Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 184 of 253
Found at i:59946246 original size:29 final size:29
Alignment explanation
Indices: 59946200--59946300 Score: 89
Period size: 31 Copynumber: 3.4 Consensus size: 29
59946190 TTCTGGGGCT
*
59946200 AAATGTAATTTTTAGAAAATTTA-GGGTTA
1 AAATGTAA-TTTAAGAAAATTTAGGGGTTA
*
59946229 AAATGTAATTTAAGGAAATTTTAGGGGTCT-
1 AAATGTAATTTAA-GAAAATTTAGGGGT-TA
* * *
59946259 AAGTGAAATTTAAAGAAAAGTTTAGGGGTCA
1 AAATGTAATTT-AAGAAAA-TTTAGGGGTTA
*
59946290 AAATGCAATTT
1 AAATGTAATTT
59946301 TTTTTTATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
28 4 0.07
29 16 0.28
30 17 0.29
31 21 0.36
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.35
Consensus pattern (29 bp):
AAATGTAATTTAAGAAAATTTAGGGGTTA
Found at i:59952728 original size:31 final size:30
Alignment explanation
Indices: 59952685--59952758 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 30
59952675 AAAAATGAAT
*
59952685 AAAATTA-TAAAAAATATTAAAATTTTATA
1 AAAATTAGAAAAAAATATTAAAATTTTATA
*
59952714 AAAATATAGAAAAAAATATTAAAATTTTATT
1 AAAAT-TAGAAAAAAATATTAAAATTTTATA
*
59952745 AAAATTATAAAAAA
1 AAAATTAGAAAAAA
59952759 TATAAGCCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.12
30 10 0.25
31 25 0.62
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAATTAGAAAAAAATATTAAAATTTTATA
Found at i:59952963 original size:18 final size:16
Alignment explanation
Indices: 59952929--59952973 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 16
59952919 ATTTTACAAC
59952929 TTTAAAAATATAAAAT
1 TTTAAAAATATAAAAT
59952945 TTTAAAAAGTATCAAAAT
1 TTTAAAAA-TAT-AAAAT
*
59952963 TTTCAAAATAT
1 TTTAAAAATAT
59952974 TGATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.31
17 6 0.23
18 12 0.46
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (16 bp):
TTTAAAAATATAAAAT
Found at i:59956221 original size:16 final size:16
Alignment explanation
Indices: 59956195--59956232 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
59956185 AAGCATATTT
59956195 CATAGCATGCAACATGA
1 CATA-CATGCAACATGA
59956212 CATACATGCAACATGA
1 CATACATGCAACATGA
59956228 CATAC
1 CATAC
59956233 TTAGACATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.18
Consensus pattern (16 bp):
CATACATGCAACATGA
Found at i:59957046 original size:12 final size:12
Alignment explanation
Indices: 59957029--59957053 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59957019 AACGTACATA
59957029 CCTGTACATATC
1 CCTGTACATATC
59957041 CCTGTACATATC
1 CCTGTACATATC
59957053 C
1 C
59957054 GTAGCATATT
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:0.36, G:0.08, T:0.32
Consensus pattern (12 bp):
CCTGTACATATC
Found at i:59959531 original size:46 final size:46
Alignment explanation
Indices: 59959481--59959656 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
59959471 TGGTTGAGCA
*
59959481 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
59959527 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
59959574 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59959620 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59959657 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59959637 original size:93 final size:93
Alignment explanation
Indices: 59959478--59959648 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
59959468 GGATGGTTGA
*
59959478 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*
59959543 TGAGTTCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
59959571 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
59959636 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59959649 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:59962751 original size:20 final size:20
Alignment explanation
Indices: 59962728--59962776 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
59962718 TTTTTTCTTG
*
59962728 TTTTTTTATTTGTTTATTAT
1 TTTTTTTATTCGTTTATTAT
** *
59962748 TTTTTAAAATCGTTTATTAT
1 TTTTTTTATTCGTTTATTAT
*
59962768 TTGTTTTAT
1 TTTTTTTAT
59962777 AATATTTTAT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.71
Consensus pattern (20 bp):
TTTTTTTATTCGTTTATTAT
Found at i:59963587 original size:15 final size:16
Alignment explanation
Indices: 59963567--59963599 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
59963557 ATGTTTGAAA
59963567 TGTAAAAT-TATATTT
1 TGTAAAATATATATTT
59963582 TGTAAAATATATATTT
1 TGTAAAATATATATTT
59963598 TG
1 TG
59963600 AATAATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TGTAAAATATATATTT
Found at i:59971183 original size:49 final size:49
Alignment explanation
Indices: 59971121--59971349 Score: 183
Period size: 49 Copynumber: 4.6 Consensus size: 49
59971111 CAAGGCTATT
* * * *
59971121 TGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCATTTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* * * * ***
59971170 TGGTACACGTAGTATCCTGCACTTAGTATTACTCA-CCTGACCTAACCGTC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGC-GACC-AATTATC
* * * * *
59971220 TGATACACGTAGTAGCCTGCACTTAGTATTACACACGTGATCAAAGTTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATC
* * * **
59971271 -GAGTACGCATAGTAGCCTGCACTTAGCACTACACATGCGAATAATTATC
1 TG-GTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
** *
59971320 CAGTACACGTAGTAGCTTGCACTTAGTACT
1 TGGTACACGTAGTAGCCTGCACTTAGTACT
59971350 TGTAACACCC
Statistics
Matches: 139, Mismatches: 34, Indels: 14
0.74 0.18 0.07
Matches are distributed among these distances:
48 1 0.01
49 62 0.45
50 42 0.30
51 34 0.24
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
Found at i:59972372 original size:47 final size:47
Alignment explanation
Indices: 59972301--59973071 Score: 1299
Period size: 47 Copynumber: 16.3 Consensus size: 47
59972291 CCCTTCGGGA
* * * * * *
59972301 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
59972348 CCTATCACATATATACACTTTCACATTCATCACATTGACCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59972395 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59972442 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59972489 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59972536 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59972583 CCTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59972630 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59972677 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59972724 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59972771 CTTATCACATATATATACACTTTCACATTCACCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59972820 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59972869 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59972916 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59972963 CTTATCACATATATACACTTTCACATTAATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59973010 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59973059 CTTATCACATATA
1 CTTATCACATATA
59973072 CTATCATGTA
Statistics
Matches: 693, Mismatches: 27, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 555 0.80
49 138 0.20
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59972379 original size:25 final size:25
Alignment explanation
Indices: 59972351--59972429 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
59972341 ACTCGGCCCT
59972351 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
* * * *
59972376 ATCACAT-T-GAC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
59972398 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
59972423 ATCACAT
1 ATCACAT
59972430 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:59975858 original size:27 final size:27
Alignment explanation
Indices: 59975797--59975859 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
59975787 TGTAGCAATT
** * *
59975797 CATTCAACCCATGTAATAGTAATTTAA
1 CATTCAATTCATGTAACAATAATTTAA
**
59975824 CATTCAATTCATGTAACAATAATTTGC
1 CATTCAATTCATGTAACAATAATTTAA
59975851 CATTCAATT
1 CATTCAATT
59975860 TCACATGACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (27 bp):
CATTCAATTCATGTAACAATAATTTAA
Found at i:59978367 original size:15 final size:15
Alignment explanation
Indices: 59978347--59978408 Score: 81
Period size: 15 Copynumber: 4.1 Consensus size: 15
59978337 GAAAATCGAG
59978347 TAAAGAAATCCAAGA
1 TAAAGAAATCCAAGA
*
59978362 TAAAGAAA-CCCAGAA
1 TAAAGAAATCCAAG-A
*
59978377 TAAAGAAATCCAAAA
1 TAAAGAAATCCAAGA
*
59978392 TAAAGAAACCCAAGA
1 TAAAGAAATCCAAGA
59978407 TA
1 TA
59978409 CGATACTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 4 0.10
15 33 0.82
16 3 0.08
ACGTcount: A:0.61, C:0.16, G:0.11, T:0.11
Consensus pattern (15 bp):
TAAAGAAATCCAAGA
Found at i:59978383 original size:30 final size:30
Alignment explanation
Indices: 59978347--59978403 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
59978337 GAAAATCGAG
*
59978347 TAAAGAAATCCAAGATAAAGAAACCCAGAA
1 TAAAGAAATCCAAAATAAAGAAACCCAGAA
59978377 TAAAGAAATCCAAAATAAAGAAACCCA
1 TAAAGAAATCCAAAATAAAGAAACCCA
59978404 AGATACGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.61, C:0.18, G:0.11, T:0.11
Consensus pattern (30 bp):
TAAAGAAATCCAAAATAAAGAAACCCAGAA
Found at i:59981602 original size:49 final size:49
Alignment explanation
Indices: 59981533--59981777 Score: 256
Period size: 49 Copynumber: 4.9 Consensus size: 49
59981523 TAGCCAAGGC
* * *
59981533 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * * *
59981582 TATCCAGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
** * * * * * *
59981632 CGTCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * * * *
59981683 TATCGGGTACGCATAGCAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
59981732 TATCCGGTACACATAGTAGCTTGCACTTAATACTACACATGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
59981778 TCACAATATA
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 81 0.51
50 44 0.28
51 34 0.21
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:59981672 original size:28 final size:27
Alignment explanation
Indices: 59981590--59981673 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
59981580 ATTATCCAGT
*
59981590 ACACGTAGTAGCCTGTACTTAGTACTAC
1 ACACGTAGTAGCCT-AACTTAGTACTAC
* *
59981618 ACACGT-G-A-CCTAAC--CGT-CTGAT
1 ACACGTAGTAGCCTAACTTAGTACT-AC
59981640 ACACGTAGTAGCCTACACTTAGTACTAC
1 ACACGTAGTAGCCTA-ACTTAGTACTAC
59981668 ACACGT
1 ACACGT
59981674 GATCGAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
21 2 0.05
22 9 0.21
23 1 0.02
24 3 0.07
25 7 0.16
26 3 0.07
27 1 0.02
28 15 0.35
29 2 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (27 bp):
ACACGTAGTAGCCTAACTTAGTACTAC
Found at i:59982057 original size:27 final size:27
Alignment explanation
Indices: 59982027--59982080 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59982017 TCATACAACC
* *
59982027 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
59982054 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
59982081 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:59983790 original size:100 final size:98
Alignment explanation
Indices: 59983659--59983850 Score: 305
Period size: 100 Copynumber: 1.9 Consensus size: 98
59983649 TATAATTTTT
* * * *
59983659 AAAAAAAGTTTAAGTAAAAAATATTATAAAACATTTAAAATATATATTTAATATATTATAAAACA
1 AAAAAAAGTTTAAGTAAAAAAAATTATAAAACATTTAAAATATACATTTAAAAAATTATAAAACA
*
59983724 AATAATAAACAATTTTAAGAAAACAAATTTTCAA
66 AATAATAAACAA-TTTAAAAAAACAAATTTTCAA
59983758 AAAAAAAGTTTGAA-TAAACAAAAATTATAAAACATTTAAAATATACATTTAAAAAATTATAAAA
1 AAAAAAAGTTT-AAGTAAA-AAAAATTATAAAACATTTAAAATATACATTTAAAAAATTATAAAA
59983822 CAAATAATAAACAATTTAAAAAAACAAAT
64 CAAATAATAAACAATTTAAAAAAACAAAT
59983851 AAAAAATAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
99 29 0.34
100 57 0.66
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (98 bp):
AAAAAAAGTTTAAGTAAAAAAAATTATAAAACATTTAAAATATACATTTAAAAAATTATAAAACA
AATAATAAACAATTTAAAAAAACAAATTTTCAA
Found at i:59983835 original size:11 final size:11
Alignment explanation
Indices: 59983818--59983886 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
59983808 AAAAAATTAT
59983818 AAAACAAATAA
1 AAAACAAATAA
* *
59983829 TAAACAATTTAAA
1 AAAACAA-AT-AA
59983842 AAAACAAATAA
1 AAAACAAATAA
*
59983853 AAAATAAATAA
1 AAAACAAATAA
*
59983864 AGAA-AAATAA
1 AAAACAAATAA
59983874 AGAAACAAA-AA
1 A-AAACAAATAA
59983885 AA
1 AA
59983887 CAAAAAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 8 0.17
11 26 0.55
12 5 0.11
13 8 0.17
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAACAAATAA
Found at i:59983845 original size:32 final size:30
Alignment explanation
Indices: 59983777--59983844 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
59983767 TTGAATAAAC
*
59983777 AAAAATTATAAAACATTTAAAATATACATTTA
1 AAAAATTATAAAACA--TAAAATAAACATTTA
59983809 AAAAATTATAAAACA-AATAATAAACAATTTA
1 AAAAATTATAAAACATAA-AATAAAC-ATTTA
59983840 AAAAA
1 AAAAA
59983845 ACAAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 2 0.06
30 6 0.18
31 10 0.30
32 15 0.45
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (30 bp):
AAAAATTATAAAACATAAAATAAACATTTA
Found at i:59983869 original size:24 final size:24
Alignment explanation
Indices: 59983818--59983881 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
59983808 AAAAAATTAT
* *
59983818 AAAACAAATAATAAACAATTTAAA
1 AAAACAAATAAAAAACAATATAAA
*
59983842 AAAACAAATAAAAAATAA-AT-AA
1 AAAACAAATAAAAAACAATATAAA
*
59983864 AGAA-AAATAAAGAAACAA
1 AAAACAAATAAA-AAACAA
59983882 AAAAACAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 7 0.21
22 10 0.29
23 1 0.03
24 16 0.47
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (24 bp):
AAAACAAATAAAAAACAATATAAA
Found at i:59988190 original size:40 final size:40
Alignment explanation
Indices: 59988153--59988418 Score: 340
Period size: 40 Copynumber: 6.6 Consensus size: 40
59988143 GCTACTCGTT
* *
59988153 CAAATGCCTTCGGGACATAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
59988193 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
59988233 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
59988273 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * * * *
59988313 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
* ** *
59988354 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAC-TCGCA
*
59988394 CAAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
59988419 ATATCATTCG
Statistics
Matches: 204, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.02
40 167 0.82
41 33 0.16
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:59996387 original size:77 final size:79
Alignment explanation
Indices: 59996267--59996489 Score: 312
Period size: 77 Copynumber: 2.8 Consensus size: 79
59996257 GCTACTCGTT
*
59996267 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
59996332 -TTAG-AACTCGCA
66 ATTAGTAACTCGCA
*
59996344 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
59996408 ATTTAGTATCTCGCA
66 A-TTAGTAACTCGCA
* * * * *
59996423 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
59996486 GGAT
64 GGAT
59996490 ATCATTCGAA
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
76 9 0.07
77 53 0.40
78 7 0.05
79 44 0.34
80 18 0.14
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTAGTAACTCGCA
Found at i:59996488 original size:40 final size:40
Alignment explanation
Indices: 59996248--59996491 Score: 304
Period size: 40 Copynumber: 6.2 Consensus size: 40
59996238 CGGAATTTAA
** *
59996248 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
59996288 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
59996328 CCGG-T-TAG-AACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59996365 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59996404 CCGGATTTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59996444 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59996484 CCGGATAT
1 CCGGATAT
59996492 CATTCGAATA
Statistics
Matches: 180, Mismatches: 16, Indels: 16
0.85 0.08 0.08
Matches are distributed among these distances:
37 33 0.18
38 6 0.03
39 37 0.21
40 93 0.52
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60000458 original size:16 final size:15
Alignment explanation
Indices: 60000426--60000456 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60000416 GGTTTCTCTC
60000426 ACCTAAACCCTAAAA
1 ACCTAAACCCTAAAA
*
60000441 ACCTTAACCCTAAAA
1 ACCTAAACCCTAAAA
60000456 A
1 A
60000457 ACAAAAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (15 bp):
ACCTAAACCCTAAAA
Found at i:60008636 original size:7 final size:7
Alignment explanation
Indices: 60008624--60008648 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
60008614 TAACATTTTC
60008624 ATCATTT
1 ATCATTT
60008631 ATCATTT
1 ATCATTT
60008638 ATCATTT
1 ATCATTT
60008645 ATCA
1 ATCA
60008649 GACATTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (7 bp):
ATCATTT
Found at i:60012566 original size:15 final size:15
Alignment explanation
Indices: 60012546--60012578 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
60012536 GTGGAGGTCG
60012546 TAAAGCCTCAAAATT
1 TAAAGCCTCAAAATT
60012561 TAAAGCCTCAAAATT
1 TAAAGCCTCAAAATT
60012576 TAA
1 TAA
60012579 CTTTCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (15 bp):
TAAAGCCTCAAAATT
Found at i:60014631 original size:7 final size:7
Alignment explanation
Indices: 60014587--60014613 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
60014577 AAGTAACATT
60014587 TTTATCA
1 TTTATCA
60014594 TTTATCA
1 TTTATCA
60014601 TTTATCA
1 TTTATCA
60014608 TTTATC
1 TTTATC
60014614 GGGTATTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTATCA
Found at i:60017553 original size:20 final size:21
Alignment explanation
Indices: 60017506--60017553 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
60017496 CATGTATTTT
* *
60017506 AATGATTGATTATAGATTATC
1 AATGTTTGATGATAGATTATC
60017527 AATGTTTGATGATAG-TTATAC
1 AATGTTTGATGATAGATTAT-C
60017548 AA-GTTT
1 AATGTTT
60017554 TATTAAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATC
Found at i:60020206 original size:28 final size:28
Alignment explanation
Indices: 60020165--60020221 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
60020155 TTTACGGAGT
60020165 ATGTTTAAACAAATTCGGCTACTCAACA
1 ATGTTTAAACAAATTCGGCTACTCAACA
* *
60020193 ATGTTTAAATAAATTCGGCTGCTCAACA
1 ATGTTTAAACAAATTCGGCTACTCAACA
60020221 A
1 A
60020222 CCTCCACCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (28 bp):
ATGTTTAAACAAATTCGGCTACTCAACA
Found at i:60027452 original size:15 final size:15
Alignment explanation
Indices: 60027428--60027491 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
60027418 GGATATTGAG
*
60027428 TTTCTGTATTTTGGA
1 TTTCTTTATTTTGGA
*
60027443 TTTCTTTATTATGGA
1 TTTCTTTATTTTGGA
* *
60027458 TTT-TTCTGTCTTGGA
1 TTTCTT-TATTTTGGA
*
60027473 TTTC-TTATTTTGGT
1 TTTCTTTATTTTGGA
60027487 TTTCT
1 TTTCT
60027492 AGTCGACTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 12 0.32
15 26 0.68
ACGTcount: A:0.11, C:0.09, G:0.16, T:0.64
Consensus pattern (15 bp):
TTTCTTTATTTTGGA
Found at i:60036923 original size:17 final size:17
Alignment explanation
Indices: 60036901--60036935 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
60036891 TAAGTAAGTG
60036901 AAAGTTGATAAATTTAT
1 AAAGTTGATAAATTTAT
60036918 AAAGTTGATAAATTTAT
1 AAAGTTGATAAATTTAT
60036935 A
1 A
60036936 CATGATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (17 bp):
AAAGTTGATAAATTTAT
Found at i:60050886 original size:26 final size:26
Alignment explanation
Indices: 60050847--60050899 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
60050837 CGGGAAACTG
* *
60050847 CAAAGAGCCATTAATTGAGAAGCTCA
1 CAAAAAGCCATTAATCGAGAAGCTCA
* *
60050873 CAAAAAGCCTTTAATCGTGAAGCTCA
1 CAAAAAGCCATTAATCGAGAAGCTCA
60050899 C
1 C
60050900 GAAGAGTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (26 bp):
CAAAAAGCCATTAATCGAGAAGCTCA
Found at i:60054293 original size:38 final size:38
Alignment explanation
Indices: 60054237--60054539 Score: 356
Period size: 38 Copynumber: 7.9 Consensus size: 38
60054227 ATATTTGATG
* *
60054237 TATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAC
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* ** *
60054275 TATATCCAGGTTTTATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
** * *
60054313 TATATCCGGGTTAAATTTCGCAGTCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
** *
60054351 TATATCCGGGTTTTATCCCGCAGGCTTCATGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
** *
60054389 TATATCCGGGTTTTATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
60054427 TATATCCGGGTTAAATCCCACAGGCTTAGTGTTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
60054465 TATATCCGGGTTAAATCCCGTAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
60054503 TATATTCGAGCTTAAAGTTCCGCAGG-TTCTGTGCTGG
1 TATATCCG-GGTTAAA-TCCCGCAGGCTTC-GTGCTGG
60054540 GAACTGGATT
Statistics
Matches: 225, Mismatches: 37, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
38 203 0.90
39 8 0.04
40 14 0.06
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:60054384 original size:114 final size:114
Alignment explanation
Indices: 60054237--60054507 Score: 400
Period size: 114 Copynumber: 2.4 Consensus size: 114
60054227 ATATTTGATG
* * * *
60054237 TATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGGTACTATATCCAGGTTTTATCCCACAGGCTT
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATATCCAGGTTTTATCCCACAAGCTT
** * *
60054302 CGTGCTGGTATTATATCCGGGTTAAATTTCGCAGTCTTAGTGCTGGTAT
66 CGTGCTGGTATTATATCCGGGTTAAATCCCACAGGCTTAGTGCTGGTAT
** * *
60054351 TATATCCGGGTTTTATCCCGCAGGCTTCATGCTGGTATTATATCCGGGTTTTATCCCGCAAGCTT
1 TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATATCCAGGTTTTATCCCACAAGCTT
*
60054416 CGTGCTGGTATTATATCCGGGTTAAATCCCACAGGCTTAGTGTTGGTAT
66 CGTGCTGGTATTATATCCGGGTTAAATCCCACAGGCTTAGTGCTGGTAT
*
60054465 TATATCCGGGTTAAATCCCGTAGGCTT-AGTGCTGGTATTATAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTATTATAT
60054508 TCGAGCTTAA
Statistics
Matches: 140, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
113 1 0.01
114 139 0.99
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (114 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATATCCAGGTTTTATCCCACAAGCTT
CGTGCTGGTATTATATCCGGGTTAAATCCCACAGGCTTAGTGCTGGTAT
Found at i:60060040 original size:38 final size:38
Alignment explanation
Indices: 60059984--60060368 Score: 509
Period size: 38 Copynumber: 10.1 Consensus size: 38
60059974 ATATTTGATG
*
60059984 TATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
** * * *
60060022 TATATCCGGGTTTTATCCCACAGGCTTCGGGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** *
60060060 TATATCTGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
60060098 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
*
60060136 TATACCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** *
60060174 TATATCCAGGTTTTATCTCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** ** *
60060212 TATATCCAGGTTTTATCTAGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** * *
60060250 TATATCCAGGTTTTATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
**
60060288 TATATCCGGGTTAAATCCCGCAGGCTTAGTATTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
*
60060326 TATATCCGTGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
60060364 TATAT
1 TATAT
60060369 TCGAGCTTAA
Statistics
Matches: 313, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 313 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
Found at i:60067484 original size:25 final size:25
Alignment explanation
Indices: 60067427--60067487 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
60067417 GGATGCTCCG
*
60067427 AAGAGCTAT-TAACGGGAAGCTCAC
1 AAGAGCCATATAACGGGAAGCTCAC
* *
60067451 AAAAACCATATAACGGGAAGCTCA-
1 AAGAGCCATATAACGGGAAGCTCAC
60067475 AGAGAGCCATATA
1 A-AGAGCCATATA
60067488 TTGGGATGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 7 0.23
25 23 0.77
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (25 bp):
AAGAGCCATATAACGGGAAGCTCAC
Found at i:60070192 original size:41 final size:41
Alignment explanation
Indices: 60070147--60070228 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
60070137 ATTTTTTACT
*
60070147 TTATCTTTTAGGAGTTTATTAGAATAAGCA-AATTATTTTCC
1 TTATCTTTTAGGAGTTGATTAGAATAAG-ATAATTATTTTCC
*
60070188 TTATCTTTTAGTAGTTGATTAGAATAAGATAATTATTTTCC
1 TTATCTTTTAGGAGTTGATTAGAATAAGATAATTATTTTCC
60070229 CAAATAGGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGGAGTTGATTAGAATAAGATAATTATTTTCC
Found at i:60071807 original size:118 final size:118
Alignment explanation
Indices: 60071599--60071840 Score: 439
Period size: 118 Copynumber: 2.1 Consensus size: 118
60071589 CTGCTTCTTG
* * * *
60071599 ATTTATTTCCTGTGTGCAAAATATGACCTTTGCATATTGGTAACATTCAAAGGAAATGTAAAATG
1 ATTTATTTCCCGTGTGCAAAATATGACCTGTGCATATTGCTAACATTCAAAGGAAAGGTAAAATG
60071664 GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
66 GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
60071717 ATTTATTTCCCGTGTGCAAAATATGACCTGTGCATATTGCTAACATTCAAAGGAAAGGTAAAATG
1 ATTTATTTCCCGTGTGCAAAATATGACCTGTGCATATTGCTAACATTCAAAGGAAAGGTAAAATG
60071782 GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
66 GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
*
60071835 TTTTAT
1 ATTTAT
60071841 GGCCACCCTT
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (118 bp):
ATTTATTTCCCGTGTGCAAAATATGACCTGTGCATATTGCTAACATTCAAAGGAAAGGTAAAATG
GTAAAAAGATACCAAAAACAAAAAAGAATGAACCATGGATTTAACCCCTTGGT
Found at i:60077337 original size:19 final size:19
Alignment explanation
Indices: 60077301--60077339 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60077291 ATAATAATAA
*
60077301 ATTTATATTTTATATAAAT
1 ATTTATATTATATATAAAT
60077320 ATTTATATTA-ATATTAAAT
1 ATTTATATTATATA-TAAAT
60077339 A
1 A
60077340 AATATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTATATTATATATAAAT
Found at i:60077350 original size:25 final size:25
Alignment explanation
Indices: 60077314--60077370 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
60077304 TATATTTTAT
60077314 ATAAATAT--TTATATTAATATTAA
1 ATAAATATAATTATATTAATATTAA
60077337 ATAAATATAATTATATTAATATTAA
1 ATAAATATAATTATATTAATATTAA
60077362 ATAAA-ATAA
1 ATAAATATAA
60077371 AAATCCCCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.25
24 4 0.12
25 20 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAAATATAATTATATTAATATTAA
Found at i:60080491 original size:44 final size:41
Alignment explanation
Indices: 60080428--60080586 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 41
60080418 TATGTGTTTT
60080428 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGA-TTA
* * * *
60080472 CGTGTAAGACCATGTCTGGGACATTGGCATCGTGTTTAAATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTT-GATTA
** *
60080514 CGTGTAAGACC-CTGTCTAAGACAG-TGGCATCTATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC--GATTTGATTA
*
60080557 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
60080587 TATACAAGCT
Statistics
Matches: 92, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
42 29 0.32
43 29 0.32
44 34 0.37
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTA
Found at i:60080517 original size:86 final size:85
Alignment explanation
Indices: 60080426--60080586 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
60080416 GATATGTGTT
** * *
60080426 TTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TATGATTTACGTGTAAGACCATGTC
1 TTCGTGTAAGACC-CTGTCTAAGACAG-TGGCATCGA-TATATGA-TTACATGTAAGACCACGTC
60080488 TGGGACATTGGCATCGTGTTTAAA
62 TGGGACATTGGCATCGTGTTTAAA
* *
60080512 TTCGTGTAAGACCCTGTCTAAGACAGTGGCATCTATATTTGATTACATGTAAGACCACGTCTGGG
1 TTCGTGTAAGACCCTGTCTAAGACAGTGGCATCGATATATGATTACATGTAAGACCACGTCTGGG
*
60080577 ACGTTGGCAT
66 ACATTGGCAT
60080587 TATACAAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 32 0.49
86 32 0.49
87 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (85 bp):
TTCGTGTAAGACCCTGTCTAAGACAGTGGCATCGATATATGATTACATGTAAGACCACGTCTGGG
ACATTGGCATCGTGTTTAAA
Found at i:60086665 original size:37 final size:37
Alignment explanation
Indices: 60086623--60086748 Score: 103
Period size: 37 Copynumber: 3.2 Consensus size: 37
60086613 ATACAAGAAA
60086623 ATGATGATACATGACAAGTGATATATGAAAGTATGAG
1 ATGATGATACATGACAAGTGATATATGAAAGTATGAG
** * * * * *
60086660 ATGATGATATTTGATTATACAT-ATCCATCTG-AAGTACAAGAAA
1 ATGATGATACATGA-CA-A-GTGAT--ATATGAAAGT--ATG-AG
60086703 ATGATGATACATGACAAGTGATATATGAAAGTATGAG
1 ATGATGATACATGACAAGTGATATATGAAAGTATGAG
60086740 ATGATGATA
1 ATGATGATA
60086749 TTTGTATATA
Statistics
Matches: 65, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
37 22 0.34
38 3 0.05
39 7 0.11
40 10 0.15
41 7 0.11
42 3 0.05
43 13 0.20
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (37 bp):
ATGATGATACATGACAAGTGATATATGAAAGTATGAG
Found at i:60086683 original size:80 final size:80
Alignment explanation
Indices: 60086593--60086752 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
60086583 AAAATGAGTT
60086593 ATTATACATATCCATCTAAAATACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
1 ATTATACATATCCATCTAAAATACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
60086658 AGATGATGATATTTG
66 AGATGATGATATTTG
* *
60086673 ATTATACATATCCATCTGAAGTACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
1 ATTATACATATCCATCTAAAATACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
60086738 AGATGATGATATTTG
66 AGATGATGATATTTG
60086753 TATATAGAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (80 bp):
ATTATACATATCCATCTAAAATACAAGAAAATGATGATACATGACAAGTGATATATGAAAGTATG
AGATGATGATATTTG
Found at i:60086747 original size:40 final size:40
Alignment explanation
Indices: 60086623--60086747 Score: 105
Period size: 40 Copynumber: 3.1 Consensus size: 40
60086613 ATACAAGAAA
60086623 ATGATGATACATGACAAGTGATATATGAAAGTATGAGATG
1 ATGATGATACATGACAAGTGATATATGAAAGTATGAGATG
** * * * ** **
60086663 ATGAT-ATTTGATTATACA-T-ATCCATCTG-AAGTACAAGAAA
1 ATGATGA-TACATGACA-AGTGAT--ATATGAAAGTATGAGATG
60086703 ATGATGATACATGACAAGTGATATATGAAAGTATGAGATG
1 ATGATGATACATGACAAGTGATATATGAAAGTATGAGATG
60086743 ATGAT
1 ATGAT
60086748 ATTTGTATAT
Statistics
Matches: 59, Mismatches: 18, Indels: 16
0.63 0.19 0.17
Matches are distributed among these distances:
39 8 0.14
40 43 0.73
41 8 0.14
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (40 bp):
ATGATGATACATGACAAGTGATATATGAAAGTATGAGATG
Found at i:60090628 original size:28 final size:29
Alignment explanation
Indices: 60090597--60090651 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
60090587 TTGAAATTCT
60090597 GATAT-CATGGCCTGAAGCCAAATCAGCC
1 GATATGCATGGCCTGAAGCCAAATCAGCC
60090625 GATATGCATGGCCTGAAGCCAAATCAG
1 GATATGCATGGCCTGAAGCCAAATCAG
60090652 TTTACCTCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (29 bp):
GATATGCATGGCCTGAAGCCAAATCAGCC
Found at i:60091558 original size:12 final size:12
Alignment explanation
Indices: 60091541--60091565 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60091531 GTTTTGTTTT
60091541 ATTTTAATTATC
1 ATTTTAATTATC
60091553 ATTTTAATTATC
1 ATTTTAATTATC
60091565 A
1 A
60091566 ATTACCATAT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTAATTATC
Found at i:60098163 original size:50 final size:49
Alignment explanation
Indices: 60098095--60098230 Score: 159
Period size: 50 Copynumber: 2.7 Consensus size: 49
60098085 GAGCATCCCG
* *
60098095 ATATATGGCTCTCTTGAGCTTCCTG-TTATTCGGCTCTCACG-AGCTTCCTA
1 ATAT-TGGCTCTCATGAGCTTCCTGATTAAT-GGCTCTC-CGAAGCTTCCTA
* *
60098145 ATAATTGGCTTTCATGAGCTTCCCGATTAATGGCTCTCCGAAGCTTCCTA
1 AT-ATTGGCTCTCATGAGCTTCCTGATTAATGGCTCTCCGAAGCTTCCTA
* * *
60098195 ATATTGGCTCCCATGAGCTTCCTGATTTATAGCTCT
1 ATATTGGCTCTCATGAGCTTCCTGATTAATGGCTCT
60098231 TATGAGCTTC
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
49 31 0.42
50 37 0.50
51 6 0.08
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (49 bp):
ATATTGGCTCTCATGAGCTTCCTGATTAATGGCTCTCCGAAGCTTCCTA
Found at i:60098230 original size:49 final size:50
Alignment explanation
Indices: 60098127--60098241 Score: 144
Period size: 49 Copynumber: 2.3 Consensus size: 50
60098117 CTGTTATTCG
** *
60098127 GCTCTCACGAGCTTCCTAATAATTGGCTTTCATGAGCTTCCCGATTAATG
1 GCTCTCACGAGCTTCCTAATAATTGGCTCCCATGAGCTTCCCGATTAATA
* *
60098177 GCTCTC-CGAAGCTTCCTAAT-ATTGGCTCCCATGAGCTTCCTGATTTATA
1 GCTCTCACG-AGCTTCCTAATAATTGGCTCCCATGAGCTTCCCGATTAATA
* *
60098226 GCTCTTATGAGCTTCC
1 GCTCTCACGAGCTTCC
60098242 CGATACTCAG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
49 38 0.68
50 18 0.32
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (50 bp):
GCTCTCACGAGCTTCCTAATAATTGGCTCCCATGAGCTTCCCGATTAATA
Found at i:60098304 original size:25 final size:25
Alignment explanation
Indices: 60098077--60098304 Score: 116
Period size: 25 Copynumber: 9.2 Consensus size: 25
60098067 ACTCACCAAA
* * *
60098077 GCTCTTATGAGCATCCCGATATATG
1 GCTCTCATGAGCTTCCCGTTATATG
* *
60098102 GCTCTCTTGAGCTTCCTGTTAT-TCG
1 GCTCTCATGAGCTTCCCGTTATAT-G
* *
60098127 GCTCTCACGAGCTT-CC-TAATAATTG
1 GCTCTCATGAGCTTCCCGTTAT-A-TG
*
60098152 GCTTTCATGAGCTTCCCGATTA-ATG
1 GCTCTCATGAGCTTCCCG-TTATATG
* *
60098177 GCTCTC-CGAAGCTT-CC-TAATATTG
1 GCTCTCATG-AGCTTCCCGTTATA-TG
* * *
60098201 GCTCCCATGAGCTTCCTGATT-TATA
1 GCTCTCATGAGCTTCCCG-TTATATG
* *
60098226 GCTCTTATGAGCTTCCCGATACTCA-G
1 GCTCTCATGAGCTTCCCGTTA-T-ATG
** * **
60098252 G-TCGAATAAGCTTCCCGTTATACA
1 GCTCTCATGAGCTTCCCGTTATATG
*
60098276 GCTCACATGAGCTTCCCGTTATATG
1 GCTCTCATGAGCTTCCCGTTATATG
60098301 GCTC
1 GCTC
60098305 GAAAAAGGAT
Statistics
Matches: 149, Mismatches: 35, Indels: 38
0.67 0.16 0.17
Matches are distributed among these distances:
22 2 0.01
23 5 0.03
24 20 0.13
25 110 0.74
26 8 0.05
27 2 0.01
28 2 0.01
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGTTATATG
Found at i:60098329 original size:28 final size:28
Alignment explanation
Indices: 60098296--60098354 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
60098286 GCTTCCCGTT
*
60098296 ATATGGCTCGAAAAAGGATTCCGTTTAC
1 ATATGGCTCGAAAAAGGATCCCGTTTAC
60098324 ATATGGCTCGAAAAAGGATCCCGTTTAC
1 ATATGGCTCGAAAAAGGATCCCGTTTAC
60098352 ATA
1 ATA
60098355 CTCATATGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (28 bp):
ATATGGCTCGAAAAAGGATCCCGTTTAC
Found at i:60099019 original size:20 final size:20
Alignment explanation
Indices: 60098973--60099019 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
60098963 TGGCTATGGT
* *
60098973 TAAGTGATATGCTTATGACT
1 TAAGTGTTATGCTTATGACA
*
60098993 TATGTGTTATGCTTATGGA-A
1 TAAGTGTTATGCTTAT-GACA
60099013 TAAGTGT
1 TAAGTGT
60099020 GGAAAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (20 bp):
TAAGTGTTATGCTTATGACA
Found at i:60101892 original size:23 final size:24
Alignment explanation
Indices: 60101857--60101912 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
60101847 TTGGTTAAAA
* * *
60101857 TTTTCAAACTTTCACTTCA-AATT
1 TTTTAAAACTTTCAATTAATAATT
*
60101880 TTTTAAAATTTTCAATTAATTAATT
1 TTTTAAAACTTTCAATTAA-TAATT
60101905 TTTTAAAA
1 TTTTAAAA
60101913 ATATGTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 15 0.56
25 12 0.44
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTAAAACTTTCAATTAATAATT
Found at i:60102514 original size:26 final size:26
Alignment explanation
Indices: 60102484--60102534 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
60102474 TATACAAAAT
* *
60102484 ATAAAAATATTCTTATAATAATATTG
1 ATAAAAATACTCTCATAATAATATTG
60102510 ATAAAAATACTCTCATAATAATATT
1 ATAAAAATACTCTCATAATAATATT
60102535 TTTTACTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (26 bp):
ATAAAAATACTCTCATAATAATATTG
Found at i:60104638 original size:28 final size:29
Alignment explanation
Indices: 60104606--60104704 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
60104596 ATAATAAGCC
*
60104606 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
60104634 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
60104662 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
60104691 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60104705 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:60112644 original size:28 final size:29
Alignment explanation
Indices: 60112612--60112708 Score: 103
Period size: 28 Copynumber: 3.4 Consensus size: 29
60112602 AATAAGCCCA
*
60112612 CACACTTAGTGCTTA-ATAGTCGAACTCG
1 CACACTTAGTGCTTACATAATCGAACTCG
*
60112640 CACACTTAGTG-TTATATAATC-AACCTCG
1 CACACTTAGTGCTTACATAATCGAA-CTCG
* * *
60112668 CACACTTAGTGCTATACA-ATTTGAACCCG
1 CACACTTAGTGCT-TACATAATCGAACTCG
60112697 CACACTTAGTGC
1 CACACTTAGTGC
60112709 CAATCTCATG
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.08
28 31 0.53
29 18 0.31
30 5 0.08
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
CACACTTAGTGCTTACATAATCGAACTCG
Found at i:60115925 original size:20 final size:21
Alignment explanation
Indices: 60115900--60115941 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
60115890 AATCTACTGT
*
60115900 AAAATGAAA-ATTTTTGATAG
1 AAAATGAAAGATTATTGATAG
60115920 AAAATGAAAGATTATTGATAG
1 AAAATGAAAGATTATTGATAG
60115941 A
1 A
60115942 TAAACCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (21 bp):
AAAATGAAAGATTATTGATAG
Found at i:60116743 original size:65 final size:66
Alignment explanation
Indices: 60116674--60116806 Score: 155
Period size: 65 Copynumber: 2.0 Consensus size: 66
60116664 GGAAAGGTAT
* *
60116674 ACTTTGTGTATATC-ACTTGAAAAGGAAAGGTACACTGT-ATGTGTA-CACTTGAAAAGGCTATG
1 ACTTTGTGTATA-CAAATTGAAAAGGAAAGGTACACT-TCATGTGTACCACTTGAAAAGGCAATG
60116736 TGC
64 TGC
* ** * * *
60116739 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCGTGTGTACCACTTGAAAAGGGAATGTG
1 ACTTTGTGTATACAAATTGAAAAGGAAAGGTACACTTCATGTGTACCACTTGAAAAGGCAATGTG
60116804 C
66 C
60116805 AC
1 AC
60116807 CTCAGGTGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
64 2 0.04
65 35 0.61
66 20 0.35
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (66 bp):
ACTTTGTGTATACAAATTGAAAAGGAAAGGTACACTTCATGTGTACCACTTGAAAAGGCAATGTG
C
Found at i:60116749 original size:32 final size:33
Alignment explanation
Indices: 60116641--60116802 Score: 148
Period size: 33 Copynumber: 4.9 Consensus size: 33
60116631 GTTTAGGTAT
* * * *
60116641 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGAAAAGGGAATGTAC
* * * *
60116674 ACTTTGTGTATATCACTTGAAAAGGAAAGGTAC
1 ACTTTGTGTGTACCACTTGAAAAGGGAATGTAC
* * ** *
60116707 ACTGTATGTGTA-CACTTGAAAAGGCTATGTGC
1 ACTTTGTGTGTACCACTTGAAAAGGGAATGTAC
* * *
60116739 ACTTTGTGTGTACAAATTGAAAAGGGTATGTAC
1 ACTTTGTGTGTACCACTTGAAAAGGGAATGTAC
*
60116772 ACTTCGTGTGTACCACTTGAAAAGGGAATGT
1 ACTTTGTGTGTACCACTTGAAAAGGGAATGT
60116803 GCACCTCAGG
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
32 26 0.24
33 81 0.75
34 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGAAAAGGGAATGTAC
Found at i:60116762 original size:33 final size:32
Alignment explanation
Indices: 60116713--60116829 Score: 128
Period size: 33 Copynumber: 3.6 Consensus size: 32
60116703 GTACACTGTA
* *
60116713 TGTGTACACTTGAAAAGGCTATGTGCACTTTG
1 TGTGTACACTTGAAAAGGGTATGTGCACTTCG
* *
60116745 TGTGTACAAATTGAAAAGGGTATGTACACTTCG
1 TGTGTAC-ACTTGAAAAGGGTATGTGCACTTCG
* *
60116778 TGTGTACCACTTGAAAAGGGAATGTGCACCTCAG
1 TGTGTA-CACTTGAAAAGGGTATGTGCACTTC-G
*
60116812 -GTGTACAACTAGAAAAGG
1 TGTGTAC-ACTTGAAAAGG
60116830 AAATGTCCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
32 8 0.11
33 62 0.86
34 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (32 bp):
TGTGTACACTTGAAAAGGGTATGTGCACTTCG
Found at i:60125666 original size:20 final size:21
Alignment explanation
Indices: 60125641--60125682 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
60125631 AATAGGCTGT
*
60125641 AAAATGAAAT-TTTTTGATAG
1 AAAATGAAATATTATTGATAG
60125661 AAAATGAAATATTATTGATAG
1 AAAATGAAATATTATTGATAG
60125682 A
1 A
60125683 TAAACCACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (21 bp):
AAAATGAAATATTATTGATAG
Found at i:60126405 original size:33 final size:33
Alignment explanation
Indices: 60126367--60126473 Score: 128
Period size: 33 Copynumber: 3.3 Consensus size: 33
60126357 ATGGTACAAT
** *
60126367 TTGAAAAGGTTAGGTATACTTTGTGTATTCCA-
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
60126399 TATGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 T-TGAAAAGGAAAGGTATACTTTGTGTATACCAC
* * * *
60126433 TTGAAAAGGAAAGGTACACTATATGTGTA-CAC
1 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
60126465 TTGAAAAGG
1 TTGAAAAGG
60126474 CTATGTGCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 13 0.20
33 52 0.79
34 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (33 bp):
TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
Found at i:60126487 original size:65 final size:66
Alignment explanation
Indices: 60126417--60126578 Score: 175
Period size: 65 Copynumber: 2.5 Consensus size: 66
60126407 GGAAAGGTAT
* * *
60126417 ACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATATGTGT-ACACTTGAAAA-GGCTATGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTATATGTGTAACACTT-AAAACGGCAATGT
60126480 GC
65 GC
* ** * * * *
60126482 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTTGTGTGTAACACTTAAAACGGGAATGTG
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTATATGTGTAACACTTAAAACGGCAATGTG
60126547 C
66 C
* * * *
60126548 ACCTCGGGTGTACAACTAGAAAAGGAAAGGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGT
60126579 CCATCAGAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
65 40 0.52
66 37 0.48
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (66 bp):
ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTATATGTGTAACACTTAAAACGGCAATGTG
C
Found at i:60126505 original size:33 final size:32
Alignment explanation
Indices: 60126360--60126526 Score: 118
Period size: 33 Copynumber: 5.1 Consensus size: 32
60126350 TACCCAAATG
* * *
60126360 GTACAATTTGAAAAGGTTAGGTATACTTTGTGT
1 GTACAA-TTGAAAAGGCTATGTACACTTTGTGT
* * * ** * *
60126393 ATTCCATATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAAT-TGAAAAGGCTATGTACACTTTGTGT
* * ** * * *
60126426 ATACCACTTGAAAAGGAAAGGTACACTATATGT
1 GTA-CAATTGAAAAGGCTATGTACACTTTGTGT
* *
60126459 GTACACTTGAAAAGGCTATGTGCACTTTGTGT
1 GTACAATTGAAAAGGCTATGTACACTTTGTGT
*
60126491 GTACAAATTGAAAAGGGTATGTACACTTTGTGT
1 GTAC-AATTGAAAAGGCTATGTACACTTTGTGT
60126524 GTA
1 GTA
60126527 ACACTTAAAA
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
32 28 0.25
33 80 0.73
34 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (32 bp):
GTACAATTGAAAAGGCTATGTACACTTTGTGT
Found at i:60126562 original size:66 final size:65
Alignment explanation
Indices: 60126446--60126572 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 65
60126436 AAAAGGAAAG
* * * * *
60126446 GTACACTATATGTGTACACTTGAAAAGGCTATGTGCACTTTGTGTGTACAAATTGAAAAGGGTAT
1 GTACACTATATGTGTACACTTGAAAAGGCAATGTGCACCTCGGGTGTACAAATAGAAAAGGGTAT
* * * *
60126511 GTACACTTTGTGTGTAACACTT-AAAACGGGAATGTGCACCTCGGGTGTACAACTAGAAAAGG
1 GTACACTATATGTGT-ACACTTGAAAA-GGCAATGTGCACCTCGGGTGTACAAATAGAAAAGG
60126573 AAAGGTCCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
65 17 0.33
66 34 0.67
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (65 bp):
GTACACTATATGTGTACACTTGAAAAGGCAATGTGCACCTCGGGTGTACAAATAGAAAAGGGTAT
Found at i:60127951 original size:25 final size:24
Alignment explanation
Indices: 60127923--60128008 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
60127913 CTAAATAAAA
60127923 GGAAGCTCATGAGAGCTAAGTATCG
1 GGAAGCTCATGAGAGCTAA-TATCG
* *
60127948 GGAAGCT-GTTACGAGCTGAATATCG
1 GGAAGCTCATGA-GAGCT-AATATCG
* * * *
60127973 AGAAGCTCTTGTGAGCTAAATATTG
1 GGAAGCTCATGAGAGCT-AATATCG
60127998 GGAAGCTCATG
1 GGAAGCTCATG
60128009 CAAGCTGTGG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
24 2 0.04
25 43 0.90
26 3 0.06
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCTAATATCG
Found at i:60127954 original size:50 final size:50
Alignment explanation
Indices: 60127896--60128005 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 50
60127886 AAGCAGTAAA
* *
60127896 CGGGAAGCTCTTCCGAGCTAAATAAA-AGGAAGCTCATGAGAGCTAAGTAT
1 CGGGAAGCTCTTACGAGCTAAATAAAGA-GAAGCTCATGAGAGCTAAATAT
* * ** * *
60127946 CGGGAAGCTGTTACGAGCTGAATATCGAGAAGCTCTTGTGAGCTAAATAT
1 CGGGAAGCTCTTACGAGCTAAATAAAGAGAAGCTCATGAGAGCTAAATAT
*
60127996 TGGGAAGCTC
1 CGGGAAGCTC
60128006 ATGCAAGCTG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
50 48 0.98
51 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (50 bp):
CGGGAAGCTCTTACGAGCTAAATAAAGAGAAGCTCATGAGAGCTAAATAT
Found at i:60128014 original size:25 final size:25
Alignment explanation
Indices: 60127896--60128014 Score: 69
Period size: 25 Copynumber: 4.8 Consensus size: 25
60127886 AAGCAGTAAA
* * * *
60127896 CGGGAAGCTCTTCCGAGCTAAATAA
1 CGGGAAGCTCATGCAAGCTAAATAT
** *
60127921 AAGGAAGCTCATG-AGAGCTAAGTAT
1 CGGGAAGCTCATGCA-AGCTAAATAT
** * * *
60127946 CGGGAAGCTGTTACGAGCTGAATAT
1 CGGGAAGCTCATGCAAGCTAAATAT
* * **
60127971 CGAGAAGCTCTTGTGAGCTAAATAT
1 CGGGAAGCTCATGCAAGCTAAATAT
*
60127996 TGGGAAGCTCATGCAAGCT
1 CGGGAAGCTCATGCAAGCT
60128015 GTGGTGTGTT
Statistics
Matches: 67, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (25 bp):
CGGGAAGCTCATGCAAGCTAAATAT
Found at i:60131647 original size:16 final size:17
Alignment explanation
Indices: 60131624--60131666 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
60131614 TTGATTTTTT
60131624 GTTT-AGGTTTTG-TAG
1 GTTTAAGGTTTTGTTAG
60131639 GTTTAAGGTTTTGTTAG
1 GTTTAAGGTTTTGTTAG
*
60131656 TTTTAAGGTTT
1 GTTTAAGGTTT
60131667 AGGTATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 13 0.52
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (17 bp):
GTTTAAGGTTTTGTTAG
Found at i:60131662 original size:17 final size:16
Alignment explanation
Indices: 60131628--60131684 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
60131618 TTTTTTGTTT
*
60131628 AGGTTTTGTAGGTTTA
1 AGGTTTTGTAGTTTTA
60131644 AGGTTTTGTTAGTTTTA
1 AGGTTTTG-TAGTTTTA
*
60131661 AGGTTTAGGTA-TTTTA
1 AGGTTT-TGTAGTTTTA
*
60131677 AAGTTTTG
1 AGGTTTTG
60131685 AGAATTTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 1 0.03
16 18 0.51
17 15 0.43
18 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (16 bp):
AGGTTTTGTAGTTTTA
Found at i:60131675 original size:16 final size:17
Alignment explanation
Indices: 60131635--60131682 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
60131625 TTTAGGTTTT
* *
60131635 GTAGGTTTAAGGTTTTG
1 GTAGTTTTAAGGTTTAG
*
60131652 TTAGTTTTAAGGTTTAG
1 GTAGTTTTAAGGTTTAG
*
60131669 GTA-TTTTAAAGTTT
1 GTAGTTTTAAGGTTT
60131683 TGAGAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (17 bp):
GTAGTTTTAAGGTTTAG
Found at i:60131725 original size:16 final size:17
Alignment explanation
Indices: 60131705--60131777 Score: 69
Period size: 16 Copynumber: 4.2 Consensus size: 17
60131695 TATTTTTGGT
* *
60131705 ATTTTATGATTTTAGGG
1 ATTTTATAAGTTTAGGG
60131722 -TTTTATAAGTTTAGGG
1 ATTTTATAAGTTTAGGG
*
60131738 ATTTT-TATGGTTTAGGG
1 ATTTTATA-AGTTTAGGG
*
60131755 ATCTTTATAGGGTTTAGGG
1 AT-TTTATA-AGTTTAGGG
60131774 ATTT
1 ATTT
60131778 GAGATAGACA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
16 16 0.33
17 14 0.29
18 5 0.10
19 13 0.27
ACGTcount: A:0.22, C:0.01, G:0.26, T:0.51
Consensus pattern (17 bp):
ATTTTATAAGTTTAGGG
Found at i:60131750 original size:17 final size:18
Alignment explanation
Indices: 60131715--60131777 Score: 78
Period size: 17 Copynumber: 3.6 Consensus size: 18
60131705 ATTTTATGAT
*
60131715 TTTAGGG-TTTTATA-AG
1 TTTAGGGATTTTATAGGG
*
60131731 TTTAGGGATTTT-TATGG
1 TTTAGGGATTTTATAGGG
60131748 TTTAGGGATCTTTATAGGG
1 TTTAGGGAT-TTTATAGGG
60131767 TTTAGGGATTT
1 TTTAGGGATTT
60131778 GAGATAGACA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.22
17 14 0.34
18 5 0.12
19 13 0.32
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.49
Consensus pattern (18 bp):
TTTAGGGATTTTATAGGG
Found at i:60131770 original size:19 final size:17
Alignment explanation
Indices: 60131730--60131777 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 17
60131720 GGTTTTATAA
*
60131730 GTTTAGGGATTTTTATG
1 GTTTAGGGATTTTTAGG
60131747 GTTTAGGGATCTTTATAGG
1 GTTTAGGGAT-TTT-TAGG
60131766 GTTTAGGGATTT
1 GTTTAGGGATTT
60131778 GAGATAGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 10 0.36
18 5 0.18
19 13 0.46
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (17 bp):
GTTTAGGGATTTTTAGG
Found at i:60133039 original size:21 final size:21
Alignment explanation
Indices: 60133015--60133062 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
60133005 GAGTGGGTTC
*
60133015 CATGGCTATGTAGATGGGTCA
1 CATGGCTATGTAGATGAGTCA
* *
60133036 CATGGCTGTGTGGATGAGTCA
1 CATGGCTATGTAGATGAGTCA
60133057 CATGGC
1 CATGGC
60133063 CGTGTAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (21 bp):
CATGGCTATGTAGATGAGTCA
Found at i:60133067 original size:21 final size:21
Alignment explanation
Indices: 60133027--60133067 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60133017 TGGCTATGTA
* *
60133027 GATGGGTCACATGGCTGTGTG
1 GATGAGTCACATGGCCGTGTG
60133048 GATGAGTCACATGGCCGTGT
1 GATGAGTCACATGGCCGTGT
60133068 AAGCAAACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.39, T:0.27
Consensus pattern (21 bp):
GATGAGTCACATGGCCGTGTG
Found at i:60142206 original size:30 final size:30
Alignment explanation
Indices: 60142172--60142231 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
60142162 TATGCTTAAT
* *
60142172 AAGTTCGTATAATAGAAAATAAACTTACCG
1 AAGTTCGTATAACAAAAAATAAACTTACCG
*
60142202 AAGTTTGTATAACAAAAAATAAACTTACCG
1 AAGTTCGTATAACAAAAAATAAACTTACCG
60142232 GTCATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (30 bp):
AAGTTCGTATAACAAAAAATAAACTTACCG
Found at i:60162844 original size:40 final size:40
Alignment explanation
Indices: 60162807--60163029 Score: 208
Period size: 40 Copynumber: 5.6 Consensus size: 40
60162797 GCTACTCGTT
*
60162807 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
60162847 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
60162887 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
60162926 CAAATGCCTTC-GGATCTTCGTCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTA-TAGTAACTCGCA
* * ** * *
60162966 CAAATGCCTTC-GGATCTTAGTCCGGATACGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
60163007 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
60163030 TACATCATTC
Statistics
Matches: 158, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 112 0.71
41 14 0.09
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:60162918 original size:79 final size:78
Alignment explanation
Indices: 60162807--60163029 Score: 236
Period size: 79 Copynumber: 2.8 Consensus size: 78
60162797 GCTACTCGTT
* * *
60162807 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
60162872 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * * *
60162887 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTCGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGG-ATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
*
60162951 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * *
60162966 CAAATGCCTTCGGATCTTAGTCCGGA-TACGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGATTA--GTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
60163029 G
62 G
60163030 TACATCATTC
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
78 5 0.04
79 64 0.54
80 39 0.33
81 11 0.09
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:60165495 original size:104 final size:104
Alignment explanation
Indices: 60165315--60165538 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
60165305 TGTATATAAA
** * *
60165315 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
60165380 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
60165419 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
60165483 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
60165523 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
60165539 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:60165569 original size:72 final size:72
Alignment explanation
Indices: 60165457--60165609 Score: 247
Period size: 72 Copynumber: 2.1 Consensus size: 72
60165447 TCATTGGTGG
*
60165457 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
60165522 GAGGGGT
66 GAGGGGT
**
60165529 TGCTAAGTGCGATATCCATTGTATAT-TTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCC
1 TGCTAAGTGCGATATCCA--CCATATCTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCC
60165592 CCGAGGGGT
64 CCGAGGGGT
60165601 TGCTAAGTG
1 TGCTAAGTG
60165610 ATGATTCCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
72 63 0.83
73 9 0.12
74 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATCTTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:60172519 original size:26 final size:26
Alignment explanation
Indices: 60172484--60172534 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
60172474 AATGTGAAAG
*
60172484 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
60172510 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
60172535 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:60172546 original size:103 final size:104
Alignment explanation
Indices: 60172406--60172628 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
60172396 TGTATATAAA
** * *
60172406 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
60172470 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
60172509 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
60172574 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
60172613 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
60172629 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:60172680 original size:71 final size:72
Alignment explanation
Indices: 60172547--60172698 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
60172537 TCATTGGTGG
* *
60172547 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
60172612 GAGGGGT
66 GAGGGGT
***
60172619 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
60172683 GAGGGGT
66 GAGGGGT
60172690 TGCTAAGTG
1 TGCTAAGTG
60172699 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:60176851 original size:11 final size:11
Alignment explanation
Indices: 60176835--60176863 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
60176825 TGAACACTTA
60176835 CCATTTCATTT
1 CCATTTCATTT
60176846 CCATTTCATTT
1 CCATTTCATTT
60176857 CCATTTC
1 CCATTTC
60176864 GTACCCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (11 bp):
CCATTTCATTT
Found at i:60179765 original size:19 final size:19
Alignment explanation
Indices: 60179741--60179779 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
60179731 AACTTTCCCA
60179741 AGATTCTCAGGTGTAGGAC
1 AGATTCTCAGGTGTAGGAC
60179760 AGATTCTCAGGTGTAGGAC
1 AGATTCTCAGGTGTAGGAC
60179779 A
1 A
60179780 AATGGAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (19 bp):
AGATTCTCAGGTGTAGGAC
Found at i:60181090 original size:96 final size:97
Alignment explanation
Indices: 60180925--60181120 Score: 304
Period size: 96 Copynumber: 2.0 Consensus size: 97
60180915 TGGAAACACT
* * * *
60180925 TATACTAGTATGCCATCAACTTAATCTGATTAGCAATCCAATGAAGATTTTAAACTGTAACGTGA
1 TATACTACTATGCCATCAACCTAAACTGATTAGCAATCCAATAAAGATTTTAAACTGTAACGTGA
*
60180990 GGTATA-AAAAACTAATGATTTACTCAATACA
66 GGTATAGAAAAACTAATGAGTTACTCAATACA
* * *
60181021 TATACTACTATGCCATCAACCTAAACTGATTGGCAATCCAATAAAGATTTTAAACTGTAACTTGG
1 TATACTACTATGCCATCAACCTAAACTGATTAGCAATCCAATAAAGATTTTAAACTGTAACGTGA
*
60181086 GGTATAGAAAAACTGATGAGTTACTCAATACA
66 GGTATAGAAAAACTAATGAGTTACTCAATACA
60181118 TAT
1 TAT
60181121 GGAGCTGACG
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 64 0.71
97 26 0.29
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (97 bp):
TATACTACTATGCCATCAACCTAAACTGATTAGCAATCCAATAAAGATTTTAAACTGTAACGTGA
GGTATAGAAAAACTAATGAGTTACTCAATACA
Found at i:60183186 original size:43 final size:42
Alignment explanation
Indices: 60183118--60183279 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 42
60183108 TTTGATATGT
*
60183118 GATTTCATGTAAGACCACGTCTGGGACGTTGGCATCGATTTG
1 GATTACATGTAAGACCACGTCTGGGACGTTGGCATCGATTTG
* * * * * *
60183160 AGATTACGTGTAAGACCATGTCTGGGACATCGACATCTATTTG
1 -GATTACATGTAAGACCACGTCTGGGACGTTGGCATCGATTTG
* *
60183203 G-TTTCATGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTT
1 GATTACATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TTG
* *
60183245 GATTACATGTAAGACCACATCTGGGATGTTGGCAT
1 GATTACATGTAAGACCACGTCTGGGACGTTGGCAT
60183280 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 28 0.29
42 5 0.05
43 61 0.64
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
GATTACATGTAAGACCACGTCTGGGACGTTGGCATCGATTTG
Found at i:60204796 original size:13 final size:13
Alignment explanation
Indices: 60204773--60204813 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
60204763 TGATAAATTA
60204773 AAAAAACAAAAAC
1 AAAAAACAAAAAC
60204786 -AAAAACAAAAAC
1 AAAAAACAAAAAC
* *
60204798 AAAATACAAATAC
1 AAAAAACAAAAAC
60204811 AAA
1 AAA
60204814 TACACAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.80, C:0.15, G:0.00, T:0.05
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:60204817 original size:6 final size:6
Alignment explanation
Indices: 60204774--60204813 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
60204764 GATAAATTAA
*
60204774 AAAAAC AAAAAC AAAAAC AAAAAC AAAATAC AAATAC AAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAA-AC AAAAAC AAA
60204814 TACACAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.80, C:0.15, G:0.00, T:0.05
Consensus pattern (6 bp):
AAAAAC
Found at i:60207934 original size:11 final size:11
Alignment explanation
Indices: 60207918--60207969 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
60207908 CGCCATTAAC
60207918 AAAAAACAAAAA
1 AAAAAAC-AAAA
60207930 AAAAAACAAAA
1 AAAAAACAAAA
*
60207941 ACAAAACAAAA
1 AAAAAACAAAA
*
60207952 ACAAAACAAAA
1 AAAAAACAAAA
60207963 CAAAAAA
1 -AAAAAA
60207970 AACTATGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 25 0.68
12 12 0.32
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:60209125 original size:30 final size:30
Alignment explanation
Indices: 60209089--60209151 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
60209079 AATATCCATT
* *
60209089 GAAGTTTTTTTCAAATACATTAACCGAATC
1 GAAGTTTTTTTCAAATAAATTAACCGAACC
60209119 GAAGTTTTTTTCAAATAAATTAACCGAACC
1 GAAGTTTTTTTCAAATAAATTAACCGAACC
60209149 GAA
1 GAA
60209152 ATTAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (30 bp):
GAAGTTTTTTTCAAATAAATTAACCGAACC
Found at i:60210031 original size:27 final size:27
Alignment explanation
Indices: 60210000--60210053 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
60209990 TATTGAGTGA
*
60210000 ATGCCAAGTCCCATAAGCGTCACTTCT
1 ATGCCAACTCCCATAAGCGTCACTTCT
*
60210027 ATGCCAACTCCCATAAGCGTCGCTTCT
1 ATGCCAACTCCCATAAGCGTCACTTCT
60210054 TTTCCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (27 bp):
ATGCCAACTCCCATAAGCGTCACTTCT
Found at i:60210597 original size:35 final size:35
Alignment explanation
Indices: 60210558--60210628 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
60210548 CATCTCCGGA
* **
60210558 GCTTGGTAAATATGGAAAGTTATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGAGATCTTCAAAGATAT
* *
60210593 GCTTGGCAAATATGGAAGGAGATTTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGAGATCTTCAAAGATAT
60210628 G
1 G
60210629 AGATCTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGAGATCTTCAAAGATAT
Found at i:60216235 original size:47 final size:47
Alignment explanation
Indices: 60216181--60216374 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
60216171 TTAGGATTTT
** * *
60216181 ATGTGATGAATGTGAATTTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
60216228 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
60216275 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * **
60216322 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCTGAATGGATA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
60216369 ATGTGA
1 ATGTGA
60216375 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:60216281 original size:22 final size:22
Alignment explanation
Indices: 60216210--60216328 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
60216200 GTATATATGA
60216210 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
60216232 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
60216257 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
60216279 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
60216304 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
60216326 GAT
1 GAT
60216329 GAATATGAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:60216437 original size:50 final size:48
Alignment explanation
Indices: 60216344--60216626 Score: 426
Period size: 48 Copynumber: 5.8 Consensus size: 48
60216334 TGAACATGCA
* *
60216344 TATATGTGGTAAAGCTGAATGGATAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
60216392 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
60216442 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
60216490 TATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
60216540 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
60216588 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
60216627 GGCGATGTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
47 2 0.01
48 122 0.56
49 8 0.04
50 83 0.38
51 2 0.01
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:60216642 original size:98 final size:98
Alignment explanation
Indices: 60216344--60216623 Score: 499
Period size: 98 Copynumber: 2.9 Consensus size: 98
60216334 TGAACATGCA
* * * *
60216344 TATATGTGGTAAAGCTGAATGGATAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
60216409 AATGGTCAATGTGAAATATATATATGAGATATG
66 AATGGTCAATGTGAAATATATATATGAGATATG
60216442 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
60216507 AATGGTCAATGTGAAATATATATATGAGATATG
66 AATGGTCAATGTGAAATATATATATGAGATATG
60216540 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
60216605 AATGG-CTAGTGTGAAATAT
66 AATGGTC-AATGTGAAATAT
60216624 GTAGGCGATG
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
97 1 0.01
98 175 0.99
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (98 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
AATGGTCAATGTGAAATATATATATGAGATATG
Found at i:60216881 original size:37 final size:37
Alignment explanation
Indices: 60216773--60216881 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
60216763 GGAAATATAT
* *
60216773 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
60216810 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
60216847 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
60216882 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:60220253 original size:28 final size:28
Alignment explanation
Indices: 60220213--60220282 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
60220203 ATGAGATTGA
*
60220213 CACTAAGTGTGCGAGTTTAATT-GTATAG
1 CACTAAGTGTGCGAGTTTAATTATTA-AG
*
60220241 CACTAAGTGTGCGAGTTTGATTATTAAG
1 CACTAAGTGTGCGAGTTTAATTATTAAG
60220269 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
60220283 ACTTACTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTATTAAG
Found at i:60223165 original size:48 final size:48
Alignment explanation
Indices: 60223106--60223374 Score: 283
Period size: 48 Copynumber: 5.6 Consensus size: 48
60223096 TATCTGTGCT
*
60223106 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
* * ** * * * *
60223154 AGTGTAAGACCATGTTTGGAACATGGCATCAGTGATGCTGTGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
* * * * * *
60223202 AGTGTCAGACCATGTCTGGGACATGGCATC-GGCATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATATGAGAGCC
**
60223250 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGA-TATGAGAGCC
* * * *
60223298 AGTGTAAGACCATGTCTGGGACATGGCAT-GGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
* * *
60223345 AGTGTAAAACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
60223375 GGCAATTCAC
Statistics
Matches: 183, Mismatches: 33, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
47 42 0.23
48 138 0.75
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
Found at i:60223274 original size:96 final size:96
Alignment explanation
Indices: 60223106--60223374 Score: 326
Period size: 96 Copynumber: 2.8 Consensus size: 96
60223096 TATCTGTGCT
* * *
60223106 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCA-CGATATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGATATGTGAGCCAGTGTAAGACCATGTT
** ** *
60223170 TGGAACATGGCATCAGTGATGCTGTGAAAGCC
65 TGGAACATGGCATCAGCCACACTATGAAAGCC
* * * * *
60223202 AGTGTCAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTT
* ** * *
60223267 GGGACATGGCATTGGCCACATTATGAGAGCC
66 GGAACATGGCATCAGCCACACTATGAAAGCC
* * *
60223298 AGTGTAAGACCATGTCTGGGACATGGCAT-GGCCTCGACATGTGAGCCAGTGTAAAACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTT
60223362 GGAACATGGCATC
66 GGAACATGGCATC
60223375 GGCAATTCAC
Statistics
Matches: 144, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
95 42 0.29
96 102 0.71
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTT
GGAACATGGCATCAGCCACACTATGAAAGCC
Found at i:60229014 original size:17 final size:17
Alignment explanation
Indices: 60228992--60229026 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
60228982 TTATGCAAGA
60228992 AGGTAAGGTGATAGCAT
1 AGGTAAGGTGATAGCAT
60229009 AGGTAAGGTGATAGCAT
1 AGGTAAGGTGATAGCAT
60229026 A
1 A
60229027 TTCCTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (17 bp):
AGGTAAGGTGATAGCAT
Found at i:60231445 original size:48 final size:48
Alignment explanation
Indices: 60231393--60231713 Score: 245
Period size: 48 Copynumber: 6.7 Consensus size: 48
60231383 GATATGTGTA
* *
60231393 CCAGTGTAAGACCATATCTGGGACATGGCATTGACCACGATATGAGAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGACCACGATATGAGAG
* * * *** * * *
60231441 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGTGATGTTGTGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGACCACGATATGAGAG
* * * * * *
60231489 CCAGTGTAAGACCATGTCTGAGACATGGCATCGACAATGATATGTGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGACCACGATATGAGAG
* * * *
60231537 CTAGTGTAAGACCTTGTCTGGGACATGGCATTGGCCAC-ATTATGAGCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGACCACGA-TATGAGAG
* * * * * ** * * *
60231585 CCAATGTAAGATCATGTCTAGGACATGGTATCG-GTATTGAGATAAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGACCA-CGATATGAGAG
* * * *
60231633 CTAGTGTAAGACCATGCCTGGGACATGGCATT-AGCCTCGACT-TGTGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTGA-CCACGA-TATGAGAG
* *
60231681 CCAGTGTAAGACCATGTTTGGAACATGGCATTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATTG
60231714 GTAATTCACC
Statistics
Matches: 205, Mismatches: 61, Indels: 13
0.73 0.22 0.05
Matches are distributed among these distances:
47 2 0.01
48 202 0.99
49 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATTGACCACGATATGAGAG
Found at i:60231563 original size:96 final size:96
Alignment explanation
Indices: 60231393--60231711 Score: 277
Period size: 96 Copynumber: 3.3 Consensus size: 96
60231383 GATATGTGTA
* * * * * *
60231393 CCAGTGTAAGACCATATCTGGGACATGGCATTGACCACGATATGAGAT-CCAGTGTAAGACCATG
1 CCAGTGTAAGACCATGTCTGAGACATGGCATCGACAATGATATGAG-TGCTAGTGTAAGACCATG
* * ** ** *
60231457 TTTGGAACATGGCATCGGTGATGTTGTGAGAG
65 TCTGGGACATGGCATCGGCCACATTATGAGAG
* *
60231489 CCAGTGTAAGACCATGTCTGAGACATGGCATCGACAATGATATGTGTGCTAGTGTAAGACCTTGT
1 CCAGTGTAAGACCATGTCTGAGACATGGCATCGACAATGATATGAGTGCTAGTGTAAGACCATGT
* *
60231554 CTGGGACATGGCATTGGCCACATTATGAGCG
66 CTGGGACATGGCATCGGCCACATTATGAGAG
* * * ** * * * *
60231585 CCAATGTAAGATCATGTCT-AGGACATGGTATCGGTATTGAGATAAGAGCTAGTGTAAGACCATG
1 CCAGTGTAAGACCATGTCTGA-GACATGGCATCGACAATGATATGAGTGCTAGTGTAAGACCATG
* ** * * *
60231649 CCTGGGACATGGCATTAGCCTCGACT-TGTGAG
65 TCTGGGACATGGCATCGGCCAC-ATTATGAGAG
*
60231681 CCAGTGTAAGACCATGTTTG-GAACATGGCAT
1 CCAGTGTAAGACCATGTCTGAG-ACATGGCAT
60231712 TGGTAATTCA
Statistics
Matches: 180, Mismatches: 38, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
95 3 0.02
96 175 0.97
97 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (96 bp):
CCAGTGTAAGACCATGTCTGAGACATGGCATCGACAATGATATGAGTGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCCACATTATGAGAG
Found at i:60231687 original size:144 final size:144
Alignment explanation
Indices: 60231382--60231714 Score: 358
Period size: 144 Copynumber: 2.3 Consensus size: 144
60231372 GACGTTTGGG
* * * *
60231382 TGATATGTGTA-CCAGTGTAAGACCATATCTGGGACATGGCATTGACCACGATATGAGATCCAGT
1 TGATATGTG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACGATATGAGAGCCAAT
* * * *
60231446 GTAAGACCATGTTTGGAACATGGCATCGGTGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGAG
65 GTAAGACCATGTTAGGAACATGGCATCGGTGATGTAGTAAGAGCCAGTGTAAGACCATGCCTGAG
*
60231511 ACATGGCATCGACAA
130 ACATGGCATAGACAA
* * * *
60231526 TGATATGTGTGCTAGTGTAAGACCTTGTCTGGGACATGGCATTGGCCAC-ATTATGAGCGCCAAT
1 TGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACGA-TATGAGAGCCAAT
* * *
60231590 GTAAGATCATGTCTAGG-ACATGGTATCGGT-AT-TGAGATAAGAGCTAGTGTAAGACCATGCCT
65 GTAAGACCATGT-TAGGAACATGGCATCGGTGATGT-AG-TAAGAGCCAGTGTAAGACCATGCCT
* *
60231652 GGGACATGGCATTAG-C-C
127 GAGACATGGCA-TAGACAA
* *
60231669 TCGACT-TGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGG
1 T-GA-TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGG
60231715 TAATTCACCC
Statistics
Matches: 158, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
142 1 0.01
143 5 0.03
144 146 0.92
145 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (144 bp):
TGATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACGATATGAGAGCCAATG
TAAGACCATGTTAGGAACATGGCATCGGTGATGTAGTAAGAGCCAGTGTAAGACCATGCCTGAGA
CATGGCATAGACAA
Found at i:60233505 original size:60 final size:60
Alignment explanation
Indices: 60233407--60233528 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
60233397 CGGACTGGTC
60233407 CATTGCTTGGAGAAATTGAAAGCCCATCTCTGGAGCTTGGTAAATATGGAAAGTGATCTT
1 CATTGCTTGGAGAAATTGAAAGCCCATCTCTGGAGCTTGGTAAATATGGAAAGTGATCTT
* * *
60233467 CATTGCTTGGAGAGATTGAAAGCCTATCTCTGGCGCTTGGTAAATATGGAAAGTGATCTT
1 CATTGCTTGGAGAAATTGAAAGCCCATCTCTGGAGCTTGGTAAATATGGAAAGTGATCTT
60233527 CA
1 CA
60233529 AAGATATGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (60 bp):
CATTGCTTGGAGAAATTGAAAGCCCATCTCTGGAGCTTGGTAAATATGGAAAGTGATCTT
Found at i:60233540 original size:35 final size:35
Alignment explanation
Indices: 60233501--60233571 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
60233491 TATCTCTGGC
* *
60233501 GCTTGGTAAATATGGAAAGT-GATCTTCAAAGATAT
1 GCTTGGCAAATATGG-AAGTGGATCTTCAAAAATAT
60233536 GCTTGGCAAATATGGAAGTGGATCTTCAAAAATAT
1 GCTTGGCAAATATGGAAGTGGATCTTCAAAAATAT
60233571 G
1 G
60233572 TGATTCTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.30
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGTGGATCTTCAAAAATAT
Found at i:60234592 original size:4 final size:4
Alignment explanation
Indices: 60234583--60234614 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
60234573 ATCTATGCCC
60234583 CATA CATA CATA CATA CATA CATA C-TA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA C
60234615 TTATTCCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:60244560 original size:22 final size:22
Alignment explanation
Indices: 60244458--60244561 Score: 109
Period size: 22 Copynumber: 4.7 Consensus size: 22
60244448 ACACCACACT
* *
60244458 AGAGAGCACCATAGTGCTAAAC
1 AGAGAGCACTAAAGTGCTAAAC
* * *
60244480 AGAGAGCACTGAAGTTCTAAAT
1 AGAGAGCACTAAAGTGCTAAAC
* * *
60244502 AAAGAGCACTAAAATGCTAAGC
1 AGAGAGCACTAAAGTGCTAAAC
* *
60244524 AGAGAGCACCAAAGTGCTAGAC
1 AGAGAGCACTAAAGTGCTAAAC
*
60244546 AGAGAGCACTGAAGTG
1 AGAGAGCACTAAAGTG
60244562 TTGAATCTAT
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.14
Consensus pattern (22 bp):
AGAGAGCACTAAAGTGCTAAAC
Found at i:60245547 original size:20 final size:19
Alignment explanation
Indices: 60245514--60245553 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
60245504 ATTTGGCATA
60245514 TTAATTAATTATAATTAAC
1 TTAATTAATTATAATTAAC
60245533 TTAATTAACTTATAATTAAC
1 TTAATTAA-TTATAATTAAC
60245553 T
1 T
60245554 AAACTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATTAATTATAATTAAC
Found at i:60245550 original size:11 final size:11
Alignment explanation
Indices: 60245515--60245553 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
60245505 TTTGGCATAT
60245515 TAATTAA-TTA
1 TAATTAACTTA
60245525 TAATTAAC-T-
1 TAATTAACTTA
60245534 TAATTAACTTA
1 TAATTAACTTA
60245545 TAATTAACT
1 TAATTAACT
60245554 AAACTTAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 9 0.35
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
TAATTAACTTA
Found at i:60255895 original size:35 final size:35
Alignment explanation
Indices: 60255826--60255899 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
60255816 CAGTTTTCCG
* **
60255826 AAATCCCTTATTTTTTTCCCCTAAAAATTTTCCCC
1 AAATACCTTATTTTTTTCCCCTAAAAATAATCCCC
60255861 AAATACCTTATTTTTTTCCCC-AAATCAA-AATCCCC
1 AAATACCTTATTTTTTTCCCCTAAA--AATAATCCCC
60255896 AAAT
1 AAAT
60255900 CCATTAGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 3 0.09
35 29 0.85
36 2 0.06
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.38
Consensus pattern (35 bp):
AAATACCTTATTTTTTTCCCCTAAAAATAATCCCC
Found at i:60259840 original size:24 final size:24
Alignment explanation
Indices: 60259813--60259864 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
60259803 GAGATTCATG
*
60259813 AAGTAGTTGCAGATATTCTAAAAA
1 AAGTAGATGCAGATATTCTAAAAA
*
60259837 AAGTGGATGCAGATATTCTAAAAA
1 AAGTAGATGCAGATATTCTAAAAA
60259861 AAGT
1 AAGT
60259865 GGACTTCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (24 bp):
AAGTAGATGCAGATATTCTAAAAA
Found at i:60259865 original size:24 final size:24
Alignment explanation
Indices: 60259820--60259867 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
60259810 ATGAAGTAGT
60259820 TGCAGATATTCTAAAAAAAGTGGA
1 TGCAGATATTCTAAAAAAAGTGGA
60259844 TGCAGATATTCTAAAAAAAGTGGA
1 TGCAGATATTCTAAAAAAAGTGGA
60259868 CTTCTACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (24 bp):
TGCAGATATTCTAAAAAAAGTGGA
Found at i:60265948 original size:24 final size:25
Alignment explanation
Indices: 60265918--60265973 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 25
60265908 AGCTTTTTAT
60265918 ACTTTAATTATTCCTTAATTAATTA
1 ACTTTAATTATTCCTTAATTAATTA
*
60265943 AC-TT-A--A-TCCTTAATTAATTT
1 ACTTTAATTATTCCTTAATTAATTA
60265963 ACTTTAATTAT
1 ACTTTAATTAT
60265974 CATGAATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 10
0.69 0.03 0.28
Matches are distributed among these distances:
20 15 0.60
21 3 0.12
22 1 0.04
23 1 0.04
24 3 0.12
25 2 0.08
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (25 bp):
ACTTTAATTATTCCTTAATTAATTA
Found at i:60281864 original size:22 final size:24
Alignment explanation
Indices: 60281834--60281885 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
60281824 GTGTTGATGG
*
60281834 CACAGGGGC-GTG-CCTTTATGTC
1 CACACGGGCAGTGACCTTTATGTC
60281856 CACACGGGCATGTGACCTTTATGTC
1 CACACGGGCA-GTGACCTTTATGTC
60281881 CACAC
1 CACAC
60281886 AGGGGCTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
24 3 0.12
25 15 0.58
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (24 bp):
CACACGGGCAGTGACCTTTATGTC
Found at i:60282349 original size:28 final size:28
Alignment explanation
Indices: 60282309--60282366 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
60282299 TTCTTAACTA
**
60282309 ACAAAACTGGTGGTCCATGCAGAGACAT
1 ACAAAACTGGTGGTCCACACAGAGACAT
*
60282337 ACAAAACTGGTGGTCCCCACAGAGACAT
1 ACAAAACTGGTGGTCCACACAGAGACAT
60282365 AC
1 AC
60282367 TCTGACAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (28 bp):
ACAAAACTGGTGGTCCACACAGAGACAT
Done.