Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 183 of 187
Found at i:56099516 original size:50 final size:48
Alignment explanation
Indices: 56099393--56099527 Score: 132
Period size: 50 Copynumber: 2.8 Consensus size: 48
56099383 GATAATAACA
* * *
56099393 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT--GATTTTTTTTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTATATTG-AC
* * * *
56099440 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATTG-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TT-T-ATATTGAC
* *
56099490 TGCCTATGCCATGTCCCAGACATGGTCCTACATGGGAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
56099528 ATCTTTACCC
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
47 29 0.41
49 3 0.04
50 34 0.48
51 1 0.01
52 4 0.06
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTATATTGAC
Found at i:56100535 original size:50 final size:48
Alignment explanation
Indices: 56100412--56100546 Score: 132
Period size: 50 Copynumber: 2.8 Consensus size: 48
56100402 GATAATAACA
* * *
56100412 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT--GATTTTTTTTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTATATTG-AC
* * * *
56100459 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATTG-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TT-T-ATATTGAC
* *
56100509 TGCCTATGCCATGTCCCAGACATGGTCCTACATGGGAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
56100547 ATCTTTACCC
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
47 29 0.41
49 3 0.04
50 34 0.48
51 1 0.01
52 4 0.06
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATTTATATTGAC
Found at i:56104691 original size:30 final size:30
Alignment explanation
Indices: 56104652--56104713 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
56104642 TACATGAAAT
56104652 ACATAGAAAT-GAT-ATTACATGATATATTGAA
1 ACATAGAAATGGATGA-TACATG-TATA-TGAA
56104683 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATAGAAATGGATGATACATGTATATGAA
56104712 AC
1 AC
56104714 TTGCTTAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (30 bp):
ACATAGAAATGGATGATACATGTATATGAA
Found at i:56105114 original size:107 final size:107
Alignment explanation
Indices: 56104926--56105139 Score: 374
Period size: 107 Copynumber: 2.0 Consensus size: 107
56104916 TTTCCGTGTT
* *
56104926 TTATAGTGAATTAGAAGCTCGTTCGGGTTGGAAGCTTGTCGAAACTATATCACACTATCCATCGG
1 TTATAGTGAATCAAAAGCTCGTTCGGGTTGGAAGCTTGTCGAAACTATATCACACTATCCATCGG
* *
56104991 CTCTTTTGGTATTTTCAGTTGGTTTATGTTTGGTTATAATGG
66 CTCTTTTGGTACTTTCAGTTGGTTTAGGTTTGGTTATAATGG
*
56105033 TTATAGTGAATCAAAAGCTCGTTCGGGTTGGAAGCTTGTCGGAACTATATCACACTATCCATCGG
1 TTATAGTGAATCAAAAGCTCGTTCGGGTTGGAAGCTTGTCGAAACTATATCACACTATCCATCGG
*
56105098 CTCTTTTTGTACTTTCAGTTGGTTTAGGTTTGGTTATAATGG
66 CTCTTTTGGTACTTTCAGTTGGTTTAGGTTTGGTTATAATGG
56105140 CATGTATAGG
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 101 1.00
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.39
Consensus pattern (107 bp):
TTATAGTGAATCAAAAGCTCGTTCGGGTTGGAAGCTTGTCGAAACTATATCACACTATCCATCGG
CTCTTTTGGTACTTTCAGTTGGTTTAGGTTTGGTTATAATGG
Found at i:56108712 original size:50 final size:50
Alignment explanation
Indices: 56108599--56108895 Score: 310
Period size: 50 Copynumber: 5.8 Consensus size: 50
56108589 ATTTGGGTAA
* *
56108599 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTGAGATTTAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA--T-G
* * *
56108655 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
56108705 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
56108755 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** ** * * **
56108805 AGAATTCCCATGTAAGACCAAATCTGAGATATGGCATTGGCA--GTTCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
56108854 AAACATCCCATGTAAGACCATGTCTGGGACTTGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
56108896 TGTTATTATC
Statistics
Matches: 208, Mismatches: 32, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 36 0.17
50 127 0.61
51 1 0.00
53 3 0.01
55 2 0.01
56 38 0.18
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:56110511 original size:19 final size:19
Alignment explanation
Indices: 56110479--56110515 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56110469 CATTTTACGA
* *
56110479 CTCATCTTTTCTCTTTTCT
1 CTCATATTTCCTCTTTTCT
56110498 CTCATATTTCCTCTTTTC
1 CTCATATTTCCTCTTTTC
56110516 CACCATATTG
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:0.08, C:0.32, G:0.00, T:0.59
Consensus pattern (19 bp):
CTCATATTTCCTCTTTTCT
Found at i:56113144 original size:20 final size:20
Alignment explanation
Indices: 56113119--56113158 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56113109 TTTATTGACT
* *
56113119 CCATTTTTGGTGATTTTTCA
1 CCATTTTTAGTGAATTTTCA
56113139 CCATTTTTAGTGAATTTTCA
1 CCATTTTTAGTGAATTTTCA
56113159 AAGTCACACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (20 bp):
CCATTTTTAGTGAATTTTCA
Found at i:56113523 original size:51 final size:52
Alignment explanation
Indices: 56113461--56113588 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 52
56113451 GGATACCCGT
* * *
56113461 TGGCCTACACATAGTATCACCCTTGT-AGCCAAAGCTA-CCTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCCTTCTTCACAAAG
* *
56113512 TGGCCTTCACATAGTACCACACTTGTGACCTAAGCTATCTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCCTTCTTCACAAAG
56113564 TGGCCTTCACATAGTACCACACTTG
1 TGGCCTTCACATAGTACCACACTTG
56113589 AGTCATTAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 31 0.44
52 39 0.56
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.28
Consensus pattern (52 bp):
TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCCTTCTTCACAAAG
Found at i:56120089 original size:28 final size:28
Alignment explanation
Indices: 56120057--56120114 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
56120047 CGAATATGAT
*
56120057 CTCCCACGGTCTCGGTGTGAATACCCAA
1 CTCCCACGGTCTCGGTGCGAATACCCAA
56120085 CTCCCACGGTCTCGGTGCGAATACCCAA
1 CTCCCACGGTCTCGGTGCGAATACCCAA
56120113 CT
1 CT
56120115 GAAGCAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.21
Consensus pattern (28 bp):
CTCCCACGGTCTCGGTGCGAATACCCAA
Found at i:56122534 original size:51 final size:52
Alignment explanation
Indices: 56122457--56122585 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 52
56122447 CGGATACCTG
* * *
56122457 GTGGCCTGCACATTGTACCACCCTTGT-AGCCAAAAATA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAAATATCCTTCTTCACAAA
** * *
56122508 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCATAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAAATATCCTTCTTCACAAA
*
56122560 GTGGCCTTCACATGGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
56122586 AGTCACTAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 31 0.46
52 37 0.54
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAAATATCCTTCTTCACAAA
Found at i:56124660 original size:40 final size:40
Alignment explanation
Indices: 56124616--56124713 Score: 187
Period size: 40 Copynumber: 2.5 Consensus size: 40
56124606 TATAACCAGA
56124616 GGCACGAGAGTGCAATCAGGGGTACTGAAGTACAAATAGG
1 GGCACGAGAGTGCAATCAGGGGTACTGAAGTACAAATAGG
56124656 GGCACGAGAGTGCAATCAGGGGTACTGAAGTACAAATAGG
1 GGCACGAGAGTGCAATCAGGGGTACTGAAGTACAAATAGG
*
56124696 GGCACGAGAGTGTAATCA
1 GGCACGAGAGTGCAATCA
56124714 TTCAATAATC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (40 bp):
GGCACGAGAGTGCAATCAGGGGTACTGAAGTACAAATAGG
Found at i:56124676 original size:20 final size:20
Alignment explanation
Indices: 56124616--56124713 Score: 87
Period size: 20 Copynumber: 4.9 Consensus size: 20
56124606 TATAACCAGA
56124616 GGCACGAGAGTGCAATCAGG
1 GGCACGAGAGTGCAATCAGG
* *
56124636 GGTACTGA-AGTACAAAT-AGG
1 GGCAC-GAGAGTGC-AATCAGG
56124656 GGCACGAGAGTGCAATCAGG
1 GGCACGAGAGTGCAATCAGG
* *
56124676 GGTACTGA-AGTACAAAT-AGG
1 GGCAC-GAGAGTGC-AATCAGG
*
56124696 GGCACGAGAGTGTAATCA
1 GGCACGAGAGTGCAATCA
56124714 TTCAATAATC
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
19 10 0.16
20 41 0.67
21 10 0.16
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (20 bp):
GGCACGAGAGTGCAATCAGG
Found at i:56127309 original size:60 final size:61
Alignment explanation
Indices: 56127159--56127309 Score: 155
Period size: 60 Copynumber: 2.5 Consensus size: 61
56127149 GGCATACCTT
* * * *
56127159 TCTAGAGTTTTGCCATAAAGGCTGCCTTTTACATGTAGTACTCACCACAAAAGCTTTTATG
1 TCTAGAGTTTTGCCATAAAGGCTGCCCTTTACATCTAGTACTCACCAAAAAAGCTTTTATA
* * * * * * **
56127220 TCTAGATTTTTGCCACAAATGTTGTCCTTTACATCTAGT-TTC-GTAAAAAAGGCTTTCT-TA
1 TCTAGAGTTTTGCCATAAAGGCTGCCCTTTACATCTAGTACTCACCAAAAAA-GCTTT-TATA
56127280 TCTAGAGTTTTGCCATAAAGGCTGCCCTTT
1 TCTAGAGTTTTGCCATAAAGGCTGCCCTTT
56127310 TTTACTAGTG
Statistics
Matches: 71, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
59 5 0.07
60 33 0.46
61 33 0.46
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (61 bp):
TCTAGAGTTTTGCCATAAAGGCTGCCCTTTACATCTAGTACTCACCAAAAAAGCTTTTATA
Found at i:56128919 original size:79 final size:78
Alignment explanation
Indices: 56128834--56128989 Score: 231
Period size: 79 Copynumber: 2.0 Consensus size: 78
56128824 CCATTGAACG
* *
56128834 ATCAATTAATTTGATTCATTCAGCTCAACTCCTTAAGTCCGCTCCAATGGCTGTTCGGGAACTCC
1 ATCAATTAATTTGATTCATTCAGCTCAACTCCTTAAGTCCACTCCAATGGCTATTCGGGAACTCC
56128899 AAATGTCCAAGCTA
66 AAATGT-CAAGCTA
* * * * *
56128913 ATCAATTAATTTGATTTATTTAGCTCAACTCTTTAAGTCCACTCTAATGGCTATTCGGGAACTTC
1 ATCAATTAATTTGATTCATTCAGCTCAACTCCTTAAGTCCACTCCAATGGCTATTCGGGAACTCC
*
56128978 AAGTGTCAAGCT
66 AAATGTCAAGCT
56128990 TCCAAGACTG
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
78 6 0.09
79 63 0.91
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (78 bp):
ATCAATTAATTTGATTCATTCAGCTCAACTCCTTAAGTCCACTCCAATGGCTATTCGGGAACTCC
AAATGTCAAGCTA
Found at i:56137142 original size:20 final size:20
Alignment explanation
Indices: 56137117--56137181 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
56137107 TACATTATCT
*
56137117 ACATTACTGGTGGCTTGTCC
1 ACATTACTGGTAGCTTGTCC
*
56137137 ACATTACT-GTCAGCTTGTCT
1 ACATTACTGGT-AGCTTGTCC
* * *
56137157 ACAATACTGGTAGCTAGTTC
1 ACATTACTGGTAGCTTGTCC
56137177 ACATT
1 ACATT
56137182 TCTTGCAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (20 bp):
ACATTACTGGTAGCTTGTCC
Found at i:56148547 original size:38 final size:38
Alignment explanation
Indices: 56148505--56148687 Score: 251
Period size: 38 Copynumber: 4.8 Consensus size: 38
56148495 ACACCAACAT
* * * * *
56148505 AAAGCCTGCTAGGAATAAAGCCTGAATAACACCAGCAC
1 AAAGCCTGCTAGGCACATAGCCTGAATATCACCGGCAC
56148543 AAAGCCTGCTAGGCACATAGCCCT-AATATCACCGGCAC
1 AAAGCCTGCTAGGCACATAG-CCTGAATATCACCGGCAC
56148581 AAAGCCTGCTAGGCACATAGCCTGAATATCACCGGCAC
1 AAAGCCTGCTAGGCACATAGCCTGAATATCACCGGCAC
* * * *
56148619 AAAGCCTACTAGGCACACAGCTTGAATATCACCGGTAC
1 AAAGCCTGCTAGGCACATAGCCTGAATATCACCGGCAC
* *
56148657 AAAGCCTACTAGGCACATAGCCCGAATATCA
1 AAAGCCTGCTAGGCACATAGCCTGAATATCA
56148688 TTACGTTTTT
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
37 3 0.02
38 125 0.95
39 3 0.02
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.16
Consensus pattern (38 bp):
AAAGCCTGCTAGGCACATAGCCTGAATATCACCGGCAC
Found at i:56148624 original size:22 final size:22
Alignment explanation
Indices: 56148554--56148625 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
56148544 AAGCCTGCTA
*
56148554 GGCACATAGCCCT-AATATCACC
1 GGCACAAAG-CCTGAATATCACC
*
56148576 GGCACAAAGCCTG---CT-A--
1 GGCACAAAGCCTGAATATCACC
*
56148592 GGCACATAGCCTGAATATCACC
1 GGCACAAAGCCTGAATATCACC
56148614 GGCACAAAGCCT
1 GGCACAAAGCCT
56148626 ACTAGGCACA
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
16 12 0.32
18 1 0.03
19 2 0.05
20 1 0.03
21 3 0.08
22 19 0.50
ACGTcount: A:0.32, C:0.33, G:0.19, T:0.15
Consensus pattern (22 bp):
GGCACAAAGCCTGAATATCACC
Found at i:56155052 original size:19 final size:19
Alignment explanation
Indices: 56155043--56155081 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
56155033 TTTATCTTTG
56155043 TCTTTAATTTTAATTTTAA
1 TCTTTAATTTTAATTTTAA
56155062 TCTTTAATTTTAATTTTAA
1 TCTTTAATTTTAATTTTAA
56155081 T
1 T
56155082 GATAGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TCTTTAATTTTAATTTTAA
Found at i:56155054 original size:6 final size:6
Alignment explanation
Indices: 56155045--56155081 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
56155035 TATCTTTGTC
56155045 TTTAAT TTTAAT TTTAAT CTTTAAT TTTAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT -TTTAAT TTTAAT TTTAAT
56155082 GATAGTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTAAT
Found at i:56155500 original size:13 final size:13
Alignment explanation
Indices: 56155482--56155506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56155472 CCAAAATCTC
56155482 AAAATTTCTTCCA
1 AAAATTTCTTCCA
56155495 AAAATTTCTTCC
1 AAAATTTCTTCC
56155507 TTGTCGTAAG
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:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTTCTTCCA
Found at i:56161592 original size:29 final size:29
Alignment explanation
Indices: 56161551--56161791 Score: 93
Period size: 29 Copynumber: 8.3 Consensus size: 29
56161541 ACAAAGGTTT
*
56161551 ACAC-AAGACATTCCTTTAACTGAGATAG
1 ACACAAAGGCATTCCTTTAACTGAGATAG
* * *
56161579 ATACAAAGGTATTCATTTAACTGAGATAG
1 ACACAAAGGCATTCCTTTAACTGAGATAG
* * * * *
56161608 CCATAAAGGCATCCCTTTAACAGAGAT-C
1 ACACAAAGGCATTCCTTTAACTGAGATAG
** * * *
56161636 AC-CATAGAGATATTCATTTTACTAAGATAG
1 ACACA-A-AGGCATTCCTTTAACTGAGATAG
* * **
56161666 CCATAAAGGCACCCCTTTAA-TAGAGATCA-
1 ACACAAAGGCATTCCTTTAACT-GAGAT-AG
* * **
56161695 CCACAAAGACATTTGTTTAACTGAGATAG
1 ACACAAAGGCATTCCTTTAACTGAGATAG
* * *
56161724 TCATAAAGGCA-TCCTCTTAA-TAGAGATCG
1 ACACAAAGGCATTCCT-TTAACT-GAGATAG
* ** *
56161753 CCACAAAGGC-TTCCTTATAACAAAGATTG
1 ACACAAAGGCATTCCTT-TAACTGAGATAG
*
56161782 CCACAAAGGC
1 ACACAAAGGC
56161792 TACCTTTCAG
Statistics
Matches: 151, Mismatches: 48, Indels: 27
0.67 0.21 0.12
Matches are distributed among these distances:
27 1 0.01
28 11 0.07
29 134 0.89
30 4 0.03
31 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (29 bp):
ACACAAAGGCATTCCTTTAACTGAGATAG
Found at i:56161634 original size:58 final size:58
Alignment explanation
Indices: 56161563--56161751 Score: 193
Period size: 58 Copynumber: 3.3 Consensus size: 58
56161553 ACAAGACATT
* *
56161563 CCTTTAACTGAGAT-AGATACAAAGGTATTCATTTAACTGAGATAGCCATAAAGGCATC
1 CCTTTAACAGAGATCA-ATACAAAGATATTCATTTAACTGAGATAGCCATAAAGGCATC
** * * * * *
56161621 CCTTTAACAGAGATCACCATAGAGATATTCATTTTACTAAGATAGCCATAAAGGCACC
1 CCTTTAACAGAGATCAATACAAAGATATTCATTTAACTGAGATAGCCATAAAGGCATC
* ** * ** *
56161679 CCTTTAATAGAGATCACCACAAAGACATTTGTTTAACTGAGATAGTCATAAAGGCAT-
1 CCTTTAACAGAGATCAATACAAAGATATTCATTTAACTGAGATAGCCATAAAGGCATC
*
56161736 CCTCTTAATAGAGATC
1 CCT-TTAACAGAGATC
56161752 GCCACAAAGG
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
57 3 0.03
58 106 0.96
59 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (58 bp):
CCTTTAACAGAGATCAATACAAAGATATTCATTTAACTGAGATAGCCATAAAGGCATC
Found at i:56161757 original size:58 final size:58
Alignment explanation
Indices: 56161589--56161760 Score: 229
Period size: 58 Copynumber: 3.0 Consensus size: 58
56161579 ATACAAAGGT
* * * *
56161589 ATTCATTTAACTGAGATAGCCATAAAGGCATCCCTTTAACAGAGATCACCATAGAGAT
1 ATTCATTTAACTGAGATAGCCATAAAGGCATCCCTTTAATAGAGATCACCACAAAGAC
* * *
56161647 ATTCATTTTACTAAGATAGCCATAAAGGCACCCCTTTAATAGAGATCACCACAAAGAC
1 ATTCATTTAACTGAGATAGCCATAAAGGCATCCCTTTAATAGAGATCACCACAAAGAC
** * *
56161705 ATTTGTTTAACTGAGATAGTCATAAAGGCAT-CCTCTTAATAGAGATCGCCACAAAG
1 ATTCATTTAACTGAGATAGCCATAAAGGCATCCCT-TTAATAGAGATCACCACAAAG
56161761 GCTTCCTTAT
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 3 0.03
58 96 0.97
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (58 bp):
ATTCATTTAACTGAGATAGCCATAAAGGCATCCCTTTAATAGAGATCACCACAAAGAC
Found at i:56165900 original size:80 final size:80
Alignment explanation
Indices: 56165767--56165925 Score: 309
Period size: 80 Copynumber: 2.0 Consensus size: 80
56165757 CCTCATCGAA
*
56165767 ATGAATACCTTGAGGACTAACTATGAAACCTAAGAATATTAGCTTATCACAACAGAATGTGCATT
1 ATGAATACCTTGAGCACTAACTATGAAACCTAAGAATATTAGCTTATCACAACAGAATGTGCATT
56165832 TATCAAGGTTGGCAC
66 TATCAAGGTTGGCAC
56165847 ATGAATACCTTGAGCACTAACTATGAAACCTAAGAATATTAGCTTATCACAACAGAATGTGCATT
1 ATGAATACCTTGAGCACTAACTATGAAACCTAAGAATATTAGCTTATCACAACAGAATGTGCATT
56165912 TATCAAGGTTGGCA
66 TATCAAGGTTGGCA
56165926 AACAATTTTT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (80 bp):
ATGAATACCTTGAGCACTAACTATGAAACCTAAGAATATTAGCTTATCACAACAGAATGTGCATT
TATCAAGGTTGGCAC
Found at i:56171013 original size:124 final size:124
Alignment explanation
Indices: 56170793--56171040 Score: 460
Period size: 124 Copynumber: 2.0 Consensus size: 124
56170783 GGTTGCGCAC
* * *
56170793 GGACCAAGATTGAGTCGTCAAGTCATGGGAAAGTCGTACGAGATCTATAAACAAATTGGCTGCAA
1 GGACCAAGATCGAGTCGTCAAGTCACGGGAAAGTCCTACGAGATCTATAAACAAATTGGCTGCAA
56170858 CGAAAACAGAAAACAGAGAACTAAACTTGTCAGATCAATAAACCCAAATCTAATAGAAT
66 CGAAAACAGAAAACAGAGAACTAAACTTGTCAGATCAATAAACCCAAATCTAATAGAAT
*
56170917 GGACCAAGATCGAGTTGTCAAGTCACGGGAAAGTCCTACGAGATCTATAAACAAATTGGCTGCAA
1 GGACCAAGATCGAGTCGTCAAGTCACGGGAAAGTCCTACGAGATCTATAAACAAATTGGCTGCAA
56170982 CGAAAACAGAAAACAGAGAACTAAACTTGTCAGATCAATAAACCCAAATCTAATAGAAT
66 CGAAAACAGAAAACAGAGAACTAAACTTGTCAGATCAATAAACCCAAATCTAATAGAAT
56171041 AAGAAATACT
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 120 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (124 bp):
GGACCAAGATCGAGTCGTCAAGTCACGGGAAAGTCCTACGAGATCTATAAACAAATTGGCTGCAA
CGAAAACAGAAAACAGAGAACTAAACTTGTCAGATCAATAAACCCAAATCTAATAGAAT
Found at i:56174181 original size:25 final size:25
Alignment explanation
Indices: 56174147--56174202 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
56174137 TAAAACTCAT
*
56174147 CATAAATTGACCTGTATCACTTCAA
1 CATAAATTGACCTATATCACTTCAA
56174172 CATAAATTGACCTATATCACTTCAA
1 CATAAATTGACCTATATCACTTCAA
56174197 CATAAA
1 CATAAA
56174203 CTTACAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (25 bp):
CATAAATTGACCTATATCACTTCAA
Found at i:56182429 original size:25 final size:25
Alignment explanation
Indices: 56182395--56182450 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
56182385 CAAAACTCAT
*
56182395 CATAAATTGACCTGTATCACTTCAA
1 CATAAATTGACCTATATCACTTCAA
56182420 CATAAATTGACCTATATCACTTCAA
1 CATAAATTGACCTATATCACTTCAA
56182445 CATAAA
1 CATAAA
56182451 CTTACCATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (25 bp):
CATAAATTGACCTATATCACTTCAA
Found at i:56185710 original size:5 final size:5
Alignment explanation
Indices: 56185700--56185727 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
56185690 TTTTTTTATA
56185700 AATTT AATTT AATTT AATTT AATTT AAT
1 AATTT AATTT AATTT AATTT AATTT AAT
56185728 CTTGTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:56191916 original size:20 final size:20
Alignment explanation
Indices: 56191891--56191931 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
56191881 AAAAATGAGA
56191891 AAAGATTCTATTTTTGTTGT
1 AAAGATTCTATTTTTGTTGT
56191911 AAAGATTCTATTTTTGTTGT
1 AAAGATTCTATTTTTGTTGT
56191931 A
1 A
56191932 GTGGATCGAT
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:0.27, C:0.05, G:0.15, T:0.54
Consensus pattern (20 bp):
AAAGATTCTATTTTTGTTGT
Found at i:56199932 original size:95 final size:94
Alignment explanation
Indices: 56199760--56199940 Score: 218
Period size: 95 Copynumber: 1.9 Consensus size: 94
56199750 CATTACCGAG
* * * * ** *
56199760 CTATGGTCTTACACAATCTACCCTATGTTTAACGTCTTGGCGGACTACCTCATGTTTATTGTCCC
1 CTATGGTCATACACAATCTACCCCATGTTTAACATCATGGCGGACTACAACATATTTATTGTCCC
* *
56199825 GACGGACTCCATATACTACCAAAGCCAAC
66 AACGAACTCCATATACTACCAAAGCCAAC
* * * *
56199854 CTATGGTCATACACAATCTAACCCCATGTTTAACATCATGGCTGATTATAACTTATTTATTGTCC
1 CTATGGTCATACACAATCT-ACCCCATGTTTAACATCATGGCGGACTACAACATATTTATTGTCC
* *
56199919 CAATGAACTCCATATGCTACCA
65 CAACGAACTCCATATACTACCA
56199941 TAGTCAAGCA
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
94 18 0.25
95 53 0.75
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (94 bp):
CTATGGTCATACACAATCTACCCCATGTTTAACATCATGGCGGACTACAACATATTTATTGTCCC
AACGAACTCCATATACTACCAAAGCCAAC
Found at i:56202863 original size:263 final size:263
Alignment explanation
Indices: 56202396--56202919 Score: 818
Period size: 263 Copynumber: 2.0 Consensus size: 263
56202386 ACAAAATGCA
56202396 ATCAACCTAACACAAATTAAATTCAAGCTAAACTGATTAAATTAACCAGTCCAACAACATAAATA
1 ATCAACCTAACACAAATTAAATTCAAGCTAAACTGATTAAATTAACCAGTCCAACAACATAAATA
* * * * * *
56202461 TTAATAGATATGTTCAGCATAATAACAACAAAAATTAAAGAGATAGGGACCAAGAATCAAATCCG
66 TTAATAGATACGTTCAGCATAACAACAACAAAAACTAAAAAGATAGGGAACAAGAATCAAATCCA
* *
56202526 GTGTTTTTTCGTGGCTTGACTAGTTGCTCCGTTCTTCCTTCTCCGTTGTCCTCATCGACCAAGGC
131 GTGTTTTTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTCCGTTGTCCTCATCGACCAAGGC
* * * *
56202591 TGCTATGAACAGTTAATTGC-TGCTGAAAATAGTTGATGAATACCTCTTTCCCAAGAGGAGAAAT
196 TGCTATGAACACTTAATT-CATGCTCAAAATAGCTGATGAATACCCCTTTCCCAAGAGGAGAAAT
56202655 CGAC
260 CGAC
* * *
56202659 ATCAACCTAACACGAATTAAATTCAAGCTAAATTGATTAAATTAACCATTCCAA-AAGCATAAAT
1 ATCAACCTAACACAAATTAAATTCAAGCTAAACTGATTAAATTAACCAGTCCAACAA-CATAAAT
* *
56202723 ATTCATAGATACGTTCAGCATAACAACAACAAAAACTAAAAAGATAGGGAACAAGAATCAAATCT
65 ATTAATAGATACGTTCAGCATAACAACAACAAAAACTAAAAAGATAGGGAACAAGAATCAAATCC
* *
56202788 AGTGTTTTTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTCTGTTGTCCTCATCGACGAAGG
130 AGTGTTTTTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTCCGTTGTCCTCATCGACCAAGG
* * *
56202853 TTGCTATGAACACTTAATTCATGCTCCAAATAGCTGATGAATTCCCCTTTCCCAAGAGGAGAAAT
195 CTGCTATGAACACTTAATTCATGCTCAAAATAGCTGATGAATACCCCTTTCCCAAGAGGAGAAAT
56202918 CG
260 CG
56202920 GCAAGAGAGC
Statistics
Matches: 237, Mismatches: 22, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
262 3 0.01
263 234 0.99
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (263 bp):
ATCAACCTAACACAAATTAAATTCAAGCTAAACTGATTAAATTAACCAGTCCAACAACATAAATA
TTAATAGATACGTTCAGCATAACAACAACAAAAACTAAAAAGATAGGGAACAAGAATCAAATCCA
GTGTTTTTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTCCGTTGTCCTCATCGACCAAGGC
TGCTATGAACACTTAATTCATGCTCAAAATAGCTGATGAATACCCCTTTCCCAAGAGGAGAAATC
GAC
Found at i:56203696 original size:493 final size:493
Alignment explanation
Indices: 56202789--56203774 Score: 1972
Period size: 493 Copynumber: 2.0 Consensus size: 493
56202779 ATCAAATCTA
56202789 GTGTTTTTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTCTGTTGTCCTCATCGACGAAGGT
1 GTGTTTTTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTCTGTTGTCCTCATCGACGAAGGT
56202854 TGCTATGAACACTTAATTCATGCTCCAAATAGCTGATGAATTCCCCTTTCCCAAGAGGAGAAATC
66 TGCTATGAACACTTAATTCATGCTCCAAATAGCTGATGAATTCCCCTTTCCCAAGAGGAGAAATC
56202919 GGCAAGAGAGCAAGGGAATTTTGGAATGGAAAAGAAGAGAGAAAGTGGAGAAAAGAGAGGAAAGA
131 GGCAAGAGAGCAAGGGAATTTTGGAATGGAAAAGAAGAGAGAAAGTGGAGAAAAGAGAGGAAAGA
56202984 TGTGAATGCTTGAGGTGTGTTTTTCAAATGACCAGCCTAAGGGGGTTTTTATATCTGAGGAGGGC
196 TGTGAATGCTTGAGGTGTGTTTTTCAAATGACCAGCCTAAGGGGGTTTTTATATCTGAGGAGGGC
56203049 TACTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGCCGGCCACACATGTGGCAAGG
261 TACTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGCCGGCCACACATGTGGCAAGG
56203114 TTGATAGTTTCAACTTTGCTAATTTAGGCTTGGGGCAAATATATAAAGCCACCAATTGTGGAGGG
326 TTGATAGTTTCAACTTTGCTAATTTAGGCTTGGGGCAAATATATAAAGCCACCAATTGTGGAGGG
56203179 GTTTGAATGCAACTTGAACAAGTATTCAACGGCATCTTTGCAAGCTTAAATAATCAGCTAATAAG
391 GTTTGAATGCAACTTGAACAAGTATTCAACGGCATCTTTGCAAGCTTAAATAATCAGCTAATAAG
56203244 CTAATTTGGTTCAGCTCTTGGAACAATTTTTAGGCTGG
456 CTAATTTGGTTCAGCTCTTGGAACAATTTTTAGGCTGG
56203282 GTGTTTTTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTCTGTTGTCCTCATCGACGAAGGT
1 GTGTTTTTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTCTGTTGTCCTCATCGACGAAGGT
56203347 TGCTATGAACACTTAATTCATGCTCCAAATAGCTGATGAATTCCCCTTTCCCAAGAGGAGAAATC
66 TGCTATGAACACTTAATTCATGCTCCAAATAGCTGATGAATTCCCCTTTCCCAAGAGGAGAAATC
56203412 GGCAAGAGAGCAAGGGAATTTTGGAATGGAAAAGAAGAGAGAAAGTGGAGAAAAGAGAGGAAAGA
131 GGCAAGAGAGCAAGGGAATTTTGGAATGGAAAAGAAGAGAGAAAGTGGAGAAAAGAGAGGAAAGA
56203477 TGTGAATGCTTGAGGTGTGTTTTTCAAATGACCAGCCTAAGGGGGTTTTTATATCTGAGGAGGGC
196 TGTGAATGCTTGAGGTGTGTTTTTCAAATGACCAGCCTAAGGGGGTTTTTATATCTGAGGAGGGC
56203542 TACTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGCCGGCCACACATGTGGCAAGG
261 TACTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGCCGGCCACACATGTGGCAAGG
56203607 TTGATAGTTTCAACTTTGCTAATTTAGGCTTGGGGCAAATATATAAAGCCACCAATTGTGGAGGG
326 TTGATAGTTTCAACTTTGCTAATTTAGGCTTGGGGCAAATATATAAAGCCACCAATTGTGGAGGG
56203672 GTTTGAATGCAACTTGAACAAGTATTCAACGGCATCTTTGCAAGCTTAAATAATCAGCTAATAAG
391 GTTTGAATGCAACTTGAACAAGTATTCAACGGCATCTTTGCAAGCTTAAATAATCAGCTAATAAG
56203737 CTAATTTGGTTCAGCTCTTGGAACAATTTTTAGGCTGG
456 CTAATTTGGTTCAGCTCTTGGAACAATTTTTAGGCTGG
56203775 CCATTTCTTG
Statistics
Matches: 493, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
493 493 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (493 bp):
GTGTTTTTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTCTGTTGTCCTCATCGACGAAGGT
TGCTATGAACACTTAATTCATGCTCCAAATAGCTGATGAATTCCCCTTTCCCAAGAGGAGAAATC
GGCAAGAGAGCAAGGGAATTTTGGAATGGAAAAGAAGAGAGAAAGTGGAGAAAAGAGAGGAAAGA
TGTGAATGCTTGAGGTGTGTTTTTCAAATGACCAGCCTAAGGGGGTTTTTATATCTGAGGAGGGC
TACTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGCCGGCCACACATGTGGCAAGG
TTGATAGTTTCAACTTTGCTAATTTAGGCTTGGGGCAAATATATAAAGCCACCAATTGTGGAGGG
GTTTGAATGCAACTTGAACAAGTATTCAACGGCATCTTTGCAAGCTTAAATAATCAGCTAATAAG
CTAATTTGGTTCAGCTCTTGGAACAATTTTTAGGCTGG
Found at i:56203805 original size:14 final size:14
Alignment explanation
Indices: 56203786--56203812 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56203776 CATTTCTTGG
56203786 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
56203800 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
56203813 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:56223194 original size:21 final size:21
Alignment explanation
Indices: 56223170--56223215 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
56223160 TTTTAAAGGT
56223170 TAAATT-ATAAAGTTAT-TTAAG
1 TAAATTGATAAA--TATGTTAAG
56223191 TAAATTGATAAATATGTTAAG
1 TAAATTGATAAATATGTTAAG
56223212 TAAA
1 TAAA
56223216 AAAATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.13
21 15 0.65
22 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (21 bp):
TAAATTGATAAATATGTTAAG
Found at i:56231139 original size:5 final size:5
Alignment explanation
Indices: 56231129--56231164 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
56231119 TTTATACGTT
56231129 TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
56231165 CATTATACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:56232012 original size:16 final size:18
Alignment explanation
Indices: 56231978--56232014 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
56231968 ATTCTTATTT
*
56231978 AAATAAAATATAATCGTA
1 AAATAAAATATAATAGTA
56231996 AAATAAAATA-AA-AGTA
1 AAATAAAATATAATAGTA
56232012 AAA
1 AAA
56232015 ATTCATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 10 0.56
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (18 bp):
AAATAAAATATAATAGTA
Found at i:56235372 original size:16 final size:16
Alignment explanation
Indices: 56235351--56235382 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56235341 AACTTATTGC
*
56235351 AAAATTTTCCTTAGCA
1 AAAATTGTCCTTAGCA
56235367 AAAATTGTCCTTAGCA
1 AAAATTGTCCTTAGCA
56235383 GTGGATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (16 bp):
AAAATTGTCCTTAGCA
Found at i:56241470 original size:35 final size:35
Alignment explanation
Indices: 56241424--56241493 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
56241414 AATAGATGAA
56241424 AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
1 AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
56241459 AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
1 AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
56241494 GTCATGTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.03, G:0.26, T:0.51
Consensus pattern (35 bp):
AGAATTATTGGTTTGTTTGGGTTATGTTTGACATT
Found at i:56243180 original size:51 final size:49
Alignment explanation
Indices: 56243010--56243196 Score: 187
Period size: 51 Copynumber: 3.7 Consensus size: 49
56243000 AGTGAAAGTG
* * *
56243010 ATGGTCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGG-ATGGT
** * * * * *
56243061 A-GGTTGCATGTGTAGTACTATGTGTAGGCTATTATGCGTACTGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-GGATGGT
* * *
56243110 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGATGGT
*
56243161 AATGGTCACATGTGCAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
56243197 TGTGAACTAA
Statistics
Matches: 107, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
49 4 0.04
50 33 0.31
51 68 0.64
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGGATGGT
Found at i:56243271 original size:45 final size:45
Alignment explanation
Indices: 56243207--56243292 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
56243197 TGTGAACTAA
* * *
56243207 ACATCATTGATTAGTAAGGTGGTTGTTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
56243252 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
56243293 TCGAGTATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:56248555 original size:33 final size:33
Alignment explanation
Indices: 56248516--56248582 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
56248506 AGTTTTTGTA
56248516 TGTCTACAGAACTAAAGAATGATATCTAGATTT
1 TGTCTACAGAACTAAAGAATGATATCTAGATTT
56248549 TGTCTACAGAACTAAAGAATGATATCTAGATTT
1 TGTCTACAGAACTAAAGAATGATATCTAGATTT
56248582 T
1 T
56248583 TCTCCCTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTCTACAGAACTAAAGAATGATATCTAGATTT
Found at i:56252474 original size:17 final size:18
Alignment explanation
Indices: 56252433--56252474 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
56252423 CCTAACATAG
56252433 AAAAAAGAAAAATTAAGC
1 AAAAAAGAAAAATTAAGC
56252451 AAGAAAAG-AAAATT-AGC
1 AA-AAAAGAAAAATTAAGC
56252468 ATAAAAA
1 A-AAAAA
56252475 TTAGAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.36
18 9 0.41
19 5 0.23
ACGTcount: A:0.71, C:0.05, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAAAGAAAAATTAAGC
Found at i:56257594 original size:29 final size:29
Alignment explanation
Indices: 56257562--56257853 Score: 245
Period size: 29 Copynumber: 10.0 Consensus size: 29
56257552 TTCGACTATT
*
56257562 GAATATGAAAAGGGATGGTGACGAGCATC
1 GAATATGAAAAGGGATGGTGACGACCATC
* * * *
56257591 GAATATG-AAAGGAATAGCT-TCGACTATC
1 GAATATGAAAAGGGAT-GGTGACGACCATC
* * * * *
56257619 GAAATGTGAAAAGGGATAGCT-TCGGCTATC
1 G-AATATGAAAAGGGAT-GGTGACGACCATC
*
56257649 GATTATGAAAAGGGATGGTGACGACCATC
1 GAATATGAAAAGGGATGGTGACGACCATC
* *
56257678 -AACTATGGAAAGGAATGGTGACGACCATC
1 GAA-TATGAAAAGGGATGGTGACGACCATC
* * * *
56257707 GATTAATGAAAAGGGATAGCT-TCGACTATC
1 GAAT-ATGAAAAGGGAT-GGTGACGACCATC
*
56257737 GATTATGAAAAGGGATGGTGACGACCATC
1 GAATATGAAAAGGGATGGTGACGACCATC
* *
56257766 -AACTACGGAAAGGGATGGTGACGACCATC
1 GAA-TATGAAAAGGGATGGTGACGACCATC
* **
56257795 GATTAATGAAAAGGGATGGTTTCGACCATC
1 GAAT-ATGAAAAGGGATGGTGACGACCATC
* *
56257825 GAATATGAAAAGGGATGGTTACAACCATC
1 GAATATGAAAAGGGATGGTGACGACCATC
56257854 ATTTAGCACA
Statistics
Matches: 214, Mismatches: 37, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
28 20 0.09
29 125 0.58
30 67 0.31
31 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.21
Consensus pattern (29 bp):
GAATATGAAAAGGGATGGTGACGACCATC
Found at i:56257719 original size:59 final size:58
Alignment explanation
Indices: 56257565--56257854 Score: 237
Period size: 59 Copynumber: 5.0 Consensus size: 58
56257555 GACTATTGAA
* * * * * * *
56257565 TATGAAAAGGGATGGTGACGAGCATCGAATATG-AAAGGAATAGCT-TCGACTATCGAAA
1 TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGAT-GGTGACGACCATC-AAT
* * * * * *
56257623 TGTGAAAAGGGATAGCT-TCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGAT-GGTGACGACCATCGATTATGAAAAGGGATGGTGACGACCATCAAT
* * * * * *
56257681 TATGGAAAGGAATGGTGACGACCATCGATTAATGAAAAGGGATAGCT-TCGACTATCGAT
1 TATGAAAAGGGATGGTGACGACCATCGATT-ATGAAAAGGGAT-GGTGACGACCATCAAT
* * * * *
56257740 TATGAAAAGGGATGGTGACGACCATCAACTACGGAAAGGGATGGTGACGACCATCGAT
1 TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTGACGACCATCAAT
** * * *
56257798 TAATGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTTACAACCATCA
1 T-ATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTGACGACCATCA
56257855 TTTAGCACAC
Statistics
Matches: 182, Mismatches: 42, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
57 4 0.02
58 68 0.37
59 108 0.59
60 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.21
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGACGACCATCGATTATGAAAAGGGATGGTGACGACCATCAAT
Found at i:56257729 original size:88 final size:88
Alignment explanation
Indices: 56257538--56257854 Score: 428
Period size: 88 Copynumber: 3.6 Consensus size: 88
56257528 CATCGACCAC
* *
56257538 TGAAAAGGGATAGCTTCGACTATTGAATATGAAAAGGGATGGTGACGAGCATCGAA-TAT-GAAA
1 TGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGGTGACGACCATC-AACTATGGAAA
* * *
56257601 GGAATAGCT-TCGACTATCGA--AA
65 GGAAT-GGTGACGACCATCGATTAA
* *
56257623 TGTGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGGAA
1 --TGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGGAA
56257688 AGGAATGGTGACGACCATCGATTAA
64 AGGAATGGTGACGACCATCGATTAA
* *
56257713 TGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAACTACGGAAAG
1 TGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGGAAAG
*
56257778 GGATGGTGACGACCATCGATTAA
66 GAATGGTGACGACCATCGATTAA
* * * * *
56257801 TGAAAAGGGATGGTTTCGACCATCGAATATGAAAAGGGATGGTTACAACCATCA
1 TGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGGTGACGACCATCA
56257855 TTTAGCACAC
Statistics
Matches: 209, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
86 2 0.01
87 54 0.26
88 151 0.72
90 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (88 bp):
TGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGGAAAG
GAATGGTGACGACCATCGATTAA
Found at i:56267808 original size:40 final size:40
Alignment explanation
Indices: 56267771--56267995 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
56267761 GCTACTCGTT
* *
56267771 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
56267811 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
56267851 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
56267891 CAAATGCCTTCGGG-CCTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
56267930 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
56267971 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56267996 CATCATTCAA
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 117 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56267955 original size:119 final size:120
Alignment explanation
Indices: 56267771--56267995 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
56267761 GCTACTCGTT
*
56267771 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
56267836 ATTTAGTAAC-TCGCACAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
56267891 CAAATGCCTTCGGG-CCTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
56267953 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
56267996 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56275862 original size:79 final size:78
Alignment explanation
Indices: 56275760--56275982 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
56275750 GCTCCTCGTT
* *
56275760 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
56275825 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
56275840 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
56275903 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
56275918 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
56275981 GA
63 GA
56275983 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:56275877 original size:39 final size:40
Alignment explanation
Indices: 56275760--56275982 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
56275750 GCTCCTCGTT
* *
56275760 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
56275800 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
56275840 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
56275879 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
56275918 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
56275959 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56275983 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:56278449 original size:49 final size:51
Alignment explanation
Indices: 56278322--56278472 Score: 189
Period size: 51 Copynumber: 3.0 Consensus size: 51
56278312 TCGTCCATCC
* * * * *
56278322 ATAACACCATTTGTAGACAAGTCACCACTGATTTGCAGATAAACTACCACTA
1 ATAACA-CTTTTGTGGACAAGCCACCACTGATTTGCACATATACTACCACTA
* *
56278374 ATAACACTTTTGTGGACAAGCCACCACTGATATGAACATATACTACCACTA
1 ATAACACTTTTGTGGACAAGCCACCACTGATTTGCACATATACTACCACTA
* * *
56278425 TTAA-A-TTTTGTGGACAAGCCACCACTGATTTGCATATATACTGCCACT
1 ATAACACTTTTGTGGACAAGCCACCACTGATTTGCACATATACTACCACT
56278473 GCTTCCCCCT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 39 0.45
50 1 0.01
51 41 0.47
52 6 0.07
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (51 bp):
ATAACACTTTTGTGGACAAGCCACCACTGATTTGCACATATACTACCACTA
Found at i:56324896 original size:50 final size:50
Alignment explanation
Indices: 56324788--56324985 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 50
56324778 ATTTGGGTAA
* * * * *
56324788 AGAGATCCCATGTAAAACCATGTCTGGGACATGACATTGGCATCATTGAGGTTATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
* *
56324844 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
56324894 AGAGGTCCCCCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * * *
56324944 CGAACTCCCACGTAAGACCATATCTGGGATATGCCATTGGCA
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
56324986 GTATAAGAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 80 0.66
52 1 0.01
53 2 0.02
55 1 0.01
56 38 0.31
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:56326459 original size:20 final size:20
Alignment explanation
Indices: 56326434--56326473 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56326424 CGTAAAATGA
*
56326434 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
56326454 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
56326474 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:56326463 original size:34 final size:35
Alignment explanation
Indices: 56326419--56326485 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
56326409 CAGTAAAATA
*
56326419 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
56326453 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
56326486 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:56326489 original size:14 final size:15
Alignment explanation
Indices: 56326413--56326489 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
56326403 GATTGCCAGT
* *
56326413 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
56326427 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
56326441 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
56326461 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
56326476 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
56326490 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:56333024 original size:44 final size:44
Alignment explanation
Indices: 56332958--56333043 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
56332948 TAAGACCATG
*
56332958 TCTGGGACATGGCATTGACATCATTGAGGTTATGAAAGGTCCTA
1 TCTGGGACATGGCATTGACATCATTGAGATTATGAAAGGTCCTA
* *
56333002 TCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCC
1 TCTGGGACATGGCATTGACATCATTGAGATTATGAAAGGTCC
56333044 CATGTAAGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (44 bp):
TCTGGGACATGGCATTGACATCATTGAGATTATGAAAGGTCCTA
Found at i:56333087 original size:50 final size:50
Alignment explanation
Indices: 56333033--56333177 Score: 200
Period size: 50 Copynumber: 2.9 Consensus size: 50
56333023 CATTGAGATT
* *
56333033 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * * *
56333083 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * *
56333133 ATGAGAACTCCCACGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
56333178 GTACAAGAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:56333219 original size:49 final size:50
Alignment explanation
Indices: 56333032--56333219 Score: 177
Period size: 50 Copynumber: 3.8 Consensus size: 50
56333022 TCATTGAGAT
** * * * *
56333032 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAACTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCATCGA
* ** *
56333082 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGA
1 TATGAGAACTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCATCGA
* * *
56333132 TATGAGAACTCCCACGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-A
1 TATGAGAACTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCA-T-CGA
* * *
56333183 -A-GA-AACATCCCATGTAATACTATGTCTGGGACATGGC
1 TATGAGAAC-TCCCACGTAAGACCATGTCTGGGACATGGC
56333220 TTTGACATGT
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
48 3 0.03
49 27 0.23
50 84 0.72
51 2 0.02
52 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
TATGAGAACTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCATCGA
Found at i:56333579 original size:14 final size:15
Alignment explanation
Indices: 56333552--56333585 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
56333542 CTTACTAAGC
56333552 TTTATTCTTACTTCT
1 TTTATTCTTACTTCT
*
56333567 TTTATT-TTCCTTCT
1 TTTATTCTTACTTCT
56333581 TTTAT
1 TTTAT
56333586 AGTATTGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTCTTACTTCT
Found at i:56337370 original size:47 final size:48
Alignment explanation
Indices: 56337231--56337370 Score: 122
Period size: 48 Copynumber: 2.9 Consensus size: 48
56337221 CCAGCACATA
* ** * ** *
56337231 TGTGGACAAAGCCACCAAATTTTTAGACAACCTACCAAAACACATAGT
1 TGTGGACAAAGCCACCAAAATCGTAGAAAAGATTCCAAAACACATAGT
** * * *
56337279 TGTGGACAAAGCCACTGAAATCGTAGGAAAGCTTCCAATACACATAGT
1 TGTGGACAAAGCCACCAAAATCGTAGAAAAGATTCCAAAACACATAGT
* * *
56337327 TGTGGTC-AAGCCACCAAAATTGTAGAAAATATGT-CAAAACACAT
1 TGTGGACAAAGCCACCAAAATCGTAGAAAAGAT-TCCAAAACACAT
56337371 TCATGGATAA
Statistics
Matches: 73, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
47 28 0.38
48 45 0.62
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (48 bp):
TGTGGACAAAGCCACCAAAATCGTAGAAAAGATTCCAAAACACATAGT
Found at i:56339555 original size:28 final size:28
Alignment explanation
Indices: 56339524--56339612 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
56339514 AATAACAGTA
*
56339524 CAGTGTGGGCCCTAGCCCAATACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
*
56339552 CAGTGTGGGCTTTAGCCCAATACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
56339580 CAGTGTGGGCCTTAGCCTC-ATACAGTAA-
1 CAGTGTGGGCCTTAGCC-CAATACAG-AAT
56339608 CAGTG
1 CAGTG
56339613 CGATAATTGG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
28 53 0.95
29 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGAAT
Found at i:56343923 original size:10 final size:10
Alignment explanation
Indices: 56343908--56343933 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
56343898 TCTAACTTCA
56343908 TCATTTATGT
1 TCATTTATGT
56343918 TCATTTATGT
1 TCATTTATGT
56343928 TCATTT
1 TCATTT
56343934 GATTCAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.08, T:0.62
Consensus pattern (10 bp):
TCATTTATGT
Found at i:56353717 original size:20 final size:20
Alignment explanation
Indices: 56353692--56353730 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
56353682 AATGAGAAGA
56353692 AGAAAG-AAGAATGAAAAAAG
1 AGAAAGCAAG-ATGAAAAAAG
56353712 AGAAAGCAAGATGAAAAAA
1 AGAAAGCAAGATGAAAAAA
56353731 TCAGAATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.05
Consensus pattern (20 bp):
AGAAAGCAAGATGAAAAAAG
Found at i:56353736 original size:21 final size:20
Alignment explanation
Indices: 56353692--56353736 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
56353682 AATGAGAAGA
*
56353692 AGAAAGAAGAATGAAAAAAG
1 AGAAAGAAGAATGAAAAAAC
56353712 AGAAAGCAAG-ATGAAAAAATC
1 AGAAAG-AAGAATGAAAAAA-C
56353733 AGAA
1 AGAA
56353737 TGGAAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.67, C:0.04, G:0.22, T:0.07
Consensus pattern (20 bp):
AGAAAGAAGAATGAAAAAAC
Found at i:56356134 original size:173 final size:174
Alignment explanation
Indices: 56355832--56356156 Score: 499
Period size: 173 Copynumber: 1.9 Consensus size: 174
56355822 GTGAAGATAA
* * * *
56355832 AAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATACCAGATTTTTCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATACCAGATCTTGCCTTCCT
* * *
56355897 GTATTAACAGCGAAGCAGATCGAAAACAAAGTCTTACCTCCATCGTTTGCATTGGAGCTGGTTAA
66 GCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTCCATCGTTTGCAGTGGAGCTGGTTAA
*
56355962 AGA-AGCAGATCTTTCCGTCCTACATTAACAGCGAAGCAGATCG
131 AGATAGCAGATCTTTCCCTCCTACATTAACAGCGAAGCAGATCG
* * * *
56356005 AAAACGAAGTCTTGCCTCCATCAGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATACCAGATCTTGCCTTCCT
* * * *
56356070 GCGTTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCATCGTTTGCAGTGGAGTTGGTTAA
66 GCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTCCATCGTTTGCAGTGGAGCTGGTTAA
56356135 AGATAGCAGATCTTTCCCTCCT
131 AGATAGCAGATCTTTCCCTCCT
56356157 GCGTCGACAG
Statistics
Matches: 135, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
173 118 0.87
174 17 0.13
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (174 bp):
AAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATACCAGATCTTGCCTTCCT
GCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTCCATCGTTTGCAGTGGAGCTGGTTAA
AGATAGCAGATCTTTCCCTCCTACATTAACAGCGAAGCAGATCG
Found at i:56356160 original size:87 final size:87
Alignment explanation
Indices: 56355832--56356158 Score: 469
Period size: 87 Copynumber: 3.8 Consensus size: 87
56355822 GTGAAGATAA
* * * *
56355832 AAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATACCAGATTTTTCCTTCCT
1 AAAACAAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTTCCTTCCT
*
56355897 GTATTAACAGCGAAGCAGATCG
66 GCATTAACAGCGAAGCAGATCG
* * * *
56355919 AAAACAAAGTCTTACCTCCATCGTTTGCATTGGAGCTGGTTAAAGA-AGCAGATCTTTCCGTCCT
1 AAAACAAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTTCCTTCCT
*
56355983 ACATTAACAGCGAAGCAGATCG
66 GCATTAACAGCGAAGCAGATCG
* * * *
56356005 AAAACGAAGTCTTGCCTCCATCAG-TTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCC
1 AAAACAAAGCCTTGCCTCCATC-GTTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTTCCTTCC
*
56356069 TGCGTTAACAGCGAAGCAGATCG
65 TGCATTAACAGCGAAGCAGATCG
* * *
56356092 AAAACGAAGCCTTGCCTCCATCGTTTGCAGTGGAGTTGGTTAAAGATAGCAGATCTTTCCCTCCT
1 AAAACAAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTTCCTTCCT
56356157 GC
66 GC
56356159 GTCGACAGTG
Statistics
Matches: 214, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
86 76 0.36
87 138 0.64
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (87 bp):
AAAACAAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTTCCTTCCT
GCATTAACAGCGAAGCAGATCG
Found at i:56356368 original size:44 final size:45
Alignment explanation
Indices: 56356270--56356369 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 45
56356260 TGGAAATTGC
** *
56356270 AGATCTTATCTCATTGAGATTACAGCGGAGCGGATTGAAGCTGAT
1 AGATCTTATCTCATTGAGATTACAGCGGAGCGGATTGAAAATGAA
* * * *
56356315 A-ATCCTATCTCCTTGTGATTACAGTGGAGCGGATT-AAAAT-AA
1 AGATCTTATCTCATTGAGATTACAGCGGAGCGGATTGAAAATGAA
56356357 AGGATCTTATCTC
1 A-GATCTTATCTC
56356370 TCTGAAGTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
42 2 0.04
43 3 0.07
44 39 0.87
45 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (45 bp):
AGATCTTATCTCATTGAGATTACAGCGGAGCGGATTGAAAATGAA
Found at i:56356381 original size:44 final size:43
Alignment explanation
Indices: 56356320--56356498 Score: 114
Period size: 44 Copynumber: 4.1 Consensus size: 43
56356310 CTGATAATCC
* * *
56356320 TATCTCCTTGTGATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATCT
* * * *** *
56356364 TATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCATCAGG-TCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAGGATCT
* * ** * *
56356405 TATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-GATCT
* * *
56356449 TATCTCCCTGAGATTATAGTGGAGCGGATTAAAGTAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATCT
56356493 TATCTC
1 TATCTC
56356499 TTTGAAGTTA
Statistics
Matches: 98, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
41 24 0.24
42 7 0.07
43 8 0.08
44 57 0.58
45 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAGGATCT
Found at i:56356505 original size:129 final size:129
Alignment explanation
Indices: 56356273--56356547 Score: 426
Period size: 129 Copynumber: 2.1 Consensus size: 129
56356263 AAATTGCAGA
** * * * *
56356273 TCTTATCTCATTGAGATTACAGCGGAGCGGATTGAAGCTGATAATCCTATCTCCTTGTGATTACA
1 TCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTGATAATCCTATCTCCCTGAGATTACA
*
56356338 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
*
56356402 TCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCT-AGTAATCCTATCTCCCTGAGATTAT
1 TCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTGA-TAATCCTATCTCCCTGAGATTAC
* * *
56356466 AGTGGAGCGGATTAAAGTAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCATATCAGG
65 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
*
56356531 TCTTATCTTCCTGAGAT
1 TCTTATCTCCCTGAGAT
56356548 CACGGTGGAA
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
128 1 0.01
129 132 0.99
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTGATAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
Found at i:56356662 original size:50 final size:50
Alignment explanation
Indices: 56356605--56356764 Score: 187
Period size: 50 Copynumber: 3.2 Consensus size: 50
56356595 GTAGTGGGAC
*
56356605 AGATTAAAACCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
* * * * * * ** ** *
56356655 AGATTAAAGCTACAACAGCGAATCTTGCCTCCCAGGTGA-TGCAGTGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCC-CGACATTGCAGTTCAAA
56356705 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
*
56356755 ATATTAAAGC
1 AGATTAAAGC
56356765 TACAACAGCG
Statistics
Matches: 84, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
49 2 0.02
50 80 0.95
51 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAA
Found at i:56356749 original size:100 final size:100
Alignment explanation
Indices: 56356576--56356818 Score: 387
Period size: 100 Copynumber: 2.4 Consensus size: 100
56356566 AGAATTACAT
* * *
56356576 ATCTTGCCTCCCAGGTGATGTAGTGGGACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCGA
1 ATCTTGCCTCCCAGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
56356641 CATTGCAGTTCAAAAGATTAAAGCTACAACAGCGA
66 CATTGCAGTTCAAAAGATTAAAGCTACAACAGCGA
56356676 ATCTTGCCTCCCAGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
1 ATCTTGCCTCCCAGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
*
56356741 CATTGCAGTTCAAAATATTAAAGCTACAACAGCGA
66 CATTGCAGTTCAAAAGATTAAAGCTACAACAGCGA
* * ** ** *
56356776 ATCTTACCTCTCAGGCAATGCAGCAGAACATATTAAAGCCACA
1 ATCTTGCCTCCCAGGTGATGCAGTGGAACAGATTAAAGCCACA
56356819 ACGGCAAATC
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 132 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (100 bp):
ATCTTGCCTCCCAGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
CATTGCAGTTCAAAAGATTAAAGCTACAACAGCGA
Found at i:56356778 original size:50 final size:50
Alignment explanation
Indices: 56356624--56356780 Score: 190
Period size: 50 Copynumber: 3.1 Consensus size: 50
56356614 CCACATCGGT
56356624 GAATCTTGCTTCCCCGACATTGCAGTTCAAAAGATTAAAGCTACAACAGC
1 GAATCTTGCTTCCCCGACATTGCAGTTCAAAAGATTAAAGCTACAACAGC
* * ** ** * * * * *
56356674 GAATCTTGCCTCCCAGGTGA-TGCAGTGGAACAGATTAAAGCCACATCGGT
1 GAATCTTGCTTCCC-CGACATTGCAGTTCAAAAGATTAAAGCTACAACAGC
*
56356724 GAATCTTGCTTCCCCGACATTGCAGTTCAAAATATTAAAGCTACAACAGC
1 GAATCTTGCTTCCCCGACATTGCAGTTCAAAAGATTAAAGCTACAACAGC
56356774 GAATCTT
1 GAATCTT
56356781 ACCTCTCAGG
Statistics
Matches: 82, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
49 2 0.02
50 78 0.95
51 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (50 bp):
GAATCTTGCTTCCCCGACATTGCAGTTCAAAAGATTAAAGCTACAACAGC
Found at i:56356798 original size:50 final size:50
Alignment explanation
Indices: 56356644--56356832 Score: 157
Period size: 50 Copynumber: 3.8 Consensus size: 50
56356634 TCCCCGACAT
* * **
56356644 TGCAGTTCAAAAGATTAAAGCTACAACAGCGAATCTTGCCTCCCAGGTGA
1 TGCAGTTCAAAAGATTAAAGCCACAACAGCGAATCTTACCTCCCAGGCAA
** * * * * * * * * *
56356694 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTTCAAAAGATTAAAGCCACAACAGCGAATCTTACCTCCCAGGCAA
* * *
56356744 TGCAGTTCAAAATATTAAAGCTACAACAGCGAATCTTACCTCTCAGGCAA
1 TGCAGTTCAAAAGATTAAAGCCACAACAGCGAATCTTACCTCCCAGGCAA
* * *
56356794 TGCAG--CAGAACATATTAAAGCCACAACGGCAAATCTTAC
1 TGCAGTTCA-AA-AGATTAAAGCCACAACAGCGAATCTTAC
56356833 ATTCCAAAAG
Statistics
Matches: 107, Mismatches: 30, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 103 0.96
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (50 bp):
TGCAGTTCAAAAGATTAAAGCCACAACAGCGAATCTTACCTCCCAGGCAA
Found at i:56357094 original size:12 final size:12
Alignment explanation
Indices: 56357077--56357109 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
56357067 GCCCAAATCA
56357077 AATAAATAAAAT
1 AATAAATAAAAT
*
56357089 AATAAATATAAT
1 AATAAATAAAAT
56357101 AATAAATAA
1 AATAAATAA
56357110 TGAAAACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:56357571 original size:16 final size:17
Alignment explanation
Indices: 56357550--56357582 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
56357540 ACACACACAG
56357550 AATC-AATACAAAAAAA
1 AATCAAATACAAAAAAA
56357566 AATCAAAATACAAAAAA
1 AATC-AAATACAAAAAA
56357583 GGTGATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AATCAAATACAAAAAAA
Found at i:56366262 original size:15 final size:16
Alignment explanation
Indices: 56366233--56366262 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56366223 CAAACATGCT
56366233 TTAACACATTATCAAA
1 TTAACACATTATCAAA
56366249 TTAACACA-TATCAA
1 TTAACACATTATCAA
56366263 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:56374084 original size:23 final size:23
Alignment explanation
Indices: 56374054--56374098 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
56374044 TGTTATGGAC
56374054 GAACTCATTTAAACCATGTATAT
1 GAACTCATTTAAACCATGTATAT
56374077 GAACTCATTTAAACCATGTATA
1 GAACTCATTTAAACCATGTATA
56374099 AATGTACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (23 bp):
GAACTCATTTAAACCATGTATAT
Found at i:56386115 original size:94 final size:95
Alignment explanation
Indices: 56385994--56386183 Score: 364
Period size: 95 Copynumber: 2.0 Consensus size: 95
56385984 TCTTGTTTAC
56385994 AACAATGATAGCTTAAATTTTATTTAAGCTA-GATGATTATTTTGACTAAATAATATTTATGTCA
1 AACAATGATAGCTTAAATTTTATTTAAGCTAGGATGATTATTTTGACTAAATAATATTTATGTCA
56386058 TTCATGCTTATAATGTTTGTTCCTCAATCG
66 TTCATGCTTATAATGTTTGTTCCTCAATCG
*
56386088 AACAATGATAGCTTAAATTTTATTTAAGCTAGGATGATTATTTTGACTAAATAATATTTATGTGA
1 AACAATGATAGCTTAAATTTTATTTAAGCTAGGATGATTATTTTGACTAAATAATATTTATGTCA
56386153 TTCATGCTTATAATGTTTGTTCCTCAATCG
66 TTCATGCTTATAATGTTTGTTCCTCAATCG
56386183 A
1 A
56386184 TCATGTTTTC
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 31 0.33
95 63 0.67
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (95 bp):
AACAATGATAGCTTAAATTTTATTTAAGCTAGGATGATTATTTTGACTAAATAATATTTATGTCA
TTCATGCTTATAATGTTTGTTCCTCAATCG
Found at i:56405765 original size:27 final size:27
Alignment explanation
Indices: 56405673--56405770 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
56405663 CTTATTTGCG
* * *
56405673 AACACAGTTCTCCAAAACACATCTGCG
1 AACATAGTTCACCAAAACACATCTGCA
** * *
56405700 AACATAGTTCACCAAGTCAGACCTGCA
1 AACATAGTTCACCAAAACACATCTGCA
*
56405727 AACTTAGTTCACCAAAACACATCTGCA
1 AACATAGTTCACCAAAACACATCTGCA
*
56405754 AACATAGCTCACCAAAA
1 AACATAGTTCACCAAAA
56405771 GTATCTGTCA
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.41, C:0.31, G:0.10, T:0.18
Consensus pattern (27 bp):
AACATAGTTCACCAAAACACATCTGCA
Found at i:56409868 original size:54 final size:54
Alignment explanation
Indices: 56409810--56409919 Score: 177
Period size: 54 Copynumber: 2.0 Consensus size: 54
56409800 TCTGGTAAGG
*
56409810 TATCTTTCTAAGAGG-ATTTCGATTAGTATAGTTAATTAAAATTCGTGTTTATTA
1 TATCTTTCTAAGAGGAATTT-GATTAGTATAGTTAATTAAAATTCATGTTTATTA
* *
56409864 TATCTTTCTAGGAGGAATTTTATTAGTATAGTTAATTAAAATTCATGTTTATTA
1 TATCTTTCTAAGAGGAATTTGATTAGTATAGTTAATTAAAATTCATGTTTATTA
56409918 TA
1 TA
56409920 ACATTAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 48 0.92
55 4 0.08
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (54 bp):
TATCTTTCTAAGAGGAATTTGATTAGTATAGTTAATTAAAATTCATGTTTATTA
Found at i:56413376 original size:19 final size:18
Alignment explanation
Indices: 56413347--56413391 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
56413337 ATAATATATA
*
56413347 AATAAAATTAATTTATTT
1 AATAAAATTAATTAATTT
56413365 AATAATAATTAATTAATTT
1 AATAA-AATTAATTAATTT
*
56413384 AATCAAAT
1 AATAAAAT
56413392 CCTTATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAAAATTAATTAATTT
Found at i:56415251 original size:27 final size:28
Alignment explanation
Indices: 56415193--56415261 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
56415183 AAATTTTAGA
*
56415193 TTGTTGGATTTTGATATATGTCTTGAAT
1 TTGTTGGATATTGATATATGTCTTGAAT
* *
56415221 TTGTTAGATATTGAT-TATGT-TTTAAT
1 TTGTTGGATATTGATATATGTCTTGAAT
56415247 CTTGTTGGATATTGA
1 -TTGTTGGATATTGA
56415262 ATTTATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.14
27 18 0.50
28 13 0.36
ACGTcount: A:0.23, C:0.03, G:0.20, T:0.54
Consensus pattern (28 bp):
TTGTTGGATATTGATATATGTCTTGAAT
Found at i:56415273 original size:35 final size:36
Alignment explanation
Indices: 56415229--56415305 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
56415219 ATTTGTTAGA
* *
56415229 TATTGATTATGTTTTAATCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAAAT
56415265 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAAAT
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAAAT
56415300 TATTGA
1 TATTGA
56415306 CAATGACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (36 bp):
TATTGATTATGTTTTAAGCTTGTTGGATATTGAAAT
Found at i:56416642 original size:14 final size:15
Alignment explanation
Indices: 56416620--56416696 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
56416610 CAATCAAACA
56416620 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
56416634 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
56416649 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
56416669 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
56416683 CCGGAAAA-CATTTT
1 CCAGAAAATCATTTT
56416697 ACTGCCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 23 0.45
15 14 0.27
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:56416661 original size:20 final size:20
Alignment explanation
Indices: 56416636--56416675 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56416626 AATATTTTCC
*
56416636 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
56416656 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
56416676 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:56440985 original size:20 final size:20
Alignment explanation
Indices: 56440960--56441022 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
56440950 TTCAAAGTCT
56440960 TTCATACATACATATCTTGG
1 TTCATACATACATATCTTGG
* *
56440980 TTCATA-TTGA-ACA-CTAT--
1 TTCATACAT-ACATATCT-TGG
56440997 TTCATACATACATATCTTGG
1 TTCATACATACATATCTTGG
56441017 TTCATA
1 TTCATA
56441023 TTGAGCACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
17 7 0.22
18 6 0.19
19 6 0.19
20 13 0.41
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (20 bp):
TTCATACATACATATCTTGG
Found at i:56441000 original size:37 final size:37
Alignment explanation
Indices: 56440959--56441035 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
56440949 TTTCAAAGTC
*
56440959 TTTCATACATACATATCTTGGTTCATATTGAACACTA
1 TTTCATACATACATATCTTGGTTCATATTGAACACCA
*
56440996 TTTCATACATACATATCTTGGTTCATATTGAGCACCA
1 TTTCATACATACATATCTTGGTTCATATTGAACACCA
56441033 TTT
1 TTT
56441036 TTCATGTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (37 bp):
TTTCATACATACATATCTTGGTTCATATTGAACACCA
Found at i:56441080 original size:26 final size:26
Alignment explanation
Indices: 56441050--56441106 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
56441040 TGTATTCATA
56441050 CATACATACACCATTTCAAAGTCTTT
1 CATACATACACCATTTCAAAGTCTTT
56441076 CATACATACACCATTTCAAAGTCTTT
1 CATACATACACCATTTCAAAGTCTTT
56441102 CATAC
1 CATAC
56441107 TCAGGACCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (26 bp):
CATACATACACCATTTCAAAGTCTTT
Found at i:56444437 original size:66 final size:65
Alignment explanation
Indices: 56444323--56444448 Score: 189
Period size: 66 Copynumber: 1.9 Consensus size: 65
56444313 CTATCACACC
** *
56444323 AAATAGACTCATAGAGTCAAACATGTCCCATAAGTGAAGCATAAAGCTAACACTCTCCAAGACAA
1 AAATAGACTCATAGAGTCAAACAACTCCCAAAAGTGAAGCATAAAGCTAACACTCTCCAAGACAA
* * *
56444388 AAATTGACTCATAGAGTCGAACAACTCCCAAAAAGTGAAGCATAAAGCTAACATTCTCCAA
1 AAATAGACTCATAGAGTCAAACAACTCCC-AAAAGTGAAGCATAAAGCTAACACTCTCCAA
56444449 CATAACAAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
65 25 0.46
66 29 0.54
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.19
Consensus pattern (65 bp):
AAATAGACTCATAGAGTCAAACAACTCCCAAAAGTGAAGCATAAAGCTAACACTCTCCAAGACAA
Found at i:56450098 original size:14 final size:15
Alignment explanation
Indices: 56450075--56450108 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
56450065 AATTTAGTTG
*
56450075 ATAAAGAAAA-TAAA
1 ATAAACAAAAGTAAA
56450089 ATAAACAAAAGTAAA
1 ATAAACAAAAGTAAA
56450104 ATAAA
1 ATAAA
56450109 ATATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
ATAAACAAAAGTAAA
Found at i:56453975 original size:36 final size:36
Alignment explanation
Indices: 56453928--56454037 Score: 116
Period size: 41 Copynumber: 2.9 Consensus size: 36
56453918 ATTGAAGTCT
*
56453928 CGATTGCACTAGCTCGATCTCTGTGGGATCTTTAGC
1 CGATTGCACTAGCTCGATCTCTGTGGGATCTTCAGC
*
56453964 CGATTGCACTAGCTCGATTGCACCT-TACCAGGGA-CTTCAGC
1 CGATTGCACTAGCTCGA-T-C-TCTGT----GGGATCTTCAGC
*
56454005 CGATTGCACTAGCTCAATCTCTGTGGGATCTTC
1 CGATTGCACTAGCTCGATCTCTGTGGGATCTTC
56454038 TACTTACTGT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
35 4 0.07
36 21 0.34
37 1 0.02
38 4 0.07
39 4 0.07
40 1 0.02
41 22 0.36
42 4 0.07
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (36 bp):
CGATTGCACTAGCTCGATCTCTGTGGGATCTTCAGC
Found at i:56455543 original size:28 final size:28
Alignment explanation
Indices: 56455475--56455625 Score: 178
Period size: 28 Copynumber: 5.2 Consensus size: 28
56455465 AGTGACAATA
* *
56455475 CAGTGTGGGCCTCAGCCCAATATAGTAATAGT
1 CAGTGTGGGCCTTAGCCCAATACAG--A-A-T
56455507 ACAGTGTGGGCCTTAGCCCAATACAGAAT
1 -CAGTGTGGGCCTTAGCCCAATACAGAAT
* * *
56455536 CAATGTGGGCCTTAGCCCATTGCAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
* *
56455564 TAGTGTGGGCCTTATCCCAATACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
56455592 CAGTGTGGGCCTTAGCCCAATACAGTAAT
1 CAGTGTGGGCCTTAGCCCAATACAG-AAT
56455621 -AGTGT
1 CAGTGT
56455626 AGTGCAATAA
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
28 76 0.72
29 4 0.04
30 1 0.01
31 1 0.01
33 23 0.22
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGAAT
Found at i:56455756 original size:26 final size:27
Alignment explanation
Indices: 56455727--56455800 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 27
56455717 ACACACCAAT
*
56455727 ATCGCAGCAAAGCGGCCAGTAAT-AGC
1 ATCGCAGCAAAGCTGCCAGTAATCAGC
* *
56455753 ATCGCAGCAGAGCTGCCAGT-ATCAGT
1 ATCGCAGCAAAGCTGCCAGTAATCAGC
* *
56455779 ATCGGAGCAAAGCTACCAGTAA
1 ATCGCAGCAAAGCTGCCAGTAA
56455801 AAATATATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.05
26 37 0.93
27 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.26, T:0.15
Consensus pattern (27 bp):
ATCGCAGCAAAGCTGCCAGTAATCAGC
Found at i:56456059 original size:27 final size:27
Alignment explanation
Indices: 56456039--56456302 Score: 207
Period size: 27 Copynumber: 10.0 Consensus size: 27
56456029 GGGTATAACA
*
56456039 GTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
* *
56456066 GTCATTTTACCCTATGAGAGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* ***
56456093 GTCATTTTACTCTACGGGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
*
56456120 GTCATTTTACCTTATAAGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* *
56456147 GTCATTCTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* * *
56456174 GTTATTTTACCC--T---GGAATTTCA
1 GTCATTTTACCCTATAAGGGTATTTCG
* * *** *
56456196 ATTATTTTACCCTACGGGGGTATTTCA
1 GTCATTTTACCCTATAAGGGTATTTCG
* ** * *
56456223 GTTATTTTACCCTATGGGGGGAATTTTG
1 GTCATTTTACCCTAT-AAGGGTATTTCG
* * * **
56456251 ATTATTTTACCTTATTGGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
*
56456278 GTCATTTTATCCTAT-AGGGTATTTC
1 GTCATTTTACCCTATAAGGGTATTTC
56456303 AATCATCTAT
Statistics
Matches: 194, Mismatches: 37, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
22 18 0.09
25 1 0.01
26 9 0.05
27 144 0.74
28 22 0.11
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATAAGGGTATTTCG
Found at i:56456255 original size:28 final size:28
Alignment explanation
Indices: 56456187--56456270 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
56456177 ATTTTACCCT
*
56456187 GGAATTTCAATTATTTTACCCTA-CGGG
1 GGAATTTTAATTATTTTACCCTATCGGG
* * * *
56456214 GGTATTTCAGTTATTTTACCCTATGGGG
1 GGAATTTTAATTATTTTACCCTATCGGG
* * *
56456242 GGAATTTTGATTATTTTACCTTATTGGG
1 GGAATTTTAATTATTTTACCCTATCGGG
56456270 G
1 G
56456271 TATTTCGGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 21 0.45
28 26 0.55
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (28 bp):
GGAATTTTAATTATTTTACCCTATCGGG
Found at i:56468502 original size:29 final size:29
Alignment explanation
Indices: 56468439--56468506 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
56468429 TAATCAACCG
56468439 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
56468468 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
56468497 CGCACACTTA
1 CGCACACTTA
56468507 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:56468618 original size:174 final size:174
Alignment explanation
Indices: 56468328--56468655 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
56468318 AACTCAAGGT
*
56468328 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
56468393 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
56468458 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
56468502 ACTTACCTTTTCCGCTGTCCAAAATTGACTTGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
56468567 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
56468632 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
56468656 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:56468647 original size:29 final size:30
Alignment explanation
Indices: 56468608--56468686 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
56468598 CTTAATAATC
56468608 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
56468638 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
56468667 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56468687 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:56470838 original size:30 final size:30
Alignment explanation
Indices: 56470782--56470839 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56470772 TCTGAGCTTT
*
56470782 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGCAAAAGTGTAATTATGCAAAAGTTTA
* * *
56470812 GGGGCAAAATTGTAATTTTGCCAAAGTT
1 GGGGCAAAAGTGTAATTATGCAAAAGTT
56470840 AGAGTCAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAGTGTAATTATGCAAAAGTTTA
Found at i:56471300 original size:50 final size:50
Alignment explanation
Indices: 56471180--56471422 Score: 315
Period size: 50 Copynumber: 4.7 Consensus size: 50
56471170 GGTAAAAAGA
56471180 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGG
* *
56471236 TCCAATGTAAGACCATGTCTGGGACATGGAATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*
56471286 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*** * * **
56471336 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
56471386 TCCCATGTAAGACCATATCTAGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
56471423 TGTTATTATC
Statistics
Matches: 167, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 127 0.76
53 3 0.02
55 2 0.01
56 35 0.21
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:56484050 original size:50 final size:50
Alignment explanation
Indices: 56483942--56484227 Score: 252
Period size: 50 Copynumber: 5.6 Consensus size: 50
56483932 CTATCACCAC
* * **
56483942 GTAAGACCATGTCTGGGGCATGGCATTGGCATCCTTGGGATCATGAGAGGTCTAAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GA-GATGAGAGGTCCCAT
*
56483998 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAT
* * **
56484048 GTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAT
* * * ** * ** *
56484098 ATAAGACTATGTCTGGGACATGGCATGGGCACTAATATGAGAACTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAT
* * * * * * **
56484148 GTAAGACCATATCTGGGATATGACATTGGTA--GTACATGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCCCAT
*
56484197 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
56484228 TGTTATTGTC
Statistics
Matches: 188, Mismatches: 41, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
49 37 0.20
50 117 0.62
51 2 0.01
55 2 0.01
56 30 0.16
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCAT
Found at i:56489195 original size:19 final size:19
Alignment explanation
Indices: 56489171--56489208 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
56489161 ATAATCTCTT
56489171 GTACATATCCCTATGTCAA
1 GTACATATCCCTATGTCAA
56489190 GTACATATCCCTATGTCAA
1 GTACATATCCCTATGTCAA
56489209 TTTAAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
GTACATATCCCTATGTCAA
Found at i:56495152 original size:24 final size:23
Alignment explanation
Indices: 56495124--56495168 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
56495114 TCGAATTTCC
* *
56495124 TTGATTTTCTCCCCAATCTCCTCA
1 TTGATTTGCTCCACAAT-TCCTCA
56495148 TTGATTTGCTCCACAATTCCT
1 TTGATTTGCTCCACAATTCCT
56495169 TCCAAGACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.18, C:0.33, G:0.07, T:0.42
Consensus pattern (23 bp):
TTGATTTGCTCCACAATTCCTCA
Found at i:56497272 original size:19 final size:20
Alignment explanation
Indices: 56497240--56497277 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
56497230 CAAGCTGACT
56497240 TTAGCTCAATTTCAGCTCCC
1 TTAGCTCAATTTCAGCTCCC
56497260 TTAGCTC-ATTTCAGCTCC
1 TTAGCTCAATTTCAGCTCC
56497278 AATCAGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGCTCAATTTCAGCTCCC
Found at i:56497285 original size:20 final size:19
Alignment explanation
Indices: 56497242--56497287 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
56497232 AGCTGACTTT
* *
56497242 AGCTCAATTTCAGCTCCCTT
1 AGCTC-ATTTCAGCTCCATC
56497262 AGCTCATTTCAGCTCCAATC
1 AGCTCATTTCAGCTCC-ATC
56497282 AGCTCA
1 AGCTCA
56497288 CTTGAGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.30
Consensus pattern (19 bp):
AGCTCATTTCAGCTCCATC
Found at i:56499727 original size:18 final size:18
Alignment explanation
Indices: 56499674--56499728 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
56499664 AACAGCATGT
56499674 GAAAAAGAAA-AAGAAAAA
1 GAAAAAGAAATAA-AAAAA
* * *
56499692 TAAAAAGAAATTACAAAA
1 GAAAAAGAAATAAAAAAA
*
56499710 GAAAAAGAAATCAAAAAA
1 GAAAAAGAAATAAAAAAA
56499728 G
1 G
56499729 TGATAGAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 29 0.97
19 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.07
Consensus pattern (18 bp):
GAAAAAGAAATAAAAAAA
Found at i:56499764 original size:27 final size:24
Alignment explanation
Indices: 56499709--56499771 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
56499699 AAATTACAAA
**
56499709 AGAAAAAGAAATCAAAAAAGTGAT
1 AGAAAAAGAAATCAAAAAAGAAAT
56499733 AGAAAAAGAAATCGAAGAAAAGAAAAT
1 AGAAAAAGAAATC-AA-AAAAG-AAAT
*
56499760 TGAAAAAGAAAT
1 AGAAAAAGAAAT
56499772 TGAAATTGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.39
25 2 0.06
26 5 0.15
27 13 0.39
ACGTcount: A:0.68, C:0.03, G:0.17, T:0.11
Consensus pattern (24 bp):
AGAAAAAGAAATCAAAAAAGAAAT
Found at i:56499772 original size:12 final size:12
Alignment explanation
Indices: 56499710--56499776 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
56499700 AATTACAAAA
56499710 GAAAAAGAAATC
1 GAAAAAGAAATC
* ** *
56499722 AAAAAAGTGATA
1 GAAAAAGAAATC
56499734 GAAAAAGAAATC
1 GAAAAAGAAATC
*
56499746 GAAGAAAAGAAAATT
1 G-A-AAAAG-AAATC
*
56499761 GAAAAAGAAATT
1 GAAAAAGAAATC
56499773 GAAA
1 GAAA
56499777 TTGAGAAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
12 26 0.60
13 6 0.14
14 6 0.14
15 5 0.12
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.12
Consensus pattern (12 bp):
GAAAAAGAAATC
Found at i:56499777 original size:18 final size:18
Alignment explanation
Indices: 56499756--56499794 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
56499746 GAAGAAAAGA
56499756 AAATTGA-AAAAGAAATTG
1 AAATTGAGAAAA-AAATTG
56499774 AAATTGAGAAAAAAATTG
1 AAATTGAGAAAAAAATTG
56499792 AAA
1 AAA
56499795 AATAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (18 bp):
AAATTGAGAAAAAAATTG
Found at i:56501926 original size:20 final size:19
Alignment explanation
Indices: 56501901--56501938 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
56501891 CAAGCTGAAT
56501901 TTAGCTAAATTTCAGCTCCC
1 TTAGCT-AATTTCAGCTCCC
*
56501921 TTAGCTCATTTCAGCTCC
1 TTAGCTAATTTCAGCTCC
56501939 AATCAGCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.37
Consensus pattern (19 bp):
TTAGCTAATTTCAGCTCCC
Found at i:56503121 original size:45 final size:45
Alignment explanation
Indices: 56503048--56503142 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
56503038 TACTATGTGA
* * *
56503048 ACCGAACATCATTGATTATTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGAATCC
56503093 ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGAATCC
56503138 ACCGA
1 ACCGA
56503143 GTATCTGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGCTGGTTGCTATGTGCTGAATCC
Found at i:56510324 original size:5 final size:5
Alignment explanation
Indices: 56510314--56510352 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
56510304 ACCCTCTCTT
* *
56510314 TTCTC TTCTC TTCTC TTCTC TTTTC TTCTTC TCCTC TTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTC-TC TTCTC TTC
56510353 ATTCCAGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TTCTC
Found at i:56511076 original size:27 final size:27
Alignment explanation
Indices: 56511046--56511283 Score: 309
Period size: 27 Copynumber: 8.8 Consensus size: 27
56511036 CAAATGACTA
* *
56511046 AAATACCCCTAGAA-GGTAAAATGACCG
1 AAATACCCCCA-AAGGGTAAAATGATCG
** *
56511073 AAATACCCCTGGAA-GGTAAAATGACCG
1 AAATACCCC-CAAAGGGTAAAATGATCG
* * *
56511100 AAATACCCTCAGAGGTTAAAATGATCG
1 AAATACCCCCAAAGGGTAAAATGATCG
*
56511127 AAATACCCCCGAAGGGTAAAATGATCG
1 AAATACCCCCAAAGGGTAAAATGATCG
*
56511154 AAATACCCCCAAAGGGTAAAATGACCG
1 AAATACCCCCAAAGGGTAAAATGATCG
*
56511181 AAGTACCCCCAAAGGGTAAAATGATCG
1 AAATACCCCCAAAGGGTAAAATGATCG
*
56511208 AAATACCCCCAAAGGGTAAAATGATTG
1 AAATACCCCCAAAGGGTAAAATGATCG
*
56511235 AAATACCCCCAAAGGGTAAAATGATTG
1 AAATACCCCCAAAGGGTAAAATGATCG
* *
56511262 AAATACCTCCATAGGGTAAAAT
1 AAATACCCCCAAAGGGTAAAAT
56511284 AACTGTTATA
Statistics
Matches: 189, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
AAATACCCCCAAAGGGTAAAATGATCG
Found at i:56511535 original size:23 final size:24
Alignment explanation
Indices: 56511485--56511532 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
56511475 ACATATACCG
*
56511485 TTACTGGCAGCTTCGTTGCGATTCTA
1 TTACTGGCAGCTTCGCTGCGA-T-TA
*
56511511 TTACTGGCAGCTTTGCTGCGAT
1 TTACTGGCAGCTTCGCTGCGAT
56511533 ATTGGTGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.05
26 19 0.95
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (24 bp):
TTACTGGCAGCTTCGCTGCGATTA
Found at i:56511681 original size:28 final size:28
Alignment explanation
Indices: 56511641--56511723 Score: 130
Period size: 28 Copynumber: 3.0 Consensus size: 28
56511631 ACTGTAATGG
56511641 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
56511669 TTACTGTATTGGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
56511697 TTACTATTTTGGGCTAAGGCCCACACT
1 TTACTGTATTGGGCTAAGGCCCACACT
56511724 GTACTGTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:56512499 original size:20 final size:20
Alignment explanation
Indices: 56512476--56512535 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 20
56512466 AAATATGTTT
*
56512476 TTGAGTATTGTGATATATGC
1 TTGAGTATTATGATATATGC
* * * *
56512496 TTGAATGTTATGAGATATAC
1 TTGAGTATTATGATATATGC
*
56512516 --GAGTATTTTGATATATGC
1 TTGAGTATTATGATATATGC
56512534 TT
1 TT
56512536 AAAAGTGAAT
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
18 13 0.46
20 15 0.54
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (20 bp):
TTGAGTATTATGATATATGC
Found at i:56514039 original size:16 final size:16
Alignment explanation
Indices: 56514018--56514048 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
56514008 CCTACACATT
56514018 CGCATATCATTTCACA
1 CGCATATCATTTCACA
56514034 CGCATATCATTTCAC
1 CGCATATCATTTCAC
56514049 CATAATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (16 bp):
CGCATATCATTTCACA
Found at i:56520399 original size:39 final size:40
Alignment explanation
Indices: 56520304--56520526 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
56520294 TTGAATGATG
*
56520304 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
56520342 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
56520383 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56520422 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
56520461 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
56520500 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56520527 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:56520490 original size:79 final size:81
Alignment explanation
Indices: 56520304--56520526 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
56520294 TTGAATGATG
* * *
56520304 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
56520366 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
56520383 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
56520444 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
56520461 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
56520525 TG
66 TG
56520527 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:56520548 original size:79 final size:79
Alignment explanation
Indices: 56520304--56520559 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
56520294 TTGAATGATG
* * * *
56520304 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
56520365 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
56520383 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
56520447 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
56520461 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
56520524 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
56520541 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56520560 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:56529027 original size:40 final size:40
Alignment explanation
Indices: 56528972--56529159 Score: 358
Period size: 40 Copynumber: 4.7 Consensus size: 40
56528962 GAGCATTGGA
56528972 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
56529012 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
56529052 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
56529092 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
56529132 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
56529160 ATGTGTTTGC
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Done.