Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 360 of 425
Found at i:111225370 original size:46 final size:46
Alignment explanation
Indices: 111225313--111225779 Score: 522
Period size: 46 Copynumber: 10.0 Consensus size: 46
111225303 AGTGTGCTCT
* *
111225313 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
111225359 CTGATAAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
111225405 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
111225451 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * *
111225497 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCACATGGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA-A---C
*
111225547 AGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 --C-TGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
111225596 ATGACAAAAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGAC-ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
** * * * *
111225643 AC-GACGGGAAATAAATAAGACCATGGTTGAAAGAGACCATGGCAGC
1 -CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
111225689 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
111225735 ATGACAAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGAC-ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
111225780 TCATGTCAAA
Statistics
Matches: 368, Mismatches: 42, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
46 251 0.68
47 74 0.20
49 1 0.00
50 1 0.00
52 1 0.00
53 40 0.11
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:111225618 original size:47 final size:47
Alignment explanation
Indices: 111225558--111225806 Score: 290
Period size: 47 Copynumber: 5.4 Consensus size: 47
111225548 GCGTGACATG
111225558 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAA
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAA
** * ***
111225605 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGAC-GGG
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAA
* * * * **
111225651 AAATAAATAAGACCATGGTTGAAAGAGACCATGGCAGCGTGAC-ATG
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAA
111225697 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAA
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAA
* * * * * *
111225744 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTC--AA
1 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAA
* *
111225789 AGATAAATAAGACCATGG
1 AAATGAATAAGACCATGG
111225807 ATGGGAGACG
Statistics
Matches: 170, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
45 16 0.09
46 76 0.45
47 78 0.46
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.18
Consensus pattern (47 bp):
AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAA
Found at i:111225735 original size:238 final size:239
Alignment explanation
Indices: 111225318--111225784 Score: 670
Period size: 238 Copynumber: 2.0 Consensus size: 239
111225308 GCTCTCTGAT
** * * *
111225318 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAAGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAAAAAAAATGTGTAAGACCAT
* * * *** *
111225383 GGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACCTGACAGGAAATAAATAAGACCATGGTTGAAAGAGACCATGGC
* ** ***
111225448 AGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC-GGGAAATAAA
131 AGCCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAAATAAA
* *
111225512 TAAGACCATGGTTGAAAGATACCATGGCA-CATGGCAGCGTGAC
196 TAAGACCATAGTTGAAAGACACCATGGCATCATGGCAGCGTGAC
111225555 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAAATGTGTAAGACCA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-AAAAAAATGTGTAAGACCA
*
111225620 TGGTTGAAAGATACCATGGCAACAC-GACGGGAAATAAATAAGACCATGGTTGAAAGAGACCATG
65 TGGTTGAAAGATACCATGGCAAC-CTGACAGGAAATAAATAAGACCATGGTTGAAAGAGACCATG
* *
111225684 GCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAAATG
129 GCAGCCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAAATA
* *
111225749 AGTAAGACCATAGTTGAAAGACACTATGGCATCATG
194 AATAAGACCATAGTTGAAAGACACCATGGCATCATG
111225785 TCAAAGATAA
Statistics
Matches: 201, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
237 42 0.21
238 123 0.61
239 32 0.16
240 4 0.02
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (239 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAAAAAAAATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAACCTGACAGGAAATAAATAAGACCATGGTTGAAAGAGACCATGGC
AGCCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAAATAAA
TAAGACCATAGTTGAAAGACACCATGGCATCATGGCAGCGTGAC
Found at i:111237936 original size:25 final size:25
Alignment explanation
Indices: 111237902--111237952 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
111237892 AAACAGAAAG
111237902 AAGAACAAATTAAGACATTCAATGC
1 AAGAACAAATTAAGACATTCAATGC
111237927 AAGAACAAATTAAGACATTCAATGC
1 AAGAACAAATTAAGACATTCAATGC
111237952 A
1 A
111237953 CTTGTTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.20
Consensus pattern (25 bp):
AAGAACAAATTAAGACATTCAATGC
Found at i:111238923 original size:2 final size:2
Alignment explanation
Indices: 111238916--111238940 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
111238906 TCAAGTCTCC
111238916 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
111238941 CATAATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111242601 original size:7 final size:7
Alignment explanation
Indices: 111242580--111242616 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
111242570 TACTCTTATC
*
111242580 TGATCAG
1 TGATAAG
*
111242587 TGACAAG
1 TGATAAG
111242594 TGATAAG
1 TGATAAG
111242601 TGATAAG
1 TGATAAG
111242608 TGATAAG
1 TGATAAG
111242615 TG
1 TG
111242617 GTAGCTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (7 bp):
TGATAAG
Found at i:111242651 original size:58 final size:57
Alignment explanation
Indices: 111242535--111242657 Score: 210
Period size: 58 Copynumber: 2.1 Consensus size: 57
111242525 ACTTCTGATC
*
111242535 AGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
* *
111242592 AGTGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGACAAATGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
111242650 AGTGATAA
1 AGTGATAA
111242658 ATGTGATCAG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 28 0.45
58 34 0.55
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (57 bp):
AGTGATAAGTGACAAATGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:111255044 original size:40 final size:39
Alignment explanation
Indices: 111254879--111255062 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
111254869 AAATTGAATG
* * *
111254879 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
111254919 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
111254959 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
111254999 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
111255038 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
111255063 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:111255045 original size:80 final size:80
Alignment explanation
Indices: 111254923--111255071 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
111254913 GAAATTATAA
* * * *
111254923 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
111254988 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
111255003 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
111255067 GTGCG
65 GTGCG
111255072 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:111255087 original size:80 final size:81
Alignment explanation
Indices: 111254919--111255107 Score: 177
Period size: 80 Copynumber: 2.4 Consensus size: 81
111254909 GCTGGAAATT
* * * *
111254919 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
111254984 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
111255000 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
111255063 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * * *
111255079 ATAACCGGGGTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
111255108 ATCGAGTAGC
Statistics
Matches: 85, Mismatches: 21, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
79 2 0.02
80 83 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:111269032 original size:16 final size:17
Alignment explanation
Indices: 111269013--111269053 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
111269003 TTTCAAAATT
111269013 TAAAAAATATAT-AAAC
1 TAAAAAATATATCAAAC
*
111269029 T-AAAAATA-ATCAAAT
1 TAAAAAATATATCAAAC
111269044 TAAAAAATAT
1 TAAAAAATAT
111269054 GGACTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
14 2 0.10
15 11 0.52
16 8 0.38
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAAAATATATCAAAC
Found at i:111291250 original size:16 final size:15
Alignment explanation
Indices: 111291208--111291251 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
111291198 TATGAACCGG
*
111291208 CAAAAGCCGAAATGC
1 CAAAAGCCAAAATGC
*
111291223 CAAAATGTCAAAATGC
1 CAAAA-GCCAAAATGC
111291239 CGAAAAGCCAAAA
1 C-AAAAGCCAAAA
111291252 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.21
16 15 0.62
17 4 0.17
ACGTcount: A:0.52, C:0.23, G:0.16, T:0.09
Consensus pattern (15 bp):
CAAAAGCCAAAATGC
Found at i:111291551 original size:29 final size:29
Alignment explanation
Indices: 111291475--111291585 Score: 91
Period size: 29 Copynumber: 3.9 Consensus size: 29
111291465 TGATTGTGAC
* * * *
111291475 TGGGCCGAACGGGCCATATAGATGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
**
111291504 TGGGCCTAATGGGAAATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
* ***
111291533 TGGGCCTAGTGGGCCATATGA-ATACGA-T
1 TGGGCCTAATGGGCCATAT-ACAGGTGATT
* *
111291561 TGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAATGGGCCATATACAGGT
111291586 ATATGAATTT
Statistics
Matches: 62, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
27 1 0.02
28 18 0.29
29 42 0.68
30 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAGGTGATT
Found at i:111295054 original size:5 final size:6
Alignment explanation
Indices: 111295040--111295073 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
111295030 TAATTTTCCC
111295040 TTTTCT TTTTCT TTTTCT TTTTCCT TCTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTT-CT T-TTTCT TT
111295074 CCCTGCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.65
7 6 0.23
8 3 0.12
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTCT
Found at i:111295055 original size:12 final size:13
Alignment explanation
Indices: 111295033--111295073 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
111295023 AAAACCCTAA
*
111295033 TTTTCCCTTTTCT
1 TTTTCCTTTTTCT
111295046 TTTT-CTTTTTCT
1 TTTTCCTTTTTCT
111295058 TTTTCCTTCTTTCT
1 TTTTCCTT-TTTCT
111295072 TT
1 TT
111295074 CCCTGCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 11 0.44
13 7 0.28
14 7 0.28
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCCTTTTTCT
Found at i:111295148 original size:15 final size:15
Alignment explanation
Indices: 111295130--111295158 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
111295120 TTTATTCTTT
111295130 TATTATATTATTAAC
1 TATTATATTATTAAC
111295145 TATTATATTATTAA
1 TATTATATTATTAA
111295159 TTTCTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATATTATTAAC
Found at i:111295563 original size:42 final size:42
Alignment explanation
Indices: 111295516--111295599 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
111295506 TATAATCCAT
111295516 TGGGATCCTGGATTTGTCACAACATCAAGCACTTGTTGAAGA
1 TGGGATCCTGGATTTGTCACAACATCAAGCACTTGTTGAAGA
111295558 TGGGATCCTGGATTTGTCACAACATCAAGCACTTGTTGAAGA
1 TGGGATCCTGGATTTGTCACAACATCAAGCACTTGTTGAAGA
111295600 AAATCCCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (42 bp):
TGGGATCCTGGATTTGTCACAACATCAAGCACTTGTTGAAGA
Found at i:111303344 original size:23 final size:23
Alignment explanation
Indices: 111303315--111303364 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
111303305 TACGTTTGTT
111303315 TTTATCAAAATTGAAGTTGCAGG
1 TTTATCAAAATTGAAGTTGCAGG
111303338 TTTATCAAAATTGAAGTTGCAGG
1 TTTATCAAAATTGAAGTTGCAGG
111303361 TTTA
1 TTTA
111303365 CTTACCGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (23 bp):
TTTATCAAAATTGAAGTTGCAGG
Found at i:111303851 original size:26 final size:26
Alignment explanation
Indices: 111303822--111303872 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
111303812 ACCAGCACAC
* *
111303822 CAATATCGCAGCAAAGCTGCCAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
**
111303848 CAATAACGCAACGTAGCTGCCAGTA
1 CAATAACGCAACAAAGCTGCCAGTA
111303873 GCAGTAAGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (26 bp):
CAATAACGCAACAAAGCTGCCAGTAA
Found at i:111309447 original size:18 final size:19
Alignment explanation
Indices: 111309424--111309462 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
111309414 ATATATTCAC
111309424 ACATTTTCA-CAATTCAAT
1 ACATTTTCATCAATTCAAT
111309442 ACATTTTCATTCAATTCAAT
1 ACATTTTCA-TCAATTCAAT
111309462 A
1 A
111309463 TTAATACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (19 bp):
ACATTTTCATCAATTCAAT
Found at i:111310128 original size:25 final size:24
Alignment explanation
Indices: 111310102--111310181 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
111310092 AATCCTAACT
*
111310102 TTTTCTCCTTTCTTTCTCTTTTTC
1 TTTTCTCCTTTCCTTCTCTTTTTC
* *
111310126 TTTTCTTTCTTTCCTTCTCTGTTTC
1 TTTTC-TCCTTTCCTTCTCTTTTTC
* *
111310151 GTTTCTGCTTTCGCTT-TCTTTTTC
1 TTTTCTCCTTTC-CTTCTCTTTTTC
111310175 TATTTCT
1 T-TTTCT
111310182 ATTTATTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 18 0.39
25 28 0.61
ACGTcount: A:0.01, C:0.26, G:0.05, T:0.68
Consensus pattern (24 bp):
TTTTCTCCTTTCCTTCTCTTTTTC
Found at i:111310132 original size:17 final size:18
Alignment explanation
Indices: 111310100--111310135 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
111310090 AAAATCCTAA
111310100 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
111310119 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
111310136 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:111310155 original size:21 final size:21
Alignment explanation
Indices: 111310109--111310156 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
111310099 ACTTTTTCTC
*
111310109 CTTTCTTTCTCTTTTTCTTTT
1 CTTTCTTTCTCTTTCTCTTTT
111310130 CTTTCTTTC-C-TTCTCTGTTT
1 CTTTCTTTCTCTTTCTCT-TTT
111310150 CGTTTCT
1 C-TTTCT
111310157 GCTTTCGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 14 0.58
ACGTcount: A:0.00, C:0.27, G:0.04, T:0.69
Consensus pattern (21 bp):
CTTTCTTTCTCTTTCTCTTTT
Found at i:111310221 original size:5 final size:5
Alignment explanation
Indices: 111310211--111310235 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
111310201 GTTTTATTAG
111310211 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
111310236 TATTGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:111313009 original size:2 final size:2
Alignment explanation
Indices: 111313002--111313040 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
111312992 TGCTTCAACA
*
111313002 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
111313041 GAACAATACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:111316110 original size:21 final size:19
Alignment explanation
Indices: 111316077--111316115 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
111316067 AAAATCCTAG
111316077 CTTTTTCTTCTTTCTTTCT
1 CTTTTTCTTCTTTCTTTCT
111316096 CTTTTTCTTTTCTTTCTTTC
1 CTTTTTC--TTCTTTCTTTC
111316116 CTTCTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
CTTTTTCTTCTTTCTTTCT
Found at i:111316112 original size:25 final size:25
Alignment explanation
Indices: 111316079--111316127 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
111316069 AATCCTAGCT
*
111316079 TTTTCTTCTTTCTTTCTCT-TTTTC
1 TTTTCTTCTTTCCTTCTCTGTTTTC
111316103 TTTTCTTTCTTTCCTTCTCTGTTTT
1 TTTTC-TTCTTTCCTTCTCTGTTTT
111316128 ATTTCTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 13 0.59
26 4 0.18
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTCTTCTTTCCTTCTCTGTTTTC
Found at i:111316127 original size:21 final size:21
Alignment explanation
Indices: 111316084--111316133 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
111316074 TAGCTTTTTC
*
111316084 TTCTTTCTTTCTCTTTTTCTT
1 TTCTTTCTTTCTCTTTCTCTT
*
111316105 TTCTTTCTTTC-CTTCTCTGTT
1 TTCTTTCTTTCTCTT-TCTCTT
*
111316126 TTATTTCT
1 TTCTTTCT
111316134 ACTTTGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (21 bp):
TTCTTTCTTTCTCTTTCTCTT
Found at i:111316132 original size:25 final size:25
Alignment explanation
Indices: 111316080--111316133 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
111316070 ATCCTAGCTT
* *
111316080 TTTC-TTCTTTCTTTCTCTTTTTCT
1 TTTCTTTCTTTCCTTCTCTTTTTCA
111316104 TTTCTTTCTTTCCTTCTCTGTTTT-A
1 TTTCTTTCTTTCCTTCTCT-TTTTCA
111316129 TTTCT
1 TTTCT
111316134 ACTTTGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (25 bp):
TTTCTTTCTTTCCTTCTCTTTTTCA
Found at i:111316168 original size:19 final size:19
Alignment explanation
Indices: 111316146--111316183 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
111316136 TTTGGTTTTC
111316146 TTTT-TCTATTTTATTTATT
1 TTTTCTCTATTTT-TTTATT
*
111316165 TTTTCTTTATTTTTTTATT
1 TTTTCTCTATTTTTTTATT
111316184 ATATATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTCTCTATTTTTTTATT
Found at i:111316196 original size:5 final size:5
Alignment explanation
Indices: 111316186--111316238 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
111316176 TTTTTATTAT
111316186 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
111316236 ATA
1 ATA
111316239 CTTATATGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:111325649 original size:14 final size:14
Alignment explanation
Indices: 111325649--111325718 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
111325639 TCTTAGATAT
*
111325649 GATATGGAATCTTA
1 GATATGCAATCTTA
111325663 GATATGATACAATCTTA
1 GATATG---CAATCTTA
*
111325680 GATATGATATGCAATATTA
1 G--AT-AT--GCAATCTTA
111325699 GATATGCAATCTTA
1 GATATGCAATCTTA
111325713 GATATG
1 GATATG
111325719 ATATGCAATC
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
14 20 0.44
16 2 0.04
17 10 0.22
19 10 0.22
20 2 0.04
22 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.36
Consensus pattern (14 bp):
GATATGCAATCTTA
Found at i:111325660 original size:36 final size:34
Alignment explanation
Indices: 111325620--111325739 Score: 145
Period size: 36 Copynumber: 3.4 Consensus size: 34
111325610 ATGGAAATAT
*
111325620 AATCTTTAAGGATATGCAATCTTAGATATGATATGG
1 AATCTTT-A-GATATGCAATCTTAGATATGATATGC
111325656 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG---CAATCTTAGATATGATATGC
*
111325692 AAT-ATTAGATATGCAATCTTAGATATGATATGC
1 AATCTTTAGATATGCAATCTTAGATATGATATGC
*
111325725 AATCTTGAAGATATG
1 AATCTT-TAGATATG
111325740 ATCTTGTAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 13
0.82 0.03 0.14
Matches are distributed among these distances:
33 29 0.39
34 2 0.03
35 9 0.12
36 35 0.47
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (34 bp):
AATCTTTAGATATGCAATCTTAGATATGATATGC
Found at i:111325668 original size:33 final size:33
Alignment explanation
Indices: 111325630--111325739 Score: 157
Period size: 33 Copynumber: 3.2 Consensus size: 33
111325620 AATCTTTAAG
*
111325630 GATATGCAATCTTAGATATGATATGGAATCTTA
1 GATATGCAATCTTAGATATGATATGCAATCTTA
*
111325663 GATATGATACAATCTTAGATATGATATGCAATATTA
1 GATATG---CAATCTTAGATATGATATGCAATCTTA
111325699 GATATGCAATCTTAGATATGATATGCAATCTTGAA
1 GATATGCAATCTTAGATATGATATGCAATCTT--A
111325734 GATATG
1 GATATG
111325740 ATCTTGTAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
33 31 0.45
35 7 0.10
36 31 0.45
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.35
Consensus pattern (33 bp):
GATATGCAATCTTAGATATGATATGCAATCTTA
Found at i:111325736 original size:21 final size:19
Alignment explanation
Indices: 111325630--111325741 Score: 139
Period size: 19 Copynumber: 6.2 Consensus size: 19
111325620 AATCTTTAAG
111325630 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
111325649 GATATGGAATCTTAGATAT
1 GATATGCAATCTTAGATAT
111325668 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
111325685 GATATGCAA---TA-TTA-
1 GATATGCAATCTTAGATAT
111325699 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
111325718 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
111325739 GAT
1 GAT
111325742 CTTGTAATCT
Statistics
Matches: 80, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
14 9 0.11
15 2 0.03
16 2 0.03
17 18 0.22
18 2 0.03
19 38 0.47
21 9 0.11
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:111325744 original size:33 final size:35
Alignment explanation
Indices: 111325620--111325744 Score: 127
Period size: 33 Copynumber: 3.6 Consensus size: 35
111325610 ATGGAAATAT
* *
111325620 AATCTTTAAGGATATGCAATCTTAGATATGATATGG
1 AATCTTGAAGGATATG-AATCTTAGATATGATATGC
* *
111325656 AATCTTAGATATGATA-CAATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGAATCTTAGATATGATATGC
*
111325692 AATATT--A-GATATGCAATCTTAGATATGATATGC
1 AATCTTGAAGGATATG-AATCTTAGATATGATATGC
111325725 AATCTTGAA-GATATG-ATCTT
1 AATCTTGAAGGATATGAATCTT
111325745 GTAATCTTGG
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
31 4 0.05
32 1 0.01
33 29 0.38
35 7 0.09
36 29 0.38
37 1 0.01
38 5 0.07
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (35 bp):
AATCTTGAAGGATATGAATCTTAGATATGATATGC
Found at i:111333983 original size:20 final size:19
Alignment explanation
Indices: 111333938--111333986 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
111333928 AATTAATCTG
*
111333938 TATTAACAGTTTTATGCAT
1 TATTAACAGTTTTATACAT
**
111333957 TAGTTAACAGTTTTGATATTT
1 TA-TTAACAGTTTT-ATACAT
111333978 TATTAACAG
1 TATTAACAG
111333987 ATATTTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.72
21 5 0.20
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (19 bp):
TATTAACAGTTTTATACAT
Found at i:111335409 original size:17 final size:18
Alignment explanation
Indices: 111335377--111335411 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
111335367 GTGTAGTTCA
*
111335377 CCTGTGTGGACCCACACG
1 CCTGTATGGACCCACACG
111335395 CCTGTATGG-CCCACACG
1 CCTGTATGGACCCACACG
111335412 GCCCAATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.17
Consensus pattern (18 bp):
CCTGTATGGACCCACACG
Found at i:111348712 original size:44 final size:45
Alignment explanation
Indices: 111348659--111348761 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
111348649 TGTCTTTGAC
* * *
111348659 ATGGACTTACATGAATTATTCATGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCATGTCTCCAAAGCCATATTATAAT
** * *
111348703 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCATGTCTCCAAAGCCATA-TTATAAT
111348749 ATGGACTTACATG
1 ATGGACTTACATG
111348762 GCTCATTTCG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCATGTCTCCAAAGCCATATTATAAT
Found at i:111348760 original size:46 final size:44
Alignment explanation
Indices: 111348681--111348766 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
111348671 GAATTATTCA
*
111348681 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
*
111348725 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
111348767 TTTCGTTCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
Found at i:111352352 original size:8 final size:7
Alignment explanation
Indices: 111352331--111352520 Score: 67
Period size: 7 Copynumber: 26.1 Consensus size: 7
111352321 ACCCTATTTT
111352331 TATATT-
1 TATATTA
111352337 TATATTA
1 TATATTA
111352344 TATAGTTA
1 TATA-TTA
*
111352352 TTCTATTA
1 -TATATTA
*
111352360 TGTATTA
1 TATATTA
111352367 TTTATATTA
1 --TATATTA
111352376 TTATATTA
1 -TATATTA
*
111352384 T-TATTT
1 TATATTA
*
111352390 TACATTA
1 TATATTA
111352397 T-TATTTA
1 TATA-TTA
111352404 TATATTA
1 TATATTA
*
111352411 T-TGTTA
1 TATATTA
*
111352417 TATTTTTA
1 TA-TATTA
*
111352425 CTTGTATTA
1 --TATATTA
111352434 TATATT-
1 TATATTA
111352440 TATTAATTA
1 TA-T-ATTA
*
111352449 TTTA-TA
1 TATATTA
*
111352455 TGTATTA
1 TATATTA
111352462 TATATTA
1 TATATTA
*
111352469 TATTCACATA
1 TA-T-A-TTA
111352479 TATACTT-
1 TATA-TTA
111352486 TCATATTA
1 T-ATATTA
111352494 TATATTA
1 TATATTA
111352501 TA-ATTA
1 TATATTA
111352507 T-T-TTA
1 TATATTA
111352512 TATTATTA
1 TA-TATTA
111352520 T
1 T
111352521 GTCATTTTTT
Statistics
Matches: 142, Mismatches: 17, Indels: 48
0.69 0.08 0.23
Matches are distributed among these distances:
5 4 0.03
6 29 0.20
7 52 0.37
8 36 0.25
9 16 0.11
10 5 0.04
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (7 bp):
TATATTA
Found at i:111352360 original size:27 final size:26
Alignment explanation
Indices: 111352325--111352517 Score: 91
Period size: 24 Copynumber: 7.7 Consensus size: 26
111352315 TTTTTAACCC
*
111352325 TATTTTTATATTTATATTATA-TAGTTA
1 TATTATTAT-TTTATATTATATTA-TTA
111352352 T-TCTATTATGTATTAT-TTATATTATTA
1 TAT-TATTAT-T-TTATATTATATTATTA
*
111352379 TATTATTATTTTACA-T-TATTATT-
1 TATTATTATTTTATATTATATTATTA
*
111352402 TATATATTATTGTTATATT-T-TTACTTG
1 TAT-TATTATT-TTATATTATATTA-TTA
*
111352429 TATTA-TATATT-TATTA-ATTATT-
1 TATTATTATTTTATATTATATTATTA
* *
111352451 TA-TATGTATTATATATTATATTCA-CA
1 TATTAT-TATTTTATATTATATT-ATTA
*
111352477 TA-TA-TACTTTCATATTATA-TATTA
1 TATTATTA-TTTTATATTATATTATTA
111352501 TA--ATTATTTTATATTAT
1 TATTATTATTTTATATTAT
111352518 TATGTCATTT
Statistics
Matches: 133, Mismatches: 12, Indels: 46
0.70 0.06 0.24
Matches are distributed among these distances:
21 2 0.02
22 2 0.02
23 25 0.19
24 32 0.24
25 27 0.20
26 13 0.10
27 25 0.19
28 7 0.05
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (26 bp):
TATTATTATTTTATATTATATTATTA
Found at i:111352374 original size:16 final size:16
Alignment explanation
Indices: 111352333--111352471 Score: 82
Period size: 16 Copynumber: 8.9 Consensus size: 16
111352323 CCTATTTTTA
111352333 TATTTATATTATATAGT
1 TATTTATATTATATA-T
* *
111352350 TA-TTCTATTATGTAT
1 TATTTATATTATATAT
111352365 TATTTATATTATTATAT
1 TATTTATATTA-TATAT
*
111352382 TA-TTAT-TT-TACAT
1 TATTTATATTATATAT
111352395 TA-TTAT-TTATATAT
1 TATTTATATTATATAT
*
111352409 TATTGT-TA-TAT-TTT
1 TATT-TATATTATATAT
* *
111352423 TACTTGTATTATATATT
1 TATTTATATTATATA-T
*
111352440 TATTAATTATT-TATAT
1 TATTTA-TATTATATAT
111352456 GTATTATATATTATAT
1 -TATT-TATATTATAT
111352472 TCACATATAT
Statistics
Matches: 95, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
13 13 0.14
14 13 0.14
15 13 0.14
16 24 0.25
17 24 0.25
18 8 0.08
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (16 bp):
TATTTATATTATATAT
Found at i:111352519 original size:13 final size:13
Alignment explanation
Indices: 111352325--111352520 Score: 67
Period size: 13 Copynumber: 14.7 Consensus size: 13
111352315 TTTTTAACCC
*
111352325 TATTTTTATATTTA
1 TATTATTAT-TTTA
*
111352339 TATTA-TATAGTTA
1 TATTATTAT-TTTA
111352352 T-TCTATTATGTATTA
1 TAT-TATTAT-T-TTA
111352367 T-TTA-TATTATTA
1 TATTATTATT-TTA
111352379 TATTATTATTTTA
1 TATTATTATTTTA
*
111352392 CATTATTA-TTTA
1 TATTATTATTTTA
111352404 TA-TATTATTGTTA
1 TATTATTATT-TTA
* * *
111352417 TATTTTTA-CTTG
1 TATTATTATTTTA
111352429 TATTA-TATATTTA
1 TATTATTAT-TTTA
*
111352442 T-TAATTA-TTTA
1 TATTATTATTTTA
111352453 TATGTATTATATATTA
1 TAT-TATTAT-T-TTA
111352469 TATTCACATATATACTTTCA
1 TATT---AT-TAT--TTT-A
*
111352489 TATTA-TATATTA
1 TATTATTATTTTA
111352501 TA--ATTATTTTA
1 TATTATTATTTTA
111352512 TATTATTAT
1 TATTATTAT
111352521 GTCATTTTTT
Statistics
Matches: 140, Mismatches: 17, Indels: 51
0.67 0.08 0.25
Matches are distributed among these distances:
10 1 0.01
11 20 0.14
12 25 0.18
13 47 0.34
14 17 0.12
15 10 0.07
16 6 0.04
17 1 0.01
18 2 0.01
19 5 0.04
20 6 0.04
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (13 bp):
TATTATTATTTTA
Found at i:111352549 original size:21 final size:20
Alignment explanation
Indices: 111352491--111352570 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 20
111352481 TACTTTCATA
*
111352491 TTATATATTATA--ATTATT
1 TTATATATTATATCATTTTT
*
111352509 TTATATTATTATGTCATTTTT
1 TTATA-TATTATATCATTTTT
*
111352530 TTATACTATTATAT-TTTTTT
1 TTATA-TATTATATCATTTTT
111352550 ATCTATATATTATTATCATTT
1 -T-TATATATTA-TATCATTT
111352571 AAGTTTTAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
18 5 0.10
19 6 0.12
20 5 0.10
21 23 0.47
22 7 0.14
23 3 0.06
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (20 bp):
TTATATATTATATCATTTTT
Found at i:111352843 original size:17 final size:16
Alignment explanation
Indices: 111352820--111352878 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
111352810 CCAATATATT
111352820 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
111352836 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
111352852 -TATACTTTTTATTATATA
1 TTATA-TTTTTA-TATA-A
111352870 TTATATTTT
1 TTATATTTT
111352879 AAATCTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 7 0.20
17 10 0.29
18 5 0.14
19 4 0.11
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:111354489 original size:2 final size:2
Alignment explanation
Indices: 111354482--111354515 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
111354472 ACATTTACTC
111354482 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111354516 TCATTTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111355274 original size:9 final size:10
Alignment explanation
Indices: 111355262--111355328 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
111355252 TCTTTCTCCC
111355262 TTTTCTTT-T
1 TTTTCTTTCT
111355271 TTTTCTTTCT
1 TTTTCTTTCT
111355281 TTTTCTTTCTAT
1 TTTTCTTTC--T
111355293 TTTTCTTTCT
1 TTTTCTTTCT
* *
111355303 ATTTCATT-T
1 TTTTCTTTCT
**
111355312 TGGT-TTTCT
1 TTTTCTTTCT
111355321 TTTTCTTT
1 TTTTCTTT
111355329 TATTTATTTG
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
8 2 0.04
9 13 0.29
10 20 0.44
12 10 0.22
ACGTcount: A:0.04, C:0.15, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:111355285 original size:6 final size:6
Alignment explanation
Indices: 111355262--111355329 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
111355252 TCTTTCTCCC
* * * * *
111355262 TTTTCT TTTTTT TCTTTCT TTTTCT TTCTAT TTTTC- -TTTCT ATTTCA
1 TTTTCT TTTTCT T-TTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
**
111355309 TTTTGG TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTT
111355330 ATTTATTTGT
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
4 4 0.09
6 38 0.81
7 5 0.11
ACGTcount: A:0.04, C:0.15, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:111355295 original size:12 final size:12
Alignment explanation
Indices: 111355270--111355306 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
111355260 CCTTTTCTTT
111355270 TTTTTCTTTC--
1 TTTTTCTTTCTA
111355280 TTTTTCTTTCTA
1 TTTTTCTTTCTA
111355292 TTTTTCTTTCTA
1 TTTTTCTTTCTA
111355304 TTT
1 TTT
111355307 CATTTTGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.40
12 15 0.60
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTCTTTCTA
Found at i:111355318 original size:22 final size:22
Alignment explanation
Indices: 111355271--111355322 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
111355261 CTTTTCTTTT
* *
111355271 TTTTCTTTCTTTTTCTTTCTAT
1 TTTTCTTTCTATTTCTTTCTAG
*
111355293 TTTTCTTTCTATTTCATTT-TGG
1 TTTTCTTTCTATTTC-TTTCTAG
111355315 TTTTCTTT
1 TTTTCTTT
111355323 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTCTTTCTATTTCTTTCTAG
Found at i:111356866 original size:23 final size:25
Alignment explanation
Indices: 111356842--111356920 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 25
111356832 AGCAAATGAT
*
111356842 TATAAAGTTAAAAT-AGATCTTATTA
1 TATAAA-TAAAAATAAGATCTTATTA
111356867 TATAAATAAAAATAAAAGATCTTATTA
1 TATAAATAAAAAT--AAGATCTTATTA
*
111356894 TATAAACAAAAATAAAAGATCTTATTA
1 TATAAATAAAAAT--AAGATCTTATTA
111356921 AAAGGACATC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
24 6 0.12
25 6 0.12
27 37 0.76
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (25 bp):
TATAAATAAAAATAAGATCTTATTA
Found at i:111356892 original size:27 final size:27
Alignment explanation
Indices: 111356856--111356920 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
111356846 AAGTTAAAAT
*
111356856 AGATCTTATTATATAAATAAAAATAAA
1 AGATCTTATTATATAAACAAAAATAAA
111356883 AGATCTTATTATATAAACAAAAATAAA
1 AGATCTTATTATATAAACAAAAATAAA
111356910 AGATCTTATTA
1 AGATCTTATTA
111356921 AAAGGACATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (27 bp):
AGATCTTATTATATAAACAAAAATAAA
Found at i:111358506 original size:10 final size:10
Alignment explanation
Indices: 111358491--111358516 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
111358481 AAACTCATCA
111358491 TTCATTTAAT
1 TTCATTTAAT
111358501 TTCATTTAAT
1 TTCATTTAAT
111358511 TTCATT
1 TTCATT
111358517 GCACAGAATG
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:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCATTTAAT
Found at i:111361754 original size:2 final size:2
Alignment explanation
Indices: 111361749--111361778 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
111361739 AAACACACAC
111361749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111361779 GTAAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111363198 original size:21 final size:21
Alignment explanation
Indices: 111363157--111363198 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
111363147 CGTGGTGCGT
* *
111363157 GTACGGGGGCTGTGTGCTGGC
1 GTACGGAGGCTGGGTGCTGGC
111363178 GTACGGAGGCGTGGGTG-TGGC
1 GTACGGAGGC-TGGGTGCTGGC
111363199 TGTGGCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.07, C:0.17, G:0.55, T:0.21
Consensus pattern (21 bp):
GTACGGAGGCTGGGTGCTGGC
Found at i:111368072 original size:9 final size:9
Alignment explanation
Indices: 111368056--111368088 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
111368046 TTTAATTAGA
111368056 AATTAATTT
1 AATTAATTT
*
111368065 AGTTAATTT
1 AATTAATTT
111368074 AATTAA-TT
1 AATTAATTT
111368082 AATTAAT
1 AATTAAT
111368089 ATTTATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (9 bp):
AATTAATTT
Found at i:111370941 original size:48 final size:44
Alignment explanation
Indices: 111370883--111371196 Score: 179
Period size: 47 Copynumber: 6.7 Consensus size: 44
111370873 GATTTGTGCA
111370883 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAGATGAAAG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACAT--AGATGAAAG
* * * * *
111370931 CTAGTGTAAGACATGTCTGGGGCATGCATCAGCCATATTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATC-GACATA-GATGAAAG
*
111370977 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGA-GATAAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATAGATGA-AA--G
* * * *
111371025 CCA-TAGTAAGACATGTCTGGGACATGCATCGGCCTTGACAGAGATAG
1 CCAGT-GTAAGACATGTCTGGGACATGCATCGACATAGA-TGA-A-AG
* * * ** * *
111371072 CCAATTTAAGACGTGTCTGGGACACCCATCGGCCA-AGAGTTG--TG
1 CCAGTGTAAGACATGTCTGGGACATGCATC-GACATAGA--TGAAAG
* * * * *
111371116 CTAGTGTAAGACATGTTTAGGACATGCATCAGCACGCATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATC-G-A--CATAGATGAAAG
111371164 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
111371197 GCAATTTATA
Statistics
Matches: 206, Mismatches: 38, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
44 24 0.12
45 3 0.01
46 36 0.17
47 79 0.38
48 45 0.22
49 14 0.07
50 5 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (44 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGACATAGATGAAAG
Found at i:111371044 original size:94 final size:94
Alignment explanation
Indices: 111370883--111371199 Score: 330
Period size: 94 Copynumber: 3.4 Consensus size: 94
111370873 GATTTGTGCA
* ** *
111370883 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAGATGAA-AGCTAGTGTAAGACATGT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGAT-AAGTGCTAGTGTAAGACATGT
*
111370947 CTGGGGCATGCATCAGCCATATTATGAGAG
65 CTGGGACATGCATCAGCCATATTATGAGAG
*
111370977 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATAAGTGCCA-TAGTAAGACATGT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATAAGTGCTAGT-GTAAGACATGT
* * *
111371041 CTGGGACATGCATCGGCC-T-TGACAGAGATAG
65 CTGGGACATGCATCAGCCATATTA-TGAG--AG
* * * ** *
111371072 CCAATTTAAGA-CGTGTCTGGGACA-CCCATCGGCCA-AGAG-T-TGTGCTAGTGTAAGACATGT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATAGAGATAAGTGCTAGTGTAAGACATGT
* *
111371132 TTAGGACATGCATCAGCACGCATA-TATGAGAG
65 CTGGGACATGCATCAG--C-CATATTATGAGAG
111371164 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
111371200 ATTTATACCA
Statistics
Matches: 183, Mismatches: 26, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
91 29 0.16
92 15 0.08
93 32 0.17
94 94 0.51
95 13 0.07
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (94 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATAAGTGCTAGTGTAAGACATGTC
TGGGACATGCATCAGCCATATTATGAGAG
Found at i:111379957 original size:47 final size:46
Alignment explanation
Indices: 111379851--111380163 Score: 203
Period size: 47 Copynumber: 6.7 Consensus size: 46
111379841 TGTGCACCAA
* * * * *
111379851 TGTAAGACCATGTTTGGGACATGGCATCGGCATCCA-GACGAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACATGATGAGAGCCAG
* * *
111379899 TGTAAGACATGTCTGGGACATGCATCAGCTATATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACATGATGAGAGCCAG
* *
111379945 TGTAAGACCATGT-TGGGACATGGCATCGGC-ACAGAGATGAGTGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTACA-TGATGAGAGCCAG
* * *
111379992 AGTAAGACAAGTCTGGGACATGCATCGGCCTCGACA-GA-GATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CT--ACATGATGAGAGCCAG
** * * * * *
111380039 TGTAAGATGTATCTGGGACATGCATCGGC--CAAGA-GTTGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACATGATG-AGAGCCAG
* * * *
111380083 TGTAAGACATGTTTGGGACATGCATCAGC-ACGCATATATGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTA--CAT-GATGAGAGCCAG
*
111380131 TGTAAAACCATGTCTGGGACATGGCATCGGCTA
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTA
111380164 TTTATCCCAT
Statistics
Matches: 208, Mismatches: 38, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.01
43 3 0.01
44 28 0.13
45 2 0.01
46 44 0.21
47 82 0.39
48 22 0.11
49 14 0.07
50 10 0.05
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACATGATGAGAGCCAG
Found at i:111380011 original size:93 final size:91
Alignment explanation
Indices: 111379851--111380161 Score: 310
Period size: 93 Copynumber: 3.3 Consensus size: 91
111379841 TGTGCACCAA
* *
111379851 TGTAAGACCATGTTTGGGACATGGCATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTGGG
1 TGTAAGACCATG-TTGGGACATGGCATCGGCA-CAAGA-GAGTGCTAGTGTAAGACATGTCTGGG
*
111379916 ACATGCATCAGCTATATTATGAGAGCCAG
63 ACATGCATCAGCTACATTATGAGAGCCAG
* * *
111379945 TGTAAGACCATGTTGGGACATGGCATCGGCACAGAGATGAGTGCCAGAGTAAGACAAGTCTGGGA
1 TGTAAGACCATGTTGGGACATGGCATCGGCACA-AGA-GAGTGCTAGTGTAAGACATGTCTGGGA
* * *
111380010 CATGCATCGGCCTCGACA-GA-GATAGCCAG
64 CATGCATCAG-CT--ACATTATGAGAGCCAG
** * * *
111380039 TGTAAGATGTAT-CTGGGACAT-GCATCGGC-CAAGAGTTGTGCTAGTGTAAGACATGTTTGGGA
1 TGTAAGA-CCATGTTGGGACATGGCATCGGCACAAGAG-AGTGCTAGTGTAAGACATGTCTGGGA
*
111380101 CATGCATCAGC-ACGCATATATGAGAGCTAG
64 CATGCATCAGCTA--CAT-TATGAGAGCCAG
*
111380131 TGTAAAACCATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGT-TGGGACATGGCATCGGC
111380162 TATTTATCCC
Statistics
Matches: 177, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
87 1 0.01
89 2 0.01
90 2 0.01
91 36 0.20
92 16 0.09
93 70 0.40
94 45 0.25
95 3 0.02
96 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (91 bp):
TGTAAGACCATGTTGGGACATGGCATCGGCACAAGAGAGTGCTAGTGTAAGACATGTCTGGGACA
TGCATCAGCTACATTATGAGAGCCAG
Found at i:111381106 original size:19 final size:19
Alignment explanation
Indices: 111381082--111381122 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
111381072 TGGGCCGTGT
*
111381082 GGTTTTGATAGAATACCAA
1 GGTTTTGACAGAATACCAA
111381101 GGTTTTGACAGAATACCAA
1 GGTTTTGACAGAATACCAA
111381120 GGT
1 GGT
111381123 ATTCGAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (19 bp):
GGTTTTGACAGAATACCAA
Found at i:111381351 original size:12 final size:13
Alignment explanation
Indices: 111381320--111381351 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
111381310 GAAGAAAGGG
111381320 AGAAAAAAGAGAA
1 AGAAAAAAGAGAA
111381333 AG-AAAAAGA-AA
1 AGAAAAAAGAGAA
111381344 AGAAAAAA
1 AGAAAAAA
111381352 ATGGCAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AGAAAAAAGAGAA
Found at i:111382191 original size:15 final size:15
Alignment explanation
Indices: 111382171--111382201 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
111382161 TACCGAAAAC
111382171 TCAATATCCTTTCTT
1 TCAATATCCTTTCTT
111382186 TCAATATCCTTTCTT
1 TCAATATCCTTTCTT
111382201 T
1 T
111382202 TTAAGTCCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (15 bp):
TCAATATCCTTTCTT
Found at i:111386044 original size:39 final size:39
Alignment explanation
Indices: 111385986--111386145 Score: 275
Period size: 39 Copynumber: 4.1 Consensus size: 39
111385976 AATTATATTA
*
111385986 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
111386025 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
111386064 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
111386103 CTAGCACAAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
111386142 CCAG
1 CCAG
111386146 TGTCTTGCAT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:111390273 original size:26 final size:26
Alignment explanation
Indices: 111390235--111390344 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
111390225 CATGAAATTC
*
111390235 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
111390261 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
111390287 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
* *
111390313 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
111390339 TTATCA
1 TTATCA
111390345 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:111395196 original size:39 final size:39
Alignment explanation
Indices: 111395153--111395273 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
111395143 AATTATATTA
* * *
111395153 CCAGCACAAAACCTGCGAGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
111395192 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
111395231 CTAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
111395270 CCAG
1 CCAG
111395274 TGTCTTGCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:111399864 original size:18 final size:18
Alignment explanation
Indices: 111399830--111399864 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111399820 GCTCAATACG
*
111399830 CTTCACTTCCTCTACTAT
1 CTTCACTTCCTCCACTAT
*
111399848 CTTCACTTTCTCCACTA
1 CTTCACTTCCTCCACTA
111399865 AAATCGTGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.43
Consensus pattern (18 bp):
CTTCACTTCCTCCACTAT
Found at i:111401979 original size:62 final size:62
Alignment explanation
Indices: 111401878--111402044 Score: 203
Period size: 62 Copynumber: 2.7 Consensus size: 62
111401868 CACATGCTCT
*
111401878 TGTCCCTGGCCATGT-G-GTTTTATACAATGAACAATGAGTTACACAGCCTGGGAACACGCATG
1 TGTCCCTGGCC--GTAGCGTTTTATACAATGAACAATGAGTTACACAGCCAGGGAACACGCATG
* * * * * * *
111401940 TGTTCCTGGCCGTATCGTTTTATACAATGAACAGTGAGTTACACGGCCAGGGTATACGCTTG
1 TGTCCCTGGCCGTAGCGTTTTATACAATGAACAATGAGTTACACAGCCAGGGAACACGCATG
* * *
111402002 TGTCCCTGGCTGTAGGGTTTTATACAATGAACAATAAGTTACA
1 TGTCCCTGGCCGTAGCGTTTTATACAATGAACAATGAGTTACA
111402045 TAGTTGTTCA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
60 2 0.02
62 87 0.98
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (62 bp):
TGTCCCTGGCCGTAGCGTTTTATACAATGAACAATGAGTTACACAGCCAGGGAACACGCATG
Found at i:111402667 original size:15 final size:15
Alignment explanation
Indices: 111402649--111402692 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
111402639 AGAAAGGGAG
111402649 AAAGAAAAAAAGAAA
1 AAAGAAAAAAAGAAA
111402664 AAAGAAAAGAAA-AAA
1 AAAGAAAA-AAAGAAA
* *
111402679 ATAGAAAATAAGAA
1 AAAGAAAAAAAGAA
111402693 CTAACGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 2 0.08
15 20 0.80
16 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAGAAAAAAAGAAA
Found at i:111402964 original size:20 final size:20
Alignment explanation
Indices: 111402924--111402960 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
111402914 CCTGTAATTT
111402924 TCAACCAAGACCAATCCACA
1 TCAACCAAGACCAATCCACA
*
111402944 TCAACCAA-TCCAATCCA
1 TCAACCAAGACCAATCCA
111402961 ACATATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.43, C:0.41, G:0.03, T:0.14
Consensus pattern (20 bp):
TCAACCAAGACCAATCCACA
Found at i:111407846 original size:13 final size:13
Alignment explanation
Indices: 111407825--111407876 Score: 95
Period size: 13 Copynumber: 4.0 Consensus size: 13
111407815 TAGTAATCAT
*
111407825 ACACAGGCGTGTC
1 ACACGGGCGTGTC
111407838 ACACGGGCGTGTC
1 ACACGGGCGTGTC
111407851 ACACGGGCGTGTC
1 ACACGGGCGTGTC
111407864 ACACGGGCGTGTC
1 ACACGGGCGTGTC
111407877 CCTACCGAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.17, C:0.31, G:0.37, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:111411829 original size:54 final size:55
Alignment explanation
Indices: 111411751--111411868 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 55
111411741 CTGCCAAAAC
* **
111411751 AACACGGGCGTGCGACACGCCCGTGCCTTGAAACCATGGCCAAACCTGTCAAATT
1 AACACGGGCATGCGACACGCCCGTGCCAAGAAACCATGGCCAAACCTGTCAAATT
* * * * * * *
111411806 AACACGGG-ATGCGACACGTCCGTGCCAAGCAACCTTGGTCGAACCTGTTAGATT
1 AACACGGGCATGCGACACGCCCGTGCCAAGAAACCATGGCCAAACCTGTCAAATT
111411860 AACACGGGC
1 AACACGGGC
111411869 GTGGGAGAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 44 0.85
55 8 0.15
ACGTcount: A:0.27, C:0.31, G:0.25, T:0.17
Consensus pattern (55 bp):
AACACGGGCATGCGACACGCCCGTGCCAAGAAACCATGGCCAAACCTGTCAAATT
Found at i:111412376 original size:23 final size:23
Alignment explanation
Indices: 111412350--111412395 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
111412340 TATTCTATTT
*
111412350 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
111412373 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
111412396 CAATGACACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.35
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:111413781 original size:19 final size:20
Alignment explanation
Indices: 111413749--111413786 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
111413739 TGTTTAAAAA
* *
111413749 TTTTTATTTATTATTTTATG
1 TTTTTACTTATTATCTTATG
111413769 TTTTTACTT-TTATCTTAT
1 TTTTTACTTATTATCTTAT
111413787 TTTAAGACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTACTTATTATCTTATG
Found at i:111418019 original size:30 final size:30
Alignment explanation
Indices: 111417983--111418049 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
111417973 CTGTGTGCTA
111417983 GGCCGTGTGGCTACCACGGTCGCCTCGCAC
1 GGCCGTGTGGCTACCACGGTCGCCTCGCAC
111418013 GGCCGTGTGGCTACCACGGTCGCCTCGCAC
1 GGCCGTGTGGCTACCACGGTCGCCTCGCAC
111418043 GGCCGTG
1 GGCCGTG
111418050 GGGGCTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.09, C:0.39, G:0.36, T:0.16
Consensus pattern (30 bp):
GGCCGTGTGGCTACCACGGTCGCCTCGCAC
Found at i:111423639 original size:26 final size:26
Alignment explanation
Indices: 111423610--111423663 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
111423600 ACCACAAAAG
111423610 TATGCCATTGAACTTATTGTTTTAGT
1 TATGCCATTGAACTTATTGTTTTAGT
111423636 TATGCCATTGAACTTATTGTTTTAGT
1 TATGCCATTGAACTTATTGTTTTAGT
111423662 TA
1 TA
111423664 AACTTAGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (26 bp):
TATGCCATTGAACTTATTGTTTTAGT
Found at i:111425587 original size:17 final size:17
Alignment explanation
Indices: 111425565--111425610 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
111425555 TTTAGGATAA
111425565 ATTTTGATTGATTTATG
1 ATTTTGATTGATTTATG
111425582 ATTTTGATTGATTTATG
1 ATTTTGATTGATTTATG
111425599 ATTTTGATTGAT
1 ATTTTGATTGAT
111425611 ATATCTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (17 bp):
ATTTTGATTGATTTATG
Found at i:111425600 original size:11 final size:10
Alignment explanation
Indices: 111425565--111425610 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 10
111425555 TTTAGGATAA
111425565 ATTTTGATTG
1 ATTTTGATTG
111425575 A-TTT-A-TG
1 ATTTTGATTG
111425582 ATTTTGATTG
1 ATTTTGATTG
111425592 A-TTT-A-TG
1 ATTTTGATTG
111425599 ATTTTGATTG
1 ATTTTGATTG
111425609 AT
1 AT
111425611 ATATCTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 6 0.20
8 8 0.27
9 8 0.27
10 8 0.27
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (10 bp):
ATTTTGATTG
Found at i:111428967 original size:47 final size:47
Alignment explanation
Indices: 111428897--111429026 Score: 233
Period size: 47 Copynumber: 2.7 Consensus size: 47
111428887 CATTCTCTAC
111428897 GCCAATGTCATGTCCCAGACATGGTCTTACACTGGCTATAATATTGTG
1 GCCAATG-CATGTCCCAGACATGGTCTTACACTGGCTATAATATTGTG
*
111428945 GCCAATGCATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTG
1 GCCAATGCATGTCCCAGACATGGTCTTACACTGGCTATAATATTGTG
*
111428992 GCCGATGCATGTCCCAGACATGGTCTTACACTGGC
1 GCCAATGCATGTCCCAGACATGGTCTTACACTGGC
111429027 ACACAAGTAA
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
47 73 0.91
48 7 0.09
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (47 bp):
GCCAATGCATGTCCCAGACATGGTCTTACACTGGCTATAATATTGTG
Found at i:111430582 original size:55 final size:55
Alignment explanation
Indices: 111430498--111430607 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
111430488 GTGTGCTTGA
111430498 CCGTGTGTGCCAAGAATATCTGCAATTAGACTGTAAAACAAAAGAAAAACAAACT
1 CCGTGTGTGCCAAGAATATCTGCAATTAGACTGTAAAACAAAAGAAAAACAAACT
*
111430553 CCGTGTGTGCCAAGAATATCTGCAATTAGACTGTAAAACAAAAGAAAAATAAACT
1 CCGTGTGTGCCAAGAATATCTGCAATTAGACTGTAAAACAAAAGAAAAACAAACT
111430608 AAGTTATTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.21
Consensus pattern (55 bp):
CCGTGTGTGCCAAGAATATCTGCAATTAGACTGTAAAACAAAAGAAAAACAAACT
Found at i:111432059 original size:40 final size:41
Alignment explanation
Indices: 111431988--111432100 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 41
111431978 AAATAGGGCT
* ** *
111431988 TTAGCGGCGTTTTTTGAAAAAACGCCG-TAAAAATTATA-CA
1 TTAGCGGCG-TTTTTGGAAAAACGCCGCTAAAAACCAGAGCA
* *
111432028 TTAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGTTTTTGGAAAAACGCCGCTAAAAACCAGAGCA
* *
111432069 ATAGCGGCGTTTTTGGTAAAACGCCGCTAAAA
1 TTAGCGGCGTTTTTGGAAAAACGCCGCTAAAA
111432101 GTCATATAAC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 14 0.23
40 17 0.27
41 31 0.50
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGGAAAAACGCCGCTAAAAACCAGAGCA
Found at i:111432187 original size:15 final size:16
Alignment explanation
Indices: 111432158--111432192 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
111432148 TAGTCTATAT
111432158 AACCCCTACAACCCTA
1 AACCCCTACAACCCTA
111432174 AACCCCTA-AACCCTA
1 AACCCCTACAACCCTA
111432189 AACC
1 AACC
111432193 TAATAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.40, C:0.49, G:0.00, T:0.11
Consensus pattern (16 bp):
AACCCCTACAACCCTA
Found at i:111432517 original size:19 final size:19
Alignment explanation
Indices: 111432486--111432532 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
111432476 ATATTAGATT
111432486 TAAA-AAAAACATTGATAA
1 TAAATAAAAACATTGATAA
*
111432504 TAAATAAAATCATTGATAA
1 TAAATAAAAACATTGATAA
111432523 TAAATAAAAA
1 TAAATAAAAA
111432533 TGAAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
TAAATAAAAACATTGATAA
Found at i:111437092 original size:44 final size:44
Alignment explanation
Indices: 111437029--111437117 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
111437019 ACTATCGCTT
111437029 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
111437073 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
111437117 T
1 T
111437118 GATGCTATAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (44 bp):
TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
Found at i:111437869 original size:20 final size:20
Alignment explanation
Indices: 111437828--111437875 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
111437818 TTATTATTTA
111437828 TTTTAGTTTTGATTCTAAAT
1 TTTTAGTTTTGATTCTAAAT
* *
111437848 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAA-AT
*
111437868 TTCTAGTT
1 TTTTAGTT
111437876 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.67
Consensus pattern (20 bp):
TTTTAGTTTTGATTCTAAAT
Found at i:111437995 original size:18 final size:18
Alignment explanation
Indices: 111437969--111438021 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
111437959 TATTTTGATA
*
111437969 ATGAATTTTAAATTTTTT
1 ATGATTTTTAAATTTTTT
*
111437987 ATGATTTTTATAATATTTT
1 ATGATTTTTA-AATTTTTT
** *
111438006 ATTTTTTTTTAATTTT
1 ATGATTTTTAAATTTT
111438022 ATTACTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
ATGATTTTTAAATTTTTT
Found at i:111450708 original size:22 final size:22
Alignment explanation
Indices: 111450681--111450722 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
111450671 ACACTTAAAC
111450681 TTAAAATAATTATAAGTAATAT
1 TTAAAATAATTATAAGTAATAT
111450703 TTAAAATAATTATAAGTAAT
1 TTAAAATAATTATAAGTAAT
111450723 TTTTTATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
TTAAAATAATTATAAGTAATAT
Found at i:111454011 original size:25 final size:24
Alignment explanation
Indices: 111453952--111454012 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
111453942 ATAACTCGAA
*
111453952 CGAGCATCCTGTTAACAGGCTTAT
1 CGAGCATCCTGTTAACAGGCTTAG
111453976 CGAGCATTCCTGTT-ACATGGTCCTT-G
1 CGAGCA-TCCTGTTAACA-GG--CTTAG
111454002 CGAGCATCCTG
1 CGAGCATCCTG
111454013 ATCGATAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
24 9 0.28
25 14 0.44
26 6 0.19
27 3 0.09
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.30
Consensus pattern (24 bp):
CGAGCATCCTGTTAACAGGCTTAG
Found at i:111454141 original size:18 final size:18
Alignment explanation
Indices: 111454118--111454153 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
111454108 CGCCACCAAT
111454118 CTTTTTAGGTGTGATTGG
1 CTTTTTAGGTGTGATTGG
111454136 CTTTTTAGGTGTGATTGG
1 CTTTTTAGGTGTGATTGG
111454154 ATCACCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.33, T:0.50
Consensus pattern (18 bp):
CTTTTTAGGTGTGATTGG
Found at i:111455378 original size:17 final size:19
Alignment explanation
Indices: 111455334--111455397 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
111455324 ATATATAACC
*
111455334 TATAAAAAATAATAAATAA
1 TATAATAAATAATAAATAA
111455353 TATAGAATAAA-AATAAA-AA
1 TAT--AATAAATAATAAATAA
**
111455372 TATAATAAATGTTAAATAA
1 TATAATAAATAATAAATAA
*
111455391 TAAAATA
1 TATAATA
111455398 TATTTAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 6 0.16
18 4 0.11
19 16 0.43
20 6 0.16
21 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
TATAATAAATAATAAATAA
Found at i:111455392 original size:19 final size:18
Alignment explanation
Indices: 111455346--111455411 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
111455336 TAAAAAATAA
**
111455346 TAAATAATATAGAATAAAAA
1 TAAATAATAT--AATAAATT
111455366 TAAA-AATATAATAAATGT
1 TAAATAATATAATAAAT-T
* *
111455384 TAAATAATAAAATATATT
1 TAAATAATATAATAAATT
111455402 TAAAT-ATATA
1 TAAATAATATA
111455412 GGAAATAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 10 0.26
18 10 0.26
19 15 0.38
20 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAATAATATAATAAATT
Found at i:111455393 original size:31 final size:30
Alignment explanation
Indices: 111455335--111455395 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
111455325 TATATAACCT
*
111455335 ATAAAAAATAATAAATAATATAGAATAAAA
1 ATAAAAAATAATAAATAATAAAGAATAAAA
** *
111455365 ATAAAAATATAATAAATGTTAAATAATAAAA
1 ATAAAAA-ATAATAAATAATAAAGAATAAAA
111455396 TATATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.26
Consensus pattern (30 bp):
ATAAAAAATAATAAATAATAAAGAATAAAA
Found at i:111455530 original size:3 final size:3
Alignment explanation
Indices: 111455522--111455703 Score: 53
Period size: 3 Copynumber: 60.3 Consensus size: 3
111455512 AAGTAAAAAT
* * * *
111455522 ATA ATA ATA AT- ATA AAA ATG ATA AT- GTA A-A ATA ATA ATA ATA ATTT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * *
111455568 GTGA AAA ATA A-A CATA ATAA ATA ATA AT- GTAA ATA ATA TATA ATA
1 AT-A ATA ATA ATA -ATA AT-A ATA ATA ATA AT-A ATA ATA -ATA ATA
* * * *
111455613 A-A ATA AT- TTT ATA ATA TATA AT- ATA AAA ATA AGGT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA A--TA ATA ATA ATA
* * *
111455657 A-A ACA ATTA ACA AT- ATA AAA ATA TATA TATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA
111455703 A
1 A
111455704 ACATATAGGG
Statistics
Matches: 131, Mismatches: 26, Indels: 44
0.65 0.13 0.22
Matches are distributed among these distances:
2 17 0.13
3 91 0.69
4 22 0.17
5 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:111455710 original size:37 final size:36
Alignment explanation
Indices: 111455632--111455710 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 36
111455622 TATAATATAT
* *
111455632 AATATAAAAATAAGGTATAAAAATAAAACAATTAAC
1 AATATAAAAATAAGATATAAAAATAAAACAATAAAC
* * *
111455668 AATATAAAAATATATATATAATAATAATAATAATAAAC
1 AATATAAAAATA-AGATATAAAAATAA-AACAATAAAC
111455706 -ATATA
1 AATATA
111455711 GGGTTAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 12 0.33
37 16 0.44
38 8 0.22
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (36 bp):
AATATAAAAATAAGATATAAAAATAAAACAATAAAC
Found at i:111469778 original size:31 final size:31
Alignment explanation
Indices: 111469719--111469779 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
111469709 CAATTCAGAA
*
111469719 ACTTAAATAAAAAATTTTAAATAGTTTAATT
1 ACTTAAATAAAAAATTTTAAATAATTTAATT
*
111469750 ACTTAAAT-AAAAATTTTCGAATAATTTAAT
1 ACTTAAATAAAAAATTTT-AAATAATTTAAT
111469780 GATCATTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (31 bp):
ACTTAAATAAAAAATTTTAAATAATTTAATT
Found at i:111472108 original size:107 final size:108
Alignment explanation
Indices: 111471908--111472123 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
111471898 AAAAAACACG
111471908 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
111471973 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
* *
111472016 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTTGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
*
111472080 AAAACTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
111472123 T
1 T
111472124 TTTTTGTTTA
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 92 0.88
108 13 0.12
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTATTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:111484340 original size:150 final size:150
Alignment explanation
Indices: 111484155--111484436 Score: 401
Period size: 150 Copynumber: 1.9 Consensus size: 150
111484145 CATAATTTTA
* * *
111484155 TTAAAATATAATATATTTACAATATTATAATTTCTTGATTTTTTTTATTATAGATAATTA-TGTT
1 TTAAAATATAATATATTTACAATATTATAATTTCTTGA-TTTTCTTATTATAGAGAATCACT-TT
* *
111484219 AATCTAATTTAAATAA-AAATTTAGTAAAAACAAAATTTATGTCTCTTT-GTAATTCATATACGT
64 AACCTAATTTAAATAATAAATTTAGTAAAAACAAAATTTATGTCTCTTTAGTAATTCATATACGC
111484282 AATTACGTGAATCGTGATTTGT
129 AATTACGTGAATCGTGATTTGT
* * *
111484304 TTAATAATATAATATATTTATAATATT-TAAATTTCTTTATTTTCTTATTATAGAGAGTCACTTT
1 TTAA-AATATAATATATTTACAATATTAT-AATTTCTTGATTTTCTTATTATAGAGAATCACTTT
* * *
111484368 AACCTAATTTAAATAATAATTTTAGTAAAAACAAAATTTATGTTTCTTTATTAATTCATATACGC
64 AACCTAATTTAAATAATAAATTTAGTAAAAACAAAATTTATGTCTCTTTAGTAATTCATATACGC
111484433 AATT
129 AATT
111484437 CATATTTTTA
Statistics
Matches: 117, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
149 39 0.33
150 61 0.52
151 17 0.15
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.47
Consensus pattern (150 bp):
TTAAAATATAATATATTTACAATATTATAATTTCTTGATTTTCTTATTATAGAGAATCACTTTAA
CCTAATTTAAATAATAAATTTAGTAAAAACAAAATTTATGTCTCTTTAGTAATTCATATACGCAA
TTACGTGAATCGTGATTTGT
Found at i:111487653 original size:46 final size:46
Alignment explanation
Indices: 111487601--111487913 Score: 439
Period size: 46 Copynumber: 6.8 Consensus size: 46
111487591 CTCTGACAGA
111487601 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
111487647 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
*
111487693 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* *
111487739 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* * ***
111487785 AAATGTTTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATG
** * * *
111487832 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* * * * *
111487877 AAAATGAGTAAGGCCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
111487914 TCATGTCGAA
Statistics
Matches: 245, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 205 0.84
47 39 0.16
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
Found at i:111496515 original size:49 final size:48
Alignment explanation
Indices: 111496456--111496676 Score: 195
Period size: 49 Copynumber: 4.6 Consensus size: 48
111496446 CACATCAAGT
*
111496456 CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATAACGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTT-ATATAACGAGGC
* * * * * * *
111496505 CGATGCCATGTCCCGGATAGGTCTTACCCTGGCTCTTATCTATCG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACT-TTATATAACGAG-GC
* * *
111496554 CGATGTCATGTCCCAGACAGGTCTTACACTGAC---ACATAAC-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTATATAACGAGGC
* * **
111496598 TGATGCCATGTCCCAGACAGGTTTTACACT-AGCTTGTATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TATATAACGAGGC
* *
111496647 CGATG-CATGTCCCAAACATGTCTTACACTG
1 CGATGCCATGTCCCAGACAGGTCTTACACTG
111496677 GCACACATAA
Statistics
Matches: 133, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 29 0.22
45 4 0.03
48 26 0.20
49 71 0.53
50 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTATATAACGAGGC
Found at i:111496709 original size:94 final size:93
Alignment explanation
Indices: 111496554--111496725 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 93
111496544 CTATCGGTGT
* *
111496554 CGATGTCATGTCCCAGACAGGTCTTACACTGACACATAACAAGCTGATGCCATGTCCCAGACAGG
1 CGATGTCATGTCCCAAACAGGTCTTACACTGACACATAACAAGCTGATGCCATGTCCCAGACAAG
**
111496619 TTTTACACTAGCTTGTATATCTCGAGGC
66 ACTTACACTAGCTTGTATATCTCGAGGC
* ***
111496647 CGATG-CATGTCCCAAACATGTCTTACACTGGCACACATAATGTGGCTGATG-CATGTCCCAGAC
1 CGATGTCATGTCCCAAACAGGTCTTACACT-G-ACACATAA-CAAGCTGATGCCATGTCCCAGAC
111496710 AAGACTTACACTAGCT
63 AAGACTTACACTAGCT
111496726 CACATACCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 22 0.32
93 6 0.09
94 33 0.49
95 7 0.10
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (93 bp):
CGATGTCATGTCCCAAACAGGTCTTACACTGACACATAACAAGCTGATGCCATGTCCCAGACAAG
ACTTACACTAGCTTGTATATCTCGAGGC
Found at i:111502030 original size:20 final size:20
Alignment explanation
Indices: 111502007--111502048 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
111501997 TTTTAGAAAA
111502007 TTTTT-CAACTTTTTATATTT
1 TTTTTACAA-TTTTTATATTT
*
111502027 TTTTTACGATTTTTATATTT
1 TTTTTACAATTTTTATATTT
111502047 TT
1 TT
111502049 CTAAGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTTACAATTTTTATATTT
Found at i:111502057 original size:18 final size:18
Alignment explanation
Indices: 111502006--111502057 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
111501996 TTTTTAGAAA
*
111502006 ATTTTTC-AACTTTTTAT
1 ATTTTTCTAAGTTTTTAT
* *
111502023 ATTTTTTTTACGATTTTTAT
1 A-TTTTTCTAAG-TTTTTAT
111502043 ATTTTTCTAAGTTTT
1 ATTTTTCTAAGTTTT
111502058 AATAAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
17 1 0.04
18 9 0.33
19 9 0.33
20 8 0.30
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (18 bp):
ATTTTTCTAAGTTTTTAT
Found at i:111502891 original size:15 final size:15
Alignment explanation
Indices: 111502871--111502902 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
111502861 GGGCTGCAGT
*
111502871 TTTTTATGAAGATGA
1 TTTTTACGAAGATGA
111502886 TTTTTACGAAGATGA
1 TTTTTACGAAGATGA
111502901 TT
1 TT
111502903 GTTAACAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (15 bp):
TTTTTACGAAGATGA
Found at i:111508397 original size:11 final size:12
Alignment explanation
Indices: 111508367--111508399 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
111508357 AATTTTATTT
111508367 AATTAATATTTAA
1 AATTAA-ATTTAA
111508380 AATTAAATTTAA
1 AATTAAATTTAA
111508392 AA-TAAATT
1 AATTAAATT
111508400 ATAGTTACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTAAATTTAA
Found at i:111510049 original size:19 final size:18
Alignment explanation
Indices: 111510015--111510072 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
111510005 TACGACCATT
*
111510015 TACGACACTATTTATGTA
1 TACGATACTATTTATGTA
111510033 TACGATACTATTTTATGTA
1 TACGATACTA-TTTATGTA
*
111510052 TACGGTACTATTTATGTA
1 TACGATACTATTTATGTA
111510070 TAC
1 TAC
111510073 AGTACTGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 20 0.54
19 17 0.46
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (18 bp):
TACGATACTATTTATGTA
Found at i:111510077 original size:18 final size:18
Alignment explanation
Indices: 111510021--111510094 Score: 87
Period size: 18 Copynumber: 4.1 Consensus size: 18
111510011 CATTTACGAC
111510021 ACTATTTATGTATAC-GAT
1 ACTATTTATGTATACAG-T
*
111510039 ACTATTTTATGTATACGGT
1 ACTA-TTTATGTATACAGT
111510058 ACTATTTATGTATACAGT
1 ACTATTTATGTATACAGT
* * *
111510076 ACTGTTCACGTATACAGT
1 ACTATTTATGTATACAGT
111510094 A
1 A
111510095 GTTAGGATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 33 0.66
19 16 0.32
20 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (18 bp):
ACTATTTATGTATACAGT
Found at i:111514885 original size:2 final size:2
Alignment explanation
Indices: 111514880--111514918 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
111514870 TCTCTCTCTC
*
111514880 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111514919 CTATTTTGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:111516955 original size:25 final size:25
Alignment explanation
Indices: 111516926--111516974 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
111516916 CAAAGGAAAA
**
111516926 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
111516951 TCCTAATAGAATTCCTAATTTAAA
1 TCCTAATAGAATTCCTAATTTAAA
111516975 ATTTATAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:111521620 original size:25 final size:25
Alignment explanation
Indices: 111521591--111521641 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
111521581 CAAAGAAAAA
** *
111521591 TCCTAATCTAATTTCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
111521616 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
111521641 T
1 T
111521642 TTATAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:111524840 original size:21 final size:21
Alignment explanation
Indices: 111524814--111524854 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111524804 ATCTGCTCAA
* *
111524814 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
111524835 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
111524855 TCGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:111531792 original size:17 final size:18
Alignment explanation
Indices: 111531753--111531802 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
111531743 TTTCTTTAAT
111531753 CTATTTTATATGTATTAC
1 CTATTTTATATGTATTAC
* * *
111531771 TTATTTT-TATTTCTTAC
1 CTATTTTATATGTATTAC
*
111531788 CTATTATATATGTAT
1 CTATTTTATATGTAT
111531803 ACATATAGTT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.60
Consensus pattern (18 bp):
CTATTTTATATGTATTAC
Found at i:111532417 original size:26 final size:25
Alignment explanation
Indices: 111532381--111532475 Score: 91
Period size: 26 Copynumber: 3.6 Consensus size: 25
111532371 TTTACATAAC
111532381 ATTTATTTTAAACTTATTCATATATT
1 ATTTATTTTAAACTT-TTCATATATT
* * * * *
111532407 ATTTATCTTAAATTTTTTTACATATC
1 ATTTATTTTAAA-CTTTTCATATATT
*
111532433 ATTCATTTTAAACTTTTCCCATATATT
1 ATTTATTTTAAACTTTT--CATATATT
*
111532460 ATTTATTTCAAACTTT
1 ATTTATTTTAAACTTT
111532476 CGCCTATACT
Statistics
Matches: 53, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
25 4 0.08
26 28 0.53
27 21 0.40
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTATTTTAAACTTTTCATATATT
Found at i:111532441 original size:52 final size:54
Alignment explanation
Indices: 111532347--111532465 Score: 163
Period size: 52 Copynumber: 2.2 Consensus size: 54
111532337 AGATGTCTTG
* * *
111532347 TATATTATTTATTTTAAGTTTCTTTTTACATAACATTTATTTTAAACTTATT-CA
1 TATATTATTTATCTTAAGATTCTTTTTACATAACATTCATTTTAAACTT-TTCCA
*
111532401 TATATTATTTATCTTAA-ATT-TTTTTACATATCATTCATTTTAAACTTTTCCCA
1 TATATTATTTATCTTAAGATTCTTTTTACATAACATTCATTTTAAACTTTT-CCA
111532454 TATATTATTTAT
1 TATATTATTTAT
111532466 TTCAAACTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
51 2 0.03
52 25 0.42
53 16 0.27
54 16 0.27
ACGTcount: A:0.31, C:0.11, G:0.01, T:0.57
Consensus pattern (54 bp):
TATATTATTTATCTTAAGATTCTTTTTACATAACATTCATTTTAAACTTTTCCA
Found at i:111533579 original size:25 final size:25
Alignment explanation
Indices: 111533545--111533595 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
111533535 GCTTTCTTTG
111533545 AGAATGTTTCATCTGAGGTTCCCAT
1 AGAATGTTTCATCTGAGGTTCCCAT
111533570 AGAATGTTTCATCTGAGGTTCCCAT
1 AGAATGTTTCATCTGAGGTTCCCAT
111533595 A
1 A
111533596 TCTGATTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (25 bp):
AGAATGTTTCATCTGAGGTTCCCAT
Found at i:111540473 original size:72 final size:72
Alignment explanation
Indices: 111540373--111540523 Score: 266
Period size: 72 Copynumber: 2.1 Consensus size: 72
111540363 TTGGTTGTGA
* * *
111540373 CTGCCATTGTTCTTGTCGGGATGGGTTTAGGAGTGTTTGATGCATGAGATAAGAAAGAGAGATAG
1 CTGCCATTGTTCTTGTCGAGATGAGTTTAGGAGTGTTTGATGCATGAGATAAGAAAAAGAGATAG
111540438 GTAGAAG
66 GTAGAAG
*
111540445 CTGCCATTGTTCTTGTCGAGATGAGTTTAGGAGTGTTTGGTGCATGAGATAAGAAAAAGAGATAG
1 CTGCCATTGTTCTTGTCGAGATGAGTTTAGGAGTGTTTGATGCATGAGATAAGAAAAAGAGATAG
111540510 GTAGAAG
66 GTAGAAG
111540517 CTGCCAT
1 CTGCCAT
111540524 GGTTGATTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (72 bp):
CTGCCATTGTTCTTGTCGAGATGAGTTTAGGAGTGTTTGATGCATGAGATAAGAAAAAGAGATAG
GTAGAAG
Found at i:111549020 original size:18 final size:18
Alignment explanation
Indices: 111548989--111549038 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
111548979 ATAAATATAA
111548989 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AA-TTTTA-AAAGT
111549009 ATTTTGAATTTTAAAAGTT
1 ATTTTGAATTTTAAAAG-T
111549028 ATTTT-AATTTT
1 ATTTTGAATTTT
111549039 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.11
18 11 0.39
19 8 0.29
20 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTTGAATTTTAAAAGT
Found at i:111549039 original size:19 final size:19
Alignment explanation
Indices: 111548960--111549020 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
111548950 TATTATTCTA
111548960 GAATTTTTA-AAATATTTT
1 GAATTTTTATAAATATTTT
***
111548978 -AATAAATAT-AA-ATTTT
1 GAATTTTTATAAATATTTT
111548994 GAAATTTTTATAAATATTTT
1 G-AATTTTTATAAATATTTT
111549014 GAATTTT
1 GAATTTT
111549021 AAAAGTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 6 0.19
19 8 0.25
20 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
GAATTTTTATAAATATTTT
Found at i:111549744 original size:30 final size:30
Alignment explanation
Indices: 111549705--111549767 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
111549695 TCATTGGTTC
*
111549705 AAATATCATTATGGAC-TTTATTTTTTAAAA
1 AAATATCATTATGGACAATT-TTTTTTAAAA
* *
111549735 AAATCTCATTATGGACAATTTTTTTTATAA
1 AAATATCATTATGGACAATTTTTTTTAAAA
111549765 AAA
1 AAA
111549768 GTCAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (30 bp):
AAATATCATTATGGACAATTTTTTTTAAAA
Found at i:111551096 original size:8 final size:8
Alignment explanation
Indices: 111551085--111551112 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
111551075 AACAATTAAA
111551085 TTAATATT
1 TTAATATT
111551093 TTAATATT
1 TTAATATT
111551101 TTAATATT
1 TTAATATT
111551109 TTAA
1 TTAA
111551113 GTGTGAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTAATATT
Done.