Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 206 of 279
Found at i:67325696 original size:12 final size:12
Alignment explanation
Indices: 67325679--67325705 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
67325669 GCTTATCGAC
67325679 TACTATTACTGT
1 TACTATTACTGT
67325691 TACTATTACTGT
1 TACTATTACTGT
67325703 TAC
1 TAC
67325706 CGATTCGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (12 bp):
TACTATTACTGT
Found at i:67325785 original size:6 final size:6
Alignment explanation
Indices: 67325774--67325807 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
67325764 GTGTGTTGAA
* *
67325774 TACTGT TACTGT TACTGT TACTGC TACCGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACT
67325808 AATTACTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:67332390 original size:48 final size:47
Alignment explanation
Indices: 67332285--67332640 Score: 221
Period size: 48 Copynumber: 7.5 Consensus size: 47
67332275 TATGTGTGCT
* * * *
67332285 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-AAAGCC
* *
67332331 AGTGTAAGACATGTCTGGGATATGCATCTGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AAGCC
* *
67332379 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATATAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AAGCC
* * * * * * *
67332427 AGTGTAAGACCTGTCTGGGACATGGCGTCAG-CTTGTTG-TGT---GTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG-AGATATAAAGCC
* * * * *
67332471 AGTGTAAGACCTGTCTGGGACATGACATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATG-CATCGGC-CTCGAGATAT-AAAGCC
* * * * * *
67332520 AGTGTAAAACCTATCTGGGACACAGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACATGTCTGGGACA-TGCATCGGCCTCGAGATAT-AAAGCC
* * * * * *
67332569 AGTGTAAGACCTGCCTGGGACATAGCATCGACTTTGATG-TGCT--AGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGA-GAT-ATAAAGCC
67332616 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
67332641 GCGTCGGTAT
Statistics
Matches: 243, Mismatches: 48, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.00
44 27 0.11
45 2 0.01
46 31 0.13
47 15 0.06
48 89 0.37
49 76 0.31
50 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAGCC
Found at i:67332548 original size:142 final size:145
Alignment explanation
Indices: 67332375--67332640 Score: 348
Period size: 142 Copynumber: 1.9 Consensus size: 145
67332365 GAGATATACA
* * *
67332375 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATAT-ATAAG-CTAGTGTAAGACC
1 AGCCAGTGTAAAACATATCTAGGACAAGCATCGGCCTCGAGATATGA-AAGTC-AGTGTAAGACC
* * * * *
67332438 TGTCTGGGACATGGCGTC-AGC-TTGTTGTG-T-GTCAGTGTAAGACC-TGTCTGGGACATGACA
64 TGCCTGGGACATAGCATCGA-CTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGACA
67332498 TCGACACCGATAGATGAG
128 TCGACACCGATAGATGAG
* * *
67332516 AGCCAGTGTAAAACCTATCTGGGACACAGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCT
1 AGCCAGTGTAAAACATATCTAGGACA-AGCATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCT
67332581 GCCTGGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATG
65 GCCTGGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATG
67332641 GCGTCGGTAT
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
141 22 0.21
142 47 0.44
143 10 0.09
144 1 0.01
145 13 0.12
146 13 0.12
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (145 bp):
AGCCAGTGTAAAACATATCTAGGACAAGCATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCTG
CCTGGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGACATCG
ACACCGATAGATGAG
Found at i:67335420 original size:40 final size:40
Alignment explanation
Indices: 67334540--67335413 Score: 1628
Period size: 40 Copynumber: 21.9 Consensus size: 40
67334530 AGGTGACCAT
67334540 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
*
67334580 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334620 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334660 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334700 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334740 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334780 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334820 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334860 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334900 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334940 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67334980 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67335020 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67335060 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67335100 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67335140 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67335180 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67335220 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
67335260 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
*
67335300 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
** *
67335340 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTA-A
* * *
67335381 A-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGT
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGT
67335414 AGCTATATCC
Statistics
Matches: 823, Mismatches: 9, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
39 1 0.00
40 820 1.00
41 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAA
Found at i:67339691 original size:19 final size:20
Alignment explanation
Indices: 67339654--67339691 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
67339644 ATAAGGTGGT
67339654 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
67339674 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
67339692 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:67340995 original size:28 final size:28
Alignment explanation
Indices: 67340963--67341035 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
67340953 GTCACTAGAT
* *
67340963 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATAATTTGTGGCAGGGCCACCAGA
67340991 ACAGATAATTTGTGGCAGGGCCACCAGA
1 ACAGATAATTTGTGGCAGGGCCACCAGA
*
67341019 ATAGATAATTTGTGGCA
1 ACAGATAATTTGTGGCA
67341036 TAGCCACTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (28 bp):
ACAGATAATTTGTGGCAGGGCCACCAGA
Found at i:67342275 original size:12 final size:13
Alignment explanation
Indices: 67342256--67342288 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
67342246 GGGTTCGGCT
67342256 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
67342269 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
67342281 ATGGAGAA
1 ATGGAGAA
67342289 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:67356390 original size:20 final size:20
Alignment explanation
Indices: 67356362--67356402 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
67356352 TTTTTGAAAC
*
67356362 AGGGCACACACCCGTGTGGA
1 AGGGAACACACCCGTGTGGA
*
67356382 AGGGAACACGCCCGTGTGGA
1 AGGGAACACACCCGTGTGGA
67356402 A
1 A
67356403 TTAATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.37, T:0.10
Consensus pattern (20 bp):
AGGGAACACACCCGTGTGGA
Found at i:67357670 original size:46 final size:46
Alignment explanation
Indices: 67357546--67357709 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 46
67357536 GCCATTGCCA
* * * *
67357546 TGTCCCAGACATGGTCTTTCACTA--ACACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTAGCACTCGTCTCG-AGCCGATGCT
* *
67357591 TGTCCCAGACAT-GTCTTACACTGGCTTA-T-GTCTCGAGGCCGAAGCT
1 TGTCCCAGACATGGTCTTACACTAGC--ACTCGTCTCGA-GCCGATGCT
*
67357637 TGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATGCCGATG-T
1 TGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGA-GCCGATGCT
*
67357682 CGTGCCTCAGACATGGTCTTACACTAGC
1 TGT-CC-CAGACATGGTCTTACACTAGC
67357710 TCTCAAAATG
Statistics
Matches: 98, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
44 10 0.10
45 17 0.17
46 50 0.51
47 7 0.07
48 14 0.14
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
TGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGAGCCGATGCT
Found at i:67381822 original size:40 final size:40
Alignment explanation
Indices: 67381767--67381844 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
67381757 CGTGAATATA
*
67381767 TTGTTTCTAATGTCATTCAACCTTCTATTGTTCATGGATG
1 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGATG
67381807 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGA
1 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGA
67381845 CTTGTCAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (40 bp):
TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGATG
Found at i:67382296 original size:30 final size:30
Alignment explanation
Indices: 67382262--67382322 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
67382252 AAGTTTATAG
*
67382262 TAATAGTGCGAACTATGATAATAGTAATAA
1 TAATAGTGAGAACTATGATAATAGTAATAA
*
67382292 TAATAGTGAGAACTATGATAATAGTGATAA
1 TAATAGTGAGAACTATGATAATAGTAATAA
67382322 T
1 T
67382323 GAACTTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (30 bp):
TAATAGTGAGAACTATGATAATAGTAATAA
Found at i:67382318 original size:18 final size:18
Alignment explanation
Indices: 67382262--67382318 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
67382252 AAGTTTATAG
*
67382262 TAATAGTGCGAACTATGA
1 TAATAGTGAGAACTATGA
67382280 TAATAGT---AA-TA--A
1 TAATAGTGAGAACTATGA
67382292 TAATAGTGAGAACTATGA
1 TAATAGTGAGAACTATGA
67382310 TAATAGTGA
1 TAATAGTGA
67382319 TAATGAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 8 0.24
14 2 0.06
15 4 0.12
16 2 0.06
18 17 0.52
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (18 bp):
TAATAGTGAGAACTATGA
Found at i:67390514 original size:65 final size:65
Alignment explanation
Indices: 67390410--67390603 Score: 298
Period size: 65 Copynumber: 3.0 Consensus size: 65
67390400 GAATCTCGAG
* *** *
67390410 TGTTCATTATTTTCCAATCTTGTTCTTCACCAGTGCTTGAAGTATTTGGCACTAGTCTATAGCAT
1 TGTTCATTATTTTTCTGCCTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCAT
* *
67390475 TGTTCATTTTTTTTCTGCCTTGTTCTTCACTAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCAT
1 TGTTCATTATTTTTCTGCCTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCAT
* * *
67390540 TGTTTATTATTTTTCTGCCTTGTTCTTCACCGGTGCTTGAAGTAGTTGGCACTAATCTATAGCA
1 TGTTCATTATTTTTCTGCCTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCA
67390604 CTGCTTGTTT
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 117 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (65 bp):
TGTTCATTATTTTTCTGCCTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCAT
Found at i:67393720 original size:46 final size:48
Alignment explanation
Indices: 67393648--67393750 Score: 140
Period size: 46 Copynumber: 2.2 Consensus size: 48
67393638 GACAAGACAG
* * *
67393648 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGG-ATTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCA-TTGGA
*
67393694 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
67393742 GACAGGAAT
1 GACAGGAAT
67393751 AATTCATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 21 0.42
49 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:67398059 original size:46 final size:48
Alignment explanation
Indices: 67397987--67398089 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
67397977 GACAGGACAG
* * * *
67397987 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
67398033 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
67398081 GACAGGAAT
1 GACAGGAAT
67398090 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:67399436 original size:12 final size:11
Alignment explanation
Indices: 67399415--67399444 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
67399405 AAAATTAATT
67399415 TTAAATAAAAA
1 TTAAATAAAAA
67399426 TTAATATAAAAA
1 TTAA-ATAAAAA
67399438 TTAAATA
1 TTAAATA
67399445 TGGGCGAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAATAAAAA
Found at i:67400699 original size:11 final size:11
Alignment explanation
Indices: 67400683--67400716 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
67400673 CGCATCTAGT
67400683 TTTGTTCTTGA
1 TTTGTTCTTGA
67400694 TTTGTTCTTGA
1 TTTGTTCTTGA
*
67400705 TTTATTCTTGA
1 TTTGTTCTTGA
67400716 T
1 T
67400717 GATTTGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:67405462 original size:18 final size:18
Alignment explanation
Indices: 67405441--67405500 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
67405431 AATCGGTTAA
*
67405441 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
67405459 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
67405477 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
67405495 TCAGTA
1 TCAGTA
67405501 GTAGACAGCC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:67406700 original size:19 final size:19
Alignment explanation
Indices: 67406673--67406716 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
67406663 AATCCGTAGC
67406673 TTTCCCTTTTTCTT-TTTCT
1 TTTCCCTTTTT-TTCTTTCT
*
67406692 TTTCTCTTTTTTTCTTTC-
1 TTTCCCTTTTTTTCTTTCT
67406710 TTTCCCT
1 TTTCCCT
67406717 GCTAACCGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCCCTTTTTTTCTTTCT
Found at i:67406762 original size:13 final size:13
Alignment explanation
Indices: 67406744--67406768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67406734 TTCTTTCCTT
67406744 TTTCTTTATTTCA
1 TTTCTTTATTTCA
67406757 TTTCTTTATTTC
1 TTTCTTTATTTC
67406769 TTTTATTTTA
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:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:67411544 original size:37 final size:38
Alignment explanation
Indices: 67411475--67411557 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 38
67411465 AAAAAATAAT
*
67411475 TTGATGAGAATAACCAAGAAGATAAAGCAATTCAGTC-
1 TTGATGAGAATAACCAAGAAGATAAAGAAATTCAGTCG
67411512 TTGATGAGAATAACCAA-AAGGATGAAA-AAATTCAGTCG
1 TTGATGAGAATAACCAAGAA-GAT-AAAGAAATTCAGTCG
67411550 TCTGATGA
1 T-TGATGA
67411558 ATTATTTAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
36 2 0.05
37 29 0.71
38 4 0.10
39 6 0.15
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (38 bp):
TTGATGAGAATAACCAAGAAGATAAAGAAATTCAGTCG
Found at i:67412893 original size:16 final size:16
Alignment explanation
Indices: 67412868--67412902 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
67412858 CAAAAATATT
67412868 AAATAGTTTTTTGAGA
1 AAATAGTTTTTTGAGA
*
67412884 AAATATTTTTTTGAGA
1 AAATAGTTTTTTGAGA
67412900 AAA
1 AAA
67412903 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (16 bp):
AAATAGTTTTTTGAGA
Found at i:67413107 original size:23 final size:23
Alignment explanation
Indices: 67413079--67413128 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
67413069 TAAAAATAAT
**
67413079 TTTAAATTC-TTGTTATTTATTAA
1 TTTAAATTCATT-TTACATATTAA
67413102 TTTAAATTCATTTTACATATTAA
1 TTTAAATTCATTTTACATATTAA
67413125 TTTA
1 TTTA
67413129 TTTTTTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAATTCATTTTACATATTAA
Found at i:67413488 original size:5 final size:6
Alignment explanation
Indices: 67413463--67413487 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
67413453 CTAAACGTTG
67413463 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
67413488 GGATGTCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:67415120 original size:27 final size:27
Alignment explanation
Indices: 67415072--67415230 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
67415062 GCGAGGCTGC
* *
67415072 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
67415099 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
67415125 CAGATATATGTGGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
67415152 CAGATAATCGTGGCATAACCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
67415179 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
67415206 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
67415231 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:67415174 original size:54 final size:54
Alignment explanation
Indices: 67415090--67415230 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
67415080 GTGACGAAGT
*
67415090 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
67415144 CATCAGATCAGATAATCGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
67415198 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
67415231 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:67416886 original size:26 final size:26
Alignment explanation
Indices: 67416851--67416932 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
67416841 TGAAATTCCC
* *
67416851 ATCATAGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
67416877 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
67416903 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
67416929 ATCA
1 ATCA
67416933 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:67422242 original size:27 final size:27
Alignment explanation
Indices: 67422194--67422298 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
67422184 GCGAGGCTGC
* *
67422194 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
67422221 CAGATATTGTAGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
67422247 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
67422274 CAGATAATCGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
67422299 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.12
27 55 0.83
28 3 0.05
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:67423953 original size:26 final size:26
Alignment explanation
Indices: 67423917--67424023 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
67423907 TAAAATTCCG
*
67423917 TCATGGAACATTTATCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
67423943 TCATGGAACATTTACTTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
67423969 TCATGAAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
67423995 TCATAGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
67424021 TCA
1 TCA
67424024 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:67425311 original size:23 final size:23
Alignment explanation
Indices: 67425283--67425332 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
67425273 TTTGAAGTGT
*
67425283 ATATATATATATTTGTGAATTTTAA
1 ATATATATATA-TT-TGAATTTGAA
67425308 ATATATATATATTTGAATTTGAA
1 ATATATATATATTTGAATTTGAA
67425331 AT
1 AT
67425333 TCATGTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.46
24 2 0.08
25 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (23 bp):
ATATATATATATTTGAATTTGAA
Found at i:67431399 original size:16 final size:15
Alignment explanation
Indices: 67431373--67431406 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
67431363 TGTGGAATCC
*
67431373 TTTCTAAAAATAGTT
1 TTTCTAAAAATAATT
67431388 TTTCTGAAAAATAATT
1 TTTCT-AAAAATAATT
67431404 TTT
1 TTT
67431407 TAAGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTCTAAAAATAATT
Found at i:67432826 original size:23 final size:23
Alignment explanation
Indices: 67432800--67432848 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
67432790 GATTTTAAAC
*
67432800 AAATACTCAT-TTTTATATTATGA
1 AAATACTCATATTTTATACTAT-A
*
67432823 AAATATTCATATTTTATACTATA
1 AAATACTCATATTTTATACTATA
67432846 AAA
1 AAA
67432849 CATTTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATACTCATATTTTATACTATA
Found at i:67437341 original size:26 final size:23
Alignment explanation
Indices: 67437287--67437343 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 23
67437277 CTTTTAATCA
*
67437287 GGAAGCTCACAAAGAGCTTATCG
1 GGAAGCTCACAAAGAGCTTAACG
*
67437310 GGAAGCTCATAAAGAGCTATGTAACG
1 GGAAGCTCACAAAGAGC--T-TAACG
67437336 GGAAGCTC
1 GGAAGCTC
67437344 TGGATAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 16 0.55
25 1 0.03
26 12 0.41
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCTTAACG
Found at i:67438189 original size:28 final size:28
Alignment explanation
Indices: 67438149--67438205 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
67438139 GAAAATTCAC
67438149 TTCACAAAAGTTGTTTATCTATCAACAA
1 TTCACAAAAGTTGTTTATCTATCAACAA
67438177 TTCACAAAAGTTGTTTATCTATCAACAA
1 TTCACAAAAGTTGTTTATCTATCAACAA
67438205 T
1 T
67438206 CTTTCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.37
Consensus pattern (28 bp):
TTCACAAAAGTTGTTTATCTATCAACAA
Found at i:67445202 original size:49 final size:50
Alignment explanation
Indices: 67445096--67445207 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 50
67445086 CCGGGCTATA
* * * **
67445096 TAACGGGAAGCTCATAAGAGCCATAATTAGGAAGTTCACAAAGAACTTTG
1 TAACAGGAAGCTCATAAGAGCCATAATCAGGAAGCTCACAAAGAACCATG
* *
67445146 -AATCAGGAAGCTCATGAAGAGCC-T-ATCGGGAAGCTCACAAAGAGCCATG
1 TAA-CAGGAAGCTCAT-AAGAGCCATAATCAGGAAGCTCACAAAGAACCATG
67445195 TAACAGGAAGCTC
1 TAACAGGAAGCTC
67445208 CGGGTAGCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
49 31 0.60
50 14 0.27
51 7 0.13
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (50 bp):
TAACAGGAAGCTCATAAGAGCCATAATCAGGAAGCTCACAAAGAACCATG
Found at i:67458466 original size:40 final size:40
Alignment explanation
Indices: 67458422--67458506 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
67458412 TATCTTGTAA
*
67458422 ACTAAGTGCCGTACATAGCCGAAGCTATCTC-AAACAGCAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACA-CAC
* * *
67458462 ACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCACAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACACAC
67458502 ACTAA
1 ACTAA
67458507 AATCTGTAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.20
Consensus pattern (40 bp):
ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACACAC
Found at i:67461062 original size:29 final size:29
Alignment explanation
Indices: 67460901--67461127 Score: 163
Period size: 29 Copynumber: 7.8 Consensus size: 29
67460891 TGTGCTAAAC
* * *
67460901 GATGGTTGTAACCGTCCCTTTTCATA-TT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* ** * * *
67460929 CTATGGTCGAAACCGTCCC-TTTCATTAATC
1 -GATGGTCGTCACCATCCCTTTTCA-TAGTT
* *
67460959 GATGGTCGTCATCATCCCTTTTCATAGCT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * *
67460988 GATGGTCGTCACCACCCCTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAGTT
** ** *
67461017 GATGGTTATCATTATCCCATTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
*
67461046 GATGGTCGTCACCATCCCTTTTCATATTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * * *
67461075 GATAGCCG-AAGCTATCCCTTTTCATAGTT
1 GATGGTCGTCA-CCATCCCTTTTCATAGTT
* * *
67461104 TATGGTGGTCACCATCCATTTTCA
1 GATGGTCGTCACCATCCCTTTTCA
67461128 AAATCGATAG
Statistics
Matches: 150, Mismatches: 43, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
28 6 0.04
29 137 0.91
30 7 0.05
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAGTT
Found at i:67461091 original size:58 final size:57
Alignment explanation
Indices: 67460972--67461158 Score: 212
Period size: 58 Copynumber: 3.2 Consensus size: 57
67460962 GGTCGTCATC
* * * ** * *
67460972 ATCCCTTTTCATAGCTGATGGTCGTCACCACCCCTTTTCATAATCGATGGTTATCATT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCGA-AACT
* * * *
67461030 ATCCCATTTCATAGTTGATGGTCGTCACCATCCCTTTTCATATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAG-CGAAACT
* * * *
67461088 ATCCCTTTTCATAGTTTATGGTGGTCACCATCCATTTTCAAAATCGATAGTCGAAACT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAG-CGAAACT
67461146 ATCCCTTTTCATA
1 ATCCCTTTTCATA
67461159 ATCTAAGGCT
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
58 107 0.99
59 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (57 bp):
ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCGAAACT
Found at i:67461235 original size:15 final size:15
Alignment explanation
Indices: 67461215--67461253 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
67461205 TATGATAATA
**
67461215 TAAAATAATAGCATT
1 TAAAATAATAAAATT
67461230 TAAAATAA-AAAATT
1 TAAAATAATAAAATT
67461244 TAAAATAATA
1 TAAAATAATA
67461254 TTTAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
TAAAATAATAAAATT
Found at i:67466382 original size:83 final size:83
Alignment explanation
Indices: 67466275--67466600 Score: 607
Period size: 83 Copynumber: 3.9 Consensus size: 83
67466265 GTTGTTCTTA
* * *
67466275 TAGTTAGTTAACACTATAGATTAGGTTTATTTTCACTTTTAACCCATCTCTTTTACTTGTAATGA
1 TAGTTAGTT-ACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGA
67466340 CATTCTACTCTTAGTGAGC
65 CATTCTACTCTTAGTGAGC
67466359 TAGTTAGTTACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGAC
1 TAGTTAGTTACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGAC
67466424 ATTCTACTCTTAGTGAGC
66 ATTCTACTCTTAGTGAGC
67466442 TAGTTAGTTACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGAC
1 TAGTTAGTTACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGAC
67466507 ATTCTACTCTTAGTGAGC
66 ATTCTACTCTTAGTGAGC
67466525 TAGTTAGTTACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGAC
1 TAGTTAGTTACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGAC
*
67466590 ATTATACTCTT
66 ATTCTACTCTT
67466601 TGTTTAATGC
Statistics
Matches: 238, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
83 229 0.96
84 9 0.04
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (83 bp):
TAGTTAGTTACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGAC
ATTCTACTCTTAGTGAGC
Found at i:67471107 original size:6 final size:6
Alignment explanation
Indices: 67471096--67471132 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
67471086 AGTTTTACCA
67471096 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
67471133 GTCTCAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:67474134 original size:26 final size:26
Alignment explanation
Indices: 67474062--67474118 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
67474052 TCGCATCCCT
67474062 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
67474088 ATTTTACCCCTGGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
67474114 ATTTT
1 ATTTT
67474119 GTCCTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:67476075 original size:46 final size:46
Alignment explanation
Indices: 67476022--67476141 Score: 213
Period size: 46 Copynumber: 2.6 Consensus size: 46
67476012 TTATTTCGCT
*
67476022 TATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGTTGCCATGG
*
67476068 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGTTGCCATGG
*
67476114 TATCTTTCATCCATGGTCTTATTCATTT
1 TATCTTTCAACCATGGTCTTATTCATTT
67476142 ATCGTCATAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.46
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGTTGCCATGG
Found at i:67476149 original size:46 final size:45
Alignment explanation
Indices: 67476022--67476180 Score: 201
Period size: 46 Copynumber: 3.5 Consensus size: 45
67476012 TTATTTCGCT
* *
67476022 TATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTT-TCGTCATGTTGCCATGG
*
67476068 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTTC-GTCATGTTGCCATGG
* * * **
67476114 TATCTTTCATCCATGGTCTTATTCATTTATCGTCATATTGTCAAAG
1 TATCTTTCAACCATGGTCTTATTCATTT-TCGTCATGTTGCCATGG
* *
67476160 TATCTTTCAACTATAGTCTTA
1 TATCTTTCAACCATGGTCTTA
67476181 CACATTTGAA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
46 98 0.99
47 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.45
Consensus pattern (45 bp):
TATCTTTCAACCATGGTCTTATTCATTTTCGTCATGTTGCCATGG
Found at i:67476224 original size:45 final size:45
Alignment explanation
Indices: 67476162--67476277 Score: 169
Period size: 45 Copynumber: 2.6 Consensus size: 45
67476152 TGTCAAAGTA
* * *
67476162 TCTTTCAACTATAGTCTTACACATTTGAATCGCGATGCAATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCAATAGCG
* * * *
67476207 TCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCAATAGCG
67476252 TCTTTCAGCTATGGTCTTACTCATTT
1 TCTTTCAGCTATGGTCTTACTCATTT
67476278 CTGTTATGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCAATAGCG
Found at i:67480019 original size:17 final size:17
Alignment explanation
Indices: 67479997--67480029 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
67479987 TACTCGATAG
67479997 CTCACCTCTATCACCCA
1 CTCACCTCTATCACCCA
67480014 CTCACCTCTATCACCC
1 CTCACCTCTATCACCC
67480030 GCTAGTGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.55, G:0.00, T:0.24
Consensus pattern (17 bp):
CTCACCTCTATCACCCA
Found at i:67482457 original size:22 final size:24
Alignment explanation
Indices: 67482414--67482457 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
67482404 TGATAATATG
67482414 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
67482438 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
67482458 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:67484829 original size:20 final size:20
Alignment explanation
Indices: 67484788--67484829 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
67484778 ATGTTATGAA
* *
67484788 TCGCTCATACCAGTAGTTAC
1 TCGCTCATACCAGCAGTGAC
*
67484808 TCGCTCATACTAGCAGTGAC
1 TCGCTCATACCAGCAGTGAC
67484828 TC
1 TC
67484830 CGACCACTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (20 bp):
TCGCTCATACCAGCAGTGAC
Found at i:67487216 original size:37 final size:36
Alignment explanation
Indices: 67487135--67487228 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
67487125 AATCCATAGC
* *
67487135 CATGGCATAATTCAAGGAGGTCTGCCAGATTGCCTA
1 CATGGCATAATCCAGGGAGGTCTGCCAGATTGCCTA
* * * *
67487171 TAAGGCATAATCCAGGGCGGTTTGCCAGATTCGCCTA
1 CATGGCATAATCCAGGGAGGTCTGCCAGATT-GCCTA
67487208 CATGGCATAATCCAGTGGAGG
1 CATGGCATAATCCAG-GGAGG
67487229 CTAGCGACAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 25 0.53
37 18 0.38
38 4 0.09
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (36 bp):
CATGGCATAATCCAGGGAGGTCTGCCAGATTGCCTA
Found at i:67487604 original size:16 final size:18
Alignment explanation
Indices: 67487577--67487610 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
67487567 AATAATTATT
67487577 TTAAATTAATTTT-TCAA
1 TTAAATTAATTTTCTCAA
67487594 TTAAA-TAATTTTCTCAA
1 TTAAATTAATTTTCTCAA
67487611 CTATATTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATTAATTTTCTCAA
Found at i:67488693 original size:12 final size:12
Alignment explanation
Indices: 67488676--67488701 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
67488666 TAGTCTTTCA
67488676 ATCAATTTGCTC
1 ATCAATTTGCTC
67488688 ATCAATTTGCTC
1 ATCAATTTGCTC
67488700 AT
1 AT
67488702 TTCTGATTAG
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:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (12 bp):
ATCAATTTGCTC
Found at i:67498906 original size:34 final size:34
Alignment explanation
Indices: 67498863--67498931 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
67498853 TAGGTCTACA
67498863 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
1 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
67498897 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
1 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
67498931 T
1 T
67498932 TGGTGCCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (34 bp):
TATGTTAAATTCTTGCATGAAAAATCTAACACAT
Found at i:67503198 original size:24 final size:24
Alignment explanation
Indices: 67503166--67503216 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
67503156 ACCATTATTT
*
67503166 TTAATAAATTAGATGTTGATAAAA
1 TTAATAAATTAGATGATGATAAAA
67503190 TTAATAAATTAGATGATGATAAAA
1 TTAATAAATTAGATGATGATAAAA
67503214 TTA
1 TTA
67503217 TCAAAGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (24 bp):
TTAATAAATTAGATGATGATAAAA
Found at i:67510338 original size:46 final size:44
Alignment explanation
Indices: 67510259--67510369 Score: 109
Period size: 46 Copynumber: 2.5 Consensus size: 44
67510249 AGTGCTAGTA
* * * *
67510259 TAAGACATGTCCGGGACATGTATCGGCCTCGAGATATAAG-CAAGTG
1 TAAGACATGTCTGGGACATGCATCAGCATCGAGATAT--GTC-AGTG
*
67510305 TAAGACATGTCTGGGACATGCATCAG-ATACGAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCAT-CGAGATATGTCAGTG
*
67510349 TAAGACCATATCTGGGACATG
1 TAAGA-CATGTCTGGGACATG
67510370 GCGTCGATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
44 10 0.18
45 16 0.29
46 30 0.54
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCAGCATCGAGATATGTCAGTG
Found at i:67511022 original size:18 final size:18
Alignment explanation
Indices: 67510999--67511034 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
67510989 CATGAGATAG
67510999 ACTTGTATTGGTTTTGGT
1 ACTTGTATTGGTTTTGGT
67511017 ACTTGTATTGGTTTTGGT
1 ACTTGTATTGGTTTTGGT
67511035 TGCTAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.28, T:0.56
Consensus pattern (18 bp):
ACTTGTATTGGTTTTGGT
Found at i:67513513 original size:17 final size:17
Alignment explanation
Indices: 67513493--67513696 Score: 408
Period size: 17 Copynumber: 12.0 Consensus size: 17
67513483 CAATGATATG
67513493 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513510 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513527 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513544 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513561 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513578 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513595 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513612 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513629 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513646 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513663 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513680 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
67513697 TGAAATCTTA
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 187 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:67513734 original size:22 final size:22
Alignment explanation
Indices: 67513687--67513731 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
67513677 ATACAATCTT
*
67513687 AGATATGATATGAAATCTTAGA
1 AGATATGATATGAAATATTAGA
* *
67513709 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGAAATATTAGA
67513732 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGAAATATTAGA
Found at i:67514022 original size:17 final size:17
Alignment explanation
Indices: 67513998--67514032 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
67513988 TGTTTCCCTG
*
67513998 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
67514016 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
67514033 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:67514101 original size:26 final size:25
Alignment explanation
Indices: 67514045--67514094 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
67514035 ATCATATCAA
67514045 ACTATTTCATTTTTAATAATTTTTT
1 ACTATTTCATTTTTAATAATTTTTT
*
67514070 ACTATTTCATTTTTAATATTTTTTT
1 ACTATTTCATTTTTAATAATTTTTT
67514095 TAGTATTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (25 bp):
ACTATTTCATTTTTAATAATTTTTT
Found at i:67522713 original size:78 final size:78
Alignment explanation
Indices: 67522506--67522804 Score: 411
Period size: 78 Copynumber: 3.8 Consensus size: 78
67522496 TGAAGAAACA
** * * * * *
67522506 GATTTGGCATCTCCATATTTGACGGAGAGTAGATTGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
67522571 GCAGATCGAAGAT
66 GCAGATCCAAGAT
* * *
67522584 GACAGATTTGGAATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCAT
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
67522649 TGAAGCAGATCCAAGAT
62 TGAAGCAGATCCAAGAT
67522666 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
*
67522730 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
67522744 GATTTCGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
67522805 GTGTTTACAT
Statistics
Matches: 197, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
77 1 0.01
78 128 0.65
79 1 0.01
82 67 0.34
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:67522943 original size:44 final size:45
Alignment explanation
Indices: 67522827--67523003 Score: 257
Period size: 45 Copynumber: 4.0 Consensus size: 45
67522817 AAGTAGATCC
* *
67522827 AAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
* *
67522872 GAGATAATAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
* * * *
67522917 AAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
* *
67522961 AAGATAACAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGAT
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
67523004 CAAATATAGT
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
44 39 0.33
45 79 0.67
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.27
Consensus pattern (45 bp):
AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
Found at i:67522943 original size:89 final size:89
Alignment explanation
Indices: 67522834--67523003 Score: 268
Period size: 89 Copynumber: 1.9 Consensus size: 89
67522824 TCCAAGATGA
* * * *
67522834 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGAGATAATAGATTTGGCATCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
67522899 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* * *
67522923 CAGATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
*
67522988 TAGATGGGGAGCAGAT
66 TAGACGGGGAGCAGAT
67523004 CAAATATAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (89 bp):
CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:67523440 original size:35 final size:37
Alignment explanation
Indices: 67523369--67523466 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
67523359 ATAATCTTCA
67523369 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
67523407 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
67523442 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
67523467 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:67523466 original size:17 final size:19
Alignment explanation
Indices: 67523369--67523459 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
67523359 ATAATCTTCA
67523369 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
67523388 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
67523407 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
67523424 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
67523442 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
67523460 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:67523485 original size:22 final size:22
Alignment explanation
Indices: 67523369--67523482 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
67523359 ATAATCTTCA
67523369 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
67523388 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
67523407 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
67523424 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
67523442 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
67523464 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
67523483 GATTTAATTG
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:67523773 original size:18 final size:18
Alignment explanation
Indices: 67523748--67523784 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
67523738 TATTTCCCTG
*
67523748 ATTTTTTTTATATATTTTA
1 ATTTTTTTAATA-ATTTTA
67523767 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
67523785 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:67528706 original size:150 final size:150
Alignment explanation
Indices: 67528435--67528732 Score: 587
Period size: 150 Copynumber: 2.0 Consensus size: 150
67528425 ATCTGTTTTA
67528435 GTAAAAAATGTTGATAACTAAGTTTATAACATCTTCATTTCTTCTCTCTACAACATTTACCAACA
1 GTAAAAAATGTTGATAACTAAGTTTATAACATCTTCATTTCTTCTCTCTACAACATTTACCAACA
67528500 ATTCCTCTTACTACTCTTCACTAACATATCAAAACATACCATACTTAAGGTTTTGGTAACATTTA
66 ATTCCTCTTACTACTCTTCACTAACATATCAAAACATACCATACTTAAGGTTTTGGTAACATTTA
67528565 CAAAACATACCAAAATATTT
131 CAAAACATACCAAAATATTT
67528585 GTAAAAAATGTTGATAACTAAGTTTATAACATCTTCATTTCTTCTCTCTACAACATTTACCAACA
1 GTAAAAAATGTTGATAACTAAGTTTATAACATCTTCATTTCTTCTCTCTACAACATTTACCAACA
*
67528650 ATTCCTCTTATTACTCTTCACTAACATATCAAAACATACCATACTTAAGGTTTTGGTAACATTTA
66 ATTCCTCTTACTACTCTTCACTAACATATCAAAACATACCATACTTAAGGTTTTGGTAACATTTA
67528715 CAAAACATACCAAAATAT
131 CAAAACATACCAAAATAT
67528733 CACTTAACAA
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.35
Consensus pattern (150 bp):
GTAAAAAATGTTGATAACTAAGTTTATAACATCTTCATTTCTTCTCTCTACAACATTTACCAACA
ATTCCTCTTACTACTCTTCACTAACATATCAAAACATACCATACTTAAGGTTTTGGTAACATTTA
CAAAACATACCAAAATATTT
Found at i:67529191 original size:47 final size:47
Alignment explanation
Indices: 67529083--67529192 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 47
67529073 CGGGATAAGT
* *
67529083 ACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTAC
1 ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTAC
* * *
67529130 ACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-AC
1 ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTAC
67529177 ACATAGTG-TCTCATCG
1 ACATAGTGCT-TCATCG
67529193 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTAC
Found at i:67529966 original size:4 final size:4
Alignment explanation
Indices: 67529957--67529985 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
67529947 CCCTTTTCTA
67529957 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
67529986 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:67534371 original size:44 final size:44
Alignment explanation
Indices: 67534322--67534752 Score: 265
Period size: 45 Copynumber: 9.7 Consensus size: 44
67534312 AGCCACAAAC
* * *
67534322 CTTATCTCTCTGAAGTTGCAGTGGATCAGGTTGAAGTTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTATAAAT
* * ** *
67534366 GTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGTTAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-TAAAT
* * * * * *
67534411 ATTATCTCTCTGAAATTGCAGTAGAGCAGAGTTAAAGCTATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG-GTTGAAGTTATAAAT
* * * * *
67534456 CTTATCCCCCTCAAGTTGCAGTAGGA-CAGGTAGAAGTTATGAGT
1 CTTATCTCCCTGAAGTTGCAGT-GGAGCAGGTTGAAGTTATAAAT
* * * ** * *
67534500 CCTATCTCCCTGAAGTTGCAGTGAAAC-GGATCCAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAAGTTA-TAAAT
** * * * * * * *
67534545 CTTATCTCTTTAAAATTGCAGTAGAGCAAAGTTAAAGCTATAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGC-AGGTTGAAGTTATAAAT
* * * ** *
67534590 CTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTACGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTATAAAT
* * * * *
67534634 CCTCATC-CCTCTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGT
1 -CTTATCTCC-CTGAAGTTGCAGTGGAGCAGGTTGAAGTTATAAAT
* * ** ** *
67534679 CTTATCTCCCTGAAGTTGTAGTGAAGCAGACTGAAGAAAGTAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-TAAAT
* *
67534724 CTTATCTCCCTGAAGTTGCAATGAAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
67534753 ATCAAACTAT
Statistics
Matches: 290, Mismatches: 85, Indels: 23
0.73 0.21 0.06
Matches are distributed among these distances:
43 4 0.01
44 108 0.37
45 163 0.56
46 14 0.05
47 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTATAAAT
Found at i:67534431 original size:45 final size:44
Alignment explanation
Indices: 67534323--67534440 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
67534313 GCCACAAACC
* ** * * *
67534323 TTATCTCTCTGAAGTTGCAGTGGATCAGGTTGAAGTTATAAGTG
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGTTACAAATA
67534367 TTATCTC-CTTGAAGTTGCAGTGGAGCAGACTGAAGTTAGCAAATA
1 TTATCTCTC-TGAAGTTGCAGTGGAGCAGACTGAAGTTA-CAAATA
* *
67534412 TTATCTCTCTGAAATTGCAGTAGAGCAGA
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGA
67534441 GTTAAAGCTA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
43 1 0.02
44 33 0.52
45 28 0.44
46 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGTTACAAATA
Found at i:67534682 original size:134 final size:135
Alignment explanation
Indices: 67534318--67534686 Score: 435
Period size: 134 Copynumber: 2.8 Consensus size: 135
67534308 TTGAAGCCAC
* * * **
67534318 AAACCTTATCTCTCTGAAGTTGCAGT-GGATCAGGTTGAAGTTATAAGTGTTATCTCCT-TGAAG
1 AAACCTTATCTCCCTAAAGTTGCAGTGGGA-CAGGTTGAAGTTATGAGTCCTATCTCCTCTGAAG
* * * *
67534381 TTGCAGTGGAGCAGACTGAAGTTAGCAAATATTATCTCTCTGAAATTGCAGTAGAGCAGAGTTAA
65 TTGCAGTGGAGCAGATTGAAGTTAGCAAATCTTATCTCTCTAAAATTGCAGTAGAGCAAAGTTAA
67534446 AGCTAT
130 AGCTAT
* * * * *
67534452 AAATCTTATCCCCCTCAAGTTGCAGTAGGACAGGTAGAAGTTATGAGTCCTATCTCC-CTGAAGT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGGACAGGTTGAAGTTATGAGTCCTATCTCCTCTGAAGT
* * * ** * *
67534516 TGCAGTGAAACGGATCCAAGATAGCAAATCTTATCTCTTTAAAATTGCAGTAGAGCAAAGTTAAA
66 TGCAGTGGAGCAGATTGAAGTTAGCAAATCTTATCTCTCTAAAATTGCAGTAGAGCAAAGTTAAA
67534581 GCTAT
131 GCTAT
* * *
67534586 AAACCTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTACGAGTCCTCATC-CCTCTGAAG
1 AAACCTTATCTCCCTAAAGTTGCAGTGGGACAGGTTGAAGTTATGAGTCCT-ATCTCCTCTGAAG
* *
67534650 TTGCAGTGGGGCA-AGTTGAAGTTA-CAAGTCTTATCTC
65 TTGCAGTGGAGCAGA-TTGAAGTTAGCAAATCTTATCTC
67534687 CCTGAAGTTG
Statistics
Matches: 195, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
134 168 0.86
135 27 0.14
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (135 bp):
AAACCTTATCTCCCTAAAGTTGCAGTGGGACAGGTTGAAGTTATGAGTCCTATCTCCTCTGAAGT
TGCAGTGGAGCAGATTGAAGTTAGCAAATCTTATCTCTCTAAAATTGCAGTAGAGCAAAGTTAAA
GCTAT
Found at i:67536383 original size:22 final size:23
Alignment explanation
Indices: 67536350--67536393 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
67536340 TATTAGTTTT
67536350 GTTCTTTTTTTTATTTTAGGCAA
1 GTTCTTTTTTTTATTTTAGGCAA
67536373 GTTC-TTTTTTTATTTTAGGCA
1 GTTCTTTTTTTTATTTTAGGCA
67536394 TTCTCATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.16, C:0.09, G:0.14, T:0.61
Consensus pattern (23 bp):
GTTCTTTTTTTTATTTTAGGCAA
Found at i:67536477 original size:11 final size:11
Alignment explanation
Indices: 67536461--67536499 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
67536451 AATTAACCTC
67536461 ATTATTTCATT
1 ATTATTTCATT
*
67536472 ATTATTTCTTT
1 ATTATTTCATT
*
67536483 ATTTATTTAATT
1 A-TTATTTCATT
67536495 ATTAT
1 ATTAT
67536500 ACATCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTATTTCATT
Found at i:67536593 original size:3 final size:3
Alignment explanation
Indices: 67536585--67536611 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
67536575 TTTATCTACT
67536585 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
67536612 ATTCATGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:67538765 original size:35 final size:37
Alignment explanation
Indices: 67538698--67538776 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
67538688 ATCACAAAAT
*
67538698 CATATC-T-TCTAAGATTGCATATTATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
67538734 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
67538769 CATATCAT
1 CATATCAT
67538777 TGAAGATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:67538774 original size:14 final size:15
Alignment explanation
Indices: 67538721--67538774 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
67538711 ATTGCATATT
67538721 ATATCTAAGATTGCAATC
1 ATATCTAAGATTG---TC
67538739 ATATCTAAGATTGTATC
1 ATATCTAAGATTG--TC
67538756 ATATCTAAGATTG-C
1 ATATCTAAGATTGTC
67538770 ATATC
1 ATATC
67538775 ATTGAAGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
14 6 0.17
17 16 0.46
18 13 0.37
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (15 bp):
ATATCTAAGATTGTC
Found at i:67538776 original size:19 final size:19
Alignment explanation
Indices: 67538705--67538776 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
67538695 AATCATATCT
*
67538705 TCTAAGATTGCATATTATA
1 TCTAAGATTGCATATCATA
67538724 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
67538742 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
67538759 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
67538777 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 15 0.31
19 18 0.37
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:67539157 original size:45 final size:45
Alignment explanation
Indices: 67539102--67539301 Score: 260
Period size: 45 Copynumber: 4.5 Consensus size: 45
67539092 GGAATGCGAT
* *
67539102 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
67539147 ATCTGTTATCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
67539192 ATCTGCT-TCTTCAATCTGCTCTCCGTCTAATACAGATATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
67539236 ATCTGTTATC-TCTGATTTGCTCCCCATCTAATACAGAGATGCCAA
1 ATCTGTTATCTTC-GATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
67539281 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
67539302 TCGATGTAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
44 40 0.30
45 93 0.69
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:67539267 original size:89 final size:90
Alignment explanation
Indices: 67539102--67539285 Score: 282
Period size: 89 Copynumber: 2.1 Consensus size: 90
67539092 GGAATGCGAT
**
67539102 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATTTGC
*
67539167 TCCCCGTCTAATACAGAGACGCCAA
66 TCCCCATCTAATACAGAGACGCCAA
* * *
67539192 ATCTGCT-TCTTCAATCTGCTCTCCGTCTAATACAGATATGCCAAATCTGTTATC-TCTGATTTG
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTC-GATTTG
*
67539255 CTCCCCATCTAATACAGAGATGCCAA
65 CTCCCCATCTAATACAGAGACGCCAA
67539281 ATCTG
1 ATCTG
67539286 TCATCTTGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
88 2 0.02
89 77 0.90
90 7 0.08
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATTTGC
TCCCCATCTAATACAGAGACGCCAA
Found at i:67539444 original size:78 final size:79
Alignment explanation
Indices: 67539315--67539582 Score: 411
Period size: 78 Copynumber: 3.4 Consensus size: 79
67539305 ATGTAAACAC
* * *
67539315 ATGAAAGT-TAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCTAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATC
67539379 TTGGATCTGCTTCA
66 TTGGATCTGCTTCA
* *
67539393 ATGAAGGTCTA-ATCTGTTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATTATC
1 ATGAAGGTCTAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATC
*
67539457 TTGGATCTGTTTCA
66 TTGGATCTGCTTCA
* *
67539471 ATGAAGGT-TAGATCTGCTGTGTCTTTGATCTGC-TCCCTGTCTAATACAGAGATGCCAAATCAT
1 ATGAAGGTCTAGATCTGCTATGTCTTCGATCTGCTTCCC-GTCTAATACAGAGATGCCAAATCAT
67539534 CTTGGATCTGCTTCA
65 CTTGGATCTGCTTCA
*
67539549 ATGAAGGTC-ATATCTGCTATGTCTTCGATCTGCT
1 ATGAAGGTCTAGATCTGCTATGTCTTCGATCTGCT
67539583 CTCTGTCGAA
Statistics
Matches: 171, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
77 6 0.04
78 163 0.95
79 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (79 bp):
ATGAAGGTCTAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATC
TTGGATCTGCTTCA
Found at i:67539601 original size:156 final size:156
Alignment explanation
Indices: 67539315--67539608 Score: 457
Period size: 156 Copynumber: 1.9 Consensus size: 156
67539305 ATGTAAACAC
67539315 ATGAAAGTTAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAAGTTAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
67539380 TGGATCTGCTTCAATGAAGGTCTAATCTGTTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCTAATCTGCTATGTCTTCGATCTGCTTCCCGTCGAATACAGAGA
*
67539445 TGCCAAATTATCTTGGATCTGTTTCA
131 TGCAAAATTATCTTGGATCTGTTTCA
* * * * *
67539471 ATGAAGGTTAGATCTGCTGTGTCTTTGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAAGTTAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
* **
67539536 TGGATCTGCTTCAATGAAGGTC-ATATCTGCTATGTCTTCGATCTGC-TCTCTGTCGAATATGGA
66 TGGATCTGCTTCAATGAAGGTCTA-ATCTGCTATGTCTTCGATCTGCTTC-CCGTCGAATACAGA
67539599 GATGCAAAAT
129 GATGCAAAAT
67539609 CTGTTTCTTC
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
155 3 0.02
156 122 0.98
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (156 bp):
ATGAAAGTTAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCTAATCTGCTATGTCTTCGATCTGCTTCCCGTCGAATACAGAGA
TGCAAAATTATCTTGGATCTGTTTCA
Found at i:67539793 original size:286 final size:287
Alignment explanation
Indices: 67539403--67539986 Score: 856
Period size: 286 Copynumber: 2.0 Consensus size: 287
67539393 ATGAAGGTCT
* * * *
67539403 AATCTGTTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATTATCTTGGATCTGTT
1 AATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGACAAATCATCTTGGATCTGCT
* * *
67539468 TCAATGAAGGTTAGATCTGCTGTGTCTTTGATCTGCT-CCCTGTCTAATACAGAGATGCCAAATC
66 TCAATGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCT-TCTAATACAGAGATACCAAATC
* * *
67539532 ATCTTGGATCTGCTTCAATGAAGGTCATATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATG
130 ATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATG
*
67539597 GAGATGCAAAATCTGTTTCTTCAATTTGTTCTCTAACAGTACAGAGATGTCAAATCATCTTAGA-
195 GAGATGCAAAATCTGTTTCTTCAATTTGTTCTCTAACAATACAGAGATGTCAAATCATCTTAGAT
*
67539661 TCTGCTTCAGCGTAAACACGTGAAAGCCA
260 TC-GCTTCAGCGTAAACACCTGAAAGCCA
* ** *
67539690 AATCTGGTATGTCTTCGATCTGC-TCATTGTC-AATGCA-AGGATGACAAATCATCTTGGATCTG
1 AATCTGCTATGTCTTCGATCTGCTTC-CCGTCTAATACAGA-GATGACAAATCATCTTGGATCTG
*
67539752 CTTCAATGAAGGTTCA-ATCTGTTATGTCTTCGATCTGCTCCCCTTCTAATACAGAGATACCAAA
64 CTTCAATGAAGGTT-AGATCTGCTATGTCTTCGATCTGCTCCCCTTCTAATACAGAGATACCAAA
*
67539816 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCTCCGTCGAATA
128 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTCCGTCGAATA
* * * * * *
67539881 TGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTTTGACAATACAGAGATGTTAAATCATCTTGG
193 TGGAGATGCAAAATCTGTTTCTTCAATTTGTTCTCTAACAATACAGAGATGTCAAATCATCTTAG
*
67539946 ATTCGCTTCAGCGTAAACACCTGAAAGTCA
258 ATTCGCTTCAGCGTAAACACCTGAAAGCCA
67539976 AATCTGCTATG
1 AATCTGCTATG
67539987 CTTTAGCCTG
Statistics
Matches: 267, Mismatches: 25, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
285 1 0.00
286 234 0.88
287 32 0.12
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (287 bp):
AATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGACAAATCATCTTGGATCTGCT
TCAATGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCTTCTAATACAGAGATACCAAATCA
TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTCCGTCGAATATGG
AGATGCAAAATCTGTTTCTTCAATTTGTTCTCTAACAATACAGAGATGTCAAATCATCTTAGATT
CGCTTCAGCGTAAACACCTGAAAGCCA
Found at i:67539887 original size:78 final size:78
Alignment explanation
Indices: 67539734--67539895 Score: 227
Period size: 78 Copynumber: 2.1 Consensus size: 78
67539724 GCAAGGATGA
* * * *
67539734 CAAATCATCTTGGATCTGCTTCAATGAAGGTTCAATCTGTTATGTCTTCGATCTGCTCCCCTTCT
1 CAAATCATCTTGGATCTGCTTCAATGAAGGTTCAATCTGCTATGTCTTCGATCTACTCCCCGTCG
67539799 AATACAGAGATAC
66 AATACAGAGATAC
* *
67539812 CAAATCATCTTGGATCTGCTTCAATGAAGG-TCAGATCTGCTGTGTCTTCGATCTACTCTCCGTC
1 CAAATCATCTTGGATCTGCTTCAATGAAGGTTCA-ATCTGCTATGTCTTCGATCTACTCCCCGTC
** *
67539876 GAATATGGAGATGC
65 GAATACAGAGATAC
67539890 CAAATC
1 CAAATC
67539896 TGTTTCTTCG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 3 0.04
78 71 0.96
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (78 bp):
CAAATCATCTTGGATCTGCTTCAATGAAGGTTCAATCTGCTATGTCTTCGATCTACTCCCCGTCG
AATACAGAGATAC
Found at i:67548268 original size:17 final size:17
Alignment explanation
Indices: 67548246--67548278 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
67548236 GATATGATAC
67548246 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
67548263 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
67548279 AATCAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:67548279 original size:18 final size:17
Alignment explanation
Indices: 67548246--67548279 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
67548236 GATATGATAC
*
67548246 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
67548263 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
67548280 ATCAGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:67548570 original size:22 final size:21
Alignment explanation
Indices: 67548535--67548592 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
67548525 AAAAGTTATC
* * *
67548535 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
67548556 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
67548579 TGCATATCATATCT
1 TACAAATCATATCT
67548593 AAGATTGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:67548595 original size:19 final size:19
Alignment explanation
Indices: 67548571--67548642 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
67548561 AATCATATCT
67548571 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
67548590 TCTAAGATTGCA-ATTATA
1 TCTAAGATTGCATATCATA
67548608 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
67548625 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
67548643 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 15 0.31
19 18 0.38
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:67551049 original size:51 final size:50
Alignment explanation
Indices: 67550982--67551081 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 50
67550972 AATAATAAAT
67550982 TTAACCATCAACTTTTAT-ATATTATATCAATTAAATCATAAATTTAAAAAA
1 TTAACCATCAACTTTTATAATATT-T-TCAATTAAATCATAAATTTAAAAAA
* * * * *
67551033 TTAACCCTCAATTTTTATAAATATTTTCAATTAGATCCTAATTTTAAAA
1 TTAACCATCAACTTTTAT-AATATTTTCAATTAAATCATAAATTTAAAA
67551082 CCCCTCAACC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 36 0.86
52 1 0.02
53 5 0.12
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.42
Consensus pattern (50 bp):
TTAACCATCAACTTTTATAATATTTTCAATTAAATCATAAATTTAAAAAA
Found at i:67556406 original size:17 final size:18
Alignment explanation
Indices: 67556386--67556424 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
67556376 TAAAAAACAG
67556386 AAAATATAGAAAATTAC-
1 AAAATATAGAAAATTACT
* *
67556403 AAAATATATAAATTTACT
1 AAAATATAGAAAATTACT
67556421 AAAA
1 AAAA
67556425 AATTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAATATAGAAAATTACT
Found at i:67557957 original size:17 final size:17
Alignment explanation
Indices: 67557935--67557970 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
67557925 ATGGAATTTA
67557935 TTTATTAA-AATAATAAT
1 TTTATTAATAA-AATAAT
67557952 TTTATTAATAAAATAAT
1 TTTATTAATAAAATAAT
67557969 TT
1 TT
67557971 CTTTCAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATTAATAAAATAAT
Found at i:67558597 original size:7 final size:7
Alignment explanation
Indices: 67558587--67558611 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
67558577 TTTACAGATT
67558587 TTTTGAA
1 TTTTGAA
67558594 TTTTGAA
1 TTTTGAA
67558601 TTTTGAA
1 TTTTGAA
67558608 TTTT
1 TTTT
67558612 TAAGAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (7 bp):
TTTTGAA
Found at i:67563443 original size:21 final size:20
Alignment explanation
Indices: 67563418--67563471 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
67563408 GTTGCAACAA
67563418 AGCTTCTCTTTTTTTCCATTC
1 AGCTTCT-TTTTTTTCCATTC
*
67563439 AGCTTCTTCCTTTTTCCATTC
1 AGCTTCTT-TTTTTTCCATTC
67563460 AGCTTCTTTTTT
1 AGCTTCTTTTTT
67563472 AATTAGAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.09, C:0.28, G:0.06, T:0.57
Consensus pattern (20 bp):
AGCTTCTTTTTTTTCCATTC
Found at i:67575991 original size:30 final size:30
Alignment explanation
Indices: 67575957--67576020 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
67575947 ATAATAAAAT
*
67575957 AATAATAAATATCTTATTAAAT-ATTAATAA
1 AATAATAAATATCTAATTAAATAATT-ATAA
** *
67575987 AATAATATTTTTCTAATTAAATAATTATAA
1 AATAATAAATATCTAATTAAATAATTATAA
67576017 AATA
1 AATA
67576021 TCATCAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
AATAATAAATATCTAATTAAATAATTATAA
Found at i:67579961 original size:13 final size:13
Alignment explanation
Indices: 67579943--67579968 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67579933 ATATTATAAA
67579943 ACATTTAAAATAT
1 ACATTTAAAATAT
67579956 ACATTTAAAATAT
1 ACATTTAAAATAT
67579969 TATAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ACATTTAAAATAT
Found at i:67580036 original size:30 final size:28
Alignment explanation
Indices: 67580002--67580077 Score: 72
Period size: 30 Copynumber: 2.8 Consensus size: 28
67579992 GTTATATCTT
67580002 TATTAATAATATATTTTAAATATTTTATAA
1 TATTAATAATATATTTTAAA-ATTTTA-AA
*
67580032 TATTAA-AAAATAATATTTAAAATTTTAAA
1 TATTAATAATAT-AT-TTTAAAATTTTAAA
67580061 -A--AATAATA-ATTTTAAAA
1 TATTAATAATATATTTTAAAA
67580078 AATATATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
24 7 0.17
25 2 0.05
26 2 0.05
27 3 0.07
28 1 0.02
29 6 0.15
30 14 0.34
31 6 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TATTAATAATATATTTTAAAATTTTAAA
Found at i:67580059 original size:22 final size:23
Alignment explanation
Indices: 67580020--67580077 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
67580010 ATATATTTTA
*
67580020 AATATTTTATAATATTAAAAAAT
1 AATATTTTAAAATATTAAAAAAT
*
67580043 AATA-TTTAAAATTTTAAAAAAT
1 AATATTTTAAAATATTAAAAAAT
67580065 AATAATTTTAAAA
1 AAT-ATTTTAAAA
67580078 AATATATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 19 0.61
23 5 0.16
24 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATTTTAAAATATTAAAAAAT
Found at i:67580078 original size:37 final size:38
Alignment explanation
Indices: 67580028--67580114 Score: 124
Period size: 38 Copynumber: 2.3 Consensus size: 38
67580018 TAAATATTTT
*
67580028 ATAATATTAAAAAATAATATTTAAAA-TTTTAAAAAATA
1 ATAATTTTAAAAAAT-ATATTTAAAATTTTTAAAAAATA
*
67580066 ATAATTTTAAAAAATATATTTAAAATTTTTAATAAATA
1 ATAATTTTAAAAAATATATTTAAAATTTTTAAAAAATA
*
67580104 AT-ATTATAAAA
1 ATAATTTTAAAA
67580115 CATTTAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 18 0.40
38 27 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (38 bp):
ATAATTTTAAAAAATATATTTAAAATTTTTAAAAAATA
Found at i:67580132 original size:13 final size:13
Alignment explanation
Indices: 67580114--67580139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67580104 ATATTATAAA
67580114 ACATTTAAAATAT
1 ACATTTAAAATAT
67580127 ACATTTAAAATAT
1 ACATTTAAAATAT
67580140 TATAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ACATTTAAAATAT
Found at i:67582904 original size:21 final size:20
Alignment explanation
Indices: 67582887--67582925 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
67582877 TAAAAAAACT
*
67582887 CTGAAAATGAAAAAAAAAAG
1 CTGAAAACGAAAAAAAAAAG
67582907 CTGAAAACGAAAAAAAAAA
1 CTGAAAACGAAAAAAAAAA
67582926 TATTAGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.72, C:0.08, G:0.13, T:0.08
Consensus pattern (20 bp):
CTGAAAACGAAAAAAAAAAG
Found at i:67583110 original size:19 final size:20
Alignment explanation
Indices: 67583081--67583131 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
67583071 AAGAAAATAA
67583081 AAGGAAAGAAAAGAGAA-GAG
1 AAGG-AAGAAAAGAGAAGGAG
67583101 AAGGAAGAAAA-AGAAGGAG
1 AAGGAAGAAAAGAGAAGGAG
67583120 AAGGAA-AAAAGA
1 AAGGAAGAAAAGA
67583132 AGGTATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.28
19 17 0.59
20 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AAGGAAGAAAAGAGAAGGAG
Found at i:67583122 original size:15 final size:16
Alignment explanation
Indices: 67583065--67583134 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 16
67583055 ATTCAGCAGC
* *
67583065 AAGGAGAAGAAAATAA
1 AAGGAGAAGAAAAGAG
67583081 AAGGA-AAGAAAAGAG
1 AAGGAGAAGAAAAGAG
67583096 AAGAGAAGGAAGAAAA-AG
1 AAG-G-A-GAAGAAAAGAG
*
67583114 AAGGAGAAGGAAAAAAG
1 AAGGAGAA-GAAAAGAG
67583131 AAGG
1 AAGG
67583135 TATAATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
15 14 0.30
16 12 0.26
17 8 0.17
18 5 0.11
19 7 0.15
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (16 bp):
AAGGAGAAGAAAAGAG
Found at i:67583263 original size:9 final size:9
Alignment explanation
Indices: 67583249--67583274 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
67583239 AGTAAAAAAA
67583249 TATTGTTAT
1 TATTGTTAT
67583258 TATTGTTAT
1 TATTGTTAT
67583267 TATTGTTA
1 TATTGTTA
67583275 GTAAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (9 bp):
TATTGTTAT
Found at i:67583273 original size:35 final size:36
Alignment explanation
Indices: 67583232--67583318 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 36
67583222 CAGTTATTAA
**
67583232 TATTGTTAGTAAAAAAATATTGTTATTATT-GTTAT
1 TATTGTTAGTAAAAAAATATAATTATTATTAGTTAT
* *
67583267 TATTGTTAGTAAAAAACTATAATTATTGTTAGTTAT
1 TATTGTTAGTAAAAAAATATAATTATTATTAGTTAT
*
67583303 TATTATT-GTAAAAAAA
1 TATTGTTAGTAAAAAAA
67583319 AACCTAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 34 0.76
36 11 0.24
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.47
Consensus pattern (36 bp):
TATTGTTAGTAAAAAAATATAATTATTATTAGTTAT
Found at i:67589726 original size:15 final size:14
Alignment explanation
Indices: 67589706--67589769 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 14
67589696 ACTTTATTCG
67589706 TATTTTTTCGTATAT
1 TATTTTTTC-TATAT
*
67589721 TATTTTTTAAAATATAT
1 TATTTTTT---CTATAT
* *
67589738 TA-TTTTCCTATTT
1 TATTTTTTCTATAT
67589751 TATTTTTT-TATAT
1 TATTTTTTCTATAT
67589764 TATTTT
1 TATTTT
67589770 AGCAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 16 0.41
14 4 0.10
15 8 0.21
16 4 0.10
17 7 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (14 bp):
TATTTTTTCTATAT
Found at i:67590056 original size:146 final size:146
Alignment explanation
Indices: 67589301--67590362 Score: 1122
Period size: 146 Copynumber: 7.1 Consensus size: 146
67589291 ATAAGTAAAA
* * * * * *
67589301 TATTTTCGTATATTATTT-TTTA-AATATTTTAGCA-AAAATGTTTTAAATGTATTATGTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
** *
67589363 TTTTTTATATTAATTTAATAAATAACACTGATTTT-GACACTTT-TTCGTATTTTTTATTTTCGT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTA---TTT-TTTTCGT
67589426 AT-CTTATTTTTTAAAATATAT
126 ATAC-TATTTTTTAAAATATAT
* * *
67589447 TACTTTCGTATTATT-TTAT-TTTAAAACCCTTATTTTAGTACATAATGTTTTAAATGTATTATT
1 TATTTTCGTATT-TTATT-TCTTT-ATA---TTATTTTAGTACATAATGTTTCAAATGTATTATT
* * * *
67589510 TAAGTGTTTTTAATATTTTTTTAATAAATAA-CTTGATTTTAGCACTTTATTTGTA--TTTTTCG
60 TAAGTATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCG
67589572 TAT-CT-TTTTTT-AAATATAT
125 TATACTATTTTTTAAAATATAT
*
67589591 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATTATGTTTTCAAATGTATTATTTAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATG-TTTCAAATGTATTATTTAAGT
* *
67589656 GTTTTTTTATATTTTTTTAATAAATAACCATGATTTTAGCACTTTATTCGTA-TTTTTTCGTATA
65 -ATTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATA
*
67589720 TTATTTTTTAAAATATAT
129 CTATTTTTTAAAATATAT
* * * * *
67589738 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTATATT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTA-T---TAT-TT
* * *
67589803 ATGTAAGTTTTTT-TTTTATACTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTCGTA-T
61 AAGT-A-TTTTTTATATT-T--T--TTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATT
67589865 TTTTTCGTAT-CTTATTTTTTAAAATATAT
118 TTTTTCGTATAC-TATTTTTTAAAATATAT
* *
67589894 TATTTTCCTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
* *
67589959 TTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATACT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATACT
67590024 ATTTTTTAAAATATAT
131 ATTTTTTAAAATATAT
* * * * *** * * *
67590040 TATTTTCTTATTTTATTT-TTTATATTATTTTAGCAAAAAAAAATTCAAATGTATTAATTAACTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
* * * *
67590104 TTTCTATATATTAAGGGGTTTTTTACTAAATAACCCTGATTTT-GATACTTTCTTCGTAATTTTT
66 TTT-T-T-TA-T-A---TTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGT-A----T
*
67590168 TTATTTTCGTATATTATTTTTTAAAATATAT
117 TT-TTTTCGTATACTATTTTTTAAAATATAT
* *
67590199 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGCTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
* *
67590264 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATACT
67590329 ATTTTTTAAAATATAT
131 ATTTTTTAAAATATAT
*
67590345 TATTTTGGTATTTTATTT
1 TATTTTCGTATTTTATTT
67590363 TAGCATAAAA
Statistics
Matches: 785, Mismatches: 78, Indels: 106
0.81 0.08 0.11
Matches are distributed among these distances:
140 17 0.02
141 20 0.03
142 24 0.03
143 27 0.03
144 34 0.04
145 78 0.10
146 122 0.16
147 68 0.09
148 4 0.01
149 9 0.01
150 8 0.01
151 14 0.02
152 66 0.08
153 86 0.11
154 2 0.00
155 3 0.00
156 111 0.14
157 2 0.00
158 4 0.01
159 45 0.06
160 41 0.05
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (146 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATACT
ATTTTTTAAAATATAT
Found at i:67590067 original size:12 final size:13
Alignment explanation
Indices: 67590035--67590070 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
67590025 TTTTTTAAAA
67590035 TATATTATTTTCT
1 TATATTATTTTCT
*
67590048 TATTTTATTTT-T
1 TATATTATTTTCT
67590060 TATATTATTTT
1 TATATTATTTT
67590071 AGCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:67590270 original size:305 final size:297
Alignment explanation
Indices: 67589301--67590363 Score: 1186
Period size: 305 Copynumber: 3.6 Consensus size: 297
67589291 ATAAGTAAAA
* * * * * * *
67589301 TATTTTCGTATATTATTT-TTTA-AATATTTTAGCA-AAAATGTTTTAAATGTATTATGTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
** *
67589363 TTTTTTATATTAATTTAATAAATAACACTGATTTT-GACACTTT-TTCGTATTTTTTATTTTCGT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTA---TTT-TTTTCGT
* * * * * * *
67589426 ATCTTATTTTTTAAAATATATTACTTTCGTATTATT-TTATTTTAAAACCCTTATTTTAGTACAT
126 ATATTATTTTTTAAAATATATTATTTTCCTATT-TTATT-TTTT-ATA---TTATTTTAGCAAAA
*** * * * *
67589490 AATGTTTTAAATGTATT--ATTTAAGTGTTTTTA-ATATT-T--T--TTTAATAAATAA-CTTGA
185 AAAAATTCAAATGTATTAGATATAA-TGTATTTATATATTATACTAATTTAATAAATAACCCTGA
* * *
67589546 TTTT-AGCACTTTATTTGTA-TTTTTCGTAT-CT-TTTTTT-AAATATAT
249 TTTTGA-CACTTTCTTCGTATTTTTTCGTATATTATTTTTTAAAATATAT
*
67589591 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATTATGTTTTCAAATGTATTATTTAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATG-TTTCAAATGTATTATTTAAGT
*
67589656 GTTTTTTTATATTTTTTTAATAAATAACCATGATTTTAGCACTTTATTCGTA-TTTTTTCGTATA
65 G-TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATA
***
67589720 TTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTC
129 TTATTTTTTAAAATATATTATTTTCCTATTTTA-TTTTTTATATTATTTTAGCAAAAAAAAATTC
* * * *
67589785 AAATGTATTAGGTATATTATGTAAGTTTTTTTTTTATACTAATTTAATAAATAACCCTGATTTTG
193 AAATGTATTA-G-ATATAATGT-A-TTTATATATTATACTAATTTAATAAATAACCCTGATTTTG
*
67589850 ACACTTTCTTCGTATTTTTTCGTATCTTATTTTTTAAAATATAT
254 ACACTTTCTTCGTATTTTTTCGTATATTATTTTTTAAAATATAT
* * *
67589894 TATTTTCCTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* * *
67589959 TTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATACT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
*
67590024 ATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAAAAATTCAAA
131 ATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAAAAAATTCAAA
* ** * *
67590089 TGTATTA-AT-TAACTGT-TTCTATATATTA-AGGGGTTTTTTACTAAATAACCCTGATTTTGAT
196 TGTATTAGATATAA-TGTATT-TATATATTATA---CTAATTTAATAAATAACCCTGATTTTGAC
67590150 ACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTTAAAATATAT
256 ACTTTCTTCGT-A-----TT-TTTTCGTATATTATTTTTTAAAATATAT
*
67590199 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGCTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
*
67590264 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
**
67590329 ATTTTTTAAAATATATTATTTTGGTATTTTATTTT
131 ATTTTTTAAAATATATTATTTTCCTATTTTATTTT
67590364 AGCATAAAAT
Statistics
Matches: 671, Mismatches: 62, Indels: 65
0.84 0.08 0.08
Matches are distributed among these distances:
287 27 0.04
290 24 0.04
291 49 0.07
292 17 0.03
293 7 0.01
294 20 0.03
295 40 0.06
296 14 0.02
297 2 0.00
298 52 0.08
299 20 0.03
300 11 0.02
301 86 0.13
302 70 0.10
303 48 0.07
304 2 0.00
305 182 0.27
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (297 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
ATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAAAAAATTCAAA
TGTATTAGATATAATGTATTTATATATTATACTAATTTAATAAATAACCCTGATTTTGACACTTT
CTTCGTATTTTTTCGTATATTATTTTTTAAAATATAT
Found at i:67590571 original size:22 final size:23
Alignment explanation
Indices: 67590546--67590599 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
67590536 TTATTTTCGG
67590546 ATTTTAATTTT-TTAATTATACT
1 ATTTTAATTTTATTAATTATACT
** *
67590568 ATTTTCATATTTTATTTTTTATATT
1 ATTTT-A-ATTTTATTAATTATACT
67590593 ATTTTAA
1 ATTTTAA
67590600 CAAAAAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 5 0.19
23 2 0.08
24 6 0.23
25 13 0.50
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTAATTTTATTAATTATACT
Found at i:67590573 original size:30 final size:30
Alignment explanation
Indices: 67590537--67590594 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
67590527 CGTATTTTTT
*
67590537 TATTTTCGGATTTTAATTTTTTA-ATTATAC
1 TATTTTCAGATTTT-ATTTTTTATATTATAC
*
67590567 TATTTTCATATTTTATTTTTTATATTAT
1 TATTTTCAGATTTTATTTTTTATATTAT
67590595 TTTAACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (30 bp):
TATTTTCAGATTTTATTTTTTATATTATAC
Found at i:67591159 original size:3 final size:3
Alignment explanation
Indices: 67591140--67591215 Score: 68
Period size: 3 Copynumber: 25.0 Consensus size: 3
67591130 TCCGCCTCTC
*
67591140 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTTT CTTT CTT C-T CTT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT C-TT C-TT CTT CTT CTT CTT
* *
67591186 -TC CTT CTT CTCT CTT TTT CTT CTT CTT CTT
1 CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT
67591216 TACCAAAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 5 0.08
3 43 0.70
4 13 0.21
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:67591161 original size:16 final size:16
Alignment explanation
Indices: 67591140--67591216 Score: 75
Period size: 16 Copynumber: 4.4 Consensus size: 16
67591130 TCCGCCTCTC
67591140 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
67591156 CTTCTTCTCTTCTTTCTTT
1 CTTCTT-T-TTCTTTC-TT
*
67591175 CTTCTCTTCTTTCCTTCTT
1 C-T-TCTT-TTTCTTTCTT
67591194 CTCTCTTTTTC-TTCTT
1 CT-TCTTTTTCTTTCTT
67591210 CTTCTTT
1 CTTCTTT
67591217 ACCAAAATGA
Statistics
Matches: 55, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
15 5 0.09
16 13 0.24
17 5 0.09
18 13 0.24
19 6 0.11
20 7 0.13
21 6 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
CTTCTTTTTCTTTCTT
Found at i:67591165 original size:27 final size:27
Alignment explanation
Indices: 67591135--67591215 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 27
67591125 CCTTCTCCGC
67591135 CTCTCCTTCTTTTTCTTTCTTCTTCTT
1 CTCTCCTTCTTTTTCTTTCTTCTTCTT
* *
67591162 CTCTTCTTTCTTTCTTCTCTTCTT-TCCTT
1 CTC-TCCTTCTTT-TTCT-TTCTTCTTCTT
67591191 CT-T-CTCTCTTTTTC-TTCTTCTTCTT
1 CTCTCCT-TCTTTTTCTTTCTTCTTCTT
67591216 TACCAAAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
24 5 0.11
25 4 0.09
26 4 0.09
27 9 0.20
28 8 0.18
29 10 0.22
30 5 0.11
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (27 bp):
CTCTCCTTCTTTTTCTTTCTTCTTCTT
Found at i:67591168 original size:8 final size:8
Alignment explanation
Indices: 67591155--67591215 Score: 60
Period size: 8 Copynumber: 7.9 Consensus size: 8
67591145 TTTTCTTTCT
67591155 TCTTCTTC
1 TCTTCTTC
67591163 TCTTCTT-
1 TCTTCTTC
67591170 TCTTTCTTC
1 TC-TTCTTC
67591179 TCTTCTT-
1 TCTTCTTC
67591186 TCCTTCTTC
1 T-CTTCTTC
67591195 TC-TCTT-
1 TCTTCTTC
67591201 T-TTCTTC
1 TCTTCTTC
67591208 TTCTTCTT
1 -TCTTCTT
67591216 TACCAAAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
6 5 0.11
7 7 0.16
8 25 0.56
9 8 0.18
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (8 bp):
TCTTCTTC
Found at i:67594530 original size:11 final size:11
Alignment explanation
Indices: 67594516--67594545 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
67594506 GTGAAATTTA
67594516 AAATAAATGGG
1 AAATAAATGGG
67594527 AAATAAATGGG
1 AAATAAATGGG
67594538 AAATAAAT
1 AAATAAAT
67594546 AGACTTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (11 bp):
AAATAAATGGG
Found at i:67595670 original size:18 final size:18
Alignment explanation
Indices: 67595644--67595695 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
67595634 AAAATGTGAG
* *
67595644 AAATCATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
67595662 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
67595680 AAATGATGTTCACATT
1 AAATGATGTTCACATT
67595696 GATGGAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:67596903 original size:13 final size:13
Alignment explanation
Indices: 67596885--67596910 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67596875 CTGTGAATTC
67596885 TTAGTTTAGATAA
1 TTAGTTTAGATAA
67596898 TTAGTTTAGATAA
1 TTAGTTTAGATAA
67596911 AACAAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTAGTTTAGATAA
Found at i:67597526 original size:72 final size:72
Alignment explanation
Indices: 67597402--67597598 Score: 267
Period size: 72 Copynumber: 2.8 Consensus size: 72
67597392 AACAACAATG
* * * *
67597402 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATATTTTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTATATTCTACTT
67597466 ATTTAT-
66 ATTTATA
* * *
67597472 GTGTAATCTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTATATTCTACT
67597537 TATTTATA
65 TATTTATA
* * *
67597545 CTAAAT-TAGTTTTATCAATAGTTGTTTATATATGA-TTTTGGATATAAAATTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTAT
67597599 TCACAGGTGA
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
70 19 0.17
71 29 0.26
72 63 0.56
73 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTATATTCTACTT
ATTTATA
Found at i:67599653 original size:13 final size:13
Alignment explanation
Indices: 67599637--67599713 Score: 93
Period size: 13 Copynumber: 5.9 Consensus size: 13
67599627 TTTAAATTAA
67599637 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
67599650 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
67599663 ACTTTTCCAAAGC
1 ACTTTTCAAAAGC
*
67599676 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
*
67599689 ACTTTCCAAAAGC
1 ACTTTTCAAAAGC
*
67599702 ACTTTTTAAAAG
1 ACTTTTCAAAAG
67599714 TATTGTCAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
12 4 0.08
13 46 0.87
14 3 0.06
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Done.