Consensus size: 116
5025025 AATTTCGAAC
* ** *
5025035 TCTATACTCCAATATTTATTAACTCAAATAATCGTTGTTAAAAAATAATATATATTAAAAAAAAT
1 TCTATACTTCAATACCTATTAACTCAAATAATCATTGTTAAAAAATAATATATATTAAAAAAAAT
* * * *
5025100 TTCATAACGTTCGAGATGGATTCTCATC-AAGGCGTTAGGATGAATCTAAAT
66 TTCATAAAGTTCAAGATGGATTCTCACCGAA-GCGTCAGGATGAATCTAAAT
*
5025151 TCTATACTTCAATGCCTATTAACTCAAATAATCATTGTTAAAAAATAATATATATTTTAAAAATT
1 TCTATACTTCAATACCTATTAACTCAAATAATCATTGTTAAAAAATAATATATA--TTAAAAA--
* * * *
5025216 AAATTTACATAAAGTTCAAGATGGATTCTCACCGAAGTGTCGGGATTAATCTGAAT
62 AAATTT-CATAAAGTTCAAGATGGATTCTCACCGAAGCGTCAGGATGAATCTAAAT
* * * * * *
5025272 TCTATACTTTAATACCCATTAACTCGAATAATCATTG-TAAAAAATAACATACATTAAAAAATAT
1 TCTATACTTCAATACCTATTAACTCAAATAATCATTGTTAAAAAATAATATATATTAAAAAAAAT
5025336 ATTCATAA
66 -TTCATAA
5025344 TTATAAATAA
Statistics
Matches: 166, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
116 57 0.34
117 2 0.01
118 14 0.08
120 20 0.12
121 71 0.43
122 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.35
Consensus pattern (116 bp):
TCTATACTTCAATACCTATTAACTCAAATAATCATTGTTAAAAAATAATATATATTAAAAAAAAT
TTCATAAAGTTCAAGATGGATTCTCACCGAAGCGTCAGGATGAATCTAAAT
Found at i:5031496 original size:19 final size:19
Alignment explanation
Indices: 5031472--5031508 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5031462 AACTTACAGG
*
5031472 GCATCTCTACAAAGCAAAA
1 GCATCTCTAAAAAGCAAAA
5031491 GCATCTCTAAAAAGCAAA
1 GCATCTCTAAAAAGCAAA
5031509 GAAGACAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.24, G:0.11, T:0.16
Consensus pattern (19 bp):
GCATCTCTAAAAAGCAAAA
Found at i:5031517 original size:67 final size:66
Alignment explanation
Indices: 5031405--5031543 Score: 160
Period size: 67 Copynumber: 2.1 Consensus size: 66
5031395 GACTTGCAAA
* *
5031405 GCATCTCTGAAAAGCAAAAGCATCTCTGTAAAATAAAGGAAACAAAAGCACCCCTGA-AACTTAC
1 GCATCTCTGAAAAGCAAAAGCATCTCTGAAAAACAAAGGAAAC-AAAGCA-CCCTGAGAACTTAC
5031469 AGG
64 AGG
* * *
5031472 GCATCTCT-ACAAAGCAAAAGCATCTCT-AAAAAGCAAA-GAAGACAAAGCATCCTTAGGACTTA
1 GCATCTCTGA-AAAGCAAAAGCATCTCTGAAAAA-CAAAGGAA-ACAAAGCACCCTGAGAACTTA
5031534 CAGG
63 CAGG
5031538 GCATCT
1 GCATCT
5031544 TTAAAATTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
65 4 0.06
66 29 0.46
67 30 0.48
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (66 bp):
GCATCTCTGAAAAGCAAAAGCATCTCTGAAAAACAAAGGAAACAAAGCACCCTGAGAACTTACAG
G
Found at i:5033193 original size:63 final size:63
Alignment explanation
Indices: 5033094--5033280 Score: 277
Period size: 63 Copynumber: 3.0 Consensus size: 63
5033084 TTTACAAACC
* *
5033094 TGTGGTTAATATTGAAATATCTGCATGA-AGATACATATTGAATTTACAGAAAAAGAATTGTTG
1 TGTGGTTAATATTGAAATATCTGTAT-ATAGATACATATTGAATTTACAGAAAAAGAATTGATG
*
5033157 TGTGGTTAATATAGAAATATCTGTATATAGATACATATTGAATTTACAGAAAAAGAATTGATG
1 TGTGGTTAATATTGAAATATCTGTATATAGATACATATTGAATTTACAGAAAAAGAATTGATG
* * * ** *
5033220 TGTGGTTAATATTGAAATATCTATATATAGATATACATTGAATTTGTAGGAAAAGAATTGA
1 TGTGGTTAATATTGAAATATCTGTATATAGATACATATTGAATTTACAGAAAAAGAATTGA
5033281 ATTTTTATGC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
62 1 0.01
63 112 0.99
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (63 bp):
TGTGGTTAATATTGAAATATCTGTATATAGATACATATTGAATTTACAGAAAAAGAATTGATG
Found at i:5034285 original size:10 final size:10
Alignment explanation
Indices: 5034272--5034308 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
5034262 GAAAAGTTTT
*
5034272 AAAGAGTTTG
1 AAAGAGCTTG
5034282 AAAGAGCTTG
1 AAAGAGCTTG
*
5034292 AAAGAGCTTA
1 AAAGAGCTTG
5034302 AAAGAGC
1 AAAGAGC
5034309 AAAACCCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.27, T:0.19
Consensus pattern (10 bp):
AAAGAGCTTG
Found at i:5036427 original size:23 final size:23
Alignment explanation
Indices: 5036401--5036445 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
5036391 AAATTTTATC
*
5036401 TTTACACCACGTGGAGCTTTAGT
1 TTTACACCACGTGGAACTTTAGT
5036424 TTTACACCACGTGGAACTTTAG
1 TTTACACCACGTGGAACTTTAG
5036446 CTGACAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (23 bp):
TTTACACCACGTGGAACTTTAGT
Found at i:5037943 original size:753 final size:754
Alignment explanation
Indices: 5036493--5039501 Score: 5283
Period size: 753 Copynumber: 4.0 Consensus size: 754
5036483 TTATGACGTG
*
5036493 CAAA-CTTGCTCAACTTGCTTCTTCCTCTCACCATGTTACAGTCTCATTTTTTCATTCCATTCAT
1 CAAAGCTTGCTCAACTTGCTTCTTCCTCTCACCATGTTACAGTCTCATTTTTTCATTCCATCCAT
* *
5036557 CCTCAAAAAATAAAATGCATAAGTTTAGGACCGCCTTTATTTTGTAATTTTATGTATAATTTTAT
66 CCTCAAAAAATAAGATGCATAAGTTTAGGACTGCCTTTATTTTGTAATTTTATGTATAATTTTAT
*
5036622 ATATAGTATCTCTTTTCATATATGTTGCATTTAAGAGAGATAAAAGTTTGCCCCCGAAAGAGGTC
131 ATATAGTATCTCTTTTCATATATGTTGCATTTAAGAGAGATAAAAGTTTGCCCCTGAAAGAGGTC
*
5036687 GTTACCTTGAAATGTTTCAATGTTTCAAGATGCGAGCTTTTCCCCTTTGGGTCATTTTATAATCT
196 GTTACCTTGAAATGTTTCAATGTTTCAAGACGCGAGCTTTTCCCCTTTGGGTCATTTTATAATCT
* *
5036752 AAGTTTATATTGATATTTAATCATTTTTTTGCTATAATTATTATGTTTATGTTATATAATAAAAG
261 AAGTTTATATTGATATTTAATCATTTTTCTGCTACAATTATTATGTTTATGTTATATAATAAAAG
*
5036817 GGTTTTGCATTTTTTTGACTTAGTTCTTCTTATCTCTTATCCTAATTACCTTGCTCTTATAGGAA
326 GGTTTTGCATTTTTTTGACTTAGTTCTTCTTATCTCTTATCCTAATTACATTGCTCTTATAGGAA
* * * * * *
5036882 AGTAAAGAGTTAAAAATATTCTAACCAGAGGAAAAATTGATTGCCATTTTATATCTATAACTAAA
391 AGTAAAGAGTCAAAAATATTCTAACGAAAGGAAAAATTGATTGTCATTTTATATATATAACTATA
*
5036947 TATAAAAACAAGTCCTTTTGAGAGCTTATCTTTTTGGAACTTTAGTTTTACACCATGTGGAACTT
456 TATAAAAACAAGTCCTTTTGAGAGCTTATCTTTTTGGAGCTTTAGTTTTACACCATGTGGAACTT
* ** *
5037012 TAGTTGACGGCCATGTTTGCTAGTGAGGATATTTTTGAATTTACGACGAGCAAACCATTCTTTTC
521 TAGTTGACAGCCATGTGGGCTAGTGAGGACATTTTTGAATTTACGACGAGCAAACCATTCTTTTC
* *
5037077 TTCTTTTTGTTTGATAGGCATTCTAGAAAGCTCATTTTAGAAATTTCTAC-TTTGTTCTTTTTGT
586 TTCTTTCTCTTTGATAGGCATTCTAGAAAGCTCATTTTAGAAATTTCTACTTTTGTTCTTTTTGT
*
5037141 CCAGCGTACGCACTACAAAGCCCATTCTAAAAATTTCTCCTCTATTGACTTCTTTTTGTCTAGGT
651 CCAGCGTACGCACTACAAAGCCCATTCTAAAAATTTATCCTCTATTGACTTCTTTTTGTCTAGGT
5037206 CAAGCATTTTACAAAACCCATTCTAGAAATTTCATTTTA
716 CAAGCATTTTACAAAACCCATTCTAGAAATTTCATTTTA
5037245 CAAAGCTTGCTCAACTTGCTTCTTCCTCTCACCATGTTACAGTCTCATTTTTTCATTCCATCCAT
1 CAAAGCTTGCTCAACTTGCTTCTTCCTCTCACCATGTTACAGTCTCATTTTTTCATTCCATCCAT
*
5037310 CCTCAAAAAATAAGATGCATAAGTTTAGGACTACCTTTATTTTGTAATTTTATGTATAATTTTAT
66 CCTCAAAAAATAAGATGCATAAGTTTAGGACTGCCTTTATTTTGTAATTTTATGTATAATTTTAT
* *
5037375 ATATAGTATCTATTTTCATATATGTTGCATTTAAGAGAGATAAAAGTTTGCCCCTGAAAGAGGCC
131 ATATAGTATCTCTTTTCATATATGTTGCATTTAAGAGAGATAAAAGTTTGCCCCTGAAAGAGGTC
* *
5037440 GTTACCTTGAAATGTGTT-AATGTTTCAAGACGTGAGCTTTTCCCCTTTAGGTCATTTTATAATC
196 GTTACCTTGAAATGT-TTCAATGTTTCAAGACGCGAGCTTTTCCCCTTTGGGTCATTTTATAATC
5037504 TAAGTTTATATTGATATTTAATCATTTTTCTGCTACAATTATTATGTTTATGTTATATAATAAAA
260 TAAGTTTATATTGATATTTAATCATTTTTCTGCTACAATTATTATGTTTATGTTATATAATAAAA
*
5037569 GGGTTTTGCATTTTTTTGACTTAGTTCTTCTTATCTCTTATCCTAATTACATTGCTCTTATAGGT
325 GGGTTTTGCATTTTTTTGACTTAGTTCTTCTTATCTCTTATCCTAATTACATTGCTCTTATAGGA
5037634 AAGTAAAGAGTCAAAAATATTCTAAC-AAGAGGAAAAATTGATTGTCATTTTATATATATAACTA
390 AAGTAAAGAGTCAAAAATATTCTAACGAA-AGGAAAAATTGATTGTCATTTTATATATATAACTA
5037698 TATATAAAAACAAGTCCTTTTGAGAGCTTATCTTTTTGGAGCTTTAGTTTTACACCATGTGGAAC
454 TATATAAAAACAAGTCCTTTTGAGAGCTTATCTTTTTGGAGCTTTAGTTTTACACCATGTGGAAC
** * *
5037763 TTTAGTTGACAGTTATGTGGGCTAGTGAGGACATTGTTGAATTTACGATGAGCAAACCATTCTTT
519 TTTAGTTGACAGCCATGTGGGCTAGTGAGGACATTTTTGAATTTACGACGAGCAAACCATTCTTT
* *
5037828 TCTTCTTTTTCTTTGATAGGCATTCTAAAAAGCTCATTTTAGAAATTTCTAC-TTTGTTCTTTTT
584 TCTTCTTTCTCTTTGATAGGCATTCTAGAAAGCTCATTTTAGAAATTTCTACTTTTGTTCTTTTT
* *
5037892 GTCCAGTGTACGCACTATAAAGCCCATTCTAAAAATTTATCCTCTATTGACTTCTTTTTGTCTAG
649 GTCCAGCGTACGCACTACAAAGCCCATTCTAAAAATTTATCCTCTATTGACTTCTTTTTGTCTAG
5037957 GTCAAGCATTTTACAAAACCCATTCTAGAAATTTCATTTTA
714 GTCAAGCATTTTACAAAACCCATTCTAGAAATTTCATTTTA
* *
5037998 CAAAACTTGCTCAACTTGCTTCTTCCTCTCACCATGTTACAGTCTCATTTTTTCATTCCATCTAT
1 CAAAGCTTGCTCAACTTGCTTCTTCCTCTCACCATGTTACAGTCTCATTTTTTCATTCCATCCAT
5038063 CCTCAAAAAATAAGATGCATAAGTTTAGGA-TCGCCTTTATTTTGTAATTTTATGTATAATTTTA
66 CCTCAAAAAATAAGATGCATAAGTTTAGGACT-GCCTTTATTTTGTAATTTTATGTATAATTTTA
*
5038127 TATATAATATCTCTTTTCATATATGTTGCATTTAAGAGAGATAAAAGTTTGCCCCTGAAAGAGGT
130 TATATAGTATCTCTTTTCATATATGTTGCATTTAAGAGAGATAAAAGTTTGCCCCTGAAAGAGGT
* *
5038192 CGTTACCTTGAAATGTTTCAATGTTTCAAGACGAGAGCTTTTCTCCTTTGGGTCATTTTATAATC
195 CGTTACCTTGAAATGTTTCAATGTTTCAAGACGCGAGCTTTTCCCCTTTGGGTCATTTTATAATC
*
5038257 TAAGTTTATATTGATATTTAAACATTTTTCTGCTACAATTATTATGTTTATGTTATATAATAAAA
260 TAAGTTTATATTGATATTTAATCATTTTTCTGCTACAATTATTATGTTTATGTTATATAATAAAA
5038322 GGGTTTTGCATTTTTTTGACTTAGTTCTTCTTATCTCTTATCCTAATTACATTGCTCTTATAGGA
325 GGGTTTTGCATTTTTTTGACTTAGTTCTTCTTATCTCTTATCCTAATTACATTGCTCTTATAGGA
5038387 AAGTAAAGAGTCAAAAATATTCTAACGAAAGGAAAAATTGATTGTCATTTTATATATATAACTAT
390 AAGTAAAGAGTCAAAAATATTCTAACGAAAGGAAAAATTGATTGTCATTTTATATATATAACTAT
5038452 ATATAAAAACAAGTCCTTTTGAGAGCTTATCTTTTTGGAGCTTTAGTTTTACACCATGTGGAACT
455 ATATAAAAACAAGTCCTTTTGAGAGCTTATCTTTTTGGAGCTTTAGTTTTACACCATGTGGAACT
* * *
5038517 TTAGTTGACAGCTATGTGGGCTAGTGAGGACATTTTTGAATTTACAATGAGCAAACCATTCTTTT
520 TTAGTTGACAGCCATGTGGGCTAGTGAGGACATTTTTGAATTTACGACGAGCAAACCATTCTTTT
* *
5038582 CTTCTTTCTCTTTGATAGGCATTCTAGAAAGCTCATTTTATAAATTTCTACTTTTGTTTTTTTTG
585 CTTCTTTCTCTTTGATAGGCATTCTAGAAAGCTCATTTTAGAAATTTCTACTTTTGTTCTTTTTG
* *
5038647 TCCAGCGTACGCACTACAAAGCCTATTCTAAAAATTTCTCCTCTATTGACTTCTTTTTGTCTAGG
650 TCCAGCGTACGCACTACAAAGCCCATTCTAAAAATTTATCCTCTATTGACTTCTTTTTGTCTAGG
*
5038712 TCAAGCATTTTACAAAACTCATTCTAGAAATTTCATTTTA
715 TCAAGCATTTTACAAAACCCATTCTAGAAATTTCATTTTA
5038752 CAAAGCTTGCTCAACTTGCTTCTTCCTCTCACCATGTTACAGTCTCATTTTTTCATTCCATCCAT
1 CAAAGCTTGCTCAACTTGCTTCTTCCTCTCACCATGTTACAGTCTCATTTTTTCATTCCATCCAT
* * *
5038817 CCTCAAAAAATAAGATGCATAAGTTTAGGATTGCTTTTATTTTGTAATTTTATATATAATTTTAT
66 CCTCAAAAAATAAGATGCATAAGTTTAGGACTGCCTTTATTTTGTAATTTTATGTATAATTTTAT
* * **
5038882 ATATAGTATCTCTTTTCATATATGTTTCATTTAAGAGAGATAAAAGTTTACCTTTGAAAGAGGTC
131 ATATAGTATCTCTTTTCATATATGTTGCATTTAAGAGAGATAAAAGTTTGCCCCTGAAAGAGGTC
* * *
5038947 GTTACCTTGAAATGTTTCAATGTTTCAAGACGCGAGCTTTTCTCTTTTGGGTCACTTTATAATCT
196 GTTACCTTGAAATGTTTCAATGTTTCAAGACGCGAGCTTTTCCCCTTTGGGTCATTTTATAATCT
5039012 AAGTTTATATTGATATTTAATCATTTTTCTGCTACAATTATTATGTTTATGTTATATAATAAAAG
261 AAGTTTATATTGATATTTAATCATTTTTCTGCTACAATTATTATGTTTATGTTATATAATAAAAG
*
5039077 GGTTTTGCATTTTTTTGACTTAGTTCTTCTTATCTCTTATTCTAATTACATTGCTCTTATAGGAA
326 GGTTTTGCATTTTTTTGACTTAGTTCTTCTTATCTCTTATCCTAATTACATTGCTCTTATAGGAA
* *
5039142 AGTAAAAAGTCAAAAATATTCTAACGAAAGGAAAAATTGATTATCATTTTATATATATAACTATA
391 AGTAAAGAGTCAAAAATATTCTAACGAAAGGAAAAATTGATTGTCATTTTATATATATAACTATA
5039207 TATAAAAACAAAGTCCTTTTGAGAGCTTATCTTTTTGGAGCTTTAGTTTTACACCATGTGGAACT
456 TATAAAAAC-AAGTCCTTTTGAGAGCTTATCTTTTTGGAGCTTTAGTTTTACACCATGTGGAACT
* * *
5039272 TTAGTTGACGGTCATGTGGGCTAGTGAGAACATTTTTGAATTTACGACGAGCAAACCATTCTTTT
520 TTAGTTGACAGCCATGTGGGCTAGTGAGGACATTTTTGAATTTACGACGAGCAAACCATTCTTTT
*
5039337 CTTCTTTCTCTTTGATAGGCATTCTAGAAAGCTCATTTTAGAAATTTTTTACTTTTGTTCTTTTT
585 CTTCTTTCTCTTTGATAGGCATTCTAGAAAGCTCATTTTAGAAA-TTTCTACTTTTGTTCTTTTT
* *
5039402 GTCCAGCGTACGCACTACAAAGTCCATTCTAAAAATTTATCCTCTATTGATTTCTTTTTGTCTAG
649 GTCCAGCGTACGCACTACAAAGCCCATTCTAAAAATTTATCCTCTATTGACTTCTTTTTGTCTAG
** *
5039467 GTCAAGCATTTTACAAAACCTTTTCTATAAATTTC
714 GTCAAGCATTTTACAAAACCCATTCTAGAAATTTC
5039502 TGCTCTGTTC
Statistics
Matches: 2158, Mismatches: 89, Indels: 16
0.95 0.04 0.01
Matches are distributed among these distances:
752 8 0.00
753 1320 0.61
754 562 0.26
755 158 0.07
756 110 0.05
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (754 bp):
CAAAGCTTGCTCAACTTGCTTCTTCCTCTCACCATGTTACAGTCTCATTTTTTCATTCCATCCAT
CCTCAAAAAATAAGATGCATAAGTTTAGGACTGCCTTTATTTTGTAATTTTATGTATAATTTTAT
ATATAGTATCTCTTTTCATATATGTTGCATTTAAGAGAGATAAAAGTTTGCCCCTGAAAGAGGTC
GTTACCTTGAAATGTTTCAATGTTTCAAGACGCGAGCTTTTCCCCTTTGGGTCATTTTATAATCT
AAGTTTATATTGATATTTAATCATTTTTCTGCTACAATTATTATGTTTATGTTATATAATAAAAG
GGTTTTGCATTTTTTTGACTTAGTTCTTCTTATCTCTTATCCTAATTACATTGCTCTTATAGGAA
AGTAAAGAGTCAAAAATATTCTAACGAAAGGAAAAATTGATTGTCATTTTATATATATAACTATA
TATAAAAACAAGTCCTTTTGAGAGCTTATCTTTTTGGAGCTTTAGTTTTACACCATGTGGAACTT
TAGTTGACAGCCATGTGGGCTAGTGAGGACATTTTTGAATTTACGACGAGCAAACCATTCTTTTC
TTCTTTCTCTTTGATAGGCATTCTAGAAAGCTCATTTTAGAAATTTCTACTTTTGTTCTTTTTGT
CCAGCGTACGCACTACAAAGCCCATTCTAAAAATTTATCCTCTATTGACTTCTTTTTGTCTAGGT
CAAGCATTTTACAAAACCCATTCTAGAAATTTCATTTTA
Found at i:5038878 original size:12 final size:12
Alignment explanation
Indices: 5038861--5038886 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5038851 TTTTATTTTG
5038861 TAATTTTATATA
1 TAATTTTATATA
5038873 TAATTTTATATA
1 TAATTTTATATA
5038885 TA
1 TA
5038887 GTATCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTTATATA
Found at i:5041878 original size:2 final size:2
Alignment explanation
Indices: 5041873--5041951 Score: 133
Period size: 2 Copynumber: 39.5 Consensus size: 2
5041863 TATTTTTCTT
*
5041873 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA NTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
5041916 T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5041952 GACACATTCT
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 1 0.01
2 71 0.97
3 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5051215 original size:51 final size:51
Alignment explanation
Indices: 5051070--5051200 Score: 244
Period size: 51 Copynumber: 2.6 Consensus size: 51
5051060 ATTTGCCTAC
5051070 TTCTTATTCTTTGCACATAAAGTTCCCACTACCAATGCTTCAAAGCTGAGA
1 TTCTTATTCTTTGCACATAAAGTTCCCACTACCAATGCTTCAAAGCTGAGA
5051121 TTCTTATTCTTTGCACATAAAGTTCCCACTACCAATGCTTCAAAGCTGAGA
1 TTCTTATTCTTTGCACATAAAGTTCCCACTACCAATGCTTCAAAGCTGAGA
* *
5051172 TTCTTATTCTTTGCACATTAAGTTGCCAC
1 TTCTTATTCTTTGCACATAAAGTTCCCAC
5051201 AGTGAGTACT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (51 bp):
TTCTTATTCTTTGCACATAAAGTTCCCACTACCAATGCTTCAAAGCTGAGA
Found at i:5053231 original size:41 final size:43
Alignment explanation
Indices: 5053186--5053271 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 43
5053176 TTGTTAAGTA
5053186 TATTTTAACTATGGA-G-GACTAAACTGGACCAATGGAATGCT
1 TATTTTAACTATGGAGGAGACTAAACTGGACCAATGGAATGCT
5053227 TATTTTAACTATGGAGGACTGACTAAACTGGACCAATGGAATGCT
1 TATTTTAACTATGGAGGA--GACTAAACTGGACCAATGGAATGCT
5053272 CCTTTTATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
41 15 0.37
42 1 0.02
45 25 0.61
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (43 bp):
TATTTTAACTATGGAGGAGACTAAACTGGACCAATGGAATGCT
Found at i:5055788 original size:27 final size:26
Alignment explanation
Indices: 5055750--5055806 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
5055740 TTTTTATTTT
*
5055750 ATTT-TTTAAATATTAATAATTTATA
1 ATTTATTTAAATATTAATAATTAATA
5055775 ATTTATTTACAATATTAATAATTAATA
1 ATTTATTTA-AATATTAATAATTAATA
5055802 ATTTA
1 ATTTA
5055807 AATGTTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 4 0.14
27 21 0.72
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTTATTTAAATATTAATAATTAATA
Found at i:5055868 original size:22 final size:21
Alignment explanation
Indices: 5055760--5056028 Score: 97
Period size: 22 Copynumber: 13.2 Consensus size: 21
5055750 ATTTTTTAAA
*
5055760 TATTA-ATAAT-TT-ATAATT
1 TATTATATAATATTAATATTT
* *
5055778 TATT-TACAATATTAATAATT
1 TATTATATAATATTAATATTT
* * * *
5055798 AATAATTTAAATGTTAATATTT
1 TATTATAT-AATATTAATATTT
* *
5055820 TATT-TATAAT-TTACTCATTAA
1 TATTATATAATATTAAT-ATT-T
*
5055841 TGTTATATAATATTAATATTT
1 TATTATATAATATTAATATTT
* * *
5055862 TATT-TATAAT-TAAAAATAT
1 TATTATATAATATTAATATTT
*
5055881 TATTATGAT--TATT-ATTTTT
1 TATTAT-ATAATATTAATATTT
* *
5055900 TATTTCTTAAAATATTAATATTT
1 TA-TT-ATATAATATTAATATTT
*
5055923 TATTATTAAAATATTAATATTT
1 TATTA-TATAATATTAATATTT
* **
5055945 TATT-TATAAT-TGAATCATCAA
1 TATTATATAATATTAAT-AT-TT
* * *
5055966 TATTTTAAAATATAAATATTT
1 TATTATATAATATTAATATTT
*
5055987 TATT-TATAAT-TTAA-ATGT
1 TATTATATAATATTAATATTT
*
5056005 TATTATGAT--TATTAAAATTT
1 TATTAT-ATAATATTAATATTT
5056025 TATT
1 TATT
5056029 TTATTTTAAA
Statistics
Matches: 186, Mismatches: 39, Indels: 50
0.68 0.14 0.18
Matches are distributed among these distances:
18 16 0.09
19 34 0.18
20 46 0.25
21 20 0.11
22 55 0.30
23 15 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTATATAATATTAATATTT
Found at i:5055943 original size:125 final size:124
Alignment explanation
Indices: 5055785--5056018 Score: 333
Period size: 125 Copynumber: 1.9 Consensus size: 124
5055775 ATTTATTTAC
* * * * * * *
5055785 AATATTAATAATTAATAATTTAAATGTTAATATTTTATTTATAATTTACTCATTAATGTTATATA
1 AATATTAATAATTAATAATTAAAATATTAATATTTTATTTATAATTGAATCATCAATATTATAAA
*
5055850 ATATTAATATTTTATTTATAATTAAAAATATTATTATGATTATTATTTTTTATTTCTTAA
66 ATATAAATATTTTATTTATAATT-AAAATATTATTATGATTATTATTTTTTATTTCTTAA
* * * *
5055910 AATATTAATATTTTATTATTAAAATATTAATATTTTATTTATAATTGAATCATCAATATTTTAAA
1 AATATTAATAATTAATAATTAAAATATTAATATTTTATTTATAATTGAATCATCAATATTATAAA
* *
5055975 ATATAAATATTTTATTTATAATTTAAATGTTATTATGATTATTA
66 ATATAAATATTTTATTTATAATTAAAATATTATTATGATTATTA
5056019 AAATTTTATT
Statistics
Matches: 95, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
124 19 0.20
125 76 0.80
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (124 bp):
AATATTAATAATTAATAATTAAAATATTAATATTTTATTTATAATTGAATCATCAATATTATAAA
ATATAAATATTTTATTTATAATTAAAATATTATTATGATTATTATTTTTTATTTCTTAA
Found at i:5056063 original size:28 final size:27
Alignment explanation
Indices: 5056014--5056089 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 27
5056004 TTATTATGAT
*
5056014 TATTAAAATTT-TATTTTA-TTTTAAA
1 TATTAAAATTTATAATTTATTTTTAAA
5056039 TATTAAAAGTTTATAATTTATTTTTAAA
1 TATTAAAA-TTTATAATTTATTTTTAAA
5056067 TATTAAAAATTTATAATTTATTT
1 TATT-AAAATTTATAATTTATTT
5056090 AATTATCAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 8 0.17
26 3 0.07
27 6 0.13
28 25 0.54
29 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
TATTAAAATTTATAATTTATTTTTAAA
Found at i:5056123 original size:54 final size:53
Alignment explanation
Indices: 5056014--5056124 Score: 118
Period size: 54 Copynumber: 2.1 Consensus size: 53
5056004 TTATTATGAT
* * * * *
5056014 TATTAAAATTTTATTTTATTTTAAATATTAAAAGTTTATAATTTATTTTTAAA
1 TATTAAAATTTTAATTTATTTTAAATATCAAAAGTTGATAATTTAGTATTAAA
* *
5056067 TATTAAAAATTTATAATTTA-TTTAATTATCAATAGTTGATAATTTAAGTATT-AA
1 TATT-AAAATTT-TAATTTATTTTAAATATCAAAAGTTGATAATTT-AGTATTAAA
5056121 TATT
1 TATT
5056125 TTATTTATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
53 4 0.08
54 34 0.71
55 10 0.21
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (53 bp):
TATTAAAATTTTAATTTATTTTAAATATCAAAAGTTGATAATTTAGTATTAAA
Found at i:5056186 original size:20 final size:21
Alignment explanation
Indices: 5056119--5056191 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 21
5056109 TTTAAGTATT
5056119 AATATT-TTATTTATAA-TTA
1 AATATTATTATTTATAATTTA
* * * *
5056138 AATCATTAATATTATAAAATGTC
1 AAT-ATTATTATT-TATAATTTA
5056161 AATATT-TTATTTATAATTTA
1 AATATTATTATTTATAATTTA
*
5056181 AATATTGTTAT
1 AATATTATTAT
5056192 AATTGTTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 3 0.07
20 15 0.37
21 12 0.29
22 7 0.17
23 4 0.10
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (21 bp):
AATATTATTATTTATAATTTA
Found at i:5056538 original size:48 final size:48
Alignment explanation
Indices: 5056476--5056642 Score: 158
Period size: 48 Copynumber: 3.4 Consensus size: 48
5056466 TTATTTTATT
*
5056476 TTTAAATATTAATATTTTTTATTTATTTAAAATATTAATAATTGATCA
1 TTTAAATATTAATATTTTTTATTTATTTAAAATGTTAATAATTGATCA
* * * **
5056524 TTTAAATATTAATATTTTACTTA-TAATTT-AAATGTTATGATGATTAGTTGTT
1 TTTAAATATTAATATTTT--TTATTTATTTAAAATGTTA--ATAATT-GAT-CA
* * * *
5056576 TTTAAATATTAATAATTTATAATTTCTTTAAAATGTTAATAATTAATCA
1 TTTAAATATTAAT-ATTTTTTATTTATTTAAAATGTTAATAATTGATCA
*
5056625 TTTAAATATAAATATTTT
1 TTTAAATATTAATATTTT
5056643 ATTTATAATT
Statistics
Matches: 93, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
48 29 0.31
49 17 0.18
50 9 0.10
51 9 0.10
52 17 0.18
53 12 0.13
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (48 bp):
TTTAAATATTAATATTTTTTATTTATTTAAAATGTTAATAATTGATCA
Found at i:5056554 original size:26 final size:25
Alignment explanation
Indices: 5056462--5056667 Score: 83
Period size: 26 Copynumber: 8.2 Consensus size: 25
5056452 TATTTGTTTT
* *
5056462 TATTTTATTTTATTTTTAAATATTAA
1 TATTTTATTATA-ATTTAAATATTAA
*
5056488 TATTTT-TTATTTATTTAAAATATTAA
1 TATTTTATTA-TAATTT-AAATATTAA
*
5056514 TA----ATTGATCATTTAAATATTAA
1 TATTTTATT-ATAATTTAAATATTAA
*
5056536 TATTTTACTTATAATTTAAATGTT-A
1 TATTTTA-TTATAATTTAAATATTAA
* * *
5056561 TGATGATTAGTTGT-TTTTAAATATTAA
1 T-AT-TTTA-TTATAATTTAAATATTAA
* * ** *
5056588 TAATTTATAATTTCTTTAAAATGTTAA
1 TATTTTATTA-TAATTT-AAATATTAA
* * *
5056615 TA-ATTA--ATCATTTAAATATAAA
1 TATTTTATTATAATTTAAATATTAA
5056637 TATTTTATTTATAATTT-AATCATTAA
1 TATTTTA-TTATAATTTAAAT-ATTAA
5056663 TATTT
1 TATTT
5056668 GAAGGGTTGT
Statistics
Matches: 135, Mismatches: 25, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
22 20 0.15
23 14 0.10
24 3 0.02
25 14 0.10
26 64 0.47
27 20 0.15
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.55
Consensus pattern (25 bp):
TATTTTATTATAATTTAAATATTAA
Found at i:5056618 original size:101 final size:100
Alignment explanation
Indices: 5056474--5056655 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 100
5056464 TTTTATTTTA
* * * *
5056474 TTTTTAAATATTAATATTTTTTATTTATTTAAAATATTAATAATTGATCATTTAAATATTAATAT
1 TTTTTAAATATTAATATTTATAATTTATTTAAAATATTAATAATTAATCATTTAAATATAAATAT
5056539 TTTACTTATAATTTAAATGTTATGATGATTAGTTG
66 TTTACTTATAATTTAAATGTTATGATGATTAGTTG
* *
5056574 TTTTTAAATATTAATAATTTATAATTTCTTTAAAATGTTAATAATTAATCATTTAAATATAAATA
1 TTTTTAAATATTAAT-ATTTATAATTTATTTAAAATATTAATAATTAATCATTTAAATATAAATA
*
5056639 TTTTATTTATAATTTAA
65 TTTTACTTATAATTTAA
5056656 TCATTAATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 15 0.20
101 59 0.80
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (100 bp):
TTTTTAAATATTAATATTTATAATTTATTTAAAATATTAATAATTAATCATTTAAATATAAATAT
TTTACTTATAATTTAAATGTTATGATGATTAGTTG
Found at i:5057513 original size:24 final size:24
Alignment explanation
Indices: 5057486--5057539 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
5057476 ATTTATGATG
*
5057486 TGTTTTTTTACATATTCTGTCACA
1 TGTTTTGTTACATATTCTGTCACA
* **
5057510 TGTTCTGTTATGTATTCTGTCACA
1 TGTTTTGTTACATATTCTGTCACA
5057534 TGTTTT
1 TGTTTT
5057540 ATCATATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.56
Consensus pattern (24 bp):
TGTTTTGTTACATATTCTGTCACA
Found at i:5057549 original size:24 final size:24
Alignment explanation
Indices: 5057497--5057571 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
5057487 GTTTTTTTAC
* * *
5057497 ATATTCTGTCACATGTTCTGTTAT
1 ATATTCTGTCACATGTTTTATCAT
*
5057521 GTATTCTGTCACATGTTTTATCAT
1 ATATTCTGTCACATGTTTTATCAT
**
5057545 ATATTCAT-T-ATGTGTTTTATCAT
1 ATATTC-TGTCACATGTTTTATCAT
5057568 ATAT
1 ATAT
5057572 GTTGTCGCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 16 0.37
24 26 0.60
25 1 0.02
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (24 bp):
ATATTCTGTCACATGTTTTATCAT
Found at i:5065039 original size:12 final size:13
Alignment explanation
Indices: 5065018--5065042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5065008 ATTATTAACT
5065018 TTTTTAAAAAAAA
1 TTTTTAAAAAAAA
5065031 TTTTTAAAAAAA
1 TTTTTAAAAAAA
5065043 GATAAACAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTTTAAAAAAAA
Found at i:5069058 original size:57 final size:56
Alignment explanation
Indices: 5068970--5069082 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 56
5068960 TTTGGATTTT
* * *
5068970 GGATCTGGTGATGCAACCAAAGGTTCTGGTTGG-GGAAAGAAAAGTGACTGGAACTCA
1 GGATCTGGGGATGCAACC-AAGGTTCAGGTTGGAAG-AAGAAAAGTGACTGGAACTCA
* *
5069027 GGATCTGGGGATGCAAACC-AGGATTCAGGTTGGAAGAAGAGAAGTGATTGGAACTC
1 GGATCTGGGGATGC-AACCAAGG-TTCAGGTTGGAAGAAGAAAAGTGACTGGAACTC
5069083 TGGAAATGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
56 3 0.06
57 40 0.83
58 5 0.10
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (56 bp):
GGATCTGGGGATGCAACCAAGGTTCAGGTTGGAAGAAGAAAAGTGACTGGAACTCA
Found at i:5069226 original size:33 final size:33
Alignment explanation
Indices: 5069189--5069262 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
5069179 AGGCTTTAGA
*
5069189 GGTAGGGGGA-ATGCAGACAGAGGAGGTTTTCGG
1 GGTAGAGGGAGAT-CAGACAGAGGAGGTTTTCGG
* * *
5069222 GGTAGAGGTAGATCAGATAGAGGGGGTTTTCGG
1 GGTAGAGGGAGATCAGACAGAGGAGGTTTTCGG
*
5069255 GGTGGAGG
1 GGTAGAGG
5069263 TGATGGAGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.23, C:0.07, G:0.50, T:0.20
Consensus pattern (33 bp):
GGTAGAGGGAGATCAGACAGAGGAGGTTTTCGG
Found at i:5080820 original size:18 final size:17
Alignment explanation
Indices: 5080793--5080826 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5080783 TGTCACTTAT
*
5080793 ACATGTTTAATCATGATA
1 ACATGATTAAT-ATGATA
5080811 ACATGATTAATATGAT
1 ACATGATTAATATGAT
5080827 TAATTAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (17 bp):
ACATGATTAATATGATA
Found at i:5085768 original size:26 final size:25
Alignment explanation
Indices: 5085739--5085792 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
5085729 TATAAAATTT
5085739 ATTTAATT-TAAAATAAAAATATATAA
1 ATTTAATTATAAAATAAAAA-A-ATAA
5085765 ATTTAATTAATAAAATAAAAAAATAA
1 ATTTAATT-ATAAAATAAAAAAATAA
5085791 AT
1 AT
5085793 ACTTATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 14 0.54
27 1 0.04
28 11 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
ATTTAATTATAAAATAAAAAAATAA
Found at i:5085769 original size:30 final size:28
Alignment explanation
Indices: 5085729--5085792 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
5085719 AATTATTAGT
*
5085729 TATA-AAATTTATTTAATTTAAAATAAAAA
1 TATATAAATTTAATTAA--TAAAATAAAAA
5085758 TATATAAATTTAATTAATAAAATAAAAA
1 TATATAAATTTAATTAATAAAATAAAAA
5085786 -A-ATAAAT
1 TATATAAAT
5085793 ACTTATTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 6 0.18
27 1 0.03
28 11 0.33
29 4 0.12
30 11 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
TATATAAATTTAATTAATAAAATAAAAA
Found at i:5091099 original size:21 final size:21
Alignment explanation
Indices: 5091060--5091104 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5091050 TCATATTTAA
*
5091060 ATGCAAATGATATTGCATGCC
1 ATGCAAATGATATTACATGCC
* * *
5091081 ATGCACATGATGTTACATGTC
1 ATGCAAATGATATTACATGCC
5091102 ATG
1 ATG
5091105 TATAAAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (21 bp):
ATGCAAATGATATTACATGCC
Found at i:5091202 original size:55 final size:57
Alignment explanation
Indices: 5091132--5091267 Score: 140
Period size: 55 Copynumber: 2.4 Consensus size: 57
5091122 CATAATGGTT
* *
5091132 AAAAAAGATTATTACATATCATGTT-GAAAAAAAATATTATT-GTTACATGTTATG-T-
1 AAAAAATATTATTACATATCATGTTAG-AAAAAAATATTATTAG-TACACGTTATGTTG
* * *
5091187 ACAAAAATA-TATTACA-AGCTATGTTAGAAAAAAATGTTGTTAGTACACGTTATGTTG
1 A-AAAAATATTATTACATATC-ATGTTAGAAAAAAATATTATTAGTACACGTTATGTTG
*
5091244 AAAAAATATTATTACATGTCATGT
1 AAAAAATATTATTACATATCATGT
5091268 ACAAAATCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
54 2 0.03
55 35 0.53
56 16 0.24
57 12 0.18
58 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAATATTATTACATATCATGTTAGAAAAAAATATTATTAGTACACGTTATGTTG
Found at i:5091267 original size:26 final size:27
Alignment explanation
Indices: 5091132--5091267 Score: 75
Period size: 31 Copynumber: 4.9 Consensus size: 27
5091122 CATAATGGTT
* *
5091132 AAAAAAGATTATTACATATCATGTTGAA
1 AAAAAATATTATTACATGTCATGTTG-A
*
5091160 AAAAAATATTATTGTTACATGTTATG-T-A
1 AAAAAATATTA---TTACATGTCATGTTGA
* *
5091188 CAAAAATA-TATTACAAG-CTATGTTAGA
1 AAAAAATATTATTACATGTC-ATGTT-GA
* * * *
5091215 AAAAAATGTTGTTAGTACACGTTATGTTG-
1 AAAAAA---TATTATTACATGTCATGTTGA
5091244 AAAAAATATTATTACATGTCATGT
1 AAAAAATATTATTACATGTCATGT
5091268 ACAAAATCAT
Statistics
Matches: 81, Mismatches: 15, Indels: 26
0.66 0.12 0.21
Matches are distributed among these distances:
24 9 0.11
25 1 0.01
26 14 0.17
27 8 0.10
28 18 0.22
29 6 0.07
30 3 0.04
31 22 0.27
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.36
Consensus pattern (27 bp):
AAAAAATATTATTACATGTCATGTTGA
Found at i:5094604 original size:23 final size:24
Alignment explanation
Indices: 5094581--5094633 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
5094571 GTTGGTGAAT
5094581 ATTAAACGAGCT-TATTTGTAAATA
1 ATTAAACGAG-TATATTTGTAAATA
*
5094605 ATT-AATGAGTATATTTGTAAATA
1 ATTAAACGAGTATATTTGTAAATA
5094628 ATTAAA
1 ATTAAA
5094634 GCATTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 1 0.04
23 20 0.77
24 5 0.19
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (24 bp):
ATTAAACGAGTATATTTGTAAATA
Found at i:5094639 original size:19 final size:21
Alignment explanation
Indices: 5094594--5094639 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
5094584 AAACGAGCTT
*
5094594 ATTTGTAAATAATTAATGAGTAT
1 ATTTGTAAATAATTAA-GAG-AC
5094617 ATTTGTAAATAATTAA-AG-C
1 ATTTGTAAATAATTAAGAGAC
5094636 ATTT
1 ATTT
5094640 AAATCAGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 4 0.18
21 2 0.09
23 16 0.73
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (21 bp):
ATTTGTAAATAATTAAGAGAC
Found at i:5095170 original size:2 final size:2
Alignment explanation
Indices: 5095165--5095198 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5095155 TGAGAGAGCC
5095165 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5095199 TAGGTTTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5097042 original size:66 final size:66
Alignment explanation
Indices: 5096936--5097070 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 66
5096926 GGTGAGAACA
* * *
5096936 AACAGGTGTGATAAGGAAGGTGAATCCCTTAAAGAAGAAGATGGAGAGGATGAAA-CTTGTAATA
1 AACAGGTGTAACAAGGAAGGTGAATCCCTTAAAGAAGAAGATGGAGAGAAT-AAACCTTGTAATA
*
5097000 TG
65 GG
* * *
5097002 AACAGGTGTAACAAGGCAGGTGGATCCCTTATAGAAGAAGATGGAGAGAATAAACCTTGTAATAG
1 AACAGGTGTAACAAGGAAGGTGAATCCCTTAAAGAAGAAGATGGAGAGAATAAACCTTGTAATAG
5097067 G
66 G
5097068 AAC
1 AAC
5097071 CAGAGGCGGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 3 0.05
66 58 0.95
ACGTcount: A:0.41, C:0.10, G:0.29, T:0.20
Consensus pattern (66 bp):
AACAGGTGTAACAAGGAAGGTGAATCCCTTAAAGAAGAAGATGGAGAGAATAAACCTTGTAATAG
G
Found at i:5097794 original size:309 final size:316
Alignment explanation
Indices: 5097225--5097849 Score: 817
Period size: 309 Copynumber: 2.0 Consensus size: 316
5097215 AGGGGGTCGT
* * *
5097225 CAACAAAAGGTTTTTTTACAATTTTTTAATGCTTTGTGCAAATTAATTTTTCTAATAACAATGTG
1 CAACAAAAGGTTTTTGTACAATTTTTTAATGCTATGTGCAAATTAATTTTTCCAATAACAATGTG
* * * * * *
5097290 CAATATTTAGGTTTTTGTAGAAATTTCATGATTACATAGGAAATTCATGGTTTCTTTTATGTTTT
66 CAATATTTAGATTTTTATAGAAACTTCAAGATGACAAAGGAAATT-ATGGTTTCTTTTATGTTTT
*
5097355 TCTAGCAGGGTTTGTTTAAGAAGGCAATCTACTGGGTTTAAAGACCAAAAACCAGAACTGAATGA
130 TCTA-CAGGGTTTGTTTAAGAAGGCAATCTACTAGGTTTAAAGACCAAAAACCAGAACTGAATGA
* * *
5097420 AGATGCGTTTGTAGATGATGCAAAATTTCTTGTTTCTTCTTCCTGTGATGATAAGGTGCATGAGA
194 AGATGCGTTTGTAGATGATACAAAATTTCTCG-TTCTTCTTCCTGCGATGATAAGGTGCATGAGA
* * *
5097485 GTGGCCTAATATCTTCTGATTCATCAGTCAAAAAAGAACATGAAGAAGGAAGTATCTGA
258 GTGGCCCAACATCTTCTCATTCATCAGTCAAAAAAGAACATGAAGAAGGAAGTATCTGA
* *
5097544 CAACAAAAGGTTTTTGTACAATTTTTTATTGCTATGTGCAAATT-ATTTTTCCAGTAAC-A-GTG
1 CAACAAAAGGTTTTTGTACAATTTTTTAATGCTATGTGCAAATTAATTTTTCCAATAACAATGTG
* * *
5097606 TAATCTTTATATTTTTATAGAAACTTCACAG-TGACAAAGGAAATT-TGTGTTT-TTTT-T-TTT
66 CAATATTTAGATTTTTATAGAAACTTCA-AGATGACAAAGGAAATTATG-GTTTCTTTTATGTTT
* * * *
5097666 TT-T-CAGGGTTTGTTTGAGAAGGCAATCTGCTAGGTTTAAA-ACCCAAGAACCAGAACTGACTG
129 TTCTACAGGGTTTGTTTAAGAAGGCAATCTACTAGGTTTAAAGA-CCAAAAACCAGAACTGAATG
* * **
5097728 CAGATGTGTTTGATTTAGATGATACAGCATTTCTCG-T-TTCTTCCTGCGATGATAAGGTGCATG
193 AAGATGCGTTTG---TAGATGATACAAAATTTCTCGTTCTTCTTCCTGCGATGATAAGGTGCATG
5097791 AGAGTGGCCCAACATCTTCTCATTCATCAGTCAAAAAAGAACATGAAGAAGGAAGTATC
255 AGAGTGGCCCAACATCTTCTCATTCATCAGTCAAAAAAGAACATGAAGAAGGAAGTATC
5097850 ACCCCTAGAA
Statistics
Matches: 271, Mismatches: 29, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
308 1 0.00
309 143 0.53
310 1 0.00
311 1 0.00
312 22 0.08
313 1 0.00
314 6 0.02
315 4 0.01
316 37 0.14
317 2 0.01
318 12 0.04
319 41 0.15
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (316 bp):
CAACAAAAGGTTTTTGTACAATTTTTTAATGCTATGTGCAAATTAATTTTTCCAATAACAATGTG
CAATATTTAGATTTTTATAGAAACTTCAAGATGACAAAGGAAATTATGGTTTCTTTTATGTTTTT
CTACAGGGTTTGTTTAAGAAGGCAATCTACTAGGTTTAAAGACCAAAAACCAGAACTGAATGAAG
ATGCGTTTGTAGATGATACAAAATTTCTCGTTCTTCTTCCTGCGATGATAAGGTGCATGAGAGTG
GCCCAACATCTTCTCATTCATCAGTCAAAAAAGAACATGAAGAAGGAAGTATCTGA
Done.