Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 181 of 333
Found at i:59419641 original size:81 final size:81
Alignment explanation
Indices: 59419504--59419657 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
59419494 TAAATTAATT
* * *
59419504 AAATGACTATTTTGTCCTTTTGAGATAAAATGATTGTTTTGCCCTTTTAAGGTAAAATAACTATT
1 AAATGACTATTTTGCCCTTATGAGATAAAATGATGGTTTTGCCCTTTTAAGGTAAAATAACTATT
59419569 TTTCCCTTTTGACGTA
66 TTTCCCTTTTGACGTA
* * ** * * *
59419585 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTGGTTTT-CCCTTTTGTGTTAAAATGACTGT
1 AAATGACTATTTTGCCCTTATGAGATAAAATGA-TGGTTTTGCCCTTTTAAGGTAAAATAACTAT
59419649 TTTTCCCTT
65 TTTTCCCTT
59419658 ATGTGGTAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 56 0.90
82 6 0.10
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (81 bp):
AAATGACTATTTTGCCCTTATGAGATAAAATGATGGTTTTGCCCTTTTAAGGTAAAATAACTATT
TTTCCCTTTTGACGTA
Found at i:59420031 original size:18 final size:18
Alignment explanation
Indices: 59420008--59420051 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
59419998 TTGTATACCA
* *
59420008 TTACTGCATTGAT-TATTG
1 TTACTGCACTG-TGTATTC
59420026 TTACTGCACTGTGTATTC
1 TTACTGCACTGTGTATTC
59420044 TTACTGCA
1 TTACTGCA
59420052 ATGGGCCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (18 bp):
TTACTGCACTGTGTATTC
Found at i:59430655 original size:44 final size:40
Alignment explanation
Indices: 59430549--59430662 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 40
59430539 GTGCGGTTCA
* * *
59430549 AGCTTCAGCTACAAATGGCACTAAGTCTGCGAGTTAGAAT
1 AGCTTCGGCTATAAATGGCACTAAGTGTGCGAGTTAGAAT
59430589 AGCTTCGGCTATATAA-GGCACTAAGTGTGCGATGTT-GAGAT
1 AGCTTCGGCTATA-AATGGCACTAAGTGTGCGA-GTTAGA-AT
* *
59430630 AGCTTTGGTTTATTGAAATGGCACTAAGTGTGC
1 AGCTTCGG-CTA-T-AAATGGCACTAAGTGTGC
59430663 AAGATTGTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
40 28 0.45
41 14 0.23
42 2 0.03
43 3 0.05
44 15 0.24
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (40 bp):
AGCTTCGGCTATAAATGGCACTAAGTGTGCGAGTTAGAAT
Found at i:59435609 original size:40 final size:40
Alignment explanation
Indices: 59435554--59435830 Score: 421
Period size: 40 Copynumber: 6.9 Consensus size: 40
59435544 GCATGAGCAT
* *
59435554 TTGATATATCCGGGCTAAAACCCAAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
59435594 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
59435634 TTGATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
59435674 TTGATATATCCGGGCTGAA-ACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCT-AAGACCCGAAGGCATTTGTGCGAG
* * * *
59435714 TTGATATATCCGGGCTAAAACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
59435754 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * * *
59435794 TTGCTATACCCAGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
59435831 TTGCGGTTAT
Statistics
Matches: 217, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 213 0.98
41 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:59445614 original size:40 final size:40
Alignment explanation
Indices: 59445559--59445835 Score: 464
Period size: 40 Copynumber: 6.9 Consensus size: 40
59445549 GCATGAGCAT
59445559 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
59445599 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
59445639 TTGATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
59445679 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
59445719 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
59445759 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
59445799 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
59445836 TTGCGGTTAT
Statistics
Matches: 221, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:59448390 original size:42 final size:43
Alignment explanation
Indices: 59448310--59448461 Score: 118
Period size: 42 Copynumber: 3.5 Consensus size: 43
59448300 CCCAGACGTG
*
59448310 GTCTTACATGTAAACAAATATCGATGCCACAGTCCCAGACAAA
1 GTCTTACACGTAAACAAATATCGATGCCACAGTCCCAGACAAA
* * **
59448353 GTCTTACACG-AAATCAAATA-CGATGCCGCTGTCCCAGACATG
1 GTCTTACACGTAAA-CAAATATCGATGCCACAGTCCCAGACAAA
** **
59448395 GTCTTACATTTAAATCATAAGT-T-GATGCCA-ATGTCCCAGACATG
1 GTCTTACACGTAAA-CA-AA-TATCGATGCCACA-GTCCCAGACAAA
*
59448439 GTCTTACACG-ATAACACATATCG
1 GTCTTACACGTA-AACAAATATCG
59448462 GATCCTATGT
Statistics
Matches: 88, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
41 1 0.01
42 31 0.35
43 25 0.28
44 30 0.34
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
GTCTTACACGTAAACAAATATCGATGCCACAGTCCCAGACAAA
Found at i:59448434 original size:44 final size:43
Alignment explanation
Indices: 59448290--59448446 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
59448280 AGCTCGTACA
* * *
59448290 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAA-CAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATCTAAATCAAATAT-G
** * *
59448333 ATGCCACA-GTCCCAGACAAAGTCTTACA-CGAAATCAAATACG
1 ATGCCA-ATGTCCCAGACATGGTCTTACATCTAAATCAAATATG
** *
59448375 ATGCCGCTGTCCCAGACATGGTCTTACATTTAAATCATAAGT-TG
1 ATGCCAATGTCCCAGACATGGTCTTACATCTAAATCA-AA-TATG
59448419 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
59448447 CGATAACACA
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 27 0.29
43 35 0.38
44 30 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATCTAAATCAAATATG
Found at i:59451640 original size:42 final size:42
Alignment explanation
Indices: 59451529--59451641 Score: 145
Period size: 43 Copynumber: 2.7 Consensus size: 42
59451519 TACCATACCA
* * ** *
59451529 ATGCCATATCCCAAATATGGTCTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
59451571 ATGCCAATAGCCCAGCTATGGTTTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
59451614 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
59451642 TTAATCTTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:59454741 original size:49 final size:51
Alignment explanation
Indices: 59454669--59454812 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 51
59454659 GTGACTCAAG
*
59454669 TGTGGTACTATGTGAAGGCCACTTTGAGAAG-ATATAGC-TTGGTCACAAA
1 TGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTTGGTCACAAA
* * *
59454718 TGTGGTACTATGTAAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACAAG
1 TGTGGTACTATGTGAAGGCCACTTTGAGAAG-AAGATAGCTTTGGTCACAAA
* * * *
59454770 TGTAGTACTATGTGAAGGCCACTTTGTGAGGAAGGTAGCTTTG
1 TGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTTG
59454813 ACTACAAGGG
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 29 0.35
51 17 0.20
52 38 0.45
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (51 bp):
TGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTTGGTCACAAA
Found at i:59454780 original size:52 final size:51
Alignment explanation
Indices: 59454665--59454842 Score: 218
Period size: 51 Copynumber: 3.5 Consensus size: 51
59454655 ACTAGTGACT
* *
59454665 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-ATATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* *
59454714 CAAATGTGGTACTATGTAAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* * * *
59454766 CAAGTGTAGTACTATGTGAAGGCCACTTTGTGAGGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
* * *
59454817 CAAGGGTGGTACTACGTGTAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
59454843 CGTGTATCTG
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
49 32 0.29
50 2 0.02
51 39 0.35
52 38 0.34
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:59462390 original size:52 final size:52
Alignment explanation
Indices: 59462280--59462444 Score: 209
Period size: 52 Copynumber: 3.2 Consensus size: 52
59462270 TGACTCGAGG
*
59462280 GTGGTACTATGTGAAGGCCACTTTGAGAAG--AGATAGC-TTGGTCAATAGT
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCAATAGT
* *
59462329 GTGATACTATTTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACA-AGT
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA-ATAGT
* *
59462381 GTGGTACTATGTGAAGGCCACTTTGTGAA-AAAGGTAGCTTTGACTACAAT-G-
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTG-GT-CAATAGT
59462432 GTGGTACTATGTG
1 GTGGTACTATGTG
59462445 CTGGCCATCA
Statistics
Matches: 102, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
49 27 0.26
51 32 0.31
52 40 0.39
53 3 0.03
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (52 bp):
GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCAATAGT
Found at i:59462440 original size:51 final size:51
Alignment explanation
Indices: 59462280--59462444 Score: 205
Period size: 51 Copynumber: 3.3 Consensus size: 51
59462270 TGACTCGAGG
* *
59462280 GTGGTACTATGTGAAGGCCACTTTGAG-AAGAGATAGC-TTGGT-CAATAGT
1 GTGGTACTATGTGAAGGCCACTTTGTGAAAAAGATAGCTTTGGTACAAT-GT
* *
59462329 GTGATACTATTTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACAA-GT
1 GTGGTACTATGTGAAGGCCACTTTGTGAA-AAAGATAGCTTTGGT-ACAATGT
* *
59462381 GTGGTACTATGTGAAGGCCACTTTGTGAAAAAGGTAGCTTTGACTACAATG-
1 GTGGTACTATGTGAAGGCCACTTTGTGAAAAAGATAGCTTTG-GTACAATGT
59462432 GTGGTACTATGTG
1 GTGGTACTATGTG
59462445 CTGGCCATCA
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
49 24 0.24
50 1 0.01
51 37 0.37
52 36 0.36
54 3 0.03
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (51 bp):
GTGGTACTATGTGAAGGCCACTTTGTGAAAAAGATAGCTTTGGTACAATGT
Found at i:59464215 original size:33 final size:33
Alignment explanation
Indices: 59464178--59464246 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
59464168 CTCTATCCGA
* *
59464178 AATGATAGAAATAGGCACCCTGTGCAATCTTAC
1 AATGATAGAAATAGGCACCCCGTGCAATCTCAC
59464211 AATGATAGAAATAGGCACCCCGTGCAATCTCAC
1 AATGATAGAAATAGGCACCCCGTGCAATCTCAC
59464244 AAT
1 AAT
59464247 CTCAGCAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (33 bp):
AATGATAGAAATAGGCACCCCGTGCAATCTCAC
Found at i:59470302 original size:17 final size:17
Alignment explanation
Indices: 59470280--59470313 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
59470270 ATGCCCACTC
59470280 ATATTTTACT-TTATAAT
1 ATATTTTA-TATTATAAT
59470297 ATATTTTATATTATAAT
1 ATATTTTATATTATAAT
59470314 GCTTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTTTATATTATAAT
Found at i:59473655 original size:24 final size:24
Alignment explanation
Indices: 59473605--59473659 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
59473595 ACCTACTGTG
* *
59473605 CAGCTCAATAGAGCTAACCGTTTT
1 CAGCTCAATAGAGCTAACCATTAT
* *
59473629 CAGCTCAATAGAGCTTACTATTAT
1 CAGCTCAATAGAGCTAACCATTAT
59473653 CAGCTCA
1 CAGCTCA
59473660 TGAAGAGCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (24 bp):
CAGCTCAATAGAGCTAACCATTAT
Found at i:59475938 original size:27 final size:26
Alignment explanation
Indices: 59475895--59475996 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
59475885 GCTCAGTTAT
* *
59475895 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
59475922 CAGATATTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
59475948 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
59475976 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
59475997 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:59476181 original size:22 final size:22
Alignment explanation
Indices: 59476155--59476219 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
59476145 GCAAATACGT
*
59476155 TTGGCACAAAGGCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
59476177 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
59476199 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
59476220 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:59476665 original size:27 final size:27
Alignment explanation
Indices: 59476604--59476665 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
59476594 AGTCATTTGG
*
59476604 CCACAAGGGCAAAATAGTCATTTAACA
1 CCACAAGGGCAAAATAGTAATTTAACA
** * * *
59476631 CCTTAAGGGCAAAATGGTAATTTTACC
1 CCACAAGGGCAAAATAGTAATTTAACA
59476658 CCACAAGG
1 CCACAAGG
59476666 TATCTCGGTA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (27 bp):
CCACAAGGGCAAAATAGTAATTTAACA
Found at i:59477053 original size:27 final size:27
Alignment explanation
Indices: 59476646--59477056 Score: 461
Period size: 27 Copynumber: 15.3 Consensus size: 27
59476636 AGGGCAAAAT
* * * *
59476646 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59476672 GGTAATTCCACCCTACAGGGGTACTTT-
1 GGTAATTCTACCCTACAGGGGTA-TTTC
* * *
59476699 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59476726 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59476753 GATAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59476780 GGTAATTCTACTCTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59476807 GGTAATTCTACCCCACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
59476833 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * *
59476861 GATAATTCTACCCTACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59476888 GGTAATTCTACCCTACATGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59476915 GGTATTTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
59476942 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
59476969 GGTATTTCTACCCAACTA-GGGCATTTC
1 GGTAATTCTACCCTAC-AGGGGTATTTC
*
59476996 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
59477023 AGTATTTTTACGCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59477050 AGTAATT
1 GGTAATT
59477057 TTGTAAATCG
Statistics
Matches: 324, Mismatches: 54, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.06
27 297 0.92
28 6 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:59477070 original size:27 final size:27
Alignment explanation
Indices: 59477040--59477462 Score: 211
Period size: 27 Copynumber: 15.7 Consensus size: 27
59477030 TTACGCTACA
**
59477040 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*** * * *
59477067 AGGGTAAAACGGTAATTCTATAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
59477093 AGGGGTACTTT-GGTAATTTTACAAGTTG
1 A-GGGTA-TTTCAGTAATTTTACAAATCG
* **
59477121 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
59477148 AGGGTATTTCAGTAATTTCACAAATCAG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* *
59477176 AGGTGT-TTT-GGTAATTTTACAAA-CT
1 AGG-GTATTTCAGTAATTTTACAAATCG
* * *
59477201 AGGGGTATTT-TGATAATTTTACAAACCA
1 A-GGGTATTTCAG-TAATTTTACAAATCG
** *
59477229 AGGGTATTTTTGTAATTTTACAAA-CT
1 AGGGTATTTCAGTAATTTTACAAATCG
** ** *
59477255 AGGGGTATTTTGGTAATTTTATGAA-CAA
1 A-GGGTATTTCAGTAATTTTACAAATC-G
* *
59477283 AGGGTATTTTAGTAATTTTACAAA-CT
1 AGGGTATTTCAGTAATTTTACAAATCG
** * *
59477309 AGGGTTATTTTGGTAATTTTATAAA-CAA
1 AGGG-TATTTCAGTAATTTTACAAATC-G
* *
59477337 AGGGTATTTTAGTAATTTTACAAA-CT
1 AGGGTATTTCAGTAATTTTACAAATCG
** * *
59477363 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTCAGTAATTTTACAAATCG
** * * * *
59477391 AGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
59477418 AGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTCAGTAATTTTACAAATCG
**
59477445 AGGGTATTTTGGTAATTT
1 AGGGTATTTCAGTAATTT
59477463 GGTAAACTAA
Statistics
Matches: 330, Mismatches: 49, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.01
26 18 0.05
27 288 0.87
28 19 0.06
29 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:59477207 original size:54 final size:54
Alignment explanation
Indices: 59477149--59477462 Score: 432
Period size: 54 Copynumber: 5.8 Consensus size: 54
59477139 TACAGGTCGA
** * * *
59477149 GGGTATTTCAGTAATTTCACAAATC-AGAGGTGTTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAAG-GGTATTTTGGTAATTTTACAAACTAG
* *
59477203 GGGTATTTTGATAATTTTACAAACCAAGGGTATTTTTGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
** * *
59477257 GGGTATTTTGGTAATTTTATGAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* * * *
59477311 GGTTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* * * *
59477365 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
*
59477419 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
59477463 GGTAAACTAA
Statistics
Matches: 235, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 233 0.99
55 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
Found at i:59477307 original size:81 final size:81
Alignment explanation
Indices: 59477095--59477462 Score: 382
Period size: 81 Copynumber: 4.5 Consensus size: 81
59477085 TATAAATCAG
* * ** * * * *** * **
59477095 GGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAG
1 GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGG
* *
59477160 TAATTTCACAAA-TCA
66 TAATTTTACAAACTAA
* * *
59477175 GAGGTGTTTTGGTAATTTTACAAACTAGGGGTATTTT-GATAATTTTACAAACCAAGGGTATTTT
1 G-GGTATTTTAGTAATTTTACAAACTAAGGGTATTTTAG-TAATTTTACAAACCAAGGGTATTTT
* *
59477239 TGTAATTTTACAAACTAG
64 GGTAATTTTACAAACTAA
* ** * *
59477257 GGGTATTTTGGTAATTTTATGAACAAAGGGTATTTTAGTAATTTTACAAA-CTAGGGTTATTTTG
1 GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAAGGG-TATTTTG
* *
59477321 GTAATTTTATAAACAAA
65 GTAATTTTACAAACTAA
* *
59477338 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGG
* * *
59477403 TGATTTTATAAACCAA
66 TAATTTTACAAACTAA
* *
59477419 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
1 GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTAGTAATTT
59477463 GGTAAACTAA
Statistics
Matches: 244, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
80 6 0.02
81 230 0.94
82 8 0.03
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGG
TAATTTTACAAACTAA
Found at i:59477469 original size:27 final size:27
Alignment explanation
Indices: 59477148--59477462 Score: 382
Period size: 27 Copynumber: 11.7 Consensus size: 27
59477138 TTACAGGTCG
** * *
59477148 AGGGTATTTCAGTAATTTCACAAATC-
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
59477174 AGAGGTGTTTTGGTAATTTTACAAACTA
1 AG-GGTATTTTGGTAATTTTACAAACCA
* *
59477202 GGGGTATTTTGATAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
59477229 AGGGTATTTTTGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* ** *
59477256 GGGGTATTTTGGTAATTTTATGAACAA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
59477283 AGGGTATTTTAGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
59477309 AGGGTTATTTTGGTAATTTTATAAACAA
1 AGGG-TATTTTGGTAATTTTACAAACCA
* *
59477337 AGGGTATTTTAGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
59477364 GGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
59477391 AGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
59477418 AGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
59477445 AGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
59477463 GGTAAACTAA
Statistics
Matches: 243, Mismatches: 42, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
26 6 0.02
27 232 0.95
28 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:59479950 original size:27 final size:27
Alignment explanation
Indices: 59479911--59480088 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59479901 ACATTGAGCC
* * * *
59479911 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59479938 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59479965 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
59479993 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59480020 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59480047 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59480074 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59480089 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59480050 original size:82 final size:81
Alignment explanation
Indices: 59479932--59480087 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59479922 TGCTATATAA
* *
59479932 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59479997 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59480014 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59480078 CACTTAGTGC
65 CACTTAGTGC
59480088 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59482383 original size:18 final size:18
Alignment explanation
Indices: 59482371--59482414 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
59482361 GTGGCTAGGT
59482371 CACCAGATGTGGCGAAGC
1 CACCAGATGTGGCGAAGC
59482389 CACCAGATGTGGCGAAGC
1 CACCAGATGTGGCGAAGC
59482407 CACCAGAT
1 CACCAGAT
59482415 TGCAGCGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.30, G:0.30, T:0.11
Consensus pattern (18 bp):
CACCAGATGTGGCGAAGC
Found at i:59482477 original size:27 final size:26
Alignment explanation
Indices: 59482429--59482480 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59482419 GCGAGGCTGC
*
59482429 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
59482455 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
59482481 TTGCAGCGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59483179 original size:27 final size:26
Alignment explanation
Indices: 59483149--59483247 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 26
59483139 TACCCTACAG
59483149 GGGTATTTCGGTAATTTTGTAAATCGA
1 GGGTATTT-GGTAATTTTGTAAATCGA
** *
59483176 GGGTAAAATGGTAATTCTGTAAATC-A
1 GGGT-ATTTGGTAATTTTGTAAATCGA
** *
59483202 GGGGTACTTTGGTAATTTTACAAGTCGA
1 -GGGTA-TTTGGTAATTTTGTAAATCGA
*
59483230 CGGTATTTTGGTAATTTT
1 GGGTA-TTTGGTAATTTT
59483248 ACAAACTAGG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
26 2 0.04
27 52 0.91
28 3 0.05
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (26 bp):
GGGTATTTGGTAATTTTGTAAATCGA
Found at i:59483261 original size:27 final size:27
Alignment explanation
Indices: 59483201--59483278 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
59483191 TCTGTAAATC
* *
59483201 AGGGGTACTTTGGTAATTTTAC-AAGT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
59483227 CGACGGTATTTTGGTAATTTTACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
59483255 AGGGGTATTTTGGTGATTCTACAA
1 AGGGGTATTTTGGTAATTTTACAA
59483279 CTTATCCATT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.02
27 37 0.88
28 4 0.10
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:59485774 original size:13 final size:13
Alignment explanation
Indices: 59485753--59485787 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
59485743 CTAGTGTGAA
59485753 ATATATATGAGAT
1 ATATATATGAGAT
*
59485766 ATATGTATGAGAT
1 ATATATATGAGAT
*
59485779 ATGTATATG
1 ATATATATG
59485788 TTGTAAAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
ATATATATGAGAT
Found at i:59485886 original size:48 final size:48
Alignment explanation
Indices: 59485766--59486161 Score: 686
Period size: 48 Copynumber: 8.3 Consensus size: 48
59485756 TATATGAGAT
* *
59485766 ATATGTATGAGATATGTATATGTTGTAAAGCCGAATGGATAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
59485814 A-ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
59485861 ATATGTATGAGATATGTATCTGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
59485909 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAAGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
59485957 ATATGTATGAGATATGTATATGTTGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
59486005 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
59486053 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTATGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
59486101 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
59486149 ATATGTAGGAGAT
1 ATATGTATGAGAT
59486162 GTGTGTATAT
Statistics
Matches: 331, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
47 45 0.14
48 286 0.86
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:59486356 original size:37 final size:37
Alignment explanation
Indices: 59486306--59486398 Score: 159
Period size: 37 Copynumber: 2.5 Consensus size: 37
59486296 ATATATTCCA
59486306 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
* *
59486343 GGTAAGACCCGATGACTACGTGTGGTGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
59486380 GGTAAGACCCGATAACTAC
1 GGTAAGACCCGATGACTAC
59486399 ATGTCTCCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:59490658 original size:28 final size:29
Alignment explanation
Indices: 59490594--59490659 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
59490584 ATGGCTTATG
*
59490594 AGGCCCAAATCACATTTATGTGGCCCATT
1 AGGCCCAAATCACATTTATATGGCCCATT
59490623 AGGCCCAAATCACATTTATATGG-CCATT
1 AGGCCCAAATCACATTTATATGGCCCATT
59490651 AGGCCCAAA
1 AGGCCCAAA
59490660 AAAATATACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (29 bp):
AGGCCCAAATCACATTTATATGGCCCATT
Found at i:59490905 original size:16 final size:16
Alignment explanation
Indices: 59490881--59490915 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59490871 GTAGCCAAAC
* *
59490881 TTTCGGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
59490897 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
59490913 TTT
1 TTT
59490916 TGGGATTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:59491705 original size:4 final size:4
Alignment explanation
Indices: 59491696--59491725 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
59491686 ATTTTTACTA
59491696 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
59491726 TAATACACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:59497099 original size:24 final size:23
Alignment explanation
Indices: 59496998--59497120 Score: 114
Period size: 23 Copynumber: 5.3 Consensus size: 23
59496988 GACTCACCAT
59496998 AGCTCATATGAGCTTACTATTTT-
1 AGCTCATA-GAGCTTACTATTTTC
59497021 AGCTCATAGGAGCTTACTGA--TTC
1 AGCTCATA-GAGCTTACT-ATTTTC
* *
59497044 AGCTCGGA-AGAGCTCACTA--TGC
1 AGCTC--ATAGAGCTTACTATTTTC
59497066 AGCTCAATAGAGCTTACTATTTTC
1 AGCTC-ATAGAGCTTACTATTTTC
*
59497090 AGCTCGATAGAGCTTACTATTATC
1 AGCTC-ATAGAGCTTACTATTTTC
59497114 AGCTCAT
1 AGCTCAT
59497121 GAAGAGCCTA
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
21 1 0.01
22 20 0.24
23 32 0.38
24 31 0.36
25 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (23 bp):
AGCTCATAGAGCTTACTATTTTC
Found at i:59499947 original size:40 final size:40
Alignment explanation
Indices: 59499891--59500107 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
59499881 GGATGATAAT
* * *
59499891 CGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
59499931 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
59499971 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
59500011 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
59500051 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
*
59500091 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
59500108 TACTTAGTTT
Statistics
Matches: 166, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:59502075 original size:40 final size:40
Alignment explanation
Indices: 59501974--59502119 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 40
59501964 TCAAATTTTC
*
59501974 GCACACTAAGTGCCAATACATAGCCGAAGCTATTT-TAATCT
1 GCACACTAAGTGCC-ATACATAGCCGAAGCTATTTCGAAT-T
* *
59502015 -CACATACTAAGTACCATACATAGCAGAAGCTATTTCGAATT
1 GCAC--ACTAAGTGCCATACATAGCCGAAGCTATTTCGAATT
* * *
59502056 GCACACTAAGTGCCATACATTGCCGAAGCTATCTCGAATC
1 GCACACTAAGTGCCATACATAGCCGAAGCTATTTCGAATT
59502096 GCACACTAAGTGCCATACATAGCC
1 GCACACTAAGTGCCATACATAGCC
59502120 AAATTGTCGT
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
40 57 0.62
41 20 0.22
42 15 0.16
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCGAAGCTATTTCGAATT
Found at i:59502999 original size:51 final size:51
Alignment explanation
Indices: 59502935--59503070 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
59502925 TGGAAACATG
*
59502935 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * *
59502986 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * *
59503037 ATCTTAGAAGATATGATATTATATTCTAAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
59503071 TTGATGATAG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:59504921 original size:96 final size:96
Alignment explanation
Indices: 59504755--59505041 Score: 466
Period size: 96 Copynumber: 3.0 Consensus size: 96
59504745 GTGTCCGAGG
* * * * * * *
59504755 AAGTCTGTTATCGATGGGAATGATCGAGCATATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
59504820 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGA
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGA
59504851 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
59504916 TAAAGCTGAAGCCAAGAGGGCAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGA
*
59504947 AAGTCTATCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
59505012 TAAAGCCGAAGCCAAGAGGGCTAAGAGGAG
66 TAAAGCCGAAGCCAAGAGGGCAAAGAGGAG
59505042 CAAAAAGAAG
Statistics
Matches: 178, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 178 1.00
ACGTcount: A:0.36, C:0.17, G:0.34, T:0.13
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
TAAAGCCGAAGCCAAGAGGGCAAAGAGGAGA
Found at i:59506015 original size:51 final size:51
Alignment explanation
Indices: 59505951--59506086 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
59505941 TGGAAACATG
*
59505951 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * *
59506002 ATCTTATAAGATATTATTTTATAAGATTACATATCTTAGATAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * *
59506053 ATCTTAGAAGATATGATATTATATTCTAAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
59506087 TTGATGATAG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:59512588 original size:56 final size:56
Alignment explanation
Indices: 59512526--59512701 Score: 235
Period size: 56 Copynumber: 3.1 Consensus size: 56
59512516 CATATCGAAA
* *
59512526 TCACATATCGATGCCAACATATGAAATGTGGTCTTACTCGCACACATATATTGGAG
1 TCACATATCGATGCCAACATATAAAATGTGATCTTACTCGCACACATATATTGGAG
* * ** * * *
59512582 TCACATATCGATGACGACATATAAAACATGATCTTACTCGCGCACATATATCGCAG
1 TCACATATCGATGCCAACATATAAAATGTGATCTTACTCGCACACATATATTGGAG
** * *
59512638 TCACATATCGATGCCAATGTATAAAATGTGATCTTACTCACACACATATATTGGAA
1 TCACATATCGATGCCAACATATAAAATGTGATCTTACTCGCACACATATATTGGAG
59512694 TCACATAT
1 TCACATAT
59512702 ACTTCTATGT
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 100 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.28
Consensus pattern (56 bp):
TCACATATCGATGCCAACATATAAAATGTGATCTTACTCGCACACATATATTGGAG
Found at i:59519371 original size:75 final size:75
Alignment explanation
Indices: 59519261--59519406 Score: 283
Period size: 75 Copynumber: 1.9 Consensus size: 75
59519251 CGGCCTTGGA
59519261 ACATGGGCGTGTGTCTTGGTCCTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACA
1 ACATGGGCGTGTGTCTTGGTCCTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACA
59519326 CGGGTTAAGT
66 CGGGTTAAGT
*
59519336 ACATGGGCGTGTGTCTTGGTCGTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACA
1 ACATGGGCGTGTGTCTTGGTCCTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACA
59519401 CGGGTT
66 CGGGTT
59519407 TAGGATACGA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (75 bp):
ACATGGGCGTGTGTCTTGGTCCTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACA
CGGGTTAAGT
Found at i:59519421 original size:75 final size:75
Alignment explanation
Indices: 59519267--59519424 Score: 262
Period size: 75 Copynumber: 2.1 Consensus size: 75
59519257 TGGAACATGG
59519267 GCGTGTGTCTTGGTCCTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACACGGGTT
1 GCGTGTGTCTTGGTCCTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACACGGGTT
* * *
59519332 AAGTACATGG
66 AAGGACACGA
*
59519342 GCGTGTGTCTTGGTCGTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACACGGGTT
1 GCGTGTGTCTTGGTCCTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACACGGGTT
* *
59519407 TAGGATACGA
66 AAGGACACGA
59519417 GCGTGTGT
1 GCGTGTGT
59519425 GACCACACGG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (75 bp):
GCGTGTGTCTTGGTCCTGTGACTTCAATTTGTTGATGACATCATAAACAGAGAGTTACACGGGTT
AAGGACACGA
Found at i:59522215 original size:26 final size:27
Alignment explanation
Indices: 59522174--59522233 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
59522164 GGAAGTACTA
59522174 TACTGGTGGCTCTGCCACAACTACTGT
1 TACTGGTGGCTCTGCCACAACTACTGT
* **
59522201 TACTGGTGG-TTTGCCACATTTACTGT
1 TACTGGTGGCTCTGCCACAACTACTGT
59522227 TACTGGT
1 TACTGGT
59522234 AGCTTTGCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACAACTACTGT
Found at i:59526714 original size:119 final size:120
Alignment explanation
Indices: 59526532--59526747 Score: 278
Period size: 119 Copynumber: 1.8 Consensus size: 120
59526522 TTCTCGTTCA
* *
59526532 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
* *
59526597 TTAGTAAC-TCGCAAAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCAAAAA-GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
* * **
59526652 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCACACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* * *
59526714 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCAAAAAGCCTTCGGGACTTA
59526748 GCCCGGACAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 59 0.72
120 19 0.23
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAAAAAGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACC
Found at i:59526754 original size:40 final size:40
Alignment explanation
Indices: 59526530--59526754 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
59526520 GCTTCTCGTT
* *
59526530 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59526570 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
59526610 AAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
59526650 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
59526689 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
59526730 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59526755 CATCATTCAA
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 29 0.18
40 116 0.73
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59529306 original size:41 final size:41
Alignment explanation
Indices: 59529249--59529372 Score: 221
Period size: 41 Copynumber: 3.0 Consensus size: 41
59529239 GTCAGGGAAG
*
59529249 TAGAATTTGGTATTGATTTAATACCGGAAACAGCTCCGATC
1 TAGAATTTGGTATTGATTTAATACCGGGAACAGCTCCGATC
59529290 TAGAATTTGGTATTGATTTAATACCGGGAACAGCTCCGATC
1 TAGAATTTGGTATTGATTTAATACCGGGAACAGCTCCGATC
* *
59529331 TAGAATTTGGTATTGATTTAATACAGGGAACAGCTCTGATC
1 TAGAATTTGGTATTGATTTAATACCGGGAACAGCTCCGATC
59529372 T
1 T
59529373 CGATTGCTCT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (41 bp):
TAGAATTTGGTATTGATTTAATACCGGGAACAGCTCCGATC
Found at i:59533499 original size:46 final size:46
Alignment explanation
Indices: 59533449--59533621 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
59533439 TGGTTGAGCA
* *
59533449 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
59533495 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
59533542 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
59533588 -CTCGACCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59533622 GGGGTGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:59533605 original size:93 final size:93
Alignment explanation
Indices: 59533446--59533616 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
59533436 GGATGGTTGA
*
59533446 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
59533511 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
59533539 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG-CTCGACCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
59533603 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
59533617 ACTTAGGGGT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59533883 original size:19 final size:20
Alignment explanation
Indices: 59533846--59533883 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
59533836 ATAAGGTGGT
59533846 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
59533866 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
59533884 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:59535749 original size:41 final size:42
Alignment explanation
Indices: 59535657--59535811 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 42
59535647 TTGTACAATT
* * * * *
59535657 CCAACGTCCTAGACGTGGTCTTACATGGTATCACATATCGATG
1 CCAATGTCCCAGACATGGTCTTACA-CGAATCACATATCGATG
* ** *
59535700 CCACTGTCCCAGACAAAGTCTTACACGAATCAAATAT-GATG
1 CCAATGTCCCAGACATGGTCTTACACGAATCACATATCGATG
* *
59535741 CCAATGTCCCAGATATGGTCTTACACGTAATCACATATCAATG
1 CCAATGTCCCAGACATGGTCTTACACG-AATCACATATCGATG
** *
59535784 CCAACATCCTAGACATGGTCTTACACGA
1 CCAATGTCCCAGACATGGTCTTACACGA
59535812 GAAGACATAT
Statistics
Matches: 91, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
41 27 0.30
42 19 0.21
43 45 0.49
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
CCAATGTCCCAGACATGGTCTTACACGAATCACATATCGATG
Found at i:59541602 original size:31 final size:31
Alignment explanation
Indices: 59541559--59541622 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
59541549 CCCTTTCATA
59541559 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
59541590 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
59541621 TT
1 TT
59541623 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:59541869 original size:24 final size:24
Alignment explanation
Indices: 59541817--59541962 Score: 188
Period size: 25 Copynumber: 5.9 Consensus size: 24
59541807 CTTTATCATC
*
59541817 TAACTGGAGGCCT-AGCCTCTTTT-A
1 TAACTGG-GGCATAAGCC-CTTTTCA
* *
59541841 GTAACTGGGGCAAAAGCCCTTTTTA
1 -TAACTGGGGCATAAGCCCTTTTCA
59541866 TAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTTT-TCA
*
59541891 TAACTGGGGCATAAGCCCTTCATCA
1 TAACTGGGGCATAAGCCCTT-TTCA
59541916 TAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTTT-TCA
59541941 TAACTGGGGCATAAGCCCTTTT
1 TAACTGGGGCATAAGCCCTTTT
59541963 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 6, Indels: 11
0.87 0.05 0.09
Matches are distributed among these distances:
24 29 0.26
25 81 0.74
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTCA
Found at i:59542036 original size:20 final size:20
Alignment explanation
Indices: 59542008--59542078 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
59541998 GCATTTATGA
*
59542008 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
59542028 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
59542048 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
59542068 AAATATCATGT
1 ACATATCATGT
59542079 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:59542043 original size:11 final size:11
Alignment explanation
Indices: 59542013--59542067 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59542003 TATGAACATC
59542013 TCATGTGCATA
1 TCATGTGCATA
*
59542024 TCA--TACATA
1 TCATGTGCATA
59542033 TCATGTGCATA
1 TCATGTGCATA
* *
59542044 TCA--TACATG
1 TCATGTGCATA
59542053 TCATGTGCATA
1 TCATGTGCATA
59542064 TCAT
1 TCAT
59542068 AAATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:59542143 original size:25 final size:25
Alignment explanation
Indices: 59542115--59542162 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59542105 ATATATAAAC
* * *
59542115 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
59542140 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
59542163 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:59543381 original size:27 final size:27
Alignment explanation
Indices: 59543319--59543396 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
59543309 GGGCATATTC
59543319 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
59543346 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
59543373 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
59543397 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:59543467 original size:27 final size:27
Alignment explanation
Indices: 59543414--59543678 Score: 178
Period size: 27 Copynumber: 9.8 Consensus size: 27
59543404 TTTCATCCTA
* * * *
59543414 CAAGGGTGTTTCGGTAAATCTACAAAC
1 CAAGGGTATTTCAGTAATTTTACAAAC
**
59543441 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTACAAAC
* * *
59543468 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTTC-AGTAA-TTTTACAAA-C
* * ** *
59543497 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTACAAAC
* ** *
59543524 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTACAAAC
** *
59543551 TGAGGGTATTTC-GATAATTTCACAAAC
1 CAAGGGTATTTCAG-TAATTTTACAAAC
** *
59543578 C-AGTGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTCAGTAATTTTACAAAC
** *
59543605 TGAGGGTATTTCTGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTACAAAC
* *
59543632 CAAGGGTATTTTAGCAATTTTACAAA-
1 CAAGGGTATTTCAGTAATTTTACAAAC
* *
59543658 CTAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTCAGTAATTTT
59543679 GTAAATCGAA
Statistics
Matches: 188, Mismatches: 42, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
26 22 0.12
27 135 0.72
28 17 0.09
29 14 0.07
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTACAAAC
Found at i:59543586 original size:54 final size:54
Alignment explanation
Indices: 59543499--59543677 Score: 215
Period size: 54 Copynumber: 3.3 Consensus size: 54
59543489 TAGAAAGTCA
** * *
59543499 AGGGTATTTCTGTAACTTT-GTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCTGTAA-TTTCACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
59543553 AGGGTATTTC-GATAATTTCACAAACC-AGTGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCTG-TAATTTCACAAACCAAG-GGTATTTTGGTAATTTTACAAATTG
* * * *
59543607 AGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACT-
1 AGGGTATTTCTGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
59543660 AGGGTATTT-TAGTAATTT
1 AGGGTATTTCT-GTAATTT
59543678 TGTAAATCGA
Statistics
Matches: 111, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
52 1 0.01
53 21 0.19
54 86 0.77
55 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCTGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAATTG
Found at i:59543799 original size:27 final size:27
Alignment explanation
Indices: 59543671--59543800 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
59543661 GGGTATTTTA
* * *
59543671 GTAATTTTGTAAATCGAAGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
59543698 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
59543725 GTACTTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
59543752 GTAATTCTGTAAGTTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
59543779 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
59543801 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:59546276 original size:29 final size:28
Alignment explanation
Indices: 59546167--59546290 Score: 131
Period size: 29 Copynumber: 4.4 Consensus size: 28
59546157 AATTTCACAT
* * *
59546167 ACATGTATCTGGCCCATTAAGCCCAATC
1 ACATTTATATGGCCCATTAGGCCCAATC
* * *
59546195 ATATTCATATGGCCCATTAGGCCAAAATC
1 ACATTTATATGGCCCATTAGGCC-CAATC
* * *
59546224 ACCTGTATATGGCCTATTAGGCCCAAATC
1 ACATTTATATGGCCCATTAGGCCC-AATC
*
59546253 ACATTTATATGGCCCATTAGGCCCAGTC
1 ACATTTATATGGCCCATTAGGCCCAATC
*
59546281 ACATTCATAT
1 ACATTTATAT
59546291 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
28 30 0.39
29 47 0.61
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
ACATTTATATGGCCCATTAGGCCCAATC
Found at i:59546534 original size:24 final size:23
Alignment explanation
Indices: 59546507--59546552 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
59546497 AAACTTTCAA
59546507 CTTTTCGGCATTTCGGCTTTTTGG
1 CTTTTCGGCATTTCGG-TTTTTGG
* *
59546531 CTTTTCGGTATTTTGGTTTTTG
1 CTTTTCGGCATTTCGGTTTTTG
59546553 CCGATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.04, C:0.15, G:0.24, T:0.57
Consensus pattern (23 bp):
CTTTTCGGCATTTCGGTTTTTGG
Found at i:59555145 original size:40 final size:39
Alignment explanation
Indices: 59555061--59555285 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 39
59555051 TTGAATGATG
* * * * *
59555061 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAACTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
59555101 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59555141 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
59555180 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTAAA
*
59555220 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
59555261 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
59555286 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.21
40 115 0.72
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59555303 original size:80 final size:80
Alignment explanation
Indices: 59555100--59555318 Score: 207
Period size: 79 Copynumber: 2.8 Consensus size: 80
59555090 AACTGACCAT
* *** * *
59555100 ATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCA
59555162 TTGGTGCGAGTTACTAA
64 TTGGTGCGAGTTACTAA
* * ** *
59555179 ATCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
59555244 TGTGCGAGTTACTATA
66 GGTGCGAGTTACTA-A
* * * * *
59555260 A-CTGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
59555319 TACGTGATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.48
80 57 0.48
81 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
GGTGCGAGTTACTAA
Found at i:59555650 original size:97 final size:97
Alignment explanation
Indices: 59555484--59555670 Score: 365
Period size: 97 Copynumber: 1.9 Consensus size: 97
59555474 CTAAGTTGAT
*
59555484 CTTTTGTGTATGTACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATAT
1 CTTTTGTGTATATACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATAT
59555549 GAAATTATCCGTTTAACTATATGAATGCTATA
66 GAAATTATCCGTTTAACTATATGAATGCTATA
59555581 CTTTTGTGTATATACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATAT
1 CTTTTGTGTATATACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATAT
59555646 GAAATTATCCGTTTAACTATATGAA
66 GAAATTATCCGTTTAACTATATGAA
59555671 ATTATCGGAA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 89 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (97 bp):
CTTTTGTGTATATACATAAGGGTTGGTAATGTGAAGCAAGTATGATATCGAAAATTTGTGCATAT
GAAATTATCCGTTTAACTATATGAATGCTATA
Found at i:59563166 original size:40 final size:40
Alignment explanation
Indices: 59563082--59563306 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
59563072 TTGAATGATG
* * * * *
59563082 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAACTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
59563122 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59563162 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59563201 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59563241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59563282 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59563307 AACGAGAAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59563320 original size:40 final size:40
Alignment explanation
Indices: 59563163--59563325 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
59563153 GATACTAATT
* ** *
59563163 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAACTATAA
* * ** *
59563201 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAACTATAA
* ** *
59563241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAACTATAA
* *
59563282 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-AAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAA-CTATAA
59563322 CCGG
1 CCGG
59563326 TTAAATTCTG
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 10 0.09
40 99 0.89
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAACTATAA
Found at i:59566244 original size:30 final size:30
Alignment explanation
Indices: 59566200--59566288 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
59566190 CAAAGATAAC
59566200 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
59566229 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
59566259 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
59566289 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:59566248 original size:15 final size:15
Alignment explanation
Indices: 59566200--59566279 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
59566190 CAAAGATAAC
*
59566200 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
59566214 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
59566229 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
59566244 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
59566259 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
59566274 AAGAAA
1 AAGAAA
59566280 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:59566288 original size:15 final size:15
Alignment explanation
Indices: 59566211--59566288 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
59566201 AGAAAACCGA
59566211 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
59566226 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
59566240 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59566255 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59566271 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59566286 ATA
1 ATA
59566289 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59569353 original size:93 final size:93
Alignment explanation
Indices: 59569241--59569411 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
59569231 GCCCATAAGT
* *
59569241 GAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCATCCATAAGTGAACTCGGACACAACTCA
1 GAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCA
59569305 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
59569334 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
*
59569399 CGAGTTCGGATGC
66 CGAGCTCGGATGC
59569412 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:59569402 original size:46 final size:46
Alignment explanation
Indices: 59569233--59569408 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
59569223 TGTAACCCGC
* *
59569233 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCAT
* * *
59569279 CCATAAGTGAACTCGGACACAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
59569325 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59569372 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59569409 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59571174 original size:41 final size:41
Alignment explanation
Indices: 59571117--59571195 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
59571107 TATGGCATAA
*
59571117 TTCAAGTACTCATCCGGGGTACAAGATAGCTCATCAAATAT
1 TTCAAGCACTCATCCGGGGTACAAGATAGCTCATCAAATAT
59571158 TTCAAGCACTCATCCGGGGTACAAGATAGCTCATCAAA
1 TTCAAGCACTCATCCGGGGTACAAGATAGCTCATCAAA
59571196 CACGCAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (41 bp):
TTCAAGCACTCATCCGGGGTACAAGATAGCTCATCAAATAT
Found at i:59573810 original size:43 final size:41
Alignment explanation
Indices: 59573723--59573818 Score: 129
Period size: 43 Copynumber: 2.3 Consensus size: 41
59573713 TCCCAGACAG
* *
59573723 GGTCTTACACGAATCAAATACGATGCCGATGTCCTAGACAT
1 GGTCTTACACGAATCAAATACGATGCCAATGTCCTAAACAT
* *
59573764 GGTCTTACACGTAATCACATATCGATGCCAATGTCCTAAACGT
1 GGTCTTACACG-AATCAAATA-CGATGCCAATGTCCTAAACAT
*
59573807 GGTCTCACACGA
1 GGTCTTACACGA
59573819 GAACACATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 11 0.23
42 9 0.19
43 28 0.58
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (41 bp):
GGTCTTACACGAATCAAATACGATGCCAATGTCCTAAACAT
Found at i:59573826 original size:43 final size:43
Alignment explanation
Indices: 59573743--59573828 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
59573733 GAATCAAATA
* * * *
59573743 CGATGCCGATGTCCTAGACATGGTCTTACACGTAATCACATAT
1 CGATGCCAATGTCCTAAACATGGTCTCACACGTAAACACATAT
*
59573786 CGATGCCAATGTCCTAAACGTGGTCTCACACG-AGAACACATAT
1 CGATGCCAATGTCCTAAACATGGTCTCACACGTA-AACACATAT
59573829 AAGAAATCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
CGATGCCAATGTCCTAAACATGGTCTCACACGTAAACACATAT
Found at i:59577041 original size:40 final size:38
Alignment explanation
Indices: 59576994--59577128 Score: 144
Period size: 38 Copynumber: 3.5 Consensus size: 38
59576984 GAATCCAGTC
* **
59576994 ACCAGCACAAAACTTGCGGGACTTTAAGCTTGAATATAAT
1 ACCAGCACAAAACCTGCGGGA-TTTAA-CCCGAATATAAT
* * *
59577034 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAACCTGCGGGATTTAACCCGAATATAAT
* * * *
59577072 ACCAGCACGAAGCCTGTGGGATTTAACCCGAATATGAT
1 ACCAGCACAAAACCTGCGGGATTTAACCCGAATATAAT
* *
59577110 ACCAGCACGAAGCCTGCGG
1 ACCAGCACAAAACCTGCGG
59577129 ACCTTTAAGC
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 61 0.73
39 5 0.06
40 18 0.21
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (38 bp):
ACCAGCACAAAACCTGCGGGATTTAACCCGAATATAAT
Found at i:59577078 original size:38 final size:38
Alignment explanation
Indices: 59577027--59577145 Score: 168
Period size: 38 Copynumber: 3.1 Consensus size: 38
59577017 TTAAGCTTGA
*
59577027 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
59577065 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGA
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
59577103 ATATGATACCAGCACGAAGCCTGC-GGACCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGA--TTTAA-CCCGG
59577143 ATA
1 ATA
59577146 CACATCAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
37 3 0.04
38 57 0.79
39 5 0.07
40 7 0.10
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:59583639 original size:43 final size:43
Alignment explanation
Indices: 59583592--59583696 Score: 149
Period size: 43 Copynumber: 2.4 Consensus size: 43
59583582 TCCTAAAGAG
* *
59583592 GGTCTTACACGAAATCACAATACGAA-GCCAATGTCTCAGACAT
1 GGTCTTACACGTAATCACAATAC-AATGCCAATGTCCCAGACAT
*
59583635 GGTCTTACACGTAATCTCAATACAATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGACAT
* *
59583678 GGTGTTACATGTAATCACA
1 GGTCTTACACGTAATCACA
59583697 TCTCGATAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 2 0.04
43 53 0.96
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGACAT
Found at i:59589816 original size:11 final size:11
Alignment explanation
Indices: 59589800--59589825 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
59589790 CGAAGCCTAC
59589800 ATCACAATAAT
1 ATCACAATAAT
59589811 ATCACAATAAT
1 ATCACAATAAT
59589822 ATCA
1 ATCA
59589826 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:59590823 original size:19 final size:19
Alignment explanation
Indices: 59590788--59590835 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
59590778 GTGTGACGCC
*
59590788 CACGAGCCCATT-GGGCCAA
1 CACG-GCCCATTAGGCCCAA
59590807 CACGGCCCATCTAGGCCCAA
1 CACGGCCCAT-TAGGCCCAA
*
59590827 CATGGCCCA
1 CACGGCCCA
59590836 AAACTACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.24
19 5 0.20
20 14 0.56
ACGTcount: A:0.25, C:0.42, G:0.23, T:0.10
Consensus pattern (19 bp):
CACGGCCCATTAGGCCCAA
Found at i:59592825 original size:42 final size:43
Alignment explanation
Indices: 59592751--59592857 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 43
59592741 GACTTCTGTT
* * * *
59592751 TTACGTGTAAGACCATGTCTAGGACATCGGCATCG-TATCTGA
1 TTACATGTAAGACCCTGTCTGGGAAATCGGCATCGATATCTGA
* * *
59592793 TTTCATGTAAGACCCTGTCTGGGAAAGT-GGCATCGATGTTTGA
1 TTACATGTAAGACCCTGTCTGGGAAA-TCGGCATCGATATCTGA
59592836 TTACATGTAAGACCAC-GTCTGG
1 TTACATGTAAGACC-CTGTCTGG
59592858 AACGTTGGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 28 0.52
43 25 0.46
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
TTACATGTAAGACCCTGTCTGGGAAATCGGCATCGATATCTGA
Found at i:59609813 original size:43 final size:42
Alignment explanation
Indices: 59609739--59609845 Score: 103
Period size: 43 Copynumber: 2.5 Consensus size: 42
59609729 ATACATGTTA
**
59609739 TCGTGTAAGACCACGTCTGGGATGTTCGCATCGACT-TCTG-TT
1 TCGTGTAAGACCACGTCTGGGATCATCGCATC-A-TATCTGATT
* *
59609781 TACGTGTAAGACCATGTTTGGGA-CATCGGCATCATATCTGATT
1 T-CGTGTAAGACCACGTCTGGGATCATC-GCATCATATCTGATT
* *
59609824 TCGTGTAAGACCCCATCTGGGA
1 TCGTGTAAGACCACGTCTGGGA
59609846 CTGTGGCATC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
41 1 0.02
42 25 0.47
43 27 0.51
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGATCATCGCATCATATCTGATT
Found at i:59627514 original size:40 final size:40
Alignment explanation
Indices: 59627454--59627700 Score: 300
Period size: 40 Copynumber: 6.2 Consensus size: 40
59627444 CGAAATTTAG
* * * *
59627454 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
59627494 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
59627534 CCAGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
59627574 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
59627614 CCAGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
59627654 CCGGATAAAATCACTAGCACAAATGCCTTCGAGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
59627694 CCGGATA
1 CCGGATA
59627701 TCATTCAAAT
Statistics
Matches: 183, Mismatches: 22, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
39 2 0.01
40 177 0.97
41 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:59640889 original size:17 final size:17
Alignment explanation
Indices: 59640867--59640901 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
59640857 ATGCCAGCAC
59640867 TTTAGTTAGATTTTAGT
1 TTTAGTTAGATTTTAGT
59640884 TTTAGTTAGATTTTAGT
1 TTTAGTTAGATTTTAGT
59640901 T
1 T
59640902 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (17 bp):
TTTAGTTAGATTTTAGT
Found at i:59644749 original size:13 final size:14
Alignment explanation
Indices: 59644725--59644754 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
59644715 GACTTCTGGA
59644725 TATAGAAAGATATT
1 TATAGAAAGATATT
59644739 TATAG-AAGATATT
1 TATAGAAAGATATT
59644752 TAT
1 TAT
59644755 GCAATCGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (14 bp):
TATAGAAAGATATT
Found at i:59646563 original size:37 final size:37
Alignment explanation
Indices: 59646510--59646612 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
59646500 CGAATAGTCC
* *
59646510 CCACACGTTGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
59646547 CCACACGTAGTCATCGGGTCTTACCCGAACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
59646584 CCACACGTAGTCATCGAGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
59646613 ATATATCTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:59646811 original size:48 final size:48
Alignment explanation
Indices: 59646753--59647284 Score: 821
Period size: 48 Copynumber: 11.0 Consensus size: 48
59646743 ATATACACAC
* * *
59646753 ATCTCCTACATATTTCACATTAGCCATTCGACTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
59646801 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
** *
59646849 ATCTCATACATATTTCATGTTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
59646897 ATCTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
59646945 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACTTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
59646993 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
*
59647043 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
59647091 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
59647139 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
59647187 ATCTAATATATTTTTCACATTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
59647235 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
59647283 AT
1 AT
59647285 ATTTATCTTG
Statistics
Matches: 442, Mismatches: 40, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
48 398 0.90
50 44 0.10
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:59650295 original size:118 final size:120
Alignment explanation
Indices: 59650114--59650335 Score: 283
Period size: 118 Copynumber: 1.9 Consensus size: 120
59650104 TCCTCGTTCA
* *
59650114 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCATTCGGGACTTAACCCGGAT
* *
59650179 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
59650234 AATG-CTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCATTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCATTCGGGA-CTTAACCCGG
* * *
59650295 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
59650336 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
117 4 0.05
118 65 0.74
119 15 0.17
120 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCATTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:59650335 original size:40 final size:40
Alignment explanation
Indices: 59650112--59650335 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
59650102 GCTCCTCGTT
* *
59650112 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59650152 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59650192 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59650232 CCAATG-CTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
59650270 CAAATGCATTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
59650311 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59650336 CATCATTCAA
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 28 0.17
39 10 0.06
40 110 0.69
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59654378 original size:43 final size:42
Alignment explanation
Indices: 59654300--59654411 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 42
59654290 TACCACTCCA
* * **
59654300 ATGCCATATCCCAGATATGGTCTT-CTATGGGATCTCAT-TTCG
1 ATGCCATAGCCCAGATATGGTCTTAC-AAGAAATCTCATATT-G
59654342 ATGCCAATAGCCCA-ACTATGGTCTTACAAGAAATCTCATATTG
1 ATGCC-ATAGCCCAGA-TATGGTCTTACAAGAAATCTCATATTG
*
59654385 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATAGCCCAGATATGGTCTTACA
59654412 CATAGCCTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
42 25 0.42
43 32 0.53
44 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACAAGAAATCTCATATTG
Found at i:59659920 original size:50 final size:51
Alignment explanation
Indices: 59659835--59659973 Score: 194
Period size: 50 Copynumber: 2.8 Consensus size: 51
59659825 TACATAGTAA
* * * *
59659835 GATGCCAATGCCATAT-CCAAATATGGTCTTACAT-GGATTCATACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATTCACACATATC
*
59659884 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-TCACACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATTCACACATATC
* *
59659934 GATGCCAATGACATGTCCCTGACATGGTCTTACATAGGAT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGAT
59659974 CTTATATTGC
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 15 0.19
50 62 0.77
51 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (51 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATTCACACATATC
Found at i:59661973 original size:45 final size:45
Alignment explanation
Indices: 59661909--59662001 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
59661899 TACCAATTTC
59661909 ACACAAACATAAGAATGAGTCGATCTAGGATCAATCAATGCAACT
1 ACACAAACATAAGAATGAGTCGATCTAGGATCAATCAATGCAACT
*
59661954 ACACAAGCATAAGAATGAGTCGATCTAGGATCAATCAATGCAACT
1 ACACAAACATAAGAATGAGTCGATCTAGGATCAATCAATGCAACT
59661999 ACA
1 ACA
59662002 TTAGTATTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.19
Consensus pattern (45 bp):
ACACAAACATAAGAATGAGTCGATCTAGGATCAATCAATGCAACT
Found at i:59664056 original size:42 final size:42
Alignment explanation
Indices: 59663977--59664058 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
59663967 GGTGCAAATG
*
59663977 ACACACGACCAGAACACACGCCCATGGGGCAAGCCGTGTGTC
1 ACACACGACCAGAACACACGCCCATGGGGCAACCCGTGTGTC
* * * *
59664019 ACACACGGCCTAG-ACACACGCCCATGTGTCTACCCGTGTG
1 ACACACGACC-AGAACACACGCCCATGGGGCAACCCGTGTG
59664059 GACAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.26, C:0.37, G:0.24, T:0.13
Consensus pattern (42 bp):
ACACACGACCAGAACACACGCCCATGGGGCAACCCGTGTGTC
Found at i:59673620 original size:32 final size:33
Alignment explanation
Indices: 59673582--59673660 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 33
59673572 AGTGAACAAC
*
59673582 ACAGTATCAGTACAATCTGGGCCATGCCC-TAT
1 ACAGTATCAGTACAATCTGGGCCAAGCCCTTAT
*
59673614 TCAGTATCCA-TACAATCTGGGCCAAGCCCTTAT
1 ACAGTAT-CAGTACAATCTGGGCCAAGCCCTTAT
*
59673647 ACAGTAGCAGTACA
1 ACAGTATCAGTACA
59673661 GTGTAAGATG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 26 0.65
33 14 0.35
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (33 bp):
ACAGTATCAGTACAATCTGGGCCAAGCCCTTAT
Found at i:59694482 original size:42 final size:43
Alignment explanation
Indices: 59694379--59694494 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 43
59694369 CGATATGTGT
* * * *
59694379 TTTCGTGTAAGACCACGTTTGGGAAGTTTGCATTGACTTATGA
1 TTTCGTGTAAGACCACGTCTGGGAAGTTGGAATCGACTTATGA
* * *
59694422 TTTACATGTAAGACCACGTCTAGGACGTTGGAATCGTA-TT-TGA
1 TTT-CGTGTAAGACCACGTCTGGGAAGTTGGAATCG-ACTTATGA
*
59694465 TTTCGTGTAAGACCACGTCTGGGATGTTGG
1 TTTCGTGTAAGACCACGTCTGGGAAGTTGG
59694495 CATTGTACGA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 24 0.39
43 9 0.15
44 27 0.44
45 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TTTCGTGTAAGACCACGTCTGGGAAGTTGGAATCGACTTATGA
Found at i:59695810 original size:48 final size:48
Alignment explanation
Indices: 59695755--59695982 Score: 250
Period size: 48 Copynumber: 4.8 Consensus size: 48
59695745 TCGTCTCAAT
*
59695755 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* * *
59695803 GCTGATGCCATGTCCCAGACATGGTCTTAGACTAGCGCACAT-ATCAATGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTC-TCAT-AATGTG
* ** *
59695853 --CGATGCCATGTCACAGACATGGTCTTACACTGGCTCTCATAACATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* * * * *
59695899 ACCAATGCCATGTTCCAAACATGATCTTACACTGGCTCTCAT-ATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
*
59695947 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
59695983 ACACATATCA
Statistics
Matches: 147, Mismatches: 24, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
45 4 0.03
46 5 0.03
47 2 0.01
48 124 0.84
49 1 0.01
50 5 0.03
51 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:59695879 original size:96 final size:95
Alignment explanation
Indices: 59695750--59695982 Score: 279
Period size: 96 Copynumber: 2.4 Consensus size: 95
59695740 AGATCTCGTC
* ** ** **
59695750 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATG
1 TCAATGCCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATAACATCACCAATGCCATG
* * *
59695815 TCCCAGACATGGTCTTAGACTAGCGCACATA
65 TCCCAAACATGATCTTACACTAGCGCACATA
*
59695846 TCAATGTCGATGCCATGTCACAGACATGGTCTTACACTGGCTCTCATAACATCACCAATGCCATG
1 TCAATGCCGATGCCATGTC-CAGACATGGTCTTACACTGGCTCTCATAACATCACCAATGCCATG
* * * *
59695911 TTCCAAACATGATCTTACACTGGCTCTCATA
65 TCCCAAACATGATCTTACACTAGCGCACATA
*
59695942 TC-GTGGCCGATGCCATGTCCTAGACATGGTCTTACACTGGC
1 TCAAT-GCCGATGCCATGTCC-AGACATGGTCTTACACTGGC
59695983 ACACATATCA
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
95 3 0.03
96 114 0.97
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (95 bp):
TCAATGCCGATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATAACATCACCAATGCCATGT
CCCAAACATGATCTTACACTAGCGCACATA
Found at i:59695990 original size:48 final size:47
Alignment explanation
Indices: 59695710--59695992 Score: 248
Period size: 48 Copynumber: 5.9 Consensus size: 47
59695700 GGTTGTTACA
* * * * * * *
59695710 GATGTCATGTCCCATACATGGTCTTACCCTAGATCTCGTCTCAAT-GCC
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCC
* * *
59695758 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCAT-ATCATGGCC
* * * * *
59695806 GATGCCATGTCCCAGACATGGTCTTAGACTAGCGCACATATCAAT-GTC
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCC
* **
59695854 GATGCCATGTCACAGACATGGTCTTACACTGGCTCTCATAACATCACC
1 GATGCCATGTC-CAGACATGGTCTTACACTGGCTCTCATATCATGGCC
* * * *
59695902 AATGCCATGTTCCAAACATGATCTTACACTGGCTCTCATATCGTGGCC
1 GATGCCATG-TCCAGACATGGTCTTACACTGGCTCTCATATCATGGCC
* *
59695950 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCA
1 GATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCATATCA
59695993 CCCAAATGTC
Statistics
Matches: 190, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
47 9 0.05
48 177 0.93
49 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATATCATGGCC
Found at i:59703490 original size:48 final size:48
Alignment explanation
Indices: 59703435--59703637 Score: 239
Period size: 48 Copynumber: 4.2 Consensus size: 48
59703425 GTGAATTACT
* * * *
59703435 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGCC
* * * * * *
59703483 GATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGCC
* * * *
59703531 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA--ATGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA-AT-GCC
*
59703579 GATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGCC
59703627 GATGCCATGTC
1 GATGCCATGTC
59703638 GCAGACGTTA
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 127 0.97
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGCC
Found at i:59703599 original size:96 final size:96
Alignment explanation
Indices: 59703435--59703643 Score: 278
Period size: 96 Copynumber: 2.2 Consensus size: 96
59703425 GTGAATTACT
* * * *
59703435 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGATGCCGATGCCATGCCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGATGCCGATGCCATGCCCCAAAC
* * * * *
59703500 ATGGTCTTACACTAGCTCTCGTCTCAATGTC
66 ATGGTCTTACACTAGCGCACATATCAATGCC
* *
59703531 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G-TGGCCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAT-GCCGATGCCATGCCCCAA
59703594 ACATGGTCTTACACTAGCGCACATATCAATGCC
64 ACATGGTCTTACACTAGCGCACATATCAATGCC
*
59703627 GATGCCATGTCGCAGAC
1 GATGCCATGTCCCAGAC
59703644 GTTATGTCCC
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
95 1 0.01
96 97 0.98
97 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGATGCCGATGCCATGCCCCAAAC
ATGGTCTTACACTAGCGCACATATCAATGCC
Found at i:59703794 original size:158 final size:158
Alignment explanation
Indices: 59703493--59703795 Score: 396
Period size: 158 Copynumber: 1.9 Consensus size: 158
59703483 GATGCCATGC
* **** * * *
59703493 CCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAGACATGGTCTTAC
1 CCCAAACATGGTCTTACACTAGCTCTCAAAACAATGCCGATGCCATGTCCCAAACATGATCTTAC
* *
59703558 ACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAA
66 ACTGGCTCTCATAATGTGGCCAATACCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAA
** *
59703623 TGCCGATGCCATGTCGCAGACGTTATGT
131 CCCCAATGCCATGTCGCAGACGTTATGT
*
59703651 CCCAAACATGGTCTTACACTAGCTCTCAAAAC-ATCGCCGATGCCATGTTCCAAACATGATCTTA
1 CCCAAACATGGTCTTACACTAGCTCTCAAAACAAT-GCCGATGCCATGTCCCAAACATGATCTTA
* * *
59703715 CACTGGCTTTCATATTGTGGCCAATACCATGTCCCAAACATGGTCTTACACTGGCAG-ACATATC
65 CACTGGCTCTCATAATGTGGCCAATACCATGTCCCAAACATGGTCTTACACTAGC-GCACATATC
*
59703779 -ACCCCAAATGTCATGTC
129 AACCCC-AATGCCATGTC
59703796 CTGGATATCC
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
157 5 0.04
158 118 0.95
159 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (158 bp):
CCCAAACATGGTCTTACACTAGCTCTCAAAACAATGCCGATGCCATGTCCCAAACATGATCTTAC
ACTGGCTCTCATAATGTGGCCAATACCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAA
CCCCAATGCCATGTCGCAGACGTTATGT
Found at i:59707028 original size:94 final size:91
Alignment explanation
Indices: 59706817--59707096 Score: 293
Period size: 94 Copynumber: 3.0 Consensus size: 91
59706807 TTGGGTCATT
* * * *
59706817 TGTGTGAGCTAGTGTAAGACATGTCCT-GGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAA
1 TGTGAGAGCTAGTGTAAGACATGT-CTGGGACATGCATCGGCTACGA--AT--GTGTCAGTGTAA
59706880 GACCATGTCTGGGACATGGCATCAGCATTGA
61 GACCATGTCTGGGACATGGCATCAGCATTGA
* *
59706911 -GACGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTGTAAGAC
1 TG-TGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-ATGTGTCAGTGTAAGAC
59706975 CATGTCTGGGACATGGCATGGCA-CAGTT-A
64 CATGTCTGGGACATGGCAT--CAGCA-TTGA
*
59707004 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAATATGATAGCTAGTGT
1 TGTGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAATGTG-T--C-AGTGT
*
59707068 AAGACCATGTGTGGGACATGGCATCAGCA
59 AAGACCATGTCTGGGACATGGCATCAGCA
59707097 CTTTACCCAT
Statistics
Matches: 160, Mismatches: 11, Indels: 27
0.81 0.06 0.14
Matches are distributed among these distances:
92 32 0.20
93 21 0.13
94 60 0.38
95 12 0.08
96 4 0.03
97 3 0.02
98 28 0.17
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (91 bp):
TGTGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAATGTGTCAGTGTAAGACCA
TGTCTGGGACATGGCATCAGCATTGA
Found at i:59707033 original size:49 final size:50
Alignment explanation
Indices: 59706817--59707097 Score: 244
Period size: 49 Copynumber: 5.9 Consensus size: 50
59706807 TTGGGTCATT
*
59706817 TGTGTGAGCTAGTGTAAGA-CATGTCCT-GGACAT-GCATCGGCCACA-TTA
1 TGTGAGAGCTAGTGTAAGACCATGT-CTGGGACATGGCATCGG-CACAGTTA
* *
59706865 --TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG--CA-TTGA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGTT-A
* *
59706911 -GACGAGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAG--A
1 TG-TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-AC-AGTTA
*
59706959 TGT--G-TC-AGTGTAAGACCATGTCTGGGACATGGCAT-GGCACAGTTA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGTTA
* *
59707004 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCG-AA
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGTTA
* * * *
59707053 TATGATAGCTAGTGTAAGACCATGTGTGGGACATGGCATCAGCAC
1 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
59707098 TTTACCCATG
Statistics
Matches: 194, Mismatches: 16, Indels: 44
0.76 0.06 0.17
Matches are distributed among these distances:
43 2 0.01
44 11 0.06
45 26 0.13
46 29 0.15
47 26 0.13
48 22 0.11
49 72 0.37
50 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGTTA
Found at i:59708573 original size:48 final size:48
Alignment explanation
Indices: 59708500--59708832 Score: 289
Period size: 48 Copynumber: 6.9 Consensus size: 48
59708490 GACATTTGGG
* * * *
59708500 TGATATGTGTGCTAGTGTAAAACCATGTCTGGGACATGGCGTCGGCCA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
59708548 TGATATGAGAGCTAGTATAAGACCATGTTTGGAACATAGCATCAGCAA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * **
59708596 TGTTATGAGAGCCAGTGTAAGACCATGTCCGGGATGTGGCATCGG-CA
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * *
59708643 TTGTTAGGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCA
1 -TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * *
59708692 -CATTATAAGAGCTAGTGTAAGACCATGTCTGAGACATGGCATTGG-CA
1 TGA-TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * ** *
59708739 TTGAGACGAGAGCTAGTGTAAGACCACATCTGGAACATGGCATCGGTCTCA
1 -TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-C-CA
* * * *
59708790 --ACATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
1 TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
59708833 TAATTCGCCT
Statistics
Matches: 222, Mismatches: 55, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
47 3 0.01
48 214 0.96
49 3 0.01
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:59708780 original size:144 final size:144
Alignment explanation
Indices: 59708510--59708828 Score: 329
Period size: 144 Copynumber: 2.2 Consensus size: 144
59708500 TGATATGTGT
* ** * *
59708510 GCTAGTGTAAAACCATGTCTGGGACATGGCGTCGGCCATGATATGAGAGCTAGTATAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCATCATATAAGAGCTAGTATAAGACCATG
* ** * ** * **
59708575 TTTGGAACATAGCATCAGCAATGTTATGAGAGCCAGTGTAAGACCATGTCCGGGATGTGGCATCG
66 TCTGGAACATAGCATCAGCAATGAGACGAGAGCCAGTGTAAGACCACATCCGGAACATGGCATCG
**** *
59708640 G-CATTGTTAGGTGC
131 GTC-TCAACAGGTGA
*
59708654 GCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCA-CATTATAAGAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCATCA-TATAAGAGCTAGTATAAGACCAT
* ** * * *
59708718 GTCT-GAGACATGGCATTGGCATTGAGACGAGAGCTAGTGTAAGACCACATCTGGAACATGGCAT
65 GTCTGGA-ACATAGCATCAGCAATGAGACGAGAGCCAGTGTAAGACCACATCCGGAACATGGCAT
*
59708782 CGGTCTCAACATGTGA
129 CGGTCTCAACAGGTGA
* *
59708798 GCCAGTGTAAGACCATGTTTGGGACATGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCA
59708829 TCGGTAATTC
Statistics
Matches: 143, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
143 3 0.02
144 139 0.97
145 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (144 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCAACGGCCATCATATAAGAGCTAGTATAAGACCATG
TCTGGAACATAGCATCAGCAATGAGACGAGAGCCAGTGTAAGACCACATCCGGAACATGGCATCG
GTCTCAACAGGTGA
Found at i:59712657 original size:59 final size:60
Alignment explanation
Indices: 59712585--59712700 Score: 175
Period size: 59 Copynumber: 1.9 Consensus size: 60
59712575 TTTAGTACCT
59712585 GAACTTGACACTTTTT-CTCAATTTGGTACTTAAA-ATTTTTTT-GGCACAATTTGGTATTG
1 GAACTTGACACTTTTTCCT-AATTTGGTACTTAAACATTTTTTTGGGC-CAATTTGGTATTG
* *
59712644 GAACTTGGCACTTTTTCCTAATTTGGTACTTAAACTTTTTTTTGGGCCAATTTGGTA
1 GAACTTGACACTTTTTCCTAATTTGGTACTTAAACATTTTTTTGGGCCAATTTGGTA
59712701 CCTAAACTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
59 30 0.58
60 19 0.37
61 3 0.06
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (60 bp):
GAACTTGACACTTTTTCCTAATTTGGTACTTAAACATTTTTTTGGGCCAATTTGGTATTG
Found at i:59712719 original size:60 final size:58
Alignment explanation
Indices: 59712574--59712744 Score: 186
Period size: 60 Copynumber: 2.9 Consensus size: 58
59712564 TTAATATAAC
* *
59712574 ATTTAGTACCTGAACTTGACACTTTTTCTCAATTTGGTACTTAAA-ATTTTTTTGGCACA
1 ATTTGGTACCTGAACTTG-CACTTTTTCT-AATTTGGTACTTAAACTTTTTTTTGGCACA
*
59712633 ATTTGGTA-TTGGAACTTGGCACTTTTTCCTAATTTGGTACTTAAACTTTTTTTTGGGC-CA
1 ATTTGGTACCT-GAACTT-GCACTTTTT-CTAATTTGGTACTTAAACTTTTTTTT-GGCACA
* * * *
59712693 ATTTGGTACCTAAACTTAGCATTTTTTTCTAATTTAGTACTTAAGCTTTTTT
1 ATTTGGTACCTGAACTT-GCA-CTTTTTCTAATTTGGTACTTAAACTTTTTT
59712745 CAGGTTCAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
58 1 0.01
59 36 0.38
60 50 0.52
61 9 0.09
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.47
Consensus pattern (58 bp):
ATTTGGTACCTGAACTTGCACTTTTTCTAATTTGGTACTTAAACTTTTTTTTGGCACA
Found at i:59712755 original size:60 final size:60
Alignment explanation
Indices: 59712574--59712766 Score: 162
Period size: 60 Copynumber: 3.2 Consensus size: 60
59712564 TTAATATAAC
* * * * *
59712574 ATTTAGTACCTGAACTT-GACACTTTTT-CTCAATTTGGTACTTAAAATTTTTT--TGGCACA
1 ATTTGGTACCTAAACTTAG-CACTTTTTCCT-AATTTAGTACTTAAACTTTTTTCAGGGC-CA
* * * * **
59712633 ATTTGGTA-TTGGAACTTGGCACTTTTTCCTAATTTGGTACTTAAACTTTTTTTTGGGCCA
1 ATTTGGTACCT-AAACTTAGCACTTTTTCCTAATTTAGTACTTAAACTTTTTTCAGGGCCA
* * * **
59712693 ATTTGGTACCTAAACTTAGCATTTTTTTCTAATTTAGTACTTAAGCTTTTTTCAGGTTCA
1 ATTTGGTACCTAAACTTAGCACTTTTTCCTAATTTAGTACTTAAACTTTTTTCAGGGCCA
*
59712753 ATTTGGTACTTAAA
1 ATTTGGTACCTAAA
59712767 TTTATTAAAT
Statistics
Matches: 112, Mismatches: 16, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
58 1 0.01
59 42 0.38
60 65 0.58
61 4 0.04
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (60 bp):
ATTTGGTACCTAAACTTAGCACTTTTTCCTAATTTAGTACTTAAACTTTTTTCAGGGCCA
Found at i:59715136 original size:28 final size:28
Alignment explanation
Indices: 59715096--59715151 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
59715086 GTATGAATGG
59715096 TTGCCTTTTTCCATAGAGATTTTCCGTT
1 TTGCCTTTTTCCATAGAGATTTTCCGTT
59715124 TTGCCTTTTTCCATAGAGATTTTCCGTT
1 TTGCCTTTTTCCATAGAGATTTTCCGTT
59715152 CTGAATACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (28 bp):
TTGCCTTTTTCCATAGAGATTTTCCGTT
Found at i:59718038 original size:18 final size:17
Alignment explanation
Indices: 59717997--59718044 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
59717987 TTGCCACATC
*
59717997 AATAAATATTTAAAAATT
1 AATAAA-ATTTAAAAATA
59718015 AA-AAAATCTTAAAAATA
1 AATAAAAT-TTAAAAATA
59718032 AATAAAATATTAA
1 AATAAAAT-TTAA
59718045 TAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 2 0.08
17 13 0.50
18 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAAATTTAAAAATA
Found at i:59718331 original size:20 final size:20
Alignment explanation
Indices: 59718303--59718356 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
59718293 TATATATAAT
* *
59718303 TTTAAAAATTTTAATCATTA
1 TTTATAAATTTTAATAATTA
*
59718323 TTTATAAATTCTT-ATAATTC
1 TTTATAAATT-TTAATAATTA
*
59718343 TTAATAAATTTTAA
1 TTTATAAATTTTAA
59718357 ATAAGTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTATAAATTTTAATAATTA
Found at i:59721520 original size:15 final size:15
Alignment explanation
Indices: 59721502--59721551 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
59721492 AATTATTTTC
59721502 CTATTATTTATTATA
1 CTATTATTTATTATA
*
59721517 CTA-T-TTT-TTACA
1 CTATTATTTATTATA
59721529 CTATTATTTATTATA
1 CTATTATTTATTATA
59721544 CTTATTAT
1 C-TATTAT
59721552 ATCATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 7 0.24
13 4 0.14
14 4 0.14
15 8 0.28
16 6 0.21
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:59722024 original size:129 final size:131
Alignment explanation
Indices: 59721851--59722189 Score: 341
Period size: 129 Copynumber: 2.6 Consensus size: 131
59721841 AAGACGAGAC
* * * *
59721851 TCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
1 TCGATGTTTGGCAGTTCGAGGAATAGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTG-TCAA
** * * *
59721916 AATAATCGAATATTCCTTTAG-GTTTTCACTCATGTTTAT-TAAAAACCTTTCAATAC-AAAGGA
65 AATAATCGAATATTCC-TTAGAAATTTCACTCACGTTT-TCTAAAAACCTTTCAAAACGAAAGAA
59721978 -TGT
128 GTGT
* * ** * * *
59721981 TCGATGTTTGGC-GATTTGAGG-ATCGTGCCCTATCGTGTTGGGTTGCGCTTTTTCATTTGTTCT
1 TCGATGTTTGGCAG-TTCGAGGAATAGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTG-TCA
* * * * *
59722044 AAACAATCGAAGATTCCTTCGAAATTTCATTCACGTTTTCTAAAAACCTTTTAAAACGAAAGAAG
64 AAATAATCGAATATTCCTTAGAAATTTCACTCACGTTTTCTAAAAACCTTTCAAAACGAAAGAAG
59722109 TGT
129 TGT
* * * *
59722112 TCGATGTTTGGCAGTTCGGGGAATAGTGCCCTATCGTGCTGGGCTGCAATCTC-CTGTTTGTCCA
1 TCGATGTTTGGCAGTTCGAGGAATAGTGCCCTATCGTGTTGGGTTGCAATTTCTC-GTTTGT-CA
59722176 AAATAATCGAATAT
64 AAATAATCGAATAT
59722190 CTCTCCGGGA
Statistics
Matches: 165, Mismatches: 35, Indels: 16
0.76 0.16 0.07
Matches are distributed among these distances:
128 4 0.02
129 76 0.46
130 21 0.13
131 22 0.13
132 42 0.25
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (131 bp):
TCGATGTTTGGCAGTTCGAGGAATAGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGTCAAA
ATAATCGAATATTCCTTAGAAATTTCACTCACGTTTTCTAAAAACCTTTCAAAACGAAAGAAGTG
T
Found at i:59722884 original size:30 final size:30
Alignment explanation
Indices: 59722848--59722907 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
59722838 ATAGAATACT
*
59722848 TTTGCATTGCATCGCATGACCGTTGTGGTC
1 TTTGCATTGCATCGCATGACCATTGTGGTC
*
59722878 TTTGCATTGCATCGCATGACTATTGTGGTC
1 TTTGCATTGCATCGCATGACCATTGTGGTC
59722908 ACACCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (30 bp):
TTTGCATTGCATCGCATGACCATTGTGGTC
Found at i:59725599 original size:23 final size:23
Alignment explanation
Indices: 59725568--59725619 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
59725558 AAAAACCAAA
59725568 AAAAC-ACAAAAAAGAAGAAGAAAAC
1 AAAACAAC-AAAAA-AAGAA-AAAAC
*
59725593 AAAACAACAAAAAAATAAAAAAC
1 AAAACAACAAAAAAAGAAAAAAC
59725616 AAAA
1 AAAA
59725620 AAATGCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 9 0.36
24 4 0.16
25 10 0.40
26 2 0.08
ACGTcount: A:0.81, C:0.12, G:0.06, T:0.02
Consensus pattern (23 bp):
AAAACAACAAAAAAAGAAAAAAC
Found at i:59725616 original size:15 final size:16
Alignment explanation
Indices: 59725588--59725623 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
59725578 AAAGAAGAAG
*
59725588 AAAACAAAACAACAAA
1 AAAATAAAACAACAAA
59725604 AAAATAAAA-AACAAA
1 AAAATAAAACAACAAA
59725619 AAAAT
1 AAAAT
59725624 GCCAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAATAAAACAACAAA
Found at i:59725619 original size:28 final size:28
Alignment explanation
Indices: 59725549--59725619 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
59725539 TATCAAATTC
* *
59725549 AAAATTAAAAAAAACCAAAAAAACACAA
1 AAAATAAAAAAAAAACAAAAAAACACAA
* * * *
59725577 AAAAGAAGAAGAAAACAAAACAACA-AA
1 AAAATAAAAAAAAAACAAAAAAACACAA
59725604 AAAATAAAAAACAAAA
1 AAAATAAAAAA-AAAA
59725620 AAATGCCAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
27 10 0.30
28 23 0.70
ACGTcount: A:0.80, C:0.11, G:0.04, T:0.04
Consensus pattern (28 bp):
AAAATAAAAAAAAAACAAAAAAACACAA
Found at i:59725622 original size:8 final size:8
Alignment explanation
Indices: 59725556--59725622 Score: 55
Period size: 8 Copynumber: 7.9 Consensus size: 8
59725546 TTCAAAATTA
59725556 AAAAAAACC
1 AAAAAAA-C
59725565 AAAAAAAC
1 AAAAAAAC
*
59725573 ACAAAAAAGA
1 A-AAAAAA-C
59725583 AGAAGAAAAC
1 A-AA-AAAAC
*
59725593 AAAACAAC
1 AAAAAAAC
59725601 AAAAAAA-
1 AAAAAAAC
*
59725608 TAAAAAAC
1 AAAAAAAC
59725616 AAAAAAA
1 AAAAAAA
59725623 TGCCAAAAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
7 6 0.13
8 18 0.38
9 15 0.32
10 4 0.09
11 4 0.09
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:59725631 original size:18 final size:16
Alignment explanation
Indices: 59725557--59725623 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 16
59725547 TCAAAATTAA
*
59725557 AAAAAACCAAAAAAACAC
1 AAAAAA-CAAAAAAA-TC
* *
59725575 AAAAAAGAAGAAGAAAAC
1 AAAAAACAA-AA-AAATC
59725593 AAAACAACAAAAAAAT-
1 AAAA-AACAAAAAAATC
59725609 AAAAAACAAAAAAAT
1 AAAAAACAAAAAAAT
59725624 GCCAAAAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
15 11 0.26
16 4 0.09
17 5 0.12
18 16 0.37
19 7 0.16
ACGTcount: A:0.81, C:0.12, G:0.04, T:0.03
Consensus pattern (16 bp):
AAAAAACAAAAAAATC
Done.