Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 225 of 255
Found at i:74753210 original size:14 final size:14
Alignment explanation
Indices: 74753191--74753230 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
74753181 TTGATTGGCA
74753191 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
74753205 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
74753219 GGAAAATGTTTT
1 GTAAAATGTTTT
74753231 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:74753243 original size:34 final size:35
Alignment explanation
Indices: 74753199--74753265 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
74753189 CAGTAAAATG
* *
74753199 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
74753233 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
74753266 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:74753252 original size:20 final size:20
Alignment explanation
Indices: 74753214--74753253 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
74753204 CGTAAAATGA
**
74753214 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
74753234 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
74753254 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:74760306 original size:20 final size:20
Alignment explanation
Indices: 74760281--74760320 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
74760271 ATTAGAAGAT
*
74760281 CCAAGTTGATTTGGTGATTG
1 CCAAGTTGATTTGGCGATTG
74760301 CCAAGTTGATTTGGCGATTG
1 CCAAGTTGATTTGGCGATTG
74760321 ACATTAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (20 bp):
CCAAGTTGATTTGGCGATTG
Found at i:74761723 original size:54 final size:54
Alignment explanation
Indices: 74761654--74761762 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
74761644 ATATTCAAAG
74761654 TAAAAATAAAAAATATAATTTAATCTTCAAAATTTCAATAAAAATTTTAAAAAT
1 TAAAAATAAAAAATATAATTTAATCTTCAAAATTTCAATAAAAATTTTAAAAAT
*
74761708 TAAAAATTAAAAATATAATTTAATCTTCAAAATTTCAATAAAAATTTTAAAAAT
1 TAAAAATAAAAAATATAATTTAATCTTCAAAATTTCAATAAAAATTTTAAAAAT
74761762 T
1 T
74761763 CTTAGGAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (54 bp):
TAAAAATAAAAAATATAATTTAATCTTCAAAATTTCAATAAAAATTTTAAAAAT
Found at i:74761756 original size:27 final size:27
Alignment explanation
Indices: 74761672--74761757 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
74761662 AAAAATATAA
74761672 TTTAATCTTCAAAATTTCAATAAAAAT
1 TTTAATCTTCAAAATTTCAATAAAAAT
** * *
74761699 TTTAAAAATT-AAAAATT-AA-AAATATAA
1 TTT-AATCTTCAAAATTTCAATAAA-A-AT
74761726 TTTAATCTTCAAAATTTCAATAAAAAT
1 TTTAATCTTCAAAATTTCAATAAAAAT
74761753 TTTAA
1 TTTAA
74761758 AAATTCTTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
25 3 0.07
26 7 0.16
27 25 0.56
28 7 0.16
29 3 0.07
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTAATCTTCAAAATTTCAATAAAAAT
Found at i:74763307 original size:20 final size:20
Alignment explanation
Indices: 74763282--74763321 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
74763272 TTCTTGAAGG
74763282 GTGGATCTTTTCTTCATCGC
1 GTGGATCTTTTCTTCATCGC
74763302 GTGGATCTTTTCTTCATCGC
1 GTGGATCTTTTCTTCATCGC
74763322 TCTTGGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.25, G:0.20, T:0.45
Consensus pattern (20 bp):
GTGGATCTTTTCTTCATCGC
Found at i:74765718 original size:28 final size:28
Alignment explanation
Indices: 74765686--74765755 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
74765676 TATGGTACTC
*
74765686 AGTGTACGAAATATTGAGAACGACACTT
1 AGTGTGCGAAATATTGAGAACGACACTT
** *
74765714 AGTGTGCGAGGTATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAACGACACTT
*
74765742 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
74765756 CGAATGATTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAACGACACTT
Found at i:74775020 original size:50 final size:49
Alignment explanation
Indices: 74774897--74775029 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
74774887 GGTGTAATGC
*
74774897 CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGA
** * * * * * *
74774946 CGACACCATGTCTTAGGCATGGTCTTACACTGGCTCTC-ACATCTACGTGA
1 CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGA-G-GA
*
74774996 CGATGCCATGTCCCAGACATGGTCTTACACTGAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTGAC
74775030 ACATCTCGTA
Statistics
Matches: 67, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
48 5 0.07
49 33 0.49
50 29 0.43
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCGAAATCGAGGA
Found at i:74775063 original size:11 final size:11
Alignment explanation
Indices: 74775047--74775074 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
74775037 GTAGCCGATG
74775047 CATGTCCCATA
1 CATGTCCCATA
74775058 CATGTCCCATA
1 CATGTCCCATA
74775069 CATGTC
1 CATGTC
74775075 TTACACTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.36, G:0.11, T:0.29
Consensus pattern (11 bp):
CATGTCCCATA
Found at i:74775108 original size:57 final size:56
Alignment explanation
Indices: 74775002--74775120 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 56
74774992 GTGACGATGC
* * *
74775002 CATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCATA
1 CATGTCCCAGACATGGTCTTACACTGACACATCGCGTAGCAGATGCATGTCCCAGA
* *
74775058 CATGTCCCATACAT-GTCTTACACTGGCTTACATCGCG-AGGCAGATGCATGTCCCAGA
1 CATGTCCCAGACATGGTCTTACACTGAC--ACATCGCGTA-GCAGATGCATGTCCCAGA
74775115 CATGTC
1 CATGTC
74775121 TTACACTACC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
55 12 0.22
56 14 0.25
57 29 0.53
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (56 bp):
CATGTCCCAGACATGGTCTTACACTGACACATCGCGTAGCAGATGCATGTCCCAGA
Found at i:74775125 original size:46 final size:45
Alignment explanation
Indices: 74775058--74775221 Score: 159
Period size: 46 Copynumber: 3.5 Consensus size: 45
74775048 ATGTCCCATA
* *
74775058 CATGTCCCATACATGTCTTACACTGGCT-TACATCGCGAGGCAGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCACGAGGCA-ATG
** * * * *
74775104 CATGTCCCAGACATGTCTTACACTACCTCTCGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCACGA-GGCAATG
* * * *
74775150 CCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATGTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCACGAGG-CAATG
74775198 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
74775222 AACGCACAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
46 42 0.44
47 33 0.35
48 20 0.21
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCACGAGGCAATG
Found at i:74775164 original size:47 final size:45
Alignment explanation
Indices: 74775101--74775222 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 45
74775091 CGCGAGGCAG
*
74775101 ATGCATGTCCCAGACATGTCTTACACTACCTCTCGTCTCAA-T-GCCA
1 ATGCATGTCCCAGACATGTCTTACACTACCTCTC--AT-AAGTGGCCA
* **
74775147 ATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATGTGGCCA
1 ATG-CATGTCCCAGACAT-GTCTTACACTACCTCTCATAA-GTGGCCA
74775195 ATGCATGTCCCAGACATGTCTTACACTA
1 ATGCATGTCCCAGACATGTCTTACACTA
74775223 ACGCACAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
45 2 0.03
46 13 0.20
47 29 0.45
48 21 0.32
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTACCTCTCATAAGTGGCCA
Found at i:74778875 original size:9 final size:9
Alignment explanation
Indices: 74778858--74778894 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
74778848 TTGAGTTTCG
74778858 AATTCGAAT
1 AATTCGAAT
*
74778867 AACTCGAAT
1 AATTCGAAT
*
74778876 AATTTGAAT
1 AATTCGAAT
74778885 AATTCGAAT
1 AATTCGAAT
74778894 A
1 A
74778895 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:74780393 original size:59 final size:59
Alignment explanation
Indices: 74780321--74780441 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
74780311 TTCGACTCTC
74780321 AACTTTTAAAATTTAGTAAAATTATGTTTTTCTAAATGGAACTAGATCGTGAAAATTTT
1 AACTTTTAAAATTTAGTAAAATTATGTTTTTCTAAATGGAACTAGATCGTGAAAATTTT
74780380 AACTTTTAAAATTTAGTAAAATTATGTTTTTCTAAATGGAACTAGATCGTGAAAATTTT
1 AACTTTTAAAATTTAGTAAAATTATGTTTTTCTAAATGGAACTAGATCGTGAAAATTTT
74780439 AAC
1 AAC
74780442 ATTTCTGTGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (59 bp):
AACTTTTAAAATTTAGTAAAATTATGTTTTTCTAAATGGAACTAGATCGTGAAAATTTT
Found at i:74786500 original size:15 final size:15
Alignment explanation
Indices: 74786480--74786511 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
74786470 GCGTAGCTGG
74786480 AAGGTGAAAGATGTT
1 AAGGTGAAAGATGTT
74786495 AAGGTGAAAGATGTT
1 AAGGTGAAAGATGTT
74786510 AA
1 AA
74786512 CTAAGTGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (15 bp):
AAGGTGAAAGATGTT
Found at i:74790864 original size:19 final size:18
Alignment explanation
Indices: 74790842--74790895 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
74790832 AATACAGAAT
*
74790842 AATTCAAAATAATTTTTAA
1 AATTCAAAAT-ATTTATAA
*
74790861 AATTCAACATATTTATAAA
1 AATTCAAAATATTTAT-AA
*
74790880 AATTCCAAAT-TTTATA
1 AATTCAAAATATTTATA
74790896 TATTTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 10 0.33
19 19 0.63
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTCAAAATATTTATAA
Found at i:74790879 original size:18 final size:19
Alignment explanation
Indices: 74790842--74790880 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
74790832 AATACAGAAT
*
74790842 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
*
74790861 AATTCAACAT-ATTTATAA
1 AATTCAAAATAATTTATAA
74790879 AA
1 AA
74790881 ATTCCAAATT
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:74790890 original size:26 final size:26
Alignment explanation
Indices: 74790860--74790909 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
74790850 ATAATTTTTA
74790860 AAATTCAACATATTTATAAAAATTCC
1 AAATTCAACATATTTATAAAAATTCC
** * *
74790886 AAATTTTATATATTTTTAAAAATT
1 AAATTCAACATATTTATAAAAATT
74790910 ATACAAGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (26 bp):
AAATTCAACATATTTATAAAAATTCC
Found at i:74791520 original size:14 final size:15
Alignment explanation
Indices: 74791487--74791520 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
74791477 AGTTTATGTA
74791487 TTTTA-ATTTTATAT
1 TTTTATATTTTATAT
74791501 TTTTATATTTTAT-T
1 TTTTATATTTTATAT
74791515 TTTTAT
1 TTTTAT
74791521 TCAATTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATATTTTATAT
Found at i:74793634 original size:2 final size:2
Alignment explanation
Indices: 74793627--74793686 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
74793617 ATTAATTGCT
74793627 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
74793669 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
74793687 CGTACTCGTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:74811812 original size:6 final size:6
Alignment explanation
Indices: 74811796--74811835 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
74811786 ATTTTGGAAA
* *
74811796 AAAAAT AAAAAAT AAAAAT AAAAAT AAAGAT AAAGAT AAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
74811836 TCAATGATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:74834843 original size:15 final size:17
Alignment explanation
Indices: 74834823--74834854 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
74834813 TTAGGAAACG
74834823 TACATAA-A-AAATATA
1 TACATAATATAAATATA
74834838 TACATAATATAAATATA
1 TACATAATATAAATATA
74834855 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:74835400 original size:11 final size:11
Alignment explanation
Indices: 74835366--74835407 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
74835356 AAATCATTTT
74835366 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
74835377 GAA-AAAAAAA
1 GAAGAGAGAAA
*
74835387 GAAGGGAGAAA
1 GAAGAGAGAAA
74835398 GAAGAGAGAA
1 GAAGAGAGAA
74835408 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:74835916 original size:20 final size:19
Alignment explanation
Indices: 74835868--74835922 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
74835858 AGGGTTTCTT
**
74835868 GGTTTTTTTGGGGGGGTTA
1 GGTTTTTTTTTGGGGGTTA
74835887 GGTTTTTTTTTGGGGGTTA
1 GGTTTTTTTTTGGGGGTTA
74835906 GGTTTTTTTTTTGGGGG
1 GG-TTTTTTTTTGGGGG
74835923 GCTTAATGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.04, C:0.00, G:0.42, T:0.55
Consensus pattern (19 bp):
GGTTTTTTTTTGGGGGTTA
Found at i:74837414 original size:27 final size:27
Alignment explanation
Indices: 74837362--74837419 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
74837352 AAAACCTAAT
*
74837362 TAAAAACCAACAGTCCAAAGAGTCCAC
1 TAAAAACCAACAGTCCAAAGAATCCAC
* **
74837389 TAAAAACCAACAGTTCGGAGAATCCAC
1 TAAAAACCAACAGTCCAAAGAATCCAC
74837416 TAAA
1 TAAA
74837420 TATAAAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.12, T:0.14
Consensus pattern (27 bp):
TAAAAACCAACAGTCCAAAGAATCCAC
Found at i:74841923 original size:20 final size:20
Alignment explanation
Indices: 74841900--74841937 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
74841890 AAAAAAAATG
*
74841900 AAAAGTATTAAAAAAATTAT
1 AAAAATATTAAAAAAATTAT
*
74841920 AAAAATATTAAAAGAATT
1 AAAAATATTAAAAAAATT
74841938 CAAATCTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAATATTAAAAAAATTAT
Found at i:74842233 original size:19 final size:20
Alignment explanation
Indices: 74842209--74842247 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
74842199 TAATCTAAAG
* *
74842209 CAACATTATTTAAAT-TATT
1 CAACATAATTAAAATATATT
74842228 CAACATAATTAAAATATATT
1 CAACATAATTAAAATATATT
74842248 ATCTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (20 bp):
CAACATAATTAAAATATATT
Found at i:74844664 original size:17 final size:17
Alignment explanation
Indices: 74844644--74844688 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
74844634 TAATCTATCA
74844644 ATTTTTATTTGAGATTT
1 ATTTTTATTTGAGATTT
* *
74844661 ATTTTCATTTGAGTTTT
1 ATTTTTATTTGAGATTT
*
74844678 TTTTTTGATTT
1 ATTTTT-ATTT
74844689 ATTTATGCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.69
Consensus pattern (17 bp):
ATTTTTATTTGAGATTT
Found at i:74848470 original size:9 final size:9
Alignment explanation
Indices: 74848458--74848515 Score: 71
Period size: 9 Copynumber: 6.1 Consensus size: 9
74848448 AGTATTTAAT
74848458 TAATTTTTA
1 TAATTTTTA
74848467 TAATTTTTAA
1 TAATTTTT-A
74848477 TAATTTTTA
1 TAATTTTTA
74848486 TAATTTTTTAA
1 TAA-TTTTT-A
* *
74848497 GAATTTTAA
1 TAATTTTTA
74848506 TAATTTTTA
1 TAATTTTTA
74848515 T
1 T
74848516 TTTAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
9 21 0.50
10 18 0.43
11 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TAATTTTTA
Found at i:74848482 original size:19 final size:19
Alignment explanation
Indices: 74848452--74848514 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
74848442 CATGTTAGTA
74848452 TTTAATTAATTTTTATAATT
1 TTTAA-TAATTTTTATAATT
74848472 TTTAATAATTTTTATAATTT
1 TTTAATAATTTTTATAA-TT
* *
74848492 TTTAAGAATTTTAATAATT
1 TTTAATAATTTTTATAATT
74848511 TTTA
1 TTTA
74848515 TTTTAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.45
20 22 0.55
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTAATAATTTTTATAATT
Found at i:74849347 original size:23 final size:24
Alignment explanation
Indices: 74849298--74849348 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
74849288 ACTATAATAC
*
74849298 CAAAAAATAATATCAACATTGCTA
1 CAAAAAATAATATCAAAATTGCTA
*
74849322 CAAAAAGTAATATCAAAATTGC-A
1 CAAAAAATAATATCAAAATTGCTA
74849345 CAAA
1 CAAA
74849349 CAAACAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.57, C:0.16, G:0.06, T:0.22
Consensus pattern (24 bp):
CAAAAAATAATATCAAAATTGCTA
Found at i:74850071 original size:14 final size:15
Alignment explanation
Indices: 74850052--74850087 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
74850042 GAAAAGTAAG
74850052 ATAATAATATTT-GT
1 ATAATAATATTTCGT
*
74850066 ATAATAATATTTCTT
1 ATAATAATATTTCGT
74850081 ATAATAA
1 ATAATAA
74850088 GATAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
ATAATAATATTTCGT
Found at i:74850174 original size:15 final size:17
Alignment explanation
Indices: 74850132--74850178 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
74850122 GTTGAATAAG
74850132 TTTGAATTTATAATACTT
1 TTTGAATTT-TAATACTT
*
74850150 TTTTATATTTTAA-AC-T
1 TTTGA-ATTTTAATACTT
74850166 TTTGAATTTTAAT
1 TTTGAATTTTAAT
74850179 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 7 0.28
16 5 0.20
17 2 0.08
18 7 0.28
19 4 0.16
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (17 bp):
TTTGAATTTTAATACTT
Found at i:74853999 original size:16 final size:16
Alignment explanation
Indices: 74853975--74854007 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
74853965 TTGTATATAT
*
74853975 TAAATTATTATATTAA
1 TAAAATATTATATTAA
74853991 TAAAATATTATATTAA
1 TAAAATATTATATTAA
74854007 T
1 T
74854008 TAGATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATATTATATTAA
Found at i:74854038 original size:5 final size:5
Alignment explanation
Indices: 74854019--74854058 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
74854009 AGATAAAAAG
74854019 TATAT TATAAGT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TAT-A-T TATAT TATAT TATAT TATAT TATAT TAT
74854059 TATAAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 27 0.82
6 2 0.06
7 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:74855417 original size:18 final size:18
Alignment explanation
Indices: 74855396--74855431 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
74855386 ATTAATTGAT
74855396 TGATTGATACTGAATAAC
1 TGATTGATACTGAATAAC
* *
74855414 TGATTGTTATTGAATAAC
1 TGATTGATACTGAATAAC
74855432 AATAAACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (18 bp):
TGATTGATACTGAATAAC
Found at i:74873405 original size:45 final size:45
Alignment explanation
Indices: 74873337--74873428 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
74873327 TGTGAGCAAT
*
74873337 AAGTTAGTCCAAAGATTAGTTCATTGTTTGACATAGTTTATTGTC
1 AAGTTAGTCCAAAGATTAATTCATTGTTTGACATAGTTTATTGTC
74873382 AAGTTAGTCCAAAGATTAATTCATTGTTTGACATAGTTTATTGTC
1 AAGTTAGTCCAAAGATTAATTCATTGTTTGACATAGTTTATTGTC
74873427 AA
1 AA
74873429 TGTTTGATTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (45 bp):
AAGTTAGTCCAAAGATTAATTCATTGTTTGACATAGTTTATTGTC
Found at i:74874759 original size:19 final size:18
Alignment explanation
Indices: 74874735--74874773 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
74874725 TACACCATTC
*
74874735 ACTTAACTATGGGAAAGTT
1 ACTTAACTAT-GAAAAGTT
*
74874754 ACTTAATTATGAAAAGTT
1 ACTTAACTATGAAAAGTT
74874772 AC
1 AC
74874774 AGTTTGATAA
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:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (18 bp):
ACTTAACTATGAAAAGTT
Found at i:74874947 original size:21 final size:21
Alignment explanation
Indices: 74874923--74874990 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
74874913 CCTCTAGTCA
*
74874923 TAAACCCTAAACTATAAACCT
1 TAAACCCTAAACAATAAACCT
74874944 TAAACCCTAAA-AATTAAACCT
1 TAAACCCTAAACAA-TAAACCT
* * *
74874965 TAAATCCTAAGCCATAAAACCT
1 TAAACCCTAAACAAT-AAACCT
74874987 TAAA
1 TAAA
74874991 TTATAGACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 28 0.70
22 11 0.28
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.24
Consensus pattern (21 bp):
TAAACCCTAAACAATAAACCT
Found at i:74874954 original size:14 final size:14
Alignment explanation
Indices: 74874921--74874990 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
74874911 AACCTCTAGT
*
74874921 CATAAACCCTAAAC
1 CATAAACCTTAAAC
*
74874935 TATAAACCTTAAAC
1 CATAAACCTTAAAC
* **
74874949 CCTAAAAATTAAAC
1 CATAAACCTTAAAC
* *
74874963 CTTAAATCC-TAAGC
1 CATAAA-CCTTAAAC
74874977 CATAAAACCTTAAA
1 CAT-AAACCTTAAA
74874991 TTATAGACAC
Statistics
Matches: 41, Mismatches: 12, Indels: 5
0.71 0.21 0.09
Matches are distributed among these distances:
14 35 0.85
15 6 0.15
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.23
Consensus pattern (14 bp):
CATAAACCTTAAAC
Found at i:74875100 original size:21 final size:21
Alignment explanation
Indices: 74875076--74875122 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
74875066 AGCTTAAGTT
**
74875076 ATAAACCCTAAATCTTAAACC
1 ATAAACCCTAAATCCAAAACC
74875097 ATAAACCCTAAATCCAAAACC
1 ATAAACCCTAAATCCAAAACC
74875118 ATAAA
1 ATAAA
74875123 ACCTTAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAAACCCTAAATCCAAAACC
Found at i:74878984 original size:16 final size:17
Alignment explanation
Indices: 74878952--74878984 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
74878942 CATTAAGAAG
74878952 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
74878970 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
74878985 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:74879081 original size:3 final size:3
Alignment explanation
Indices: 74879073--74879107 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
74879063 ATTAATAGTA
74879073 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
74879108 AAAGAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:74879434 original size:75 final size:75
Alignment explanation
Indices: 74879354--74879514 Score: 181
Period size: 74 Copynumber: 2.2 Consensus size: 75
74879344 TTTTCACTAG
* *
74879354 AAAACGCCAC-AAACGTATATTAATAGATTGCAAAACGGCGTCGTTAT-TA-CCTTGTTATTAGT
1 AAAACGCCACAAAAC--ATATAAAGAGATTGCAAAACGGCGTCGTTATATAGCCTT-TTATTAGT
74879416 GGCGCTTTTTCGA
63 GGCGCTTTTTCGA
* ** * *
74879429 AAAACGCCACAAAACATCTAAAGAGATTTTAAAACGTCGTCGTTTTATAGCCTTTTATTAGTGGC
1 AAAACGCCACAAAACATATAAAGAGATTGCAAAACGGCGTCGTTATATAGCCTTTTATTAGTGGC
74879494 GC-TTTT--A
66 GCTTTTTCGA
*
74879501 TAAACGCCACAAAA
1 AAAACGCCACAAAA
74879515 GGTGTGAAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
72 14 0.19
74 28 0.37
75 25 0.33
76 8 0.11
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (75 bp):
AAAACGCCACAAAACATATAAAGAGATTGCAAAACGGCGTCGTTATATAGCCTTTTATTAGTGGC
GCTTTTTCGA
Found at i:74879489 original size:188 final size:189
Alignment explanation
Indices: 74879215--74879628 Score: 498
Period size: 188 Copynumber: 2.2 Consensus size: 189
74879205 TTTTAAAGCT
* * * *
74879215 TTGTTATTAGTGGTGCTTTTAAAAAAATGCCACAAAAACATCCATTAAGAGAATGTAAAACGGCG
1 TTGTTATTAGTGGCGCTTTT-TAAAAACGCCAC-AAAACATCCATAAAGAGAATGTAAAACGGCG
* * * * *
74879280 TCGTTTACATCCTTGTTATTAGTGGCGCTTATATAAACGCCGCAACAGGTGTGAATTACCGGTGT
64 TCGTTTACAGCCTTGTTATTAGTGGCGCTTATATAAACGCCACAAAAGGTGTGAAATACCGGTAT
** *
74879345 TTTCACTAGAAAACGCCACAAACGTATATTAATAGATTGC-AAAACGGCGTCGTTAT-TA-CC
129 TTTCACTAG-AAACGCCACAAAAATATATTAACAGATTGCAAAAACGGCGTCGTT-TGTAGCC
* * *
74879405 TTGTTATTAGTGGCGCTTTTTCGAAAAACGCCACAAAACAT-C-TAAAGAGATTTTAAAACGTCG
1 TTGTTATTAGTGGCGCTTTTT--AAAAACGCCACAAAACATCCATAAAGAGAATGTAAAACGGCG
* * *
74879468 TCGTTTTATAGCCTT-TTATTAGTGGCGCTTTTATAAACGCCACAAAAGGTGTGAAATATCGGTA
64 TCG-TTTACAGCCTTGTTATTAGTGGCGCTTATATAAACGCCACAAAAGGTGTGAAATACCGGTA
* **
74879532 TTTTCACTAGAAACGCCACAAAAATCTATTAACAGATTGCAAAAATTGCGTCGTTTGTAGCC
128 TTTTCACTAGAAACGCCACAAAAATATATTAACAGATTGCAAAAACGGCGTCGTTTGTAGCC
* * * *
74879594 TTCTAATTAGTGGCACTTTATAAAAACGCCACAAA
1 TTGTTATTAGTGGCGCTTTTTAAAAACGCCACAAA
74879629 TATTTATTAA
Statistics
Matches: 193, Mismatches: 25, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
187 41 0.21
188 87 0.45
189 29 0.15
190 26 0.13
191 10 0.05
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (189 bp):
TTGTTATTAGTGGCGCTTTTTAAAAACGCCACAAAACATCCATAAAGAGAATGTAAAACGGCGTC
GTTTACAGCCTTGTTATTAGTGGCGCTTATATAAACGCCACAAAAGGTGTGAAATACCGGTATTT
TCACTAGAAACGCCACAAAAATATATTAACAGATTGCAAAAACGGCGTCGTTTGTAGCC
Found at i:74880796 original size:39 final size:38
Alignment explanation
Indices: 74880749--74880822 Score: 121
Period size: 39 Copynumber: 1.9 Consensus size: 38
74880739 ACTTAAATGT
* *
74880749 TATAATACATGATTTATCTCAATTACATCCATATATGA
1 TATAATACATAATATATCTCAATTACATCCATATATGA
74880787 TATATATACATAATATATCTCAATTACATCCATATA
1 TATA-ATACATAATATATCTCAATTACATCCATATA
74880823 AATATATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
38 4 0.12
39 29 0.88
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (38 bp):
TATAATACATAATATATCTCAATTACATCCATATATGA
Found at i:74883372 original size:38 final size:39
Alignment explanation
Indices: 74883324--74883417 Score: 172
Period size: 39 Copynumber: 2.4 Consensus size: 39
74883314 TCAATCTTAT
74883324 TTTAATTAATATAATTTGGA-TAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
74883362 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
74883401 TTAAATTAATATAATTT
1 TTTAATTAATATAATTT
74883418 TTATAAATAT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 20 0.37
39 34 0.63
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:74883425 original size:29 final size:28
Alignment explanation
Indices: 74883383--74883449 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
74883373 TAATTTGGAT
*
74883383 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTT-TTTAAATATTATTAAATTAAAA
*
74883412 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTT-TAAATATTATTAAATTAAAA
*
74883441 TATTTTTTT
1 TAATTTTTT
74883450 TCCATGTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATTTTTTAAATATTATTAAATTAAAA
Found at i:74883749 original size:9 final size:9
Alignment explanation
Indices: 74883720--74883883 Score: 176
Period size: 9 Copynumber: 18.7 Consensus size: 9
74883710 TATATACTTG
74883720 AACTTACAT
1 AACTTACAT
74883729 AAC-TA-AT
1 AACTTACAT
*
74883736 TACTTACAT
1 AACTTACAT
74883745 AACTTACAT
1 AACTTACAT
*
74883754 AACTCACAT
1 AACTTACAT
*
74883763 AACTCACAT
1 AACTTACAT
**
74883772 AACTTATTT
1 AACTTACAT
74883781 AACTTACAT
1 AACTTACAT
74883790 AACTTACAT
1 AACTTACAT
*
74883799 AACTCACAT
1 AACTTACAT
*
74883808 AACTTACAG
1 AACTTACAT
74883817 AACTTACAT
1 AACTTACAT
*
74883826 AATTTACAT
1 AACTTACAT
74883835 AACTTACAT
1 AACTTACAT
74883844 AA--TACAT
1 AACTTACAT
* *
74883851 AA-ATATAT
1 AACTTACAT
* *
74883859 ATCATATCAT
1 AACTTA-CAT
74883869 AACTTACAT
1 AACTTACAT
74883878 AACTTA
1 AACTTA
74883884 ATTAGAGTTA
Statistics
Matches: 131, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
7 11 0.08
8 9 0.07
9 105 0.80
10 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:74888960 original size:13 final size:14
Alignment explanation
Indices: 74888944--74888972 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
74888934 TTACAAATAT
74888944 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
74888957 TTATAATGGTTTAA
1 TTATAATGGTTTAA
74888971 TT
1 TT
74888973 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:74889713 original size:31 final size:31
Alignment explanation
Indices: 74889678--74889743 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
74889668 TTTATTTTTT
* *
74889678 ATGCTACATTTGTTGTTTTTGGTTGGATTTC
1 ATGCTACATTTGCTGTTTTTGGTTGGATTTA
* *
74889709 ATGCTATATTTGCTGTTTTTTGTTGGATTTA
1 ATGCTACATTTGCTGTTTTTGGTTGGATTTA
74889740 ATGC
1 ATGC
74889744 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.15, C:0.09, G:0.21, T:0.55
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTTGGTTGGATTTA
Found at i:74895748 original size:31 final size:30
Alignment explanation
Indices: 74895713--74895783 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
74895703 TCAAAAGTAA
**
74895713 AAAAGTATAGGGACTAAAATTAACCAAATT
1 AAAAGTATAAAGACTAAAATTAACCAAATT
* * *
74895743 GAAAAGTACAAAGACTAAAATTTATCAAATT
1 -AAAAGTATAAAGACTAAAATTAACCAAATT
74895774 AAAAGTATAA
1 AAAAGTATAA
74895784 TGATTAAATC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.24
Consensus pattern (30 bp):
AAAAGTATAAAGACTAAAATTAACCAAATT
Found at i:74896172 original size:24 final size:24
Alignment explanation
Indices: 74896144--74896192 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
74896134 AAATAAGGTA
74896144 ATCTGATATATTCAATAATGAACT
1 ATCTGATATATTCAATAATGAACT
74896168 ATCTGATATATTCAATAATGAACT
1 ATCTGATATATTCAATAATGAACT
74896192 A
1 A
74896193 AGTAATCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (24 bp):
ATCTGATATATTCAATAATGAACT
Found at i:74901069 original size:94 final size:94
Alignment explanation
Indices: 74900908--74901091 Score: 359
Period size: 94 Copynumber: 2.0 Consensus size: 94
74900898 ATGCACCATA
*
74900908 TATATATAATCCCAAACATATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
1 TATATATAATCCCAAACACATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
74900973 TAAAATGATATTCCTAAACATCATATATG
66 TAAAATGATATTCCTAAACATCATATATG
74901002 TATATATAATCCCAAACACATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
1 TATATATAATCCCAAACACATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
74901067 TAAAATGATATTCCTAAACATCATA
66 TAAAATGATATTCCTAAACATCATA
74901092 AAAAAGTCTA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.38
Consensus pattern (94 bp):
TATATATAATCCCAAACACATATCATTAACTAAATCTTTCTTAACACAATTTAAATGTTTTCAAT
TAAAATGATATTCCTAAACATCATATATG
Found at i:74903058 original size:15 final size:15
Alignment explanation
Indices: 74903016--74903135 Score: 63
Period size: 15 Copynumber: 8.0 Consensus size: 15
74903006 TGAATTTATC
74903016 AAATTTATATTGATT
1 AAATTTATATTGATT
* *
74903031 GAAA-TCATTTTGATT
1 -AAATTTATATTGATT
74903046 AAATTTATATTGATT
1 AAATTTATATTGATT
*
74903061 AAA-ATATA-T-ATT
1 AAATTTATATTGATT
* * *
74903073 ATATATATGATTTATGT
1 AAATTTAT-ATTGAT-T
*
74903090 AAATTTGAATATTGAAT
1 AAATTT--ATATTGATT
*
74903107 GAATGTTATATTGA--
1 AAAT-TTATATTGATT
*
74903121 AAAATTATATTGATT
1 AAATTTATATTGATT
74903136 GGAATATGAG
Statistics
Matches: 80, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
12 5 0.06
13 14 0.17
14 10 0.12
15 22 0.28
16 12 0.15
17 9 0.11
18 6 0.08
19 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (15 bp):
AAATTTATATTGATT
Found at i:74903531 original size:23 final size:23
Alignment explanation
Indices: 74903505--74903563 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
74903495 AATGCCTTAT
74903505 TGGTGTGTTTGGGTTGGATATTC
1 TGGTGTGTTTGGGTTGGATATTC
74903528 TGGTGTGTTTGGGTTGGATATTC
1 TGGTGTGTTTGGGTTGGATATTC
74903551 TGGTGTGTTTGGG
1 TGGTGTGTTTGGG
74903564 AGGAATCCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.07, C:0.03, G:0.42, T:0.47
Consensus pattern (23 bp):
TGGTGTGTTTGGGTTGGATATTC
Found at i:74903707 original size:19 final size:18
Alignment explanation
Indices: 74903669--74903708 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
74903659 ATGAAATGAT
74903669 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
74903687 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
74903706 AAA
1 AAA
74903709 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:74904650 original size:21 final size:23
Alignment explanation
Indices: 74904601--74904643 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
74904591 TTATTGCAAT
*
74904601 AAAATATTTAATTTTTATTTTAA
1 AAAATATTTAATTTATATTTTAA
74904624 AAAATA-TTAA-TTATATTTTA
1 AAAATATTTAATTTATATTTTA
74904644 TTAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAAATATTTAATTTATATTTTAA
Found at i:74904686 original size:21 final size:20
Alignment explanation
Indices: 74904645--74904686 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
74904635 TATATTTTAT
*
74904645 TAAATAAAAATAAATTTTAA
1 TAAATAAAAATAAATTGTAA
*
74904665 TAAATAAAATTACAATTGTAA
1 TAAATAAAAATA-AATTGTAA
74904686 T
1 T
74904687 TTTATCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAATAAAAATAAATTGTAA
Found at i:74910097 original size:19 final size:19
Alignment explanation
Indices: 74910061--74910097 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
74910051 TAATTATGTT
* *
74910061 TTAATTAGGTGAATTTAGC
1 TTAATTAGGAGAAATTAGC
74910080 TTAATTAGGAGAAATTAG
1 TTAATTAGGAGAAATTAG
74910098 GAAAAAGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (19 bp):
TTAATTAGGAGAAATTAGC
Found at i:74911535 original size:70 final size:75
Alignment explanation
Indices: 74911456--74911629 Score: 189
Period size: 70 Copynumber: 2.3 Consensus size: 75
74911446 ATGTGAACAA
*
74911456 ATTGGAAATTAAAAGTGATTTGAAAT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAATTAAAAGTGATTTGAAATGAA-TAAATTGAATTAATAGAAAATATGTGAATATTTGA
74911516 AA-GTATATTG
65 AATGTATATTG
* * *
74911526 ATTGGAAATTAAAGGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAATTAAAAGTGATTTGAAATGAAT-AAATTGAATT-AAT--AGAAAATATGTGAATATT
74911591 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
74911605 ATTGAAAAGTAATTAGTGATTTGAA
1 ATTGGAAATTAA-AAGTGATTTGAA
74911630 TTTGATTGGA
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
70 25 0.29
71 2 0.02
72 9 0.11
74 2 0.02
77 1 0.01
78 18 0.21
79 18 0.21
80 10 0.12
ACGTcount: A:0.43, C:0.01, G:0.20, T:0.37
Consensus pattern (75 bp):
ATTGGAAATTAAAAGTGATTTGAAATGAATAAATTGAATTAATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:74912019 original size:21 final size:22
Alignment explanation
Indices: 74911962--74912022 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
74911952 TTTGCCGATT
74911962 AGGCACTTTATGTGTCGTATATC
1 AGGCACTTTATGTGTCG-ATATC
* **
74911985 AGGCACCTCGTGTGTC-ATATC
1 AGGCACTTTATGTGTCGATATC
74912006 AGGCACTTTATGTGTCG
1 AGGCACTTTATGTGTCG
74912023 TATACTGCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 18 0.58
23 13 0.42
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (22 bp):
AGGCACTTTATGTGTCGATATC
Found at i:74917002 original size:39 final size:39
Alignment explanation
Indices: 74916943--74917121 Score: 268
Period size: 39 Copynumber: 4.6 Consensus size: 39
74916933 ATCGTGATCT
* * *
74916943 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* **
74916982 GAAGCCCAAAGGCTAACTGAAGCACACAAGTTTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
74917021 GAAGCCCGAAGGCTGACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
74917060 GAATCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* *
74917099 GAAGCCTGAAGGCTAATTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
74917122 TCATCAGAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 125 1.00
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:74919424 original size:43 final size:44
Alignment explanation
Indices: 74919377--74919484 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 44
74919367 ATCACATATC
* * *
74919377 GATGCCACTGTCCCAAACA-GCGTCTTACACAAAATCA-ATTA-A
1 GATGCCAATGTCCCAAACATG-GCCTTACACAAAATCACAATACA
* *
74919419 TGATGCCAATGTCCCAGACATGGCCTTACACATAATCACAATACA
1 -GATGCCAATGTCCCAAACATGGCCTTACACAAAATCACAATACA
74919464 -ATGCCAATGTCCCAAACATGG
1 GATGCCAATGTCCCAAACATGG
74919485 TCTTTCATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 51 0.91
44 4 0.07
45 1 0.02
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (44 bp):
GATGCCAATGTCCCAAACATGGCCTTACACAAAATCACAATACA
Found at i:74919498 original size:43 final size:44
Alignment explanation
Indices: 74919421--74919546 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 44
74919411 TCAATTAATG
* * * **
74919421 ATGCCAATGTCCCAGACATGGCCTTACACATAATCACAAT-ACA
1 ATGCCAATGTCCCAAACATGGTCTTTCATGTAATCACAATCACA
* *
74919464 ATGCCAATGTCCCAAACATGGTCTTTCATGTAATCAC-ATCTCG
1 ATGCCAATGTCCCAAACATGGTCTTTCATGTAATCACAATCACA
* * *
74919507 TTAACCTAATGTCCGAAACATGGTCTTTCATGTAATCACA
1 AT-GCC-AATGTCCCAAACATGGTCTTTCATGTAATCACA
74919547 TCTCGGTAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.03
43 34 0.49
44 2 0.03
45 31 0.45
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (44 bp):
ATGCCAATGTCCCAAACATGGTCTTTCATGTAATCACAATCACA
Found at i:74919527 original size:45 final size:45
Alignment explanation
Indices: 74919469--74919564 Score: 174
Period size: 45 Copynumber: 2.1 Consensus size: 45
74919459 ATACAATGCC
*
74919469 AATGTCCCAAACATGGTCTTTCATGTAATCACATCTCGTTAACCT
1 AATGTCCCAAACATGGTCTTTCATGTAATCACATCTCGGTAACCT
*
74919514 AATGTCCGAAACATGGTCTTTCATGTAATCACATCTCGGTAACCT
1 AATGTCCCAAACATGGTCTTTCATGTAATCACATCTCGGTAACCT
74919559 AATGTC
1 AATGTC
74919565 ATGACATTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (45 bp):
AATGTCCCAAACATGGTCTTTCATGTAATCACATCTCGGTAACCT
Found at i:74920431 original size:17 final size:17
Alignment explanation
Indices: 74920391--74920437 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
74920381 TTTGGCTTTG
*
74920391 TTTTAATTATTATTACA
1 TTTTAATCATTATTACA
74920408 TTATTAATCATT-TTACCA
1 TT-TTAATCATTATTA-CA
*
74920426 TTTTAACCATTA
1 TTTTAATCATTA
74920438 ATAACATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTAATCATTATTACA
Found at i:74921487 original size:32 final size:33
Alignment explanation
Indices: 74921446--74921516 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
74921436 ATATTATACC
74921446 AGCCCAAACCCTTTTACCCT-ATTTCCCCT-CAA
1 AGCCCAAACCCTTTT-CCCTCATTTCCCCTCCAA
* * *
74921478 AGCCTAAACCCTTTTGCCTCATTTTCCCTCCAA
1 AGCCCAAACCCTTTTCCCTCATTTCCCCTCCAA
74921511 AGCCCA
1 AGCCCA
74921517 TCTACCCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.09
32 22 0.67
33 8 0.24
ACGTcount: A:0.24, C:0.42, G:0.06, T:0.28
Consensus pattern (33 bp):
AGCCCAAACCCTTTTCCCTCATTTCCCCTCCAA
Found at i:74923314 original size:26 final size:26
Alignment explanation
Indices: 74923285--74923340 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
74923275 TGATACAAAT
74923285 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
74923311 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
74923337 TGAT
1 TGAT
74923341 TGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:74928716 original size:22 final size:22
Alignment explanation
Indices: 74928677--74928718 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
74928667 TTTGAACTAA
*
74928677 TGTGTTATTATTATTAGTTTGT
1 TGTGTTATTATTACTAGTTTGT
* *
74928699 TGTGTTATTGTTGCTAGTTT
1 TGTGTTATTATTACTAGTTT
74928719 ATTGGACTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.02, G:0.21, T:0.62
Consensus pattern (22 bp):
TGTGTTATTATTACTAGTTTGT
Found at i:74928857 original size:19 final size:19
Alignment explanation
Indices: 74928833--74928876 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
74928823 TATTGTTTAT
74928833 TGTTGTTTACTTGGACTCA
1 TGTTGTTTACTTGGACTCA
* *
74928852 TGTTGTTTACTTGGATTGA
1 TGTTGTTTACTTGGACTCA
74928871 TGTTGT
1 TGTTGT
74928877 GTTGTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.09, G:0.25, T:0.52
Consensus pattern (19 bp):
TGTTGTTTACTTGGACTCA
Found at i:74930937 original size:21 final size:21
Alignment explanation
Indices: 74930911--74930963 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
74930901 CGTTCTGTAC
74930911 TCTTTCTTCTT-CTTTTCCTTT
1 TCTTTCTTCTTACTTTTCC-TT
* *
74930932 TCTTTCTTTTTATTTTTCCTT
1 TCTTTCTTCTTACTTTTCCTT
74930953 TCTTTCTTCTT
1 TCTTTCTTCTT
74930964 TTTACTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTTTCTTCTTACTTTTCCTT
Found at i:74930974 original size:21 final size:20
Alignment explanation
Indices: 74930911--74930988 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 20
74930901 CGTTCTGTAC
*
74930911 TCTTTC-TTCTTC-TTTTCC
1 TCTTTCTTTCTTCTTTTTCT
*
74930929 T-TTTCTTTCTT-TTTATTTT
1 TCTTTCTTTCTTCTTT-TTCT
74930948 TCCTTTCTTTCTTCTTTTTACT
1 T-CTTTCTTTCTTCTTTTT-CT
* *
74930970 TCTTTGATTTCTCCTTTTT
1 TCTTT-CTTTCTTCTTTTT
74930989 GACTATGTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 4 0.09
18 8 0.17
19 3 0.06
21 16 0.34
22 16 0.34
ACGTcount: A:0.04, C:0.23, G:0.01, T:0.72
Consensus pattern (20 bp):
TCTTTCTTTCTTCTTTTTCT
Found at i:74931933 original size:149 final size:148
Alignment explanation
Indices: 74931655--74931975 Score: 569
Period size: 149 Copynumber: 2.2 Consensus size: 148
74931645 ACGAGCTAGC
*
74931655 ACATGGG-C-GTGTGCCCAGGCCATGTGAGCCATATGGGTAAGGACACGGCCTTCTATCCAGGCC
1 ACATGGGCCTGTGTG-CCAGGCCATGTGAGCCATACGGGTAAGGACACGGCCTTCTATCCAGGCC
74931718 ATGTGACTCTCTGATTTATGCTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCGT
65 ATGTGACTCTCTGATTTATGCTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCGT
*
74931783 GTGAGCCATACGGGCAAGG
130 GTGAGCCACACGGGCAAGG
*
74931802 CCATGGGCCTGTGTGCCTAGGCCATGTGAGCCATACGGGTAAGGACACGGCCTTCTATCCAGGCC
1 ACATGGGCCTGTGTGCC-AGGCCATGTGAGCCATACGGGTAAGGACACGGCCTTCTATCCAGGCC
74931867 ATGTGACTCTCTGATTTATGCTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCGT
65 ATGTGACTCTCTGATTTATGCTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCGT
74931932 GTGAGCCACACGGGCAAGG
130 GTGAGCCACACGGGCAAGG
74931951 ACAT-GGCCTGTGT-CCAGGCCATGTG
1 ACATGGGCCTGTGTGCCAGGCCATGTG
74931976 GCGTATATAA
Statistics
Matches: 167, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
146 10 0.06
147 8 0.05
148 12 0.07
149 137 0.82
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (148 bp):
ACATGGGCCTGTGTGCCAGGCCATGTGAGCCATACGGGTAAGGACACGGCCTTCTATCCAGGCCA
TGTGACTCTCTGATTTATGCTTTAAAACCACACGAGCAAGGACATGGGTGTGTACCCAAGTCGTG
TGAGCCACACGGGCAAGG
Found at i:74934867 original size:21 final size:20
Alignment explanation
Indices: 74934843--74934881 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
74934833 TGAATTGATT
74934843 AAATGTGTGATTAAATTAGTG
1 AAATGTGT-ATTAAATTAGTG
* *
74934864 AAATTTGTATTAATTTAG
1 AAATGTGTATTAAATTAG
74934882 ATTAAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
AAATGTGTATTAAATTAGTG
Found at i:74939139 original size:43 final size:44
Alignment explanation
Indices: 74939078--74939197 Score: 143
Period size: 51 Copynumber: 2.6 Consensus size: 44
74939068 CCTGAGCACA
*
74939078 TTGAGTGGTCCGAGTTCATTATGGATACA-AGCATCCGAGCTCG
1 TTGAGTGGTCCGAGTTCATTATGGATACACAACATCCGAGCTCG
74939121 TTGAGTGGTCCGAGTTCATAATGGATGTGATACACGTAACATCCGAGCTCG
1 TTGAGTGGTCCGAGTTCAT--T--ATG-GATACAC--AACATCCGAGCTCG
* *
74939172 TTGAGAGGTCCGAATTCATTATGGAT
1 TTGAGTGGTCCGAGTTCATTATGGAT
74939198 GTGTTACATG
Statistics
Matches: 66, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
43 19 0.29
45 1 0.02
46 3 0.05
47 6 0.09
48 6 0.09
49 1 0.02
51 30 0.45
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (44 bp):
TTGAGTGGTCCGAGTTCATTATGGATACACAACATCCGAGCTCG
Found at i:74939174 original size:51 final size:51
Alignment explanation
Indices: 74939109--74939205 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
74939099 TGGATACAAG
* *
74939109 CATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGTGATACACGTAA
1 CATCCGAGCTCGTTGAGAGGTCCGAATTCATAATGGATGTGATACACGTAA
* *
74939160 CATCCGAGCTCGTTGAGAGGTCCGAATTCATTATGGATGTGTTACA
1 CATCCGAGCTCGTTGAGAGGTCCGAATTCATAATGGATGTGATACA
74939206 TGTTATAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTCCGAATTCATAATGGATGTGATACACGTAA
Found at i:74939539 original size:22 final size:22
Alignment explanation
Indices: 74939514--74939566 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
74939504 TGGTGATTAT
*
74939514 GTTATTATGCCATCATATGATA
1 GTTATCATGCCATCATATGATA
74939536 GTTATCATGCCATCATATGATA
1 GTTATCATGCCATCATATGATA
74939558 GTTATCATG
1 GTTATCATG
74939567 ATATTGCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (22 bp):
GTTATCATGCCATCATATGATA
Found at i:74941435 original size:14 final size:14
Alignment explanation
Indices: 74941416--74941442 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
74941406 ATATTTGACT
74941416 TGTTCTTAATTATG
1 TGTTCTTAATTATG
74941430 TGTTCTTAATTAT
1 TGTTCTTAATTAT
74941443 CGTTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:74947897 original size:10 final size:10
Alignment explanation
Indices: 74947884--74947909 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
74947874 ACATACATAC
74947884 ATATATGGAT
1 ATATATGGAT
74947894 ATATATGGAT
1 ATATATGGAT
74947904 ATATAT
1 ATATAT
74947910 ATCCTAGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (10 bp):
ATATATGGAT
Found at i:74948545 original size:20 final size:21
Alignment explanation
Indices: 74948520--74948559 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
74948510 ATTTAATATT
*
74948520 AATAATATTTTTAAT-TTTTA
1 AATAATATTCTTAATATTTTA
74948540 AATAATATTCTTAATATTTT
1 AATAATATTCTTAATATTTT
74948560 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
AATAATATTCTTAATATTTTA
Found at i:74948809 original size:17 final size:18
Alignment explanation
Indices: 74948787--74948825 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
74948777 TTTTTTTTAC
74948787 TTTTTA-AGGTTAAGATT
1 TTTTTAGAGGTTAAGATT
* *
74948804 TTTTTAGAGTTTTAGATT
1 TTTTTAGAGGTTAAGATT
74948822 TTTT
1 TTTT
74948826 AGGGTTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (18 bp):
TTTTTAGAGGTTAAGATT
Found at i:74948833 original size:16 final size:17
Alignment explanation
Indices: 74948787--74948835 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
74948777 TTTTTTTTAC
* *
74948787 TTTTTAAGGTTAAGATT
1 TTTTTAGGGTTTAGATT
*
74948804 TTTTTAGAGTTTTAGA-T
1 TTTTTAG-GGTTTAGATT
74948821 TTTTTAGGGTTTAGA
1 TTTTTAGGGTTTAGA
74948836 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 7 0.26
17 14 0.52
18 6 0.22
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.55
Consensus pattern (17 bp):
TTTTTAGGGTTTAGATT
Found at i:74956865 original size:16 final size:16
Alignment explanation
Indices: 74956844--74956877 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
74956834 TTCTTAAAAT
*
74956844 ATTAAAGAAATTTAAA
1 ATTAAAGAAATTCAAA
*
74956860 ATTAAAGTAATTCAAA
1 ATTAAAGAAATTCAAA
74956876 AT
1 AT
74956878 GCATCATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
ATTAAAGAAATTCAAA
Found at i:74961925 original size:21 final size:21
Alignment explanation
Indices: 74961899--74961939 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
74961889 ACATAGATAA
74961899 TTTTTTGAAAACTTTTATTAT
1 TTTTTTGAAAACTTTTATTAT
** *
74961920 TTTTTTTTAAATTTTTATTA
1 TTTTTTGAAAACTTTTATTA
74961940 AGTATATGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTTTGAAAACTTTTATTAT
Found at i:74964727 original size:3 final size:3
Alignment explanation
Indices: 74964719--74964746 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
74964709 ACATCTATCA
74964719 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
74964747 TTTTAATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:74967003 original size:37 final size:37
Alignment explanation
Indices: 74966930--74967003 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
74966920 TACTCCGATT
**
74966930 TGCTCAATCACCCCAACCTATTTGGTTGGCTCCCATC
1 TGCTCAATCACCCCAACCTATTTGGTTGGCGACCATC
74966967 TGCTCAATCACCCCAACCTATTTGGTTGGCGACCATC
1 TGCTCAATCACCCCAACCTATTTGGTTGGCGACCATC
74967004 AAGCTCTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.20, C:0.36, G:0.15, T:0.28
Consensus pattern (37 bp):
TGCTCAATCACCCCAACCTATTTGGTTGGCGACCATC
Found at i:74973571 original size:29 final size:28
Alignment explanation
Indices: 74973528--74973582 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
74973518 TTGAAATTTA
*
74973528 AAAAGTAAATAGACTAAGTTCCTAAAAAT
1 AAAAGTAAATAGACTAAATT-CTAAAAAT
* *
74973557 AAAAGTACATGGACTAAATTCTAAAA
1 AAAAGTAAATAGACTAAATTCTAAAA
74973583 TTTGTAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (28 bp):
AAAAGTAAATAGACTAAATTCTAAAAAT
Found at i:74980198 original size:25 final size:23
Alignment explanation
Indices: 74980170--74980233 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
74980160 TATTTTGAAG
*
74980170 TTTTTTATATTATATTATTTTAACA
1 TTTTTTATA-TATATTAGTTTAA-A
* *
74980195 TTTTGTATA-ATATTTCGTTTAAA
1 TTTTTTATATATA-TTAGTTTAAA
74980218 TGTTTTTATATATATT
1 T-TTTTTATATATATT
74980234 TGTACATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
23 5 0.16
24 16 0.50
25 11 0.34
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (23 bp):
TTTTTTATATATATTAGTTTAAA
Found at i:74980215 original size:24 final size:25
Alignment explanation
Indices: 74980188--74980234 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
74980178 ATTATATTAT
74980188 TTTAACAT-TTTGTATA-ATATTTCG
1 TTTAA-ATGTTTGTATATATATTTCG
*
74980212 TTTAAATGTTTTTATATATATTT
1 TTTAAATGTTTGTATATATATTT
74980235 GTACATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.60
25 6 0.30
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (25 bp):
TTTAAATGTTTGTATATATATTTCG
Found at i:74980234 original size:25 final size:23
Alignment explanation
Indices: 74980170--74980234 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
74980160 TATTTTGAAG
74980170 TTTTTTATATTATATTATTTTAACA
1 TTTTTTATA-TATATT-TTTTAACA
*
74980195 TTTTGTATA-ATATTTCGTTTAA-A
1 TTTTTTATATATATTT--TTTAACA
74980218 TGTTTTTATATATATTT
1 T-TTTTTATATATATTT
74980235 GTACATATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 1 0.03
23 7 0.21
24 12 0.35
25 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (23 bp):
TTTTTTATATATATTTTTTAACA
Found at i:74983307 original size:44 final size:44
Alignment explanation
Indices: 74983266--74983423 Score: 182
Period size: 43 Copynumber: 3.6 Consensus size: 44
74983256 GCGTTTGTTT
* *
74983266 GGGAAAGCGCAGCTAAAGGTCATGTTCTTTAGTGGCT-TTTGTGG
1 GGGAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCTGTTTGT-G
* *
74983310 GGGAAAATGCCGCTAAAGGTCATGTTCTTTAGCGG-TGTTTGT-
1 GGGAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCTGTTTGTG
* * *
74983352 GGGAAAAGCACCGCTAAAAGTCATGTTCTATAGT--CATGTTTGTG
1 GGGAAAA-CGCCGCTAAAGGTCATGTTCTTTAGTGGC-TGTTTGTG
*
74983396 GGGAAAACGCGGCTAAAGGTCATGTTCT
1 GGGAAAACGCCGCTAAAGGTCATGTTCT
74983424 ATAACGGTGT
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 7 0.07
43 47 0.48
44 43 0.44
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (44 bp):
GGGAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCTGTTTGTG
Found at i:74983421 original size:86 final size:86
Alignment explanation
Indices: 74983277--74983435 Score: 223
Period size: 86 Copynumber: 1.8 Consensus size: 86
74983267 GGAAAGCGCA
* * * * *
74983277 GCTAAAGGTCATGTTCTTTAGTGGCTTTTGTGGGGGAAAATGCCGCTAAAGGTCATGTTCTTTAG
1 GCTAAAAGTCATGTTCTATAGT-GCTTTTGTGGGGGAAAACGCCGCTAAAGGTCATGTTCTATAA
74983342 CGGTGTTTGTGGGAAAAGCACC
65 CGGTGTTTGTGGGAAAAGCACC
*
74983364 GCTAAAAGTCATGTTCTATAGT-CATGTTTGT-GGGGAAAACGCGGCTAAAGGTCATGTTCTATA
1 GCTAAAAGTCATGTTCTATAGTGC-T-TTTGTGGGGGAAAACGCCGCTAAAGGTCATGTTCTATA
74983427 ACGGTGTTT
64 ACGGTGTTT
74983436 TTTAAGAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
85 1 0.02
86 38 0.59
87 25 0.39
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (86 bp):
GCTAAAAGTCATGTTCTATAGTGCTTTTGTGGGGGAAAACGCCGCTAAAGGTCATGTTCTATAAC
GGTGTTTGTGGGAAAAGCACC
Found at i:74988595 original size:27 final size:27
Alignment explanation
Indices: 74988564--74988669 Score: 99
Period size: 27 Copynumber: 3.9 Consensus size: 27
74988554 CTGCCAGAAC
* *
74988564 AGATAATGTGACAGAGTCACCAGATAA
1 AGATAATGTGGCAGAGCCACCAGATAA
* *
74988591 AGATAATCGTGGCAGAGCCACTAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAA
* *
74988618 AGATATATGTGGCAAAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAA
* *
74988645 AGATATTTGTGGCATAGCCACCAGA
1 AGATA-ATGTGGCAGAGCCACCAGA
74988670 ACGCTTCCTC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 52 0.76
28 16 0.24
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAA
Found at i:74988649 original size:54 final size:54
Alignment explanation
Indices: 74988557--74988671 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
74988547 AGCATGGCTG
* *
74988557 CCAGAACAGATAATGTGACAGAGTCACCAGATAAAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAAAGCCACCAGATAAAGATAATCGTGGCAGAGCCA
* * * * * *
74988611 CTAGAACAGATATATGTGGCAAAGCCACCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAAAGCCACCAGATAAAGATAATCGTGGCAGAGCCA
74988665 CCAGAAC
1 CCAGAAC
74988672 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAAAGCCACCAGATAAAGATAATCGTGGCAGAGCCA
Found at i:74988811 original size:26 final size:28
Alignment explanation
Indices: 74988776--74988847 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
74988766 ATTAACCCTA
* *
74988776 AGGGG-ATAACGGTAATTTTGCAT-C-T
1 AGGGGTATAACAGTAATTTTCCATACAT
74988801 AGGGGTATAACAGTAATTTTCCATACAT
1 AGGGGTATAACAGTAATTTTCCATACAT
* *
74988829 AGGGGTATTATAGTAATTT
1 AGGGGTATAACAGTAATTT
74988848 AGATACTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 5 0.12
26 16 0.40
27 1 0.03
28 18 0.45
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.35
Consensus pattern (28 bp):
AGGGGTATAACAGTAATTTTCCATACAT
Found at i:74990319 original size:26 final size:26
Alignment explanation
Indices: 74990281--74990338 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
74990271 CATGAAATTC
74990281 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
74990307 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
74990333 TTATCA
1 TTATCA
74990339 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:74993474 original size:3 final size:3
Alignment explanation
Indices: 74993468--74993511 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
74993458 TTTTTCTCTT
*
74993468 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
74993512 TACTAAAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:74994153 original size:31 final size:32
Alignment explanation
Indices: 74994118--74994184 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
74994108 AATCTTAAAC
*
74994118 CTTAAACCAC-ATAAC-CTGTAAACCTCTAACT
1 CTTAAACCACTATAACTC-GTAAACCCCTAACT
*
74994149 CTT-AACCCCTATAACTCGTAAACCCCTAACT
1 CTTAAACCACTATAACTCGTAAACCCCTAACT
74994180 CTTAA
1 CTTAA
74994185 CCCCTAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 5 0.16
31 24 0.77
32 2 0.06
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.27
Consensus pattern (32 bp):
CTTAAACCACTATAACTCGTAAACCCCTAACT
Found at i:74994185 original size:31 final size:30
Alignment explanation
Indices: 74994135--74994194 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
74994125 CACATAACCT
*
74994135 GTAAACCTCTAACTCTTAACCCCTATAACTC
1 GTAAACCCCTAACTCTTAACCCCTA-AACTC
74994166 GTAAACCCCTAACTCTTAACCCCTAAACT
1 GTAAACCCCTAACTCTTAACCCCTAAACT
74994195 TTAAGCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.33, C:0.37, G:0.03, T:0.27
Consensus pattern (30 bp):
GTAAACCCCTAACTCTTAACCCCTAAACTC
Found at i:74994188 original size:14 final size:14
Alignment explanation
Indices: 74994138--74994191 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
74994128 ATAACCTGTA
*
74994138 AACCTCTAACTCTT
1 AACCCCTAACTCTT
*
74994152 AACCCCTATAACTCGTA
1 AACCCC--TAACTC-TT
74994169 AACCCCTAACTCTT
1 AACCCCTAACTCTT
74994183 AACCCCTAA
1 AACCCCTAA
74994192 ACTTTAAGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 15 0.44
15 6 0.18
16 6 0.18
17 7 0.21
ACGTcount: A:0.33, C:0.39, G:0.02, T:0.26
Consensus pattern (14 bp):
AACCCCTAACTCTT
Found at i:74994194 original size:15 final size:15
Alignment explanation
Indices: 74994145--74994198 Score: 67
Period size: 14 Copynumber: 3.6 Consensus size: 15
74994135 GTAAACCTCT
74994145 AACTCTTAACCCCTA
1 AACTCTTAACCCCTA
*
74994160 TAACTCGTAAACCCCT-
1 -AACTC-TTAACCCCTA
74994176 AACTCTTAACCCCTA
1 AACTCTTAACCCCTA
74994191 AACT-TTAA
1 AACTCTTAA
74994199 GCCATAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 12 0.35
15 9 0.26
16 5 0.15
17 8 0.24
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.28
Consensus pattern (15 bp):
AACTCTTAACCCCTA
Found at i:74994546 original size:7 final size:7
Alignment explanation
Indices: 74994534--74994590 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
74994524 CCCATGGCCA
74994534 TTAAACC
1 TTAAACC
74994541 TTAAACC
1 TTAAACC
*
74994548 ATAAAACC
1 -TTAAACC
*
74994556 CTAAACC
1 TTAAACC
* *
74994563 ATAGACC
1 TTAAACC
**
74994570 TTAAATA
1 TTAAACC
74994577 TTAAACC
1 TTAAACC
74994584 TTAAACC
1 TTAAACC
74994591 CCAAAATAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.25
Consensus pattern (7 bp):
TTAAACC
Found at i:74994554 original size:15 final size:15
Alignment explanation
Indices: 74994531--74994590 Score: 70
Period size: 14 Copynumber: 4.1 Consensus size: 15
74994521 ATACCCATGG
74994531 CCATTAAACCTTAAA
1 CCATTAAACCTTAAA
* *
74994546 CCATAAAACCCTAAA
1 CCATTAAACCTTAAA
*
74994561 CCA-TAGACCTTAAA
1 CCATTAAACCTTAAA
*
74994575 -TATTAAACCTTAAA
1 CCATTAAACCTTAAA
74994589 CC
1 CC
74994591 CCAAAATAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
13 1 0.03
14 18 0.51
15 16 0.46
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (15 bp):
CCATTAAACCTTAAA
Found at i:74994742 original size:35 final size:35
Alignment explanation
Indices: 74994697--74994774 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
74994687 ATATGATGTT
* * * *
74994697 TTTTAGGGTTTAAGGTTTTAGGGGTTATAGTTTAG
1 TTTTATGGTTTAAGGGTTTAGCGGTTATAGATTAG
*
74994732 TTTTATGGTTTTAGGGTTTAGCGGTTATAGATTAG
1 TTTTATGGTTTAAGGGTTTAGCGGTTATAGATTAG
74994767 TGTTTATG
1 T-TTTATG
74994775 ATTTTTTGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 31 0.84
36 6 0.16
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.50
Consensus pattern (35 bp):
TTTTATGGTTTAAGGGTTTAGCGGTTATAGATTAG
Found at i:74994888 original size:41 final size:41
Alignment explanation
Indices: 74994812--74994964 Score: 177
Period size: 40 Copynumber: 3.8 Consensus size: 41
74994802 GTTATATGAC
*
74994812 TTTTAGCGGCGTTTTGACC-ATAAACGCCGCTATTGCTCTGGT
1 TTTTAGCGGCGTTTT-TCCTA-AAACGCCGCTATTGCTCTGGT
** *
74994854 TTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCCCTGGT
1 TTTTAGCGGCGTTTTTCCTAAAACGCCGCTATTGCTCTGGT
* * * *
74994895 TTTTAGC-CCGTTTTCCCAAAAATGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTTCCTAAAACGCCGCTATTGCTCTGGT
* *
74994934 TTTTACCGGCGTTTTTTCTAAAACGCCGCTA
1 TTTTAGCGGCGTTTTTCCTAAAACGCCGCTA
74994965 AAGTCCTATT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 8 0.09
40 41 0.45
41 27 0.29
42 16 0.17
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCTAAAACGCCGCTATTGCTCTGGT
Found at i:74995427 original size:3 final size:3
Alignment explanation
Indices: 74995419--74995457 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
74995409 GTTGAAAATG
74995419 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
74995458 TTGAATATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:74996237 original size:2 final size:2
Alignment explanation
Indices: 74996230--74996260 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
74996220 ATAGCATCTT
74996230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
74996261 CTCAAAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74999954 original size:24 final size:23
Alignment explanation
Indices: 74999918--74999990 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
74999908 TTTGTATACA
* *
74999918 ATATTTATCTTAAACTTTTACCT-T
1 ATATATATTTTAAACTTTTA--TAT
74999942 ATATATATTTTAAA--TTTATAT
1 ATATATATTTTAAACTTTTATAT
*
74999963 ATATTATATTTTAAACTATTATAT
1 ATA-TATATTTTAAACTTTTATAT
74999987 ATAT
1 ATAT
74999991 GTTGTCTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 4 0.10
22 15 0.36
23 1 0.02
24 21 0.50
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATATTTTAAACTTTTATAT
Found at i:74999970 original size:22 final size:24
Alignment explanation
Indices: 74999941--74999990 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
74999931 ACTTTTACCT
74999941 TATA-TATATTTTAAA-T-TTATA
1 TATATTATATTTTAAACTATTATA
74999962 TATATTATATTTTAAACTATTATA
1 TATATTATATTTTAAACTATTATA
74999986 TATAT
1 TATAT
74999991 GTTGTCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.15
22 11 0.42
23 1 0.04
24 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TATATTATATTTTAAACTATTATA
Found at i:75000284 original size:26 final size:24
Alignment explanation
Indices: 75000201--75000310 Score: 70
Period size: 24 Copynumber: 4.6 Consensus size: 24
75000191 TTTCTATCTC
* *
75000201 ATTTTAAATTGCTTTATAAATTATTT
1 ATTTTAAATTG-TTT-TATACTATTT
* * *
75000227 ATTTT-AGTTGTTCTAT-GTA-TT
1 ATTTTAAATTGTTTTATACTATTT
75000248 ATTTT--ATTGTTTTATAC-ATTGAT
1 ATTTTAAATTGTTTTATACTATT--T
* *
75000271 GATTTTAAATTGTTCTCTACTATTT
1 -ATTTTAAATTGTTTTATACTATTT
75000296 ATTTTAAATTGTTTT
1 ATTTTAAATTGTTTT
75000311 TTGTAGTATC
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
20 9 0.14
21 8 0.12
22 2 0.03
23 3 0.05
24 21 0.32
25 5 0.08
26 15 0.23
27 3 0.05
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.60
Consensus pattern (24 bp):
ATTTTAAATTGTTTTATACTATTT
Found at i:75003343 original size:23 final size:23
Alignment explanation
Indices: 75003317--75003365 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
75003307 AATCAAACTT
75003317 AAATTTCAAACAAGCATTTTGTC
1 AAATTTCAAACAAGCATTTTGTC
75003340 AAATTTCAAACAAGCATTTTGTC
1 AAATTTCAAACAAGCATTTTGTC
75003363 AAA
1 AAA
75003366 CACATGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (23 bp):
AAATTTCAAACAAGCATTTTGTC
Found at i:75008144 original size:21 final size:21
Alignment explanation
Indices: 75008089--75008145 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
75008079 TTTAGGGATT
* *
75008089 CCACATGGGCGTGTGTTTTGG
1 CCACACGGGCGTGTGTTGTGG
*
75008110 ACACAC-GGC-TGTGTTTGGTGG
1 CCACACGGGCGTGTG-TT-GTGG
75008131 CCACACGGGCGTGTG
1 CCACACGGGCGTGTG
75008146 AGACTTTCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 4 0.14
20 5 0.18
21 12 0.43
22 3 0.11
23 4 0.14
ACGTcount: A:0.12, C:0.23, G:0.39, T:0.26
Consensus pattern (21 bp):
CCACACGGGCGTGTGTTGTGG
Found at i:75026439 original size:15 final size:16
Alignment explanation
Indices: 75026419--75026448 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
75026409 GAGTGATGCA
75026419 AACGATAAT-ATAAGT
1 AACGATAATAATAAGT
75026434 AACGATAATAATAAG
1 AACGATAATAATAAG
75026449 AATAACAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (16 bp):
AACGATAATAATAAGT
Found at i:75031471 original size:42 final size:42
Alignment explanation
Indices: 75031420--75031663 Score: 359
Period size: 42 Copynumber: 5.8 Consensus size: 42
75031410 GTTTACAAAC
* *
75031420 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
75031462 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-A
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
75031503 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* * *
75031545 AAAAAGGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * * *
75031587 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
75031629 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
75031664 TTTTTTTTCT
Statistics
Matches: 184, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
41 45 0.24
42 137 0.74
43 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:75031518 original size:83 final size:83
Alignment explanation
Indices: 75031420--75031665 Score: 370
Period size: 83 Copynumber: 3.0 Consensus size: 83
75031410 GTTTACAAAC
*
75031420 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
75031485 TCTTTAGCGGCGCTTAG-A
66 TCTTTAGCGGCG-TTAGAA
* * *
75031503 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAGGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
*
75031568 TCTTTAGCGGCGTTTGTAA
66 TCTTTAGCGGCGTTAG-AA
* * **
75031587 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA-AGGGAAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGATCATG
75031651 TTCTTTAGCGGCGTT
65 TTCTTTAGCGGCGTT
75031666 TTTTTTCTAA
Statistics
Matches: 148, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
82 3 0.02
83 74 0.50
84 71 0.48
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (83 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
TCTTTAGCGGCGTTAGAA
Found at i:75031730 original size:167 final size:169
Alignment explanation
Indices: 75031418--75031768 Score: 426
Period size: 167 Copynumber: 2.1 Consensus size: 169
75031408 GCGTTTACAA
**
75031418 ACAAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCAT
1 ACAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCAT
* *
75031483 GTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAA
66 GTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTAGAAAAA
* *
75031548 AAGGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTA-
131 AACGCCGCAAAAGAACATGTTCTTTAGCGGCGCTTT-TAT
* **
75031586 A-AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTA-AGGGAAAACGCCGCTAAAGATCA
1 ACAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGATCA
* ***** * * ***
75031649 TGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATT-TTT
65 TGTTCTTTAGCGGCG--CTTAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTAGAA
* *
75031712 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTAT
128 AAAAACGCCGCAAAAGAACATGTTCTTTAGCGGCGCTTTTAT
75031754 ACAAAAACGCCACTA
1 ACAAAAACGCCACTA
75031769 TTTTTGGGAT
Statistics
Matches: 154, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
166 1 0.01
167 103 0.67
168 7 0.05
169 43 0.28
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (169 bp):
ACAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTAGAAAAA
AACGCCGCAAAAGAACATGTTCTTTAGCGGCGCTTTTAT
Found at i:75031841 original size:14 final size:14
Alignment explanation
Indices: 75031818--75031851 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
75031808 GCCCTCCTGT
*
75031818 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
75031832 AGCAACATTTCAAA
1 AGCAACATTTCAAA
75031846 AGCAAC
1 AGCAAC
75031852 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:75032143 original size:21 final size:21
Alignment explanation
Indices: 75032075--75032145 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
75032065 TTTTGCTCTG
* *
75032075 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
75032096 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
75032117 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
75032138 CTCTGCTT
1 CTCTGCTT
75032146 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Done.