Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 189 of 318
Found at i:59117723 original size:14 final size:15
Alignment explanation
Indices: 59117704--59117732 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59117694 AGGTAAGTTT
59117704 GTATTTCATT-TAAA
1 GTATTTCATTATAAA
59117718 GTATTTCATTATAAA
1 GTATTTCATTATAAA
59117733 ATTATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
GTATTTCATTATAAA
Found at i:59117969 original size:16 final size:15
Alignment explanation
Indices: 59117901--59117992 Score: 105
Period size: 15 Copynumber: 5.9 Consensus size: 15
59117891 CAATGAAAAG
*
59117901 GATGAAAAGGTTATT
1 GATGAAAAGGTTATC
59117916 GATGAAAAGGTT-TAC
1 GATGAAAAGGTTAT-C
*
59117931 AATGAAAAGGTTATC
1 GATGAAAAGGTTATC
59117946 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
*
59117961 GATTGAAAAAGGTTATG
1 GA-TG-AAAAGGTTATC
*
59117978 GATTAAAAAGGTTAT
1 GA-TGAAAAGGTTAT
59117993 TCAAATAATA
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
14 1 0.01
15 40 0.59
16 13 0.19
17 14 0.21
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.29
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:59117972 original size:17 final size:17
Alignment explanation
Indices: 59117935--59117992 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
59117925 GTTTACAATG
59117935 AAAAGGTTATCGA-TG-
1 AAAAGGTTATCGATTGA
59117950 AAAAGGTTATCGATTGA
1 AAAAGGTTATCGATTGA
*
59117967 AAAAGGTTATGGATT-A
1 AAAAGGTTATCGATTGA
59117983 AAAAGGTTAT
1 AAAAGGTTAT
59117993 TCAAATAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
15 13 0.32
16 13 0.32
17 14 0.35
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.29
Consensus pattern (17 bp):
AAAAGGTTATCGATTGA
Found at i:59118816 original size:25 final size:24
Alignment explanation
Indices: 59118766--59118816 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
59118756 AATTATGAAG
*
59118766 CACACGATCTGGGACACGAGCTGT
1 CACACGATCTGGGACACGAGCAGT
* * *
59118790 CACACGATCGTGTGCCACGCGCAGT
1 CACACGATC-TGGGACACGAGCAGT
59118815 CA
1 CA
59118817 ACCTACACGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.24, C:0.33, G:0.27, T:0.16
Consensus pattern (24 bp):
CACACGATCTGGGACACGAGCAGT
Found at i:59121542 original size:40 final size:40
Alignment explanation
Indices: 59121478--59121553 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
59121468 TATACATATA
* *
59121478 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCCAACCGCACACCAAATGCCACATT
* * * *
59121518 TAGCTGAAGCTATTTCGAACCGCACACTAAATGCCA
1 TAGCCGAAGCTATCTCCAACCGCACACCAAATGCCA
59121554 TTTTTTTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAACCGCACACCAAATGCCACATT
Found at i:59124543 original size:22 final size:22
Alignment explanation
Indices: 59124500--59124548 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
59124490 TCCACATAGT
* *
59124500 TATGAAAGCCTTTTACGAGTAG
1 TATGAAAGCCTTTAAAGAGTAG
59124522 TATGAAAGCCCTTTAAAG-GTAG
1 TATGAAAG-CCTTTAAAGAGTAG
59124544 TATGA
1 TATGA
59124549 GACTCTACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (22 bp):
TATGAAAGCCTTTAAAGAGTAG
Found at i:59129209 original size:15 final size:15
Alignment explanation
Indices: 59129177--59129221 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
59129167 TGTGATTTGG
*
59129177 TCATTTCCACACATTT
1 TCATTTCCA-AAATTT
59129193 TCATTTCCAAAATTT
1 TCATTTCCAAAATTT
* *
59129208 TCATATCTAAAATT
1 TCATTTCCAAAATT
59129222 ACTTTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (15 bp):
TCATTTCCAAAATTT
Found at i:59131455 original size:46 final size:46
Alignment explanation
Indices: 59131283--59131451 Score: 232
Period size: 46 Copynumber: 3.7 Consensus size: 46
59131273 GATCAGAGTA
* * * *
59131283 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCT-CATCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTTCCATCGTGT
* ** *
59131328 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCTGTTGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTTCCATCGTGT
*
59131374 TGCCATAGTGTCTTTCAACCATGGTCTTATTTGTTTTCCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTTCCATCGTGT
* *
59131420 TGCCAGAGTGTCTTTCAACCATGATCTTATTT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTT
59131452 GTTTGATTTG
Statistics
Matches: 108, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 34 0.31
46 74 0.69
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTTCCATCGTGT
Found at i:59131463 original size:91 final size:91
Alignment explanation
Indices: 59131283--59131463 Score: 247
Period size: 91 Copynumber: 2.0 Consensus size: 91
59131273 GATCAGAGTA
* * *
59131283 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCTCATCTTGATGCCATAGTGTCTTTCAACC
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCATCGTGATGCCAGAGTGTCTTTCAACC
* **
59131348 ATGGTCTTATTCATTTTCTGTTGTGT
66 ATGATCTTATTCATTTGATGTTGTGT
* * *
59131374 TGCCATAGTGTCTTTCAACCATGGTCTTATTTGTTTTCCATCGTGTTGCCAGAGTGTCTTTCAAC
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCT-CATCGTGATGCCAGAGTGTCTTTCAAC
**
59131439 CATGATCTTATTTGTTTGAT-TTGTG
65 CATGATCTTATTCATTTGATGTTGTG
59131464 ATCTCATAGC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 39 0.50
92 39 0.50
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.46
Consensus pattern (91 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCATCGTGATGCCAGAGTGTCTTTCAACC
ATGATCTTATTCATTTGATGTTGTGT
Found at i:59131479 original size:91 final size:91
Alignment explanation
Indices: 59131293--59131493 Score: 226
Period size: 91 Copynumber: 2.2 Consensus size: 91
59131283 TGCCATGGTG
* * *
59131293 TCTTTCAACCATGGTCTTATTTATTCTCATCTTGATGCCATAGTGTCTTTCAACCATGGTCTTAT
1 TCTTTCAACCATGGTCTTATTTATTCTCATCGTGATGCCAGAGTGTCTTTCAACCATGATCTTAT
** * **
59131358 TCATTTTCTGTTGTGTTGCCATAGTG
66 TCATTTGATGTTGTGATGCCATAGCA
* * *
59131384 TCTTTCAACCATGGTCTTATTTGTTTTCCATCGTGTTGCCAGAGTGTCTTTCAACCATGATCTTA
1 TCTTTCAACCATGGTCTTATTTATTCT-CATCGTGATGCCAGAGTGTCTTTCAACCATGATCTTA
**
59131449 TTTGTTTGAT-TTGTGAT-CTCATAGCA
65 TTCATTTGATGTTGTGATGC-CATAGCA
* * *
59131475 TCTTTTAGCTATGGTCTTA
1 TCTTTCAACCATGGTCTTA
59131494 CTTGATAGAA
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
90 1 0.01
91 52 0.57
92 39 0.42
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (91 bp):
TCTTTCAACCATGGTCTTATTTATTCTCATCGTGATGCCAGAGTGTCTTTCAACCATGATCTTAT
TCATTTGATGTTGTGATGCCATAGCA
Found at i:59131510 original size:45 final size:45
Alignment explanation
Indices: 59131468--59131672 Score: 245
Period size: 45 Copynumber: 4.6 Consensus size: 45
59131458 TTTGTGATCT
* * *
59131468 CATAGCATCTTTTAG-CTATGGTCTTACTTGATAGAATCGTGATGC
1 CATAACATCTTTCAGTC-ATGGTCTTACTCGATAGAATCGTGATGC
* * **
59131513 CATAA-AGTCTCTCAATCATGGTCTTACTTAATAGAATCGTGATGC
1 CATAACA-TCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
* *
59131558 CATAACGTCTTTCAGTCATAGTCTTACTCGATAGAATCGTGATGC
1 CATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
* * *
59131603 CA-AACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGATGT
1 CATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
* *
59131647 CATAACGTCTTTCCGTCATGGTCTTA
1 CATAACATCTTTCAGTCATGGTCTTA
59131673 TTCATTTCTG
Statistics
Matches: 141, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
44 42 0.30
45 98 0.70
46 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (45 bp):
CATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
Found at i:59131555 original size:90 final size:89
Alignment explanation
Indices: 59131461--59131672 Score: 248
Period size: 89 Copynumber: 2.4 Consensus size: 89
59131451 TGTTTGATTT
* * * *
59131461 GTGATCTCATAGCATCTTTTAG-CTATGGTCTTACTTGATAGAATCGTGATGCCATAAAGTCTCT
1 GTGATCTCATAACATCTTTCAGTC-ATAGTCTTACTCGATAGAATCGTGATGCCA-AAAGTCTCT
*
59131525 CAATCATGGTCTTACTTAATAGAATC
64 CAATCATGGTCTTACTCAATAGAATC
* * *
59131551 GTGATGC-CATAACGTCTTTCAGTCATAGTCTTACTCGATAGAATCGTGATGCCAAACGTCTTTC
1 GTGAT-CTCATAACATCTTTCAGTCATAGTCTTACTCGATAGAATCGTGATGCCAAAAGTCTCTC
* *
59131615 AGTCATGGTCTTACTCGATAGAATC
65 AATCATGGTCTTACTCAATAGAATC
* * * * *
59131640 ATGATGTCATAACGTCTTTCCGTCATGGTCTTA
1 GTGATCTCATAACATCTTTCAGTCATAGTCTTA
59131673 TTCATTTCTG
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
89 58 0.55
90 45 0.43
91 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (89 bp):
GTGATCTCATAACATCTTTCAGTCATAGTCTTACTCGATAGAATCGTGATGCCAAAAGTCTCTCA
ATCATGGTCTTACTCAATAGAATC
Found at i:59131693 original size:89 final size:90
Alignment explanation
Indices: 59131488--59131672 Score: 273
Period size: 89 Copynumber: 2.1 Consensus size: 90
59131478 TTTAGCTATG
* * *
59131488 GTCTTACTTGATAGAATCGTGATGCCATAAAGTCTCTCAATCATGGTCTTACTTAATAGAATCGT
1 GTCTTACTCGATAGAATCGTGATGCCATAAAGTCTCTCAATCATGGTCTTACTCAATAGAATCAT
59131553 GATGCCATAACGTCTTTCAGTCATA
66 GATGCCATAACGTCTTTCAGTCATA
* * * *
59131578 GTCTTACTCGATAGAATCGTGATGCCA-AACGTCTTTCAGTCATGGTCTTACTCGATAGAATCAT
1 GTCTTACTCGATAGAATCGTGATGCCATAAAGTCTCTCAATCATGGTCTTACTCAATAGAATCAT
* * *
59131642 GATGTCATAACGTCTTTCCGTCATG
66 GATGCCATAACGTCTTTCAGTCATA
59131667 GTCTTA
1 GTCTTA
59131673 TTCATTTCTG
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 59 0.69
90 26 0.31
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (90 bp):
GTCTTACTCGATAGAATCGTGATGCCATAAAGTCTCTCAATCATGGTCTTACTCAATAGAATCAT
GATGCCATAACGTCTTTCAGTCATA
Found at i:59131749 original size:46 final size:46
Alignment explanation
Indices: 59131688--59131809 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
59131678 TTCTGGTATG
*
59131688 GTGCCATAGTATCTTTCAACTATGGTCTTATTTATCCTCCGGGATA
1 GTGCCATAGTGTCTTTCAACTATGGTCTTATTTATCCTCCGGGATA
* * * * *
59131734 GTGTCATAGTGTCTTTCAATTATGGTCTTATTTATTCTCTGGTATA
1 GTGCCATAGTGTCTTTCAACTATGGTCTTATTTATCCTCCGGGATA
59131780 GTGCCATAGTGTCTTTCAACTATGGTCTTA
1 GTGCCATAGTGTCTTTCAACTATGGTCTTA
59131810 ATCATTTTCC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (46 bp):
GTGCCATAGTGTCTTTCAACTATGGTCTTATTTATCCTCCGGGATA
Found at i:59133559 original size:17 final size:18
Alignment explanation
Indices: 59133525--59133562 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
59133515 AATAAAAAAT
*
59133525 TATTTTATAATAAATTAA
1 TATTTGATAATAAATTAA
59133543 TATTTGATAAT-AATTAA
1 TATTTGATAATAAATTAA
59133560 TAT
1 TAT
59133563 GATATACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TATTTGATAATAAATTAA
Found at i:59133707 original size:24 final size:25
Alignment explanation
Indices: 59133657--59133707 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
59133647 ATTGGAATGG
**
59133657 ATAAAAAATAATATTTGACATTGTTT
1 ATAAAAAATAATATTTGA-ATAATTT
*
59133683 ATAAAAAGTAATATTTG-ATAATTT
1 ATAAAAAATAATATTTGAATAATTT
59133707 A
1 A
59133708 AAATATAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 6 0.27
26 16 0.73
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (25 bp):
ATAAAAAATAATATTTGAATAATTT
Found at i:59139543 original size:3 final size:3
Alignment explanation
Indices: 59139535--59139568 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
59139525 GGTGACGTAA
59139535 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
59139569 TTATTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59139573 original size:3 final size:3
Alignment explanation
Indices: 59139567--59139609 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
59139557 ATAATAATAA
59139567 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
59139610 TTTTGGGGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:59140394 original size:18 final size:17
Alignment explanation
Indices: 59140363--59140396 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59140353 TTGAGCTTTG
*
59140363 TTCTTTTTTTCAAATTA
1 TTCTTTTTTACAAATTA
59140380 TTCTTTTTTAACAAATT
1 TTCTTTTTT-ACAAATT
59140397 TGACGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (17 bp):
TTCTTTTTTACAAATTA
Found at i:59143099 original size:8 final size:8
Alignment explanation
Indices: 59143086--59143110 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
59143076 GTGCTCAATA
59143086 TTTTTTTC
1 TTTTTTTC
59143094 TTTTTTTC
1 TTTTTTTC
59143102 TTTTTTTC
1 TTTTTTTC
59143110 T
1 T
59143111 CTATTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:59148070 original size:8 final size:8
Alignment explanation
Indices: 59148059--59148086 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
59148049 GTCAACCAAT
59148059 AATTCTTC
1 AATTCTTC
59148067 AATTCTTC
1 AATTCTTC
59148075 AATTCTTC
1 AATTCTTC
59148083 AATT
1 AATT
59148087 TGGCCCTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTCTTC
Found at i:59154078 original size:18 final size:18
Alignment explanation
Indices: 59154038--59154080 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
59154028 TTTCTCCTAA
*
59154038 AAAATATAAACTAAAAAT
1 AAAATTTAAACTAAAAAT
* * *
59154056 CAAATTTAAACTATATAT
1 AAAATTTAAACTAAAAAT
59154074 AAAATTT
1 AAAATTT
59154081 TGACAATTTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTTAAACTAAAAAT
Found at i:59154131 original size:8 final size:8
Alignment explanation
Indices: 59154120--59154155 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
59154110 GTCAACCAAT
59154120 AATTCTTC
1 AATTCTTC
59154128 AATTCTTC
1 AATTCTTC
59154136 AATTCTTC
1 AATTCTTC
59154144 AATTCTTC
1 AATTCTTC
59154152 AATT
1 AATT
59154156 TGGCCCTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTCTTC
Found at i:59154560 original size:59 final size:59
Alignment explanation
Indices: 59154468--59154588 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
59154458 TGGTGATAAG
59154468 AAGGTTGTGATCTCTGCTCCAAGCAAATGTTTGTAGTGGGTGTAAACGAGAAGGATTAC
1 AAGGTTGTGATCTCTGCTCCAAGCAAATGTTTGTAGTGGGTGTAAACGAGAAGGATTAC
*
59154527 AAGGTTGTGATCTCTGCTCCAAGCAAATGTTTGTAGTGGGTGTGAACGAGAAGGATTAC
1 AAGGTTGTGATCTCTGCTCCAAGCAAATGTTTGTAGTGGGTGTAAACGAGAAGGATTAC
59154586 AAG
1 AAG
59154589 CCAGAGCTCG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (59 bp):
AAGGTTGTGATCTCTGCTCCAAGCAAATGTTTGTAGTGGGTGTAAACGAGAAGGATTAC
Found at i:59159603 original size:13 final size:13
Alignment explanation
Indices: 59159585--59159609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59159575 AAATATATTT
59159585 ATTAATTAAAAAC
1 ATTAATTAAAAAC
59159598 ATTAATTAAAAA
1 ATTAATTAAAAA
59159610 TAAAAATAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:59159752 original size:14 final size:14
Alignment explanation
Indices: 59159726--59159755 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
59159716 TCAAAGAAGC
59159726 TAATATATTAAAAA
1 TAATATATTAAAAA
59159740 TAATA-ATTAAAAA
1 TAATATATTAAAAA
59159753 TAA
1 TAA
59159756 AAGTAAAACT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATATATTAAAAA
Found at i:59162532 original size:23 final size:25
Alignment explanation
Indices: 59162489--59162539 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
59162479 TTTTTATAAG
59162489 AAAAAAATTGATATAATATATATTA
1 AAAAAAATTGATATAATATATATTA
59162514 AAAAAAATTGATATAATATATATTA
1 AAAAAAATTGATATAATATATATTA
59162539 A
1 A
59162540 TCATTAGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAAAATTGATATAATATATATTA
Found at i:59164829 original size:14 final size:14
Alignment explanation
Indices: 59164810--59164838 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59164800 GGACTTGAGT
59164810 CATAAATGTTCAAG
1 CATAAATGTTCAAG
59164824 CATAAATGTTCAAG
1 CATAAATGTTCAAG
59164838 C
1 C
59164839 CTAAGCCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (14 bp):
CATAAATGTTCAAG
Found at i:59166641 original size:12 final size:12
Alignment explanation
Indices: 59166626--59166650 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59166616 GTCAATATTT
59166626 TCTACTCCTAAC
1 TCTACTCCTAAC
59166638 TCTACTCCTAAC
1 TCTACTCCTAAC
59166650 T
1 T
59166651 TTGTATCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (12 bp):
TCTACTCCTAAC
Found at i:59170062 original size:12 final size:12
Alignment explanation
Indices: 59170047--59170081 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
59170037 CTAAATTTTC
*
59170047 AGTAGTTTCAGT
1 AGTAGGTTCAGT
59170059 AGTAGGTTCAGT
1 AGTAGGTTCAGT
59170071 AGTAGGTTCAG
1 AGTAGGTTCAG
59170082 CAATTACCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.31, T:0.34
Consensus pattern (12 bp):
AGTAGGTTCAGT
Found at i:59170253 original size:33 final size:33
Alignment explanation
Indices: 59170216--59170306 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 33
59170206 CTCTGTTTCA
59170216 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
59170249 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
59170282 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
59170307 CAAGAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.18, C:0.10, G:0.43, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:59189845 original size:47 final size:47
Alignment explanation
Indices: 59189794--59190129 Score: 519
Period size: 47 Copynumber: 7.1 Consensus size: 47
59189784 TTAGGATTTT
*
59189794 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
59189841 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
59189888 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
59189935 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
59189986 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
59190033 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
59190080 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
59190127 ATG
1 ATG
59190130 CGAAACGTGT
Statistics
Matches: 269, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 224 0.83
49 2 0.01
51 43 0.16
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:59189981 original size:145 final size:143
Alignment explanation
Indices: 59189816--59190129 Score: 533
Period size: 145 Copynumber: 2.2 Consensus size: 143
59189806 TGAACATGCG
59189816 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
* * * *
59189881 ATGGCCAATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAT
*
59189946 GTGAACCCGTATATA
131 GTGAACACG-A-ATA
59189961 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
59190026 ATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAT
66 ATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAT
*
59190091 GTGAACATGAATA
131 GTGAACACGAATA
*
59190104 TATGTG-G-TAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
59190130 CGAAACGTGT
Statistics
Matches: 162, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
141 18 0.11
142 1 0.01
143 9 0.06
144 1 0.01
145 133 0.82
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (143 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAT
GTGAACACGAATA
Found at i:59189990 original size:24 final size:24
Alignment explanation
Indices: 59189962--59190037 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
59189952 CCGTATATAT
59189962 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
59189986 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
59190009 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
59190033 ATGTG
1 ATGTG
59190038 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:59190169 original size:46 final size:46
Alignment explanation
Indices: 59190103--59190193 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
59190093 GAACATGAAT
* * *
59190103 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
59190149 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
59190194 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:59190481 original size:37 final size:37
Alignment explanation
Indices: 59190336--59190480 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
59190326 GGAAATATAT
59190336 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
59190373 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
59190410 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
59190447 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
59190481 TCGTCTGAGC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:59191770 original size:18 final size:18
Alignment explanation
Indices: 59191729--59191774 Score: 83
Period size: 19 Copynumber: 2.5 Consensus size: 18
59191719 TGTTTGTTTT
59191729 TTTTTTTAATTTCGTTCC
1 TTTTTTTAATTTCGTTCC
59191747 TCTTTTTTAATTTCGTTCC
1 T-TTTTTTAATTTCGTTCC
59191766 TTTTTTTAA
1 TTTTTTTAA
59191775 AAATAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.13, C:0.15, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTTTTTAATTTCGTTCC
Found at i:59194408 original size:30 final size:30
Alignment explanation
Indices: 59194374--59194436 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
59194364 ACTTAAGAAG
59194374 CAAAT-ACTTATAAAATAATAACAAAATTAA
1 CAAATGACTT-TAAAATAATAACAAAATTAA
* *
59194404 CAAATGTCTTTAAAATAATGACAAAATTAA
1 CAAATGACTTTAAAATAATAACAAAATTAA
59194434 CAA
1 CAA
59194437 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGACTTTAAAATAATAACAAAATTAA
Found at i:59194489 original size:19 final size:18
Alignment explanation
Indices: 59194465--59194520 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
59194455 ATATCCAAAC
59194465 AATAATAACAAAATAATAA
1 AATAATAA-AAAATAATAA
*
59194484 AATAATAAAAAAATACAGAAA
1 AATAAT-AAAAAATA-A-TAA
59194505 AATAAT-AAAAATAATA
1 AATAATAAAAAATAATA
59194521 TTAAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 19 0.59
20 3 0.09
21 8 0.25
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (18 bp):
AATAATAAAAAATAATAA
Found at i:59197277 original size:2 final size:2
Alignment explanation
Indices: 59197270--59197300 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59197260 AAATGGATTG
59197270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59197301 AACATATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59199809 original size:21 final size:22
Alignment explanation
Indices: 59199785--59199825 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
59199775 TTATGCATAC
*
59199785 AGTCC-TAAATATGAGTTTACA
1 AGTCCTTAAAAATGAGTTTACA
*
59199806 AGTCCTTAAAAATGATTTTA
1 AGTCCTTAAAAATGAGTTTA
59199826 GAACTAAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (22 bp):
AGTCCTTAAAAATGAGTTTACA
Found at i:59200041 original size:54 final size:53
Alignment explanation
Indices: 59199980--59200086 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 53
59199970 TCAAAATGGG
* * *
59199980 GACACATGGCTGTGTCCCAGCCC-GTCTCCTTGCCCGTGTAACTCACTGACTTGA
1 GACACATGACTGTGTCCCAGCCCAGTCT-C-TACCCGTGTAACTCACTAACTTGA
*
59200034 GACACATGACTGTGTCCCAGCCCATGTCTCTACCCGTGTAACTCTCTAACTTG
1 GACACATGACTGTGTCCCAGCCCA-GTCTCTACCCGTGTAACTCACTAACTTG
59200087 GGCCACACGG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
54 42 0.89
55 1 0.02
56 4 0.09
ACGTcount: A:0.19, C:0.35, G:0.20, T:0.27
Consensus pattern (53 bp):
GACACATGACTGTGTCCCAGCCCAGTCTCTACCCGTGTAACTCACTAACTTGA
Found at i:59200814 original size:12 final size:12
Alignment explanation
Indices: 59200797--59200821 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59200787 CCATACATGC
59200797 CCGTGTGCTAGG
1 CCGTGTGCTAGG
59200809 CCGTGTGCTAGG
1 CCGTGTGCTAGG
59200821 C
1 C
59200822 TGTGCCAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.28, G:0.40, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:59231757 original size:18 final size:18
Alignment explanation
Indices: 59231734--59231769 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59231724 CGTGATATCC
59231734 AGATTTATTTCCAATTCT
1 AGATTTATTTCCAATTCT
59231752 AGATTTATTTCCAATTCT
1 AGATTTATTTCCAATTCT
59231770 CGATCTCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (18 bp):
AGATTTATTTCCAATTCT
Found at i:59243946 original size:48 final size:48
Alignment explanation
Indices: 59243888--59244069 Score: 155
Period size: 48 Copynumber: 3.9 Consensus size: 48
59243878 CCATGTAAGA
59243888 ACATGGCATTGGCATCGTTATGTGATCCCATGTAAGACCATGTCTGGG
1 ACATGGCATTGGCATCGTTATGTGATCCCATGTAAGACCATGTCTGGG
** * * * * *
59243936 ACATGGCATTGGCATTATAATGAGA-CATCGTGTAAGACTATAG-CTGGG
1 ACATGGCATTGGCATCGTTATGTGATC-CCATGTAAGACCAT-GTCTGGG
* * * *
59243984 -CTAT--CA---GCCTTGATATGTGATATCCCATGTAAGACCATGTCTTGG
1 AC-ATGGCATTGGCATCGTTATGTG--ATCCCATGTAAGACCATGTCTGGG
*
59244029 ACATGGCATTGGCATCGTTATGTGGTCCCATGTAAGACCAT
1 ACATGGCATTGGCATCGTTATGTGATCCCATGTAAGACCAT
59244070 ATCTAGGATA
Statistics
Matches: 101, Mismatches: 20, Indels: 26
0.69 0.14 0.18
Matches are distributed among these distances:
43 8 0.08
44 1 0.01
45 18 0.18
46 4 0.04
47 4 0.04
48 55 0.54
49 1 0.01
50 10 0.10
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (48 bp):
ACATGGCATTGGCATCGTTATGTGATCCCATGTAAGACCATGTCTGGG
Found at i:59246010 original size:38 final size:40
Alignment explanation
Indices: 59245953--59246244 Score: 182
Period size: 38 Copynumber: 6.9 Consensus size: 40
59245943 TCAAATTAAC
* * *
59245953 ATGTATAACCGCGGCATATCCACTTAGCACCACGTTG-C-
1 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTGTCA
* *
59245991 ATGTTTAATCGTGGTATATCCACTTAGCACTACGTTAATGAATCA
1 ATGTTTAACCGTGGTATATCCACTTAGCACCACG-T--TG--TCA
* * * *
59246036 ATATATGTAACCGTGGCATATCCACTTAGCACCATGTT-AC-
1 ATGT-T-TAACCGTGGTATATCCACTTAGCACCACGTTGTCA
*
59246076 ATGTTTAACCGTGGTATATCTACTTAGCACCACGTTAATGATTCA
1 ATGTTTAACCGTGGTATATCCACTTAGCACCACG-T--TG--TCA
* * *
59246121 ATATATGTAACCATGGAATATCCACTTAGCACCACGTTACATGTATCAA
1 ATGT-T-TAACCGTGGTATATCCACTTAGCACCACG-T---TG--TC-A
* * *
59246170 TATGTGTAATCGTGGTATATCCACTTAGCACCACGTT-AC-
1 -ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTGTCA
* *
59246209 ACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
59246245 TTTTCATTCC
Statistics
Matches: 201, Mismatches: 32, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
38 88 0.44
39 3 0.01
40 3 0.01
41 5 0.02
44 4 0.02
45 6 0.03
46 3 0.01
47 54 0.27
48 31 0.15
49 1 0.00
50 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (40 bp):
ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTGTCA
Found at i:59246054 original size:85 final size:85
Alignment explanation
Indices: 59245958--59246164 Score: 333
Period size: 85 Copynumber: 2.4 Consensus size: 85
59245948 TTAACATGTA
* * * *
59245958 TAACCGCGGCATATCCACTTAGCACCACGTTGCATGTTTAATCGTGGTATATCCACTTAGCACTA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
59246023 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* *
59246043 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTTTAACCGTGGTATATCTACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
59246108 CGTTAATGATTCAATATATG
66 CGTTAATGAATCAATATATG
* *
59246128 TAACCATGGAATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
59246165 ATCAATATGT
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 112 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:59246190 original size:48 final size:48
Alignment explanation
Indices: 59246076--59246214 Score: 192
Period size: 48 Copynumber: 2.9 Consensus size: 48
59246066 ACCATGTTAC
* *
59246076 ATGTTTAACCGTGGTATATCTACTTAGCACCACGTTA-ATG-ATTCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTA-TCAAT
* * *
59246123 ATATGTAACCATGGAATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
59246171 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
59246215 AACCGTGGTA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
47 32 0.40
48 47 0.59
49 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:59246193 original size:133 final size:132
Alignment explanation
Indices: 59246006--59246244 Score: 388
Period size: 133 Copynumber: 1.8 Consensus size: 132
59245996 TAATCGTGGT
* *
59246006 ATATCCACTTAGCACTACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCAT
1 ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCAC
* * *
59246071 GTTACATGTTTAACCGTGGTATATCTACTTAGCACCACGTTAATGATTCAATATATGTAACCATG
66 GTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGATTCAATATATGTAACCATG
59246136 GA
131 GA
* * * *
59246138 ATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCA
1 ATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCA
59246203 CGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
65 CGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
59246245 TTTTCATTCC
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
132 21 0.22
133 76 0.78
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (132 bp):
ATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCAC
GTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTTAATGATTCAATATATGTAACCATG
GA
Found at i:59248976 original size:15 final size:15
Alignment explanation
Indices: 59248958--59248999 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
59248948 GAAACCCAGA
*
59248958 ATAAGGAAATCTAAG
1 ATAAGGAAATCCAAG
* *
59248973 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
59248988 ATAAGGAAATCC
1 ATAAGGAAATCC
59249000 CATTTACAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:59251476 original size:41 final size:40
Alignment explanation
Indices: 59251399--59251485 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 40
59251389 TCAAATACAT
*
59251399 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATTATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATA
* * * * **
59251440 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
59251480 ATAAAA
1 TTAAAA
59251486 AGTGATTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 9 0.24
41 29 0.76
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:59252925 original size:85 final size:85
Alignment explanation
Indices: 59252812--59253009 Score: 333
Period size: 85 Copynumber: 2.3 Consensus size: 85
59252802 ATAACAATGG
* *
59252812 CATATCCACTTAGCACCACGTTAGATGTTTAATCGTGGTAGATCCACTTAGCACCACGTTAATGA
1 CATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTAGATCCACTTAGCACCACGTTAATGA
59252877 ATCAATATATGTAACCGTGA
66 ATCAATATATGTAACCGTGA
* * * *
59252897 CATATCCATTTAGCACCATGTTACATGTTTAACCGTGGTATATCCACTTAGCACCATGTTAATGA
1 CATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTAGATCCACTTAGCACCACGTTAATGA
*
59252962 ATCAATATATGTAACCGTGG
66 ATCAATATATGTAACCGTGA
59252982 CATATCCACTTAGCACCACGTTACATGT
1 CATATCCACTTAGCACCACGTTACATGT
59253010 ATCAATATGT
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 104 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (85 bp):
CATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTAGATCCACTTAGCACCACGTTAATGA
ATCAATATATGTAACCGTGA
Found at i:59253029 original size:48 final size:48
Alignment explanation
Indices: 59252921--59253059 Score: 208
Period size: 48 Copynumber: 2.9 Consensus size: 48
59252911 ACCATGTTAC
* * *
59252921 ATGTTTAACCGTGGTATATCCACTTAGCACCATGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
59252968 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
59253016 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
59253060 AACCGTGGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 33 0.40
48 49 0.60
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:59254267 original size:26 final size:26
Alignment explanation
Indices: 59254183--59254318 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
59254173 CTAGAGGCCT
59254183 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
59254207 AGCCCTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
59254232 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
59254258 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
59254284 AGCCCTTTTCAATAATCTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
59254310 AGCCCTTTT
1 AGCCCTTTT
59254319 GCACTTCCTC
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 34 0.33
26 57 0.56
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:59255210 original size:26 final size:27
Alignment explanation
Indices: 59255122--59255208 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
59255112 CATTCGTCAT
* *
59255122 TTTACCATACAAGGG-TATTACGGTCAC
1 TTTACCCTACAAGGGCT-TTACGGTCTC
59255149 TTTACCCTACAAGGGCTTTACGGTCTC
1 TTTACCCTACAAGGGCTTTACGGTCTC
* * *
59255176 TTTACCCTACAGGGGCTTTATGGTCTT
1 TTTACCCTACAAGGGCTTTACGGTCTC
59255203 TTTACC
1 TTTACC
59255209 TAATAGGGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAAGGGCTTTACGGTCTC
Found at i:59255376 original size:27 final size:27
Alignment explanation
Indices: 59255346--59255533 Score: 170
Period size: 27 Copynumber: 7.0 Consensus size: 27
59255336 ATAACTTTGT
59255346 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * * *
59255373 AAAT-TGAGGGCATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
59255400 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
59255427 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
* *
59255454 AAAT-TGAGGGTATTTCGGTAATTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * ***
59255481 AAACCAAGGGTATTTTAACAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* *
59255508 AGA-CTA-GGGTATTTTCGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
59255534 TGATTGAGGG
Statistics
Matches: 130, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
26 21 0.16
27 108 0.83
28 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:59255436 original size:81 final size:81
Alignment explanation
Indices: 59255351--59255557 Score: 301
Period size: 81 Copynumber: 2.6 Consensus size: 81
59255341 TTTGTAAATC
*
59255351 AGGGGTATTTTGGTAATTTTACAAATTGAGGGCATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
***
59255415 TGGTAATTTTACAAACT
65 TAACAATTTTACAAACT
*
59255432 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
59255497 AACAATTTTACAGACT
66 AACAATTTTACAAACT
* ** *
59255513 A-GGGTATTTTCGTAATTTTACTGATTGAGGGTATTTCAGTAATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTT
59255558 GGTAAACTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 40 0.35
81 73 0.63
82 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AACAATTTTACAAACT
Found at i:59255554 original size:27 final size:27
Alignment explanation
Indices: 59255353--59255557 Score: 157
Period size: 27 Copynumber: 7.6 Consensus size: 27
59255343 TGTAAATCAG
** *
59255353 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAACTGA
* * * *
59255380 GGGCATTTCGGTAATTTCACAAAC-CA
1 GGGTATTTCAGTAATTTTACAAACTGA
**
59255406 GTGGTATTTTGGTAATTTTACAAACT-A
1 G-GGTATTTCAGTAATTTTACAAACTGA
** *
59255433 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTCAGTAATTTTACAAACTGA
* **
59255461 GGGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTCAGTAATTTTACAAACTGA
* ** *
59255488 GGGTATTTTAACAATTTTACAGACT-A
1 GGGTATTTCAGTAATTTTACAAACTGA
** *
59255514 GGGTATTTTC-GTAATTTTACTGATTGA
1 GGGTA-TTTCAGTAATTTTACAAACTGA
59255541 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
59255558 GGTAAACTAA
Statistics
Matches: 147, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
26 23 0.16
27 122 0.83
28 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAACTGA
Found at i:59255581 original size:80 final size:81
Alignment explanation
Indices: 59255351--59255581 Score: 243
Period size: 81 Copynumber: 2.9 Consensus size: 81
59255341 TTTGTAAATC
* * * * *
59255351 AGGGGTATTTTGGTAATTTTACAAATTGAGGGCATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTCGTAATTTTACAAATTGAGGGTATTTCAGTAATTTGACAAACCAAG-AGTATTT
****
59255415 TGGTAATTTTACAAACT
65 AAACAATTTTACAAACT
* * * * *
59255432 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTCGTAATTTTACAAATTGAGGGTATTTCAGTAATTTGACAAACCAAGAGTATTTA
*
59255497 AACAATTTTACAGACT
66 AACAATTTTACAAACT
** ** *
59255513 A-GGGTATTTTCGTAATTTTACTGATTGAGGGTATTTCAGTAATTTGGTAAACTAA-AGTATTCT
1 AGGGGTATTTTCGTAATTTTACAAATTGAGGGTATTTCAGTAATTTGACAAACCAAGAGTATT-T
59255576 AAACAA
65 AAACAA
59255582 GGATAACAAT
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
79 5 0.04
80 52 0.39
81 73 0.55
82 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTCGTAATTTTACAAATTGAGGGTATTTCAGTAATTTGACAAACCAAGAGTATTTA
AACAATTTTACAAACT
Found at i:59259181 original size:33 final size:33
Alignment explanation
Indices: 59259144--59259215 Score: 137
Period size: 32 Copynumber: 2.2 Consensus size: 33
59259134 TGTCGGTTAC
59259144 AGGTAAGGGGTGTTACATAAAAAGGGAACGAAA
1 AGGTAAGGGGTGTTACATAAAAAGGGAACGAAA
59259177 AGGTAA-GGGTGTTACATAAAAAGGGAACGAAA
1 AGGTAAGGGGTGTTACATAAAAAGGGAACGAAA
59259209 AGGTAAG
1 AGGTAAG
59259216 TATGCAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 32 0.84
33 6 0.16
ACGTcount: A:0.46, C:0.06, G:0.33, T:0.15
Consensus pattern (33 bp):
AGGTAAGGGGTGTTACATAAAAAGGGAACGAAA
Found at i:59262001 original size:30 final size:29
Alignment explanation
Indices: 59261959--59262021 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 29
59261949 AAGTAGCCGG
59261959 AGCTAGTTAAATCGCACACTTAGTGCCAA
1 AGCTAGTTAAATCGCACACTTAGTGCCAA
59261988 AGCTAGTTTAAATCGCACACTTAGTGCCAA
1 AGCTAG-TTAAATCGCACACTTAGTGCCAA
59262018 AGCT
1 AGCT
59262022 TCCAATTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.18
30 27 0.82
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (29 bp):
AGCTAGTTAAATCGCACACTTAGTGCCAA
Found at i:59266049 original size:13 final size:13
Alignment explanation
Indices: 59266028--59266057 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59266018 GCTAGTTTGG
*
59266028 ATTCGAGTAGTTA
1 ATTCAAGTAGTTA
59266041 ATTCAAGTAGTTA
1 ATTCAAGTAGTTA
59266054 ATTC
1 ATTC
59266058 CTGTTAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (13 bp):
ATTCAAGTAGTTA
Found at i:59290330 original size:45 final size:45
Alignment explanation
Indices: 59290264--59290489 Score: 192
Period size: 45 Copynumber: 5.1 Consensus size: 45
59290254 GTAGGATTCT
** **
59290264 GATATATGTGTTTTCTTGTAAGACCATTTCTGGGACATTGGCATC
1 GATATATGTGTTTTCGAGTAAGACCACGTCTGGGACATTGGCATC
* ** * * *
59290309 GATATATTTGTTTTTAAGTAAGACCACGTCTAGGACGTTGGCATT
1 GATATATGTGTTTTCGAGTAAGACCACGTCTGGGACATTGGCATC
* * * *
59290354 GATATATGCGTTTTCGAGTAAGACCACATCTGGGACGTTGGCTTC
1 GATATATGTGTTTTCGAGTAAGACCACGTCTGGGACATTGGCATC
* * * * * *
59290399 TATATATGTGGTTACGTGTAAGACCATGTCTGGGACATCGGCATC
1 GATATATGTGTTTTCGAGTAAGACCACGTCTGGGACATTGGCATC
* * * *
59290444 G-TAT-T-TG-ATTCGTGTAAGACC-CTGTCTGGGACAGTGGCATT
1 GATATATGTGTTTTCGAGTAAGACCAC-GTCTGGGACATTGGCATC
59290485 GATAT
1 GATAT
59290490 GAGATAGCAT
Statistics
Matches: 145, Mismatches: 34, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
41 28 0.19
42 5 0.03
43 1 0.01
44 3 0.02
45 108 0.74
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.35
Consensus pattern (45 bp):
GATATATGTGTTTTCGAGTAAGACCACGTCTGGGACATTGGCATC
Found at i:59290545 original size:13 final size:13
Alignment explanation
Indices: 59290527--59290551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59290517 ACGTTGGCAT
59290527 TATTCTGTTTGAG
1 TATTCTGTTTGAG
59290540 TATTCTGTTTGA
1 TATTCTGTTTGA
59290552 TTCTGAATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (13 bp):
TATTCTGTTTGAG
Found at i:59291752 original size:12 final size:12
Alignment explanation
Indices: 59291735--59291762 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
59291725 TGTGGTTTAT
59291735 TTTGACATAAAA
1 TTTGACATAAAA
59291747 TTTGACATAAAA
1 TTTGACATAAAA
59291759 TTTG
1 TTTG
59291763 TCTTATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (12 bp):
TTTGACATAAAA
Found at i:59294455 original size:40 final size:40
Alignment explanation
Indices: 59294384--59294591 Score: 235
Period size: 40 Copynumber: 5.2 Consensus size: 40
59294374 TCTTCGGAAT
* * *
59294384 TTAG-CCGGATATAACCAC-AAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCA-CACAAATGCCTTCGGGTC
* * *
59294423 TTAACCCGGGTATAGCAACTCACACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
* *
59294463 TTAGCCCGGATATAACAACACGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
* * *
59294503 TAAACCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
* * *
59294543 TTAGCCCAGATATAATC-ACT-AGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCA-CACAAATGCCTTCGGGTC
59294583 TTAGCCCGG
1 TTAGCCCGG
59294592 GTATCATTCA
Statistics
Matches: 144, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.02
40 139 0.97
41 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
Found at i:59294489 original size:80 final size:78
Alignment explanation
Indices: 59294384--59294595 Score: 282
Period size: 80 Copynumber: 2.7 Consensus size: 78
59294374 TCTTCGGAAT
* *
59294384 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACAC
1 TTAGCCCGGATATAA-CAC-AGCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTCACAC
59294448 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
* * *
59294463 TTAGCCCGGATATAACAACACGCACAAATGCCTTCGGGTCTAAACCCGGATATAACAACTCGCAC
1 TTAGCCCGGATATAAC-ACA-GCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTCACAC
59294528 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
* * * *
59294543 TTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CAC-AGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
59294596 CATTCAAATG
Statistics
Matches: 117, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
79 6 0.05
80 109 0.93
81 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (78 bp):
TTAGCCCGGATATAACACAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAACAACTCACACAA
ATGCCTTCGGGTC
Found at i:59300674 original size:40 final size:40
Alignment explanation
Indices: 59300619--59300866 Score: 356
Period size: 40 Copynumber: 6.2 Consensus size: 40
59300609 TGAATGATAC
*
59300619 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
59300659 CCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
59300699 CCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
59300739 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * *
59300779 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAC
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * * * *
59300819 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
59300859 CC-GGCTAA
1 CCGGGCTAA
59300867 ATTCCGAAGA
Statistics
Matches: 191, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 7 0.04
40 182 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:59304373 original size:27 final size:27
Alignment explanation
Indices: 59304335--59304388 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
59304325 GCTATCGCTC
59304335 GGTTGGGATCGGGATCCATTACTATAA
1 GGTTGGGATCGGGATCCATTACTATAA
59304362 GGTTGGGATCGGGATCCATTACTATAA
1 GGTTGGGATCGGGATCCATTACTATAA
59304389 ATAAACACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (27 bp):
GGTTGGGATCGGGATCCATTACTATAA
Found at i:59305995 original size:40 final size:40
Alignment explanation
Indices: 59305898--59306103 Score: 276
Period size: 40 Copynumber: 5.2 Consensus size: 40
59305888 TCTTTGGAAT
* ** *
59305898 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGT-
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
59305936 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
59305976 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
59306016 TTAACCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
59306056 TTAGCCC-GATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
59306095 TTAGCCCGG
1 TTAGCCCGG
59306104 GTATCATTCA
Statistics
Matches: 149, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
38 3 0.02
39 62 0.42
40 84 0.56
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:59306002 original size:79 final size:78
Alignment explanation
Indices: 59305898--59306107 Score: 289
Period size: 79 Copynumber: 2.7 Consensus size: 78
59305888 TCTTTGGAAT
* * *
59305898 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTTTAACCCGGGTATAGCAACTCGCACA
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTTTAACCCGGGTATAACAACTCGCACA
59305962 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* *
59305976 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAACAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGT-TTAACCCGGGTATAACAACTCGCAC
59306041 AAATGCCTTCGGGTC
64 AAATGCCTTCGGGTC
* * *
59306056 TTAGCCC-GATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTC-GGGTTTAACCCGGGTAT
59306108 CATTCAAATG
Statistics
Matches: 117, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
78 5 0.04
79 63 0.54
80 49 0.42
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTTTAACCCGGGTATAACAACTCGCACAA
ATGCCTTCGGGTC
Found at i:59308605 original size:44 final size:44
Alignment explanation
Indices: 59308555--59308665 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
59308545 ATGCCTAAAC
* * * * * *
59308555 TGAGTAAGACCATGTTGAAAGTTGTTATGGCATAAGGGCAACAA
1 TGAGTAAGACCATGCTAAAAGATGTTATGACATAAGGACAAAAA
* *
59308599 TGAGTAAGA-CATAGCTAAAAGATGTTATGACATCATGACAAAAA
1 TGAGTAAGACCAT-GCTAAAAGATGTTATGACATAAGGACAAAAA
*
59308643 TGAGTAAGACCATGGCTGAAAGA
1 TGAGTAAGACCAT-GCTAAAAGA
59308666 CATTGTGGCA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 3 0.05
44 41 0.75
45 11 0.20
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (44 bp):
TGAGTAAGACCATGCTAAAAGATGTTATGACATAAGGACAAAAA
Found at i:59308937 original size:56 final size:57
Alignment explanation
Indices: 59308863--59308974 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 57
59308853 ATGCTGTGAC
*
59308863 AACAAGATATGATTTGACAGTAAAACGAGTAAGACCATAGCTAAAAGATG-TATGGA
1 AACAAGAGATGATTTGACAGTAAAACGAGTAAGACCATAGCTAAAAGATGTTATGGA
*
59308919 AACAAGAGATGATTTGACAGTAAAACGAGTAAGACCATAGCTGAAAGATGTTATGG
1 AACAAGAGATGATTTGACAGTAAAACGAGTAAGACCATAGCTAAAAGATGTTATGG
59308975 TAGTGTAGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
56 48 0.91
57 5 0.09
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (57 bp):
AACAAGAGATGATTTGACAGTAAAACGAGTAAGACCATAGCTAAAAGATGTTATGGA
Found at i:59316241 original size:23 final size:23
Alignment explanation
Indices: 59316207--59316250 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
59316197 TAACTAAAAA
59316207 GAAAACCTAAATCTAAAAAGAACT
1 GAAAACCTAAAT-TAAAAAGAACT
*
59316231 GAAAA-CTAAATTACAAAGAA
1 GAAAACCTAAATTAAAAAGAA
59316251 AATTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 6 0.32
24 5 0.26
ACGTcount: A:0.61, C:0.14, G:0.09, T:0.16
Consensus pattern (23 bp):
GAAAACCTAAATTAAAAAGAACT
Found at i:59319697 original size:34 final size:34
Alignment explanation
Indices: 59319659--59319724 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
59319649 CCAATGTCAT
*
59319659 GACATCCTTACCTCGTGTCGTGATACTAATGTGA
1 GACATCCTTACCTCATGTCGTGATACTAATGTGA
59319693 GACATCCTTACCTCATGTCGTGATACTAATGT
1 GACATCCTTACCTCATGTCGTGATACTAATGT
59319725 AAGGCCTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (34 bp):
GACATCCTTACCTCATGTCGTGATACTAATGTGA
Found at i:59321479 original size:20 final size:20
Alignment explanation
Indices: 59321454--59321497 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
59321444 TATTTTTATT
59321454 TTTGGACTG-TATAATTTTAG
1 TTTGGA-TGATATAATTTTAG
* *
59321474 TTTGGATGATATATTTTTAT
1 TTTGGATGATATAATTTTAG
59321494 TTTG
1 TTTG
59321498 TCTTATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.57
Consensus pattern (20 bp):
TTTGGATGATATAATTTTAG
Found at i:59322027 original size:16 final size:17
Alignment explanation
Indices: 59321996--59322032 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
59321986 TAAAAATCAT
*
59321996 ATAAGTTTGTTTGAATG
1 ATAAGTTTGTTGGAATG
59322013 ATAAG-TTGTTGGAATG
1 ATAAGTTTGTTGGAATG
59322029 ATAA
1 ATAA
59322033 AATTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
ATAAGTTTGTTGGAATG
Found at i:59323547 original size:46 final size:46
Alignment explanation
Indices: 59323466--59323655 Score: 200
Period size: 46 Copynumber: 4.0 Consensus size: 46
59323456 GATATTAGGG
* *
59323466 TTATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCAT
1 TTATATGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAT
* * * *
59323512 TTATATGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCT
1 TTATATGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAT
* *
59323558 TTATATGTAGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACCGAT
1 TTATATG-A-GCTAGTGTAAGACCATGTCTGGAACATGGCAT---CAGC-AT
* * * * * *
59323610 ATATAAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TTATATGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAT
59323656 CTTACCCTTT
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
46 49 0.42
47 3 0.03
48 29 0.25
50 28 0.24
51 3 0.03
52 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (46 bp):
TTATATGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAT
Found at i:59323633 original size:50 final size:49
Alignment explanation
Indices: 59323472--59323654 Score: 196
Period size: 50 Copynumber: 3.8 Consensus size: 49
59323462 AGGGTTATGT
* * * *
59323472 GAGCTAGTGTAAGACCATGTTTGGAACATGGCAT---CAGCATTTATAT
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCATATATAA
* * ** *
59323518 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGC-CTTTATATGTA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCATATAT-AA
*
59323567 G-GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACCGATATATAA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCACC-ATATATAA
* * *
59323616 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCA
59323655 TCTTACCCTT
Statistics
Matches: 111, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
46 31 0.28
48 37 0.33
49 5 0.05
50 38 0.34
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCATATATAA
Found at i:59328914 original size:2 final size:2
Alignment explanation
Indices: 59328864--59328902 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
59328854 ACATAAGGCC
59328864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
59328903 CACCACATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59340533 original size:40 final size:40
Alignment explanation
Indices: 59340488--59340654 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
59340478 CGGAATATAA
59340488 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59340528 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59340568 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59340608 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59340647 CCGGATAT
1 CCGGATAT
59340655 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59348519 original size:40 final size:40
Alignment explanation
Indices: 59348474--59348640 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
59348464 CGGAATATAA
59348474 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59348514 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59348554 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59348594 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59348633 CCGGATAT
1 CCGGATAT
59348641 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59349900 original size:21 final size:22
Alignment explanation
Indices: 59349874--59349915 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
59349864 ATGAACAAAA
59349874 TTTTTCTT-CCTCTTTCTCAAT
1 TTTTTCTTCCCTCTTTCTCAAT
59349895 TTTTTCTTCCCTCTTTCTCAA
1 TTTTTCTTCCCTCTTTCTCAA
59349916 CTCACGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTCTTCCCTCTTTCTCAAT
Found at i:59351471 original size:40 final size:40
Alignment explanation
Indices: 59351427--59351515 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
59351417 TGCTGGAAAT
* *
59351427 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCA-AGTGGC
1 TATATCCGGGCTAAAACCCGAAGGCAATTGTGCACA-TGGC
* *
59351467 TATATCCGGGCTAAAACCCGAAGGCATTTGTGCACATGGT
1 TATATCCGGGCTAAAACCCGAAGGCAATTGTGCACATGGC
59351507 TATATCCGG
1 TATATCCGG
59351516 TTATATTCCG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAAACCCGAAGGCAATTGTGCACATGGC
Found at i:59354272 original size:20 final size:20
Alignment explanation
Indices: 59354244--59354290 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
59354234 AGTGCCACAT
*
59354244 GCCCATGTGACTTGGGACAC
1 GCCCGTGTGACTTGGGACAC
59354264 GCCCGTGTGACTTGGGACAC
1 GCCCGTGTGACTTGGGACAC
59354284 GCCCGTG
1 GCCCGTG
59354291 CAATCACCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGACTTGGGACAC
Found at i:59356146 original size:13 final size:13
Alignment explanation
Indices: 59356128--59356160 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
59356118 CCATTATTTT
59356128 CACATTTCTACCA
1 CACATTTCTACCA
59356141 CACATTTCTACCA
1 CACATTTCTACCA
59356154 CACATTT
1 CACATTT
59356161 TACAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (13 bp):
CACATTTCTACCA
Found at i:59356471 original size:48 final size:48
Alignment explanation
Indices: 59356400--59356496 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
59356390 GAGCACTTAC
*
59356400 TAATGAGCTTGAAAAGCTTGGAAACCCTACCTATGGTGGCTTAGGAAT
1 TAATGAGCTTGAAAAGCTTGGAAACCCTACCTATAGTGGCTTAGGAAT
59356448 TAATGAGCTTGAAAAGCTTGGAAACCCTACCTATAGTGGCTTAGGAAT
1 TAATGAGCTTGAAAAGCTTGGAAACCCTACCTATAGTGGCTTAGGAAT
59356496 T
1 T
59356497 TCGGCTGGAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (48 bp):
TAATGAGCTTGAAAAGCTTGGAAACCCTACCTATAGTGGCTTAGGAAT
Found at i:59358704 original size:28 final size:28
Alignment explanation
Indices: 59358649--59358764 Score: 146
Period size: 28 Copynumber: 4.2 Consensus size: 28
59358639 AGCATGGCTG
* *
59358649 CCAG-AACAGAT-ATTGTGACAGAGTCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
59358675 CCAGATACAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
59358703 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
59358731 CCAAAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
59358759 CCAGAA
1 CCAGAA
59358765 CGCTTCCTCT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.05
27 6 0.08
28 67 0.87
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:59360042 original size:18 final size:19
Alignment explanation
Indices: 59359996--59360045 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
59359986 GCTACAGGGG
*
59359996 AAAAGAAGTAGA-AGAGAA
1 AAAAGAAGAAGAGAGAGAA
* *
59360014 AATAGATGAAGAGAG-GAA
1 AAAAGAAGAAGAGAGAGAA
59360032 AAAAGAAGAAGAGA
1 AAAAGAAGAAGAGA
59360046 AAAGAATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (19 bp):
AAAAGAAGAAGAGAGAGAA
Found at i:59360047 original size:15 final size:16
Alignment explanation
Indices: 59359995--59360051 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 16
59359985 GGCTACAGGG
*
59359995 GAAAAGAAGTAGAAGA
1 GAAAAGAAGAAGAAGA
*
59360011 GAAAATAGATGAAG-AGA
1 G-AAA-AGAAGAAGAAGA
59360028 GGAAAA-AAGAAGAAGA
1 -GAAAAGAAGAAGAAGA
59360044 GAAAAGAA
1 GAAAAGAA
59360052 TTGTCAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
15 10 0.30
16 7 0.21
17 9 0.27
18 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (16 bp):
GAAAAGAAGAAGAAGA
Found at i:59362532 original size:27 final size:28
Alignment explanation
Indices: 59362476--59362545 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
59362466 AAACTTGTAC
59362476 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
59362504 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
59362531 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59362546 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:59362556 original size:27 final size:27
Alignment explanation
Indices: 59362476--59362557 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
59362466 AAACTTGTAC
* *
59362476 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
59362504 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
59362531 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
59362558 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:59370562 original size:27 final size:28
Alignment explanation
Indices: 59370506--59370575 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
59370496 AAACTTGTAC
59370506 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
59370534 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
59370561 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59370576 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:59370586 original size:27 final size:27
Alignment explanation
Indices: 59370506--59370587 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
59370496 AAACTTGTAC
* *
59370506 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
59370534 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
59370561 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
59370588 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:59372292 original size:12 final size:12
Alignment explanation
Indices: 59372275--59372304 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59372265 TAAACCTACG
59372275 AAATAATAATAA
1 AAATAATAATAA
59372287 AAATAATAATAA
1 AAATAATAATAA
*
59372299 CAATAA
1 AAATAA
59372305 CATCCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:59373450 original size:19 final size:19
Alignment explanation
Indices: 59373426--59373463 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
59373416 GCTATGAATC
59373426 CCTAAT-CTCCTTATTTGAG
1 CCTAATACTCCTT-TTTGAG
59373445 CCTAATAACTCCTTTTTGA
1 CCTAAT-ACTCCTTTTTGA
59373464 TGAACCAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.42
Consensus pattern (19 bp):
CCTAATACTCCTTTTTGAG
Found at i:59374960 original size:22 final size:21
Alignment explanation
Indices: 59374935--59374978 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
59374925 ATGTTTTTTG
*
59374935 ATCGTACGCCTTTTGTTGAAAC
1 ATCGT-CGCCTTATGTTGAAAC
* *
59374957 ATCGTCGGCTTATGTTGCAAC
1 ATCGTCGCCTTATGTTGAAAC
59374978 A
1 A
59374979 CAACTTCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (21 bp):
ATCGTCGCCTTATGTTGAAAC
Found at i:59380518 original size:20 final size:20
Alignment explanation
Indices: 59380493--59380559 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
59380483 CTTGTACGGA
59380493 ATTGCACTTCGATGCCTCTT
1 ATTGCACTTCGATGCCTCTT
*
59380513 ATTGCACATTTG-TGCCTCTT
1 ATTGCAC-TTCGATGCCTCTT
* *
59380533 TTTGCACTTC-AGTGCCTCTA
1 ATTGCACTTCGA-TGCCTCTT
59380553 ATTGCAC
1 ATTGCAC
59380560 ATTTGTGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.05
20 34 0.87
21 3 0.08
ACGTcount: A:0.16, C:0.28, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTGCACTTCGATGCCTCTT
Found at i:59380567 original size:20 final size:19
Alignment explanation
Indices: 59380492--59380567 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
59380482 GCTTGTACGG
*
59380492 AATTGCACTTCGATGCCTCT
1 AATTGCACTTTG-TGCCTCT
*
59380512 TATTGCACATTTGTGCCTCT
1 AATTGCAC-TTTGTGCCTCT
** *
59380532 TTTTGCACTTCAGTGCCTCT
1 AATTGCACTT-TGTGCCTCT
59380552 AATTGCACATTTGTGC
1 AATTGCAC-TTTGTGC
59380568 TTTTTTTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.04
20 39 0.85
21 5 0.11
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (19 bp):
AATTGCACTTTGTGCCTCT
Found at i:59397457 original size:23 final size:22
Alignment explanation
Indices: 59397413--59397470 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
59397403 GGCCCCAAAT
*
59397413 TTTTTTATTTTTTATTAATATA
1 TTTTTTATTTTTTAGTAATATA
*
59397435 TGTTTTTATTTTATT-GTATTATA
1 T-TTTTTATTTT-TTAGTAATATA
*
59397458 TTTTATATTTTTT
1 TTTTTTATTTTTT
59397471 TAAAAAATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.06
22 10 0.32
23 17 0.55
24 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.74
Consensus pattern (22 bp):
TTTTTTATTTTTTAGTAATATA
Found at i:59401019 original size:46 final size:46
Alignment explanation
Indices: 59400952--59401043 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
59400942 CACTATTCAC
* * *
59400952 TGATCAGGTAGTCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
59400998 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
59401044 AGCTACCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:59401036 original size:31 final size:31
Alignment explanation
Indices: 59400998--59401056 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
59400988 AAGTAGCCGA
59400998 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
59401029 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
59401057 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:59401129 original size:50 final size:50
Alignment explanation
Indices: 59401036--59401312 Score: 403
Period size: 50 Copynumber: 5.5 Consensus size: 50
59401026 CATTGATCAG
* * * * * *
59401036 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTCTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
**
59401087 GTAGTTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
59401137 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
59401187 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
59401237 GTAGCCGAAGCTATCACTTATCACTTTCACTTG-CAATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTC-CTTGATCAGATAAGT
*
59401287 ATAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
59401313 GTTGCCATGG
Statistics
Matches: 206, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
49 1 0.00
50 184 0.89
51 21 0.10
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:59408564 original size:22 final size:23
Alignment explanation
Indices: 59408525--59408575 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
59408515 AACATGTTGT
*
59408525 TATTTTTTTAATTTTTTTCTTGC
1 TATTTTTTTAATTGTTTTCTTGC
* *
59408548 TATTTTTTTCA-TGTTTTGTTGC
1 TATTTTTTTAATTGTTTTCTTGC
59408570 TATTTT
1 TATTTT
59408576 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (23 bp):
TATTTTTTTAATTGTTTTCTTGC
Found at i:59408769 original size:27 final size:28
Alignment explanation
Indices: 59408738--59408790 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
59408728 ATTTAAGTAT
* *
59408738 ATATATTTTATA-TTTTTAATATTTTTG
1 ATATATTATATATTTTTTAAAATTTTTG
59408765 ATATATTATATATTTTTTAAAATTTT
1 ATATATTATATATTTTTTAAAATTTT
59408791 ATATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
ATATATTATATATTTTTTAAAATTTTTG
Found at i:59409433 original size:24 final size:24
Alignment explanation
Indices: 59409386--59409429 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
59409376 ATTAATTTTT
59409386 TAAAATATTTATCTATTTTTATTA
1 TAAAATATTTATCTATTTTTATTA
59409410 TAAAA-ATTTATCT-TTTTTAT
1 TAAAATATTTATCTATTTTTAT
59409430 ATTAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (24 bp):
TAAAATATTTATCTATTTTTATTA
Found at i:59410785 original size:30 final size:30
Alignment explanation
Indices: 59410729--59410787 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
59410719 AAGATAAATA
* *
59410729 TTTAATTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAAGTTAATATAAAGATAATCAC
*
59410759 TTTAATATTAAGTTAATA-AAATATAATCA
1 TTTAAT-TTAAGTTAATATAAAGATAATCA
59410788 AGATAAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTAATTTAAGTTAATATAAAGATAATCAC
Found at i:59411345 original size:13 final size:13
Alignment explanation
Indices: 59411309--59411351 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
59411299 TTTCAAAATT
**
59411309 AATTTTTTAAGAA
1 AATTTTTTAATCA
59411322 AATTTTTTAATCA
1 AATTTTTTAATCA
59411335 AATTTTTTAATCA
1 AATTTTTTAATCA
59411348 AATT
1 AATT
59411352 CTCTATTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (13 bp):
AATTTTTTAATCA
Found at i:59412150 original size:5 final size:6
Alignment explanation
Indices: 59412116--59412180 Score: 51
Period size: 5 Copynumber: 12.3 Consensus size: 6
59412106 CTTAATCATT
59412116 TTAATA TTAA-A TTAATA -T-ATA TT-ATA TTAAT- TTAATA TTAA-A
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
59412158 TCT--TA TTAA-A TTAATA -TAATA TT
1 T-TAATA TTAATA TTAATA TTAATA TT
59412181 TATCTACAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 20
0.71 0.00 0.29
Matches are distributed among these distances:
4 4 0.08
5 31 0.63
6 14 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (6 bp):
TTAATA
Found at i:59412155 original size:26 final size:26
Alignment explanation
Indices: 59412116--59412180 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
59412106 CTTAATCATT
*
59412116 TTAATATTAA-ATTAATAT-ATATTATA
1 TTAAT-TTAATATTAA-ATCATATTAAA
*
59412142 TTAATTTAATATTAAATCTTATTAAA
1 TTAATTTAATATTAAATCATATTAAA
*
59412168 TTAATATAATATT
1 TTAATTTAATATT
59412181 TATCTACAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.18
26 28 0.82
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAATTTAATATTAAATCATATTAAA
Found at i:59412257 original size:25 final size:25
Alignment explanation
Indices: 59412203--59412257 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
59412193 AAACATTAAA
*
59412203 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
59412228 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
59412252 TATTAA
1 T-TTAA
59412258 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:59419035 original size:89 final size:89
Alignment explanation
Indices: 59418883--59419107 Score: 233
Period size: 89 Copynumber: 2.5 Consensus size: 89
59418873 TTGGCTAGCA
* * *
59418883 TATCAAAGTCGATGCCATGTCCTAGACAAGTCTTACACT-GACTTTCATTTATCGAGGCCAATGC
1 TATCAATGTCGATGCCATGTCCCAGACAAGTCTTACACTAG-CTTTCATATATCGAGGCCAATG-
**
59418947 CATGTCCCAGGCAGGTCTTACAC-TC
64 CATGTCCCAAACAGGTCTTACACGTC
* * * *
59418972 TATCAATGTCGATGCCATGTCCCAGACAGGTTTTACACTAGCTTGT-ATATCTCGAGGCTAATGC
1 TATCAATGTCGATGCCATGTCCCAGACAAGTCTTACACTAGCTT-TCATATATCGAGGCCAATGC
*
59419036 ATGTCCCAAACATGTCTTACACTGTC
65 ATGTCCCAAACAGGTCTTACAC-GTC
* *
59419062 TCTCATAATGTGGCCGATG-CATGTCCCAGACATGTCTTACACTAGC
1 TATC--AATGT---CGATGCCATGTCCCAGACAAGTCTTACACTAGC
59419108 ACACATATCA
Statistics
Matches: 114, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
88 20 0.18
89 52 0.46
90 7 0.06
92 5 0.04
94 25 0.22
95 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (89 bp):
TATCAATGTCGATGCCATGTCCCAGACAAGTCTTACACTAGCTTTCATATATCGAGGCCAATGCA
TGTCCCAAACAGGTCTTACACGTC
Found at i:59424071 original size:49 final size:48
Alignment explanation
Indices: 59423915--59424072 Score: 126
Period size: 49 Copynumber: 3.2 Consensus size: 48
59423905 TAAGATGTCA
* * *
59423915 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTAG
1 ATGCCATGTCCCAGACA-AGTCTTACACTGGCTATCATCTATC-AGGTAG
* * * *
59423963 ATGCCATGTCCCAGAC-AGATCTTACACTGACTTTCATATATCGAGGCCA-
1 ATGCCATGTCCCAGACAAG-TCTTACACTGGCTATCATCTATC-AGG-TAG
* * * * *
59424012 ATGACGTGTCCCGGACAAGTCTTACACTGGCTCTCATCTATCAGTGTTG
1 ATGCCATGTCCCAGACAAGTCTTACACTGGCTATCATCTATCAG-GTAG
59424061 ATGCCATGTCCC
1 ATGCCATGTCCC
59424073 TTACACTGAC
Statistics
Matches: 85, Mismatches: 18, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
46 1 0.01
47 14 0.16
48 18 0.21
49 49 0.58
50 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACAAGTCTTACACTGGCTATCATCTATCAGGTAG
Found at i:59424491 original size:26 final size:26
Alignment explanation
Indices: 59424462--59424513 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
59424452 CTTGCTCGAC
* *
59424462 CTTCACTGGGTCTAGGTTCGAATTTT
1 CTTCACTCGGTCTAGGTTCAAATTTT
*
59424488 CTTCCCTCGGTCTAGGTTCAAATTTT
1 CTTCACTCGGTCTAGGTTCAAATTTT
59424514 GTATTTCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (26 bp):
CTTCACTCGGTCTAGGTTCAAATTTT
Found at i:59428580 original size:40 final size:40
Alignment explanation
Indices: 59428525--59428694 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
59428515 AACATTGGAA
59428525 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59428565 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
59428605 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
59428644 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
59428685 CTATATCCGG
1 ATATATCCGG
59428695 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:59436676 original size:40 final size:40
Alignment explanation
Indices: 59436621--59436790 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
59436611 AACATTGGAA
59436621 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59436661 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
59436701 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
59436740 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
59436781 CTATATCCGG
1 ATATATCCGG
59436791 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:59438814 original size:21 final size:21
Alignment explanation
Indices: 59438790--59438829 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
59438780 CGCCATAGGA
59438790 ACCCGTTATTAGAGTTAGAGT
1 ACCCGTTATTAGAGTTAGAGT
59438811 ACCCGTTATTAGAGTTAGA
1 ACCCGTTATTAGAGTTAGA
59438830 AGTTTTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (21 bp):
ACCCGTTATTAGAGTTAGAGT
Found at i:59441630 original size:20 final size:20
Alignment explanation
Indices: 59441572--59441636 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
59441562 TTCAATTATG
59441572 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
59441593 ATTAAATTAAT-A---TAAT
1 ATTAAATTAATCACTTTAAT
59441609 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAATCACTTTAAT
59441629 ATTAAATT
1 ATTAAATT
59441637 CATAAAATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
16 13 0.34
17 2 0.05
19 2 0.05
20 15 0.39
21 6 0.16
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:59452128 original size:37 final size:38
Alignment explanation
Indices: 59452056--59452128 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
59452046 TCCTTTAAGA
* * *
59452056 TTTCTACCTAAAATCTTAAGATTGCAACTCCCTCAAGG
1 TTTCTACCTAAAACCTTAAGACTGCAAATCCCTCAAGG
59452094 TTTCTACCT-AAACCTTAAGACT-CAAATCCACTCAA
1 TTTCTACCTAAAACCTTAAGACTGCAAATCC-CTCAA
59452129 AGAGTAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.19
37 16 0.52
38 9 0.29
ACGTcount: A:0.34, C:0.29, G:0.07, T:0.30
Consensus pattern (38 bp):
TTTCTACCTAAAACCTTAAGACTGCAAATCCCTCAAGG
Found at i:59453692 original size:23 final size:23
Alignment explanation
Indices: 59453662--59453737 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
59453652 TATGGAACAG
* *
59453662 AACAGAACACTGTCGAAGTGGAT
1 AACAGAACACTGTCAAAGCGGAT
*
59453685 AACAGAACACTGTTAAAGCGGAT
1 AACAGAACACTGTCAAAGCGGAT
* *
59453708 AATAGAACACCG-CAGAAGCGGAT
1 AACAGAACACTGTCA-AAGCGGAT
59453731 AAACAGA
1 -AACAGA
59453738 TAGCACAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 1 0.02
23 38 0.86
24 5 0.11
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (23 bp):
AACAGAACACTGTCAAAGCGGAT
Done.