Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 148 of 207
Found at i:45320318 original size:11 final size:11
Alignment explanation
Indices: 45320302--45320348 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
45320292 AATTGCATAT
45320302 ATATAATGTTC
1 ATATAATGTTC
45320313 ATATAATGTTC
1 ATATAATGTTC
* *
45320324 ATAAACAT-ATC
1 ATATA-ATGTTC
45320335 ATATAATGTTC
1 ATATAATGTTC
45320346 ATA
1 ATA
45320349 ATTAACAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 2 0.07
11 26 0.87
12 2 0.07
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (11 bp):
ATATAATGTTC
Found at i:45320512 original size:45 final size:45
Alignment explanation
Indices: 45320441--45320658 Score: 233
Period size: 45 Copynumber: 4.8 Consensus size: 45
45320431 AATTGTTCAA
** * * * **
45320441 GATGCCATAGCATCTTTCAGCCATGGTCTTATTTATTTCTAACAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
* *
45320486 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGTCAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
* * * * *
45320531 GTTGCCATAGTGTTTTTCAACTATAGTCTTATTCATTTCTCGTAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
* * *
45320576 -AGTGCCATAGTGTCCTTCACCTATGGTCTTATTCATTTCTGGGAT
1 GA-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
* *
45320621 -AGTGCCATGGTGCCTTTCAACTATGGTCTTATTCATTT
1 GA-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
45320659 TTCAAGCCAA
Statistics
Matches: 146, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
45 146 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGGCAT
Found at i:45321835 original size:17 final size:17
Alignment explanation
Indices: 45321810--45321853 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
45321800 AATTCGTTTG
* *
45321810 TTTATTTTTCTTTATTTC
1 TTTATTTTT-GTTATTTA
45321828 TTTATTTTTGTTATTTA
1 TTTATTTTTGTTATTTA
45321845 TTTATTTTT
1 TTTATTTTT
45321854 ATTCCCCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTATTTTTGTTATTTA
Found at i:45342919 original size:27 final size:28
Alignment explanation
Indices: 45342889--45342946 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
45342879 GCACCTCTAA
*
45342889 TGGAT-GGTTGGGCTTATTTCTCCCTAG
1 TGGATAGGTTGGGCTCATTTCTCCCTAG
* * *
45342916 TGGATAGTTTGGGCTCCTTTCTCCTTAG
1 TGGATAGGTTGGGCTCATTTCTCCCTAG
45342944 TGG
1 TGG
45342947 GCTATCTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.10, C:0.19, G:0.29, T:0.41
Consensus pattern (28 bp):
TGGATAGGTTGGGCTCATTTCTCCCTAG
Found at i:45346897 original size:96 final size:96
Alignment explanation
Indices: 45346733--45346924 Score: 321
Period size: 96 Copynumber: 2.0 Consensus size: 96
45346723 ACCCAACCAA
** * *
45346733 AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCTGGGAAAAGGGAGATGAGAAGTGGTCTAT
1 AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCCAGGAAAAGGGAGAGGAGAAGGGGTCTAT
*
45346798 GATCAGACTTGATCTTTGGAAGGTAAGTAAT
66 GATCAGACTTAATCTTTGGAAGGTAAGTAAT
*
45346829 AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCCAGGAAATGGGAGAGGAGAAGGGGTCTAT
1 AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCCAGGAAAAGGGAGAGGAGAAGGGGTCTAT
*
45346894 GATCAGACTTAATCTTTGGAAGGTGAGTAAT
66 GATCAGACTTAATCTTTGGAAGGTAAGTAAT
45346925 CGAACAAGTC
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (96 bp):
AAACCGAAAGGGACGACCTCTAGACAAGGTAACCTCCAGGAAAAGGGAGAGGAGAAGGGGTCTAT
GATCAGACTTAATCTTTGGAAGGTAAGTAAT
Found at i:45356503 original size:31 final size:29
Alignment explanation
Indices: 45356463--45356536 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
45356453 TTAATGGCTC
*
45356463 AGTGCCTAAAATGTTACAACACGTT-AACATA
1 AGTGACTAAAATGTT--AACA-GTTAAACATA
* *
45356494 AGTGACTAAAACG-TAACATTTGAAACATA
1 AGTGACTAAAATGTTAACAGTT-AAACATA
45356523 AGTGACTAAAATGT
1 AGTGACTAAAATGT
45356537 AACTTGAGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
27 2 0.06
28 4 0.11
29 18 0.50
30 1 0.03
31 11 0.31
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTTAACAGTTAAACATA
Found at i:45356776 original size:24 final size:24
Alignment explanation
Indices: 45356746--45356800 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
45356736 TTAATTTTCA
*
45356746 TAATATA-AATTCACCATAATTAGT
1 TAATATATAATT-ACCATAATTAAT
**
45356770 TAATATATAATTGTCATAATTAAT
1 TAATATATAATTACCATAATTAAT
45356794 TAATATA
1 TAATATA
45356801 GGCTAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (24 bp):
TAATATATAATTACCATAATTAAT
Found at i:45358666 original size:3 final size:3
Alignment explanation
Indices: 45358658--45358695 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
45358648 GTCATTTCAT
*
45358658 TTC TTC TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
45358696 TTGCATTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:45361572 original size:45 final size:45
Alignment explanation
Indices: 45361486--45361578 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 45
45361476 GCTACATGTG
* * *
45361486 AAGAGGAGGATAAATTTTTATGGCTGTCTTAGTTTGTGTTTGGTTT
1 AAGAGGAGGATAAATTTCTATGCCTG-CTTAGTTTATGTTTGGTTT
*
45361532 AAGAGGAGGATAAGTTTCTATGACCTG-TTAGTTTATGTTTGGTTT
1 AAGAGGAGGATAAATTTCTATG-CCTGCTTAGTTTATGTTTGGTTT
45361577 AA
1 AA
45361579 AAGAATTATG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
45 19 0.45
46 20 0.48
47 3 0.07
ACGTcount: A:0.25, C:0.05, G:0.27, T:0.43
Consensus pattern (45 bp):
AAGAGGAGGATAAATTTCTATGCCTGCTTAGTTTATGTTTGGTTT
Found at i:45364632 original size:12 final size:12
Alignment explanation
Indices: 45364615--45364665 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
45364605 ACTTAATCAT
45364615 TTTAATATTAAA
1 TTTAATATTAAA
*
45364627 TTTAATCTAATAAA
1 TTTAA--TATTAAA
*
45364641 TATT-AGATTAAA
1 T-TTAATATTAAA
45364653 TTTAATATTAAA
1 TTTAATATTAAA
45364665 T
1 T
45364666 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
11 2 0.06
12 19 0.61
14 8 0.26
15 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:45364642 original size:21 final size:21
Alignment explanation
Indices: 45364618--45364659 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45364608 TAATCATTTT
*
45364618 AATATTAAATTTAATCTAATA
1 AATATTAAATTAAATCTAATA
* *
45364639 AATATTAGATTAAATTTAATA
1 AATATTAAATTAAATCTAATA
45364660 TTAAATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AATATTAAATTAAATCTAATA
Found at i:45365179 original size:19 final size:19
Alignment explanation
Indices: 45365141--45365180 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
45365131 AAAATATCAT
* *
45365141 ATTAATTTTAATTGATTTG
1 ATTAATTTAAATTGACTTG
*
45365160 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTGACTTG
45365179 AT
1 AT
45365181 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:45373836 original size:188 final size:188
Alignment explanation
Indices: 45373463--45374404 Score: 1568
Period size: 187 Copynumber: 5.0 Consensus size: 188
45373453 ATTAGATACC
* * * * *
45373463 TTAAGCTCTTATGGTCTGAAAACACACGACACTTCTCCCTATAAAGGTAGTGTCTTTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
** ** * *
45373528 AGTGCCAACACTACCGTTGC-AGCTTTAAGTCTTGAGTTGGATAATTCTTTTAATGTGGCTTGAG
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGA-
* * **
45373592 T-TAGCGAGATGTATAGGCCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
130 TCTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
*
45373650 TTAAGCTCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
* *
45373715 AGCACCAACACTACCACTGAAAGCTTTATGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
* * *
45373780 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGTATACACTCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
*
45373838 TTAAGCTTTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
* *
45373903 AGCATCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGTGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
*
45373968 CTGGTGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
45374026 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCT-CCCATAAAGGTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
45374090 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
*
45374155 CTGGCGAGATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
* *
45374213 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCT-CCCATAAAAGTAGTGTCTCTAGATTTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
45374277 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
* * *
45374342 CTGGCGAGATGCATACACCACAACCTTTTCTTTTTGCATAAGCACACATCCTAACCCA
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
45374400 TTAAG
1 TTAAG
45374405 GGATGCATTA
Statistics
Matches: 713, Mismatches: 40, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
187 410 0.58
188 303 0.42
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (188 bp):
TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
Found at i:45374153 original size:375 final size:376
Alignment explanation
Indices: 45373463--45374404 Score: 1577
Period size: 375 Copynumber: 2.5 Consensus size: 376
45373453 ATTAGATACC
* * * * *
45373463 TTAAGCTCTTATGGTCTGAAAACACACGACACTTCTCCCTATAAAGGTAGTGTCTTTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
** ** *
45373528 AGTGCCAACACTACCGTTGC-AGCTTTAAGTCTTGAGTTGGATAATTCTTTTAATGTGGCTTGAG
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGTGGCTTGA-
* * **
45373592 T-TAGCGAGATGTATAGGCCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAGC
130 TCTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAGC
45373656 TCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTTAGCACC
195 TCTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTTAGCACC
*
45373721 AACACTACCACTGAAAGCTTTATGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCG
260 AACACTACCACTGAAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCG
* * * *
45373786 AGATGCATACACCACAACCTTTTCTCTTTGCATAAGTATACACTCTAGCCCA
325 AGATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
*
45373838 TTAAGCTTTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
*
45373903 AGCATCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGTGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGTGGCTTGAT
*
45373968 CTGGTGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAGCT
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAGCT
*
45374033 CTTATGGTCTAAAAACACATGACCCTTCT-CCCATAAAGGTAGTGTCTCTAGATCTTTAGCACCA
196 CTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTTAGCACCA
*
45374097 ACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCGA
261 ACACTACCACTGAAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCGA
45374162 GATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
326 GATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
* *
45374213 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCT-CCCATAAAAGTAGTGTCTCTAGATTTTT
1 TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
*
45374277 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGAT
66 AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGTGGCTTGAT
* * *
45374342 CTGGCGAGATGCATACACCACAACCTTTTCTTTTTGCATAAGCACACATCCTAACCCATTAAG
131 CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAG
45374405 GGATGCATTA
Statistics
Matches: 532, Mismatches: 33, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
374 148 0.28
375 255 0.48
376 129 0.24
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (376 bp):
TTAAGCTCTTATGGTCTAAAAACACATGACCCTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTT
AGCACCAACACTACCACTGCAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGTGGCTTGAT
CTGGCGAGATGCATACACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCATTAAGCT
CTTATGGTCTAAAAACACATGACACTTCTCCCCATAAAGGTAGTGTCTCTAGATCTTTAGCACCA
ACACTACCACTGAAAGCTTTAAGTCTTGAGTTGGATAATTATTTTAATGCGGCTTGATCTGGCGA
GATGCATAAACCACAACCTTTTCTCTTTGCATAAGCACACACCCTAGCCCA
Found at i:45382012 original size:26 final size:26
Alignment explanation
Indices: 45381983--45382051 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
45381973 CATTTCGACC
* * *
45381983 CACATCTCGTGTGAGTAGGCCTATTT
1 CACAGCTCGTGTGAGCAGACCTATTT
* *
45382009 CACAGCTTGTGTGAGCATACCTATTT
1 CACAGCTCGTGTGAGCAGACCTATTT
45382035 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
45382052 ACTATGTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCTATTT
Found at i:45394192 original size:9 final size:9
Alignment explanation
Indices: 45394178--45394211 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
45394168 CTTTTCAAAT
*
45394178 TCGAATAAC
1 TCGAATAAA
*
45394187 TCGAATAAT
1 TCGAATAAA
45394196 TCGAATAAA
1 TCGAATAAA
45394205 TCGAATA
1 TCGAATA
45394212 TTAAACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAA
Found at i:45394198 original size:18 final size:18
Alignment explanation
Indices: 45394175--45394211 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
45394165 TTGCTTTTCA
*
45394175 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCGAAT
45394193 AATTCGAATAAATCGAAT
1 AATTCGAATAAATCGAAT
45394211 A
1 A
45394212 TTAAACAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCGAAT
Found at i:45400327 original size:24 final size:23
Alignment explanation
Indices: 45400289--45400336 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
45400279 TTTTTTTGTA
45400289 ATTTTATTAAATTTTAAATATTT
1 ATTTTATTAAATTTTAAATATTT
* *
45400312 ATTTTTTTAAAGTTTTATATATTT
1 ATTTTATTAAA-TTTTAAATATTT
45400336 A
1 A
45400337 CCTGAACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTATTAAATTTTAAATATTT
Found at i:45404800 original size:28 final size:28
Alignment explanation
Indices: 45404738--45404888 Score: 232
Period size: 28 Copynumber: 5.4 Consensus size: 28
45404728 ATATTAAGTC
* *
45404738 CGCACACTCAGTCCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45404765 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
45404793 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
45404821 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
45404849 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45404878 CGCACACTTAG
1 CGCACACTTAG
45404889 CGCCAATCTC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
27 21 0.18
28 79 0.68
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45409423 original size:15 final size:16
Alignment explanation
Indices: 45409403--45409440 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
45409393 ATTAAACTAG
45409403 TTTAATTAACTTAA-C
1 TTTAATTAACTTAAGC
45409418 TTTAATT-ACTTAAGC
1 TTTAATTAACTTAAGC
45409433 TTTAATTA
1 TTTAATTA
45409441 TCAATTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (16 bp):
TTTAATTAACTTAAGC
Found at i:45420181 original size:17 final size:17
Alignment explanation
Indices: 45420161--45420203 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
45420151 ATAAATTTAA
* *
45420161 ATATTATATTTATATTT
1 ATATTATATATATAATT
45420178 ATATTAAATATATATAATT
1 ATATT--ATATATATAATT
45420197 ATATTAT
1 ATATTAT
45420204 TATTAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 7 0.32
19 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTATATATATAATT
Found at i:45420188 original size:19 final size:19
Alignment explanation
Indices: 45420166--45420202 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45420156 TTTAAATATT
* *
45420166 ATATTTATATTTATATTAA
1 ATATATATAATTATATTAA
45420185 ATATATATAATTATATTA
1 ATATATATAATTATATTA
45420203 TTATTAAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATATATAATTATATTAA
Found at i:45420199 original size:25 final size:24
Alignment explanation
Indices: 45420157--45420209 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
45420147 TATAATAAAT
*
45420157 TTAAATATTATATTTATATT-TATA
1 TTAAATATTATAATTATATTAT-TA
45420181 TTAAATATATATAATTATATTATTA
1 TTAAATAT-TATAATTATATTATTA
45420206 TTAA
1 TTAA
45420210 GTAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.31
25 17 0.65
26 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTAAATATTATAATTATATTATTA
Found at i:45423694 original size:13 final size:13
Alignment explanation
Indices: 45423676--45423709 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
45423666 TAAATTTTGG
45423676 GTTTCAAATTTTT
1 GTTTCAAATTTTT
45423689 GTTTCAAATTTTT
1 GTTTCAAATTTTT
45423702 GTTTCAAA
1 GTTTCAAA
45423710 AAGAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (13 bp):
GTTTCAAATTTTT
Found at i:45428777 original size:43 final size:43
Alignment explanation
Indices: 45428726--45428840 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
45428716 ATGTTCCAAT
*
45428726 ATCGATTTGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* *
45428769 ATTGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
** *
45428812 ATCGATACGAGATTTCCATGTAAGACCAT
1 ATCGATTTGAGATTT-CGTGTAAGACCAT
45428841 GTCTGAGACA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 52 0.81
44 12 0.19
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:45435783 original size:32 final size:32
Alignment explanation
Indices: 45435747--45435831 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
45435737 AGGCTGATAA
45435747 TAAAACTCAGCATTTTATTAACAGATTGATTG
1 TAAAACTCAGCATTTTATTAACAGATTGATTG
45435779 TAAAACTCAGCATTTTATTAACAGATTGATTG
1 TAAAACTCAGCATTTTATTAACAGATTGATTG
45435811 TAAAACTCAGC-TTTTCATTAA
1 TAAAACTCAGCATTTT-ATTAA
45435832 TAGGAAACTC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
31 4 0.08
32 48 0.92
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (32 bp):
TAAAACTCAGCATTTTATTAACAGATTGATTG
Found at i:45437981 original size:4 final size:4
Alignment explanation
Indices: 45437972--45438001 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
45437962 CGAGTGGGTA
45437972 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GG
45438002 GATTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.77, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:45438040 original size:25 final size:24
Alignment explanation
Indices: 45438007--45438060 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
45437997 GAGGGGATTT
*
45438007 TTATTTTATTTAATAATAATATAA
1 TTATTTTATTTAATAATAACATAA
*
45438031 TTATATTTATTTAATATTAACATAA
1 TTAT-TTTATTTAATAATAACATAA
*
45438056 ATATT
1 TTATT
45438061 AATATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATTTTATTTAATAATAACATAA
Found at i:45438090 original size:18 final size:19
Alignment explanation
Indices: 45438053--45438090 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
45438043 AATATTAACA
45438053 TAAATATTAATATAATATT
1 TAAATATTAATATAATATT
* *
45438072 TAAAT-TTATTATCATATT
1 TAAATATTAATATAATATT
45438090 T
1 T
45438091 TTAAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATATTAATATAATATT
Found at i:45440083 original size:23 final size:23
Alignment explanation
Indices: 45440049--45440102 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
45440039 ATTTTAAAAA
45440049 TAAAAC-TTATTTAAGTACAAAT
1 TAAAACATTATTTAAGTACAAAT
**
45440071 TAAAACATTATTTTGGTACAAAT
1 TAAAACATTATTTAAGTACAAAT
45440094 TAAAA-ATTA
1 TAAAACATTA
45440103 AACATTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (23 bp):
TAAAACATTATTTAAGTACAAAT
Found at i:45445929 original size:16 final size:17
Alignment explanation
Indices: 45445903--45445942 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
45445893 ATAAAAATTT
45445903 ATTTT-AAAAA-TTAAA
1 ATTTTAAAAAATTTAAA
45445918 ATTTTAAAAAATTTAAA
1 ATTTTAAAAAATTTAAA
*
45445935 ATTCTAAA
1 ATTTTAAA
45445943 GAAGATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 5 0.23
17 12 0.55
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTTAAAAAATTTAAA
Found at i:45454356 original size:19 final size:19
Alignment explanation
Indices: 45454334--45454377 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
45454324 TTATTTTTTT
45454334 ATTTTTATGAACTTTT-ATA
1 ATTTTTATGAA-TTTTGATA
* *
45454353 ATTTTTTTTAATTTTGATA
1 ATTTTTATGAATTTTGATA
45454372 ATTTTT
1 ATTTTT
45454378 CATAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (19 bp):
ATTTTTATGAATTTTGATA
Found at i:45454366 original size:29 final size:28
Alignment explanation
Indices: 45454327--45454384 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
45454317 TTTCATGTTA
*
45454327 TTTTTTTATTTTTATGAACTTTT-ATAAT
1 TTTTTTTATTTTGAT-AACTTTTCATAAT
*
45454355 TTTTTTTAATTTTGATAATTTTTCATAAT
1 TTTTTTT-ATTTTGATAACTTTTCATAAT
45454384 T
1 T
45454385 ATTAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTTTTATTTTGATAACTTTTCATAAT
Found at i:45454383 original size:19 final size:18
Alignment explanation
Indices: 45454346--45454384 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
45454336 TTTTATGAAC
**
45454346 TTTTATAATTTTTTTTAA
1 TTTTATAATTTTTCATAA
45454364 TTTTGATAATTTTTCATAA
1 TTTT-ATAATTTTTCATAA
45454383 TT
1 TT
45454385 ATTAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTCATAA
Found at i:45454867 original size:18 final size:18
Alignment explanation
Indices: 45454822--45454868 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
45454812 AAACTACAAA
45454822 TAATAAAAAAATATGTTT
1 TAATAAAAAAATATGTTT
45454840 TAA-AGGAAAAAATTAT-TTT
1 TAATA--AAAAAA-TATGTTT
45454859 TAATAAAAAA
1 TAATAAAAAA
45454869 TGAGAGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 12 0.48
20 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
TAATAAAAAAATATGTTT
Found at i:45467972 original size:21 final size:20
Alignment explanation
Indices: 45467948--45468011 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
45467938 GCTCCTGTTT
45467948 AACTCATATGAGTTTCCGTTC
1 AACTC-TATGAGTTTCCGTTC
* ** *
45467969 AACTCTATTGAGCTTATGTTT
1 AACTCTA-TGAGTTTCCGTTC
*
45467990 AACTCTTATGGGTTTCCGTTC
1 AACTC-TATGAGTTTCCGTTC
45468011 A
1 A
45468012 GCTTTTACGA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (20 bp):
AACTCTATGAGTTTCCGTTC
Found at i:45468705 original size:14 final size:14
Alignment explanation
Indices: 45468686--45468715 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45468676 TTTTGACCGT
45468686 AATATATTTCAAAA
1 AATATATTTCAAAA
45468700 AATATATTTCAAAA
1 AATATATTTCAAAA
45468714 AA
1 AA
45468716 GAAAAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATATTTCAAAA
Found at i:45470574 original size:50 final size:50
Alignment explanation
Indices: 45470520--45471175 Score: 569
Period size: 50 Copynumber: 13.2 Consensus size: 50
45470510 ACAATTAAAT
* * * *
45470520 AGATTAAAGCTACAACAGCGAATCTTACTTCCGTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * * **
45470570 AGATTGAAGCTACAACGGCGAATATTGCTTCCCTGACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * *
45470620 AGTTTGAAGCTATAACAGTGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * * ** *
45470670 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * * *
45470720 AGATTGAAGCTACGACAGCGAATGTTACTTCCTTCG-CGGTGAAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GACAGTGCAGTGGAAC
* * * * * * ** *
45470770 AGATTGAAGCTACAACGGCAAATCTTGCATCCCCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
** *
45470820 AGATTGAAGCTATGACAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * * * **
45470870 AAATTGAAGCTACAACGGTGAATCTTACTTCCGC-GACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCC-CTGACAGTGCAGTGGAAC
* * * *
45470920 AGATTGAAGCTACGATAGCAAATCTTACTTCCCT-AGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGA-CAGTGCAGTGGAAC
* * * ** * * **
45470970 AGATTGAAGCTACAACGGCCAATTTTGTTTCCCCGACATTGCAGTTAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
* * *
45471020 AGATTGAAGCTACGACAGCGAATCTTACTTCCCTGACAGTACAATGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
** * * * ** *
45471070 AGATTGAAGCTACAATGGCGAATCTTGCTTCCC-GACATTGTAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
*
45471119 AGATTGAA---A-ATA-A-CGAATCTTATTTCCCTGA-AGTTGCAGTGGAAC
1 AGATTGAAGCTACA-ACAGCGAATCTTACTTCCCTGACAG-TGCAGTGGAAC
45471164 AGATTGAAGCTA
1 AGATTGAAGCTA
45471176 TAAATTACAT
Statistics
Matches: 463, Mismatches: 131, Indels: 26
0.75 0.21 0.04
Matches are distributed among these distances:
44 14 0.03
45 18 0.04
46 2 0.00
48 1 0.00
49 20 0.04
50 405 0.87
51 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGCAGTGGAAC
Found at i:45470644 original size:100 final size:100
Alignment explanation
Indices: 45470514--45471175 Score: 886
Period size: 100 Copynumber: 6.7 Consensus size: 100
45470504 GGCATTACAA
* * * *
45470514 TTAAATAGATTAAAGCTACAACAGCGAATCTTACTTCCGTGGCGGTGCAGTGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
* *
45470579 CTACAACGGCGAATATTGCTTCCCTGACATTGCAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* ** * *
45470614 TTAAACAGTTTGAAGCTATAACAGTGAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
45470679 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * * * *
45470714 TTAAATAGATTGAAGCTACGACAGCGAATGTTACTTCCTTCGCGGTGAAGTGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
* *
45470779 CTACAACGGCAAATCTTGCATCCCCGACATTGCAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * * *
45470814 TTAAATAGATTGAAGCTATGACAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAACAAATTGAAG
1 TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
* * *
45470879 CTACAACGGTGAATCTTACTTCCGCGACATTGCAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * *
45470914 TTAAACAGATTGAAGCTACGATAGCAAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
* * *
45470979 CTACAACGGCCAATTTTGTTTCCCCGACATTGCAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * * *
45471014 TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGACAGTACAATGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
* *
45471079 CTACAATGGCGAATCTTGCTT-CCCGACATTGTAG
66 CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
* * * * ** *
45471113 TTAAATAGATTGAA---A--ATAACGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
45471173 CTA
66 CTA
45471176 TAAATTACAT
Statistics
Matches: 495, Mismatches: 67, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
94 40 0.08
96 1 0.00
99 25 0.05
100 429 0.87
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
TTAAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAG
CTACAACGGCGAATCTTGCTTCCCCGACATTGCAG
Found at i:45471285 original size:40 final size:41
Alignment explanation
Indices: 45471186--45471287 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 41
45471176 TAAATTACAT
* *
45471186 ATCTTATCTCTCTAAAATTGCAGTAGAGCAGATCATATCAA
1 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAACAA
* * * * * * *
45471227 ACCTTATCTCCCTTAAGTTGCAGTGGAGCAGGTTA-AACCA
1 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAACAA
*
45471267 ATCTTATCTCTCTGAAGTTGC
1 ATCTTATCTCTCTAAAGTTGC
45471288 TGCGAAGAAG
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
40 21 0.43
41 28 0.57
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (41 bp):
ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAACAA
Found at i:45472818 original size:3 final size:3
Alignment explanation
Indices: 45472812--45472852 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
45472802 AAACTAATAA
* * *
45472812 ATT ATT ATT GTT ATT ATT ATT ATT AAT ATT ATT TTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45472853 CATCATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:45475000 original size:9 final size:9
Alignment explanation
Indices: 45474953--45475004 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
45474943 ATTTTCTTAC
45474953 TATTTTATA
1 TATTTTATA
*
45474962 AACTTTTATA
1 TA-TTTTATA
*
45474972 T-TTTTTTA
1 TATTTTATA
*
45474980 TGTTTCTATA
1 TATTT-TATA
45474990 TATTTTATA
1 TATTTTATA
45474999 TATTTT
1 TATTTT
45475005 TTTACGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 7 0.20
9 14 0.40
10 14 0.40
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
TATTTTATA
Found at i:45475044 original size:18 final size:18
Alignment explanation
Indices: 45474991--45475062 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 18
45474981 GTTTCTATAT
45474991 ATTTTATATATTTTTTTACG
1 ATTTT-TATA-TTTTTTACG
** *
45475011 ATTTTTATAAAATTTTACC
1 ATTTTTAT-ATTTTTTACG
45475030 ATTTTTATATTTTTTACG
1 ATTTTTATATTTTTTACG
45475048 ATTTTTATATTTTTT
1 ATTTTTATATTTTTT
45475063 TTCTAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 22 0.49
19 17 0.38
20 6 0.13
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTTATATTTTTTACG
Found at i:45475063 original size:58 final size:55
Alignment explanation
Indices: 45474918--45475098 Score: 158
Period size: 58 Copynumber: 3.2 Consensus size: 55
45474908 TTTTTCGAAA
* * *
45474918 TTTATATTTCTTTACATTTTGTATA-ATTTTCTTAC-TATTTTATAAACTTTTATATT
1 TTTATATTT-TTTACATTTT-TATATATTTTTTTACAT-TTTTATAAAATTTTACATT
* * *
45474974 TTTTTATGTTTCTATATATTTTATATATTTTTTTACGATTTTTATAAAATTTTACCATT
1 TTTATAT-TTTTTACAT-TTTTATATATTTTTTTAC-ATTTTTATAAAATTTTA-CATT
* *
45475033 TTTATATTTTTTACGATTTTTATATTTTTTTTCTA-ATTTTTA-ATAAATTTTA-ATA
1 TTTATATTTTTTAC-ATTTTTATATATTTTTT-TACATTTTTATA-AAATTTTACATT
45475088 TTTA-ATTTTTT
1 TTTATATTTTTT
45475099 TATTAAAATT
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
54 7 0.07
55 6 0.06
56 16 0.15
57 29 0.28
58 33 0.31
59 14 0.13
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (55 bp):
TTTATATTTTTTACATTTTTATATATTTTTTTACATTTTTATAAAATTTTACATT
Found at i:45475072 original size:57 final size:55
Alignment explanation
Indices: 45474918--45475098 Score: 165
Period size: 57 Copynumber: 3.2 Consensus size: 55
45474908 TTTTTCGAAA
* * * *
45474918 TTTATATTTCTTTACATTTTGTATAATTTTCTTACTA-TTTTATAAACTTTTATATT
1 TTTATATTT-TTTACATTTTATAT-ATTTTTTTACTATTTTTATAAAATTTTACATT
* * *
45474974 TTTTTATGTTTCTATATATTTTATATATTTTTTTACGATTTTTATAAAATTTTACCATT
1 TTTATAT-TTT-T-TACATTTTATATATTTTTTTACTATTTTTATAAAATTTTA-CATT
* *
45475033 TTTATATTTTTTACGATTTT-TATATTTTTTTTCTAATTTTTA-ATAAATTTTA-ATA
1 TTTATATTTTTTAC-ATTTTATATATTTTTTTACT-ATTTTTATA-AAATTTTACATT
45475088 TTTA-ATTTTTT
1 TTTATATTTTTT
45475099 TATTAAAATT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
54 7 0.07
55 6 0.06
56 22 0.21
57 34 0.32
58 27 0.26
59 9 0.09
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (55 bp):
TTTATATTTTTTACATTTTATATATTTTTTTACTATTTTTATAAAATTTTACATT
Found at i:45475112 original size:10 final size:10
Alignment explanation
Indices: 45475097--45475121 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45475087 ATTTAATTTT
45475097 TTTATTAAAA
1 TTTATTAAAA
45475107 TTTATTAAAA
1 TTTATTAAAA
45475117 TTTAT
1 TTTAT
45475122 AGCTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTATTAAAA
Found at i:45475156 original size:12 final size:12
Alignment explanation
Indices: 45475139--45475164 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45475129 ATTGATTTTA
45475139 TTTTTTTATAAT
1 TTTTTTTATAAT
45475151 TTTTTTTATAAT
1 TTTTTTTATAAT
45475163 TT
1 TT
45475165 GTAATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTATAAT
Found at i:45479125 original size:10 final size:10
Alignment explanation
Indices: 45479110--45479142 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
45479100 ATTTTTCAAT
45479110 TTTAAAATTA
1 TTTAAAATTA
45479120 TTTAAAATTA
1 TTTAAAATTA
*
45479130 TTTAAAATAA
1 TTTAAAATTA
45479140 TTT
1 TTT
45479143 TTAAATGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTTAAAATTA
Found at i:45480450 original size:21 final size:18
Alignment explanation
Indices: 45480424--45480463 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
45480414 AGAGATGTGG
45480424 AAATATCTAAGAAAAAATGGA
1 AAATAT-TAA-AAAAAA-GGA
45480445 AAATATTAAAAAAAAGGA
1 AAATATTAAAAAAAAGGA
45480463 A
1 A
45480464 TAAAGGGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 3 0.16
21 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.17
Consensus pattern (18 bp):
AAATATTAAAAAAAAGGA
Found at i:45481323 original size:16 final size:16
Alignment explanation
Indices: 45481304--45481334 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45481294 ATTATTTTAA
45481304 ATTTTAATTAGATAAT
1 ATTTTAATTAGATAAT
*
45481320 ATTTTATTTAGATAA
1 ATTTTAATTAGATAA
45481335 ATGAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATTTTAATTAGATAAT
Found at i:45489344 original size:20 final size:20
Alignment explanation
Indices: 45489315--45489374 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
45489305 ATTTTAAAAT
* *
45489315 CAAGTGAAAATTATTTTAAC
1 CAAGTTAAAATCATTTTAAC
* * *
45489335 CAAGTTAAAATGATCTTAAT
1 CAAGTTAAAATCATTTTAAC
*
45489355 TAAGTTAAAATCATTTTAAC
1 CAAGTTAAAATCATTTTAAC
45489375 ACATCAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (20 bp):
CAAGTTAAAATCATTTTAAC
Found at i:45491800 original size:11 final size:11
Alignment explanation
Indices: 45491769--45491817 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
45491759 TTTAAAATTT
45491769 AAAATTTATTAA
1 AAAATTTA-TAA
45491781 AAAA--T-TAA
1 AAAATTTATAA
45491789 AAAATTTATAA
1 AAAATTTATAA
45491800 AAAATTTTATAA
1 AAAA-TTTATAA
45491812 AAAATT
1 AAAATT
45491818 AAAATTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.21
10 2 0.06
11 9 0.27
12 15 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTTATAA
Found at i:45491821 original size:19 final size:19
Alignment explanation
Indices: 45491762--45491805 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
45491752 AAGTCCTTTT
*
45491762 AAAATTTAAAATTTATTAA
1 AAAATTAAAAATTTATTAA
45491781 AAAATTAAAAAATTTA-TAA
1 AAAATT-AAAAATTTATTAA
45491800 AAAATT
1 AAAATT
45491806 TTATAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTAAAAATTTATTAA
Found at i:45491821 original size:20 final size:20
Alignment explanation
Indices: 45491769--45491805 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
45491759 TTTAAAATTT
45491769 AAAATTTATTAAAAAATTAA
1 AAAATTTATTAAAAAATTAA
45491789 AAAATTTA-TAAAAAATT
1 AAAATTTATTAAAAAATT
45491806 TTATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATTTATTAAAAAATTAA
Found at i:45492888 original size:30 final size:31
Alignment explanation
Indices: 45492833--45492907 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
45492823 CAAAAATATT
*
45492833 AAAAATGAATAAATTTTACAAAATAT-TAT-AA
1 AAAAAT-AA-AAATATTACAAAATATATATGAA
* *
45492864 AAAGCATAAAAATATTAGAAAATATATATGAA
1 AAA-AATAAAAATATTACAAAATATATATGAA
45492896 AAAAATAAAAAT
1 AAAAATAAAAAT
45492908 CATTTTTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
30 14 0.38
31 16 0.43
32 7 0.19
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (31 bp):
AAAAATAAAAATATTACAAAATATATATGAA
Found at i:45493113 original size:18 final size:18
Alignment explanation
Indices: 45493090--45493166 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 18
45493080 AGGTTGTATA
*
45493090 TAAAATTGTAAATATTTT
1 TAAAATTGTATATATTTT
*
45493108 TAAAATTTGTATCT-TTTT
1 TAAAA-TTGTATATATTTT
*
45493126 TAAAATTTTATATAATTTT
1 TAAAATTGTATAT-ATTTT
* *
45493145 TAAAATTTTCTATTATTTT
1 TAAAATTGTATA-TATTTT
45493164 TAA
1 TAA
45493167 TATTTTTTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.12
18 14 0.28
19 29 0.58
20 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TAAAATTGTATATATTTT
Found at i:45493134 original size:9 final size:9
Alignment explanation
Indices: 45493098--45493173 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
45493088 TATAAAATTG
45493098 TAAATATTTT
1 TAAA-ATTTT
*
45493108 TAAAATTTG
1 TAAAATTTT
***
45493117 TATCTTTTT
1 TAAAATTTT
45493126 TAAAATTTT
1 TAAAATTTT
*
45493135 ATATAATTTT
1 -TAAAATTTT
45493145 TAAAATTTT
1 TAAAATTTT
**
45493154 CTATTATTTT
1 -TAAAATTTT
*
45493164 TAATATTTT
1 TAAAATTTT
45493173 T
1 T
45493174 TGCACTTTTC
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
9 32 0.63
10 19 0.37
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
TAAAATTTT
Found at i:45493163 original size:29 final size:29
Alignment explanation
Indices: 45493130--45493203 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
45493120 CTTTTTTAAA
45493130 ATTTTAT-ATAATTTTTAAAATTTTCTATT
1 ATTTTATAATAATTTTTAAAATTTTCTA-T
* ** *
45493159 ATTTT-TAATATTTTTTGCACTTTTCTAT
1 ATTTTATAATAATTTTTAAAATTTTCTAT
45493187 ATTTTTATAATAATTTT
1 A-TTTTATAATAATTTT
45493204 CTATATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 3 0.08
29 25 0.68
30 9 0.24
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (29 bp):
ATTTTATAATAATTTTTAAAATTTTCTAT
Found at i:45493410 original size:38 final size:35
Alignment explanation
Indices: 45493345--45493420 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 35
45493335 TGCATTTATA
** *
45493345 TTTATTTTTTATAATTTTTTTGTGATTTTGAATAT
1 TTTATTTTTTATAATTTTTTTACGATTTTCAATAT
*
45493380 TTTAGTTTTTTAATAATTTCTTTTACGATTTTCAGTAT
1 TTTA-TTTTTT-ATAATTT-TTTTACGATTTTCAATAT
45493418 TTT
1 TTT
45493421 TTACCGATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 4 0.12
36 6 0.18
37 7 0.21
38 17 0.50
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.66
Consensus pattern (35 bp):
TTTATTTTTTATAATTTTTTTACGATTTTCAATAT
Found at i:45496271 original size:18 final size:19
Alignment explanation
Indices: 45496244--45496279 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45496234 TGTTTTCACC
*
45496244 TTTTTTCTTTTTC-TTTCA
1 TTTTTGCTTTTTCATTTCA
45496262 TTTTTGCTTTTTCATTTC
1 TTTTTGCTTTTTCATTTC
45496280 CAGCAAGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTTGCTTTTTCATTTCA
Found at i:45497237 original size:27 final size:26
Alignment explanation
Indices: 45497201--45497255 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
45497191 TATAAAATAT
*
45497201 TTATTTTATATTATAA-AAAAATTAAA
1 TTATTTTATATTA-AATAAAAATAAAA
45497227 TTATTTATATATTAAATAAAAATAAAA
1 TTATTT-TATATTAAATAAAAATAAAA
45497254 TT
1 TT
45497256 TAATTCGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTATTTTATATTAAATAAAAATAAAA
Found at i:45497247 original size:26 final size:26
Alignment explanation
Indices: 45497201--45497252 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
45497191 TATAAAATAT
*
45497201 TTATTTTATATTATAAAAAAATTAAA
1 TTATTTTATATTATAAAAAAAATAAA
*
45497227 TTATTTATATATTA-AATAAAAATAAA
1 TTATTT-TATATTATAAAAAAAATAAA
45497253 ATTTAATTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TTATTTTATATTATAAAAAAAATAAA
Found at i:45515160 original size:33 final size:34
Alignment explanation
Indices: 45515102--45515167 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
45515092 TAAGGGGTGT
*
45515102 TACATCACTGTTCAATTTTTTTTACTTGTATTGA
1 TACATCACTGCTCAATTTTTTTTACTTGTATTGA
45515136 TACATCACTGCTCAA-TTTTTTTACTTGTATTG
1 TACATCACTGCTCAATTTTTTTTACTTGTATTG
45515168 GTACTTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 17 0.55
34 14 0.45
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.52
Consensus pattern (34 bp):
TACATCACTGCTCAATTTTTTTTACTTGTATTGA
Found at i:45515330 original size:15 final size:15
Alignment explanation
Indices: 45515312--45515341 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45515302 TTTTACCATA
45515312 TTGAATGTTGAATTT
1 TTGAATGTTGAATTT
45515327 TTGAATGTTGAATTT
1 TTGAATGTTGAATTT
45515342 GTATATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
TTGAATGTTGAATTT
Found at i:45515700 original size:10 final size:10
Alignment explanation
Indices: 45515669--45515772 Score: 69
Period size: 10 Copynumber: 10.6 Consensus size: 10
45515659 AAGATTAATA
45515669 AAAAACTTA-T
1 AAAAA-TTATT
45515679 AAAAA-TATTT
1 AAAAATTA-TT
45515689 AAAAATTATT
1 AAAAATTATT
*
45515699 AATAATTA-T
1 AAAAATTATT
45515708 AAGAAATTA-T
1 AA-AAATTATT
45515718 AAGAAATTATT
1 AA-AAATTATT
*
45515729 -AAATTTATT
1 AAAAATTATT
**
45515738 AAAGAA-TAAC
1 AAA-AATTATT
45515748 AAAAA-TATT
1 AAAAATTATT
*
45515757 TAAAATTATT
1 AAAAATTATT
45515767 AAAAAT
1 AAAAAT
45515773 CACGTCTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
8 2 0.03
9 18 0.24
10 52 0.68
11 4 0.05
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.36
Consensus pattern (10 bp):
AAAAATTATT
Found at i:45515726 original size:30 final size:29
Alignment explanation
Indices: 45515675--45515772 Score: 80
Period size: 29 Copynumber: 3.3 Consensus size: 29
45515665 AATAAAAAAC
*
45515675 TTATAAAAATATTTAAAAATTATTAATAA
1 TTATAAAAATATATAAAAATTATTAATAA
*
45515704 TTATAAGAAAT-TATAAGAAATTATTAA-AT
1 TTATAA-AAATATATAA-AAATTATTAATAA
*
45515733 TTATTAAAGAATA-ACAAAAA-TATTTAA-AA
1 TTA-TAAA-AATATATAAAAATTA-TTAATAA
45515762 TTATTAAAAAT
1 TTA-TAAAAAT
45515773 CACGTCTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
28 5 0.08
29 31 0.53
30 23 0.39
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (29 bp):
TTATAAAAATATATAAAAATTATTAATAA
Found at i:45517442 original size:21 final size:22
Alignment explanation
Indices: 45517396--45517442 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
45517386 ATTTAACCAT
* * *
45517396 TATTTTATTTTATTTATTTTTA
1 TATTTAATTTTATATATTTTAA
45517418 -ATTTAATTTT-TATATTTTAA
1 TATTTAATTTTATATATTTTAA
45517438 TATTT
1 TATTT
45517443 TCGTTTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTAATTTTATATATTTTAA
Found at i:45519337 original size:46 final size:46
Alignment explanation
Indices: 45519266--45519361 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
45519256 TTATAAGATG
45519266 TTCAAAAAACTTGGTCTTGGAAAACCCAAACCCACTAGGATGAGTA
1 TTCAAAAAACTTGGTCTTGGAAAACCCAAACCCACTAGGATGAGTA
*
45519312 TTCAAAAAACTTGGTCTTGGGAAACCCAAACCCACTAGGATGAGTA
1 TTCAAAAAACTTGGTCTTGGAAAACCCAAACCCACTAGGATGAGTA
45519358 TTCA
1 TTCA
45519362 GTTAGCGAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (46 bp):
TTCAAAAAACTTGGTCTTGGAAAACCCAAACCCACTAGGATGAGTA
Found at i:45521214 original size:5 final size:5
Alignment explanation
Indices: 45521204--45521246 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
45521194 TCCTCCTCTC
* *
45521204 TTATT TTATT TTACTT ATTATT TTATT ATATT TTATT ATATT T
1 TTATT TTATT TTA-TT -TTATT TTATT TTATT TTATT TTATT T
45521247 ATTATTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 25 0.78
6 4 0.12
7 3 0.09
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:45521237 original size:10 final size:10
Alignment explanation
Indices: 45521204--45521251 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
45521194 TCCTCCTCTC
*
45521204 TTATTTTATT
1 TTATTATATT
45521214 TTACTTATTATT
1 TTA-TTA-TATT
45521226 TTATTATATT
1 TTATTATATT
45521236 TTATTATA-T
1 TTATTATATT
45521245 TTATTAT
1 TTATTAT
45521252 TACTGTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
9 8 0.23
10 15 0.43
11 5 0.14
12 7 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATATT
Found at i:45521441 original size:20 final size:20
Alignment explanation
Indices: 45521418--45521492 Score: 51
Period size: 22 Copynumber: 3.2 Consensus size: 20
45521408 AGCAGTTGTA
45521418 TTTTAATTTTATTAGAGTTTTT
1 TTTTAATTTTATTAGAG--TTT
45521440 TTTTATTATGTTTCATTTTAGCAGTTGT
1 TTTTA--AT-TTT-A--TTAG-AGTT-T
45521468 ATTTTAATTTTATTAGAGTTT
1 -TTTTAATTTTATTAGAGTTT
45521489 TTTT
1 TTTT
45521493 TATTATGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 20
0.69 0.00 0.31
Matches are distributed among these distances:
20 4 0.09
21 1 0.02
22 9 0.20
23 4 0.09
24 2 0.05
25 4 0.09
26 4 0.09
27 4 0.09
28 5 0.11
29 7 0.16
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.65
Consensus pattern (20 bp):
TTTTAATTTTATTAGAGTTT
Found at i:45521459 original size:51 final size:50
Alignment explanation
Indices: 45521403--45521508 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 50
45521393 TATTATTAAT
45521403 ATTTTAGCAGTTGTATTTTAATTTTATTAGAGTTTTTTTTTATTATGTTTC
1 ATTTTAGCAGTTGTATTTTAATTTTATTAGAG-TTTTTTTTATTATGTTTC
45521454 ATTTTAGCAGTTGTATTTTAATTTTATTAGAGTTTTTTTTATTATGTTTC
1 ATTTTAGCAGTTGTATTTTAATTTTATTAGAGTTTTTTTTATTATGTTTC
45521504 ATTTT
1 ATTTT
45521509 TGTTTTTCCT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 23 0.42
51 32 0.58
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.63
Consensus pattern (50 bp):
ATTTTAGCAGTTGTATTTTAATTTTATTAGAGTTTTTTTTATTATGTTTC
Found at i:45526751 original size:13 final size:13
Alignment explanation
Indices: 45526718--45526744 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45526708 CAAATTCAAT
45526718 ACATAATAGATTG
1 ACATAATAGATTG
45526731 ACATAATAGATTG
1 ACATAATAGATTG
45526744 A
1 A
45526745 ATCAATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
ACATAATAGATTG
Found at i:45531483 original size:12 final size:11
Alignment explanation
Indices: 45531466--45531508 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
45531456 ATCATGTTTT
45531466 AAGGTTAAATTA
1 AAGGTT-AATTA
45531478 AAGGTTAATT-
1 AAGGTTAATTA
*
45531488 AAGCTTAATTA
1 AAGGTTAATTA
45531499 AATGGTTAAT
1 AA-GGTTAAT
45531509 CAACTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
11 6 0.22
12 12 0.44
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (11 bp):
AAGGTTAATTA
Found at i:45531489 original size:22 final size:22
Alignment explanation
Indices: 45531464--45531508 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
45531454 TAATCATGTT
*
45531464 TTAAGGTTAAATTAAA-GGTTAA
1 TTAAGCTT-AATTAAATGGTTAA
45531486 TTAAGCTTAATTAAATGGTTAA
1 TTAAGCTTAATTAAATGGTTAA
45531508 T
1 T
45531509 CAACTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (22 bp):
TTAAGCTTAATTAAATGGTTAA
Found at i:45531515 original size:21 final size:21
Alignment explanation
Indices: 45531473--45531515 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
45531463 TTTAAGGTTA
*
45531473 AATTAAAGGTTAATTAAGCTT
1 AATTAAAGGTTAATCAAGCTT
45531494 AATTAAATGGTTAATCAA-CTT
1 AATTAAA-GGTTAATCAAGCTT
45531515 A
1 A
45531516 TATAAGCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
AATTAAAGGTTAATCAAGCTT
Found at i:45536012 original size:25 final size:25
Alignment explanation
Indices: 45535957--45536100 Score: 139
Period size: 25 Copynumber: 5.8 Consensus size: 25
45535947 CGGATACTCC
* *
45535957 ACAGCTCGTGTGAGCATA-CAAGTTT
1 ACAGCTCGTGTGAGCATACCGA-TCT
* *
45535982 ATAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATCT
* *
45536007 ACAGCTCGTGCGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCGATCT
* * * *
45536032 ACAGCTTGTGTGAGCGTACTGAGCT
1 ACAGCTCGTGTGAGCATACCGATCT
* *
45536057 ACCGCTGGTGTGAGCATACCGAT-T
1 ACAGCTCGTGTGAGCATACCGATCT
*
45536081 CACAGCTCGTATGAGCATAC
1 -ACAGCTCGTGTGAGCATAC
45536101 ATGTATAGGA
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
24 1 0.01
25 93 0.97
26 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATCT
Found at i:45536072 original size:50 final size:50
Alignment explanation
Indices: 45535957--45536100 Score: 164
Period size: 50 Copynumber: 2.9 Consensus size: 50
45535947 CGGATACTCC
* * * *
45535957 ACAGCTCGTGTGAGCATA-CAAGTTTATAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGA-TTTACAGCTCGTGTGAGCATACCGAGCT
* * * *
45536007 ACAGCTCGTGCGAGCATACCGATTTACAGCTTGTGTGAGCGTACTGAGCT
1 ACAGCTCGTGTGAGCATACCGATTTACAGCTCGTGTGAGCATACCGAGCT
* * * *
45536057 ACCGCTGGTGTGAGCATACCGATTCACAGCTCGTATGAGCATAC
1 ACAGCTCGTGTGAGCATACCGATTTACAGCTCGTGTGAGCATAC
45536101 ATGTATAGGA
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 76 0.97
51 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (50 bp):
ACAGCTCGTGTGAGCATACCGATTTACAGCTCGTGTGAGCATACCGAGCT
Found at i:45536788 original size:20 final size:20
Alignment explanation
Indices: 45536745--45536786 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
45536735 TAAAGAAAGT
45536745 AAATGCAATGGAAAATAATG
1 AAATGCAATGGAAAATAATG
45536765 AAATGCAAAT-GAAAATAA-G
1 AAATGC-AATGGAAAATAATG
45536784 AAA
1 AAA
45536787 ATTTGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.62, C:0.05, G:0.17, T:0.17
Consensus pattern (20 bp):
AAATGCAATGGAAAATAATG
Found at i:45537944 original size:20 final size:20
Alignment explanation
Indices: 45537919--45537959 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
45537909 GTTTCCAACT
45537919 TAGTCTCGACTTGTTTTTAA
1 TAGTCTCGACTTGTTTTTAA
45537939 TAGTCTCGACTTGTTTTTAA
1 TAGTCTCGACTTGTTTTTAA
45537959 T
1 T
45537960 GTGTTTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (20 bp):
TAGTCTCGACTTGTTTTTAA
Found at i:45546281 original size:50 final size:51
Alignment explanation
Indices: 45546148--45546282 Score: 139
Period size: 51 Copynumber: 2.7 Consensus size: 51
45546138 ACACCATTTG
* * * *
45546148 TGGACAAGCCACCATTGATTTGCAGATAAAATGCCACTCATAACATTTTTG
1 TGGACAAGCCACCACTGATTTGCAGATATACTGCCACTCATAACATTTTTA
* * * * * *
45546199 TGGACAAGCGACCACTGAATTGCAAATTTACTGCCACTGATGTA-A-TTTTA
1 TGGACAAGCCACCACTGATTTGCAGATATACTGCCACTCAT-AACATTTTTA
* *
45546249 TGGACATGCCACTACTGATTTGCAGATATACTGC
1 TGGACAAGCCACCACTGATTTGCAGATATACTGC
45546283 TGCTGCTTCC
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
50 32 0.48
51 34 0.51
52 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (51 bp):
TGGACAAGCCACCACTGATTTGCAGATATACTGCCACTCATAACATTTTTA
Found at i:45550677 original size:30 final size:30
Alignment explanation
Indices: 45550641--45550724 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
45550631 AGCTGTAGGG
*
45550641 GTCACACAGCCATGTGGCCAGGTCGTGTGA
1 GTCACACAGCCGTGTGGCCAGGTCGTGTGA
* *
45550671 GTCACACAACCGTATGGCCAGGTCGTGTGA
1 GTCACACAGCCGTGTGGCCAGGTCGTGTGA
* *
45550701 CTCACACAGCCGTGTGGTCAGGTC
1 GTCACACAGCCGTGTGGCCAGGTC
45550725 ATGTCTTAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.20, C:0.29, G:0.31, T:0.20
Consensus pattern (30 bp):
GTCACACAGCCGTGTGGCCAGGTCGTGTGA
Found at i:45571208 original size:11 final size:11
Alignment explanation
Indices: 45571194--45571243 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
45571184 GTGGTGATAC
45571194 GGTGGTTGTAT
1 GGTGGTTGTAT
* *
45571205 GGTGGTAGTGT
1 GGTGGTTGTAT
*
45571216 AGTGG-TGCTAT
1 GGTGGTTG-TAT
45571227 GGTGGTTGTAT
1 GGTGGTTGTAT
45571238 GGTGGT
1 GGTGGT
45571244 GTTTCGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 1 0.03
11 28 0.90
12 2 0.06
ACGTcount: A:0.10, C:0.02, G:0.48, T:0.40
Consensus pattern (11 bp):
GGTGGTTGTAT
Found at i:45571242 original size:22 final size:22
Alignment explanation
Indices: 45571172--45571244 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
45571162 CTGTTTTCAA
* * *
45571172 GGTGGTGCAAGGGTGG-TGATAC
1 GGTGGTGCTATGGTGGTTG-TAT
* *
45571194 GGTGGTTG-TATGGTGGTAGTGT
1 GGTGG-TGCTATGGTGGTTGTAT
*
45571216 AGTGGTGCTATGGTGGTTGTAT
1 GGTGGTGCTATGGTGGTTGTAT
45571238 GGTGGTG
1 GGTGGTG
45571245 TTTCGTTTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 2 0.05
22 34 0.87
23 3 0.08
ACGTcount: A:0.12, C:0.04, G:0.49, T:0.34
Consensus pattern (22 bp):
GGTGGTGCTATGGTGGTTGTAT
Found at i:45582833 original size:18 final size:18
Alignment explanation
Indices: 45582810--45582845 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45582800 TCAAATAATT
45582810 TTACCAGAAAAACTAAAC
1 TTACCAGAAAAACTAAAC
45582828 TTACCAGAAAAACTAAAC
1 TTACCAGAAAAACTAAAC
45582846 AAGTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.06, T:0.17
Consensus pattern (18 bp):
TTACCAGAAAAACTAAAC
Found at i:45585147 original size:70 final size:68
Alignment explanation
Indices: 45585029--45585158 Score: 190
Period size: 70 Copynumber: 1.9 Consensus size: 68
45585019 TGAAATGAGC
*
45585029 CAACCATATCTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAAAGAAAAT-AAGAGAAAAAAAATG
1 CAACCATATCTTTTGAAGAAAAAAAATGGTGTTTGGCAAGAAAGAAAATGAA-AGAAAAAAAATG
45585093 GTAG
65 GTAG
* * *
45585097 CAACCATGTGTTTTGAAGAAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAAAGAAAAAA
1 CAACCATATCTTTTGAAG-AAAAAAAA-TGGTGTTTGGCAAGAAAGAAAATGAAAGAAAAAA
45585159 TTTTGTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
68 16 0.29
69 7 0.13
70 30 0.55
71 2 0.04
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (68 bp):
CAACCATATCTTTTGAAGAAAAAAAATGGTGTTTGGCAAGAAAGAAAATGAAAGAAAAAAAATGG
TAG
Found at i:45593431 original size:52 final size:52
Alignment explanation
Indices: 45593353--45593458 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
45593343 TGACTAATAT
45593353 ATCGTCTATTAAGTCCAATTGGGGAGATGTTTAGTCTTAAGCATCAGAGTGG
1 ATCGTCTATTAAGTCCAATTGGGGAGATGTTTAGTCTTAAGCATCAGAGTGG
45593405 ATCGTCTATTAAGTCCAATTGGGGAGATGTTTAGTCTTAAGCATCAGAGTGG
1 ATCGTCTATTAAGTCCAATTGGGGAGATGTTTAGTCTTAAGCATCAGAGTGG
45593457 AT
1 AT
45593459 GACTTTTAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.33
Consensus pattern (52 bp):
ATCGTCTATTAAGTCCAATTGGGGAGATGTTTAGTCTTAAGCATCAGAGTGG
Found at i:45594484 original size:16 final size:18
Alignment explanation
Indices: 45594458--45594491 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45594448 TTAAAATTGG
45594458 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
45594475 ATTG-GAAAATTAATTTA
1 ATTGAGAAAATTAATTTA
45594492 TCTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:45597574 original size:18 final size:18
Alignment explanation
Indices: 45597534--45597577 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
45597524 ATAAAAAAAG
45597534 TTTTGAAATTGAATAACA
1 TTTTGAAATTGAATAACA
* *
45597552 ATTTGTAAA-TGAATAATA
1 TTTTG-AAATTGAATAACA
45597570 TTTTGAAA
1 TTTTGAAA
45597578 ACGAACGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (18 bp):
TTTTGAAATTGAATAACA
Found at i:45598429 original size:28 final size:28
Alignment explanation
Indices: 45598350--45598429 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
45598340 CTCAAGGAAT
* * *
45598350 GAAGAGTCTTACTTCAACTAGGACTATT
1 GAAGAATCCTACTTCAACTAGGACTATA
* * *
45598378 GAA-AATCCAACTTCAAGTAAGACTCA-A
1 GAAGAATCCTACTTCAACTAGGACT-ATA
45598405 GAAGAATCCTACTTCAACTAGGACT
1 GAAGAATCCTACTTCAACTAGGACT
45598430 TTTATCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (28 bp):
GAAGAATCCTACTTCAACTAGGACTATA
Found at i:45601374 original size:37 final size:36
Alignment explanation
Indices: 45601323--45601398 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
45601313 TTTCCAAAAA
*
45601323 TAATATTATTTTAATAGT-TTAATATTAAATTAAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTAAATAT
*
45601359 TAATACTTATCTTAATAGTATTTTATTAATTAAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTAAATAT
45601396 TAA
1 TAA
45601399 AGTGACTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTAAATAT
Found at i:45613061 original size:320 final size:320
Alignment explanation
Indices: 45612479--45613122 Score: 1155
Period size: 320 Copynumber: 2.0 Consensus size: 320
45612469 TTTTGATTGC
45612479 AAATTAGTTGCTACTACCTTGAATAGATATGGGGTTACACATAAAATTGCCATGGCATATCACCC
1 AAATTAGTTGCTACTACCTTGAATAGATATGGGGTTACACATAAAATTGCCATGGCATATCACCC
* * *
45612544 CTAAATAAATGGATAAGCTGAGATCTCGAATAGATAAATTAAGCAGATTTTGAAGAAAGTGGTCA
66 CTAAATAAATGGATAAGCTGAGATCTCAAATAGATAAATTAAGCAAATTTTAAAGAAAGTGGTCA
* *
45612609 ATCCCACCCACAAAGATTGGTCATCTAGATTTGATGAAGCTTTGTGGGCATATCGCATAGCCTTC
131 ATCCCACCCACAAAGATTGGTCATCCAGATTTGATGAAGCTTTGTGGGCATATCGCATAACCTTC
45612674 AAGACACCATTGGGAATGTCACCTTTCAAGCTCATCTACGAGAAGCCTTGCCATTTGCCTGTTGA
196 AAGACACCATTGGGAATGTCACCTTTCAAGCTCATCTACGAGAAGCCTTGCCATTTGCCTGTTGA
45612739 ACTTGAACATAAGGCATTTTGGGCAATTAAGAAATTGAACATAGATTGAATTAATGCTGG
261 ACTTGAACATAAGGCATTTTGGGCAATTAAGAAATTGAACATAGATTGAATTAATGCTGG
*
45612799 AAATTAGTTGCTACTACCTTGAATAGATATGGGGTTACACATAAAATTGTCATGGCATATCACCC
1 AAATTAGTTGCTACTACCTTGAATAGATATGGGGTTACACATAAAATTGCCATGGCATATCACCC
*
45612864 CTAAATAAATGGATAAGCTGAGGTCTCAAATAGATAAATTAAGCAAATTTTAAAGAAAGTGGTCA
66 CTAAATAAATGGATAAGCTGAGATCTCAAATAGATAAATTAAGCAAATTTTAAAGAAAGTGGTCA
* *
45612929 ATCCCACCCACAAGGATTGGTCATCCGGATTTGATGAAGCTTTGTGGGCATAGT-GCATAACCTT
131 ATCCCACCCACAAAGATTGGTCATCCAGATTTGATGAAGCTTTGTGGGCATA-TCGCATAACCTT
* **
45612993 CAAGACATCATTGGGAATGTTGCCTTTCAAGCTCATCTACGAGAAGCCTTGCCATTTGCCTGTTG
195 CAAGACACCATTGGGAATGTCACCTTTCAAGCTCATCTACGAGAAGCCTTGCCATTTGCCTGTTG
*
45613058 AACTTGAACATAAGGCATTTTGGGCAATTAAGAAATTGAACATAGATTGAATTAGTGCTGG
260 AACTTGAACATAAGGCATTTTGGGCAATTAAGAAATTGAACATAGATTGAATTAATGCTGG
45613119 AAAT
1 AAAT
45613123 AATCGACTAC
Statistics
Matches: 310, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
320 309 1.00
321 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (320 bp):
AAATTAGTTGCTACTACCTTGAATAGATATGGGGTTACACATAAAATTGCCATGGCATATCACCC
CTAAATAAATGGATAAGCTGAGATCTCAAATAGATAAATTAAGCAAATTTTAAAGAAAGTGGTCA
ATCCCACCCACAAAGATTGGTCATCCAGATTTGATGAAGCTTTGTGGGCATATCGCATAACCTTC
AAGACACCATTGGGAATGTCACCTTTCAAGCTCATCTACGAGAAGCCTTGCCATTTGCCTGTTGA
ACTTGAACATAAGGCATTTTGGGCAATTAAGAAATTGAACATAGATTGAATTAATGCTGG
Found at i:45616400 original size:12 final size:12
Alignment explanation
Indices: 45616383--45616412 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45616373 TCAGACTGTT
45616383 ACACGGCCTAGC
1 ACACGGCCTAGC
*
45616395 ACACGGCCTGGC
1 ACACGGCCTAGC
45616407 ACACGG
1 ACACGG
45616413 GCATGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:45618119 original size:50 final size:50
Alignment explanation
Indices: 45618044--45618145 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
45618034 ATAATGCTTG
45618044 GATTGTGCATTAAATGTCATTTCATGTTACTTTTACTGTTGGGAAGAAGA
1 GATTGTGCATTAAATGTCATTTCATGTTACTTTTACTGTTGGGAAGAAGA
45618094 GATTGTGCATTAAATGTCATTTCATGTTACTTTTACTGTTGGGAAGAAGA
1 GATTGTGCATTAAATGTCATTTCATGTTACTTTTACTGTTGGGAAGAAGA
45618144 GA
1 GA
45618146 ATTGGTTGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (50 bp):
GATTGTGCATTAAATGTCATTTCATGTTACTTTTACTGTTGGGAAGAAGA
Found at i:45620596 original size:15 final size:15
Alignment explanation
Indices: 45620576--45620607 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
45620566 CATTTCATTG
45620576 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
45620591 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
45620606 TT
1 TT
45620608 TGTATGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:45622279 original size:17 final size:18
Alignment explanation
Indices: 45622259--45622329 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 18
45622249 AAAATATTTA
45622259 TTTATCTTTAATATT-AG
1 TTTATCTTTAATATTAAG
*
45622276 TTTATTAATTTAATATTAAGG
1 TTTA-T-CTTTAATATTAA-G
*
45622297 TAATTATC-TTAATATTAAA
1 T--TTATCTTTAATATTAAG
45622316 TTTAT-TTTAATATT
1 TTTATCTTTAATATT
45622330 TATCTTGTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
17 16 0.36
18 1 0.02
19 10 0.23
20 11 0.25
21 2 0.05
22 1 0.02
23 3 0.07
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (18 bp):
TTTATCTTTAATATTAAG
Found at i:45636358 original size:39 final size:39
Alignment explanation
Indices: 45636311--45636388 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
45636301 AACTTCTCAA
45636311 AACTAGCTCACAGATCATTCAACCACTTAAAAGGAGTGT
1 AACTAGCTCACAGATCATTCAACCACTTAAAAGGAGTGT
45636350 AACTAGCTCACAGATCATTCAACCACTTAAAAGGAGTGT
1 AACTAGCTCACAGATCATTCAACCACTTAAAAGGAGTGT
45636389 TCTTCCTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (39 bp):
AACTAGCTCACAGATCATTCAACCACTTAAAAGGAGTGT
Found at i:45637960 original size:13 final size:13
Alignment explanation
Indices: 45637942--45637966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45637932 TAATGGTATA
45637942 TTGAATCCATGAT
1 TTGAATCCATGAT
45637955 TTGAATCCATGA
1 TTGAATCCATGA
45637967 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:45639760 original size:47 final size:47
Alignment explanation
Indices: 45639574--45640032 Score: 684
Period size: 47 Copynumber: 9.6 Consensus size: 47
45639564 TTATTCATTG
* *
45639574 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
45639621 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
45639670 GAATGCGAAAGTGTATATATATGTAGTAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTG-A-TAAGGCCTAATGGCCGATGTGAT
**
45639719 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAACCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
45639766 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
45639813 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
45639862 GAATGTGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
45639911 GAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * *
45639958 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
45640005 GGATGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
45640033 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
47 196 0.52
48 2 0.01
49 180 0.48
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:45639811 original size:192 final size:192
Alignment explanation
Indices: 45639574--45640032 Score: 798
Period size: 192 Copynumber: 2.4 Consensus size: 192
45639564 TTATTCATTG
45639574 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
45639639 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGT-AGTAAGGCC
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGA-TAAGGCC
45639703 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAACCGATGTGAT
130 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAACCGATGTGAT
45639766 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* *
45639831 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGATAAGGCCT
* **
45639896 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGAT
131 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAACCGATGTGAT
* * * * *
45639958 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-
1 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
45640022 A-ATGTGATAAG
66 ATATGTGATAAG
45640033 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
190 10 0.04
191 1 0.00
192 244 0.95
193 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (192 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTGTATATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAACCGATGTGAT
Found at i:45644276 original size:23 final size:22
Alignment explanation
Indices: 45644235--45644277 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
45644225 CGGTTGGGAA
*
45644235 GAAAAAGAAAAAAATAAAAGAT
1 GAAAAAGAAAAAAACAAAAGAT
*
45644257 GAAAACAGAAAAAACCAAAAG
1 GAAAA-AGAAAAAAACAAAAG
45644278 CAGAAACGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.74, C:0.07, G:0.14, T:0.05
Consensus pattern (22 bp):
GAAAAAGAAAAAAACAAAAGAT
Found at i:45644283 original size:23 final size:21
Alignment explanation
Indices: 45644234--45644283 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
45644224 TCGGTTGGGA
*
45644234 AGAAAAAGAAAAAAATAAAAG
1 AGAAAAAGAAAAAAACAAAAG
*
45644255 ATGAAAACAGAAAAAACCAAAAG
1 A-GAAAA-AGAAAAAAACAAAAG
45644278 CAGAAA
1 -AGAAA
45644284 CGACAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 5 0.21
23 17 0.71
24 1 0.04
ACGTcount: A:0.74, C:0.08, G:0.14, T:0.04
Consensus pattern (21 bp):
AGAAAAAGAAAAAAACAAAAG
Found at i:45658681 original size:41 final size:41
Alignment explanation
Indices: 45658624--45658770 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
45658614 AATAATGATG
* *
45658624 AATTGCACATACGTGCCCCTGTTCGTACTTTGGTACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
* * *
45658665 AATTCCACATATGTGCCCGTGTTTGTACTTTGGTACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
* * * * *
45658706 AATTGCACATATGTGCCCCTATTTTTACTTCGGTACCCTTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
45658747 AATTGCACATACGTGCCCCTGTTT
1 AATTGCACATACGTGCCCCTGTTT
45658771 AGACTTCGGT
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTA
Found at i:45665482 original size:10 final size:10
Alignment explanation
Indices: 45665448--45665490 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
45665438 GGCCCAAATC
45665448 AAATAAATAAA
1 AAAT-AATAAA
*
45665459 CAA-AATATAA
1 AAATAATA-AA
45665469 AAATAATAAA
1 AAATAATAAA
45665479 AAATAATAAA
1 AAATAATAAA
45665489 AA
1 AA
45665491 CAAAGTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 18 0.64
11 6 0.21
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAATAAA
Found at i:45669095 original size:515 final size:515
Alignment explanation
Indices: 45668113--45669158 Score: 1950
Period size: 515 Copynumber: 2.0 Consensus size: 515
45668103 CTTGCGTCAC
*
45668113 ACATCAACTCAAAAGGTGAGTTCCAATCAGGTATAACAATTATTGGAGTTGAGATTAACCAAATT
1 ACATAAAC-CAAAAGGTGAGTTCCAATCAGGTATAACAATTATTGGAGTTGAGATTAACCAAATT
45668178 TTTAATTCCTAAAAGCTTCCAAACATGTTTTGTTAAACTCAAAAATTGTATCTTTTTTCTTATAG
65 TTTAATTCCTAAAAGCTTCCAAACATGTTTTGTTAAACTCAAAAATTGTATCTTTTTTCTTATAG
45668243 CGTGCATAAAGGCTTCAAAATTTTGAAAAAAATCTTAAATAAACCTTCGGTAAAATCGGCAAGGC
130 CGTGCATAAAGGCTTCAAAATTTTGAAAAAAATCTTAAATAAACCTTCGGTAAAATCGGCAAGGC
45668308 CTAAGAAAATTCAAACTCCTTTAACACTGACTGGTGGTAAAAAAATTTTAATTACATCCACCTTC
195 CTAAGAAAATTCAAACTCCTTTAACACTGACTGGTGGTAAAAAAATTTTAATTACATCCACCTTC
*
45668373 GTATTGTCAAATTCAATCTCATTTCTGGAAATTTCATGTCCTAAGACAATTCCTTCCTTAACCAT
260 GTATTGTCAAATTCAATCTCATTTCTGGAAATTTAATGTCCTAAGACAATTCCTTCCTTAACCAT
*
45668438 AAAGTGACATTTCTCCCAGTTGAGGACAAGATTTGTATCCTCACATCTGTTCAGTACCTTAGACA
325 AAAGTGACATTTCTCCCAGTTAAGGACAAGATTTGTATCCTCACATCTGTTCAGTACCTTAGACA
45668503 AATTATCAAACAAATATCATAAGTATTATCAAAAACAGATAAATCATCCATGAAAATCTTAACAA
390 AATTATCAAACAAATATCATAAGTATTATCAAAAACAGATAAATCATCCATGAAAATCTTAACAA
* *
45668568 AATTTTCTACCATCTCAGTAAATATTGCCATCATGTATCGCTGAAATGTGGTAGGTGTATT
455 AATTTTCTACCATCTCAGTAAATATTGCCATCATGTATCGCTGAAATGTGGCAGGTGCATT
* *
45668629 ACATAAACCGAAAGGTGAGTTCCAATCAGGTATAACAATTATTGGAGTTGAGATTAACTAAATTT
1 ACATAAACCAAAAGGTGAGTTCCAATCAGGTATAACAATTATTGGAGTTGAGATTAACCAAATTT
*
45668694 TTAATTCCTAAAAGCTTCCAAACATGTTTTGTTAAACTCAAAAATTGTATCTTTTTTCTTATAGT
66 TTAATTCCTAAAAGCTTCCAAACATGTTTTGTTAAACTCAAAAATTGTATCTTTTTTCTTATAGC
* *
45668759 GTGCATAAAGGCTTGAAAATTTTGAAAAAAATCTTAAATAAACCTTCGGTAAAATTGGCAAGGCC
131 GTGCATAAAGGCTTCAAAATTTTGAAAAAAATCTTAAATAAACCTTCGGTAAAATCGGCAAGGCC
45668824 TAAGAAAATTCAAACTCCTTTAACACTGACTGGTGGTAAAAAAATTTTAATTACATCCACCTTCG
196 TAAGAAAATTCAAACTCCTTTAACACTGACTGGTGGTAAAAAAATTTTAATTACATCCACCTTCG
45668889 TATTGTCAAATTCAATCTCATTTCTGGAAATTTAATGTCCTAAGACAATTCCTTCCTTAACCATA
261 TATTGTCAAATTCAATCTCATTTCTGGAAATTTAATGTCCTAAGACAATTCCTTCCTTAACCATA
*
45668954 AAGTGACATTTCTCCCAGTTAAGGACAAGATTTGTATCCTTACATCTGTTCAGTACCTTAG-CTA
326 AAGTGACATTTCTCCCAGTTAAGGACAAGATTTGTATCCTCACATCTGTTCAGTACCTTAGAC-A
**
45669018 AATTATCAAACAAATATCATAAGTATTATCAAAAATGGATAAATCATCCATGAAAATCTTAACAA
390 AATTATCAAACAAATATCATAAGTATTATCAAAAACAGATAAATCATCCATGAAAATCTTAACAA
45669083 AATTTTCTACCATCTCAGTAAATATTGCCATCATGTATCGCTGAAATGTGGCAGGTGCATT
455 AATTTTCTACCATCTCAGTAAATATTGCCATCATGTATCGCTGAAATGTGGCAGGTGCATT
45669144 ACATAAACCAAAAGG
1 ACATAAACCAAAAGG
45669159 CATTTGCATA
Statistics
Matches: 515, Mismatches: 14, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
514 1 0.00
515 507 0.98
516 7 0.01
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (515 bp):
ACATAAACCAAAAGGTGAGTTCCAATCAGGTATAACAATTATTGGAGTTGAGATTAACCAAATTT
TTAATTCCTAAAAGCTTCCAAACATGTTTTGTTAAACTCAAAAATTGTATCTTTTTTCTTATAGC
GTGCATAAAGGCTTCAAAATTTTGAAAAAAATCTTAAATAAACCTTCGGTAAAATCGGCAAGGCC
TAAGAAAATTCAAACTCCTTTAACACTGACTGGTGGTAAAAAAATTTTAATTACATCCACCTTCG
TATTGTCAAATTCAATCTCATTTCTGGAAATTTAATGTCCTAAGACAATTCCTTCCTTAACCATA
AAGTGACATTTCTCCCAGTTAAGGACAAGATTTGTATCCTCACATCTGTTCAGTACCTTAGACAA
ATTATCAAACAAATATCATAAGTATTATCAAAAACAGATAAATCATCCATGAAAATCTTAACAAA
ATTTTCTACCATCTCAGTAAATATTGCCATCATGTATCGCTGAAATGTGGCAGGTGCATT
Found at i:45671622 original size:36 final size:36
Alignment explanation
Indices: 45671553--45671716 Score: 125
Period size: 36 Copynumber: 4.6 Consensus size: 36
45671543 GAGTTACCAA
* * ** * *
45671553 TATTCTAATTCGCATATTAAATATGTTAATATTTTT
1 TATTCTAATTCACATGTTAAGCATGGTATTATTTTT
**
45671589 TATTCTAATTCGTATGTTAAGCATGGTATTA-TTTT
1 TATTCTAATTCACATGTTAAGCATGGTATTATTTTT
* * * * * *
45671624 GATTTTGACTCACATGCTAAGCAT-GTCATTATTTCT
1 TATTCTAATTCACATGTTAAGCATGGT-ATTATTTTT
* * **
45671660 AATTCTGATTCACATGTTAAGCATGCCATTATTTTT
1 TATTCTAATTCACATGTTAAGCATGGTATTATTTTT
* *
45671696 TATTTTGATTCACATGTTAAG
1 TATTCTAATTCACATGTTAAG
45671717 TATGACATTA
Statistics
Matches: 102, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
34 2 0.02
35 25 0.25
36 75 0.74
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.48
Consensus pattern (36 bp):
TATTCTAATTCACATGTTAAGCATGGTATTATTTTT
Found at i:45671726 original size:36 final size:36
Alignment explanation
Indices: 45671582--45671727 Score: 150
Period size: 36 Copynumber: 4.1 Consensus size: 36
45671572 AATATGTTAA
* ** **
45671582 TATTTTTTATTCTAATTCGTATGTTAAGCATGGTAT
1 TATTTTTTATTCTGATTCACATGTTAAGCATGACAT
* * * * *
45671618 TA-TTTTGATTTTGACTCACATGCTAAGCATGTCAT
1 TATTTTTTATTCTGATTCACATGTTAAGCATGACAT
* * *
45671653 TATTTCTAATTCTGATTCACATGTTAAGCATGCCAT
1 TATTTTTTATTCTGATTCACATGTTAAGCATGACAT
* *
45671689 TATTTTTTATTTTGATTCACATGTTAAGTATGACAT
1 TATTTTTTATTCTGATTCACATGTTAAGCATGACAT
45671725 TAT
1 TAT
45671728 GTTAAACCGT
Statistics
Matches: 89, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
35 26 0.29
36 63 0.71
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (36 bp):
TATTTTTTATTCTGATTCACATGTTAAGCATGACAT
Found at i:45672472 original size:20 final size:20
Alignment explanation
Indices: 45672430--45672477 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45672420 TACCGTAGAC
***
45672430 TTTGATTTTGGACTTTTTTT
1 TTTGATTTTGGACTTTGGAT
*
45672450 TTTGTTTTTGGACTTTGGAT
1 TTTGATTTTGGACTTTGGAT
45672470 TTTGATTT
1 TTTGATTT
45672478 GATAATTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.10, C:0.04, G:0.19, T:0.67
Consensus pattern (20 bp):
TTTGATTTTGGACTTTGGAT
Found at i:45674622 original size:22 final size:20
Alignment explanation
Indices: 45674575--45674622 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
45674565 CAATTTAACT
*
45674575 ACAATTATGTAGTCGTTATC
1 ACAATTATGTAGTAGTTATC
*
45674595 AGCAATTATGTGGTAGCTTATCC
1 A-CAATTATGTAGTAG-TTAT-C
45674618 ACAAT
1 ACAAT
45674623 GTGCTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 8 0.35
23 2 0.09
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (20 bp):
ACAATTATGTAGTAGTTATC
Found at i:45674653 original size:48 final size:48
Alignment explanation
Indices: 45674601--45674705 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
45674591 TATCAGCAAT
45674601 TATGTGGTAGCT-TATCCACAATGTGCTATGTGACCATTAATCGATATC
1 TATGTGGT-GCTATATCCACAATGTGCTATGTGACCATTAATCGATATC
* ** ** * * *
45674649 TATGTGGTGGTATATCCATGATGTGCTATGTGATTATTCATTGGTATC
1 TATGTGGTGCTATATCCACAATGTGCTATGTGACCATTAATCGATATC
45674697 TATGTGGTG
1 TATGTGGTG
45674706 GTTTTTCCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 2 0.04
48 46 0.96
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (48 bp):
TATGTGGTGCTATATCCACAATGTGCTATGTGACCATTAATCGATATC
Found at i:45676347 original size:11 final size:11
Alignment explanation
Indices: 45676331--45676357 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45676321 TGTGGGATTA
45676331 CTTTCTAGAGG
1 CTTTCTAGAGG
45676342 CTTTCTAGAGG
1 CTTTCTAGAGG
45676353 CTTTC
1 CTTTC
45676358 CAGAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (11 bp):
CTTTCTAGAGG
Found at i:45682534 original size:29 final size:28
Alignment explanation
Indices: 45682481--45682536 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
45682471 CAACGGTGCC
*
45682481 TTCGAACCAAAACTCAGATATCACTTGG
1 TTCGAACCAAAACTCAGATACCACTTGG
*
45682509 TTCGAACCAACAGCTCAGATACCACTTG
1 TTCGAACCAA-AACTCAGATACCACTTG
45682537 TCACGGGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (28 bp):
TTCGAACCAAAACTCAGATACCACTTGG
Found at i:45684184 original size:13 final size:13
Alignment explanation
Indices: 45684166--45684190 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45684156 TTAATAATAT
45684166 AATAATTTATTAA
1 AATAATTTATTAA
45684179 AATAATTTATTA
1 AATAATTTATTA
45684191 TTTTAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAATTTATTAA
Found at i:45688664 original size:27 final size:27
Alignment explanation
Indices: 45688610--45688664 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
45688600 ATACATGAAT
**
45688610 TCATTTCAATATTCATATCCCATTTCA
1 TCATTTCAATATTCATATCCCAACTCA
*
45688637 TCATTTC-ATATTCCATTTCCCAACTCA
1 TCATTTCAATATT-CATATCCCAACTCA
45688664 T
1 T
45688665 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCCAACTCA
Found at i:45689221 original size:15 final size:16
Alignment explanation
Indices: 45689194--45689223 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45689184 ATTACTTACC
45689194 ATATGCAAACAATTTA
1 ATATGCAAACAATTTA
45689210 ATATGC-AACAATTT
1 ATATGCAAACAATTT
45689224 GTAAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (16 bp):
ATATGCAAACAATTTA
Found at i:45692283 original size:43 final size:43
Alignment explanation
Indices: 45692235--45692335 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 43
45692225 GTATTATATC
* * *
45692235 TTAAATTAGATTTTTGGACTTT-TAGTTTTTTAGATTTTAAATA
1 TTAAATTAGATTTTAGGA-TTTCTAGATTTTTAGATTTAAAATA
*
45692278 TTAAATTAGATTTTAGGATTTCTAGATTTTTAGGTTTAAAATA
1 TTAAATTAGATTTTAGGATTTCTAGATTTTTAGATTTAAAATA
*
45692321 TTTAATTAGATTTTA
1 TTAAATTAGATTTTA
45692336 AGATGTTTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
42 3 0.06
43 49 0.94
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (43 bp):
TTAAATTAGATTTTAGGATTTCTAGATTTTTAGATTTAAAATA
Found at i:45692360 original size:43 final size:44
Alignment explanation
Indices: 45692273--45692394 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 44
45692263 TTTAGATTTT
* * * *
45692273 AAATATTAAATTAGATTTTAGGAT-TTCTAGATTTT-TAGGTTTA
1 AAATATTTAATTAGATTTTAAGATGTT-TAGGTTTTAAAGGTTTA
*
45692316 AAATATTTAATTAGATTTTAAGATGTTTAGGTTTTAAATG-TTA
1 AAATATTTAATTAGATTTTAAGATGTTTAGGTTTTAAAGGTTTA
** * *
45692359 AAATAGAT-ATTAGATTTGT-TGATGTTTAGGTCTTAA
1 AAATATTTAATTAGATTT-TAAGATGTTTAGGTTTTAA
45692395 TTATTAAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 24 0.36
43 39 0.58
44 4 0.06
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.48
Consensus pattern (44 bp):
AAATATTTAATTAGATTTTAAGATGTTTAGGTTTTAAAGGTTTA
Found at i:45692793 original size:18 final size:18
Alignment explanation
Indices: 45692766--45692811 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
45692756 CTTAAAAAGT
45692766 ATTTA-AAAAAGT-GTAAA
1 ATTTATAAAAA-TCGTAAA
45692783 ATTTTATAAAAATCGTAAA
1 A-TTTATAAAAATCGTAAA
*
45692802 AATTATAAAA
1 ATTTATAAAA
45692812 TATATAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 13 0.52
19 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (18 bp):
ATTTATAAAAATCGTAAA
Found at i:45692803 original size:20 final size:20
Alignment explanation
Indices: 45692746--45692805 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
45692736 TTAGAAAAAA
* *
45692746 TTATAAAAACCTTAAAAAGTAT
1 TTATAAAAATCGTAAAAA-T-T
45692768 TTA-AAAAAGT-GT-AAAATT
1 TTATAAAAA-TCGTAAAAATT
45692786 TTATAAAAATCGTAAAAATT
1 TTATAAAAATCGTAAAAATT
45692806 ATAAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
18 5 0.16
19 8 0.25
20 10 0.31
21 6 0.19
22 3 0.09
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (20 bp):
TTATAAAAATCGTAAAAATT
Found at i:45692868 original size:30 final size:28
Alignment explanation
Indices: 45692769--45692871 Score: 75
Period size: 30 Copynumber: 3.5 Consensus size: 28
45692759 AAAAAGTATT
* * **
45692769 TAAAAAAGTGTAAAATTTTATAAAAATCG
1 TAAAAAATTATAAAA-TTTATAAATTTCG
* * *
45692798 T-AAAAATTATAAAATATATAGATTT-A
1 TAAAAAATTATAAAATTTATAAATTTCG
45692824 TAAAAAAAATTTATAAAATTTCATAAATTTCG
1 T--AAAAAA-TTATAAAATTT-ATAAATTTCG
45692856 TAATAAAATTATAAAA
1 TAA-AAAATTATAAAA
45692872 AATGAAAAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
26 1 0.02
27 7 0.12
28 11 0.19
29 6 0.11
30 20 0.35
31 11 0.19
32 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (28 bp):
TAAAAAATTATAAAATTTATAAATTTCG
Done.