Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 129 of 250
Found at i:41649476 original size:40 final size:40
Alignment explanation
Indices: 41649382--41649526 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
41649372 TACTCGAATG
*
41649382 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
41649423 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
41649463 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
41649503 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
41649527 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:41652603 original size:16 final size:18
Alignment explanation
Indices: 41652576--41652608 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
41652566 TCTGAGGTAT
41652576 ATATCTATGAAA-TGATA
1 ATATCTATGAAAGTGATA
41652593 ATATC-ATGAAAGTGAT
1 ATATCTATGAAAGTGAT
41652609 TATGGTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (18 bp):
ATATCTATGAAAGTGATA
Found at i:41653235 original size:57 final size:57
Alignment explanation
Indices: 41653156--41653271 Score: 162
Period size: 57 Copynumber: 2.0 Consensus size: 57
41653146 CCCTAACCCT
* * * * *
41653156 TATCCGTCGCCGGATTAGGGTTATGAAGCACTACCGTATAATTA-AAGCATTAAAACA
1 TATCCGTCACCGGATCAAGGTTACGAAGCACTACCGTATAATCAGAA-CATTAAAACA
*
41653213 TATCCGTCACTGGATCAAGGTTACGAAGCACTACCGTATAATCAGAACATTAAAACA
1 TATCCGTCACCGGATCAAGGTTACGAAGCACTACCGTATAATCAGAACATTAAAACA
41653270 TA
1 TA
41653272 CATTTCACAC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 50 0.96
58 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (57 bp):
TATCCGTCACCGGATCAAGGTTACGAAGCACTACCGTATAATCAGAACATTAAAACA
Found at i:41654973 original size:34 final size:34
Alignment explanation
Indices: 41654748--41655081 Score: 134
Period size: 35 Copynumber: 9.4 Consensus size: 34
41654738 TTGCGCGCAA
* * *
41654748 CACTAGTCCGATAAATCGACAAATGTGTGCTCCAG
1 CACTAGTCAGATAAACCGACGAATGTGTGC-CCAG
* *
41654783 CACTAGTCAGATAAACTGACGGAA-GTTGCGCCCAG
1 CACTAGTCAGATAAACCGAC-GAATG-TGTGCCCAG
* * * *
41654818 CGCTAGTCAGATAAACAGGCGAATGTGTGCCCAA
1 CACTAGTCAGATAAACCGACGAATGTGTGCCCAG
* * * *
41654852 CACTAATTAGAT-AACCTGACGAATAATTGTGAGCCTAG
1 CACTAGTCAGATAAACC-GACG---AA-TGTGTGCCCAG
* ** * * * **
41654890 CTCTAGTTGGATAAACCAACTATATTTGCACCCAG
1 CACTAGTCAGATAAACCGACGA-ATGTGTGCCCAG
** * *
41654925 CGTTAGCCAGATAAACCGACGAATGTGTGCCCAA
1 CACTAGTCAGATAAACCGACGAATGTGTGCCCAG
* ** * *
41654959 CATTAGTCAGATAAACTAACGAATAATTAGTAAGCCTAG
1 CACTAGTCAGATAAACCGACGAAT--GT-GT--GCCCAG
* ** * * * * *
41654998 CTCTAGTTGGATAAATCAACGATATTTGCGCCCAT
1 CACTAGTCAGATAAACCGACGA-ATGTGTGCCCAG
* *
41655033 CACTAGTC-GAATAAACCGATGAATGTGTACCCAG
1 CACTAGTCAG-ATAAACCGACGAATGTGTGCCCAG
*
41655067 CATTAGTCAGATAAA
1 CACTAGTCAGATAAA
41655082 TTGACGGAAG
Statistics
Matches: 217, Mismatches: 64, Indels: 37
0.68 0.20 0.12
Matches are distributed among these distances:
33 3 0.01
34 71 0.33
35 83 0.38
36 8 0.04
37 5 0.02
38 21 0.10
39 24 0.11
40 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (34 bp):
CACTAGTCAGATAAACCGACGAATGTGTGCCCAG
Found at i:41655047 original size:108 final size:107
Alignment explanation
Indices: 41654808--41655081 Score: 361
Period size: 108 Copynumber: 2.6 Consensus size: 107
41654798 CTGACGGAAG
* * * * * * *
41654808 TTGCGCCCAGCGCTAGTCAGATAAACAGGCGAATGTGTGCCCAACACTAATTAGATAACCTGACG
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATGTGTGCCCAACATTAGTCAGATAAACTAACG
* *
41654873 AATAATTGTGAGCCTAGCTCTAGTTGGATAAACCAACTATAT
66 AATAATTGTAAGCCTAGCTCTAGTTGGATAAACCAACGATAT
* * *
41654915 TTGCACCCAGCGTTAGCCAGATAAACCGACGAATGTGTGCCCAACATTAGTCAGATAAACTAACG
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATGTGTGCCCAACATTAGTCAGATAAACTAACG
*
41654980 AATAATTAGTAAGCCTAGCTCTAGTTGGATAAATCAACGATAT
66 AATAATT-GTAAGCCTAGCTCTAGTTGGATAAACCAACGATAT
* * * * *
41655023 TTGCGCCCATCACTAGTC-GAATAAACCGATGAATGTGTACCCAGCATTAGTCAGATAAA
1 TTGCGCCCAGCGCTAGTCAG-ATAAACCGACGAATGTGTGCCCAACATTAGTCAGATAAA
41655082 TTGACGGAAG
Statistics
Matches: 144, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
107 63 0.44
108 81 0.56
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (107 bp):
TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATGTGTGCCCAACATTAGTCAGATAAACTAACG
AATAATTGTAAGCCTAGCTCTAGTTGGATAAACCAACGATAT
Found at i:41665172 original size:38 final size:38
Alignment explanation
Indices: 41665130--41665207 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
41665120 TGAAACTCTA
41665130 GGGATTTAATTGGAAATTAAAACAATTCTAACTATTTT
1 GGGATTTAATTGGAAATTAAAACAATTCTAACTATTTT
41665168 GGGATTTAATTGGAAATTAAAACAATTCTAACTATTTT
1 GGGATTTAATTGGAAATTAAAACAATTCTAACTATTTT
41665206 GG
1 GG
41665208 ACTGTTGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (38 bp):
GGGATTTAATTGGAAATTAAAACAATTCTAACTATTTT
Found at i:41666110 original size:18 final size:18
Alignment explanation
Indices: 41666089--41666124 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41666079 AATGAAGTTT
41666089 AATAAATAAATGCAAATG
1 AATAAATAAATGCAAATG
**
41666107 AATATGTAAATGCAAATG
1 AATAAATAAATGCAAATG
41666125 CAAATGGTTG
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:0.56, C:0.06, G:0.14, T:0.25
Consensus pattern (18 bp):
AATAAATAAATGCAAATG
Found at i:41666276 original size:31 final size:31
Alignment explanation
Indices: 41666241--41666299 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
41666231 GTCATTAAGG
41666241 TCTAAAAAGCAGCAGGTATGT-TGTACCAATT
1 TCTAAAAAGCAGCAGGTAT-TATGTACCAATT
* *
41666272 TCTAAAAAGTATCAGGTATTATGTACCA
1 TCTAAAAAGCAGCAGGTATTATGTACCA
41666300 GTGTTGGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (31 bp):
TCTAAAAAGCAGCAGGTATTATGTACCAATT
Found at i:41669435 original size:30 final size:30
Alignment explanation
Indices: 41669401--41669461 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
41669391 TCCTTAACTC
41669401 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
41669431 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
41669461 A
1 A
41669462 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:41673275 original size:94 final size:94
Alignment explanation
Indices: 41673101--41673410 Score: 324
Period size: 94 Copynumber: 3.3 Consensus size: 94
41673091 GTTATGTGAG
* * * * *
41673101 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTTTGGGACAT-GCATCGGCATAGAGATGAGTGCTAGTGTAAGACATG
41673166 TCTGGGACATGCATCAGCAAC-ATCATGAT
65 TCTGGGACATGCATCAGCAACGATCATGAT
* * * * * *
41673195 AGCCCGTGTAAGACCACGTTTAGGACATCGCATCGGCATAGAGGTGAGTGCCAATGTAAGACATG
1 AGCCAGTGTAAGACCATGTTTGGGACAT-GCATCGGCATAGAGATGAGTGCTAGTGTAAGACATG
* ** * *
41673260 TCTGGGACATCCATCAGCCTCGATGATGTT
65 TCTGGGACATGCATCAGCAACGATCATGAT
* * **
41673290 AGCCAGTGTAAGA-CGTGTTTGGGACATGCATCGGC-TA-AGTTTCGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCATAGAGATGAGTGCTAGTGTAAGACATGT
* * *
41673352 TTGGGACATGCATCAGC-ACGTATACACGAG
66 CTGGGACATGCATCAGCAACG-AT-CATGAT
* *
41673382 AGCTAGTGTAAGACCATGTCTGGGACATG
1 AGCCAGTGTAAGACCATGTTTGGGACATG
41673411 GTATCGGCCT
Statistics
Matches: 176, Mismatches: 36, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
90 2 0.01
91 37 0.21
92 16 0.09
93 21 0.12
94 82 0.47
95 18 0.10
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCATAGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCAACGATCATGAT
Found at i:41673300 original size:47 final size:46
Alignment explanation
Indices: 41673101--41673321 Score: 137
Period size: 47 Copynumber: 4.7 Consensus size: 46
41673091 GTTATGTGAG
* * * * *
41673101 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACG-
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-CCATCAGCATCGATGATGT
* * * *
41673147 AGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAAC-ATCATGAT
1 A--GCCAGTGTAAGACATGTCTGGGACATCCATCAGCATCGATGATG-T
* * * * * *
41673195 AGCCCGTGTAAGACCACGTTTAGGACATCGCATCGGCATAGAGGTGA-GT
1 AGCCAGTGTAAGA-CATGTCTGGGACATC-CATCAGCATCGA--TGATGT
* *
41673244 -GCCAATGTAAGACATGTCTGGGACATCCATCAGCCTCGATGATGTT
1 AGCCAGTGTAAGACATGTCTGGGACATCCATCAGCATCGATGATG-T
* * *
41673290 AGCCAGTGTAAGACGTGTTTGGGACATGCATC
1 AGCCAGTGTAAGACATGTCTGGGACATCCATC
41673322 GGCTAAGTTT
Statistics
Matches: 133, Mismatches: 29, Indels: 25
0.71 0.16 0.13
Matches are distributed among these distances:
44 3 0.02
45 2 0.02
46 31 0.23
47 64 0.48
48 28 0.21
49 2 0.02
50 1 0.01
51 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATCCATCAGCATCGATGATGT
Found at i:41678616 original size:81 final size:81
Alignment explanation
Indices: 41678489--41678677 Score: 254
Period size: 81 Copynumber: 2.3 Consensus size: 81
41678479 CAAATTACTA
* * *
41678489 AAATAACCCTGTAAGGTAGAATTACCAAAATACCTCTATAGGGTAGAATTACTGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTACCAAAATACCTCTATAGGGTAGAAATACTGAAATACCCCTG
*
41678554 TAGGGTAGAATTATCG
66 TAGGGTAGAATTACCG
* * * *
41678570 AAATACCCCTGTAGGGTAGAATTACCGAAATACC-CTTGTAGGGTAGAAATATTGAAATACCCTT
1 AAATACCCCTGTAGGGTAGAATTACCAAAATACCTC-TATAGGGTAGAAATACTGAAATACCCCT
41678634 GTAGGGTAGAATTACCG
65 GTAGGGTAGAATTACCG
* * * *
41678651 AGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
41678678 TTTTGCCCCT
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 93 0.99
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTACCAAAATACCTCTATAGGGTAGAAATACTGAAATACCCCTG
TAGGGTAGAATTACCG
Found at i:41678676 original size:27 final size:27
Alignment explanation
Indices: 41678489--41678676 Score: 227
Period size: 27 Copynumber: 7.0 Consensus size: 27
41678479 CAAATTACTA
* *
41678489 AAATAACCC-TGTAAGGTAGAATTACCA
1 AAAT-ACCCTTGTAGGGTAGAATTACCG
* *
41678516 AAATA-CCTCTATAGGGTAGAATTACTG
1 AAATACCCT-TGTAGGGTAGAATTACCG
* *
41678543 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
41678570 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* **
41678597 AAATACCCTTGTAGGGTAGAAATATTG
1 AAATACCCTTGTAGGGTAGAATTACCG
41678624 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
41678651 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
41678677 ATTTTGCCCC
Statistics
Matches: 139, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
25 2 0.01
26 1 0.01
27 134 0.96
28 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:41678917 original size:25 final size:25
Alignment explanation
Indices: 41678883--41678975 Score: 123
Period size: 25 Copynumber: 3.7 Consensus size: 25
41678873 GAAGAGCTAC
*
41678883 AAGGGCTTTGCCCCAATTTACCGAA
1 AAGGGCTTTGCCCCAGTTTACCGAA
*
41678908 AAGGGCTTTGCCCTAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTACCGAA
* * *
41678933 AAGGACTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTGCCCCAGTTTACCGAA
* *
41678958 AAGGGTTTTTCCCCAGTT
1 AAGGGCTTTGCCCCAGTT
41678976 ATTAAAAGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTACCGAA
Found at i:41682143 original size:23 final size:23
Alignment explanation
Indices: 41682104--41682192 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 23
41682094 CTGATGAACA
**
41682104 GTAAGCTCTATTGAGCTAAAACG
1 GTAAGCTCTATCAAGCTAAAACG
* *
41682127 GTAAGCTCTATCAAGCT-GAACA
1 GTAAGCTCTATCAAGCTAAAACG
* * * *
41682149 GTAAGCTC-ATACGAGTTGAAATG
1 GTAAGCTCTAT-CAAGCTAAAACG
41682172 GTAAGCTCTAAT-AAGCTAAAA
1 GTAAGCTCT-ATCAAGCTAAAA
41682193 ATAGTAAGCT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
21 2 0.04
22 15 0.30
23 31 0.62
25 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (23 bp):
GTAAGCTCTATCAAGCTAAAACG
Found at i:41682155 original size:22 final size:22
Alignment explanation
Indices: 41682098--41682156 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
41682088 CCTGAGCTGA
**
41682098 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCAAGC
* *
41682120 TAAAACGGTAAGCTCTATCAAGC
1 T-GAACAGTAAGCTCTATCAAGC
41682143 TGAACAGTAAGCTC
1 TGAACAGTAAGCTC
41682157 ATACGAGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCAAGC
Found at i:41682199 original size:24 final size:24
Alignment explanation
Indices: 41682167--41682229 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
41682157 ATACGAGTTG
* *
41682167 AAATGGTAAGCTCTAATAAGCTAA
1 AAATAGTAAGCTCTAACAAGCTAA
* * *
41682191 AAATAGTAAGCTTTGACGAGCTAA
1 AAATAGTAAGCTCTAACAAGCTAA
41682215 AATATCAGTAAGCTC
1 AA-AT-AGTAAGCTC
41682230 ATACGAGCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 21 0.68
25 2 0.06
26 8 0.26
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (24 bp):
AAATAGTAAGCTCTAACAAGCTAA
Found at i:41682235 original size:26 final size:24
Alignment explanation
Indices: 41682185--41682238 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
41682175 AGCTCTAATA
*
41682185 AGCTAAAAATAGTAAGCTTTGACG
1 AGCTAAAAATAGTAAGCTATGACG
41682209 AGCTAAAATATCAGTAAGCTCAT-ACG
1 AGCTAAAA-AT-AGTAAGCT-ATGACG
41682235 AGCT
1 AGCT
41682239 GTGGTGAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
25 2 0.08
26 15 0.58
27 1 0.04
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
AGCTAAAAATAGTAAGCTATGACG
Found at i:41693623 original size:47 final size:46
Alignment explanation
Indices: 41693423--41693739 Score: 247
Period size: 47 Copynumber: 6.8 Consensus size: 46
41693413 TGGGATATAT
* * * * *
41693423 TGCCGATGCCATATCCCAGACATGGTCTTACAGTGGCTCTCATATACGCG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TG
* * * *
41693473 AGCTGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
* * * * *
41693516 TAGCCGATACGTGTCCTAGACACGTTTTACACTGG--CT-ATCTCCGTCG
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCT-C-T-G
* * *
41693563 AGGCCGATGCATGTCACAGACATGTCTTACATTGGCACTCATCTCTG
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
*
41693610 TGCCGATGCCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTG
1 TGCCGATG-CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
* *
41693657 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGG-ATCTCATAATGC-G
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCA-CTCAT-CT-CTG
*
41693706 -GCCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGC
41693740 GCACAAATCA
Statistics
Matches: 217, Mismatches: 33, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
43 3 0.01
44 27 0.12
45 2 0.01
46 22 0.10
47 101 0.47
48 33 0.15
49 18 0.08
50 11 0.05
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
Found at i:41697022 original size:43 final size:43
Alignment explanation
Indices: 41696974--41697141 Score: 130
Period size: 43 Copynumber: 3.9 Consensus size: 43
41696964 ATCGAGATGT
41696974 GATTACATGTAAGACCATTTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATTTCTGGGACATTGGCATTGTATTGA
* * * * *
41697017 GATTACGTGTAAGACCATGTCTGGGGCATTGGCGTCAT-TAAT-A
1 GATTACATGTAAGACCATTTCTGGGACATTGGCAT--TGTATTGA
* * * * *
41697060 TATTTCATGTAAGACC-TTGTCTAGGACAGTGGCATTG-ATATGT
1 GATTACATGTAAGACCATT-TCTGGGACATTGGCATTGTAT-TGA
* * * * *
41697103 GATAACATGCAAGACCATATATGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATTTCTGGGACATTGGCATTGTAT
41697142 GAGCTTATAT
Statistics
Matches: 94, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
41 2 0.02
42 10 0.11
43 77 0.82
44 4 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATTTCTGGGACATTGGCATTGTATTGA
Found at i:41699230 original size:17 final size:17
Alignment explanation
Indices: 41699203--41699235 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41699193 TCTCCATTAC
41699203 AAATTTAAAAT-TTTAT
1 AAATTTAAAATGTTTAT
41699219 AAATTATAAAATGTTTA
1 AAATT-TAAAATGTTTA
41699236 AATGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AAATTTAAAATGTTTAT
Found at i:41701103 original size:40 final size:40
Alignment explanation
Indices: 41701046--41701155 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
41701036 AATTATTGAG
* * * * *
41701046 TGAATACATATACGTGCCCCTGTTTGTACTTCAG-TACCCC
1 TGAATGCACATACGTGCCCCTATTTATACTT-AGATACACC
* *
41701086 TGAATGCACATATGTGCCCCTATTTATACTTTGATACACC
1 TGAATGCACATACGTGCCCCTATTTATACTTAGATACACC
* *
41701126 TGAATGCACTTACGTGCCTCTATTTATACT
1 TGAATGCACATACGTGCCCCTATTTATACT
41701156 CCGGTAACTC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.02
40 58 0.98
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTATACTTAGATACACC
Found at i:41702817 original size:62 final size:62
Alignment explanation
Indices: 41702747--41702871 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
41702737 AGCTCGTGCC
41702747 TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGCCATTGATGAATGCTTGAGATTTTGAA
1 TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGCCATTGATGAATGCTTGAGATTTTGAA
41702809 TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGCCATTGATGAATGCTTGAGATTTTGAA
1 TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGCCATTGATGAATGCTTGAGATTTTGAA
41702871 T
1 T
41702872 GATTGTTGAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.46
Consensus pattern (62 bp):
TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGCCATTGATGAATGCTTGAGATTTTGAA
Found at i:41703622 original size:43 final size:43
Alignment explanation
Indices: 41703525--41703624 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
41703515 TGTTGTGAAT
* * *
41703525 ACATGTAAGACCATGTCTGGGACATTGGCATCATTATTCGATT
1 ACATGTAAGACCATGTCTGGGACAGTGGCATCAATATTCGATA
* * * * * *
41703568 TCGTGTGAGACCTTGTTTGGGAGAGTGGCATCAATATGT-GATA
1 ACATGTAAGACCATGTCTGGGACAGTGGCATCAATAT-TCGATA
41703611 ACATGTAAGACCAT
1 ACATGTAAGACCAT
41703625 ATCTAGGATA
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
ACATGTAAGACCATGTCTGGGACAGTGGCATCAATATTCGATA
Found at i:41705913 original size:55 final size:55
Alignment explanation
Indices: 41705854--41705961 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 55
41705844 GCTGCCAGAT
* *
41705854 ACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCACCAAA
1 ACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCACCAAA
* * *
41705909 ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCACCA
1 ACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCACCA
41705962 GGACGCTTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 1 0.02
55 28 0.61
56 17 0.37
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (55 bp):
ACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCACCAAA
Found at i:41705925 original size:27 final size:27
Alignment explanation
Indices: 41705881--41705961 Score: 101
Period size: 27 Copynumber: 2.9 Consensus size: 27
41705871 GTCACCAGAT
41705881 ACAGATATTTTGTGGCAGTGCCACCAAA
1 ACAGATA-TTTGTGGCAGTGCCACCAAA
* * *
41705909 ACAGATATATGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAAA
41705936 ACAGATAATTTGTGGCA-TAGCCACCA
1 ACAGAT-ATTTGTGGCAGT-GCCACCA
41705962 GGACGCTTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAAA
Found at i:41706379 original size:8 final size:8
Alignment explanation
Indices: 41706352--41706382 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
41706342 CCAAAATACT
41706352 GGCTTTTC
1 GGCTTTTC
*
41706360 GGCATTTC
1 GGCTTTTC
41706368 GGCTTTTC
1 GGCTTTTC
41706376 GGCTTTT
1 GGCTTTT
41706383 GTCGATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:41713243 original size:28 final size:29
Alignment explanation
Indices: 41713210--41713282 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 29
41713200 GTATAATAAG
*
41713210 CCCGCACACTTAGTGCTATATAA-TCAAA
1 CCCGCACACTTAGTGCTATACAATTCAAA
* **
41713238 CTCGCACACTTAGTGCTATACAATTTGAA
1 CCCGCACACTTAGTGCTATACAATTCAAA
41713267 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
41713283 CAATCTCATG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
CCCGCACACTTAGTGCTATACAATTCAAA
Found at i:41718090 original size:39 final size:39
Alignment explanation
Indices: 41718042--41718121 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
41718032 GATTTTTATT
41718042 AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
1 AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
41718081 AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
1 AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
41718120 AA
1 AA
41718122 ATAGAGACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (39 bp):
AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
Found at i:41727817 original size:17 final size:17
Alignment explanation
Indices: 41727781--41727816 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
41727771 TTATACTTTT
41727781 AAATAAAAAATTATGAA
1 AAATAAAAAATTATGAA
41727798 AAAT-AAAAATTATGAA
1 AAATAAAAAATTATGAA
41727814 AAA
1 AAA
41727817 AATCAGTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAATAAAAAATTATGAA
Found at i:41727892 original size:14 final size:14
Alignment explanation
Indices: 41727873--41727902 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
41727863 CGTACCAATA
41727873 CACCAACTAGTTTC
1 CACCAACTAGTTTC
41727887 CACCAACTAGTTTC
1 CACCAACTAGTTTC
41727901 CA
1 CA
41727903 GTTCGATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.27
Consensus pattern (14 bp):
CACCAACTAGTTTC
Found at i:41728415 original size:22 final size:22
Alignment explanation
Indices: 41728387--41728430 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
41728377 TTGTGGGGTG
41728387 TTTTATGTTGAAATTTTTAAAA
1 TTTTATGTTGAAATTTTTAAAA
*
41728409 TTTTATGTTGGAATTTTTAAAA
1 TTTTATGTTGAAATTTTTAAAA
41728431 AATTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (22 bp):
TTTTATGTTGAAATTTTTAAAA
Found at i:41728431 original size:23 final size:23
Alignment explanation
Indices: 41728387--41728436 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
41728377 TTGTGGGGTG
41728387 TTTTATGTTGAAATTTTT-AAAA
1 TTTTATGTTGAAATTTTTAAAAA
*
41728409 TTTTATGTTGGAATTTTTAAAAAA
1 TTTTATGTTGAAATTTTT-AAAAA
41728433 TTTT
1 TTTT
41728437 TATTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 17 0.68
24 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (23 bp):
TTTTATGTTGAAATTTTTAAAAA
Found at i:41744772 original size:194 final size:194
Alignment explanation
Indices: 41744438--41744802 Score: 667
Period size: 194 Copynumber: 1.9 Consensus size: 194
41744428 GGGATCTAAG
41744438 CTTTAAAACACACTTTGAAACACTTGATTTCAAGTTTGGGAGATCAAGTTATGACTATTTTAGTG
1 CTTTAAAACACACTTTGAAACACTTGATTTCAAGTTTGGGAGATCAAGTTATGACTATTTTAGTG
*
41744503 AAGACTGCACGAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGGCTTTAAT
66 AAGACTGCACAAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGGCTTTAAT
*
41744568 TTGAGCTTAAATTATTATATATGAGCCTGATTATTGTATATGAGTTTAAATAGTTATTTATTAA
131 TTGAGCTTAAATTATTATATATGAGCCCGATTATTGTATATGAGTTTAAATAGTTATTTATTAA
* * * *
41744632 CTTTGAAACACACTTTGAATCACTTGATTTCAAGTTTGGGAGCTCAAGTTATGACTGTTTTAGTG
1 CTTTAAAACACACTTTGAAACACTTGATTTCAAGTTTGGGAGATCAAGTTATGACTATTTTAGTG
41744697 AAGACTGCACAAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGGCTTTAAT
66 AAGACTGCACAAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGGCTTTAAT
*
41744762 TTGAGCTTAAATTATTATATATGATCCCGATTATTGTATAT
131 TTGAGCTTAAATTATTATATATGAGCCCGATTATTGTATAT
41744803 ATAAGATTTT
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
194 164 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (194 bp):
CTTTAAAACACACTTTGAAACACTTGATTTCAAGTTTGGGAGATCAAGTTATGACTATTTTAGTG
AAGACTGCACAAGCAAAATTTATGGAGAGGATTATTATTGAAAATTATGAGTTTTAGGCTTTAAT
TTGAGCTTAAATTATTATATATGAGCCCGATTATTGTATATGAGTTTAAATAGTTATTTATTAA
Found at i:41745838 original size:19 final size:20
Alignment explanation
Indices: 41745804--41745841 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41745794 TCAAATTATC
41745804 ACTATTTCACATACTTATTA
1 ACTATTTCACATACTTATTA
*
41745824 ACTATTTTACA-ACTTATT
1 ACTATTTCACATACTTATT
41745842 CAAAATAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (20 bp):
ACTATTTCACATACTTATTA
Found at i:41746619 original size:13 final size:13
Alignment explanation
Indices: 41746601--41746628 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
41746591 TGAGATAAGA
41746601 AAAGTCAAAGCCC
1 AAAGTCAAAGCCC
41746614 AAAGTCAAAGCCC
1 AAAGTCAAAGCCC
41746627 AA
1 AA
41746629 CTTAGTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.29, G:0.14, T:0.07
Consensus pattern (13 bp):
AAAGTCAAAGCCC
Found at i:41747769 original size:24 final size:24
Alignment explanation
Indices: 41747718--41747770 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
41747708 TTTAGTATTT
* *
41747718 ATTAGTATAATATATTTATCATTT
1 ATTAGCATAATATATTTATCATTA
41747742 ATTAGCATAATATATTTGA-CATTA
1 ATTAGCATAATATATTT-ATCATTA
41747766 ATTAG
1 ATTAG
41747771 AATTAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (24 bp):
ATTAGCATAATATATTTATCATTA
Found at i:41749789 original size:115 final size:120
Alignment explanation
Indices: 41749566--41749805 Score: 289
Period size: 115 Copynumber: 2.0 Consensus size: 120
41749556 TCGAATTTAA
** *
41749566 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
* * *
41749631 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCATAAATGCCTTCGGG-CTTA-C
66 CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
* *
41749684 CCGGAT-TAG-TACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAAT
1 CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAAT
** * *
41749745 GCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
65 GCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGC
41749801 CCGGA
1 CCGGA
41749806 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
114 4 0.04
115 55 0.52
116 31 0.30
117 9 0.09
118 6 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (120 bp):
CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:41749805 original size:40 final size:39
Alignment explanation
Indices: 41749566--41749805 Score: 269
Period size: 40 Copynumber: 6.1 Consensus size: 39
41749556 TCGAATTTAA
** *
41749566 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
41749606 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* *
41749646 CCGGATTTAGTAACTCGCATAAATGCCTTCGGG-CTTA-C
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
41749684 CCGGAT-TAGTACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
*
41749721 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGA-CTTAGC
* *
41749761 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
41749801 CCGGA
1 CCGGA
41749806 CATCATTCAA
Statistics
Matches: 176, Mismatches: 13, Indels: 22
0.83 0.06 0.10
Matches are distributed among these distances:
36 24 0.14
37 10 0.06
38 14 0.08
39 22 0.12
40 93 0.53
41 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:41757587 original size:40 final size:39
Alignment explanation
Indices: 41757550--41757771 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 39
41757540 GCTACTCGTT
* *
41757550 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
* *
41757590 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
*
41757630 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCG--
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
41757667 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * * *
41757706 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
41757747 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
41757772 CATCATTCAA
Statistics
Matches: 161, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
37 37 0.23
39 35 0.22
40 79 0.49
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:41757706 original size:76 final size:79
Alignment explanation
Indices: 41757550--41757771 Score: 249
Period size: 76 Copynumber: 2.8 Consensus size: 79
41757540 GCTACTCGTT
*
41757550 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCG-ACAAATGCCTTCGGGACTTAACCCGG
*
41757615 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
41757630 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCG-CAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGACAAATGCCTTCGGGACTTAACCCGG
*
41757691 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * * *
41757706 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCG-ACAAATGCCTTCGGGACTTAACCC
41757769 GGA
63 GGA
41757772 CATCATTCAA
Statistics
Matches: 123, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
75 2 0.02
76 33 0.27
77 28 0.23
78 4 0.03
79 27 0.22
80 29 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:41757731 original size:116 final size:118
Alignment explanation
Indices: 41757550--41757771 Score: 301
Period size: 116 Copynumber: 1.9 Consensus size: 118
41757540 GCTACTCGTT
*
41757550 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
41757615 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCG
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCG
* * **
41757667 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
41757729 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
41757772 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
115 4 0.04
116 55 0.60
117 33 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (118 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCG
Found at i:41760137 original size:26 final size:26
Alignment explanation
Indices: 41760107--41760158 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
41760097 CACCAATGAA
*
41760107 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
41760133 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
41760159 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:41760210 original size:103 final size:104
Alignment explanation
Indices: 41759867--41760236 Score: 638
Period size: 104 Copynumber: 3.6 Consensus size: 104
41759857 TAACCGTTAT
* **
41759867 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41759932 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
41759971 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41760036 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
41760076 TGGTGGATATCGCAC-TAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41760139 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
41760178 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
41760237 TTATATACAA
Statistics
Matches: 256, Mismatches: 7, Indels: 7
0.95 0.03 0.03
Matches are distributed among these distances:
102 31 0.12
103 67 0.26
104 125 0.49
105 33 0.13
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:41760598 original size:29 final size:29
Alignment explanation
Indices: 41760565--41760628 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
41760555 TAATCCACCA
41760565 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
41760594 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
41760624 CCCAA
1 CCCAA
41760629 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:41760602 original size:30 final size:30
Alignment explanation
Indices: 41760572--41760628 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41760562 CCACCCAACT
41760572 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
41760601 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
41760629 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:41767721 original size:26 final size:26
Alignment explanation
Indices: 41767691--41767741 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
41767681 ACCAATGAAC
*
41767691 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
41767717 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
41767742 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:41767722 original size:103 final size:104
Alignment explanation
Indices: 41767453--41767819 Score: 636
Period size: 103 Copynumber: 3.6 Consensus size: 104
41767443 TAACCGTTAT
* *
41767453 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41767518 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
41767555 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41767619 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
41767658 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
41767722 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
41767761 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
41767820 TTATATACAA
Statistics
Matches: 255, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
101 56 0.22
102 30 0.12
103 141 0.55
104 28 0.11
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:41768178 original size:29 final size:29
Alignment explanation
Indices: 41768145--41768208 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
41768135 TAATCCACCA
41768145 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
41768174 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
41768204 CCCAA
1 CCCAA
41768209 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:41768182 original size:30 final size:30
Alignment explanation
Indices: 41768152--41768208 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41768142 CCACCCAACT
41768152 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
41768181 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
41768209 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:41772387 original size:24 final size:25
Alignment explanation
Indices: 41772338--41772392 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
41772328 ATATTTTAAA
* *
41772338 TAAAAATTAGAAATTATAAATTTTT
1 TAAAAATAAGAAATTATAAATATTT
41772363 TAAAAATAAGAAATTAT-AATATTT
1 TAAAAATAAGAAATTATAAATATTT
41772387 TAAAAA
1 TAAAAA
41772393 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
TAAAAATAAGAAATTATAAATATTT
Found at i:41772404 original size:23 final size:25
Alignment explanation
Indices: 41772339--41772405 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
41772329 TATTTTAAAT
* * *
41772339 AAAAATTAGAAATTATAA-ATTTTTT
1 AAAAATAAGAAATAATAATA-TTTTA
*
41772364 AAAAATAAGAAATTATAATATTTTA
1 AAAAATAAGAAATAATAATATTTTA
41772389 AAAAATAA-AAA-AATAAT
1 AAAAATAAGAAATAATAAT
41772406 GAAAAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 5 0.13
24 3 0.08
25 29 0.76
26 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (25 bp):
AAAAATAAGAAATAATAATATTTTA
Found at i:41772542 original size:18 final size:18
Alignment explanation
Indices: 41772519--41772567 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
41772509 GATAAAATTA
41772519 ATTTTTAAATTTTTTTAT
1 ATTTTTAAATTTTTTTAT
* **
41772537 ATTTTTAAAATCATTTAT
1 ATTTTTAAATTTTTTTAT
*
41772555 ATTTTTATATTTT
1 ATTTTTAAATTTT
41772568 ACTTTTAACT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTAAATTTTTTTAT
Found at i:41773125 original size:24 final size:23
Alignment explanation
Indices: 41773097--41773173 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
41773087 AAGTAAAAAT
41773097 TAATTAATTTAAATGATATTTAAA
1 TAATTAATTT-AATGATATTTAAA
* *
41773121 TAATTGAATATAATGATATATGAAA
1 TAATT-AATTTAATGATAT-TTAAA
* *
41773146 T-ATAAATTTTAAT-ACTTTTTAAA
1 TAATTAA-TTTAATGA-TATTTAAA
41773169 TAATT
1 TAATT
41773174 TCTTGAAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
23 8 0.20
24 24 0.59
25 9 0.22
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (23 bp):
TAATTAATTTAATGATATTTAAA
Found at i:41775319 original size:17 final size:17
Alignment explanation
Indices: 41775299--41775331 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41775289 CCCAATAAAA
*
41775299 ACAATAAACCAAAATAC
1 ACAAAAAACCAAAATAC
41775316 ACAAAAAACCAAAATA
1 ACAAAAAACCAAAATA
41775332 ATTAAATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.21, G:0.00, T:0.09
Consensus pattern (17 bp):
ACAAAAAACCAAAATAC
Found at i:41776350 original size:30 final size:30
Alignment explanation
Indices: 41776314--41776371 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41776304 TATAATTTCA
* *
41776314 TTTTATTTTTATTTTAATTTGGCCCTAACC
1 TTTTATTTTTATTTCAATTTAGCCCTAACC
* *
41776344 TTTTATTTTTGTTTCACTTTAGCCCTAA
1 TTTTATTTTTATTTCAATTTAGCCCTAA
41776372 TGACCATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.57
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAACC
Found at i:41776562 original size:29 final size:29
Alignment explanation
Indices: 41776530--41776586 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
41776520 TTTTAATCCT
*
41776530 TTTTAAATTTTTTATATATGATTTATTTA
1 TTTTAAATATTTTATATATGATTTATTTA
*
41776559 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATGATTTATTT
41776587 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATGATTTATTTA
Found at i:41776588 original size:17 final size:17
Alignment explanation
Indices: 41776568--41776779 Score: 77
Period size: 17 Copynumber: 12.4 Consensus size: 17
41776558 ATTTTAAATA
41776568 TTTTATATATTATTTAT
1 TTTTATATATTATTTAT
* *
41776585 TTTTACTATA-AACATTAT
1 TTTTA-TATATTA-TTTAT
* * * ***
41776603 TTATATATGTAAAAAAT
1 TTTTATATATTATTTAT
*
41776620 TATTATATA-TA-TTAT
1 TTTTATATATTATTTAT
*
41776635 TTTTATTTATGTA-TTAT
1 TTTTATATAT-TATTTAT
*
41776652 TTAT-TATATTATTTAT
1 TTTTATATATTATTTAT
41776668 ATTTTAT-TA-TATATT-T
1 -TTTTATATATTAT-TTAT
* *
41776684 TATTATATATTATATCA-
1 TTTTATATATTAT-TTAT
*
41776701 TTTTAT-TA-TATATAT
1 TTTTATATATTATTTAT
*
41776716 TATTCATTATATTATTTTAT
1 T-TTTA-TATATTA-TTTAT
41776736 TTATTATATATTATATTAT
1 TT-TTATATATTAT-TTAT
*
41776755 ATTATTATTTATTATTTAT
1 -TT-TTATATATTATTTAT
*
41776774 TATTAT
1 TTTTAT
41776780 GTATAATTTT
Statistics
Matches: 147, Mismatches: 27, Indels: 42
0.68 0.12 0.19
Matches are distributed among these distances:
14 1 0.01
15 20 0.14
16 20 0.14
17 49 0.33
18 19 0.13
19 18 0.12
20 20 0.14
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (17 bp):
TTTTATATATTATTTAT
Found at i:41776650 original size:26 final size:25
Alignment explanation
Indices: 41776619--41776776 Score: 95
Period size: 26 Copynumber: 6.3 Consensus size: 25
41776609 ATGTAAAAAA
41776619 TTATTATATATATTATT-TTTAT-TT
1 TTATTATATAT-TTATTATTTATATT
*
41776643 ATGTATTATTTATTATATTATTTATATT
1 -T-TATTATATATT-TATTATTTATATT
*
41776671 TTATTATATA-TT-TTA-TTATATA
1 TTATTATATATTTATTATTTATATT
*
41776693 TTA-TATCAT-TTTATTATATATATT
1 TTATTAT-ATATTTATTATTTATATT
41776717 ATTCATTATAT-TATT-TTATTTAT-TAT
1 -TT-ATTATATAT-TTATTATTTATAT-T
*
41776743 ATATTATATTATATTATTATTTAT-TAT
1 TTATTATA-TAT-TTATTATTTATAT-T
41776770 TTATTAT
1 TTATTAT
41776777 TATGTATAAT
Statistics
Matches: 109, Mismatches: 8, Indels: 30
0.74 0.05 0.20
Matches are distributed among these distances:
21 3 0.03
22 13 0.12
23 6 0.06
24 12 0.11
25 8 0.07
26 37 0.34
27 28 0.26
28 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (25 bp):
TTATTATATATTTATTATTTATATT
Found at i:41776650 original size:29 final size:29
Alignment explanation
Indices: 41776618--41776784 Score: 137
Period size: 32 Copynumber: 5.4 Consensus size: 29
41776608 TATGTAAAAA
*
41776618 ATTATTATATATATTATTTTTATTTATGT
1 ATTATTATATATATTATTTTTATTTATAT
41776647 ATTATTTATTATATTATTTATATTTTATTATATAT
1 ATTA-TTA-TATA-TA-TTAT-TTTTATT-TATAT
*
41776682 TTTATTATATAT-TATATCATTTTATTATATAT
1 ATTATTATATATAT-TAT--TTTTATT-TATAT
41776714 ATTATTCAT-TATATTA-TTTTATTTAT-T
1 ATTATT-ATATATATTATTTTTATTTATAT
*
41776741 ATATATTATATTATATTATTATTTA-TTATTT
1 AT-TATTATA-TATATTATT-TTTATTTATAT
*
41776772 ATTATTATGTATA
1 ATTATTATATATA
41776785 ATTTTAAAAA
Statistics
Matches: 118, Mismatches: 4, Indels: 32
0.77 0.03 0.21
Matches are distributed among these distances:
27 5 0.04
28 7 0.06
29 22 0.19
30 15 0.13
31 14 0.12
32 27 0.23
33 11 0.09
34 10 0.08
35 7 0.06
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (29 bp):
ATTATTATATATATTATTTTTATTTATAT
Found at i:41776656 original size:7 final size:7
Alignment explanation
Indices: 41776619--41776777 Score: 94
Period size: 7 Copynumber: 21.1 Consensus size: 7
41776609 ATGTAAAAAA
41776619 TTATTAT
1 TTATTAT
41776626 ATATATTAT
1 -T-TATTAT
41776635 TT-TTAT
1 TTATTAT
41776641 TTATGTA-
1 TTAT-TAT
41776648 TTATTTAT
1 TTA-TTAT
41776656 TATATTAT
1 T-TATTAT
41776664 TTA-TATT
1 TTATTA-T
41776671 TTATTAT
1 TTATTAT
* *
41776678 ATATTTT
1 TTATTAT
41776685 ATTATATAT
1 -TTAT-TAT
*
41776694 TATATCATT
1 T-TATTA-T
41776703 TTATTAT
1 TTATTAT
41776710 ATATATTAT
1 -T-TATTAT
*
41776719 TCATTAT
1 TTATTAT
41776726 ATTATTTTAT
1 -TTA--TTAT
41776736 TTATTAT
1 TTATTAT
*
41776743 ATATTA-
1 TTATTAT
41776749 -TATTAT
1 TTATTAT
41776755 ATTATTAT
1 -TTATTAT
41776763 TTATTAT
1 TTATTAT
41776770 TTATTAT
1 TTATTAT
41776777 T
1 T
41776778 ATGTATAATT
Statistics
Matches: 122, Mismatches: 9, Indels: 41
0.71 0.05 0.24
Matches are distributed among these distances:
5 5 0.04
6 8 0.07
7 49 0.40
8 32 0.26
9 24 0.20
10 4 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (7 bp):
TTATTAT
Found at i:41776671 original size:67 final size:64
Alignment explanation
Indices: 41776599--41776779 Score: 162
Period size: 64 Copynumber: 2.8 Consensus size: 64
41776589 ACTATAAACA
* *
41776599 TTATTTATATATGTAAAAAATTATTATATATATTATTTTTATTTATGTATTATTTATTATATTA-
1 TTATTTATATAT-TAAAATATTATTATATATATTATTTTTATTTAT-TATTATTCATTATATTAT
41776663 T
64 T
* *
41776664 TTATATT-T-TATTATATATTTTATTATATAT-TATATCATTTTATTATATATATTATTCATTAT
1 TTAT-TTATATATTA-AAATATTATTATATATAT-TAT--TTTTATT-TAT-TATTATTCATTAT
41776726 ATTATT
59 ATTATT
* *
41776732 TTATTTAT-TA-TATATTA-TATTATAT-TATTATTTATTATTTATTATTAT
1 TTATTTATATATTAAAATATTATTATATATATTATTT-TTATTTATTATTAT
41776780 GTATAATTTT
Statistics
Matches: 97, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
61 6 0.06
62 5 0.05
63 8 0.08
64 23 0.24
65 14 0.14
66 10 0.10
67 23 0.24
68 8 0.08
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (64 bp):
TTATTTATATATTAAAATATTATTATATATATTATTTTTATTTATTATTATTCATTATATTATT
Found at i:41776751 original size:58 final size:56
Alignment explanation
Indices: 41776652--41776790 Score: 145
Period size: 53 Copynumber: 2.6 Consensus size: 56
41776642 TATGTATTAT
* *
41776652 TTATTATATTATTTATATTTTATTATATATTTTATTATATATTATATCA-T-TTTA
1 TTATTATATTATTCATATATTATTATATATTTTATTATATATTATATCATTATTTA
*
41776706 TTATATATATTATTCATTATATTATT-T-TA-TTTATTATATATTATATTA-TA-TTA
1 TTAT-TATATTATTCA-TATATTATTATATATTTTATTATATATTATATCATTATTTA
*
41776759 TTATT-TATTATTTAT-TATTATGTATA-ATTTTA
1 TTATTATATTATTCATATATTAT-TATATATTTTA
41776791 AAAATTTGTA
Statistics
Matches: 74, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
49 6 0.08
50 2 0.03
51 10 0.14
52 5 0.07
53 26 0.35
54 6 0.08
55 11 0.15
56 8 0.11
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (56 bp):
TTATTATATTATTCATATATTATTATATATTTTATTATATATTATATCATTATTTA
Found at i:41776788 original size:17 final size:15
Alignment explanation
Indices: 41776618--41776784 Score: 114
Period size: 14 Copynumber: 11.6 Consensus size: 15
41776608 TATGTAAAAA
*
41776618 ATTATTATATATATT
1 ATTATTATATTTATT
41776633 ATT-TT-TATTTATGT
1 ATTATTATATTTAT-T
41776647 ATTATT-TA-TTA-T
1 ATTATTATATTTATT
41776659 ATTATT-TATATT-TT
1 ATTATTATAT-TTATT
41776673 ATTA-TATATTTTATT
1 ATTATTATA-TTTATT
*
41776688 ATATATTATA-TCATT
1 AT-TATTATATTTATT
*
41776703 -TTATTATATATATT
1 ATTATTATATTTATT
41776717 ATTCATTATA-TTATT
1 ATT-ATTATATTTATT
41776732 -TTATT-TA-TTA-T
1 ATTATTATATTTATT
41776743 A-TATTATATTATATT
1 ATTATTATATT-TATT
41776758 ATTATTTATTATTTATT
1 ATTA-TTA-TATTTATT
41776775 ATTATGTATA
1 ATTAT-TATA
41776785 ATTTTAAAAA
Statistics
Matches: 125, Mismatches: 5, Indels: 43
0.72 0.03 0.25
Matches are distributed among these distances:
11 5 0.04
12 16 0.13
13 18 0.14
14 28 0.22
15 24 0.19
16 13 0.10
17 17 0.14
18 4 0.03
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (15 bp):
ATTATTATATTTATT
Found at i:41789693 original size:74 final size:74
Alignment explanation
Indices: 41789563--41789701 Score: 188
Period size: 74 Copynumber: 1.9 Consensus size: 74
41789553 AGCTCAGATG
* * *
41789563 AAATCTCCACACGAAGTTATCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
41789628 ACCCGGACA
66 ACCCGGACA
* * * * * * *
41789637 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
41789702 TAATCCCAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 55 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
ACCCGGACA
Found at i:41789694 original size:37 final size:37
Alignment explanation
Indices: 41789563--41789673 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
41789553 AGCTCAGATG
* * *
41789563 AAATCTCCACACGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
41789600 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
41789637 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
41789674 TAGTCACCAC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41789700 original size:37 final size:37
Alignment explanation
Indices: 41789563--41789701 Score: 154
Period size: 37 Copynumber: 3.8 Consensus size: 37
41789553 AGCTCAGATG
* * *
41789563 AAATCTCCACACGA-AGTTATCGGGTCTTACCCGAACA
1 AAATCACCACAC-ATAGTCATCGGGTCTTACCCGGACA
* *
41789600 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
* *
41789637 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
* * * * *
41789674 TAGTCACCACATATGGTCATCTGGTCTT
1 AAATCACCACACATAGTCATCGGGTCTT
41789702 TAATCCCAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
37 91 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCACCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:41789910 original size:46 final size:46
Alignment explanation
Indices: 41789847--41789992 Score: 186
Period size: 46 Copynumber: 3.1 Consensus size: 46
41789837 GCCACAATAT
* * * *
41789847 ATATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ATATAT-C-CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
41789895 ATATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACC
1 ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
* *
41789941 -TCATATCTATCTCATACACATTTCGCATTAGCCATTCGGCCTTACC
1 AT-ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
41789987 ACATAT
1 ATATAT
41789993 ATACATGTTC
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.01
46 79 0.91
47 1 0.01
48 6 0.07
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.35
Consensus pattern (46 bp):
ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
Found at i:41790027 original size:47 final size:47
Alignment explanation
Indices: 41789966--41790301 Score: 429
Period size: 47 Copynumber: 7.1 Consensus size: 47
41789956 ACACATTTCG
* * *
41789966 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
41790013 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * *
41790060 CATTGGCCATTTGGCCTTATCACACAGACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
41790107 CATTGGCCATTCGGCCTTATCACACATACGCACGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
41790154 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
41790201 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* * * * ** *
41790252 CATTTGCCATTTGGCCTTATCTCATATATACACATTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
41790299 CAT
1 CAT
41790302 AAAATCCTAA
Statistics
Matches: 260, Mismatches: 25, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
47 220 0.85
49 2 0.01
51 38 0.15
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:41790130 original size:22 final size:22
Alignment explanation
Indices: 41790103--41790177 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
41790093 GTTCACATTC
41790103 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
41790125 ATCACACATACGCACGTTC-ACATT
1 AT--CACATTGGC-CATTCGGCCTT
41790149 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
41790172 ATCACA
1 ATCACA
41790178 CATACGCGTG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 10 0.26
25 6 0.16
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.28
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:41793668 original size:40 final size:40
Alignment explanation
Indices: 41793597--41794073 Score: 760
Period size: 40 Copynumber: 11.9 Consensus size: 40
41793587 TCATGATTCC
* * *
41793597 AGCACGAATGC-CTTCGAGG-TTTAGCCTGGATATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATACATCACT
*
41793636 AGCACGAATGCTTTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
41793676 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
*
41793716 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
*
41793756 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCTCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
41793796 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
*
41793836 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* * * *
41793876 AGCACGAATGCTCTTTGGAACGTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
41793916 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
41793956 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
41793996 AGCACGAATGATCTTCGGAACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
41794036 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATATCA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCA
41794074 TACTAAACTT
Statistics
Matches: 413, Mismatches: 23, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.03
40 400 0.97
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
Found at i:41795318 original size:36 final size:37
Alignment explanation
Indices: 41795219--41795328 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
41795209 AGCTCAGATG
* * *
41795219 AAATCTCCACACGAAGTTATCAGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
**
41795256 AAATCTCCACACGTAGTCATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
41795293 AAATCTCCAC-CGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
41795329 TAGTCACCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
36 24 0.36
37 42 0.64
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
Found at i:41795348 original size:73 final size:74
Alignment explanation
Indices: 41795219--41795356 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 74
41795209 AGCTCAGATG
* * *
41795219 AAATCTCCACACGAAGTTATCAGGTCTTACCCGAACAAAATCTCCACACGTAGTCAT-TGGGTCT
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGAACAAAATCACCACACATAGTCATCT-GGTCT
41795283 TACCCGGACA
65 TACCCGGACA
* * * * * *
41795293 AAATCTCCAC-CGTAGTCATCAGGTCTTACCCGGACATAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGAACAAAATCACCACACATAGTCATCTGGTCTT
41795357 TAATCCCAGG
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
73 43 0.80
74 11 0.20
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCAGGTCTTACCCGAACAAAATCACCACACATAGTCATCTGGTCTT
ACCCGGACA
Found at i:41795565 original size:46 final size:46
Alignment explanation
Indices: 41795502--41795647 Score: 186
Period size: 46 Copynumber: 3.1 Consensus size: 46
41795492 GCCACAATAT
* * * *
41795502 ATATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ATATAT-C-CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
41795550 ATATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACC
1 ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
* *
41795596 -TCATATCTATCTCATACACATTTCGCATTAGCCATTCGGCCTTACC
1 AT-ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
41795642 ACATAT
1 ATATAT
41795648 ATACATGTTC
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.01
46 79 0.91
47 1 0.01
48 6 0.07
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.35
Consensus pattern (46 bp):
ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
Found at i:41795681 original size:47 final size:47
Alignment explanation
Indices: 41795621--41795956 Score: 420
Period size: 47 Copynumber: 7.1 Consensus size: 47
41795611 ACACATTTCG
* * *
41795621 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
41795668 CATTAGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
41795715 CATTGGCCATTCGGCCTTATCACACAGACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * *
41795762 TATTGGCCATTCGGCCTTATCACACATACGCACGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * *
41795809 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTGATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
41795856 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* * * * **
41795907 CATTTGCCATTTGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
41795954 CAT
1 CAT
41795957 AAAATCCTAA
Statistics
Matches: 259, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 220 0.85
49 2 0.01
51 37 0.14
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:41795832 original size:22 final size:22
Alignment explanation
Indices: 41795711--41795832 Score: 59
Period size: 22 Copynumber: 5.3 Consensus size: 22
41795701 GTTCACATTC
41795711 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
41795733 ATCACACAGACGCATGTTC-ACATT
1 ATCACATTGGC-CA--TTCGGCCTT
*
41795757 CATCATATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
** * * *
41795780 ATCACACATACGCACGTTC-ACATT
1 AT--CACATTGGC-CATTCGGCCTT
41795804 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
41795827 ATCACA
1 ATCACA
41795833 CATACGCGTG
Statistics
Matches: 68, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 23 0.34
23 15 0.22
24 14 0.21
25 16 0.24
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:41798286 original size:45 final size:45
Alignment explanation
Indices: 41798166--41798633 Score: 244
Period size: 45 Copynumber: 10.5 Consensus size: 45
41798156 ATTTGGCGTT
** *
41798166 TCTGTATTAGACGAAGAGCAGATCGAAGATAGCAGATCTGACAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * *
41798210 TCATGTA-T---C--GAAGCAGATCGAAGAT-GACAGATTTGGCGTC
1 TC-TGTATTAGACGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
* *
41798250 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGAAAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * * * * *
41798294 TCGTGTGTTTACATC--GAAGTAGATCGAAGAT-GATAGATTTGGCGTC
1 TC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
* * * *
41798340 TTTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * ** * *
41798384 TCGTGTGTTTGTATC--GAAGCAGATAAAAAAT-GACAGATTTGCCATC
1 TC-TGTATTAG-A-CGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
* *
41798430 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATT
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * ** * * *
41798475 TTTGTGTTTACATC--AAAGCAGATCGAAAAT-GACAGATTCGGCATC
1 TCTGT-ATTAGA-CGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
*
41798520 TCTGTATTAGACGGGGAGCAGGTCGAAGATAGCAGATTTGACAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * *
41798564 TCGTGTGTTTACATC--GAAGCAGATCGAAGATAGCAAATTT-AGCATC
1 TC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAGCAGATTTGA-CATC
*
41798610 TCTGTATTTGACGGGGAGCAGATC
1 TCTGTATTAGACGGGGAGCAGATC
41798634 AAGGATATTA
Statistics
Matches: 311, Mismatches: 74, Indels: 77
0.67 0.16 0.17
Matches are distributed among these distances:
38 1 0.00
39 27 0.09
40 3 0.01
41 1 0.00
43 5 0.02
44 24 0.08
45 224 0.72
46 22 0.07
47 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (45 bp):
TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
Found at i:41798346 original size:90 final size:90
Alignment explanation
Indices: 41798154--41798633 Score: 641
Period size: 90 Copynumber: 5.4 Consensus size: 90
41798144 TGTCACAAGT
* * ** *
41798154 AGATTTGGCGTTTCTGTATTAGACGAAGAGCAGATCGAAGATAGCAGATCTGACATTC--ATG--
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
41798215 T--ATCGAAGCAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* *
41798238 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGAAATTCGTGTGTT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
* *
41798303 TACATCGAAGTAGATCGAAGATGAT
66 TACATCGAAGCAGATCGAAGATGAC
* * * *
41798328 AGATTTGGCGTCTTTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCGTGTGTT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
** ** *
41798393 TGTATCGAAGCAGATAAAAAATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* **
41798418 AGATTTGCCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTTTTGTGTT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
* *
41798483 TACATCAAAGCAGATCGAAAATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* * *
41798508 AGATTCGGCATCTCTGTATTAGACGGGGAGCAGGTCGAAGATAGCAGATTTGACATTCGTGTGTT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
41798573 TACATCGAAGCAGATCGAAGAT-AGC
66 TACATCGAAGCAGATCGAAGATGA-C
* * *
41798598 AAATTTAGCATCTCTGTATTTGACGGGGAGCAGATC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
41798634 AAGGATATTA
Statistics
Matches: 346, Mismatches: 43, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
84 54 0.16
86 2 0.01
88 1 0.00
89 1 0.00
90 288 0.83
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
TACATCGAAGCAGATCGAAGATGAC
Found at i:41800030 original size:29 final size:29
Alignment explanation
Indices: 41799998--41800054 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
41799988 TTTTAATCCT
*
41799998 TTTTAAATTTTTTATATATGATTTATTTA
1 TTTTAAATATTTTATATATGATTTATTTA
*
41800027 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATGATTTATTT
41800055 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATGATTTATTTA
Found at i:41800116 original size:24 final size:23
Alignment explanation
Indices: 41800088--41800225 Score: 93
Period size: 23 Copynumber: 6.3 Consensus size: 23
41800078 TGTAAAAAAT
*
41800088 TATTATATATTATTTTTATTTATG
1 TATTATATATTA-TATTATTTATG
* *
41800112 TATTATTTATTATATTATTTATA
1 TATTATATATTATATTATTTATG
* *
41800135 TTTTAT-TATATATATTATTCAT-
1 TATTATATAT-TATATTATTTATG
41800157 TA-TAT-TATT-T-TTATTTCAT-
1 TATTATATATTATATTATTT-ATG
41800176 TATATATTATATTATATTATATTA--
1 TAT-TA-TATATTATATTAT-TTATG
41800200 TATTATA-ATT-TATTATTTAT-
1 TATTATATATTATATTATTTATG
41800220 TATTAT
1 TATTAT
41800226 GTATAATTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 24
0.76 0.05 0.19
Matches are distributed among these distances:
18 5 0.05
19 8 0.08
20 13 0.13
21 11 0.11
22 7 0.07
23 31 0.32
24 15 0.15
25 5 0.05
26 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (23 bp):
TATTATATATTATATTATTTATG
Found at i:41800129 original size:5 final size:5
Alignment explanation
Indices: 41800093--41800225 Score: 95
Period size: 5 Copynumber: 26.6 Consensus size: 5
41800083 AAAATTATTA
* *
41800093 TATAT TAT-T TTTAT T-TAT GTATTAT T-TAT TATAT TAT-T TATAT TTTAT
1 TATAT TATAT TATAT TATAT -TA-TAT TATAT TATAT TATAT TATAT TATAT
*
41800141 TATA- TATAT TATTCAT TATAT TAT-T TTTAT T-TCATT ATATAT TATAT
1 TATAT TATAT TA-T-AT TATAT TATAT TATAT TAT-A-T -TATAT TATAT
41800188 TATAT TATAT TATAT TATAAT T-TAT TAT-T TATTAT TAT
1 TATAT TATAT TATAT TAT-AT TATAT TATAT TA-TAT TAT
41800226 GTATAATTTT
Statistics
Matches: 106, Mismatches: 4, Indels: 36
0.73 0.03 0.25
Matches are distributed among these distances:
4 28 0.26
5 57 0.54
6 11 0.10
7 9 0.08
8 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (5 bp):
TATAT
Found at i:41800151 original size:35 final size:35
Alignment explanation
Indices: 41800087--41800225 Score: 153
Period size: 35 Copynumber: 4.0 Consensus size: 35
41800077 ATGTAAAAAA
*
41800087 TTATTATA-TA-TTAT-TTTTATT-TATGTATTAT
1 TTATTATATTATTTATATTTTATTATATATATTAT
41800118 TTATTATATTATTTATATTTTATTATATATATTAT
1 TTATTATATTATTTATATTTTATTATATATATTAT
* * *
41800153 TCATTATATTATTTTTATTTCATTATATAT-TATAT
1 TTATTATATTATTTATATTTTATTATATATAT-TAT
* *
41800188 TATATTATATTATATTATAATTTATTATTTATTATTAT
1 T-TATTATATTAT-TTATATTTTATTATATA-TATTAT
41800226 GTATAATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
31 8 0.09
32 2 0.02
33 4 0.04
34 8 0.09
35 40 0.44
36 10 0.11
37 13 0.14
38 4 0.04
39 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (35 bp):
TTATTATATTATTTATATTTTATTATATATATTAT
Found at i:41800223 original size:7 final size:7
Alignment explanation
Indices: 41800087--41800223 Score: 99
Period size: 7 Copynumber: 19.1 Consensus size: 7
41800077 ATGTAAAAAA
41800087 TTATTAT
1 TTATTAT
*
41800094 ATATTAT
1 TTATTAT
41800101 TT-TTAT
1 TTATTAT
41800107 TTATGTA-
1 TTAT-TAT
41800114 TTATTTAT
1 TTA-TTAT
41800122 TATATTAT
1 T-TATTAT
41800130 TTA-TATT
1 TTATTA-T
41800137 TTATTAT
1 TTATTAT
*
41800144 ATA-TA-
1 TTATTAT
41800149 TTATTCAT
1 TTATT-AT
41800157 TATATTAT
1 T-TATTAT
41800165 TT-TTAT
1 TTATTAT
41800171 TTCATTAT
1 TT-ATTAT
*
41800179 ATATTAT
1 TTATTAT
41800186 ATTA-TAT
1 -TTATTAT
41800193 TATATTAT
1 T-TATTAT
*
41800201 ATTATAAT
1 -TTATTAT
41800209 TTATTAT
1 TTATTAT
41800216 TTATTAT
1 TTATTAT
41800223 T
1 T
41800224 ATGTATAATT
Statistics
Matches: 105, Mismatches: 8, Indels: 34
0.71 0.05 0.23
Matches are distributed among these distances:
5 2 0.02
6 18 0.17
7 48 0.46
8 30 0.29
9 7 0.07
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (7 bp):
TTATTAT
Found at i:41800559 original size:16 final size:17
Alignment explanation
Indices: 41800534--41800576 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
41800524 GTTCATAATT
* *
41800534 TATTGATTTAT-TTTCG
1 TATTGTTTTATATTTAG
*
41800550 TATTTTTTTATATTTAG
1 TATTGTTTTATATTTAG
41800567 TATTGTTTTA
1 TATTGTTTTA
41800577 GTATGTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (17 bp):
TATTGTTTTATATTTAG
Found at i:41810651 original size:78 final size:79
Alignment explanation
Indices: 41810511--41810733 Score: 265
Period size: 78 Copynumber: 2.8 Consensus size: 79
41810501 TTGAATGATG
* * * * * *
41810511 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAA-GCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATT
*
41810574 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
*
41810590 TCCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
41810654 TGCGAGTTACTAAA
66 TGCGAGATACTAAA
* * * *
41810668 TCCGGGTTAAGTCCCAAAGGAATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
41810732 TG
64 TG
41810734 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
76 1 0.01
77 21 0.17
78 44 0.35
79 19 0.15
80 38 0.30
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:41810662 original size:40 final size:40
Alignment explanation
Indices: 41810511--41810733 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
41810501 TTGAATGATG
* * * *
41810511 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
41810551 TCCGGACTAAGAT-CCGAA-GCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
41810590 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41810628 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
41810668 TCCGGGTTAAGTCCCAAAGGAATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41810709 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41810734 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 30 0.19
39 30 0.19
40 96 0.60
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41810751 original size:80 final size:78
Alignment explanation
Indices: 41810550--41810756 Score: 201
Period size: 80 Copynumber: 2.7 Consensus size: 78
41810540 AAGTGACCAT
* ** * * * *
41810550 ATCCGGACTAAGAT-CCGAA-GCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCAAAGGAAT
41810612 TGTGCGAGTTACTAA
64 TGTGCGAGTTACTAA
* ** *
41810627 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGAATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCAAAGGAA-T
41810692 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTA-A
* *
41810708 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
41810757 ATTCCGAAGG
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
76 1 0.01
77 16 0.14
78 28 0.25
79 15 0.14
80 49 0.44
81 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCAAAGGAATTG
TGCGAGTTACTAA
Found at i:41818503 original size:40 final size:40
Alignment explanation
Indices: 41818419--41818643 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
41818409 TTGAATGATG
* * * *
41818419 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
41818459 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
41818499 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41818538 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41818578 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41818619 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41818644 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41818979 original size:32 final size:32
Alignment explanation
Indices: 41818940--41819004 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
41818930 AATGCTATAC
41818940 TTTTGTTGTGCTGGAATTCCTTGCTCAAAACT
1 TTTTGTTGTGCTGGAATTCCTTGCTCAAAACT
41818972 TTTTGTTGTGCTGGAATTCCTTGCTCAAAACT
1 TTTTGTTGTGCTGGAATTCCTTGCTCAAAACT
41819004 T
1 T
41819005 ACTAAGCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (32 bp):
TTTTGTTGTGCTGGAATTCCTTGCTCAAAACT
Found at i:41828581 original size:14 final size:15
Alignment explanation
Indices: 41828555--41828586 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
41828545 TTTGGTGTGA
41828555 AAAATAGAATAAAAT
1 AAAATAGAATAAAAT
41828570 AAAATA-AATAAAAT
1 AAAATAGAATAAAAT
41828584 AAA
1 AAA
41828587 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAGAATAAAAT
Found at i:41832995 original size:14 final size:15
Alignment explanation
Indices: 41832969--41833000 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
41832959 CAATTTGTGA
41832969 AAAATAGAATAAAAT
1 AAAATAGAATAAAAT
41832984 AAAATA-AATAAAAT
1 AAAATAGAATAAAAT
41832998 AAA
1 AAA
41833001 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAGAATAAAAT
Found at i:41838197 original size:21 final size:24
Alignment explanation
Indices: 41838155--41838199 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
41838145 TTCATAACAT
*
41838155 ATATTAAATTATTTTTCTATTCAA
1 ATATTAAATTATTTATCTATTCAA
41838179 ATATT-AATT-TTTATC-ATTCAA
1 ATATTAAATTATTTATCTATTCAA
41838200 TTGCTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 4 0.20
24 5 0.25
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTAAATTATTTATCTATTCAA
Found at i:41842202 original size:43 final size:43
Alignment explanation
Indices: 41842155--41842237 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
41842145 GTAAATCTAG
* * *
41842155 CAACCCATGTTTATCTTCTCCT-TTTTTAAAATTATTTTTTCAA
1 CAACCCAAGATTATCTTCTCCTCTTTGT-AAATTATTTTTTCAA
* *
41842198 CAACCTAAGATTATCTTCTCCTCTTTGTAAATTCTTTTTT
1 CAACCCAAGATTATCTTCTCCTCTTTGTAAATTATTTTTT
41842238 TTCTAGGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 30 0.88
44 4 0.12
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.51
Consensus pattern (43 bp):
CAACCCAAGATTATCTTCTCCTCTTTGTAAATTATTTTTTCAA
Found at i:41854364 original size:30 final size:30
Alignment explanation
Indices: 41854283--41854365 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
41854273 TCCTTCACTA
*
41854283 ATATCTCATTCAGGAGCTTGGAAAGACCCG
1 ATATCTCATTCAGGAGCTTGGGAAGACCCG
**
41854313 ATATCTCATTCAGGAGCTTGGGAAGACTTG
1 ATATCTCATTCAGGAGCTTGGGAAGACCCG
*
41854343 ATATCTCATTCAGGATCTTGGGA
1 ATATCTCATTCAGGAGCTTGGGA
41854366 TTGAGAAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (30 bp):
ATATCTCATTCAGGAGCTTGGGAAGACCCG
Found at i:41854381 original size:36 final size:36
Alignment explanation
Indices: 41854334--41854437 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
41854324 AGGAGCTTGG
* *
41854334 GAAGACTTGATATCTCATTCAGGATCTTGGGATTGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
*
41854370 GAAGACTTGATATCTCGTTAAAGATCTTGGGATTGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
* * * * * *
41854406 AAAAACCTGATATCTCGTTTAAGAGCTTGGGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGA
41854438 AGATATGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (36 bp):
GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
Found at i:41859037 original size:13 final size:13
Alignment explanation
Indices: 41859019--41859045 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41859009 GTATGCTGTC
41859019 TCATCAATGGACT
1 TCATCAATGGACT
41859032 TCATCAATGGACT
1 TCATCAATGGACT
41859045 T
1 T
41859046 AATGTATGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TCATCAATGGACT
Found at i:41866872 original size:19 final size:20
Alignment explanation
Indices: 41866828--41866872 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
41866818 ACGCCTCTTT
*
41866828 TGTATT-CATTTCATTCATT
1 TGTATTACATTTCATTCATA
*
41866847 TGCATTACATTTCA-TCATA
1 TGTATTACATTTCATTCATA
41866866 TGTATTA
1 TGTATTA
41866873 AGTTTCGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.51
Consensus pattern (20 bp):
TGTATTACATTTCATTCATA
Found at i:41875126 original size:43 final size:43
Alignment explanation
Indices: 41875027--41875317 Score: 180
Period size: 43 Copynumber: 6.6 Consensus size: 43
41875017 AAGCCACAGA
* * * * * *
41875027 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAG-CAAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
* * * * *
41875068 CCTTATCTCCTTGAAGTAGCAGTGGAGTAGGTTGAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
** * *
41875111 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTA---AAG
* * * *
41875156 TCTTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAAACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAG---T---T-AA-AG
* * * * *
41875207 ATCTTATCTCTCT-AGAGTTGCAGTGGAGCAGATCATAG-CAAA-
1 -TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGGTTAAAGTTAAAG
* *
41875249 CCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTAAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
*
41875292 TCTTATCTCCCTGAAGTTGTAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
41875318 ACAGACTAAA
Statistics
Matches: 191, Mismatches: 40, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
41 56 0.29
42 7 0.04
43 57 0.30
44 2 0.01
45 32 0.17
46 2 0.01
49 1 0.01
50 1 0.01
51 2 0.01
52 31 0.16
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
Found at i:41875141 original size:84 final size:83
Alignment explanation
Indices: 41875027--41875322 Score: 306
Period size: 84 Copynumber: 3.4 Consensus size: 83
41875017 AAGCCACAGA
* *
41875027 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCTTGAAGTAGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCC-TGAAGTAGCAGTG
* *
41875092 GAGTAGGTTGAAGTTAAAG
65 GAGCAGGTTAAAGTTAAAG
* * * * *
41875111 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T---CATAGCAAACCTTATCTC-CTGAAGTAGC
* *
41875176 AGTGGAACAGATTAAAGCTATAAATAAACAG
61 AGTGGAGCAGGTTAAAG---T---T-AA-AG
*
41875207 ATCTTATCTCTCT-AGAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAGCAG
1 -TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATCATAGCAAACCTTATCT-CCTGAAGTAGCAG
41875271 TGGAGCAGGTTAAAGTTAAAG
63 TGGAGCAGGTTAAAGTTAAAG
* *
41875292 TCTTATCTCCCTGAAGTTGTAGTGGAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
41875323 CTAAAGACAA
Statistics
Matches: 173, Mismatches: 22, Indels: 34
0.76 0.10 0.15
Matches are distributed among these distances:
84 55 0.32
85 4 0.02
86 2 0.01
87 1 0.01
88 35 0.20
89 1 0.01
90 1 0.01
91 1 0.01
93 37 0.21
94 2 0.01
95 2 0.01
96 4 0.02
97 28 0.16
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (83 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCTGAAGTAGCAGTGG
AGCAGGTTAAAGTTAAAG
Found at i:41875284 original size:93 final size:95
Alignment explanation
Indices: 41875111--41875285 Score: 221
Period size: 93 Copynumber: 1.8 Consensus size: 95
41875101 GAAGTTAAAG
* * * * *
41875111 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT--ACATAGCAAACCTTATCTCACTGAAGTAGC
41875176 AGTGGAACAGATTAAAGCTATAAATAAACAGA
64 AGTGGAACAGATTAAAGCTATAAATAAACAGA
* *
41875208 TCTTATCTCTCT-AGAGTTGCAGTGGAGCAGA-T-CATAGCAAACCTTATCTCCCTGAAGTAGCA
1 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACTACATAGCAAACCTTATCTCACTGAAGTAGCA
* *
41875270 GTGGAGCAGGTTAAAG
65 GTGGAACAGATTAAAG
41875286 TTAAAGTCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
93 38 0.56
96 2 0.03
97 28 0.41
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (95 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTACATAGCAAACCTTATCTCACTGAAGTAGCAG
TGGAACAGATTAAAGCTATAAATAAACAGA
Found at i:41875362 original size:181 final size:181
Alignment explanation
Indices: 41875022--41875362 Score: 522
Period size: 181 Copynumber: 1.9 Consensus size: 181
41875012 AATTGAAGCC
*
41875022 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCTTGAAGTAG
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
* * * * * *
41875087 CAGTGGAGTAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
66 CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAA
* * * * **
41875152 CGAATCTTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAA
131 CAAATCTCATCTCACTAAAGTAACAGTGGAACAGATTAAAGCTATAAATAA
*
41875203 ACAGATCTTATCTCTCT-AGAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTA
1 ACAGATCTTATCTCTCTGA-AGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTA
*
41875267 GCAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGACA
65 GCAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACA
*
41875332 ACAAATCTCATCTCCCTAAAGTAACAGTGGA
130 ACAAATCTCATCTCACTAAAGTAACAGTGGA
41875363 GAAGAGTAAA
Statistics
Matches: 143, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
180 1 0.01
181 142 0.99
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (181 bp):
ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAA
CAAATCTCATCTCACTAAAGTAACAGTGGAACAGATTAAAGCTATAAATAA
Found at i:41875405 original size:44 final size:46
Alignment explanation
Indices: 41875289--41875407 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 46
41875279 GTTAAAGTTA
*
41875289 AAGTCTTATCTCCCTGAAGTTGTAGTGGA-ACAGACTAAAGACAAC
1 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGACAGACTAAAAACAAC
* * * *** *
41875334 AAATCTCATCTCCCTAAAGTAACAGTGGAGA-AGAGTAAAAAC-AC
1 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGACAGACTAAAAACAAC
* *
41875378 CAGTCTTATCTCTCTGAAGTTGTAGTGGAG
1 AAGTCTTATCTCCCTGAAGTTGTAGTGGAG
41875408 CAAATTGAAA
Statistics
Matches: 57, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
44 24 0.42
45 32 0.56
46 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (46 bp):
AAGTCTTATCTCCCTGAAGTTGTAGTGGAGACAGACTAAAAACAAC
Found at i:41875945 original size:19 final size:19
Alignment explanation
Indices: 41875909--41875945 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
41875899 AAACAAAATA
*
41875909 AGAAAACAGAGTAAAAAGG
1 AGAAAACAGAGCAAAAAGG
*
41875928 AGAAAACAGAGCAGAAAG
1 AGAAAACAGAGCAAAAAG
41875946 AAAGCAAGAA
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:0.62, C:0.08, G:0.27, T:0.03
Consensus pattern (19 bp):
AGAAAACAGAGCAAAAAGG
Found at i:41877518 original size:23 final size:22
Alignment explanation
Indices: 41877492--41877534 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
41877482 TTTTTTCACA
41877492 TATTATTCATTTTAAAATTGTCT
1 TATTATTCATTTT-AAATTGTCT
* *
41877515 TATTGTTTATTTTAAATTGT
1 TATTATTCATTTTAAATTGT
41877535 TTGATGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTATTCATTTTAAATTGTCT
Found at i:41883741 original size:21 final size:21
Alignment explanation
Indices: 41883711--41883769 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
41883701 GTGAGATAAC
41883711 CCACATGGCCGTGTGAGTGGG
1 CCACATGGCCGTGTGAGTGGG
* * *
41883732 TCACAGGGCCGTGTGAATGGG
1 CCACATGGCCGTGTGAGTGGG
41883753 CCACATGGCCGTGTGAG
1 CCACATGGCCGTGTGAG
41883770 CAAACCGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.19
Consensus pattern (21 bp):
CCACATGGCCGTGTGAGTGGG
Found at i:41888753 original size:18 final size:19
Alignment explanation
Indices: 41888719--41888755 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
41888709 GAGGATACAA
41888719 GCGTGTCCGAGCCACACGG
1 GCGTGTCCGAGCCACACGG
*
41888738 GCGTGTGCGA-CCACACGG
1 GCGTGTCCGAGCCACACGG
41888756 CTTACCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.16, C:0.35, G:0.38, T:0.11
Consensus pattern (19 bp):
GCGTGTCCGAGCCACACGG
Found at i:41891055 original size:46 final size:46
Alignment explanation
Indices: 41890997--41891119 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
41890987 TATGTATGCT
* * *
41890997 AGTGTAAGACATGTCTAGGACATGCATCGGCCA-CAATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CATCAATACGAGAGCC
* ** *
41891043 AGTGTAAAACATGTCTGGGACATGCATCAGCATTGATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCAATACGAGAGCC
41891089 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
41891120 CTCGCGATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 2 0.03
46 66 0.97
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCAATACGAGAGCC
Found at i:41906643 original size:43 final size:43
Alignment explanation
Indices: 41906552--41906643 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
41906542 ATGTGATCAA
* * * *
41906552 ATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTAC
1 ATGTAACACCATCTCTGGGACATTGGCATAGTATTGCGATTAC
* *
41906595 GTGTAACACCATCTCTGGGACATTGGCATAGTTATT-CGATTTC
1 ATGTAACACCATCTCTGGGACATTGGCATAG-TATTGCGATTAC
41906638 ATGTAA
1 ATGTAA
41906644 GACCTTGTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 37 0.90
44 4 0.10
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
ATGTAACACCATCTCTGGGACATTGGCATAGTATTGCGATTAC
Found at i:41906700 original size:86 final size:85
Alignment explanation
Indices: 41906552--41906708 Score: 190
Period size: 86 Copynumber: 1.8 Consensus size: 85
41906542 ATGTGATCAA
* * * * * * *
41906552 ATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAACACCATCTCTGGGACA
1 ATGTAAGACCATGTCTAGGACAGTGGCATCGTATTGTGATAACATGTAAAACCATATCTGGGACA
41906617 TTGGCATAGTTATTCGATTTC
66 -TGGCATAGTTATTCGATTTC
* * * *
41906638 ATGTAAGACCTTGTCTAGGATAGTGGCATCG-ATATGTGATAACATGTAAAACCATATGTGGGAT
1 ATGTAAGACCATGTCTAGGACAGTGGCATCGTAT-TGTGATAACATGTAAAACCATATCTGGGAC
41906702 ATGGCAT
65 ATGGCAT
41906709 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
85 8 0.14
86 51 0.86
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (85 bp):
ATGTAAGACCATGTCTAGGACAGTGGCATCGTATTGTGATAACATGTAAAACCATATCTGGGACA
TGGCATAGTTATTCGATTTC
Found at i:41914891 original size:43 final size:43
Alignment explanation
Indices: 41914843--41915078 Score: 247
Period size: 43 Copynumber: 5.6 Consensus size: 43
41914833 TCTCAGACGT
* *
41914843 GGTCTTACATGTAATCACATATCGATGCC-ACTGTCCCAGATA
1 GGTCTTACACGTAATCACATATCGATGCCGACTGTCCCAGACA
* *
41914885 GAGTCTTACACG-AATCAAATA-CGATACCGA-TGTCCCAGACA
1 G-GTCTTACACGTAATCACATATCGATGCCGACTGTCCCAGACA
* ** * * * *
41914926 TGGTTTTGTACGTAATCACATATCGATGCCAAC-ATCCTAGACGT
1 -GGTCTTACACGTAATCACATATCGATGCCGACTGTCCCAGAC-A
*
41914970 GGTCTTACATGTAATCACATATCGATGCC-ACTGTCCCAGACAA
1 GGTCTTACACGTAATCACATATCGATGCCGACTGTCCCAGAC-A
*
41915013 GGTCTTACACG-AATCAAATA-CGATGCCGA-TGTCCCAGACA
1 GGTCTTACACGTAATCACATATCGATGCCGACTGTCCCAGACA
41915053 TGGTCTTACACGTAATCACATATCGA
1 -GGTCTTACACGTAATCACATATCGA
41915079 AATCATATAT
Statistics
Matches: 158, Mismatches: 24, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 51 0.32
42 38 0.24
43 68 0.43
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCGACTGTCCCAGACA
Found at i:41914977 original size:84 final size:84
Alignment explanation
Indices: 41914843--41915078 Score: 241
Period size: 84 Copynumber: 2.8 Consensus size: 84
41914833 TCTCAGACGT
*
41914843 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGA-TAGAGTCTTACACG-AATCAAATA
1 GGTCTTACACGTAATCACATATCGATGCCAC-GTCCCAGACT-G-GTCTTACACGTAATCAAATA
*
41914906 -CGATACCGA-TGTCCCAGACAT
63 TCGATACC-ACTGTCCCAGACAA
* ** * * * *
41914927 GGTTTTGTACGTAATCACATATCGATGCCAACATCCTAGACGTGGTCTTACATGTAATCACATAT
1 GGTCTTACACGTAATCACATATCGATGCC-ACGTCCCAGAC-TGGTCTTACACGTAATCAAATAT
*
41914992 CGATGCCACTGTCCCAGACAA
64 CGATACCACTGTCCCAGACAA
* * *
41915013 GGTCTTACACG-AATCAAATA-CGATGCCGATGTCCCAGACATGGTCTTACACGTAATCACATAT
1 GGTCTTACACGTAATCACATATCGATGCC-ACGTCCCAGAC-TGGTCTTACACGTAATCAAATAT
41915076 CGA
64 CGA
41915079 AATCATATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
84 80 0.63
85 20 0.16
86 26 0.21
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (84 bp):
GGTCTTACACGTAATCACATATCGATGCCACGTCCCAGACTGGTCTTACACGTAATCAAATATCG
ATACCACTGTCCCAGACAA
Found at i:41915050 original size:127 final size:127
Alignment explanation
Indices: 41914824--41915078 Score: 433
Period size: 127 Copynumber: 2.0 Consensus size: 127
41914814 ATATCGTACA
*
41914824 ATGCCAACATCTCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGATAGAGT
1 ATGCCAACATCTCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGAAAGAGT
* **
41914889 CTTACACGAATCAAATACGATACCGATGTCCCAGACATGGTTTTGTACGTAATCACATATCG
66 CTTACACGAATCAAATACGATACCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
41914951 ATGCCAACATC-CTAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAAG-
1 ATGCCAACATCTC-AGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGA-AAGA
*
41915014 GTCTTACACGAATCAAATACGATGCCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
64 GTCTTACACGAATCAAATACGATACCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
41915078 A
1 A
41915079 AATCATATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
126 1 0.01
127 118 0.98
128 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (127 bp):
ATGCCAACATCTCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGAAAGAGT
CTTACACGAATCAAATACGATACCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:41943942 original size:50 final size:50
Alignment explanation
Indices: 41943884--41944072 Score: 191
Period size: 50 Copynumber: 3.8 Consensus size: 50
41943874 ATTGGTATGT
** * *
41943884 ACATATGTGATGTTGGATTGGATTTTGAATATTCGGCCATAAAGGTATGC
1 ACATATGTGATGTTAAATTTGATTTTGAATATTCGGCCATAAAGGTAAGC
* * * * * * *
41943934 ACAAATGTGATATTATATTTGAATTTGTATATTTGGCCATATAA-GTAAGT
1 ACATATGTGATGTTAAATTTGATTTTGAATATTCGGCCATA-AAGGTAAGC
* * *
41943984 ACATATGTGATGTTAAATTTGATCTTGCATATTCGGCCATATAGGTAAGC
1 ACATATGTGATGTTAAATTTGATTTTGAATATTCGGCCATAAAGGTAAGC
* * * * *
41944034 ACATATGTGATATTATATTTGATCTTGTATATTTGGCCA
1 ACATATGTGATGTTAAATTTGATTTTGAATATTCGGCCA
41944073 AATGAGTGAT
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 1 0.01
50 111 0.97
51 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (50 bp):
ACATATGTGATGTTAAATTTGATTTTGAATATTCGGCCATAAAGGTAAGC
Found at i:41944036 original size:100 final size:100
Alignment explanation
Indices: 41943882--41944072 Score: 294
Period size: 100 Copynumber: 1.9 Consensus size: 100
41943872 ACATTGGTAT
** * *
41943882 GTACATATGTGATGTTGGATTGGATTTTGAATATTCGGCCATAAAGGTATGCACAAATGTGATAT
1 GTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCCATAAAGGTAAGCACAAATGTGATAT
41943947 TATATTTGAAT-TTGTATATTTGGCCATATAAGTAA
66 TATATTTG-ATCTTGTATATTTGGCCATATAAGTAA
* * * *
41943982 GTACATATGTGATGTTAAATTTGATCTTGCATATTCGGCCATATAGGTAAGCACATATGTGATAT
1 GTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCCATAAAGGTAAGCACAAATGTGATAT
41944047 TATATTTGATCTTGTATATTTGGCCA
66 TATATTTGATCTTGTATATTTGGCCA
41944073 AATGAGTGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 2 0.02
100 80 0.98
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (100 bp):
GTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCCATAAAGGTAAGCACAAATGTGATAT
TATATTTGATCTTGTATATTTGGCCATATAAGTAA
Found at i:41951522 original size:50 final size:50
Alignment explanation
Indices: 41951463--41951628 Score: 190
Period size: 50 Copynumber: 3.3 Consensus size: 50
41951453 GCTAAATGAC
** * *
41951463 CTTGTATATTCGGCCATAAAGGTATCCACAAATGTGATATTATATTTGAA
1 CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTGAT
* * * *
41951513 CTTGTATATTTGGCCATATAA-GTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATA-AAGGTAAGCACATATGTGATATTATATTTGAT
* * * * *
41951563 CTTGCATATTCGACCATATAGGTAAGCACATATGTAATATTCTATTTGAT
1 CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTGAT
*
41951613 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
41951629 AATGAGTGAT
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
49 1 0.01
50 91 0.97
51 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (50 bp):
CTTGTATATTCGGCCATAAAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:41975219 original size:37 final size:37
Alignment explanation
Indices: 41975163--41975240 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
41975153 TCAATATATG
*
41975163 ATTACTTGTAGTTTCCTTCGATACATTATTGATGAGA
1 ATTACTTGTAGTTTACTTCGATACATTATTGATGAGA
*
41975200 ATTACTTGTGGTTTACTTCGATACATTATTGATGAGA
1 ATTACTTGTAGTTTACTTCGATACATTATTGATGAGA
41975237 ATTA
1 ATTA
41975241 TAAGTTGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.44
Consensus pattern (37 bp):
ATTACTTGTAGTTTACTTCGATACATTATTGATGAGA
Found at i:41984421 original size:27 final size:26
Alignment explanation
Indices: 41984368--41984472 Score: 113
Period size: 26 Copynumber: 4.0 Consensus size: 26
41984358 ATTAAGACCT
**
41984368 CAGTTTGGAAAATTATCAAAATACCCC
1 CAGTTTGG-AAATTATTGAAATACCCC
41984395 CAGTTTGGAAATTATTGAAATACCCC
1 CAGTTTGGAAATTATTGAAATACCCC
* *
41984421 CAATTTGAAAAATTATTGAAATACCCC
1 CAGTTTG-GAAATTATTGAAATACCCC
* **
41984448 C-GTTTTGTAAATTACCGAAATACCC
1 CAG-TTTGGAAATTATTGAAATACCC
41984473 TGGTAGTGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 37 0.54
27 31 0.46
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (26 bp):
CAGTTTGGAAATTATTGAAATACCCC
Found at i:41984434 original size:53 final size:53
Alignment explanation
Indices: 41984371--41984472 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
41984361 AAGACCTCAG
* **
41984371 TTTGGAAAATTATCAAAATACCCCCAG-TTTGGAAATTATTGAAATACCCCCAA
1 TTTGAAAAATTATCAAAATACCCCC-GTTTTGGAAATTACCGAAATACCCCCAA
** *
41984424 TTTGAAAAATTATTGAAATACCCCCGTTTTGTAAATTACCGAAATACCC
1 TTTGAAAAATTATCAAAATACCCCCGTTTTGGAAATTACCGAAATACCC
41984473 TGGTAGTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.02
53 41 0.98
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (53 bp):
TTTGAAAAATTATCAAAATACCCCCGTTTTGGAAATTACCGAAATACCCCCAA
Found at i:41984910 original size:21 final size:21
Alignment explanation
Indices: 41984886--41984928 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
41984876 TATCTCCACA
41984886 TGGTGTGTTGGTTGGTACGGG
1 TGGTGTGTTGGTTGGTACGGG
41984907 TGGTGTGTTGGTTGGTACGGG
1 TGGTGTGTTGGTTGGTACGGG
41984928 T
1 T
41984929 TGGGAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.05, C:0.05, G:0.51, T:0.40
Consensus pattern (21 bp):
TGGTGTGTTGGTTGGTACGGG
Found at i:42002614 original size:5 final size:6
Alignment explanation
Indices: 42002570--42002612 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
42002560 TATAAGGTCC
42002570 AAATTA AAATTA AAATTA AAATTGA AAATT- AAATT- AAATTA AA
1 AAATTA AAATTA AAATTA AAATT-A AAATTA AAATTA AAATTA AA
42002613 TTGTTTAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.29
6 19 0.54
7 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (6 bp):
AAATTA
Done.