Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 164 of 425
Found at i:49777022 original size:15 final size:15
Alignment explanation
Indices: 49776990--49777018 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49776980 ATTTCTTATG
49776990 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
49777005 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
49777019 ATTTTCGTGA
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:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:49779655 original size:40 final size:40
Alignment explanation
Indices: 49779454--49779641 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
49779444 TATTCGGATG
* *
49779454 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49779494 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49779533 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
49779573 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49779613 ATAACCGGGCTAAGTCTCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
49779642 AGCAAGTAGC
Statistics
Matches: 138, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 34 0.25
40 104 0.75
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:49779655 original size:80 final size:79
Alignment explanation
Indices: 49779454--49779664 Score: 304
Period size: 80 Copynumber: 2.7 Consensus size: 79
49779444 TATTCGGATG
*
49779454 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCCGGGCTAAGCCCGAAGGC
49779517 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * *
49779533 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAG-CCCGAAGGC
49779597 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
49779613 ATAACCGGGCTAAGTCTCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAA
49779665 ATTCTGAAGG
Statistics
Matches: 119, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
79 54 0.45
80 65 0.55
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:49781472 original size:43 final size:42
Alignment explanation
Indices: 49781410--49781580 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 42
49781400 CATAGGATTT
* *
49781410 TCGATATGTG-TTCTTGTGTAAGACCACATCTAGGACGTTGGCA
1 TCGATATGTGATTC--GTGTAAGACCACATCTGGGACATTGGCA
* ** *
49781453 TCGATATGTGATTACGTGTAAGACCAGC-TTTGGGACATCAGAA
1 TCGATATGTGATT-CGTGTAAGACCA-CATCTGGGACATTGGCA
* * * *
49781496 TCG-TATTTGATTTGTGTAAGACC-CTGTCTGGGACAATGGCA
1 TCGATATGTGATTCGTGTAAGACCAC-ATCTGGGACATTGGCA
* *
49781537 TCGATATGTGATTGCATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATT-CGTGTAAGACCACATCTGGGACATTGGCA
49781580 T
1 T
49781581 TGTACGATAT
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
39 1 0.01
41 23 0.23
42 16 0.16
43 56 0.55
44 4 0.04
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TCGATATGTGATTCGTGTAAGACCACATCTGGGACATTGGCA
Found at i:49789702 original size:29 final size:29
Alignment explanation
Indices: 49789663--49789741 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49789653 CTTAATAATC
*
49789663 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49789693 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49789722 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49789742 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49790877 original size:17 final size:18
Alignment explanation
Indices: 49790840--49790877 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
49790830 CACTTTTTTT
49790840 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
49790859 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
49790876 TT
1 TT
49790878 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:49797495 original size:29 final size:29
Alignment explanation
Indices: 49797456--49797534 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49797446 CTTAATAATC
*
49797456 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49797486 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49797515 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49797535 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49798671 original size:17 final size:18
Alignment explanation
Indices: 49798634--49798671 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
49798624 ACTTTTTTTT
49798634 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
49798653 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
49798670 TT
1 TT
49798672 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:49809023 original size:19 final size:20
Alignment explanation
Indices: 49808988--49809041 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
49808978 AATTAAAATT
*
49808988 CATAATTTTA-TATTTT-TAA
1 CATAATTTAATTATTTTAT-A
49809007 CATAATTTAATTATTTTATA
1 CATAATTTAATTATTTTATA
49809027 -AT-ATTTAATTATTTT
1 CATAATTTAATTATTTT
49809042 TTGACAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 13 0.41
19 11 0.34
20 7 0.22
21 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
CATAATTTAATTATTTTATA
Found at i:49815502 original size:29 final size:29
Alignment explanation
Indices: 49815469--49815571 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
49815459 CCTCCGAACT
** * * *
49815469 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
49815498 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49815527 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49815556 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49815572 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49822722 original size:46 final size:47
Alignment explanation
Indices: 49822650--49822751 Score: 145
Period size: 46 Copynumber: 2.2 Consensus size: 47
49822640 GACAGGACAG
* * * *
49822650 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATAT-ATATATATATGGCATTGGA
49822696 GACAGGAATGAGCCATGTAAGCCCATATATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATATATATATATGGCATTGGA
49822743 GACAGGAAT
1 GACAGGAAT
49822752 AATTCATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
45 1 0.02
46 27 0.54
47 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (47 bp):
GACAGGAATGAGCCATGTAAGCCCATATATATATATATGGCATTGGA
Found at i:49827015 original size:46 final size:47
Alignment explanation
Indices: 49826948--49827043 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 47
49826938 ACAGGATAGA
* * *
49826948 AATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATAT-ATATATATATGGCATTGGAGACAGG
49826994 AATGAGCCATGTAAGCCCATATATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATATATATATATGGCATTGGAGACAGG
49827041 AAT
1 AAT
49827044 AATTCATGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
45 1 0.02
46 22 0.49
47 22 0.49
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (47 bp):
AATGAGCCATGTAAGCCCATATATATATATATGGCATTGGAGACAGG
Found at i:49840170 original size:46 final size:45
Alignment explanation
Indices: 49840118--49840240 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 45
49840108 AACAAGAGCT
49840118 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGT--GCC
* * *
49840164 AGTGTAAGAGATGTCTGAGACATGCATCGG-CTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGCC
*
49840208 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
49840241 ATTCTACCCC
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
44 11 0.16
45 13 0.19
46 43 0.64
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGTGCC
Found at i:49841719 original size:68 final size:68
Alignment explanation
Indices: 49841626--49841783 Score: 298
Period size: 68 Copynumber: 2.3 Consensus size: 68
49841616 TTCACTTGGA
* *
49841626 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
49841691 CGT
66 CGT
49841694 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
49841759 CGT
66 CGT
49841762 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
49841784 TATATAGTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:49847996 original size:25 final size:25
Alignment explanation
Indices: 49847968--49848015 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49847958 TTATACCATG
* * *
49847968 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
49847993 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
49848016 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:49848116 original size:20 final size:20
Alignment explanation
Indices: 49848058--49848116 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
49848048 ATAAATATGG
49848058 TATGTATG--ATGCACATGA
1 TATGTATGATATGCACATGA
*
49848076 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
49848096 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
49848116 T
1 T
49848117 GTAATCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.19
20 30 0.81
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:49848193 original size:24 final size:24
Alignment explanation
Indices: 49848166--49848307 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
49848156 GAGGAAGTGA
49848166 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
49848190 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
49848214 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
49848237 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
49848261 GAAAGGGCTT-TTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
49848284 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49848308 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 40 0.37
24 61 0.56
25 8 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:49848304 original size:71 final size:71
Alignment explanation
Indices: 49848166--49848308 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 71
49848156 GAGGAAGTGA
*
49848166 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAGGCCCC
49848231 AGTTAT
66 AGTTAT
** * *
49848237 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTT-TTCCCCAGTTATTAAAAGAGGC-TAGGCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTAGGCC-
49848300 CCAGTTAT
64 CCAGTTAT
49848308 A
1 A
49848309 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 21 0.32
71 44 0.68
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAGGCCCC
AGTTAT
Found at i:49848558 original size:30 final size:31
Alignment explanation
Indices: 49848498--49848560 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49848488 CGTTTACAGT
49848498 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
49848529 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
49848559 AA
1 AA
49848561 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:49856055 original size:25 final size:25
Alignment explanation
Indices: 49856027--49856074 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49856017 TTATACCATG
* * *
49856027 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
49856052 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
49856075 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:49856145 original size:20 final size:20
Alignment explanation
Indices: 49856117--49856157 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
49856107 ATAAATATGG
49856117 TATGCATGATATCCACATGA
1 TATGCATGATATCCACATGA
* *
49856137 TATGTATGATATGCACATGA
1 TATGCATGATATCCACATGA
49856157 T
1 T
49856158 GTAATCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
TATGCATGATATCCACATGA
Found at i:49856234 original size:24 final size:24
Alignment explanation
Indices: 49856207--49856325 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
49856197 GAGGAAGTGA
*
49856207 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
49856231 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
49856254 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
49856278 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49856302 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49856326 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:49856276 original size:47 final size:48
Alignment explanation
Indices: 49856207--49856325 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
49856197 GAGGAAGTGA
49856207 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
49856254 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
49856302 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49856326 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:49856552 original size:31 final size:31
Alignment explanation
Indices: 49856517--49856580 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49856507 CGTTTACAGT
49856517 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
49856548 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
49856579 AA
1 AA
49856581 CATGAAAAGG
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:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:49864622 original size:14 final size:14
Alignment explanation
Indices: 49864603--49864630 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49864593 CATTTTTGGT
49864603 GATTTTTCAAAGTC
1 GATTTTTCAAAGTC
49864617 GATTTTTCAAAGTC
1 GATTTTTCAAAGTC
49864631 ATATAATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
GATTTTTCAAAGTC
Found at i:49864988 original size:52 final size:50
Alignment explanation
Indices: 49864865--49865042 Score: 241
Period size: 51 Copynumber: 3.5 Consensus size: 50
49864855 CGGATACCCG
* * * *
49864865 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GACAAAGCTATCTTCTTCACAAA
49864916 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CAAAGCTATC-TTCTTCACAAA
* * *
49864968 GTGGCTTTCACATAGCACCACACTTGTGACAAAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACAAAGCTATCTTCTTCACAAA
* *
49865017 GTGACCTTCACAAAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
49865043 AGTAACTAGT
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 31 0.27
50 1 0.01
51 44 0.39
52 38 0.33
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGACAAAGCTATCTTCTTCACAAA
Found at i:49865097 original size:10 final size:10
Alignment explanation
Indices: 49865082--49865106 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
49865072 ATTCTGTTCC
49865082 TAAAACATAA
1 TAAAACATAA
49865092 TAAAACATAA
1 TAAAACATAA
49865102 TAAAA
1 TAAAA
49865107 TGTTATAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
TAAAACATAA
Found at i:49872485 original size:29 final size:29
Alignment explanation
Indices: 49872414--49872537 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
49872404 AAGTCTACAT
* *
49872414 ACATGCATATGGCCCACTAGGCCC-AAT-
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
49872441 TCATTCATATGGCCCATTAGGCCCAAATT
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
49872470 ACATCCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
49872499 ACATTCATATGGCGCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
49872528 ACATTCATAT
1 ACATTCATAT
49872538 ACACGCTTTC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.25
28 3 0.04
29 61 0.72
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:49872774 original size:16 final size:16
Alignment explanation
Indices: 49872753--49872799 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
49872743 CAAACTTTTG
* *
49872753 GCTTTTCGATATTTCT
1 GCTTTTCGACATTTCA
*
49872769 GCTTTTCAACATTTCA
1 GCTTTTCGACATTTCA
49872785 GCTTTTCGACATTTC
1 GCTTTTCGACATTTC
49872800 GAGATTTACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (16 bp):
GCTTTTCGACATTTCA
Found at i:49879403 original size:14 final size:13
Alignment explanation
Indices: 49879380--49879411 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
49879370 GGGATATCAA
49879380 AACAATAATTAAG
1 AACAATAATTAAG
49879393 AACACATAATTAAG
1 AACA-ATAATTAAG
49879407 AACAA
1 AACAA
49879412 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:49883816 original size:19 final size:20
Alignment explanation
Indices: 49883792--49883834 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
49883782 TGTCTAGCTT
49883792 CGTTTGCTTC-TC-CCACGCC
1 CGTTTG-TTCATCTCCACGCC
49883811 CGTTTGTTCAATCTCCACGCC
1 CGTTTGTTC-ATCTCCACGCC
49883832 CGT
1 CGT
49883835 GTTAGCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.14
19 6 0.29
20 2 0.10
21 10 0.48
ACGTcount: A:0.09, C:0.42, G:0.16, T:0.33
Consensus pattern (20 bp):
CGTTTGTTCATCTCCACGCC
Found at i:49889554 original size:40 final size:40
Alignment explanation
Indices: 49889477--49889658 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
49889467 CAACCAAGTA
** * * *
49889477 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAATTG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
49889516 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
49889556 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * * * *
49889596 CCTTCGGAACTTAACCCGG-AATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
49889636 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
49889659 CATCCGAATA
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
39 14 0.11
40 110 0.88
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:49897535 original size:40 final size:40
Alignment explanation
Indices: 49897449--49897666 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
49897439 CAACCAAGTA
** * *
49897449 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
49897487 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
49897527 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
49897567 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
** * * *
49897607 -CTTC-GGACTTA-CCC-GAAATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
49897644 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
49897667 CATCTGAATA
Statistics
Matches: 159, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
36 2 0.01
37 18 0.11
38 24 0.15
39 27 0.17
40 86 0.54
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:49913000 original size:46 final size:47
Alignment explanation
Indices: 49912947--49913168 Score: 188
Period size: 46 Copynumber: 4.7 Consensus size: 47
49912937 TCACTTGTGT
*
49912947 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAA
*
49912993 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA-TTGA-GACAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATGATG--AA
* * * * * * *
49913041 GGGCTAGTGTAAGACATGTCTAGGACAAGTATCAGCCTCGA-GATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAA
* * * *
49913088 -AGCTAGTGTAAAACATGTTTGGGACATGCATCGGCTACAAGATG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAA
* * *
49913133 TAGTTAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
49913169 ACTTGAGATA
Statistics
Matches: 142, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
45 3 0.02
46 65 0.46
47 44 0.31
48 29 0.20
49 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAA
Found at i:49913189 original size:47 final size:47
Alignment explanation
Indices: 49912946--49913213 Score: 221
Period size: 47 Copynumber: 5.7 Consensus size: 47
49912936 GTCACTTGTG
*
49912946 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-ACATTA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGA-TA
* *
49912990 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACA
1 T--GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATA
* * * * * * *
49913040 AGGGCTAGTGTAAGA-CATGTCTAGGACA-AGTATCAGCCTCGAGATG
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTCGAGATA
* * * *
49913086 TAAGCTAGTGTAA-AACATGTTTGGGACAT-GCATCGGCTACAAGATGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGAT-A
* * * *
49913133 T-AGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGAGATA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATA
* * *
49913179 TGGGCCAGTGTAAGACCATGTCTAGGACATGGCAT
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
49913214 TGGCAGTGTA
Statistics
Matches: 178, Mismatches: 31, Indels: 27
0.75 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 65 0.37
47 76 0.43
48 29 0.16
50 1 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (47 bp):
TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATA
Found at i:49913200 original size:140 final size:140
Alignment explanation
Indices: 49912948--49913207 Score: 396
Period size: 140 Copynumber: 1.9 Consensus size: 140
49912938 CACTTGTGTG
* **
49912948 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATGT
1 AGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATGT
* *
49913013 CTGGGACATGGCATCGGCATTGAGACAAGGGCTAGTGTAAGACATGTCTAGGACAAGTATCAGCC
66 CTGGGACATGGCATCGACATTGAGACAAGGGCCAGTGTAAGACATGTCTAGGACAAGTATCAGCC
49913078 TCGAGATGTA
131 TCGAGATGTA
* * * *
49913088 AGCTAGTGTAAAACATGTTTGGGACATGCATCGGCTACAAGATGATAGTTAGTGTAAGACCATGT
1 AGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATGT
* * *
49913153 TTGGGACATGGCATCGAC-TTGAGATATGGGCCAGTGTAAGACCATGTCTAGGACA
66 CTGGGACATGGCATCGACATTGAGACAAGGGCCAGTGTAAGA-CATGTCTAGGACA
49913208 TGGCATTGGC
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
139 20 0.19
140 87 0.81
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (140 bp):
AGCTAGTGTAAAACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGACATTGAGACAAGGGCCAGTGTAAGACATGTCTAGGACAAGTATCAGCC
TCGAGATGTA
Found at i:49917264 original size:46 final size:45
Alignment explanation
Indices: 49917211--49917566 Score: 224
Period size: 46 Copynumber: 7.6 Consensus size: 45
49917201 TCACTTGTGT
49917211 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGA
* * * *
49917257 GAGCTAGTGTAAGACCATGTCCGGGACATGGCATCGG-CATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGA
* * ** * *
49917305 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATATG-A
* * *
49917352 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGA
** * * *
49917397 TTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT--
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--CACATATGA
* * * *
49917444 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGA
** * * *
49917490 TTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT--
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--CACATATGA
*
49917537 GAGCCAGTGTAAGACCATGTCTGGGACATG
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG
49917567 GCATTGGCAC
Statistics
Matches: 246, Mismatches: 40, Indels: 48
0.74 0.12 0.14
Matches are distributed among these distances:
43 1 0.00
44 3 0.01
45 7 0.03
46 97 0.39
47 93 0.38
48 36 0.15
49 7 0.03
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGA
Found at i:49917438 original size:93 final size:94
Alignment explanation
Indices: 49917216--49917566 Score: 443
Period size: 93 Copynumber: 3.8 Consensus size: 94
49917206 TGTGTGAGCT
* * * *
49917216 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--CACATTATGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TAT--GAGCCAGTGTAAGACCATGT
* * * * *
49917277 CCGGGACATGGCATCGGC-ATTGAGACGA-GGGC
63 CTGGGACAT-GCATCGGCTA-CGAGATGATTGTC
* ** *
49917309 TAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTTGAGACGTAAGCCAGTGTAAGA-CATGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATATGAGCCAGTGTAAGACCATGTC
49917371 TGGGACATGCATCGGCTACGAGATGATTGTC
64 TGGGACATGCATCGGCTACGAGATGATTGTC
49917402 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGA-CATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGACCATGTCTG
*
49917466 GGACATGCATCAGCTACGAGATGATTGTC
66 GGACATGCATCGGCTACGAGATGATTGTC
49917495 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGACCATGTCTG
49917560 GGACATG
66 GGACATG
49917567 GCATTGGCAC
Statistics
Matches: 232, Mismatches: 17, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
92 23 0.10
93 144 0.62
94 60 0.26
95 2 0.01
96 1 0.00
97 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGACCATGTCTG
GGACATGCATCGGCTACGAGATGATTGTC
Found at i:49917509 original size:140 final size:139
Alignment explanation
Indices: 49917216--49917570 Score: 436
Period size: 140 Copynumber: 2.5 Consensus size: 139
49917206 TGTGTGAGCT
* * * *
49917216 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCTAGTGTAAGACCATGTCCG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGC-AGTGTAAGACCATGTCTG
* * * *
49917280 GGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTG
64 GGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCG
49917345 AGACGTAAGCC
129 AGACGTAAGCC
*
49917356 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATTGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAG-CAGTGTAAGACCATGTCTGG
*
49917421 GACATGGCATCGAC-TTGAGA-TATGAGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTAC
65 GACATGGCATCGACATTGAGACGA-GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-C
* * *
49917483 GAGATG-ATTGTC
128 GAGACGTA-AGCC
* *
49917495 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-ATGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-AG-CAGTGTAAGACCATGTC
49917558 TGGGACATGGCAT
62 TGGGACATGGCAT
49917571 TGGCACCTTA
Statistics
Matches: 190, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
138 4 0.02
139 57 0.30
140 119 0.63
141 10 0.05
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGCAGTGTAAGACCATGTCTGGG
ACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG
ACGTAAGCC
Found at i:49921758 original size:35 final size:35
Alignment explanation
Indices: 49921714--49921828 Score: 83
Period size: 35 Copynumber: 3.3 Consensus size: 35
49921704 CTAGTTAGAT
*
49921714 AATTGACGATGGATGTGCCCAGCACTAGTCGAACG
1 AATTAACGATGGATGTGCCCAGCACTAGTCGAACG
** * ** * *
49921749 AATTAACGATGTTTTGCGCCCAGCGTTAGTCGGA-T
1 AATTAACGATG-GATGTGCCCAGCACTAGTCGAACG
* *
49921784 AA-TAGACTATTGATGTGCCCAGCACTAG-CGGAACG
1 AATTA-ACGATGGATGTGCCCAGCACTAGTC-GAACG
*
49921819 AATTGACGAT
1 AATTAACGAT
49921829 ATTAATTACC
Statistics
Matches: 56, Mismatches: 19, Indels: 10
0.66 0.22 0.12
Matches are distributed among these distances:
33 1 0.02
34 16 0.29
35 22 0.39
36 17 0.30
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (35 bp):
AATTAACGATGGATGTGCCCAGCACTAGTCGAACG
Found at i:49921760 original size:70 final size:70
Alignment explanation
Indices: 49921656--49921828 Score: 195
Period size: 70 Copynumber: 2.5 Consensus size: 70
49921646 AATTATAATA
* * * * * * * * *
49921656 ATGTGCCTAGCACTAATCAAATGAATCAATGATGTTTTGCACCTAGCGCTAGTTAGATAATTGAC
1 ATGTGCCCAGCACTAGTCGAACGAATTAACGATGTTTTGCACCCAGCGCTAGTCAGATAATAGAC
49921721 GATGG
66 GATGG
* * *
49921726 ATGTGCCCAGCACTAGTCGAACGAATTAACGATGTTTTGCGCCCAGCGTTAGTCGGATAATAGAC
1 ATGTGCCCAGCACTAGTCGAACGAATTAACGATGTTTTGCACCCAGCGCTAGTCAGATAATAGAC
* *
49921791 TATTG
66 GATGG
*
49921796 ATGTGCCCAGCACTAG-CGGAACGAATTGACGAT
1 ATGTGCCCAGCACTAGTC-GAACGAATTAACGAT
49921829 ATTAATTACC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
69 1 0.01
70 86 0.99
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (70 bp):
ATGTGCCCAGCACTAGTCGAACGAATTAACGATGTTTTGCACCCAGCGCTAGTCAGATAATAGAC
GATGG
Found at i:49922822 original size:107 final size:104
Alignment explanation
Indices: 49922679--49922888 Score: 305
Period size: 107 Copynumber: 2.0 Consensus size: 104
49922669 ACTTCCAGCA
* *
49922679 CTCTCTAATGGCATCTTTTCTTTCTTCTTTTTGGTAGCAACCCCCAATTAAGGAAGATGATAAAC
1 CTCTCTAATGGCATCTTTTCTTTCTTCTTTTTGGTAGCAACCCCCAACTAACGAAGATGATAAAC
*
49922744 TTCTTTTTTTTTCCCTTATTTGTTTAACGTTATTTTACTAAG
66 TTC-TTTTTTTT--CTTATTTCTTTAACGTTATTTTACTAAG
* ** *
49922786 CTCTCTAATGGCTTCTTTTCTTTC-TCTTTTTCGGTAGCCTCCCCCAACTAACGAAGATGATACA
1 CTCTCTAATGGCATCTTTTCTTTCTTCTTTTT-GGTAGCAACCCCCAACTAACGAAGATGATAAA
*
49922850 CTTCTTTTTTTTCTTATTTCTTTAATGTTATTTTACTAA
65 CTTCTTTTTTTTCTTATTTCTTTAACGTTATTTTACTAA
49922889 TTATTTACCT
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
104 25 0.27
106 15 0.16
107 54 0.57
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (104 bp):
CTCTCTAATGGCATCTTTTCTTTCTTCTTTTTGGTAGCAACCCCCAACTAACGAAGATGATAAAC
TTCTTTTTTTTCTTATTTCTTTAACGTTATTTTACTAAG
Found at i:49923612 original size:18 final size:18
Alignment explanation
Indices: 49923589--49923647 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
49923579 TAGCCCATTT
49923589 CAGTAACAATAATCAGTG
1 CAGTAACAATAATCAGTG
* ** *
49923607 CAGTAACCATGTTCAATG
1 CAGTAACAATAATCAGTG
*
49923625 CAGTAACAGTAATCAGTG
1 CAGTAACAATAATCAGTG
49923643 CAGTA
1 CAGTA
49923648 TGCAAGCAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (18 bp):
CAGTAACAATAATCAGTG
Found at i:49923948 original size:22 final size:24
Alignment explanation
Indices: 49923905--49923954 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
49923895 ACCCCATGCA
*
49923905 ATGCAACTTAACATTATACATGG-
1 ATGCAACATAACATTATACATGGC
49923928 ATGCAACAT-ACA-TATACCATGGC
1 ATGCAACATAACATTATA-CATGGC
49923951 ATGC
1 ATGC
49923955 TCAAATACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 8 0.33
23 12 0.50
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (24 bp):
ATGCAACATAACATTATACATGGC
Found at i:49924035 original size:27 final size:26
Alignment explanation
Indices: 49924005--49924105 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
49923995 TTAACTTACG
* *
49924005 GGGGTATTACAGTCATTTTACCCTAT
1 GGGGTATTTCGGTCATTTTACCCTAT
* *
49924031 AGGGGTATTTTGGTCATTCTACCCTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
49924058 GAGGGTATTTCGGTCATTTTACCCTAT
1 G-GGGTATTTCGGTCATTTTACCCTAT
* *
49924085 GATGGCATTTCGGTCATTTTA
1 G-GGGTATTTCGGTCATTTTA
49924106 TCACATAAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 64 0.98
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGGTATTTCGGTCATTTTACCCTAT
Found at i:49925965 original size:91 final size:91
Alignment explanation
Indices: 49925854--49926039 Score: 336
Period size: 91 Copynumber: 2.0 Consensus size: 91
49925844 TTGTGTCACT
* * **
49925854 TTCTTCCACAACTAACTATTTATTTGTCGCCTCCTACTTGCTTCCATGCACAAGACCCAATACTT
1 TTCTTCCACAACTAACTATTTATTTGTCGCCTCCTACCTGCTCCCATAAACAAGACCCAATACTT
49925919 CTAGGCCCAAATTTGGGGCATTACAA
66 CTAGGCCCAAATTTGGGGCATTACAA
49925945 TTCTTCCACAACTAACTATTTATTTGTCGCCTCCTACCTGCTCCCATAAACAAGACCCAATACTT
1 TTCTTCCACAACTAACTATTTATTTGTCGCCTCCTACCTGCTCCCATAAACAAGACCCAATACTT
49926010 CTAGGCCCAAATTTGGGGCATTACAA
66 CTAGGCCCAAATTTGGGGCATTACAA
49926036 TTCT
1 TTCT
49926040 ACCCTTCATA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (91 bp):
TTCTTCCACAACTAACTATTTATTTGTCGCCTCCTACCTGCTCCCATAAACAAGACCCAATACTT
CTAGGCCCAAATTTGGGGCATTACAA
Found at i:49928103 original size:71 final size:71
Alignment explanation
Indices: 49928019--49928182 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
49928009 CGATTTGTCT
49928019 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
49928084 CTTTCA
66 CTTTCA
49928090 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
49928155 CTTTCA
66 CTTTCA
49928161 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
49928183 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:49928220 original size:71 final size:70
Alignment explanation
Indices: 49928019--49928216 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
49928009 CGATTTGTCT
* * * *
49928019 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
49928084 CTTTCA
65 CTTTCA
* * * *
49928090 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
49928155 CTTTCA
65 CTTTCA
* *
49928161 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
49928217 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:49935679 original size:71 final size:71
Alignment explanation
Indices: 49935595--49935758 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
49935585 CGATTTGTCT
49935595 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
49935660 CTTTCA
66 CTTTCA
49935666 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
49935731 CTTTCA
66 CTTTCA
49935737 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
49935759 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:49935796 original size:71 final size:70
Alignment explanation
Indices: 49935595--49935792 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
49935585 CGATTTGTCT
* * * *
49935595 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
49935660 CTTTCA
65 CTTTCA
* * * *
49935666 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
49935731 CTTTCA
65 CTTTCA
* *
49935737 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
49935793 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:49940148 original size:60 final size:59
Alignment explanation
Indices: 49940024--49940164 Score: 171
Period size: 60 Copynumber: 2.4 Consensus size: 59
49940014 CCCAAATGTG
* * *
49940024 TTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTGATA
1 TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
* *
49940083 CTGATATGGGCTAGGCCCAGTATA-CTCTGTTAC-TGTA-AGGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAGTATATCTC-G--ACTTGTATA-GGGCTACGGCCCAGATTAATA
49940143 TTGATATGGGCTAAGGCCCAGT
1 TTGATATGGGCT-AGGCCCAGT
49940165 TAACACTAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
58 3 0.04
59 23 0.32
60 34 0.48
61 11 0.15
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:49943714 original size:18 final size:19
Alignment explanation
Indices: 49943691--49943729 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49943681 GTTATTTCAA
*
49943691 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
49943709 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
49943728 TT
1 TT
49943730 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:49943761 original size:12 final size:12
Alignment explanation
Indices: 49943744--49943784 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
49943734 CTCAAACTCT
*
49943744 TTTTCATTCTCC
1 TTTTCATTCTCA
*
49943756 TTTTCAATCTCA
1 TTTTCATTCTCA
*
49943768 TTTTCATTTTCA
1 TTTTCATTCTCA
49943780 TTTTC
1 TTTTC
49943785 TTTTTGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTCATTCTCA
Found at i:49943771 original size:24 final size:24
Alignment explanation
Indices: 49943735--49943784 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
49943725 TTTTTCTCTC
* *
49943735 TCAAACTCTTTTTCATTCTCCTTT
1 TCAAACTCATTTTCATTCTCATTT
* *
49943759 TCAATCTCATTTTCATTTTCATTT
1 TCAAACTCATTTTCATTCTCATTT
49943783 TC
1 TC
49943785 TTTTTGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (24 bp):
TCAAACTCATTTTCATTCTCATTT
Found at i:49943868 original size:5 final size:5
Alignment explanation
Indices: 49943858--49943914 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
49943848 CTTTTTCCTC
*
49943858 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
49943905 TCTTT TCTTT
1 TCTTT TCTTT
49943915 GTTTTCTCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:49943869 original size:16 final size:15
Alignment explanation
Indices: 49943848--49943914 Score: 73
Period size: 16 Copynumber: 4.3 Consensus size: 15
49943838 TCTTACTTGC
*
49943848 CTTTTTCCTCTCTTTT
1 CTTTTT-CTTTCTTTT
*
49943864 CTTTTTATTTCGTTTT
1 CTTTTTCTTTC-TTTT
49943880 CTTTTTC-TTCTTTT
1 CTTTTTCTTTCTTTT
49943894 GCTTTTTCTTTTCTTTT
1 -CTTTTTC-TTTCTTTT
49943911 CTTT
1 CTTT
49943915 GTTTTCTCGT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
14 4 0.09
15 13 0.30
16 20 0.45
17 7 0.16
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (15 bp):
CTTTTTCTTTCTTTT
Found at i:49943915 original size:21 final size:21
Alignment explanation
Indices: 49943858--49943919 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
49943848 CTTTTTCCTC
* *
49943858 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
49943879 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
49943900 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
49943920 CTCGTTACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 7 0.21
21 22 0.65
22 5 0.15
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:49944865 original size:23 final size:23
Alignment explanation
Indices: 49944839--49944883 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
49944829 TTTTCACTTC
*
49944839 AATTTTTTTTCGGATTTTTTTTG
1 AATTTTTTTTCGAATTTTTTTTG
*
49944862 AATTTTTTTTTGAATTTTTTTT
1 AATTTTTTTTCGAATTTTTTTT
49944884 AACTTGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (23 bp):
AATTTTTTTTCGAATTTTTTTTG
Found at i:49944883 original size:11 final size:11
Alignment explanation
Indices: 49944839--49944883 Score: 63
Period size: 12 Copynumber: 3.9 Consensus size: 11
49944829 TTTTCACTTC
49944839 AATTTTTTTTCG
1 AATTTTTTTT-G
*
49944851 GATTTTTTTTG
1 AATTTTTTTTG
49944862 AATTTTTTTTTG
1 AA-TTTTTTTTG
49944874 AATTTTTTTT
1 AATTTTTTTT
49944884 AACTTGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:49946172 original size:25 final size:25
Alignment explanation
Indices: 49946135--49946193 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
49946125 CCAAAGGGAT
*
49946135 TGGATCTTTTAGATACATTCATGCA
1 TGGATCTTCTAGATACATTCATGCA
49946160 TGGATCTTCTAGATACATTCATGCA
1 TGGATCTTCTAGATACATTCATGCA
*
49946185 TGAATCTTC
1 TGGATCTTC
49946194 ATCATTCATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (25 bp):
TGGATCTTCTAGATACATTCATGCA
Found at i:49946199 original size:21 final size:23
Alignment explanation
Indices: 49946147--49946203 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 23
49946137 GATCTTTTAG
*
49946147 ATACATTCATGCATGGATCTTCTA
1 ATACATTCATGCATGAATCTTC-A
49946171 GATACATTCATGCATGAATCTTC-
1 -ATACATTCATGCATGAATCTTCA
49946194 AT-CATTCATG
1 ATACATTCATG
49946204 TAACCAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 8 0.26
22 2 0.06
25 21 0.68
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (23 bp):
ATACATTCATGCATGAATCTTCA
Found at i:49946618 original size:19 final size:19
Alignment explanation
Indices: 49946594--49946662 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
49946584 CTAAAATGAG
49946594 CTAAGCTGAGGTTAAGCTC
1 CTAAGCTGAGGTTAAGCTC
* * *
49946613 CTAAGCTGAAGTTGAGCTAAGG
1 CTAAGCTGAGGTTAAGCT---C
* * *
49946635 TTGAGCTGAGGTTAAACTC
1 CTAAGCTGAGGTTAAGCTC
49946654 CTAAGCTGA
1 CTAAGCTGA
49946663 AGTTGAGCTA
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 23 0.64
22 13 0.36
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (19 bp):
CTAAGCTGAGGTTAAGCTC
Found at i:49946646 original size:41 final size:41
Alignment explanation
Indices: 49946597--49946682 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
49946587 AAATGAGCTA
*
49946597 AGCTGAGGTTAAGCTCCTAAGCTGAAGTTGAGCTAAGGTTG
1 AGCTGAGGTTAAACTCCTAAGCTGAAGTTGAGCTAAGGTTG
*
49946638 AGCTGAGGTTAAACTCCTAAGCTGAAGTTGAGCTAAGGTTT
1 AGCTGAGGTTAAACTCCTAAGCTGAAGTTGAGCTAAGGTTG
49946679 AGCT
1 AGCT
49946683 CGTGAGTTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (41 bp):
AGCTGAGGTTAAACTCCTAAGCTGAAGTTGAGCTAAGGTTG
Found at i:49948210 original size:27 final size:27
Alignment explanation
Indices: 49948093--49948208 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
49948083 TAGAACAAAT
* **
49948093 GTCATTTTACCTTACCAGGGTATTAT-A
1 GTCATTTTACCCTATGAGGGTATT-TCA
**
49948120 GTCATTTTACCCTAT-AGGGGT-TTTTG
1 GTCATTTTACCCTATGA-GGGTATTTCA
** *
49948146 GTCATTCCACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCA
*
49948173 GTCATTTTATCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCA
49948200 GTCATTTTA
1 GTCATTTTA
49948209 TCACGTAAGG
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 20 0.27
27 52 0.71
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCA
Found at i:49948219 original size:27 final size:26
Alignment explanation
Indices: 49948163--49948247 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
49948153 CACCCTATGG
49948163 GGGTATTTCAGTCATTTTATC-CTATGA
1 GGGTATTTCAGTCATTTTATCACTA--A
49948190 GGGTATTTCAGTCATTTTATCACGTAA
1 GGGTATTTCAGTCATTTTATCAC-TAA
* **
49948217 GGGCAAAATC-GTCATTTTATCACATAA
1 GGG-TATTTCAGTCATTTTATCAC-TAA
49948244 GGGT
1 GGGT
49948248 TCAGGTACGC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 44 0.88
28 4 0.08
29 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (26 bp):
GGGTATTTCAGTCATTTTATCACTAA
Found at i:49952530 original size:30 final size:30
Alignment explanation
Indices: 49952494--49952594 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49952484 GACAAGATTG
* * *
49952494 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49952524 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49952552 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49952581 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49952595 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49952606 original size:29 final size:28
Alignment explanation
Indices: 49952523--49952598 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
49952513 AAAATTGTAC
* *
49952523 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
49952551 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
49952580 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
49952599 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:49960421 original size:30 final size:30
Alignment explanation
Indices: 49960385--49960485 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49960375 GACAAGATTG
* * *
49960385 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49960415 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49960443 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49960472 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49960486 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49960497 original size:29 final size:28
Alignment explanation
Indices: 49960414--49960489 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
49960404 AAAATTGTAC
* *
49960414 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
49960442 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
49960471 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
49960490 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:49964445 original size:46 final size:46
Alignment explanation
Indices: 49964390--49964570 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
49964380 TAGGATGGTT
49964390 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
49964436 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
49964482 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
49964529 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49964571 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:49964551 original size:93 final size:93
Alignment explanation
Indices: 49964392--49964562 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
49964382 GGATGGTTGA
* *
49964392 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49964457 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49964485 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49964550 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
49964563 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49967553 original size:15 final size:15
Alignment explanation
Indices: 49967514--49967593 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
49967504 GTATCTTGGG
*
49967514 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
49967529 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
49967544 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
49967559 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
49967574 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
49967588 TTTCTT
1 TTTCTT
49967594 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49967583 original size:30 final size:30
Alignment explanation
Indices: 49967505--49967592 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
49967495 CATAGTATCG
* * *
49967505 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
49967535 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
49967565 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
49967593 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:49970019 original size:46 final size:46
Alignment explanation
Indices: 49969964--49970143 Score: 233
Period size: 45 Copynumber: 3.9 Consensus size: 46
49969954 TAGGATGGTT
49969964 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
49970010 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
49970056 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
49970103 GAAC-GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49970144 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
43 4 0.03
45 37 0.32
46 36 0.31
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:49970084 original size:47 final size:45
Alignment explanation
Indices: 49969964--49970138 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
49969954 TAGGATGGTT
*
49969964 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC
* *
49970010 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---C
* *
49970056 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC
* * *
49970103 GAAC-GCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
49970139 TATGGGCGGG
Statistics
Matches: 111, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 4 0.04
45 32 0.29
46 36 0.32
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (45 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGC
Found at i:49974826 original size:28 final size:28
Alignment explanation
Indices: 49974780--49974848 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
49974770 TTTAAAACCC
*
49974780 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
49974807 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
49974835 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
49974849 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:49981657 original size:23 final size:23
Alignment explanation
Indices: 49981627--49981677 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
49981617 AAATCTCTTG
49981627 CACA-TGATAGCCTCGGTGGAAA
1 CACACTGATAGCCTCGGTGGAAA
*
49981649 CACACTGATAGCCTTGGTGGAAA
1 CACACTGATAGCCTCGGTGGAAA
49981672 CACACT
1 CACACT
49981678 CTCGAGCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (23 bp):
CACACTGATAGCCTCGGTGGAAA
Found at i:49983963 original size:42 final size:43
Alignment explanation
Indices: 49983862--49983969 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
49983852 ATACCAATGC
**
49983862 CATATCCCAGATATGGTCTTACATGGGATCTCATATCAATACT
1 CATATCCCAGATATGGTCTTACATGAAATCTCATATCAATACT
* * * *
49983905 CATAGCCCAGCTATGGTCTTACATGAAATCTCATATCGAT-GT
1 CATATCCCAGATATGGTCTTACATGAAATCTCATATCAATACT
49983947 CATATCCCAGATATGGTCTTACA
1 CATATCCCAGATATGGTCTTACA
49983970 CATAGTCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (43 bp):
CATATCCCAGATATGGTCTTACATGAAATCTCATATCAATACT
Found at i:49992671 original size:31 final size:30
Alignment explanation
Indices: 49992614--49992672 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
49992604 GTAAATACTC
* * * *
49992614 AAAATTTGAGAGATTAAAGTGTAAATATGA
1 AAAAGTTGAAAGACTAAAGTGAAAATATGA
49992644 AAAAGTTGAAAGACTAATAGTGAAAATAT
1 AAAAGTTGAAAGACTAA-AGTGAAAATAT
49992673 TTTAAGGGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAAAGACTAAAGTGAAAATATGA
Found at i:49995223 original size:23 final size:23
Alignment explanation
Indices: 49995168--49995214 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
49995158 AAGCATGTGT
49995168 TAGTGTCTTGATGGTAGGATATG
1 TAGTGTCTTGATGGTAGGATATG
49995191 TAGTGTCTTGATGGTAGGATATG
1 TAGTGTCTTGATGGTAGGATATG
49995214 T
1 T
49995215 CATTGCTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.40
Consensus pattern (23 bp):
TAGTGTCTTGATGGTAGGATATG
Found at i:50002323 original size:42 final size:42
Alignment explanation
Indices: 50002260--50002370 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
50002250 GAAGTCCAAA
* * *
50002260 CTCGTTGAGTGGTCCGGGTTCATGA-GGTATGT-AACATCCGAG
1 CTCGTTGAGAGGTCCGAGTTCATGATAG-AT-TCAACATCCGAG
* * *
50002302 CTCGTTGAAAGGTCCGAGTTCATTATAGATTCGAACATCTGAG
1 CTCGTTGAGAGGTCCGAGTTCATGATAGATTC-AACATCCGAG
50002345 CTCGTTGAGAGGTCCGAGTTCATGAT
1 CTCGTTGAGAGGTCCGAGTTCATGAT
50002371 GGATGCGATT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 23 0.40
43 34 0.59
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (42 bp):
CTCGTTGAGAGGTCCGAGTTCATGATAGATTCAACATCCGAG
Found at i:50002478 original size:43 final size:43
Alignment explanation
Indices: 50002417--50002499 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
50002407 GTCTGAGCTC
50002417 ATGATGGATGTGTTACATGTTATGTGGTAGCTTTGGCTACATA
1 ATGATGGATGTGTTACATGTTATGTGGTAGCTTTGGCTACATA
50002460 ATGATGGATGTGTTACATGTTATGTGGTAGCTTTGGCTAC
1 ATGATGGATGTGTTACATGTTATGTGGTAGCTTTGGCTAC
50002500 GTTTGTATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.40
Consensus pattern (43 bp):
ATGATGGATGTGTTACATGTTATGTGGTAGCTTTGGCTACATA
Found at i:50003872 original size:20 final size:20
Alignment explanation
Indices: 50003843--50003880 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
50003833 CCCACACAAG
*
50003843 TAAAGGACACGGGCGTGTCC
1 TAAAGCACACGGGCGTGTCC
50003863 TAAAGCACACGGGCGTGT
1 TAAAGCACACGGGCGTGT
50003881 GCATTGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.34, T:0.16
Consensus pattern (20 bp):
TAAAGCACACGGGCGTGTCC
Found at i:50005812 original size:19 final size:19
Alignment explanation
Indices: 50005788--50005828 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
50005778 GGGAGACATC
50005788 ACACTATCACGAAGCTGTA
1 ACACTATCACGAAGCTGTA
50005807 ACACTATCACGAAGCTGTA
1 ACACTATCACGAAGCTGTA
50005826 ACA
1 ACA
50005829 TGTATAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.20
Consensus pattern (19 bp):
ACACTATCACGAAGCTGTA
Found at i:50013132 original size:40 final size:40
Alignment explanation
Indices: 50013029--50013213 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
50013019 TATTCAAATG
** * * *
50013029 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAAACCCGAAGGCATTTATGCT-AGTGACT
* * ** * *
50013070 ATATCCGGACTAAGATTCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAAACCCGAAGGCATTTATGCTAGTGACT
* * *
50013110 ATATCCGGG-TCAAAACCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCT-AAAACCCGAAGGCATTTATGCTAGTGACT
**
50013150 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAAACCCGAAGGCATTTATGCTAGTGACT
*
50013189 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAAACCCGAAGGC
50013214 CTTGTGCGAG
Statistics
Matches: 117, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.76
41 26 0.22
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTATGCTAGTGACT
Found at i:50013212 original size:80 final size:81
Alignment explanation
Indices: 50013029--50013213 Score: 225
Period size: 80 Copynumber: 2.3 Consensus size: 81
50013019 TATTCAAATG
* * * * *
50013029 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACTATATCCGGACTAAGATTCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
*
50013094 ATTTATGCGAGTTACT
66 ATTTATGCGAGTGACT
* * *
50013110 ATATCCGGG-TCAAAACCTGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAG
1 ATATCCGGGCT-AAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGAT-CCGAAG
*
50013172 GCATTTATGCTAGTGA-T
64 GCATTTATGCGAGTGACT
50013189 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
50013214 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
79 2 0.02
80 59 0.67
81 27 0.31
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
ATTTATGCGAGTGACT
Found at i:50017572 original size:25 final size:25
Alignment explanation
Indices: 50017544--50017613 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
50017534 CGTTCTGACC
*
50017544 TACATCTCGTGAGAGCATACCGATT
1 TACAGCTCGTGAGAGCATACCGATT
** *
50017569 TACAGCTCAAGTGAGCATACCGATT
1 TACAGCTCGTGAGAGCATACCGATT
*
50017594 CACAGCTCGT-ATGAGCATAC
1 TACAGCTCGTGA-GAGCATAC
50017614 ATGTATAGGA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (25 bp):
TACAGCTCGTGAGAGCATACCGATT
Found at i:50020325 original size:39 final size:39
Alignment explanation
Indices: 50020223--50020325 Score: 179
Period size: 39 Copynumber: 2.6 Consensus size: 39
50020213 TCGATTGATA
**
50020223 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
*
50020262 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTCT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
50020301 ACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTT
50020326 GAGCTAGTGG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
Found at i:50026638 original size:24 final size:25
Alignment explanation
Indices: 50026593--50026663 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
50026583 CTGAGTTGAT
* *
50026593 GAACAATAAGCTCT-ATCAAGCTGGA
1 GAACAGTAAGCTCTGA-CGAGCTGGA
*
50026618 -AATAGTAAGCTCTGACGAGCT-GA
1 GAACAGTAAGCTCTGACGAGCTGGA
* *
50026641 GAACAGTAAGCTCTTATGAGCTG
1 GAACAGTAAGCTCTGACGAGCTG
50026664 ATATATCAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.05
24 34 0.92
25 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (25 bp):
GAACAGTAAGCTCTGACGAGCTGGA
Found at i:50026664 original size:24 final size:26
Alignment explanation
Indices: 50026621--50026689 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 26
50026611 AGCTGGAAAT
* *
50026621 AGTAAGCTCTGACGAGCTGAGA-A-C
1 AGTAAGCTCTTATGAGCTGAGATATC
*
50026645 AGTAAGCTCTTATGAGCTGATATATC
1 AGTAAGCTCTTATGAGCTGAGATATC
*
50026671 AGTAAGCTCATATGAGCTG
1 AGTAAGCTCTTATGAGCTG
50026690 CAGTGAGTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 19 0.49
25 1 0.03
26 19 0.49
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (26 bp):
AGTAAGCTCTTATGAGCTGAGATATC
Found at i:50028325 original size:22 final size:23
Alignment explanation
Indices: 50028279--50028332 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
50028269 TAGCTTGTAT
*
50028279 GAGCTTACCGTTTTAGCTCTACG
1 GAGCTTACCGTTTCAGCTCTACG
*
50028302 GAGCTTACCG-TTCAGCTCTTCG
1 GAGCTTACCGTTTCAGCTCTACG
50028324 GAGCTTACC
1 GAGCTTACC
50028333 ATTTATCAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.17, C:0.30, G:0.22, T:0.31
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCTACG
Found at i:50028567 original size:25 final size:25
Alignment explanation
Indices: 50028511--50028581 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
50028501 ATATAATAGC
* *
50028511 TATATGATTTACATGAATTATAAGT
1 TATATGAATTACATGAATTATAAGA
* * * *
50028536 TACATGAATTACATGGATTTTATGA
1 TATATGAATTACATGAATTATAAGA
*
50028561 TATATGAATTACATAAATTAT
1 TATATGAATTACATGAATTAT
50028582 GTGAGTAATA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (25 bp):
TATATGAATTACATGAATTATAAGA
Found at i:50029727 original size:20 final size:20
Alignment explanation
Indices: 50029667--50029727 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
50029657 TTCTGAAATT
*
50029667 TTTAATATGTTACAATTT-AG
1 TTTAATATG-TATAATTTAAG
* * *
50029687 TCCTAA-ATGTATGATTAAAG
1 T-TTAATATGTATAATTTAAG
50029707 TTTAATATGTATAATTTAAG
1 TTTAATATGTATAATTTAAG
50029727 T
1 T
50029728 ACATAATGGA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
19 8 0.26
20 20 0.65
21 3 0.10
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (20 bp):
TTTAATATGTATAATTTAAG
Found at i:50031925 original size:20 final size:20
Alignment explanation
Indices: 50031900--50031940 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50031890 TTTTGATATC
50031900 ATTGTAGCTTAATCTAACTA
1 ATTGTAGCTTAATCTAACTA
50031920 ATTGTAGCTTAATCTAACTA
1 ATTGTAGCTTAATCTAACTA
50031940 A
1 A
50031941 CCCAAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (20 bp):
ATTGTAGCTTAATCTAACTA
Found at i:50034210 original size:38 final size:38
Alignment explanation
Indices: 50034161--50034249 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
50034151 GTTACTGTTG
* * * *
50034161 CTACTGCTACTA-TATAACTGATTGCATGTTCAGCATGC
1 CTACTGTTACTATTA-AACTAATTGCATGATAAGCATGC
*
50034199 CTACTGTTACTATTAAACTAATTGCATGATAAGCATGT
1 CTACTGTTACTATTAAACTAATTGCATGATAAGCATGC
* *
50034237 CTATTGTTCCTAT
1 CTACTGTTACTAT
50034250 GTTGTACTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 41 0.95
39 2 0.05
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.38
Consensus pattern (38 bp):
CTACTGTTACTATTAAACTAATTGCATGATAAGCATGC
Found at i:50035944 original size:30 final size:28
Alignment explanation
Indices: 50035891--50035956 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
50035881 TGCTAAGACT
* *
50035891 AAATTT-TCAAAAAAGATCAATTTTTTTA
1 AAATTTAT-AAAAAAGACCAATTTTTTAA
50035919 AAATATTATAAAAATAGACCAATTTTTTAA
1 AAAT-TTATAAAAA-AGACCAATTTTTTAA
50035949 AAATTTAT
1 AAATTTAT
50035957 GGGAATAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 4 0.12
29 11 0.33
30 18 0.55
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (28 bp):
AAATTTATAAAAAAGACCAATTTTTTAA
Found at i:50045380 original size:46 final size:46
Alignment explanation
Indices: 50045330--50045455 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
50045320 TGGTTGAGCA
*
50045330 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
50045376 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
50045422 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50045456 GGTGCGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:50049835 original size:12 final size:12
Alignment explanation
Indices: 50049818--50049851 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
50049808 GAGATTTTGA
50049818 TAATGTTCATGC
1 TAATGTTCATGC
50049830 TAATGTTCATGC
1 TAATGTTCATGC
*
50049842 TAATATTCAT
1 TAATGTTCAT
50049852 CATGTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (12 bp):
TAATGTTCATGC
Found at i:50051236 original size:4 final size:4
Alignment explanation
Indices: 50051219--50052107 Score: 941
Period size: 4 Copynumber: 225.5 Consensus size: 4
50051209 TGGAGGACAG
*
50051219 GTAT GTAT GCAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
50051267 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * *
50051315 GTAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT GCAT GTAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
50051363 GCAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT CTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
50051411 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GAAT GTAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * *
50051459 GCAT GTA- -TAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
50051505 GTAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT GTA- -TAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * *
50051551 GCAT GTAT GCAT GTA- -TAT GCAT GTAT GCAT GGAT GCAT GTA- -TAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
50051595 GCAT GCAT GTAT GCAT GTA- -TAT GCAT GTAT GTGCAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT--AT GTAT GTAT GTAT
* * * * *
50051643 GCAT GTAT GTGCAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT GTAT GCAT
1 GTAT GTAT GT--AT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
50051693 GTA- -TAT GCAT GTAT GCAT GTAT GTAT GCAT GTAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * *
50051739 -CAT TTAT GCAT GTAT GTAT GCAT GTAC GCAT GTAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * *
50051786 GTAT GCAT GTAT -CAT TTAT GCAT GTAT GTAT GCAT GTAC GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
50051833 GTAT GCAT GTAT GCAT GTA- -TAT GCAT GTAT GCAT GTA- -TAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
50051877 GTAT GTAT GTAT GCAT GTAT GCAT GTAT GCAT GCAT GTAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
50051925 GTAT GTAT GCAT GTAT GTAT GCAT GTAT GTAT GTAT GTAT GATGT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-TAT GTAT
*
50051974 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT ATAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
50052022 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT ATAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
50052070 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
50052108 TTAGAAATGA
Statistics
Matches: 726, Mismatches: 136, Indels: 46
0.80 0.15 0.05
Matches are distributed among these distances:
2 16 0.02
3 4 0.01
4 695 0.96
5 3 0.00
6 8 0.01
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (4 bp):
GTAT
Found at i:50053462 original size:33 final size:33
Alignment explanation
Indices: 50053420--50053484 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
50053410 AAAATATTTT
50053420 AAATATTTTAATATAA-TTACATATAAAAATAAA
1 AAATATTTTAATATAATTTA-ATATAAAAATAAA
*
50053453 AAATCTTTTAATATAATTTAATATAAAAATAA
1 AAATATTTTAATATAATTTAATATAAAAATAA
50053485 TTATATTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (33 bp):
AAATATTTTAATATAATTTAATATAAAAATAAA
Found at i:50060088 original size:18 final size:17
Alignment explanation
Indices: 50060030--50060089 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
50060020 TAGTTAATTT
*
50060030 TTTTAAAATGTTAAAAA
1 TTTTAAAATATTAAAAA
50060047 TTTTAAAA-ATTCAATAAA
1 TTTTAAAATATT-AA-AAA
*
50060065 TTTTAAAATATTTAAAA
1 TTTTAAAATATTAAAAA
50060082 TTATTAAA
1 TT-TTAAA
50060090 TAAGTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 2 0.05
17 15 0.41
18 17 0.46
19 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTTAAAATATTAAAAA
Found at i:50060099 original size:35 final size:34
Alignment explanation
Indices: 50060030--50060099 Score: 79
Period size: 35 Copynumber: 2.0 Consensus size: 34
50060020 TAGTTAATTT
* *
50060030 TTTTAAAATGTTAAAAATTTTAAAAATTCAATAAA
1 TTTTAAAATATTAAAAATTTTAAAAAGT-AATAAA
*
50060065 TTTTAAAATATTTAAAATTATTAAATAAGT-ATAAA
1 TTTTAAAATATTAAAAATT-TTAAA-AAGTAATAAA
50060100 AATATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
35 22 0.73
36 5 0.17
37 3 0.10
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (34 bp):
TTTTAAAATATTAAAAATTTTAAAAAGTAATAAA
Found at i:50061489 original size:21 final size:21
Alignment explanation
Indices: 50061465--50061506 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
50061455 CTATTGAAAA
* *
50061465 AAAAATTTAAAGTATTAATTT
1 AAAAATCTAAAGTATCAATTT
50061486 AAAAATCTAAAGTATCAATTT
1 AAAAATCTAAAGTATCAATTT
50061507 TACTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAAATCTAAAGTATCAATTT
Found at i:50061744 original size:9 final size:9
Alignment explanation
Indices: 50061720--50061907 Score: 61
Period size: 9 Copynumber: 20.7 Consensus size: 9
50061710 CATTTTATAT
*
50061720 TAAAAACTA
1 TAAAAATTA
*
50061729 TAGAAATTA
1 TAAAAATTA
50061738 TAAAAATTA
1 TAAAAATTA
*
50061747 AAAACAATTA
1 TAAA-AATTA
*
50061757 TAAATATATA
1 TAAAAAT-TA
* *
50061767 TATAAAGTGGA
1 TA-AAAAT-TA
*
50061778 -AAAAAATA
1 TAAAAATTA
50061786 TAAAATGATTA
1 TAAAA--ATTA
*
50061797 T--AAATGA
1 TAAAAATTA
*
50061804 AAAAAATTA
1 TAAAAATTA
*
50061813 TATAAATTA
1 TAAAAATTA
50061822 T-AAAATTA
1 TAAAAATTA
* *
50061830 TTAAAATTG
1 TAAAAATTA
* *
50061839 CAAAAAATA
1 TAAAAATTA
50061848 TTAAAAATTTA
1 -TAAAAA-TTA
* *
50061859 TTAAAATGA
1 TAAAAATTA
*
50061868 CAAAATATTA
1 TAAAA-ATTA
50061878 -AATAAATTA
1 TAA-AAATTA
50061887 -AGAAAA--A
1 TA-AAAATTA
50061894 TAAAAA-TA
1 TAAAAATTA
50061902 TAAAAA
1 TAAAAA
50061908 AATATTTAAA
Statistics
Matches: 131, Mismatches: 32, Indels: 33
0.67 0.16 0.17
Matches are distributed among these distances:
7 8 0.06
8 16 0.12
9 68 0.52
10 29 0.22
11 10 0.08
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:50061801 original size:17 final size:17
Alignment explanation
Indices: 50061781--50061836 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
50061771 AAGTGGAAAA
*
50061781 AAATATAAAATGATTAT
1 AAATATAAAATTATTAT
*
50061798 AAATGAAAAAAATTA-TAT
1 AAAT--ATAAAATTATTAT
50061816 AAATTATAAAATTATTA-
1 AAA-TATAAAATTATTAT
50061833 AAAT
1 AAAT
50061837 TGCAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.03
17 15 0.47
18 8 0.25
19 8 0.25
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (17 bp):
AAATATAAAATTATTAT
Found at i:50061815 original size:29 final size:29
Alignment explanation
Indices: 50061727--50061823 Score: 78
Period size: 29 Copynumber: 3.4 Consensus size: 29
50061717 TATTAAAAAC
* *
50061727 TATAGAAAT-TATAAAAATTAAAAACAATTA
1 TATA-AAATATATATAAATGAAAAA-AATTA
* *
50061757 TA-AATATATATATAAAGTGGAAAAAA--A
1 TATAAAATATATATAAA-TGAAAAAAATTA
50061784 TATAAAATGAT-TATAAATGAAAAAAATTA
1 TATAAAAT-ATATATAAATGAAAAAAATTA
*
50061813 TATAAATTATA
1 TATAAAATATA
50061824 AAATTATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
27 11 0.21
28 15 0.28
29 20 0.38
30 7 0.13
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (29 bp):
TATAAAATATATATAAATGAAAAAAATTA
Found at i:50061821 original size:25 final size:25
Alignment explanation
Indices: 50061721--50061825 Score: 68
Period size: 27 Copynumber: 3.8 Consensus size: 25
50061711 ATTTTATATT
* * *
50061721 AAAAACTATAGAAATTATAAAAATTAA
1 AAAAATTATATAAATTAT--AAATGAA
*
50061748 AAACAATTATAAATATATATATAAAGTGGAA
1 AAA-AATTAT--ATAAAT-TATAAA-T-GAA
*
50061779 AAAAA-TATAAAATGATTATAAATGAA
1 AAAAATTATATAA--ATTATAAATGAA
50061805 AAAAATTATATAAATTATAAA
1 AAAAATTATATAAATTATAAA
50061826 ATTATTAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
25 8 0.13
26 8 0.13
27 12 0.19
28 11 0.18
29 8 0.13
30 7 0.11
31 8 0.13
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.29
Consensus pattern (25 bp):
AAAAATTATATAAATTATAAATGAA
Found at i:50061825 original size:65 final size:65
Alignment explanation
Indices: 50061739--50061920 Score: 160
Period size: 65 Copynumber: 2.8 Consensus size: 65
50061729 TAGAAATTAT
* *
50061739 AAAAATTAAAAACAATTATAAATATATATATAAAGTGGAAAAAAATA-T-AAAA-TGATTATAAA
1 AAAAATTAAATA-AATTATAAA-AT-TAT-TAAAATGGAAAAAAATATTAAAAATTGATTA-AAA
50061801 TGA-A
61 TGACA
* * * *
50061805 AAAAATTATATAAATTATAAAATTATTAAAATTGCAAAAAATATTAAAAATTTATTAAAATGACA
1 AAAAATTAAATAAATTATAAAATTATTAAAATGGAAAAAAATATTAAAAATTGATTAAAATGACA
* * * **
50061870 AAATATTAAATAAATTA-AGAAA-AATAAAAATATAAAAAAATATTTAAAAAT
1 AAAAATTAAATAAATTATA-AAATTATTAAAATGGAAAAAAATA-TTAAAAAT
50061921 GTAGATAATT
Statistics
Matches: 97, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
62 14 0.14
63 4 0.04
64 28 0.29
65 41 0.42
66 10 0.10
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (65 bp):
AAAAATTAAATAAATTATAAAATTATTAAAATGGAAAAAAATATTAAAAATTGATTAAAATGACA
Found at i:50061856 original size:36 final size:34
Alignment explanation
Indices: 50061778--50061867 Score: 92
Period size: 36 Copynumber: 2.5 Consensus size: 34
50061768 ATAAAGTGGA
*
50061778 AAAAAATATAAAATGATTATAAATGAAAAAAATT
1 AAAAATTATAAAATGATTATAAATGAAAAAAATT
*
50061812 ATATAAATTATAAAATTATTA-AAATTGCAAAAAATATT
1 A-A-AAATTATAAAATGATTATAAA-TG-AAAAAA-ATT
50061850 AAAAATTTATTAAAATGA
1 AAAAA-TTA-TAAAATGA
50061868 CAAAATATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
34 1 0.02
35 4 0.09
36 20 0.43
37 10 0.22
38 11 0.24
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (34 bp):
AAAAATTATAAAATGATTATAAATGAAAAAAATT
Found at i:50061884 original size:29 final size:30
Alignment explanation
Indices: 50061821--50061885 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
50061811 TATATAAATT
*
50061821 ATAAAATTATTAAAATTGCAAAAAATATTA
1 ATAAATTTATTAAAATTGCAAAAAATATTA
*
50061851 A-AAATTTATTAAAA-TG-ACAAAATATTAA
1 ATAAATTTATTAAAATTGCAAAAAATATT-A
50061879 ATAAATT
1 ATAAATT
50061886 AAGAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 9 0.29
28 4 0.13
29 17 0.55
30 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (30 bp):
ATAAATTTATTAAAATTGCAAAAAATATTA
Found at i:50061996 original size:10 final size:11
Alignment explanation
Indices: 50061972--50062003 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
50061962 TATGAAATAC
50061972 AAAAATTATAT
1 AAAAATTATAT
50061983 AAAAATTATA-
1 AAAAATTATAT
50061993 AAAAATT-TAT
1 AAAAATTATAT
50062003 A
1 A
50062004 TGCTTCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.10
10 8 0.40
11 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATTATAT
Found at i:50062234 original size:9 final size:9
Alignment explanation
Indices: 50062222--50062531 Score: 68
Period size: 9 Copynumber: 34.8 Consensus size: 9
50062212 ATTTTTAATT
50062222 TTTTTATAA
1 TTTTTATAA
**
50062231 TTTTTATGC
1 TTTTTATAA
*
50062240 TTTTCATAA
1 TTTTTATAA
* *
50062249 TATATTGTAA
1 T-TTTTATAA
*
50062259 ATTTTATTAA
1 TTTTTA-TAA
*
50062269 TTTGTA-ATA
1 TTTTTATA-A
*
50062278 TTTTAATAA
1 TTTTTATAA
50062287 -TTTTATATA
1 TTTTTATA-A
*
50062296 CTTTTA-AA
1 TTTTTATAA
50062304 TTTTTCCATAA
1 TTTTT--ATAA
*
50062315 -TTTTACAA
1 TTTTTATAA
*
50062323 TTTTTAT-T
1 TTTTTATAA
*
50062331 TCTTTTTTAA
1 T-TTTTATAA
* *
50062341 TTCATT-T-C
1 TT-TTTATAA
50062349 T-TTTATAA
1 TTTTTATAA
*
50062357 -TTATATAA
1 TTTTTATAA
50062365 TTTTTA-AA
1 TTTTTATAA
50062373 --TTT-T-A
1 TTTTTATAA
*
50062378 TTTTAATAA
1 TTTTTATAA
50062387 -TTTTA-AA
1 TTTTTATAA
50062394 TTTTT-TAAA
1 TTTTTAT-AA
50062403 TTTTTAGT-A
1 TTTTTA-TAA
*
50062412 TTTAATATAA
1 TTT-TTATAA
*
50062422 TTTTTAGTTA
1 TTTTTA-TAA
* *
50062432 TTTATATATT
1 TTTTTATA-A
50062442 TTTTTATAA
1 TTTTTATAA
50062451 TTTTCTAT-A
1 TTTT-TATAA
50062460 TCTTTTATAA
1 T-TTTTATAA
* *
50062470 TTTTTTTAC
1 TTTTTATAA
50062479 TTTTCTAT-A
1 TTTT-TATAA
* *
50062488 -TTTTGTAC
1 TTTTTATAA
*
50062496 TTTTTAAATA
1 TTTTTATA-A
50062506 TTTTATATAA
1 TTTT-TATAA
* *
50062516 CTTTTATGA
1 TTTTTATAA
50062525 TTTTTAT
1 TTTTTAT
50062532 TGTTTTATGA
Statistics
Matches: 211, Mismatches: 51, Indels: 78
0.62 0.15 0.23
Matches are distributed among these distances:
5 1 0.00
6 5 0.02
7 7 0.03
8 37 0.18
9 91 0.43
10 64 0.30
11 6 0.03
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50062349 original size:16 final size:16
Alignment explanation
Indices: 50062328--50062358 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50062318 TACAATTTTT
*
50062328 ATTTCTTTTTTAATTC
1 ATTTCTTTTATAATTC
50062344 ATTTCTTTTATAATT
1 ATTTCTTTTATAATT
50062359 ATATAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTCTTTTATAATTC
Found at i:50062399 original size:30 final size:29
Alignment explanation
Indices: 50062349--50062406 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
50062339 AATTCATTTC
50062349 TTTTATAATTATATAATTTTTAAATTTTA
1 TTTTATAATTATATAATTTTTAAATTTTA
*
50062378 TTTTAATAATTTTA-AATTTTTTAAATTTT
1 TTTT-ATAATTATATAA-TTTTTAAATTTT
50062407 TAGTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTATAATTATATAATTTTTAAATTTTA
Found at i:50062447 original size:20 final size:19
Alignment explanation
Indices: 50062401--50062444 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
50062391 AAATTTTTTA
50062401 AATTTTTAGTATTTAATAT
1 AATTTTTAGTATTTAATAT
50062420 AATTTTTAGTTATTT-ATAT
1 AATTTTTAG-TATTTAATAT
50062439 -ATTTTT
1 AATTTTT
50062445 TTATAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
AATTTTTAGTATTTAATAT
Found at i:50062453 original size:19 final size:19
Alignment explanation
Indices: 50062432--50062545 Score: 60
Period size: 18 Copynumber: 6.2 Consensus size: 19
50062422 TTTTTAGTTA
*
50062432 TTTATATATTTTTTTATAAT
1 TTTATATA-TCTTTTATAAT
*
50062452 TTTCTATATCTTTTATAAT
1 TTTATATATCTTTTATAAT
* *
50062471 TTT-TTTA-CTTTTCTATAT
1 TTTATATATCTTTTATA-AT
* * *
50062489 TTTGTA-CT-TTTTAAATAT
1 TTTATATATCTTTTATA-AT
* *
50062507 TTTATATAACTTTTATGAT
1 TTTATATATCTTTTATAAT
* *
50062526 TTT-TAT-TGTTTTATGAT
1 TTTATATATCTTTTATAAT
50062543 TTT
1 TTT
50062546 TTTAATAATT
Statistics
Matches: 74, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
17 19 0.26
18 24 0.32
19 19 0.26
20 12 0.16
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTATATATCTTTTATAAT
Found at i:50062474 original size:28 final size:27
Alignment explanation
Indices: 50062442--50062531 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
50062432 TTTATATATT
50062442 TTTTTATAATTTTCTATATCTTTTATAA
1 TTTTTATAATTTTCTATA-CTTTTATAA
* * * *
50062470 TTTTTTTACTTTTCTATA-TTTTGTAC
1 TTTTTATAATTTTCTATACTTTTATAA
* * *
50062496 TTTTTAAATATTTTATATAACTTTTATGA
1 TTTTTATA-ATTTTCTAT-ACTTTTATAA
50062525 TTTTTAT
1 TTTTTAT
50062532 TGTTTTATGA
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
26 12 0.26
27 7 0.15
28 17 0.36
29 11 0.23
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTTTATAATTTTCTATACTTTTATAA
Found at i:50063211 original size:19 final size:19
Alignment explanation
Indices: 50063184--50063235 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
50063174 CAAAAAGATT
*
50063184 ATAAGAAATATTTAAAAAA
1 ATAAAAAATATTTAAAAAA
* **
50063203 ATAAAAAATAATTAAAATT
1 ATAAAAAATATTTAAAAAA
50063222 ATAATAAAATATTT
1 ATAA-AAAATATTT
50063236 TTAATATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
ATAAAAAATATTTAAAAAA
Found at i:50064000 original size:16 final size:17
Alignment explanation
Indices: 50063971--50064003 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50063961 AATATAAATT
*
50063971 AATTTAGATGATATTTA
1 AATTTAGATAATATTTA
50063988 AATTTAG-TAATATTTA
1 AATTTAGATAATATTTA
50064004 TAATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
AATTTAGATAATATTTA
Found at i:50068009 original size:6 final size:6
Alignment explanation
Indices: 50067985--50068023 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
50067975 TCTTACTTTA
*
50067985 CCCATTC CCCATC CTCATC CCCATC CCCATC CCCATC CC
1 CCCA-TC CCCATC CCCATC CCCATC CCCATC CCCATC CC
50068024 TTCTCATCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.15, C:0.64, G:0.00, T:0.21
Consensus pattern (6 bp):
CCCATC
Done.