Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008647.1 Hibiscus syriacus cultivar Beakdansim tig00111634_pilon, whole genome shotgun sequence
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: 1422586
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:916585 original size:10 final size:10
Alignment explanation
Indices: 916570--916596 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
916560 TCTTTTATAC
916570 TCATATAATT
1 TCATATAATT
916580 TCATATAATT
1 TCATATAATT
916590 TCATATA
1 TCATATA
916597 TATTCTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (10 bp):
TCATATAATT
Found at i:916992 original size:21 final size:21
Alignment explanation
Indices: 916950--916992 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
916940 TTTTAAGGCA
*
916950 ATTATTAGATACCTACACCTT
1 ATTATTAGATACCTACAACTT
*
916971 ATTATTCGATA-CTATCAACTT
1 ATTATTAGATACCTA-CAACTT
916992 A
1 A
916993 AATGAACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTATTAGATACCTACAACTT
Found at i:919931 original size:16 final size:18
Alignment explanation
Indices: 919900--919932 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
919890 GTAATCATGA
919900 TAAACTATAGAATGCATC
1 TAAACTATAGAATGCATC
919918 TAAAC-ATA-AATGCAT
1 TAAACTATAGAATGCAT
919933 ATATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.27
Consensus pattern (18 bp):
TAAACTATAGAATGCATC
Found at i:921387 original size:2 final size:2
Alignment explanation
Indices: 921380--921428 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
921370 TTATGTAAAC
921380 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
921422 AT AT AT A
1 AT AT AT A
921429 CTTAGATCAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:923400 original size:25 final size:24
Alignment explanation
Indices: 923371--923483 Score: 80
Period size: 25 Copynumber: 4.8 Consensus size: 24
923361 TTTTCAAAAG
923371 TTAAAAAAGTTTGATGAAGAAGTTT
1 TTAAAAAAGTTTGATGAAGAA-TTT
*
923396 TTAAAAATGCTTT-ATGAAAGAA-TT
1 TTAAAAAAG-TTTGATG-AAGAATTT
*
923420 TTAAATAA---TGA--AAGAATTT
1 TTAAAAAAGTTTGATGAAGAATTT
*
923439 TTGAAAAATGTTTGATGAAAGAATTT
1 TT-AAAAAAGTTTGATG-AAGAATTT
*
923465 TGAAAAATA-TTTGATGAAG
1 TTAAAAA-AGTTTGATGAAG
923484 TTCTGAAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 25
0.68 0.07 0.25
Matches are distributed among these distances:
18 5 0.07
19 4 0.06
20 5 0.07
21 1 0.01
23 3 0.04
24 11 0.16
25 23 0.33
26 17 0.25
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.36
Consensus pattern (24 bp):
TTAAAAAAGTTTGATGAAGAATTT
Found at i:923463 original size:26 final size:25
Alignment explanation
Indices: 923427--923482 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
923417 ATTTTAAATA
*
923427 ATGAAAGAATTTTTGAAAAATGTTTG
1 ATGAAAGAA-TTTTGAAAAATATTTG
923453 ATGAAAGAATTTTGAAAAATATTTG
1 ATGAAAGAATTTTGAAAAATATTTG
923478 ATGAA
1 ATGAA
923483 GTTCTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (25 bp):
ATGAAAGAATTTTGAAAAATATTTG
Found at i:923466 original size:14 final size:14
Alignment explanation
Indices: 923427--923467 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
923417 ATTTTAAATA
923427 ATGAAAGAATTTT-
1 ATGAAAGAATTTTG
923440 -TGAAA-AATGTTTG
1 ATGAAAGAAT-TTTG
923453 ATGAAAGAATTTTG
1 ATGAAAGAATTTTG
923467 A
1 A
923468 AAAATATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.12
12 8 0.33
14 10 0.42
15 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.37
Consensus pattern (14 bp):
ATGAAAGAATTTTG
Found at i:924414 original size:213 final size:213
Alignment explanation
Indices: 924047--924433 Score: 537
Period size: 213 Copynumber: 1.8 Consensus size: 213
924037 TAGTTAAAGT
* * * *
924047 GTTCATCTCATCACAATGTCTTTGACTTGACAACCACATTGGAGCAAACACCGGATTGTCAGGTA
1 GTTCATCTCATCACAAAGACTTTGACTTGACAACCACATTGAAGCAAACACCGAATTGTCAGGTA
* * * *
924112 TCCGATCGATGCCATGGTTTGAAAGTAACCTATTCATAAAGCCAGGGTTTTTTAGTTAACTCTAT
66 TCCGATCAATGCCATGGTTTGAAAGTAACCTATTCATAAAGCCAAGGCTTTTGAGTTAACTCTAT
* **
924177 AACCAATTGCTTTTGCGAAATAGCTCAACTTTATTGTATATATACATATAGTTTTTCTTTGCCTT
131 AACCAATTGCTTTAGCGAAATAGCTCAACTTTATTACATATATACATATAGTTTTTCTTTGCCTT
924242 CATTTGGCTATCTGAAGG
196 CATTTGGCTATCTGAAGG
* **
924260 GTTCATCTCATCACAAAGACTTTGACTTGACAACTACAGTT-AAGCAAACATTGAATT-TCTAGG
1 GTTCATCTCATCACAAAGACTTTGACTTGACAACCACA-TTGAAGCAAACACCGAATTGTC-AGG
* * * * *
924323 TATCCGATCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCTAAGGCTTTTGAGTTACCTCT
64 TATCCGATCAATGCCATGGTTTGAAAGTAACCTATTCATAAAGCCAAGGCTTTTGAGTTAACTCT
* *
924388 ATAATCAATTTG-TTTAGCGGAATAGCTCAACTTTATTACATATATA
129 ATAACCAA-TTGCTTTAGCGAAATAGCTCAACTTTATTACATATATA
924434 TAAATTATAT
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
212 2 0.01
213 143 0.95
214 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (213 bp):
GTTCATCTCATCACAAAGACTTTGACTTGACAACCACATTGAAGCAAACACCGAATTGTCAGGTA
TCCGATCAATGCCATGGTTTGAAAGTAACCTATTCATAAAGCCAAGGCTTTTGAGTTAACTCTAT
AACCAATTGCTTTAGCGAAATAGCTCAACTTTATTACATATATACATATAGTTTTTCTTTGCCTT
CATTTGGCTATCTGAAGG
Found at i:926555 original size:16 final size:17
Alignment explanation
Indices: 926524--926557 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
926514 ATGCTTATAT
*
926524 AAATGTAATGGATGCAA
1 AAATGCAATGGATGCAA
926541 AAATGCAAT-GATGCAA
1 AAATGCAATGGATGCAA
926557 A
1 A
926558 TGCGAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.21
Consensus pattern (17 bp):
AAATGCAATGGATGCAA
Found at i:931433 original size:2 final size:2
Alignment explanation
Indices: 931426--931455 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
931416 TTATTTTTAA
931426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
931456 CTATTGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:938062 original size:19 final size:18
Alignment explanation
Indices: 938022--938069 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
938012 AACGATTCTC
938022 TTTTGAAAGAAAAAATTGA
1 TTTTGAAA-AAAAAATTGA
938041 TTTTGAAAAAAAAA-TGAAA
1 TTTTGAAAAAAAAATTG--A
938060 TTTTGAAAAA
1 TTTTGAAAAA
938070 TGATTTAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.07
18 6 0.22
19 19 0.70
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (18 bp):
TTTTGAAAAAAAAATTGA
Found at i:950763 original size:20 final size:20
Alignment explanation
Indices: 950738--950786 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
950728 GCTTTTGTGT
950738 GACACTCGATGAACAACAAG
1 GACACTCGATGAACAACAAG
*
950758 GACACTTGATGAACAACAAG
1 GACACTCGATGAACAACAAG
950778 GACACTCGA
1 GACACTCGA
950787 GTTACTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.12
Consensus pattern (20 bp):
GACACTCGATGAACAACAAG
Found at i:957618 original size:35 final size:35
Alignment explanation
Indices: 957579--957653 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
957569 TTGTTTCTCT
957579 AAAATAGGAGGGAAAGGTATTTCTAATTCCAAATC
1 AAAATAGGAGGGAAAGGTATTTCTAATTCCAAATC
957614 AAAATAGGAGGGAAAGGTATTTCTAATTCCAAATC
1 AAAATAGGAGGGAAAGGTATTTCTAATTCCAAATC
957649 AAAAT
1 AAAAT
957654 CTGCTTTTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (35 bp):
AAAATAGGAGGGAAAGGTATTTCTAATTCCAAATC
Found at i:959094 original size:5 final size:5
Alignment explanation
Indices: 959064--959093 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
959054 TCTTTATCAT
*
959064 ATATA ATATA ATATA ATATA ATATA TTATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
959094 TGGATAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:961100 original size:26 final size:26
Alignment explanation
Indices: 961071--961124 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
961061 ACTTAGTGCA
* *
961071 TATGGTGGGCACGACCTTATGTTTAT
1 TATGGTGGACACGACCTTATGTGTAT
*
961097 TATGTTGGACACGACCTTATGTGTAT
1 TATGGTGGACACGACCTTATGTGTAT
961123 TA
1 TA
961125 GTAATTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (26 bp):
TATGGTGGACACGACCTTATGTGTAT
Found at i:966682 original size:15 final size:15
Alignment explanation
Indices: 966659--966701 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
966649 TTTCGCACCT
*
966659 CTGAATGATTCAGTG
1 CTGACTGATTCAGTG
*
966674 CTGACTGATTTAGTG
1 CTGACTGATTCAGTG
966689 CTGACTGATTCAG
1 CTGACTGATTCAG
966702 CAAAGAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (15 bp):
CTGACTGATTCAGTG
Found at i:969117 original size:58 final size:58
Alignment explanation
Indices: 969043--969240 Score: 264
Period size: 58 Copynumber: 3.5 Consensus size: 58
969033 CTTGCGTTGT
*
969043 TTCTAATTTTGTAAGGAAAATAAATATTTGAATTTATTTTCTTGAGAATCTTAAATGA
1 TTCTAACTTTGTAAGGAAAATAAATATTTGAATTTATTTTCTTGAGAATCTTAAATGA
* *
969101 TTCTAACTTTGTAAGGAAAAT--A-A-TTAAATTTATTTTCTTGAGAATCATAAATGA
1 TTCTAACTTTGTAAGGAAAATAAATATTTGAATTTATTTTCTTGAGAATCTTAAATGA
* * * *
969155 -TCTAACTTTGTAATGAAAATAAAAATTTGAATATATTTTCTTGAGAATCTTGAATGA
1 TTCTAACTTTGTAAGGAAAATAAATATTTGAATTTATTTTCTTGAGAATCTTAAATGA
* *
969212 TTTTAACTTCGTAAGGAAAA-AAATTATTT
1 TTCTAACTTTGTAAGGAAAATAAA-TATTT
969241 TCTTCAGAAT
Statistics
Matches: 122, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
53 19 0.16
54 29 0.24
55 2 0.02
56 2 0.02
57 30 0.25
58 40 0.33
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (58 bp):
TTCTAACTTTGTAAGGAAAATAAATATTTGAATTTATTTTCTTGAGAATCTTAAATGA
Found at i:969183 original size:111 final size:105
Alignment explanation
Indices: 969044--969260 Score: 308
Period size: 111 Copynumber: 2.0 Consensus size: 105
969034 TTGCGTTGTT
* * *
969044 TCTAATTTTGTAAGGAAAATAAATATTTGAATTTATTTTCTTGAGAATCTTAAATGATTCTAACT
1 TCTAACTTTGTAAGGAAAATAAAAATTTGAATATATTTTCTTGAGAATCTTAAATGATTCTAACT
* *
969109 TTGTAAGGAAAATAATTAAATTTATTTTCTTGAGAATCATAAATGA
66 TCGTAAGG--AA-AA--AAA-TTATTTTCTTCAGAATCATAAATGA
* * *
969155 TCTAACTTTGTAATGAAAATAAAAATTTGAATATATTTTCTTGAGAATCTTGAATGATTTTAACT
1 TCTAACTTTGTAAGGAAAATAAAAATTTGAATATATTTTCTTGAGAATCTTAAATGATTCTAACT
969220 TCGTAAGGAAAAAAATTATTTTCTTCAGAATCATAAATGA
66 TCGTAAGGAAAAAAATTATTTTCTTCAGAATCATAAATGA
969260 T
1 T
969261 TATTTTTTGT
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
105 25 0.26
106 3 0.03
108 2 0.02
109 2 0.02
111 66 0.67
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (105 bp):
TCTAACTTTGTAAGGAAAATAAAAATTTGAATATATTTTCTTGAGAATCTTAAATGATTCTAACT
TCGTAAGGAAAAAAATTATTTTCTTCAGAATCATAAATGA
Found at i:969416 original size:39 final size:40
Alignment explanation
Indices: 969357--969440 Score: 116
Period size: 39 Copynumber: 2.1 Consensus size: 40
969347 TCTTTATTGA
* * *
969357 TTCTATCTTTATAAAAGGAAATAAGTGGTTGGATTTATTT
1 TTCTATCTTTATAAAAGGAAATAAATCGTTGAATTTATTT
* *
969397 TTCTAT-TTTGTAAGAGGAAATAAATCGTTGAATTTATTT
1 TTCTATCTTTATAAAAGGAAATAAATCGTTGAATTTATTT
969436 TTCTA
1 TTCTA
969441 AGAATCTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 33 0.85
40 6 0.15
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.46
Consensus pattern (40 bp):
TTCTATCTTTATAAAAGGAAATAAATCGTTGAATTTATTT
Found at i:969456 original size:98 final size:98
Alignment explanation
Indices: 969317--969533 Score: 248
Period size: 97 Copynumber: 2.2 Consensus size: 98
969307 TTGAATAAAT
* * * *
969317 AAATAAATTGTTGAA-TTA-TTTTCTTATGAATCTTTATTGATTCT-ATCTTTATAAAAGGAAAT
1 AAATAAATCGTTGAATTTATTTTTCTTAAGAATCTTTATTGATTCTGA--TATATAAAAGAAAAT
* ** * * *
969379 AAGTGGT-TGGATTTATTTTTCTATTTTGTAAGAGG
64 AAATCATAT-AATTTATTTTCCTATTTTGTAAAAGG
969414 AAATAAATCGTTGAATTTATTTTTC-TAAGAATC-TTATATGATTCTGATATATAAAAGAAAATA
1 AAATAAATCGTTGAATTTATTTTTCTTAAGAATCTTTAT-TGATTCTGATATATAAAAGAAAATA
*
969477 AATCATATAATTTATTTTCCTTTTTTGTAAAAGG
65 AATCATATAATTTATTTTCCTATTTTGTAAAAGG
*
969511 AAATAAATCGTTGGATTTATTTT
1 AAATAAATCGTTGAATTTATTTT
969534 CCTATTTTGT
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
97 79 0.77
98 18 0.17
99 6 0.06
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (98 bp):
AAATAAATCGTTGAATTTATTTTTCTTAAGAATCTTTATTGATTCTGATATATAAAAGAAAATAA
ATCATATAATTTATTTTCCTATTTTGTAAAAGG
Found at i:969519 original size:39 final size:39
Alignment explanation
Indices: 969465--969596 Score: 185
Period size: 39 Copynumber: 3.4 Consensus size: 39
969455 TTCTGATATA
* * *
969465 TAAAAGAAAATAAATCATAT-AATTTATTTTCCTTTTTTG
1 TAAAAGGAAATAAATCAT-TGGATTTATTTTCCTATTTTG
*
969504 TAAAAGGAAATAAATCGTTGGATTTATTTTCCTATTTTG
1 TAAAAGGAAATAAATCATTGGATTTATTTTCCTATTTTG
* *
969543 TAGAATGAAATAAATCATTGGATTTATTTTCCTATTTTG
1 TAAAAGGAAATAAATCATTGGATTTATTTTCCTATTTTG
*
969582 TAGAAGGAAATAAAT
1 TAAAAGGAAATAAAT
969597 TGTTAGATTG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 83 0.99
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (39 bp):
TAAAAGGAAATAAATCATTGGATTTATTTTCCTATTTTG
Found at i:973054 original size:21 final size:20
Alignment explanation
Indices: 973002--973059 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 20
972992 GGGTATTTTG
973002 ACAAGAAGTTTCGAAACTTC
1 ACAAGAAGTTTCGAAACTTC
973022 TACAAG-AGTTTCGAAACTATC
1 -ACAAGAAGTTTCGAAACT-TC
973043 -CAAGATAGTTTCCGAAA
1 ACAAGA-AGTTT-CGAAA
973060 ATTTTTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
19 4 0.12
20 12 0.36
21 12 0.36
22 5 0.15
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (20 bp):
ACAAGAAGTTTCGAAACTTC
Found at i:973192 original size:19 final size:20
Alignment explanation
Indices: 973165--973205 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
973155 CCAACGATTC
973165 TTTCAAAGAGTTTCGAAACT
1 TTTCAAAGAGTTTCGAAACT
973185 TTTC-AAGAGTTTCGAAACT
1 TTTCAAAGAGTTTCGAAACT
973204 TT
1 TT
973206 GTGTATAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
TTTCAAAGAGTTTCGAAACT
Found at i:976183 original size:45 final size:46
Alignment explanation
Indices: 976117--976223 Score: 164
Period size: 45 Copynumber: 2.3 Consensus size: 46
976107 GGTGCACTAA
*
976117 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAGCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAA-ACCCT
* *
976162 GAGTGCATCGATGCATCAAATGTATTCGATGTTTTCATAAAACCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCT
976208 GAGTGCATCGATGCAT
1 GAGTGCATCGATGCAT
976224 GGTATGTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
45 29 0.51
46 25 0.44
47 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (46 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCT
Found at i:977136 original size:42 final size:42
Alignment explanation
Indices: 977089--977174 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
977079 TAAAACAGGA
977089 TCCTATAAGACTACTAGGTAGAGGAGGAACAGGATTAGGAGG
1 TCCTATAAGACTACTAGGTAGAGGAGGAACAGGATTAGGAGG
*
977131 TCCTATAAGACTACTAGGTAGAGGAGGAATAGGATTAGGAGG
1 TCCTATAAGACTACTAGGTAGAGGAGGAACAGGATTAGGAGG
977173 TC
1 TC
977175 GGGTTGAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.21
Consensus pattern (42 bp):
TCCTATAAGACTACTAGGTAGAGGAGGAACAGGATTAGGAGG
Found at i:977877 original size:20 final size:20
Alignment explanation
Indices: 977852--977891 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
977842 CCCGACGGAT
*
977852 GCATCGGTGCATGTCCTTGC
1 GCATCGATGCATGTCCTTGC
977872 GCATCGATGCATGTCCTTGC
1 GCATCGATGCATGTCCTTGC
977892 ACAACAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.30, G:0.28, T:0.30
Consensus pattern (20 bp):
GCATCGATGCATGTCCTTGC
Found at i:977901 original size:20 final size:20
Alignment explanation
Indices: 977859--977902 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
977849 GATGCATCGG
* * *
977859 TGCATGTCCTTGCGCATCGA
1 TGCATGTCCTTGCACAACAA
977879 TGCATGTCCTTGCACAACAA
1 TGCATGTCCTTGCACAACAA
977899 TGCA
1 TGCA
977903 CATTCAAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (20 bp):
TGCATGTCCTTGCACAACAA
Found at i:983902 original size:65 final size:64
Alignment explanation
Indices: 983769--983993 Score: 337
Period size: 65 Copynumber: 3.5 Consensus size: 64
983759 TGCACTAAGA
* * *
983769 GTGCATCAATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAA-ACCCTGAGTGCATCGATGCATGGCTG
*
983833 GTGCATCGATGCATCAAATGCATTCGATGTTTTCACAAAACCCTAAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAAACCCTGAGTGCATCGATGCATGGCTG
983898 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCGATGCATGG-TA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAAACCCTGAGTGCATCGATGCATGGCT-
*
983962 T
64 G
* *
983963 GTGCATCGATGCATGAAATACATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
983994 CAATTTAATG
Statistics
Matches: 149, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
64 28 0.19
65 118 0.79
66 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAACCCTGAGTGCATCGATGCATGGCTG
Found at i:984681 original size:20 final size:20
Alignment explanation
Indices: 984634--984683 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
984624 TGATACTTTT
*
984634 CAAGAGTTTCGAAACTATCT
1 CAAGAGTTTCGAAACTATCC
*
984654 CAAGAGTTTCGAAACTTTCC
1 CAAGAGTTTCGAAACTATCC
984674 CTAA-AGTTTC
1 C-AAGAGTTTC
984684 AATACTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (20 bp):
CAAGAGTTTCGAAACTATCC
Found at i:985477 original size:23 final size:23
Alignment explanation
Indices: 985426--985468 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
985416 ATCGAAAAAG
985426 AAGAT-AA-AAAAATATGTTACA
1 AAGATAAACAAAAATATGTTACA
985447 AAGATAAACAAAAATATGTTAC
1 AAGATAAACAAAAATATGTTAC
985469 GAATGTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 2 0.10
23 13 0.65
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.23
Consensus pattern (23 bp):
AAGATAAACAAAAATATGTTACA
Found at i:986136 original size:2 final size:2
Alignment explanation
Indices: 986129--986194 Score: 80
Period size: 2 Copynumber: 33.0 Consensus size: 2
986119 TTTACTTTGT
*
986129 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
986171 CTT TT TT TA TA TA T- TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA
986195 GTAAATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.97
3 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:986203 original size:28 final size:29
Alignment explanation
Indices: 986149--986205 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
986139 TATATATATA
* * *
986149 TATATATATATATATATATTTACTTTTTT
1 TATATATATATATATATAGTAAATTTTTT
986178 TATATAT-TATATATATAGTAAATTTTTT
1 TATATATATATATATATAGTAAATTTTTT
986206 ACTTCGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TATATATATATATATATAGTAAATTTTTT
Found at i:986887 original size:2 final size:2
Alignment explanation
Indices: 986880--986919 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
986870 TTTACTTTGT
986880 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
986920 GGCTGATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:986979 original size:2 final size:2
Alignment explanation
Indices: 986974--986999 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
986964 TTTACTTCGT
986974 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
987000 AAAGCCCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:987426 original size:36 final size:37
Alignment explanation
Indices: 987329--987427 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 37
987319 TTTTTTGCAC
*
987329 TTTTTACTTTGTTATATATATA-AAATATAGGCTGAT
1 TTTTTACTTTGTTATATATATATAAATATAGGCTAAT
* *
987365 ATTTTACTTTGTTTTATATATTATATATATATA-G-TAAAT
1 TTTTTACTTTG--TTATATA-TATATAAATATAGGCT-AAT
*
987404 TTTTTACTTCGTTATATATATATA
1 TTTTTACTTTGTTATATATATATA
987428 GATAAAAGCC
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
36 16 0.30
37 7 0.13
38 8 0.15
39 16 0.30
40 6 0.11
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (37 bp):
TTTTTACTTTGTTATATATATATAAATATAGGCTAAT
Found at i:987879 original size:18 final size:19
Alignment explanation
Indices: 987840--987880 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
987830 AGTTCATTGC
987840 TTTTAATTTATTCTTTAAAT
1 TTTTAATTTATTCTTT-AAT
987860 TTTTAATATTATT-TTT-AT
1 TTTTAAT-TTATTCTTTAAT
987878 TTT
1 TTT
987881 ATCATTCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.25
20 10 0.50
21 5 0.25
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAATTTATTCTTTAAT
Found at i:987991 original size:18 final size:18
Alignment explanation
Indices: 987968--988022 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
987958 AGAAAACATT
987968 TTTTCTTCATTTTCTTTC
1 TTTTCTTCATTTTCTTTC
*
987986 TTTTCTTCA-CTTCTTT-
1 TTTTCTTCATTTTCTTTC
988002 TTATTCCTTTCATTTTCTTTC
1 TT-TT-C-TTCATTTTCTTTC
988023 AATTGACCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 2 0.07
17 8 0.27
18 10 0.33
19 4 0.13
20 6 0.20
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTCTTCATTTTCTTTC
Found at i:999365 original size:11 final size:11
Alignment explanation
Indices: 999349--999380 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
999339 ATTGCATGGA
999349 ATTTAGTTTAT
1 ATTTAGTTTAT
999360 ATTTAGTTTAT
1 ATTTAGTTTAT
*
999371 ATTAAGTTTA
1 ATTTAGTTTA
999381 GTTCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (11 bp):
ATTTAGTTTAT
Found at i:1002457 original size:13 final size:14
Alignment explanation
Indices: 1002433--1002465 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1002423 AATTCAAAGG
1002433 GAAAATAAAAATAA
1 GAAAATAAAAATAA
1002447 GAAAA-AAAAATAA
1 GAAAATAAAAATAA
1002460 -AAAATA
1 GAAAATA
1002466 TTAATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 9 0.50
14 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (14 bp):
GAAAATAAAAATAA
Found at i:1002633 original size:18 final size:17
Alignment explanation
Indices: 1002610--1002657 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
1002600 CAAAAGAATG
1002610 ATAAATAAAAATAAATAA
1 ATAAATAAAAA-AAATAA
*
1002628 ATAAATAGAAAAAAT-A
1 ATAAATAAAAAAAATAA
1002644 ATAATATAATAAAA
1 ATAA-ATAA-AAAA
1002658 TATGCATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 14 0.54
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
ATAAATAAAAAAAATAA
Found at i:1003777 original size:20 final size:19
Alignment explanation
Indices: 1003724--1003780 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
1003714 TGGACCTGGA
1003724 AAAAATAAAAAAATAAAAAG
1 AAAAAT-AAAAAATAAAAAG
*
1003744 AAATTAAT-AAAAATAAAATG
1 AAA--AATAAAAAATAAAAAG
1003764 AAAAATAAATAAATAAA
1 AAAAATAAA-AAATAAA
1003781 TAATAACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 24 0.75
22 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (19 bp):
AAAAATAAAAAATAAAAAG
Found at i:1004041 original size:35 final size:35
Alignment explanation
Indices: 1003801--1004104 Score: 218
Period size: 36 Copynumber: 8.7 Consensus size: 35
1003791 AATATAATAT
* * *
1003801 AAACTATATAATATATAT-TTCT-AAAATATTTT-T
1 AAACTATATATTATATATGTTTTCAAAAT-TTTTCA
* *
1003834 AAACTATATA-T-TATAT-TTTTAAAAAGTTTTCA
1 AAACTATATATTATATATGTTTTCAAAATTTTTCA
1003866 AAACTATATATTATATA-GTTTTCAAAATTAATTT--
1 AAACTATATATTATATATGTTTTCAAAATT--TTTCA
* *
1003900 AAA--A-ATATTATATAAGTTTTCAAAAAATTGTTTTAA
1 AAACTATATATTATATATGTTTTC--AAAA-T-TTTTCA
* *
1003936 AAACTATATATTATATATATTTTTTCAAAATGATTTCA
1 AAACTATATA-T-TATATATGTTTTCAAAAT-TTTTCA
* * *
1003974 AAACTATATATTATATATATTTTAAAAGAATTTTCAA
1 AAACTATATATTATATATGTTTTCAAA-ATTTTTC-A
*
1004011 AAACTATACATTATATATGTTTTCAAAATTTTTCA
1 AAACTATATATTATATATGTTTTCAAAATTTTTCA
* * ** **
1004046 AAACTATATAATATATATATTTTTGAAATGTTTTTG
1 AAACTATATATTATATATGTTTTCAAAAT-TTTTCA
* *
1004082 AAACTATATAGTATATATATTTT
1 AAACTATATATTATATATGTTTT
1004105 AGAAAACCGT
Statistics
Matches: 224, Mismatches: 25, Indels: 41
0.77 0.09 0.14
Matches are distributed among these distances:
31 22 0.10
32 22 0.10
33 11 0.05
34 23 0.10
35 26 0.12
36 57 0.25
37 27 0.12
38 17 0.08
39 7 0.03
40 1 0.00
41 11 0.05
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (35 bp):
AAACTATATATTATATATGTTTTCAAAATTTTTCA
Found at i:1004054 original size:72 final size:71
Alignment explanation
Indices: 1003801--1004068 Score: 265
Period size: 72 Copynumber: 3.8 Consensus size: 71
1003791 AATATAATAT
* * * *
1003801 AAACTATATAATATATAT-TTCT-AAAATATTTTTAAACTATATA-T-TATAT-TTTTAAAAAGT
1 AAACTATATATTATATATGTTTTCAAAATATTTTAAAACTATATATTATATATATTTTAAAAAAT
1003861 TTTC-A
66 TTTCAA
*
1003866 AAACTATATATTATATA-GTTTTCAAAATTAATTT-AAA--A-ATATTATATA-AGTTTTCAAAA
1 AAACTATATATTATATATGTTTTCAAAA-TATTTTAAAACTATATATTATATATA-TTTT-AAAA
*
1003925 AATTGTTTTAA
63 AA-T-TTTCAA
* *
1003936 AAACTATATATTATATATATTTTTTCAAAATGATTTCAAAACTATATATTATATATATTTTAAAA
1 AAACTATATA-T-TATATATGTTTTCAAAAT-ATTTTAAAACTATATATTATATATATTTTAAAA
1004001 GAATTTTCAA
63 -AATTTTCAA
* *
1004011 AAACTATACATTATATATGTTTTCAAAAT-TTTTCAAAACTATATAATATATATATTTT
1 AAACTATATATTATATATGTTTTCAAAATATTTT-AAAACTATATATTATATATATTTT
1004069 TGAAATGTTT
Statistics
Matches: 168, Mismatches: 13, Indels: 37
0.77 0.06 0.17
Matches are distributed among these distances:
63 3 0.02
64 2 0.01
65 23 0.14
66 11 0.07
67 10 0.06
68 1 0.01
69 3 0.02
70 11 0.07
71 4 0.02
72 30 0.18
73 29 0.17
74 4 0.02
75 14 0.08
76 6 0.04
77 16 0.10
78 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (71 bp):
AAACTATATATTATATATGTTTTCAAAATATTTTAAAACTATATATTATATATATTTTAAAAAAT
TTTCAA
Found at i:1004054 original size:108 final size:104
Alignment explanation
Indices: 1003801--1004105 Score: 272
Period size: 108 Copynumber: 2.9 Consensus size: 104
1003791 AATATAATAT
* * * *
1003801 AAACTAT-ATAATATAT-ATTTCTAAAATATTTTTAAACTATA-TAT-TATA-TTTTTAAAAAGT
1 AAACTATAATTATATATGTTTTC-AAAATATTTTAAAACTATATTATATATATTTTTTAAAATGT
* *
1003861 TTTCAAAACTATATATTATATAGT-TTTCAAAATTAATTTA
65 TTTCAAAACTATATATTATATA-TATTTTAAAATGAATTTA
* *
1003901 AAA--AT-ATTATATAAGTTTTCAAAAAATTGTTTTAAAAACTATATATTATATATATTTTTTCA
1 AAACTATAATTATATATGTTTTC--AAAA-TATTTT-AAAAC--TATATTATATATATTTTTT-A
*
1003963 AAATGATTTCAAAACTATATATTATATATATTTTAAAA-GAATTTTCAA
59 AAATGTTTTCAAAACTATATATTATATATATTTTAAAATGAA-TTT--A
* *
1004011 AAACTATACATTATATATGTTTTCAAAAT-TTTTCAAAACTATATAATATATATATTTTTGAAAT
1 AAACTATA-ATTATATATGTTTTCAAAATATTTT-AAAACTATATTATATATAT-TTTTTAAAAT
** *
1004075 GTTTTTGAAACTATATAGTATATATATTTTA
63 GTTTTCAAAACTATATATTATATATATTTTA
1004106 GAAAACCGTT
Statistics
Matches: 168, Mismatches: 18, Indels: 30
0.78 0.08 0.14
Matches are distributed among these distances:
98 9 0.05
99 4 0.02
100 7 0.04
101 5 0.03
102 4 0.02
104 4 0.02
105 3 0.02
106 4 0.02
107 8 0.05
108 81 0.48
109 5 0.03
110 13 0.08
111 1 0.01
112 6 0.04
114 14 0.08
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (104 bp):
AAACTATAATTATATATGTTTTCAAAATATTTTAAAACTATATTATATATATTTTTTAAAATGTT
TTCAAAACTATATATTATATATATTTTAAAATGAATTTA
Found at i:1004117 original size:38 final size:36
Alignment explanation
Indices: 1003974--1004109 Score: 102
Period size: 35 Copynumber: 3.8 Consensus size: 36
1003964 AATGATTTCA
* **
1003974 AAACTATATATTATATATATTTTA-AAA-GAATTTTCAA
1 AAACTATATAATATATATATTTTAGAAACG--TTTT-TG
* * * *
1004011 AAACTATACATTATATATGTTTTCA-AAA--TTTTTCA
1 AAACTATATAATATATATATTTT-AGAAACGTTTTT-G
* *
1004046 AAACTATATAATATATATATTTTTGAAATGTTTTTG
1 AAACTATATAATATATATATTTTAGAAACGTTTTTG
*
1004082 AAACTATATAGTATATATATTTTAGAAA
1 AAACTATATAATATATATATTTTAGAAA
1004110 ACCGTTTTAA
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
35 28 0.33
36 26 0.31
37 26 0.31
38 4 0.05
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (36 bp):
AAACTATATAATATATATATTTTAGAAACGTTTTTG
Found at i:1005114 original size:252 final size:248
Alignment explanation
Indices: 1004756--1005216 Score: 733
Period size: 252 Copynumber: 1.8 Consensus size: 248
1004746 TATTTACCTC
* *
1004756 TGAGCTGAGTGTAATCGAACTCGAAGTTCTTTGGCAGATAACCCTTCTCGCCTTGAGTTATGCTG
1 TGAGCTGAGTGTAATCGAACTCGAAGTTCTTTGGCAAATAACCCTTCTCGCCTTGAGCTATGCTG
* *
1004821 CAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
66 CAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGCCTTTGGTTGGCAGATAACCCTT
* *
1004886 CCAGCCTTAAGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGATCTT
131 CCAGCCTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGATATT
*
1004951 TGGTTGGCAGATAATCCTTCTAGCCTTGAGTTTTGCTGCAAATGATATGCCTT
196 TGGTTGGCAAATAATCCTTCTAGCCTTGAGTTTTGCTGCAAATGATATGCCTT
* *
1005004 TGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTAT
1 TGAGCTGAGTGTAATCGAACTCGAA-G--TTCT-TTGGCAAATAACCCTTCTCGCCTTGAGCTAT
* * *
1005069 GTTGCAAATGATGTGCCTTGGAGCTGAGCTTAGTCGAACTCGAAGGCCTTTGGTTGGCAGATAAC
62 GCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGCCTTTGGTTGGCAGATAAC
* * * *
1005134 CCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
127 CCTTCCAGCCTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGA
*
1005199 TATTTTGTTGGCAAATAA
192 TATTTGGTTGGCAAATAA
1005217 ACATTCTCGA
Statistics
Matches: 192, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
248 25 0.13
249 1 0.01
251 3 0.02
252 163 0.85
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (248 bp):
TGAGCTGAGTGTAATCGAACTCGAAGTTCTTTGGCAAATAACCCTTCTCGCCTTGAGCTATGCTG
CAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGCCTTTGGTTGGCAGATAACCCTT
CCAGCCTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGATATT
TGGTTGGCAAATAATCCTTCTAGCCTTGAGTTTTGCTGCAAATGATATGCCTT
Found at i:1005243 original size:84 final size:84
Alignment explanation
Indices: 1004756--1005247 Score: 652
Period size: 84 Copynumber: 5.9 Consensus size: 84
1004746 TATTTACCTC
* * *
1004756 TGAGCTGAGTGTAATCGAACTCGAA-GT-TCT--TTGGCAGATAACCCTTCTCGCCTTGAGTTAT
1 TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGCCTTGAGTTAT
1004817 GCTGCAAATGATATGCCTT
66 GCTGCAAATGATATGCCTT
*
1004836 TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC-CAGCCTTAAGTTA
1 TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTC-GCCTTGAGTTA
1004900 TGCTGCAAATGATATGCCTT
65 TGCTGCAAATGATATGCCTT
* * * *
1004920 TGAGCTGAGCGTAGTCGAACTCGAAGATCTTTGGTTGGCAGATAATCCTTCTAGCCTTGAGTTTT
1 TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGCCTTGAGTTAT
1004985 GCTGCAAATGATATGCCTT
66 GCTGCAAATGATATGCCTT
* * * * * * *
1005004 TGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTAT
1 TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGCCTTGAGTTAT
* *
1005069 GTTGCAAATGATGTGCCTT
66 GCTGCAAATGATATGCCTT
* * * *
1005088 GGAGCTGAGCTTAGTCGAACTCGAAGGCCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTAT
1 TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGCCTTGAGTTAT
*
1005153 GCTGCAAATGATGTGCCTT
66 GCTGCAAATGATATGCCTT
* * * * * * * * *
1005172 GGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGTTGGCAAATAAACATTCTCGACTTAAGCTAT
1 TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGCCTTGAGTTAT
*
1005237 GTTGCAAATGA
66 GCTGCAAATGA
1005248 ACACAATATC
Statistics
Matches: 362, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
80 23 0.06
81 2 0.01
82 2 0.01
83 1 0.00
84 334 0.92
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (84 bp):
TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGCCTTGAGTTAT
GCTGCAAATGATATGCCTT
Found at i:1005681 original size:43 final size:43
Alignment explanation
Indices: 1005629--1005730 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
1005619 TTCGTTGTAA
* * *
1005629 AGTTCAAATCGTGG-TTATGTGGGCATGATATCCTCTGTCGTGG
1 AGTTAAAATCGTGGATT-TATGGGCATGATATCCTCTGTCATGG
* * *
1005672 AGTTAAAATCCTGGATTTATGGGTATGGTATCCTCTGTCATGG
1 AGTTAAAATCGTGGATTTATGGGCATGATATCCTCTGTCATGG
*
1005715 AGTTGAAATCGTGGAT
1 AGTTAAAATCGTGGAT
1005731 GGCCCCTTCG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
43 48 0.96
44 2 0.04
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (43 bp):
AGTTAAAATCGTGGATTTATGGGCATGATATCCTCTGTCATGG
Found at i:1005986 original size:43 final size:43
Alignment explanation
Indices: 1005926--1006047 Score: 167
Period size: 43 Copynumber: 2.8 Consensus size: 43
1005916 ATGTTGCTGA
* *
1005926 CACGATATCCT-TCGTCGTGAAGTTGAAATCTTGG-TTGTGTGGG
1 CACGATATCCTCT-GTCGTGGAGTTGAAATCATGGATT-TGTGGG
*
1005969 CACGATATCCTCTGTCGTGGAGTTGAAATCATGGATTTTTGGG
1 CACGATATCCTCTGTCGTGGAGTTGAAATCATGGATTTGTGGG
* *
1006012 CACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1 CACGATATCCTCTGTCGTGGAGTTGAAATCATGGAT
1006048 GGACCCTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
43 69 0.96
44 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
CACGATATCCTCTGTCGTGGAGTTGAAATCATGGATTTGTGGG
Found at i:1006023 original size:317 final size:319
Alignment explanation
Indices: 1005390--1006111 Score: 957
Period size: 317 Copynumber: 2.3 Consensus size: 319
1005380 TTCATCGTGA
* * * * * * * * *
1005390 AGTTGAAACCGTTGATGGACCCTTCATTGTGAAGTTGAGCCTTGACTTGAACATCCTTCGTCGTG
1 AGTTGAAATCGTGGATGGACCCTTCGTCGTGAAGTTGAGCCCTGAATTGGATATCCTTCATCGTG
*
1005455 AAGTTGAAATCCAAGCTTCTATTATTTCGAGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCT
66 AAGTTGAAATCCAA-----TATTATTTCGAGTCCAATATCCTTCGCCGTGAAGTTGAAATTAGCT
1005520 CTAAATGAAACTGGGAGCCCCTTCGCCGTAAAGTTGAGCTTTGAATTGGATATCATTCATCTTGA
126 CTAAATGAAACTGGGAGCCCCTTCGCCGTAAAGTTGAGCTTTGAATTGGATATCATTCATCTTGA
* * * * *
1005585 AGTTTAAATCCAATCTAGAGTTGGCACGATATTCTTCGTTGTAAAGTTCAAATCGTGGTTATGTG
191 AGTTGAAATCCAATCTA-AGCTGACACGATATCCTTCGTCGTAAAGTTCAAATCGTGGTTATGTG
* * * * * *
1005650 GGCATGATATCCTCTGTCGTGGAGTTAAAATCCTGGATTTATGGGTATGGTATCCTCTGTCATGG
255 GGCACGATATCCTCTGTCGTGGAGTTAAAATCATGGATTTATGGGCACGATATCCTCCGTCATGG
* *
1005715 AGTTGAAATCGTGGATGGCCCCTTCGTCATGAAGTTGAGCCCTGAATTGGATATCCTTCATCGTG
1 AGTTGAAATCGTGGATGGACCCTTCGTCGTGAAGTTGAGCCCTGAATTGGATATCCTTCATCGTG
* *
1005780 AAGTTGAAATCCAA-A-TATTTCGAGTCCAATATCCTTCGCGGTGAAGTTGAAATTAGCTCTGAA
66 AAGTTGAAATCCAATATTATTTCGAGTCCAATATCCTTCGCCGTGAAGTTGAAATTAGCTCTAAA
* * * * **
1005843 TGAAATTGGGAAGCCCCTTCGCTGTGAAGTTGAGCTTTGAATTGGATATCCTTTGT-TGTGAAGT
131 TGAAACTGGG-AGCCCCTTCGCCGTAAAGTTGAGCTTTGAATTGGATATCATTCATCT-TGAAGT
* * * * * *
1005907 TGAAATCCAATGT-TGCTGACACGATATCCTTCGTCGTGAAGTTGAAATCTTGGTTGTGTGGGCA
194 TGAAATCCAATCTAAGCTGACACGATATCCTTCGTCGTAAAGTTCAAATCGTGGTTATGTGGGCA
* * *
1005971 CGATATCCTCTGTCGTGGAGTTGAAATCATGGATTTTTGGGCACGATATCCTCCGTCGTGG
259 CGATATCCTCTGTCGTGGAGTTAAAATCATGGATTTATGGGCACGATATCCTCCGTCATGG
* * *
1006032 AGTTGAAATCGTGGATGGACCCTTCGTCGTGAAGTTGAGCCCTAAATTAGATATCCTTCATCGTA
1 AGTTGAAATCGTGGATGGACCCTTCGTCGTGAAGTTGAGCCCTGAATTGGATATCCTTCATCGTG
1006097 AAGTTGAAATCCAAT
66 AAGTTGAAATCCAAT
1006112 CTTGAGAAAG
Statistics
Matches: 349, Mismatches: 45, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
317 168 0.48
318 55 0.16
319 58 0.17
325 68 0.19
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (319 bp):
AGTTGAAATCGTGGATGGACCCTTCGTCGTGAAGTTGAGCCCTGAATTGGATATCCTTCATCGTG
AAGTTGAAATCCAATATTATTTCGAGTCCAATATCCTTCGCCGTGAAGTTGAAATTAGCTCTAAA
TGAAACTGGGAGCCCCTTCGCCGTAAAGTTGAGCTTTGAATTGGATATCATTCATCTTGAAGTTG
AAATCCAATCTAAGCTGACACGATATCCTTCGTCGTAAAGTTCAAATCGTGGTTATGTGGGCACG
ATATCCTCTGTCGTGGAGTTAAAATCATGGATTTATGGGCACGATATCCTCCGTCATGG
Found at i:1006706 original size:2 final size:2
Alignment explanation
Indices: 1006701--1006762 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
1006691 GGGGGGAGAA
1006701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1006743 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
1006763 GTGTGTGTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1006767 original size:2 final size:2
Alignment explanation
Indices: 1006762--1006786 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1006752 TATATATATA
1006762 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
1006787 AAGAATTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1007498 original size:95 final size:95
Alignment explanation
Indices: 1007276--1007527 Score: 285
Period size: 95 Copynumber: 2.6 Consensus size: 95
1007266 GGCTAGCTGG
* * * * * *
1007276 ATCCATAAATCCGGGGCATTTAACCAATTACGCTAGAGGGAAATCTCAA--TATCATTGTATAGA
1 ATCCATAAACCCGGGGCATTTAACCAATTGCTCTAGAGGGACAGCTCAAGCT-TTATTG--T-G-
1007339 TATTATAATCACCTTTATCAGGCTAGCAGAATATT
61 TATTATAATCACCTTTATCAGGCTAGCAGAATATT
* *
1007374 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACATCTCAAGCTTTATTGTGTATTA
1 ATCCATAAACCCGGGGCATTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTGTATTA
* * *
1007439 TAATCGCCTTTATCAGGCTAGCTGAATCTT
66 TAATCACCTTTATCAGGCTAGCAGAATATT
* ** * *
1007469 ATCCATAAACCCTGGGTGTTTAGA-TAATTGCTCTAGAGGGATAGCTCAAGCTTTATTGT
1 ATCCATAAACCCGGGGCATTTA-ACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGT
1007528 ATACATATAA
Statistics
Matches: 136, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
95 82 0.60
96 2 0.01
97 1 0.01
98 45 0.33
99 5 0.04
100 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (95 bp):
ATCCATAAACCCGGGGCATTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTGTGTATTA
TAATCACCTTTATCAGGCTAGCAGAATATT
Found at i:1008872 original size:65 final size:64
Alignment explanation
Indices: 1008739--1008901 Score: 179
Period size: 65 Copynumber: 2.5 Consensus size: 64
1008729 TGCACTAAGA
* * * *
1008739 GTGCATCGATAAATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGCGCATCGATGCATGGCTG
1 GTGCATCGATACATCAAATGCATTCGATGTTTCAAAATAGCCACAACGCATCGATGCATGGCTG
* * *
1008803 GTGCATCGATACATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAATGCATCGATGCATGG-T
1 GTGCATCGATACATCAAATGCATTCGATG-TTTCA-AAATAGCCACAACGCATCGATGCATGGCT
*
1008866 AT
64 -G
* * *
1008868 GTGCATAGATGCATGAAATGCATTCGAT-TTTCAA
1 GTGCATCGATACATCAAATGCATTCGATGTTTCAA
1008902 TTTATTTCAT
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
62 1 0.01
63 5 0.06
64 28 0.33
65 48 0.56
66 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (64 bp):
GTGCATCGATACATCAAATGCATTCGATGTTTCAAAATAGCCACAACGCATCGATGCATGGCTG
Found at i:1010028 original size:21 final size:21
Alignment explanation
Indices: 1010004--1010047 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1009994 GTGCCGGAAG
* *
1010004 AGGAGGAGCACGAGAAGAGCT
1 AGGAGCAGCACGAGAAGAACT
* *
1010025 AGGAGCAGCTCGTGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
1010046 AG
1 AG
1010048 CTCCCAGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.39, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:1017518 original size:18 final size:17
Alignment explanation
Indices: 1017464--1017512 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1017454 ATGGACCCTT
* *
1017464 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1017482 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1017500 AGTGCATTCGATG
1 AGTGCA-TCGATG
1017513 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1017622 original size:65 final size:64
Alignment explanation
Indices: 1017484--1017643 Score: 180
Period size: 65 Copynumber: 2.5 Consensus size: 64
1017474 TGCACTAAGA
* * *
1017484 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGAATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATAGATGAATGGCTG
* * * * *
1017548 GTGCATCGATGCATCAAATGCATTTGATATTTTCATAAA-ATCCTCAGTGCATAGATGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGAT-GTTTCA-AAATAGCCACAGTGCATAGATGAATGGCT
*
1017611 AT
64 -G
* *
1017613 GTGCATCGATACATTAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
1017644 CAATTTATTT
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
64 29 0.36
65 48 0.60
66 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATAGATGAATGGCTG
Found at i:1017980 original size:29 final size:29
Alignment explanation
Indices: 1017947--1018002 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
1017937 AAACATCCAA
* *
1017947 AGAAAGTTC-AAAAACAAGTTCCAAATATG
1 AGAAAATTCAAAAAACAAATT-CAAATATG
1017976 AGAAAATTCAAAAAACAAATTCAAATA
1 AGAAAATTCAAAAAACAAATTCAAATA
1018003 AGATGCCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.59, C:0.12, G:0.09, T:0.20
Consensus pattern (29 bp):
AGAAAATTCAAAAAACAAATTCAAATATG
Found at i:1018030 original size:18 final size:20
Alignment explanation
Indices: 1017992--1018030 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1017982 TTCAAAAAAC
1017992 AAATTCAAATAAGATGCCTCA
1 AAATTCAAATAAGA-GCCTCA
1018013 AAATT-AAATAAG-GCCTCA
1 AAATTCAAATAAGAGCCTCA
1018031 TCAGGATGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
20 7 0.39
21 5 0.28
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.23
Consensus pattern (20 bp):
AAATTCAAATAAGAGCCTCA
Found at i:1020199 original size:14 final size:15
Alignment explanation
Indices: 1020179--1020215 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
1020169 GGGAAAATAA
1020179 AAATAAAATATTAAT
1 AAATAAAATATTAAT
1020194 -AAT-AAATATTAAT
1 AAATAAAATATTAAT
1020207 AAATAAAAT
1 AAATAAAAT
1020216 GCTAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.50
14 6 0.30
15 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATAAAATATTAAT
Found at i:1020305 original size:16 final size:16
Alignment explanation
Indices: 1020284--1020332 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
1020274 ATTGAAATCG
1020284 AAGAAAATAAAAAAAT
1 AAGAAAATAAAAAAAT
*
1020300 AAGAAAA-ACAAAAAT
1 AAGAAAATAAAAAAAT
*
1020315 AA-AAGATAAAAAGAAT
1 AAGAAAATAAAAA-AAT
1020331 AA
1 AA
1020333 TTCAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 3 0.11
15 13 0.46
16 12 0.43
ACGTcount: A:0.80, C:0.02, G:0.08, T:0.10
Consensus pattern (16 bp):
AAGAAAATAAAAAAAT
Found at i:1020364 original size:24 final size:24
Alignment explanation
Indices: 1020337--1020393 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
1020327 GAATAATTCA
1020337 AAAAAAT-GATAAATAAAAATAA-AT
1 AAAAAATAGA-AAA-AAAAATAATAT
*
1020361 AAAAAATAGAAAAAACAATAATAT
1 AAAAAATAGAAAAAAAAATAATAT
1020385 AATAAAATA
1 AA-AAAATA
1020394 TGCGTAAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 7 0.24
24 14 0.48
25 8 0.28
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAAAATAGAAAAAAAAATAATAT
Found at i:1021567 original size:33 final size:33
Alignment explanation
Indices: 1021529--1021682 Score: 129
Period size: 32 Copynumber: 4.6 Consensus size: 33
1021519 TAATATAATA
*
1021529 TAAACTATATAATATATATTTCAAAAATATTTT
1 TAAACTATATATTATATATTTCAAAAATATTTT
* * *
1021562 TAAACTATATATTATATTTTTCAAAAGT-TTTC
1 TAAACTATATATTATATATTTCAAAAATATTTT
* * *
1021594 AAAACTATATATTATATAGTTTTCAAAATTA-ATT
1 TAAACTATATATTATATA--TTTCAAAAATATTTT
*
1021628 TAAA--A-ATATTATATAAGTTTTCAAAAAAATGTTT
1 TAAACTATATATTATAT-A--TTTCAAAAATAT-TTT
1021662 TAAAAACTATATATTATATAT
1 T--AAACTATATATTATATAT
1021683 ATTTTTTCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
31 9 0.09
32 32 0.33
33 25 0.26
34 16 0.16
36 4 0.04
38 2 0.02
39 9 0.09
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.45
Consensus pattern (33 bp):
TAAACTATATATTATATATTTCAAAAATATTTT
Found at i:1021706 original size:38 final size:38
Alignment explanation
Indices: 1021567--1021832 Score: 162
Period size: 38 Copynumber: 7.3 Consensus size: 38
1021557 ATTTTTAAAC
1021567 TATATATTATATTTTTCAAAAGT--TTTCAAAACTATATA-
1 TATATA-TAT-TTTTTCAAAA-TAATTTCAAAACTATATAT
*
1021605 T-TATATA-GTTTTCAAAATTAATTT--AAA--A-ATAT
1 TATATATATTTTTTCAAAA-TAATTTCAAAACTATATAT
* * *
1021637 TATATA-A-GTTTTCAAAAAAATGTTTTAAAAACTATATAT
1 TATATATATTTTTTCAAAATAA---TTTCAAAACTATATAT
1021676 TATATATATTTTTTCAAAATAATTTCAAAACTATATAT
1 TATATATATTTTTTCAAAATAATTTCAAAACTATATAT
* *
1021714 TATATATA--TTTTCAAAAGAATTTTCAAAAACTATACA-
1 TATATATATTTTTTCAAAATAA-TTTC-AAAACTATATAT
* *
1021751 T-TATATATGTTTTC--AA-AA--TCAAAACTATATAA
1 TATATATATTTTTTCAAAATAATTTCAAAACTATATAT
* * ** * *
1021783 TATATATATATATTT-GAAATGTTTTTAAAACTATATAG
1 TATATATAT-TTTTTCAAAATAATTTCAAAACTATATAT
1021821 TATATATATTTT
1 TATATATATTTT
1021833 AGAAAACCGT
Statistics
Matches: 186, Mismatches: 16, Indels: 53
0.73 0.06 0.21
Matches are distributed among these distances:
31 15 0.08
32 16 0.09
33 11 0.06
34 19 0.10
35 4 0.02
36 27 0.15
37 11 0.06
38 61 0.33
39 10 0.05
40 1 0.01
41 11 0.06
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (38 bp):
TATATATATTTTTTCAAAATAATTTCAAAACTATATAT
Found at i:1021718 original size:36 final size:35
Alignment explanation
Indices: 1021530--1021769 Score: 196
Period size: 38 Copynumber: 6.8 Consensus size: 35
1021520 AATATAATAT
* **
1021530 AAACTATATAATATATA--TTTCAAAA-ATATTTTT
1 AAACTATATATTATATAGTTTTCAAAATA-ATTTCA
1021563 AAACTATATATTATAT--TTTTCAAAAGT--TTTCA
1 AAACTATATATTATATAGTTTTCAAAA-TAATTTCA
1021595 AAACTATATATTATATAGTTTTCAAAATTAATTT-A
1 AAACTATATATTATATAGTTTTCAAAA-TAATTTCA
* * *
1021630 AAAATAT-TA-TATA-AGTTTTCAAAAAAATGTTTTAA
1 AAACTATATATTATATAGTTTTCAAAATAA---TTTCA
*
1021665 AAACTATATATTATATATATTTTTTCAAAATAATTTCA
1 AAACTATATA-T-TATATA-GTTTTCAAAATAATTTCA
* *
1021703 AAACTATATATTATATATATTTTCAAAAGAATTTTCAA
1 AAACTATATATTATATA-GTTTTCAAAATAA-TTTC-A
*
1021741 AAACTATACATTATATATGTTTTCAAAAT
1 AAACTATATATTATATA-GTTTTCAAAAT
1021770 CAAAACTATA
Statistics
Matches: 173, Mismatches: 15, Indels: 33
0.78 0.07 0.15
Matches are distributed among these distances:
31 2 0.01
32 30 0.17
33 27 0.16
34 15 0.09
35 14 0.08
36 23 0.13
37 5 0.03
38 41 0.24
39 4 0.02
40 1 0.01
41 11 0.06
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (35 bp):
AAACTATATATTATATAGTTTTCAAAATAATTTCA
Found at i:1021845 original size:38 final size:37
Alignment explanation
Indices: 1021771--1021849 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 37
1021761 TTTCAAAATC
* *
1021771 AAAACTATATAATATATATATATATTTGAAATGTTTTT
1 AAAACTATATAATATATATATATATTAGAAACG-TTTT
*
1021809 AAAACTATATAGTATATATAT-T-TTAGAAAACCGTTTT
1 AAAACTATATAATATATATATATATTAG-AAA-CGTTTT
1021846 AAAA
1 AAAA
1021850 TCATTTTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 3 0.08
37 12 0.33
38 21 0.58
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (37 bp):
AAAACTATATAATATATATATATATTAGAAACGTTTT
Found at i:1022070 original size:38 final size:38
Alignment explanation
Indices: 1021937--1022060 Score: 178
Period size: 38 Copynumber: 3.3 Consensus size: 38
1021927 GTCTAGACCT
* *
1021937 ACCATATT-CACCGAAGTACTACAGATAAGGTCGTGCCC
1 ACCAT-TTGCACCGAAGTGCTACACATAAGGTCGTGCCC
1021975 ACCATTTGCACCGAAGTGCTACACATAAGGTCGTGCCC
1 ACCATTTGCACCGAAGTGCTACACATAAGGTCGTGCCC
* * * *
1022013 TCCATTTGCACCGAAGTGCTACACGTAAGTTTGTGCCC
1 ACCATTTGCACCGAAGTGCTACACATAAGGTCGTGCCC
1022051 ACCATTTGCA
1 ACCATTTGCA
1022061 TTTAAGTGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 2 0.03
38 76 0.97
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (38 bp):
ACCATTTGCACCGAAGTGCTACACATAAGGTCGTGCCC
Found at i:1022235 original size:16 final size:16
Alignment explanation
Indices: 1022214--1022248 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1022204 TTCATACCCG
1022214 AAATATCAT-TCATGAT
1 AAATATCATAT-ATGAT
1022230 AAATATCATATATGAT
1 AAATATCATATATGAT
1022246 AAA
1 AAA
1022249 CAGTTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (16 bp):
AAATATCATATATGAT
Found at i:1031758 original size:21 final size:21
Alignment explanation
Indices: 1031734--1031794 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
1031724 TTCAAAGAAA
1031734 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
1031755 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
1031769 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
1031790 CATTT
1 CATTT
1031795 TTCAAAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:1031761 original size:35 final size:36
Alignment explanation
Indices: 1031685--1031801 Score: 204
Period size: 35 Copynumber: 3.3 Consensus size: 36
1031675 ATCCCATTAT
1031685 CATTTTTCAAA-AAACA-TTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
*
1031719 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1031755 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1031790 CATTTTTCAAAG
1 CATTTTTCAAAG
1031802 TTGGTTACCA
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
34 10 0.13
35 40 0.51
36 28 0.36
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:1032201 original size:166 final size:166
Alignment explanation
Indices: 1031927--1032257 Score: 662
Period size: 166 Copynumber: 2.0 Consensus size: 166
1031917 CTAGCATGCC
1031927 AACTAAAGTTGAACACAACTTCAGTTTGTTTATAGTCACCGTCTTTGTTAACATATCTGCCGGAT
1 AACTAAAGTTGAACACAACTTCAGTTTGTTTATAGTCACCGTCTTTGTTAACATATCTGCCGGAT
1031992 TTTGAGCTCCACTGATCTTTTCAAGTTTCAAAATCTCATCTTCCAGAAGAGACCGGATAAAATGA
66 TTTGAGCTCCACTGATCTTTTCAAGTTTCAAAATCTCATCTTCCAGAAGAGACCGGATAAAATGA
1032057 TATCGCAATTGTATGTGCTTTGTCCTGGAATGAAAG
131 TATCGCAATTGTATGTGCTTTGTCCTGGAATGAAAG
1032093 AACTAAAGTTGAACACAACTTCAGTTTGTTTATAGTCACCGTCTTTGTTAACATATCTGCCGGAT
1 AACTAAAGTTGAACACAACTTCAGTTTGTTTATAGTCACCGTCTTTGTTAACATATCTGCCGGAT
1032158 TTTGAGCTCCACTGATCTTTTCAAGTTTCAAAATCTCATCTTCCAGAAGAGACCGGATAAAATGA
66 TTTGAGCTCCACTGATCTTTTCAAGTTTCAAAATCTCATCTTCCAGAAGAGACCGGATAAAATGA
1032223 TATCGCAATTGTATGTGCTTTGTCCTGGAATGAAA
131 TATCGCAATTGTATGTGCTTTGTCCTGGAATGAAA
1032258 AGACGGATTC
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 165 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (166 bp):
AACTAAAGTTGAACACAACTTCAGTTTGTTTATAGTCACCGTCTTTGTTAACATATCTGCCGGAT
TTTGAGCTCCACTGATCTTTTCAAGTTTCAAAATCTCATCTTCCAGAAGAGACCGGATAAAATGA
TATCGCAATTGTATGTGCTTTGTCCTGGAATGAAAG
Found at i:1036056 original size:16 final size:16
Alignment explanation
Indices: 1036032--1036064 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1036022 TATCGCCGAC
*
1036032 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
1036048 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
1036064 C
1 C
1036065 ATGAATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:1036547 original size:21 final size:21
Alignment explanation
Indices: 1036523--1036583 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
1036513 TTCAAAGAAA
1036523 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
1036544 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
1036558 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
1036579 CATTT
1 CATTT
1036584 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:1036556 original size:35 final size:35
Alignment explanation
Indices: 1036494--1036584 Score: 155
Period size: 35 Copynumber: 2.5 Consensus size: 35
1036484 AACAACTACT
*
1036494 AAACTTTGAAAAACTAATTTTCAAAGAAACATTTACC
1 AAACTTTG-AAAAC-CATTTTCAAAGAAACATTTACC
1036531 AAACTTTGAAAACCATTTTCAAAGAAACATTTACC
1 AAACTTTGAAAACCATTTTCAAAGAAACATTTACC
1036566 AAACTTTGAAAACCATTTT
1 AAACTTTGAAAACCATTTT
1036585 TTCAAAGTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
35 40 0.75
36 5 0.09
37 8 0.15
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (35 bp):
AAACTTTGAAAACCATTTTCAAAGAAACATTTACC
Found at i:1037504 original size:161 final size:161
Alignment explanation
Indices: 1037239--1037560 Score: 644
Period size: 161 Copynumber: 2.0 Consensus size: 161
1037229 ACCGTATGGG
1037239 GGTGCTGGTACAATGCAGCCTTGCAAATATCTTCAAGATCTTCTCATGGATTTTGATCTTCGTGA
1 GGTGCTGGTACAATGCAGCCTTGCAAATATCTTCAAGATCTTCTCATGGATTTTGATCTTCGTGA
1037304 CATGAATTTCGAGGACCTTCGTTACTTGGACTCGTGGCCTAACACACCTAACTTGACAAATTTAT
66 CATGAATTTCGAGGACCTTCGTTACTTGGACTCGTGGCCTAACACACCTAACTTGACAAATTTAT
1037369 TGAAAATCTCACCAGTGCTCTATGTACGAAA
131 TGAAAATCTCACCAGTGCTCTATGTACGAAA
1037400 GGTGCTGGTACAATGCAGCCTTGCAAATATCTTCAAGATCTTCTCATGGATTTTGATCTTCGTGA
1 GGTGCTGGTACAATGCAGCCTTGCAAATATCTTCAAGATCTTCTCATGGATTTTGATCTTCGTGA
1037465 CATGAATTTCGAGGACCTTCGTTACTTGGACTCGTGGCCTAACACACCTAACTTGACAAATTTAT
66 CATGAATTTCGAGGACCTTCGTTACTTGGACTCGTGGCCTAACACACCTAACTTGACAAATTTAT
1037530 TGAAAATCTCACCAGTGCTCTATGTACGAAA
131 TGAAAATCTCACCAGTGCTCTATGTACGAAA
1037561 ATTTAAATTT
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (161 bp):
GGTGCTGGTACAATGCAGCCTTGCAAATATCTTCAAGATCTTCTCATGGATTTTGATCTTCGTGA
CATGAATTTCGAGGACCTTCGTTACTTGGACTCGTGGCCTAACACACCTAACTTGACAAATTTAT
TGAAAATCTCACCAGTGCTCTATGTACGAAA
Found at i:1037855 original size:18 final size:18
Alignment explanation
Indices: 1037829--1037873 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1037819 TCACGAAATG
*
1037829 TAAGATTACCGGCGGGAA
1 TAAGATTACCGGCGAGAA
*
1037847 TAGGATTACCGGCGAGAA
1 TAAGATTACCGGCGAGAA
1037865 TAAGATTAC
1 TAAGATTAC
1037874 TGAGAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.20
Consensus pattern (18 bp):
TAAGATTACCGGCGAGAA
Found at i:1038085 original size:2 final size:2
Alignment explanation
Indices: 1038078--1038110 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1038068 TCATAAAATT
1038078 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1038111 TTACAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1044726 original size:38 final size:39
Alignment explanation
Indices: 1044649--1044728 Score: 119
Period size: 38 Copynumber: 2.1 Consensus size: 39
1044639 AAATTCTAAT
1044649 TATTTAAATAAAAAATTATATATAAAAATTCATCAATAA
1 TATTTAAATAAAAAATTATATATAAAAATTCATCAATAA
* *
1044688 TATTTAAA-AAAAAATTATTATATGAAAATT-ATCGATAA
1 TATTTAAATAAAAAATTA-TATATAAAAATTCATCAATAA
1044726 TAT
1 TAT
1044729 ATTATTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 19 0.50
39 19 0.50
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (39 bp):
TATTTAAATAAAAAATTATATATAAAAATTCATCAATAA
Found at i:1044744 original size:18 final size:18
Alignment explanation
Indices: 1044723--1044762 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1044713 AAATTATCGA
* *
1044723 TAATATATTATTTTATAT
1 TAATATATCATGTTATAT
*
1044741 TAATATATCATGTTATTT
1 TAATATATCATGTTATAT
1044759 TAAT
1 TAAT
1044763 TTTAATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATATATCATGTTATAT
Found at i:1046099 original size:217 final size:216
Alignment explanation
Indices: 1045725--1046145 Score: 707
Period size: 217 Copynumber: 1.9 Consensus size: 216
1045715 CGAACTAGCT
*
1045725 AAAATTCAACAGCAATGAAGAGCCAAAAGTTCTTGAAATGAACAAATACAAGCAAATCTTTCAGC
1 AAAATTCAACAGCAATGAAGAGCCAAAAGTTCTTGAAATGAACAAATACAAGCAAATCTTCCAGC
* * * *
1045790 TAAGTGAAACAAATTGATTGCAACTTAGATGCCAAAGGATACACAAGTGGAGACACACATCTATG
66 TAAGTGAAACAAAGTGATTGCAACTTAGATGCCAAAGGACACACAAGAGGAGACACACATCTATA
1045855 ACATAAAATTCTCTGCAACAACATCATGCATGATGTTTCTGTGCCGTTTATTAAAAATACTCGAA
131 ACATAAAATTCTCTGCAACAACATCATGCATGATGTTTCTGTGCCGTTTATTAAAAATACTCGAA
*
1045920 ATCGATTCTGTCCCATTGATC
196 ACCGATTCTGTCCCATTGATC
*
1045941 AAAATTCAACAGCAATGAAGAGCCAAAAGTTCTTGAAATGAACAAGATACAGGCAAATCTTCCAG
1 AAAATTCAACAGCAATGAAGAGCCAAAAGTTCTTGAAATGAACAA-ATACAAGCAAATCTTCCAG
* * *
1046006 TTAAGTGAAACAAAGTGATTGCAACTTAGATGCCAAAGGACACACTAGAGGAGACATACATCTAT
65 CTAAGTGAAACAAAGTGATTGCAACTTAGATGCCAAAGGACACACAAGAGGAGACACACATCTAT
* * * *
1046071 AATATAAAATTCTCTTCAACAACATCATGCATGATGTTTTTGTGCCGTTTATTAAAAATACTTGA
130 AACATAAAATTCTCTGCAACAACATCATGCATGATGTTTCTGTGCCGTTTATTAAAAATACTCGA
1046136 AACCGATTCT
195 AACCGATTCT
1046146 CTTAGAAGAT
Statistics
Matches: 190, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
216 45 0.24
217 145 0.76
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (216 bp):
AAAATTCAACAGCAATGAAGAGCCAAAAGTTCTTGAAATGAACAAATACAAGCAAATCTTCCAGC
TAAGTGAAACAAAGTGATTGCAACTTAGATGCCAAAGGACACACAAGAGGAGACACACATCTATA
ACATAAAATTCTCTGCAACAACATCATGCATGATGTTTCTGTGCCGTTTATTAAAAATACTCGAA
ACCGATTCTGTCCCATTGATC
Found at i:1046435 original size:17 final size:18
Alignment explanation
Indices: 1046413--1046459 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
1046403 TCTCTTTAAA
1046413 ATTTTATATTATTA-TAT
1 ATTTTATATTATTATTAT
* * *
1046430 ATTTTAGATTTTTATTTGT
1 ATTTTATATTATTA-TTAT
1046449 ATTTTATATTA
1 ATTTTATATTA
1046460 ATAATATGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 12 0.52
19 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
ATTTTATATTATTATTAT
Found at i:1046985 original size:69 final size:69
Alignment explanation
Indices: 1046901--1047040 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
1046891 ATGAACACAA
*
1046901 TTCCAGAACAAGATAAATTGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
1 TTCCAGAACAAGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
1046966 ACTC
66 ACTC
* *
1046970 TTCCAGAACAGGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTGA
1 TTCCAGAACAAGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
1047035 ACTC
66 ACTC
1047039 TT
1 TT
1047041 ATGTCAAACA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (69 bp):
TTCCAGAACAAGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAA
ACTC
Found at i:1048961 original size:20 final size:19
Alignment explanation
Indices: 1048924--1048984 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
1048914 GTATCGATCC
*
1048924 AAAATGAT-ATACCAGGTAA
1 AAAATGATAAAACC-GGTAA
*
1048943 AAATATGATAAAACCGGTATC
1 AAA-ATGATAAAACCGGTA-A
*
1048964 AAAATGATAAAATCGGTAA
1 AAAATGATAAAACCGGTAA
1048983 AA
1 AA
1048985 CGTTACCGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 5 0.14
20 23 0.66
21 7 0.20
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (19 bp):
AAAATGATAAAACCGGTAA
Found at i:1049024 original size:181 final size:182
Alignment explanation
Indices: 1048727--1049198 Score: 671
Period size: 181 Copynumber: 2.6 Consensus size: 182
1048717 GATCCAAATT
* * * * * **
1048727 AAAAATGTGTCGGTCCAAAATGATATAACAGGTAAAACTATGACAAAACCGATATTGAAATGAT-
1 AAAAATGTATCGATCCAAAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * * *
1048791 AAACCGGTAAAGCGCTATCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATTGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
1048856 GTGAATTTAAAAGAGAAGCAGTTTTAAAT-CCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTT-AATGCCTATAAAGTGTCGATACTTTAA
*
1048908 AAAAATGTATCGATCCAAAATGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
1048973 AAATCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
1049037 GTGAATTTAAAAGAGAAGCAGTTTTAGTGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAATGCCTATAAAGTGTCGATACTTTAA
* * * *
1049089 AAAAATATATCGATCCACAACGATATAATAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
1049154 AAACCAGTAAAACGATACCGGATATATTGAAAGTATCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
1049199 CATAAGTACA
Statistics
Matches: 260, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
180 2 0.01
181 220 0.85
182 38 0.15
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAATGCCTATAAAGTGTCGATACTTTAA
Found at i:1049142 original size:20 final size:19
Alignment explanation
Indices: 1049119--1049165 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1049109 CGATATAATA
1049119 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
1049139 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
1049159 AGTAAAA
1 GGTAAAA
1049166 CGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1052632 original size:183 final size:183
Alignment explanation
Indices: 1052284--1052854 Score: 968
Period size: 183 Copynumber: 3.1 Consensus size: 183
1052274 CAAAGTTTTC
*
1052284 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
1052349 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
1052412 TATAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACATATATCG
128 TATAATCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1052468 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1052533 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
1052598 AACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AATCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
1052651 ATACTTTTTAATATTGTGTCAGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
1052716 CAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAATGTAAAAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
1052781 AATCGGTATAAATATA-TCGGTTTTATGAGCGAATAGGTCTACAACCTATATTG
131 AATCGGTATAAATATACT-GGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1052834 ATACTTTTTAATATTGTGTCG
1 ACACTTTTTAATATTGTGTCG
1052855 CTAATTTTAA
Statistics
Matches: 370, Mismatches: 14, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
182 1 0.00
183 290 0.78
184 76 0.21
186 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AATCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1055994 original size:255 final size:244
Alignment explanation
Indices: 1055553--1056065 Score: 746
Period size: 255 Copynumber: 2.0 Consensus size: 244
1055543 TGTTAAAGTT
*
1055553 GTGTCGATACTTACGGTCTAGAATGAATGCCAAAAAATGTGTACCCTTAAAGTGTCGATACATTT
1 GTGTCGATACTTACGGTCTAGAATGAATGCCAAAAAAGGTGTACCCTTAAAGTGTCGATACATTT
*
1055618 ATTAAAAAAGTATCGATCCTTAAAACATCGAAACCCATAAGTATAATGTTCAATGAAACCGGTAT
66 ATTAAAAAAG-ATC-ATCCTGAAAACATCGAAACCCATAAGTATAATGTTCAATGAAACCGGTAT
*
1055683 AATTATATCGGTTTTATGAGAGAATAAGTCTAAATCATGTATCGACACTTTTTTAGTTTGTGTCG
129 AATTATACCGGTTTTATGAGAGAATAAGTCTAAATCATGTATCGACACTTTTTTAGTTTGTGTCG
*
1055748 ATATTTTTGTCCAGAATGAAATATTAA-AACCAACGAGGTGCAAGCATAAA
194 ATATTTTTATCCAGAATGAAATATTAATAACCAACGAGGTGCAAGCATAAA
*
1055798 GTGTCGATACTTACGGTCTAGAATGAATGCCAAAAAAGGTGTACCCTTAAAAAGTGTCGATATAT
1 GTGTCGATACTTACGGTCTAGAATGAATGCCAAAAAAGGTGTACCCTT--AAAGTGTCGATACAT
*
1055863 TTATTAAAAAA-AT-ATCC-GAAAACATCGAAACTCATAAGTATAATGTAATAGGTAAATGGTCA
64 TTATTAAAAAAGATCATCCTGAAAACATCGAAACCCATAAG--T-A--TAAT--G----T--TCA
* * *
1055925 ATGAAACCGGTATAATTATACCGGTTTTATGAGTGAATATGTCTAAATCATGTATCGACATTTTT
116 ATGAAACCGGTATAATTATACCGGTTTTATGAGAGAATAAGTCTAAATCATGTATCGACACTTTT
**
1055990 TTAGTTTGTGTCGATATTTTTATCCAGAATGAAATATTAATGCCCAACGAGGTGCAAGCATAAA
181 TTAGTTTGTGTCGATATTTTTATCCAGAATGAAATATTAATAACCAACGAGGTGCAAGCATAAA
1056054 GTGTCGATACTT
1 GTGTCGATACTT
1056066 TTATAAAAAG
Statistics
Matches: 241, Mismatches: 11, Indels: 21
0.88 0.04 0.08
Matches are distributed among these distances:
242 19 0.08
243 4 0.02
244 1 0.00
245 50 0.21
247 29 0.12
249 1 0.00
253 1 0.00
255 103 0.43
256 33 0.14
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (244 bp):
GTGTCGATACTTACGGTCTAGAATGAATGCCAAAAAAGGTGTACCCTTAAAGTGTCGATACATTT
ATTAAAAAAGATCATCCTGAAAACATCGAAACCCATAAGTATAATGTTCAATGAAACCGGTATAA
TTATACCGGTTTTATGAGAGAATAAGTCTAAATCATGTATCGACACTTTTTTAGTTTGTGTCGAT
ATTTTTATCCAGAATGAAATATTAATAACCAACGAGGTGCAAGCATAAA
Found at i:1056207 original size:23 final size:23
Alignment explanation
Indices: 1056178--1056225 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1056168 AAATAGGTCA
*
1056178 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
1056201 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
1056224 AT
1 AT
1056226 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:1056282 original size:87 final size:87
Alignment explanation
Indices: 1056178--1056341 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
1056168 AAATAGGTCA
*
1056178 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATATTATTGTACTTGATAATATTT
1056243 CCCGTTAAATAACTATTTTATT
66 CCCGTTAAATAACTATTTTATT
* * * *
1056265 ATATAAGCGCTATCTATTACATTATATAAACGTTATCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATATTATTGTACTTGATAATATTT
* *
1056330 TCGGTTAAATAA
66 CCCGTTAAATAA
1056342 TATAACATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATATTATTGTACTTGATAATATTT
CCCGTTAAATAACTATTTTATT
Found at i:1056312 original size:23 final size:23
Alignment explanation
Indices: 1056262--1056306 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1056252 TAACTATTTT
* *
1056262 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAACGCTATCTAATAC
*
1056285 ATTATATAAACGTTATCTAATA
1 ATTATATAAACGCTATCTAATA
1056307 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (23 bp):
ATTATATAAACGCTATCTAATAC
Found at i:1061316 original size:36 final size:37
Alignment explanation
Indices: 1061244--1061317 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
1061234 GTTGAAAAAT
* *
1061244 ATTTATATATTTTCTTTAAAAAATTTAAATACATAAA
1 ATTTATATATTGTCTTTAAAAAATTTAAAAACATAAA
* *
1061281 ATTTATATTATTGT-TTTACAAAA-TTAAAAATATAAA
1 ATTTATA-TATTGTCTTTAAAAAATTTAAAAACATAAA
1061317 A
1 A
1061318 AACGTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 12 0.38
37 15 0.47
38 5 0.16
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTGTCTTTAAAAAATTTAAAAACATAAA
Found at i:1062093 original size:77 final size:77
Alignment explanation
Indices: 1061976--1062221 Score: 246
Period size: 77 Copynumber: 3.1 Consensus size: 77
1061966 TATATATAAG
* * * * *
1061976 AAATACGATTGCGCCCAATAATGTCATAGTTCATTGAGAAATAAGTTGA-GATTTGTAATGTTAA
1 AAATA-GATTACGCCCAAGAATGTCATGGTTCATTAAGAAATATGTT-ACGATTTGTAATGTTAA
1062040 TATTTTTATTAATA
64 TATTTTTATTAATA
* * *
1062054 AAATATG-TTACGCCCAAGAATGTTATGGTCCATTAAGAAAGTATGTTATGATCTATAATGTAAT
1 AAATA-GATTACGCCCAAGAATGTCATGGTTCATTAAGAAA-TATGTTACGA--T-T--TGTAAT
*
1062118 GTTAATATTTTT-TAAATA
59 GTTAATATTTTTATTAATA
* * * * * * *
1062136 AAATAGATTGCACCCAAGGATGTCATGGTTCACTAAGAAATATGTTACGATATGTTACGTTAATA
1 AAATAGATTACGCCCAAGAATGTCATGGTTCATTAAGAAATATGTTACGATTTGTAATGTTAATA
1062201 TTTTTATTAATA
66 TTTTTATTAATA
1062213 AAATAGATT
1 AAATAGATT
1062222 TCACCCAAAA
Statistics
Matches: 139, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
76 16 0.12
77 42 0.30
78 13 0.09
79 1 0.01
80 1 0.01
81 11 0.08
82 37 0.27
83 18 0.13
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (77 bp):
AAATAGATTACGCCCAAGAATGTCATGGTTCATTAAGAAATATGTTACGATTTGTAATGTTAATA
TTTTTATTAATA
Found at i:1062356 original size:73 final size:73
Alignment explanation
Indices: 1062279--1062491 Score: 223
Period size: 74 Copynumber: 2.9 Consensus size: 73
1062269 ATATATTATT
1062279 ATCAATACTTTTAAATATTGAAAAAGTTGAAGAAAAGATCGAAAGTTAAAATATCGATACTTATG
1 ATCAATACTTTTAAATATTGAAAAAGTTGAAGAAAAGATCGAAAGTTAAAATATCGATACTTATG
*
1062344 CGGTAATG
66 CGATAATG
* ** * *
1062352 ATCAATACTGTTGAAA-ATTGAAAAAAGTTGATA-AAAAGATAAAAATTTAAAATATTGATACTT
1 ATCAATACT-TTTAAATATTG-AAAAAGTTGA-AGAAAAGATCGAAAGTTAAAATATCGATACTT
* *
1062415 AAGCGATGATG
63 ATGCGATAATG
* * * * * * * * *
1062426 TTCGATACTTTTAATTATTGAACAATTTGATGAATATGATCGATAGTTAAAATATCGATACATAT
1 ATCAATACTTTTAAATATTGAAAAAGTTGAAGAA-AAGATCGAAAGTTAAAATATCGATACTTAT
1062491 G
65 G
1062492 TTATGAGGTT
Statistics
Matches: 111, Mismatches: 23, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
73 27 0.24
74 83 0.75
75 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.33
Consensus pattern (73 bp):
ATCAATACTTTTAAATATTGAAAAAGTTGAAGAAAAGATCGAAAGTTAAAATATCGATACTTATG
CGATAATG
Found at i:1062526 original size:20 final size:20
Alignment explanation
Indices: 1062503--1062549 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
1062493 TATGAGGTTT
1062503 GATACTTTTTTATTTATGTC
1 GATACTTTTTTATTTATGTC
1062523 GATACTTTTTTATTTATGTC
1 GATACTTTTTTATTTATGTC
*
1062543 GGTACTT
1 GATACTT
1062550 ATGCTCTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.11, G:0.13, T:0.57
Consensus pattern (20 bp):
GATACTTTTTTATTTATGTC
Found at i:1062849 original size:103 final size:101
Alignment explanation
Indices: 1062742--1063053 Score: 364
Period size: 100 Copynumber: 3.1 Consensus size: 101
1062732 ACTTTTGCAT
*
1062742 AAAAAAGGCGCTACCTACTACGTTATCATGAAAAACATGTTTTATCTTACTTTTGTATAATATAA
1 AAAAAAGGCGCTACCTACTACGTTATCATGAAAAACATGTTTTATCTTACTTTTGCATAATATAA
** * *
1062807 ATTGTTTCTTACTTATAACTTAAACGGTTGGCATTAAAA
66 AACGTTTCATACTTATAACTTAAACGGTTGACA-T--AA
* * * **
1062846 AAAAAAGTCGTTACCTAGTACGTTATCATGATCAACATG-TTTATCTTACTTTTGCATAATAT-A
1 AAAAAAGGCGCTACCTACTACGTTATCATGAAAAACATGTTTTATCTTACTTTTGCATAATATAA
1062909 AACGGTTTCATACTTATAACTTAAACGGTTGACAT-A
66 AAC-GTTTCATACTTATAACTTAAACGGTTGACATAA
* * * *
1062945 AAAAAAGGCGCTACCTACTACGTTATCATTAGAAACCA-GTTTTGTCTTACTTTTGCATCATA-A
1 AAAAAAGGCGCTACCTACTACGTTATCATGA-AAAACATGTTTTATCTTACTTTTGCATAATATA
* ** * *
1063008 AAACGATTTCATAATTATAACTTAAACAATTGACGTTA
65 AAACG-TTTCATACTTATAACTTAAACGGTTGACATAA
1063046 AAAAAAGG
1 AAAAAAGG
1063054 AGTCACCTAC
Statistics
Matches: 179, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
99 30 0.17
100 53 0.30
101 9 0.05
102 3 0.02
103 50 0.28
104 34 0.19
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (101 bp):
AAAAAAGGCGCTACCTACTACGTTATCATGAAAAACATGTTTTATCTTACTTTTGCATAATATAA
AACGTTTCATACTTATAACTTAAACGGTTGACATAA
Found at i:1063889 original size:78 final size:77
Alignment explanation
Indices: 1063463--1063975 Score: 552
Period size: 77 Copynumber: 6.6 Consensus size: 77
1063453 CACTTTCGAA
* * * *
1063463 TAATAAAAATATTAACATTAT-AGATCACAACTTACTTTCTTACTGAATCATAACATTCTTGGGT
1 TAATAAAAATATTAACATT-TCAGATCACAACTTA-TTTCTTAGTGAACCATGACATTCTTGGGC
*
1063527 GGAACTCATTTTAT
64 GCAACTCATTTTAT
* * * *
1063541 TAATAAAAATATTAACA-TTCTAGACCACAACCTATTTCTTAGCGAACCATGAAATTCTTGGGCG
1 TAATAAAAATATTAACATTTC-AGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCG
*
1063605 AAACTCATTTTAT
65 CAACTCATTTTAT
* * * * * * *
1063618 TAATAAAAATATTAACATTTCAAATTACAACATATTTCTTAGTGAACCCTGACATGCTTAGGCGT
1 TAATAAAAATATTAACATTTCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCGC
*
1063683 AACTCATTTTGT
66 AACTCATTTTAT
* * **
1063695 TAATAAAAATATTAACATTCCAGATCACAACTTATTTCTTAGTGAACCGTGACATTCTTCAGCGC
1 TAATAAAAATATTAACATTTCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCGC
*
1063760 AACCCA---TAT
66 AACTCATTTTAT
** * * *
1063769 TAATAAAAATATTAACATTTCAGATCGTAACATATTTCTTAGTGAACCATGGCATTCTTGGGTGC
1 TAATAAAAATATTAACATTTCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCGC
*
1063834 AACCCATTTTAT
66 AACTCATTTTAT
* * * * *
1063846 TTATAAAAAATATTAATATTTCAGATCCCAACTTATTTCTTAGTGAACTATGACATTCTTAGGTA
1 TAAT-AAAAATATTAACATTTCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTT-GG-G
*
1063911 CGCAACTTATTTTAT
63 CGCAACTCATTTTAT
* * ** * *
1063926 TAATAAAAATATTAGCATTCCATG-TCGTAACATATTTCTTAGTAAACCAT
1 TAATAAAAATATTAACATTTCA-GATCACAACTTATTTCTTAGTGAACCAT
1063976 TATATTTTTA
Statistics
Matches: 365, Mismatches: 60, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
74 64 0.18
76 1 0.00
77 166 0.45
78 80 0.22
79 38 0.10
80 16 0.04
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (77 bp):
TAATAAAAATATTAACATTTCAGATCACAACTTATTTCTTAGTGAACCATGACATTCTTGGGCGC
AACTCATTTTAT
Found at i:1067054 original size:6 final size:6
Alignment explanation
Indices: 1067043--1067082 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
1067033 AACACCTTCG
*
1067043 TTGCAT TTGCAT TTGCAT CTTCGCAT TTGCAT TTACAT TT
1 TTGCAT TTGCAT TTGCAT -TT-GCAT TTGCAT TTGCAT TT
1067083 ACACATAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 23 0.74
7 4 0.13
8 4 0.13
ACGTcount: A:0.17, C:0.20, G:0.12, T:0.50
Consensus pattern (6 bp):
TTGCAT
Found at i:1070837 original size:2 final size:2
Alignment explanation
Indices: 1070830--1070856 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1070820 TATACCCAGA
1070830 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1070857 CACACATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1073963 original size:2 final size:2
Alignment explanation
Indices: 1073952--1073991 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1073942 TGAAAAAAAA
*
1073952 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1073992 CAAAGTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1074416 original size:16 final size:17
Alignment explanation
Indices: 1074396--1074436 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1074386 GTAAGATATT
*
1074396 AAATAAATATA-TATAA
1 AAATAAATATAGTAAAA
*
1074412 TAATAAATATAGTAAAA
1 AAATAAATATAGTAAAA
1074429 AAATAAAT
1 AAATAAAT
1074437 TGAAATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAATAAATATAGTAAAA
Found at i:1074914 original size:37 final size:37
Alignment explanation
Indices: 1074864--1074968 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
1074854 GTGCTTGTGG
* * *
1074864 ATCCTATTTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
1074901 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
1074938 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1074969 GACGAAAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:1075818 original size:105 final size:105
Alignment explanation
Indices: 1075511--1076141 Score: 896
Period size: 105 Copynumber: 6.0 Consensus size: 105
1075501 GCATTGTTCC
* * * ** *
1075511 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTTTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * ** *
1075575 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1075617 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
1075677 CAGAGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1075717 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGATGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
1075782 CTGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1075822 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
1075887 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1075927 AAGGCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1075992 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1076032 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * * * *
1076097 CCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1076138 GAGT
1 GAGT
1076142 GTCACGATAT
Statistics
Matches: 479, Mismatches: 39, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
100 82 0.17
101 1 0.00
102 7 0.01
104 5 0.01
105 300 0.63
106 84 0.18
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1076429 original size:82 final size:83
Alignment explanation
Indices: 1076244--1076482 Score: 293
Period size: 88 Copynumber: 2.8 Consensus size: 83
1076234 AGATTGTGTC
* * *
1076244 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTGAAGGAAAACATAT-TCAAAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAAC-TATCTC-AAG----
**
1076308 CGTTAAATTGTTTTCAAAGTTTAT
60 CGAGAAATTGTTTTCAAAGTTTAT
**
1076332 GTTTGGAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACTATCTCAAGCGAGAA
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACTATCTCAAGCGAGAA
*
1076397 A-TGTTTTCAATGTTTAT
66 ATTGTTTTCAAAGTTTAT
* *
1076414 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGAGA
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGGAAACTATCTCAAGCGA
1076479 GAAA
63 GAAA
1076483 AAAAATCATT
Statistics
Matches: 135, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
82 46 0.34
83 5 0.04
84 3 0.02
85 28 0.21
87 6 0.04
88 47 0.35
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (83 bp):
GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACTATCTCAAGCGAGAA
ATTGTTTTCAAAGTTTAT
Found at i:1076572 original size:39 final size:38
Alignment explanation
Indices: 1076518--1076592 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 38
1076508 TCAATGTTTT
*
1076518 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAAATTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGA-AAAAATTTC
* *
1076557 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
1076593 AATTTCAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 10 0.31
39 22 0.69
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (38 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTC
Found at i:1076576 original size:105 final size:104
Alignment explanation
Indices: 1076394--1076615 Score: 390
Period size: 105 Copynumber: 2.1 Consensus size: 104
1076384 TCTCAAGCGA
*
1076394 GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCG
1 GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTTCTGTTTCG
*
1076459 AGGGAAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGG
66 AGGGAAACTATCTCAAGAGAG-AAAAAAATAATTTCAAGG
*
1076499 GAAATGTTTTCAATGTTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTTCTGTTTCG
1 GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTTCTGTTTCG
* *
1076564 AGGGAAACTATCTCAGGAGAGAAAAAATTAATTTCAAGG
66 AGGGAAACTATCTCAAGAGAGAAAAAAATAATTTCAAGG
1076603 GAAATGTTTTCAA
1 GAAATGTTTTCAA
1076616 GAGAAACTGT
Statistics
Matches: 112, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
104 29 0.26
105 83 0.74
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (104 bp):
GAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTTCTGTTTCG
AGGGAAACTATCTCAAGAGAGAAAAAAATAATTTCAAGG
Found at i:1076645 original size:195 final size:187
Alignment explanation
Indices: 1076316--1076670 Score: 523
Period size: 195 Copynumber: 1.9 Consensus size: 187
1076306 TTCGTTAAAT
**
1076316 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAA
1 TGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAA
* * * ***
1076381 CTATCTCAAGCGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
66 CTATCTCAAGAGAAAAATGTTTTCAAGGGAAATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
1076446 ATTTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
131 ATTTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
* * *
1076503 TGTTTTCAATGTTTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAATTTCTGTTTCGAGGG
1 TGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAA-TTC-GTTTCAAGGG
1076568 AAACTATCTCAGGAGAGAAAAAAT-TAATTTCAAGGGAAATGTTTTCAAGAGAAACTGTCTCAAG
63 AAACTATCTCA--AGAG-AAAAATGT--TTTCAAGGGAAATG-TTTCAAGAGAAACTGTCTCAAG
1076632 GGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAG
122 GGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAG
1076671 CAAGATAAAA
Statistics
Matches: 148, Mismatches: 11, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
187 41 0.28
188 4 0.03
189 3 0.02
190 20 0.14
192 4 0.03
193 5 0.03
194 10 0.07
195 61 0.41
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (187 bp):
TGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAA
CTATCTCAAGAGAAAAATGTTTTCAAGGGAAATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
ATTTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
Found at i:1076771 original size:36 final size:36
Alignment explanation
Indices: 1076731--1076844 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 36
1076721 CTTTCGAGTG
* *
1076731 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * * **
1076767 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
*
1076803 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
1076839 AAAACA
1 AAAACA
1076845 AATTTGAGTG
Statistics
Matches: 58, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
36 57 0.98
37 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:1076823 original size:72 final size:74
Alignment explanation
Indices: 1076686--1076860 Score: 216
Period size: 72 Copynumber: 2.4 Consensus size: 74
1076676 TAAAATCTTC
** * *
1076686 TTAA-AAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
*
1076750 CAAA-TCTTGTT
64 CAAAGT-ATGTT
*
1076761 TTAAGAAAAACAATCTTGAGTGAAATAAAT-CTTCTTTCGAG-AAAAACAGTCTCAAGTGAGACA
1 TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
1076824 AAGTATGTT
66 AAGTATGTT
*
1076833 TTAAGAAAAACAAAT-TTGAGTGAGATAA
1 TTAAGAAAAAC-AATCTTGAGTGAAATAA
1076861 TCATTTGCAT
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
72 48 0.53
73 15 0.17
75 8 0.09
76 19 0.21
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (74 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
AAGTATGTT
Found at i:1078309 original size:183 final size:183
Alignment explanation
Indices: 1078001--1078537 Score: 914
Period size: 183 Copynumber: 2.9 Consensus size: 183
1077991 ATCAGGTTTA
** *
1078001 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGATCTGACAAAAACAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* * **
1078066 GCCAAGTGTCCGAGCAATATCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
1078130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGGCAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
1078184 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
1078249 GCCAAGTGTCTGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
* **
1078314 TCCTCTATAACCAATTGCCTTAGTAGAATAGCTCAGCTTTAGTTGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
1078367 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACAGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
1078432 ACCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
1078497 TCCTCTATAACCAATTGCCTTAGTGGAATATCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
1078538 CGGATTTAAT
Statistics
Matches: 334, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
183 333 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:1082550 original size:13 final size:13
Alignment explanation
Indices: 1082526--1082559 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1082516 ATTTAAGGGA
1082526 AAAATAAAATAAAT
1 AAAAT-AAATAAAT
*
1082540 AAAATAAATAAGT
1 AAAATAAATAAAT
1082553 AAAATAA
1 AAAATAA
1082560 GAAAACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:1082630 original size:2 final size:2
Alignment explanation
Indices: 1082619--1082654 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1082609 ATGAAAAAAA
*
1082619 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1082655 CAAAGTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1082906 original size:16 final size:15
Alignment explanation
Indices: 1082845--1082903 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
1082835 AGGTTTTTTT
1082845 TAAAAAAT-A-ATAA
1 TAAAAAATAATATAA
* *
1082858 TATAATAATAAT-GAA
1 TA-AAAAATAATATAA
*
1082873 TAAAAAATGAAAATAA
1 TAAAAAAT-AATATAA
1082889 TAAAAAATAATATAA
1 TAAAAAATAATATAA
1082904 ATATATAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
13 2 0.06
14 10 0.29
15 13 0.37
16 10 0.29
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (15 bp):
TAAAAAATAATATAA
Found at i:1083605 original size:37 final size:37
Alignment explanation
Indices: 1083555--1083659 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
1083545 ATACTCGTGG
* * * *
1083555 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
1083592 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
1083629 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1083660 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:1085758 original size:17 final size:19
Alignment explanation
Indices: 1085733--1085769 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
1085723 TAAAATAAAA
1085733 TATAATTAT-TT-AAATAT
1 TATAATTATCTTAAAATAT
*
1085750 TATATTTATCTTAAAATAT
1 TATAATTATCTTAAAATAT
1085769 T
1 T
1085770 TGACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAATTATCTTAAAATAT
Found at i:1088026 original size:20 final size:20
Alignment explanation
Indices: 1088012--1088127 Score: 89
Period size: 20 Copynumber: 5.7 Consensus size: 20
1088002 CTCCAATTTT
1088012 GCAACACAGTTTCCAAATTC
1 GCAACACAGTTTCCAAATTC
*
1088032 GCAACTCAGTTTCTTC-AA-TC
1 GCAACACAGTTTC--CAAATTC
*
1088052 GCAACGC-GATTTCCAAATTC
1 GCAACACAG-TTTCCAAATTC
1088072 GCAACACAGAATTT-CAAATTC
1 GCAACACAG--TTTCCAAATTC
* **
1088093 GCAACTC-GATTTCTGAATTC
1 GCAACACAG-TTTCCAAATTC
1088113 GCAACACAAGTTTCC
1 GCAACAC-AGTTTCC
1088128 TTTTCGCAAC
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
18 1 0.01
19 7 0.09
20 44 0.56
21 20 0.26
22 6 0.08
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (20 bp):
GCAACACAGTTTCCAAATTC
Found at i:1088116 original size:61 final size:61
Alignment explanation
Indices: 1087987--1088117 Score: 162
Period size: 60 Copynumber: 2.2 Consensus size: 61
1087977 ATGATCAACA
* *
1087987 AATTCGCAACGCGAACTCCAATTTTGCAACACAGTTTCCAAATTCGCAACTCAGTTTCTTC
1 AATTCGCAACGCGAACTCCAAATTCGCAACACAGTTTCCAAATTCGCAACTCAGTTTCTTC
** *
1088048 AA-TCGCAACGCGATTTCCAAATTCGCAACACAGAATTT-CAAATTCGCAACTC-GATTTC-TG
1 AATTCGCAACGCGAACTCCAAATTCGCAACACAG--TTTCCAAATTCGCAACTCAG-TTTCTTC
1088108 AATTCGCAAC
1 AATTCGCAAC
1088118 ACAAGTTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
60 31 0.51
61 27 0.44
62 3 0.05
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (61 bp):
AATTCGCAACGCGAACTCCAAATTCGCAACACAGTTTCCAAATTCGCAACTCAGTTTCTTC
Found at i:1088202 original size:20 final size:20
Alignment explanation
Indices: 1088050--1088218 Score: 101
Period size: 20 Copynumber: 8.4 Consensus size: 20
1088040 GTTTCTTCAA
* * *
1088050 TCGCAACGCGATTTCCAAAT
1 TCGCAACACGATTTTCGAAT
* *
1088070 TCGCAACACAGAATTTCAAAT
1 TCGCAACAC-GATTTTCGAAT
*
1088091 TCGCAACTCGA-TTTCTGAAT
1 TCGCAACACGATTTTC-GAAT
* * ***
1088111 TCGCAACACAAGTTTCCTTT
1 TCGCAACACGATTTTCGAAT
* * *
1088131 TCGCAACAAGATTTTCTAAA
1 TCGCAACACGATTTTCGAAT
* **
1088151 TCACAACACGAATTTT-GTTT
1 TCGCAACACG-ATTTTCGAAT
* *
1088171 TCACAACTCGATTTTCGAAT
1 TCGCAACACGATTTTCGAAT
*
1088191 TCGCAACACGATTTT-TAATT
1 TCGCAACACGATTTTCGAA-T
1088211 TCGCAACA
1 TCGCAACA
1088219 ACTTTTATTT
Statistics
Matches: 114, Mismatches: 29, Indels: 12
0.74 0.19 0.08
Matches are distributed among these distances:
19 11 0.10
20 77 0.68
21 26 0.23
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (20 bp):
TCGCAACACGATTTTCGAAT
Found at i:1088394 original size:14 final size:16
Alignment explanation
Indices: 1088375--1088411 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1088365 TCCCCATCTC
1088375 TAATTTT-TTT-TACA
1 TAATTTTATTTCTACA
*
1088389 TAATTTTATTTCTATA
1 TAATTTTATTTCTACA
1088405 TAATTTT
1 TAATTTT
1088412 CAATGATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATTTTATTTCTACA
Found at i:1089020 original size:12 final size:12
Alignment explanation
Indices: 1089003--1089036 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1088993 ACCACATTTC
1089003 CAATATCAAACA
1 CAATATCAAACA
1089015 CAATATCAAACA
1 CAATATCAAACA
*
1089027 CAATCTCAAA
1 CAATATCAAA
1089037 ACCCACAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1089184 original size:24 final size:24
Alignment explanation
Indices: 1089157--1089227 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
1089147 AGTCAGTATT
*
1089157 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
*
1089181 CGAACTTTAATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
* * *
1089205 CGGACTTTGATATTGGTTAATAC
1 CGAACTTTGATCTTGGTCAATAC
1089228 TAGGATTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Done.