Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 311 of 438
Found at i:96928866 original size:28 final size:28
Alignment explanation
Indices: 96928826--96928884 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
96928816 AGCATAAGCT
96928826 TAATCGAGCTACTGGGACTCCAAAAACG
1 TAATCGAGCTACTGGGACTCCAAAAACG
96928854 TAATCGAGCTACTGGGACTCCAAAAACG
1 TAATCGAGCTACTGGGACTCCAAAAACG
96928882 TAA
1 TAA
96928885 AAATCATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (28 bp):
TAATCGAGCTACTGGGACTCCAAAAACG
Found at i:96932129 original size:43 final size:43
Alignment explanation
Indices: 96932064--96932226 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
96932054 AGCTCATACA
* * * *
96932064 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
96932106 ATGCCACA-GTCCCAGACAGGGTCTTACACGTAATCGA-TTAACG
1 ATGCCA-ATGTCCCAGACATGGTCTTACACGTAATC-ACATATCG
*
96932149 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* * *
96932192 ATGCCAATGTACCAAACATGGTCTTACATGTAATC
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATC
96932227 TCATCTCTGT
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 8 0.08
43 91 0.90
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:96932217 original size:86 final size:85
Alignment explanation
Indices: 96932064--96932226 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 85
96932054 AGCTCATACA
* * * * * *
96932064 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACAGTCCCAGACAGGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAATGCCACAGTACCAAACAGGGTC
96932129 TTACACGTAATCGATTAACG
66 TTACACGTAATCGATTAACG
* *
96932149 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACAATGCCA-ATGTACCAAACATG
1 ATGCC-ATATCCCAGACATGGTCTTACACGTAATCACATAT-CAATGCCACA-GTACCAAACAGG
*
96932212 GTCTTACATGTAATC
63 GTCTTACACGTAATC
96932227 TCATCTCTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
85 8 0.12
86 58 0.88
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (85 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCAATGCCACAGTACCAAACAGGGTC
TTACACGTAATCGATTAACG
Found at i:96938015 original size:14 final size:13
Alignment explanation
Indices: 96937971--96938029 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
96937961 TTTGATATAA
*
96937971 AATATATATTATAT
1 AATATATAATAT-T
*
96937985 ATTATATTAAT-TT
1 AATATA-TAATATT
*
96937998 AATATTTAAGTATT
1 AATATATAA-TATT
96938012 AATATATAATA-T
1 AATATATAATATT
96938024 AATATA
1 AATATA
96938030 ATATATAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
12 10 0.27
13 8 0.22
14 16 0.43
15 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
AATATATAATATT
Found at i:96939205 original size:29 final size:31
Alignment explanation
Indices: 96939168--96939225 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
96939158 CTAGCGCGTT
96939168 CTCTGATTATTAGCACATT-AGTGCTCTCCG
1 CTCTGATTATTAGCACATTAAGTGCTCTCCG
*
96939198 CTCT-ATTATTAGCACGTTAAGTGCTCTC
1 CTCTGATTATTAGCACATTAAGTGCTCTC
96939226 TGTTTAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (31 bp):
CTCTGATTATTAGCACATTAAGTGCTCTCCG
Found at i:96939269 original size:22 final size:23
Alignment explanation
Indices: 96939207--96939272 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 23
96939197 GCTCTATTAT
* * *
96939207 TAGCACGTTAAGTGCTCTCTGTT
1 TAGCACATTTAGTGCTCTCTGTA
* *
96939230 TAGCACATCT-GTGTTCTCTGTA
1 TAGCACATTTAGTGCTCTCTGTA
96939252 TAGCAC-TTTAGTGCTCTCTGT
1 TAGCACATTTAGTGCTCTCTGT
96939273 TCGTTTGTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 2 0.06
22 26 0.74
23 7 0.20
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (23 bp):
TAGCACATTTAGTGCTCTCTGTA
Found at i:96949196 original size:49 final size:49
Alignment explanation
Indices: 96949102--96949233 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
96949092 TCACATAAAA
* * * *
96949102 GTCGATGCTA-GTCCCAGACAGGGCTTATACTGACTTTCATATATCGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GT
* * * *
96949150 GTCGATGCCGTGTCCCAGACAAGTCTTACACTGGCTCTCATCTATCGGT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
**
96949199 GTCGATGCCATGTCTTAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
96949234 ACACAACAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 9 0.13
49 60 0.87
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGT
Found at i:96949361 original size:46 final size:47
Alignment explanation
Indices: 96949292--96949417 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 47
96949282 ATATCTCGAG
* *
96949292 GCTGATGCATGTCCCAAATATGTCTTACACTAGCTCTTGTCTCA-AA-GT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTC---TCTCATAATGT
*
96949340 -C-GATGCATGTCCTAGACATGTCTTACACTA--TCTCTCATAATGT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCATAATGT
96949383 GGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 -GCTGATGCATGTCCCAGACATGTCTTACACTAGC
96949418 ACACATATCA
Statistics
Matches: 67, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
41 5 0.07
42 2 0.03
43 2 0.03
44 2 0.03
45 1 0.01
46 54 0.81
47 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (47 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCATAATGT
Found at i:96950083 original size:27 final size:27
Alignment explanation
Indices: 96950023--96950086 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
96950013 TGCTTTCATG
* *
96950023 GCAAAACACTAGACTCTCAACCATTTT
1 GCAAAATAGTAGACTCTCAACCATTTT
96950050 GCAAAATAGTAGACTCTCAACCATTTT
1 GCAAAATAGTAGACTCTCAACCATTTT
96950077 GCAAAATAGT
1 GCAAAATAGT
96950087 CCCTTCATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (27 bp):
GCAAAATAGTAGACTCTCAACCATTTT
Found at i:96951194 original size:44 final size:44
Alignment explanation
Indices: 96951131--96951219 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
96951121 TGTCTTTGGT
*
96951131 ACATCAGAGTCTCTAACTCGTAACTGGTAATAACCCGATCTCAA
1 ACATCAGAGTCTCTAACTCGTAACTAGTAATAACCCGATCTCAA
*
96951175 ACATCAGAGTTTCTAACTCGTAACTAGTAATAACCCGATCTCAA
1 ACATCAGAGTCTCTAACTCGTAACTAGTAATAACCCGATCTCAA
96951219 A
1 A
96951220 TCTATTTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (44 bp):
ACATCAGAGTCTCTAACTCGTAACTAGTAATAACCCGATCTCAA
Found at i:96960118 original size:43 final size:43
Alignment explanation
Indices: 96960047--96960257 Score: 248
Period size: 43 Copynumber: 4.9 Consensus size: 43
96960037 ACATAAGCTC
* * * *
96960047 ATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
* * * * *
96960089 CAT-CGATGCCACTGTCCTAGACAGGGTCTTACACGTAATC-GA
1 -ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
* * * *
96960131 TTAACGATGCCAATATCCCAGACATGGTCTTACACGTAATTACA
1 AT-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
*
96960175 ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
*
96960218 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
96960258 TCATCTCGGT
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 7 0.05
43 131 0.93
44 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
Found at i:96964814 original size:13 final size:13
Alignment explanation
Indices: 96964798--96964854 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
96964788 CTCTTTTTCA
96964798 CTTTTCTTTTTTT
1 CTTTTCTTTTTTT
**
96964811 CTTTTCCCTTTTT
1 CTTTTCTTTTTTT
*
96964824 ATTTTCCTTTTTGTT
1 CTTTT-CTTTTT-TT
96964839 C-TTTCTTTCTTTT
1 CTTTTCTTT-TTTT
96964852 CTT
1 CTT
96964855 CATTCTGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
13 22 0.65
14 10 0.29
15 2 0.06
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (13 bp):
CTTTTCTTTTTTT
Found at i:96966151 original size:34 final size:34
Alignment explanation
Indices: 96966113--96966228 Score: 133
Period size: 34 Copynumber: 3.4 Consensus size: 34
96966103 ATAGGATTTG
* *
96966113 TTCTGATATGATATATGTTTTTGAAAATATGACA
1 TTCTGATATGATATATGTTTCTGGAAATATGACA
* * *
96966147 TTCTGATCTGGTATATGCTTCTGGAAATATGACA
1 TTCTGATATGATATATGTTTCTGGAAATATGACA
* * * *
96966181 TTTTGATTTGATATATGTTTCTGGTAATGTGACA
1 TTCTGATATGATATATGTTTCTGGAAATATGACA
* *
96966215 TTTTGATATAATAT
1 TTCTGATATGATAT
96966229 TTGTATATGT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 69 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (34 bp):
TTCTGATATGATATATGTTTCTGGAAATATGACA
Found at i:96968224 original size:13 final size:14
Alignment explanation
Indices: 96968198--96968229 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
96968188 ACTAACGACG
96968198 AATTAAACCATTAA
1 AATTAAACCATTAA
96968212 AATTAAA-CATTAA
1 AATTAAACCATTAA
96968225 AATTA
1 AATTA
96968230 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (14 bp):
AATTAAACCATTAA
Found at i:96969946 original size:27 final size:29
Alignment explanation
Indices: 96969916--96970031 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
96969906 AACGCAAGAG
*
96969916 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
96969943 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
96969972 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
96970002 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
96970031 T
1 T
96970032 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:96969984 original size:30 final size:29
Alignment explanation
Indices: 96969929--96970061 Score: 194
Period size: 29 Copynumber: 4.5 Consensus size: 29
96969919 ATAGTGAATC
96969929 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
96969958 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
96969988 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * * *
96970017 CGCACACTTAGTGCTGTACAATTTTTAAACT
1 CGCACACTTAGTGCTATA-TA-TTTTCAGCT
96970048 CGCACACTTAGTGC
1 CGCACACTTAGTGC
96970062 CAATCTTGTC
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
29 45 0.47
30 30 0.32
31 20 0.21
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:96970005 original size:59 final size:60
Alignment explanation
Indices: 96969929--96970061 Score: 214
Period size: 59 Copynumber: 2.2 Consensus size: 60
96969919 ATAGTGAATC
* * *
96969929 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAACT
* *
96969988 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAACT
96970048 CGCACACTTAGTGC
1 CGCACACTTAGTGC
96970062 CAATCTTGTC
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
59 47 0.69
60 21 0.31
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (60 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAACT
Found at i:96973565 original size:23 final size:23
Alignment explanation
Indices: 96973535--96973580 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
96973525 CTTTTTTATT
*
96973535 ATTATCAAATGAATTTTCTTAAC
1 ATTATCAAATAAATTTTCTTAAC
*
96973558 ATTATCAACTAAATTTTCTTAAC
1 ATTATCAAATAAATTTTCTTAAC
96973581 CAAATACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTATCAAATAAATTTTCTTAAC
Found at i:96973730 original size:2 final size:2
Alignment explanation
Indices: 96973723--96973749 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96973713 GCATGTTTCT
96973723 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
96973750 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:96974211 original size:25 final size:25
Alignment explanation
Indices: 96974183--96974250 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
96974173 CTAGAGAAGC
* *
96974183 AGCAGAGGGATGCCGACGGAGATGT
1 AGCAGAGGGATGCCGACGGAAATAT
*
96974208 AGCAGAGGGATGCCGAAGGAAATAT
1 AGCAGAGGGATGCCGACGGAAATAT
* *
96974233 AGCAGAGGGCTGTCGACG
1 AGCAGAGGGATGCCGACG
96974251 ATGATGCCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.41, T:0.12
Consensus pattern (25 bp):
AGCAGAGGGATGCCGACGGAAATAT
Found at i:96974380 original size:14 final size:14
Alignment explanation
Indices: 96974361--96974405 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
96974351 AACAACCCAA
96974361 GATATATGCATATT
1 GATATATGCATATT
96974375 GATATATG--TA-T
1 GATATATGCATATT
96974386 -ATATATGCATATT
1 GATATATGCATATT
96974399 GATATAT
1 GATATAT
96974406 ATATACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
11 1 0.04
12 4 0.15
13 1 0.04
14 14 0.52
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (14 bp):
GATATATGCATATT
Found at i:96974392 original size:24 final size:24
Alignment explanation
Indices: 96974362--96974410 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
96974352 ACAACCCAAG
*
96974362 ATATATGCATATTGATATATGTAT
1 ATATATGCATATTGATATATATAT
96974386 ATATATGCATATTGATATATATAT
1 ATATATGCATATTGATATATATAT
96974410 A
1 A
96974411 CATTACAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (24 bp):
ATATATGCATATTGATATATATAT
Found at i:96977611 original size:40 final size:39
Alignment explanation
Indices: 96977555--96977667 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
96977545 TTTAATTAAA
96977555 CTTTTAGCGGCGTTTTTACAAAAGCGCCGCTAAATCTCAAT
1 CTTTT-GCGGCGTTTTTACAAAAG-GCCGCTAAATCTCAAT
* * *
96977596 CTTTTGCGGCGTTTTTACAAAAGATCCGCCAATTCTCAAT
1 CTTTTGCGGCGTTTTTACAAAAG-GCCGCTAAATCTCAAT
* * * *
96977636 CTTTAGTGGCATTTTTAGAAAAAGGCCGCTAA
1 CTTTTGCGGCGTTTTTA-CAAAAGGCCGCTAA
96977668 TGCCTCTGGA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 51 0.84
41 10 0.16
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (39 bp):
CTTTTGCGGCGTTTTTACAAAAGGCCGCTAAATCTCAAT
Found at i:96978766 original size:35 final size:36
Alignment explanation
Indices: 96978720--96978795 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
96978710 CCTGACCAAT
*
96978720 ACCATAAACTTAACATACTA-TACCATTGAA-CCTAA
1 ACCATAAACTTAAAATA-TATTACCATTGAACCCTAA
96978755 ACCATAAACTTAAAATATATTCTACCATTGAACCCTAA
1 ACCATAAACTTAAAATATA-T-TACCATTGAACCCTAA
96978793 ACC
1 ACC
96978796 CCAAAATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 2 0.06
35 16 0.44
37 10 0.28
38 8 0.22
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (36 bp):
ACCATAAACTTAAAATATATTACCATTGAACCCTAA
Found at i:96978982 original size:21 final size:21
Alignment explanation
Indices: 96978931--96979007 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
96978921 AGTTTATGGA
* *
96978931 TTAATGTTTAGGGTTTA-TAT
1 TTAAGGTTTAGGGTTTAGTGT
* *
96978951 TTTAGAATTTAGGGTTTAGTGT
1 TTAAG-GTTTAGGGTTTAGTGT
**
96978973 TTAAGGTTTAACGTTTAG-GAT
1 TTAAGGTTTAGGGTTTAGTG-T
96978994 TTAAGGGTTTAGGG
1 TTAA-GGTTTAGGG
96979008 AAAGCCATGC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
20 4 0.09
21 26 0.60
22 13 0.30
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (21 bp):
TTAAGGTTTAGGGTTTAGTGT
Found at i:96979385 original size:41 final size:40
Alignment explanation
Indices: 96979288--96979414 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 40
96979278 TTGCCTAACA
* * * *
96979288 TTTTGCGGCGTTTGGACCAAAAACGCCGTTGTAGATAAACTT
1 TTTTGCGGCGTTTGGACCAAAAACGCCGCTATTGATCAA--T
* *
96979330 TTTTGCGGCGTTTGGACCAAAAATGCCGCTATTGATCAGT
1 TTTTGCGGCGTTTGGACCAAAAACGCCGCTATTGATCAAT
* *
96979370 TTTTAGCGGCGTTTGGGCCAAAAACGCCGCTATTGTTCAAT
1 TTTT-GCGGCGTTTGGACCAAAAACGCCGCTATTGATCAAT
96979411 TTTT
1 TTTT
96979415 TGCGCGCCGC
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
40 5 0.07
41 36 0.49
42 33 0.45
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (40 bp):
TTTTGCGGCGTTTGGACCAAAAACGCCGCTATTGATCAAT
Found at i:96980766 original size:18 final size:18
Alignment explanation
Indices: 96980715--96980779 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
96980705 CCGACACTCT
* *
96980715 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
* *
96980733 AAAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
96980751 ATAACAGTCAATTATTCC
1 ATAACAGTCAATTATTCA
*
96980769 ATAGCAGTCAA
1 ATAACAGTCAA
96980780 CCTTTAATAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:96980980 original size:48 final size:48
Alignment explanation
Indices: 96980905--96981013 Score: 164
Period size: 48 Copynumber: 2.3 Consensus size: 48
96980895 CCGTAACGGT
* **
96980905 AACAGTCTCAGTCACGGTACACAAAGTACCTCATCGGAACGAATCCGG
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCCAA
* *
96980953 AACAGTCACAGTCACGTTACACTAAGTACCTCATCGGAACGAATCCAA
1 AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCCAA
*
96981001 AATAGTCACAGTC
1 AACAGTCACAGTC
96981014 TGGCGACACT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.18
Consensus pattern (48 bp):
AACAGTCACAGTCACGGTACACAAAGTACCTCATCGGAACGAATCCAA
Found at i:96981309 original size:3 final size:3
Alignment explanation
Indices: 96981296--96981334 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
96981286 TTTCAATACC
* * *
96981296 ATA ACA ATA ATA ATA ATG ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96981335 CTTACCACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:96981994 original size:16 final size:15
Alignment explanation
Indices: 96981972--96982010 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
96981962 CTTTTTCTCC
96981972 TTCTTTCTCCCCTGT
1 TTCTTTCTCCCCTGT
* *
96981987 TTCGTTTCTTCTCTGT
1 TTC-TTTCTCCCCTGT
96982003 TTCTTTCT
1 TTCTTTCT
96982011 ATTCTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (15 bp):
TTCTTTCTCCCCTGT
Found at i:96982054 original size:3 final size:3
Alignment explanation
Indices: 96982046--96982094 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
96982036 GTTTTGTTTT
96982046 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96982094 A
1 A
96982095 GTAAATATAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:96983579 original size:18 final size:18
Alignment explanation
Indices: 96983543--96983582 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
96983533 ATTTCATATA
*
96983543 TTTTATAATATTTTTAAT
1 TTTTATAATATTTTGAAT
96983561 TTTTAT-ATATTTTAGAAT
1 TTTTATAATATTTT-GAAT
96983579 TTTT
1 TTTT
96983583 TGTCAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATAATATTTTGAAT
Found at i:96983795 original size:19 final size:19
Alignment explanation
Indices: 96983755--96983796 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
96983745 AAAAAAATAT
* * *
96983755 TTTTAAAATAGATTCCATG
1 TTTTAAAATAAATACCAAG
96983774 TTTTAAAATAAATACCAAG
1 TTTTAAAATAAATACCAAG
96983793 TTTT
1 TTTT
96983797 TTATAATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (19 bp):
TTTTAAAATAAATACCAAG
Found at i:96984116 original size:23 final size:23
Alignment explanation
Indices: 96984085--96984131 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
96984075 AATATTTAAT
96984085 TTTCAAAAATATT-TTTTCTAAAA
1 TTTCAAAAAT-TTATTTTCTAAAA
*
96984108 TTTCTAAAATTTATTTTCTAAAA
1 TTTCAAAAATTTATTTTCTAAAA
96984131 T
1 T
96984132 AATTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTCAAAAATTTATTTTCTAAAA
Found at i:96984912 original size:29 final size:29
Alignment explanation
Indices: 96984879--96984937 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
96984869 AGTTTTGATT
96984879 TTGTTAATTGTTTAAGTTTATTTGAATAG
1 TTGTTAATTGTTTAAGTTTATTTGAATAG
96984908 TTGTTAATTGTTTAAGTTTATTTGAATAG
1 TTGTTAATTGTTTAAGTTTATTTGAATAG
96984937 T
1 T
96984938 GAGGTTTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (29 bp):
TTGTTAATTGTTTAAGTTTATTTGAATAG
Found at i:96985462 original size:18 final size:18
Alignment explanation
Indices: 96985439--96985484 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
96985429 CACACGGACG
* *
96985439 TGTGGGCCTACATGGGTA
1 TGTGGGCCCACACGGGTA
96985457 TGTGGGCCCACACGGGTA
1 TGTGGGCCCACACGGGTA
96985475 TGTGGGCCCA
1 TGTGGGCCCA
96985485 TTAATCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.22
Consensus pattern (18 bp):
TGTGGGCCCACACGGGTA
Found at i:96989214 original size:39 final size:40
Alignment explanation
Indices: 96989092--96989350 Score: 352
Period size: 40 Copynumber: 6.6 Consensus size: 40
96989082 GTTATTCGAT
* * *
96989092 TATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
*
96989132 TATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* *
96989172 CATATCCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* *
96989211 CATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-AC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
*
96989250 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
*
96989290 TATAAT-CGGGCTAAGTCCCGAAGGCATTTGAGC-AGT-AGC
1 TAT-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-C
*
96989329 TATATCC-GGCTAA-ACCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGG
96989351 TACTTGGTTG
Statistics
Matches: 201, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
37 8 0.04
38 9 0.04
39 82 0.41
40 100 0.50
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
Found at i:96989228 original size:79 final size:78
Alignment explanation
Indices: 96989092--96989350 Score: 373
Period size: 79 Copynumber: 3.3 Consensus size: 78
96989082 GTTATTCGAT
* *
96989092 TATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
*
96989157 ATCTGTGCTAGTGAC
66 ATTTGTGC-AGT-AC
* *
96989172 CATATCCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTGACCATATCCGGGCTAAGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
96989236 ATTTGTGCGAGTAC
66 ATTTGTGC-AGTAC
* *
96989250 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAAT-CGGGCTAAGTCCCGAAGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAT-ATCCGGGCTAAGTCCCGAAGG
*
96989314 CATTTGAGCAGTAGC
65 CATTTGTGCAGTA-C
96989329 TATATCC-GGCTAA-ACCCGAAGG
1 TATATCCGGGCTAAGACCCGAAGG
96989351 TACTTGGTTG
Statistics
Matches: 164, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
77 8 0.05
78 36 0.22
79 94 0.57
80 26 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (78 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCAGTAC
Found at i:96994461 original size:36 final size:38
Alignment explanation
Indices: 96994421--96994499 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 38
96994411 TGTCGACAAG
96994421 TAAGAAAGATGCGATTT-GG-GTTGTCGATAGACTGAC
1 TAAGAAAGATGCGATTTGGGTGTTGTCGATAGACTGAC
96994457 TAAGAAAGATGCGATTTGGGTTGTTGTCGATAGACTGAC
1 TAAGAAAGATGCGATTTGGG-TGTTGTCGATAGACTGAC
96994496 TAAG
1 TAAG
96994500 TCGGCTCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 17 0.43
37 2 0.05
39 21 0.52
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.29
Consensus pattern (38 bp):
TAAGAAAGATGCGATTTGGGTGTTGTCGATAGACTGAC
Found at i:96997325 original size:40 final size:39
Alignment explanation
Indices: 96997262--96997522 Score: 303
Period size: 40 Copynumber: 6.6 Consensus size: 39
96997252 GTTATTCGAT
* * *
96997262 TATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAC
*
96997302 TATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-AC
* * * * *
96997342 CATATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGTAGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTA-C
* *
96997381 TATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAAGTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTAC
*
96997421 TATATCCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAC
* *
96997461 TATAACCGGGCTAAGTCCCGAAGGCATTTGAGC-AGTAGC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTA-C
**
96997500 TATATCC-GGCTAAACCCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGG
96997523 TACTTGGTTG
Statistics
Matches: 191, Mismatches: 24, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
38 17 0.09
39 41 0.21
40 128 0.67
41 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAC
Found at i:96997472 original size:119 final size:119
Alignment explanation
Indices: 96997261--96997512 Score: 357
Period size: 119 Copynumber: 2.1 Consensus size: 119
96997251 GGTTATTCGA
*
96997261 TTATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGG
1 TTATATCCGGGCTAAGACCTGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGG
* *
96997326 CATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGTAG
66 CATCTGTGCTAGTGACCATAACCGGGCTAAGACCCGAAGGCACTTGAGC-AGTAG
* *
96997380 TTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAAG-TACTATATCCGGGCTAAGTCCCGAAG
1 TTATATCCGGGCTAAGACCTGAAGGCATTTGTGC-AAGCGACTATATCCGGGCTAAGTCCCGAAG
* * * * * *
96997444 GTATTTGTGCTAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAGTAG
65 GCATCTGTGCTAGTGACCATAACCGGGCTAAGACCCGAAGGCACTTGAGCAGTAG
*
96997499 CTATATCC-GGCTAA
1 TTATATCCGGGCTAA
96997513 ACCCCGAAGG
Statistics
Matches: 119, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
118 6 0.05
119 106 0.89
120 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (119 bp):
TTATATCCGGGCTAAGACCTGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGG
CATCTGTGCTAGTGACCATAACCGGGCTAAGACCCGAAGGCACTTGAGCAGTAG
Found at i:96997504 original size:79 final size:79
Alignment explanation
Indices: 96997262--96997524 Score: 304
Period size: 79 Copynumber: 3.3 Consensus size: 79
96997252 GTTATTCGAT
* * *
96997262 TATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGTATTTGTGCTAG-TACTATATCCGGGCTAAGTCCCGAAGGC
* *
96997327 ATCTGTGCTAGT-GAC
65 ATTTGTGCAAGTAG-C
* ** * * *
96997342 CATATCCGGGCTAAGACCCGAAGG-CCTTGTGCAAGTAGTTATATCCGGGCTAAGTCCTGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGTATTTGTGCTAGTA-CTATATCCGGGCTAAGTCCCGAAGGC
96997406 ATTTGTGCGAAGTA-C
65 ATTTGTGC-AAGTAGC
* *
96997421 TATATCCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTTACTATAACCGGGCTAAGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGTATTTGTGCTAG-TACTATATCCGGGCTAAGTCCCGAAGGC
*
96997486 ATTTGAGC-AGTAGC
65 ATTTGTGCAAGTAGC
96997500 TATATCC-GGCTAA-ACCCCGAAGGTA
1 TATATCCGGGCTAAGA-CCCGAAGGTA
96997525 CTTGGTTGGG
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
78 21 0.13
79 70 0.45
80 63 0.40
81 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TATATCCGGGCTAAGACCCGAAGGTATTTGTGCTAGTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCAAGTAGC
Found at i:97017590 original size:25 final size:27
Alignment explanation
Indices: 97017531--97017598 Score: 104
Period size: 25 Copynumber: 2.6 Consensus size: 27
97017521 AAACTTGTAC
*
97017531 AGCACTAAGTGTGTGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGAT-ATAT
97017559 AGCACTAAGTGTGCGAG-TTGAT-TAT
1 AGCACTAAGTGTGCGAGTTTGATATAT
97017584 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
97017599 GACTCACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
25 18 0.46
27 5 0.13
28 16 0.41
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTGATATAT
Found at i:97017609 original size:25 final size:25
Alignment explanation
Indices: 97017556--97017609 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
97017546 AGTTTGATCA
* * *
97017556 TATAGCACTAAGTGTGCGAGTTGAT
1 TATAGCACTAAGTGTGCGAGCTCAC
97017581 TATAGCACTAAGTGTGCG-GACTCAC
1 TATAGCACTAAGTGTGCGAG-CTCAC
97017606 TATA
1 TATA
97017610 TGCTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (25 bp):
TATAGCACTAAGTGTGCGAGCTCAC
Found at i:97019602 original size:27 final size:27
Alignment explanation
Indices: 97019564--97019632 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
97019554 AAAATTGTAC
**
97019564 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGAGCTGATTATAT
*
97019591 AGCACTATGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGCTGATTATAT
97019618 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
97019633 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTGATTATAT
Found at i:97019641 original size:27 final size:26
Alignment explanation
Indices: 97019564--97019644 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
97019554 AAAATTGTAC
*
97019564 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGACTT-ATTATAT
* *
97019591 AGCACTATGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGA-CTTATTATAT
97019618 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGC-GACTTATTATAT
97019645 GCTTTTGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 44 0.94
28 3 0.06
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (26 bp):
AGCACTAAGTGTGCGACTTATTATAT
Found at i:97021120 original size:46 final size:46
Alignment explanation
Indices: 97021067--97021183 Score: 180
Period size: 46 Copynumber: 2.5 Consensus size: 46
97021057 AGATGTAAGC
* *
97021067 CAGTGTAAGACATGTTTGGGACATACGCCGGCTATGAGATAATAGT
1 CAGTGTAAGACATGTCTAGGACATACGCCGGCTATGAGATAATAGT
* * *
97021113 CAGTGTAAGACATGTCTAGGACATGCGTCGGCTATGAGATGATAGT
1 CAGTGTAAGACATGTCTAGGACATACGCCGGCTATGAGATAATAGT
97021159 CAGTGTAAGACCATGTCTAGGACAT
1 CAGTGTAAGA-CATGTCTAGGACAT
97021184 GGCATCGACA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 51 0.78
47 14 0.22
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTAGGACATACGCCGGCTATGAGATAATAGT
Found at i:97023949 original size:64 final size:64
Alignment explanation
Indices: 97023869--97023992 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 64
97023859 ACTATTGTAG
*
97023869 CTCTTTGTGAACGTCCTATTTATTG-ATCGGTTGTGAT-CTGCATATGTTGCGGACACAAATGAA
1 CTCTTTGTGAACGTCCT-GTTA-TGAATCGGTTGTGATCCTGCATATGTTGCGGACACAAATGAA
97023932 A
64 A
** *
97023933 CTCTTTGTGAGTGTCCTGTTATGCAATTGGTTGTGATCCTGCATATGTTGCGGACACAAA
1 CTCTTTGTGAACGTCCTGTTATG-AATCGGTTGTGATCCTGCATATGTTGCGGACACAAA
97023993 CACAGCTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
62 2 0.04
63 3 0.06
64 26 0.49
65 22 0.42
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (64 bp):
CTCTTTGTGAACGTCCTGTTATGAATCGGTTGTGATCCTGCATATGTTGCGGACACAAATGAAA
Found at i:97024002 original size:65 final size:64
Alignment explanation
Indices: 97023897--97024020 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 64
97023887 TTTATTGATC
* * * *
97023897 GGTTGTGATCTGCATATGTTGCGGACACAAATGAAACTCTTTGTGAGTGTCCTGTTATGCAATT
1 GGTTGTGATCTGCATATGTTGCGGACACAAATCAAACTCTTTATGAGCGTCCTGATATGCAATT
*
97023961 GGTTGTGATCCTGCATATGTTGCGGACACAAA-CACAGCTCTTTATGAGCGTCCTGATATG
1 GGTTGTGAT-CTGCATATGTTGCGGACACAAATCA-AACTCTTTATGAGCGTCCTGATATG
97024021 GTGCGCCTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 10 0.19
65 43 0.81
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (64 bp):
GGTTGTGATCTGCATATGTTGCGGACACAAATCAAACTCTTTATGAGCGTCCTGATATGCAATT
Found at i:97024202 original size:25 final size:26
Alignment explanation
Indices: 97024174--97024222 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
97024164 TCTAGCCCAG
* *
97024174 ATAAGC-TTTCTGTTACATGGCTCAT
1 ATAAGCATTCCTGATACATGGCTCAT
*
97024199 ATAAGCATTCCTGATATATGGCTC
1 ATAAGCATTCCTGATACATGGCTC
97024223 GAGATAGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (26 bp):
ATAAGCATTCCTGATACATGGCTCAT
Found at i:97035354 original size:14 final size:15
Alignment explanation
Indices: 97035335--97035364 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
97035325 ATATTTGACT
97035335 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
97035349 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
97035364 T
1 T
97035365 TTTGATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:97044016 original size:52 final size:52
Alignment explanation
Indices: 97043938--97044047 Score: 204
Period size: 52 Copynumber: 2.1 Consensus size: 52
97043928 TAATTTTAGG
*
97043938 GAAAGGACGCTTGTATTGTTAGAGCATGACTAAAAGGGGGACGTGAGAAGAA
1 GAAAGGACGCTTGTATTGTTAGAGCATGACTAAAACGGGGACGTGAGAAGAA
97043990 GAAAGGACGCTTGTATTGTTAGAGCATGACTAAAACGGGGACGTGAGAAGAA
1 GAAAGGACGCTTGTATTGTTAGAGCATGACTAAAACGGGGACGTGAGAAGAA
97044042 -AAAGGA
1 GAAAGGA
97044048 GATTATTATA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
51 6 0.11
52 51 0.89
ACGTcount: A:0.38, C:0.10, G:0.34, T:0.18
Consensus pattern (52 bp):
GAAAGGACGCTTGTATTGTTAGAGCATGACTAAAACGGGGACGTGAGAAGAA
Found at i:97044950 original size:17 final size:17
Alignment explanation
Indices: 97044928--97044966 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
97044918 GGGGATGGTA
97044928 TTTG-TTTGATGTTTTTT
1 TTTGTTTTG-TGTTTTTT
97044945 TTTGTTTTTGTGTTTTTT
1 TTTG-TTTTGTGTTTTTT
97044963 TTTG
1 TTTG
97044967 CGTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.03, C:0.00, G:0.18, T:0.79
Consensus pattern (17 bp):
TTTGTTTTGTGTTTTTT
Found at i:97044972 original size:19 final size:19
Alignment explanation
Indices: 97044932--97044972 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
97044922 ATGGTATTTG
*
97044932 TTTGATGTTTTTTTTTGTT
1 TTTGATGTTTTTTTTTGGT
97044951 TTTG-TGTTTTTTTTTGCGT
1 TTTGATGTTTTTTTTTG-GT
97044970 TTT
1 TTT
97044973 ATTTTCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.02, C:0.02, G:0.17, T:0.78
Consensus pattern (19 bp):
TTTGATGTTTTTTTTTGGT
Found at i:97052801 original size:34 final size:34
Alignment explanation
Indices: 97052760--97052828 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
97052750 TAGGGAACAT
97052760 ATGAATGATTATGAATGGTTTTTGTTTTGGATGA
1 ATGAATGATTATGAATGGTTTTTGTTTTGGATGA
97052794 ATGAATGATTATGAATGGTTTTTGTTTTGGATGA
1 ATGAATGATTATGAATGGTTTTTGTTTTGGATGA
97052828 A
1 A
97052829 AATTGTTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (34 bp):
ATGAATGATTATGAATGGTTTTTGTTTTGGATGA
Found at i:97058395 original size:2 final size:2
Alignment explanation
Indices: 97058388--97058416 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
97058378 TACAACTGCT
97058388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97058417 GTGTGTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97059646 original size:36 final size:36
Alignment explanation
Indices: 97059606--97059683 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
97059596 TTAGAGTATG
*
97059606 TAGAATTTCATAAGCGAACAAAACATTATCCAAAAT
1 TAGAATTTCATAAGCCAACAAAACATTATCCAAAAT
* *
97059642 TAGAACTTCATAAGCCAACAAAACATTATCCGAAAT
1 TAGAATTTCATAAGCCAACAAAACATTATCCAAAAT
97059678 TA-AATT
1 TAGAATT
97059684 CCCCTGCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
35 3 0.08
36 35 0.92
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.26
Consensus pattern (36 bp):
TAGAATTTCATAAGCCAACAAAACATTATCCAAAAT
Found at i:97064517 original size:21 final size:20
Alignment explanation
Indices: 97064469--97064517 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
97064459 TTCAAGTTTC
*
97064469 ACATCTCATTTCTTCATTTT
1 ACATTTCATTTCTTCATTTT
*
97064489 ATATTTCATTTC-TCATCTTT
1 ACATTTCATTTCTTCAT-TTT
97064509 ACCATTTCA
1 A-CATTTCA
97064518 ATATTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 14 0.58
21 6 0.25
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (20 bp):
ACATTTCATTTCTTCATTTT
Found at i:97065681 original size:15 final size:15
Alignment explanation
Indices: 97065661--97065689 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
97065651 CTCTATTTTC
97065661 TTTCTTTCTTTTCTT
1 TTTCTTTCTTTTCTT
97065676 TTTCTTTCTTTTCT
1 TTTCTTTCTTTTCT
97065690 AATGTTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTCTTTTCTT
Found at i:97069624 original size:25 final size:25
Alignment explanation
Indices: 97069565--97069677 Score: 95
Period size: 25 Copynumber: 4.5 Consensus size: 25
97069555 ATTATTTAGA
* *
97069565 TCTTATGAGCATCTCGTTATATGGC
1 TCTTATGAGCTTCTCGATATATGGC
* * *
97069590 TCTCACGAGCTTCTCGATATTTGGC
1 TCTTATGAGCTTCTCGATATATGGC
*
97069615 TCTTATGAGCTTTTCGACTA-ATGGC
1 TCTTATGAGCTTCTCGA-TATATGGC
* * **
97069640 TCTCT-TGAGCTTCCCGTTATACAGC
1 TCT-TATGAGCTTCTCGATATATGGC
*
97069665 TCATATGAGCTTC
1 TCTTATGAGCTTC
97069678 CCGTTACGTG
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
24 3 0.04
25 63 0.91
26 3 0.04
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (25 bp):
TCTTATGAGCTTCTCGATATATGGC
Found at i:97071861 original size:12 final size:11
Alignment explanation
Indices: 97071838--97071871 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
97071828 TAATTTTTTT
97071838 ATTTAATATTA
1 ATTTAATATTA
97071849 ATTTAATTATTA
1 ATTTAA-TATTA
*
97071861 ATTTAAAATTA
1 ATTTAATATTA
97071872 TGACTCAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTAATATTA
Found at i:97072977 original size:18 final size:17
Alignment explanation
Indices: 97072949--97072983 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
97072939 TTTAATCTTT
97072949 TAAAAATTAAAAAAATA
1 TAAAAATTAAAAAAATA
*
97072966 TAAAATATTAAAATAATA
1 TAAAA-ATTAAAAAAATA
97072984 AAATTGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATTAAAAAAATA
Found at i:97074260 original size:29 final size:29
Alignment explanation
Indices: 97074225--97074283 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
97074215 GAAATATGAG
97074225 ATTGTTTTAAGCAATGGTTTGTTGTTAGC
1 ATTGTTTTAAGCAATGGTTTGTTGTTAGC
97074254 ATTGTTTTAAGCAATGGTTTGTTGTTAGC
1 ATTGTTTTAAGCAATGGTTTGTTGTTAGC
97074283 A
1 A
97074284 GTGACCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.47
Consensus pattern (29 bp):
ATTGTTTTAAGCAATGGTTTGTTGTTAGC
Found at i:97076169 original size:22 final size:23
Alignment explanation
Indices: 97076144--97076190 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
97076134 AAAAATATTC
*
97076144 AAATCCAACT-CAAAAAACTAAA
1 AAATCCAACTGAAAAAAACTAAA
97076166 AAATCCAACTGAAAAAAACTAAA
1 AAATCCAACTGAAAAAAACTAAA
97076189 AA
1 AA
97076191 TTAAAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.66, C:0.19, G:0.02, T:0.13
Consensus pattern (23 bp):
AAATCCAACTGAAAAAAACTAAA
Found at i:97077073 original size:20 final size:20
Alignment explanation
Indices: 97077031--97077073 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
97077021 GAAAACCTTA
*
97077031 AAAAATCTATAAAAAATTGT
1 AAAAATCTATAAAAAATAGT
*
97077051 AAAAAT-TATTAAAAATAGAT
1 AAAAATCTATAAAAAATAG-T
97077071 AAA
1 AAA
97077074 TTTAGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAATCTATAAAAAATAGT
Found at i:97077467 original size:17 final size:17
Alignment explanation
Indices: 97077429--97077479 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
97077419 TTTTAAATAG
*
97077429 TTTTT-AAATATTTTTAA
1 TTTTTAAAATA-TTTCAA
*
97077446 GTTTTAAAATATTTCAA
1 TTTTTAAAATATTTCAA
* *
97077463 TTTTTAAGATTTTTCAA
1 TTTTTAAAATATTTCAA
97077480 ATGTTAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTTTAAAATATTTCAA
Found at i:97079311 original size:17 final size:18
Alignment explanation
Indices: 97079269--97079317 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
97079259 AGTTGAAAAG
97079269 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
97079288 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
97079305 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
97079318 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:97083764 original size:27 final size:27
Alignment explanation
Indices: 97083734--97083830 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 27
97083724 ATAATAAGTC
**
97083734 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAAAT
97083761 CGCACACTTAGTGCTATATAATCAAAT
1 CGCACACTTAGTGCTATATAATCAAAT
* * * *
97083788 CGCACACTTAGTGCTGTACAATTTTAAAC
1 CGCACACTTAGTGCTATATAA--TCAAAT
97083817 CGCACACTTAGTGC
1 CGCACACTTAGTGC
97083831 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
27 44 0.71
29 18 0.29
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAAAT
Found at i:97088448 original size:37 final size:38
Alignment explanation
Indices: 97088305--97088458 Score: 217
Period size: 37 Copynumber: 4.2 Consensus size: 38
97088295 TCAGATGAAG
** * *
97088305 TCTCCACACAAAGTTATCGGGTCTTACCCGGACA-AAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATATA
97088342 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATA-A
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATATA
97088379 TCTCCACACGTAGTCATCGGGTCTTACCCGGA-ATATA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATATA
* *
97088416 TTTCCACACGTAGTTATCGGGTCTTACCCGGA-ATATA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATATA
*
97088453 TTTCCA
1 TCTCCA
97088459 AGTTTCATGT
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
36 3 0.03
37 106 0.96
38 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (38 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACATATA
Found at i:97088629 original size:13 final size:13
Alignment explanation
Indices: 97088596--97088631 Score: 58
Period size: 11 Copynumber: 2.9 Consensus size: 13
97088586 ACATCGCCTC
97088596 CATATTTCTCATA
1 CATATTTCTCATA
97088609 CATA--TCTCATA
1 CATATTTCTCATA
97088620 CATATTTCTCAT
1 CATATTTCTCAT
97088632 TAGCCATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (13 bp):
CATATTTCTCATA
Found at i:97088682 original size:48 final size:48
Alignment explanation
Indices: 97088606--97088960 Score: 656
Period size: 48 Copynumber: 7.4 Consensus size: 48
97088596 CATATTTCTC
*
97088606 ATACATATCTCATACATATTTCTCATTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
*
97088654 ATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
*
97088702 ATACTTATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
97088750 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
97088798 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
97088846 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
*
97088894 ATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACAT
97088944 ATACATATCTCATACAT
1 ATACATATCTCATACAT
97088961 CAATTTCCGC
Statistics
Matches: 300, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
48 253 0.84
50 47 0.16
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
ATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAT
Found at i:97099113 original size:40 final size:40
Alignment explanation
Indices: 97099053--97099306 Score: 352
Period size: 40 Copynumber: 6.3 Consensus size: 40
97099043 CTCGTACAAG
* * * *
97099053 GCCTTCGGGTCTTAGTCCGG-ATATGGTCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAAT
*
97099093 GCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAAT
* *
97099133 GCCTTCGGGGCTTAGCCCGGAATTAGTAACTAGCACAACT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
*
97099173 GCCTTTGGGACTTAGCCCGGAATTAGTAACTCA-CACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACT-AGCACAAAT
*
97099213 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
* *
97099253 GCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
*
97099293 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
97099307 ACCCCGTTAG
Statistics
Matches: 194, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
40 191 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
Found at i:97122136 original size:93 final size:93
Alignment explanation
Indices: 97122024--97122194 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
97122014 GCCCATAAGT
* *
97122024 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
97122089 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
97122117 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
97122182 CGAGTTCGGATGC
66 CGAGCTCGGATGC
97122195 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:97122191 original size:46 final size:46
Alignment explanation
Indices: 97122016--97122191 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
97122006 TGTAACCCGC
* *
97122016 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
97122062 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* * * *
97122112 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
97122155 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
97122192 TGCTCAACCA
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:97131369 original size:46 final size:46
Alignment explanation
Indices: 97131291--97131404 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 46
97131281 TCAATGCCAT
*
97131291 GTCCCAGACATGGTCTTACACTGACTATCATCTC-ATAGCCGACGTAC
1 GTCCCAGACAT-GTCTTACACTGACTATCATCTCGA-AGCCGACGCAC
* * * * *
97131338 GTCCCAGACATGTCTTACACTG-GTTTACATCTCGAGGCCGATGCAT
1 GTCCCAGACATGTCTTACACTGACTAT-CATCTCGAAGCCGACGCAC
97131384 GTCCCAGACATGTCTTACACT
1 GTCCCAGACATGTCTTACACT
97131405 AGCACTCATC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 2 0.03
46 45 0.76
47 12 0.20
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GTCCCAGACATGTCTTACACTGACTATCATCTCGAAGCCGACGCAC
Found at i:97131415 original size:46 final size:45
Alignment explanation
Indices: 97131288--97131498 Score: 131
Period size: 46 Copynumber: 4.5 Consensus size: 45
97131278 GTGTCAATGC
* *
97131288 CATGTCCCAGACATGGTCTTACACTG-ACTATCATCTC-ATAGCCGACG
1 CATGTCCCAGACAT-GTCTTACACTGCAC--TCATCTCGA-GGCCGATG
* * ***
97131335 TACGTCCCAGACATGTCTTACACTGGTTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGCACT-CATCTCGAGGCCGATG
** * *
97131381 CATGTCCCAGACATGTCTTACACTAGCACTCATCTTAATGTCGATG
1 CATGTCCCAGACATGTCTTACACT-GCACTCATCTCGAGGCCGATG
* * ** * * *
97131427 CCATATCCCAGACATGGTTTTACACTGGCTTTCATAAT-GTGGCAGATG
1 -CATGTCCCAGACAT-GTCTTACACT-GCACTCAT-CTCGAGGCCGATG
* *
97131475 CAAGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
97131499 AGCTCACATA
Statistics
Matches: 127, Mismatches: 30, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
45 1 0.01
46 66 0.52
47 39 0.31
48 20 0.16
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGCACTCATCTCGAGGCCGATG
Found at i:97136414 original size:47 final size:46
Alignment explanation
Indices: 97136355--97136549 Score: 152
Period size: 47 Copynumber: 4.2 Consensus size: 46
97136345 TATGAGAGCC
97136355 AGTGTAAGACATGTCTGGGACATGGTATCGACATAGAGACGAGTGCT
1 AGTGTAAGACATGTCTGGGACATGGTATCGACATAGAGA-GAGTGCT
* * * * *
97136402 AGTGTAAGACATGTTTGGGACATGCATTAGCCACATTA-TGAGAGT-C-
1 AGTGTAAGACATGTCTGGGACATG--GTATCGACA-TAGAGAGAGTGCT
* * * * *
97136448 AGTATACA-ACCATGTTTGGGTCATGGCATCGGCATAGAGATGAGTGCT
1 AGTGTA-AGA-CATGTCTGGGACATGGTATCGACATAGAGA-GAGTGCT
* * *
97136496 AGTGTAAGACATGTCTGGGACAT-GCATCGAC-TA-AGTGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGGTATCGACATAGAGAGA-GTGCT
97136540 AGTGTAAGAC
1 AGTGTAAGAC
97136550 CACATCTGGG
Statistics
Matches: 118, Mismatches: 19, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
43 2 0.02
44 18 0.15
45 8 0.07
46 17 0.14
47 53 0.45
48 10 0.08
49 8 0.07
50 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGTATCGACATAGAGAGAGTGCT
Found at i:97136516 original size:94 final size:93
Alignment explanation
Indices: 97136306--97136523 Score: 321
Period size: 94 Copynumber: 2.3 Consensus size: 93
97136296 ACTTGTATGA
* *
97136306 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAGAGCCAGTATAAGACATGTCT
*
97136371 GGGACATGGTATCGACATAGAGACGAGT
66 GGGACATGGCATCGACATAGAGACGAGT
* *
97136399 GCTAGTGTAAGACATGTTTGGGACATGCATTAGCCACATTATGAGAGTCAGTATACA-ACCATGT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAGAGCCAGTATA-AGA-CATGT
* * * *
97136463 TTGGGTCATGGCATCGGCATAGAGATGAGT
64 CTGGGACATGGCATCGACATAGAGACGAGT
*
97136493 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTTTGGGACATGCATC
97136524 GACTAAGTGA
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
93 52 0.46
94 60 0.54
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAGAGCCAGTATAAGACATGTCT
GGGACATGGCATCGACATAGAGACGAGT
Found at i:97138741 original size:24 final size:24
Alignment explanation
Indices: 97138696--97138760 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
97138686 TCAATCTTCT
* * * *
97138696 TCATCTTCACCTCTACCTTCGTGA
1 TCATCTTCATCTCCACCGTCGTCA
* *
97138720 TCATCTTCATCTCCATCGTCGTCC
1 TCATCTTCATCTCCACCGTCGTCA
97138744 TCATCTTCATCTCCACC
1 TCATCTTCATCTCCACC
97138761 CTTGACTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.15, C:0.42, G:0.06, T:0.37
Consensus pattern (24 bp):
TCATCTTCATCTCCACCGTCGTCA
Found at i:97139510 original size:15 final size:15
Alignment explanation
Indices: 97139490--97139518 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
97139480 CCAAGCGTCG
97139490 ATGTACTCCTTGTGA
1 ATGTACTCCTTGTGA
97139505 ATGTACTCCTTGTG
1 ATGTACTCCTTGTG
97139519 TAGTTCATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (15 bp):
ATGTACTCCTTGTGA
Found at i:97142351 original size:24 final size:26
Alignment explanation
Indices: 97142323--97142375 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
97142313 GTTTTAAAAT
97142323 AAATAAT-ATAAGAAAACAA-ACTTA
1 AAATAATGATAAGAAAACAATACTTA
* *
97142347 AAATAATGATAATAAAACAATTCTTA
1 AAATAATGATAAGAAAACAATACTTA
97142373 AAA
1 AAA
97142376 AAAATGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.28
25 11 0.44
26 7 0.28
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATAATGATAAGAAAACAATACTTA
Found at i:97142386 original size:28 final size:27
Alignment explanation
Indices: 97142316--97142386 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 27
97142306 GAAAATGGTT
* *
97142316 TTAAAATAAATAATATAAGAAAACAAAC
1 TTAAAAAAAATGA-ATAAGAAAACAAAC
* * *
97142344 TT-AAAATAATG-ATAATAAAACAATTC
1 TTAAAAAAAATGAATAAGAAAACAA-AC
97142370 TTAAAAAAAATGAATAA
1 TTAAAAAAAATGAATAA
97142387 ACGAATAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 11 0.32
26 3 0.09
27 14 0.41
28 6 0.18
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (27 bp):
TTAAAAAAAATGAATAAGAAAACAAAC
Found at i:97144834 original size:88 final size:88
Alignment explanation
Indices: 97144688--97144857 Score: 191
Period size: 88 Copynumber: 1.9 Consensus size: 88
97144678 CCTCTTTTTT
* * * * * * *
97144688 TTTTTTTTGCACTCAATTGAACATTTGCACTTTTAAATTGTATCAAAAAAGCCTTCAAACTTCTT
1 TTTTTTTT-CACTCAATTGAACACTTGAACTTTCAAAGTGCATCAAAAAAGCCCTCAAAATT-TT
*
97144753 GAAAAAAAGCAATTAAGCCCCTGCC
64 GAAAAAAAGAAATTAAGCCCCTGCC
** *
97144778 TTTTTTTT-ACTCAATTGAGTACTTGAACTTTCAAAGTGCATC-AAAAAGACCCTCAAAATTTTT
1 TTTTTTTTCACTCAATTGAACACTTGAACTTTCAAAGTGCATCAAAAAAG-CCCTCAAAATTTTG
*
97144841 TAAAAAAGAAATTAAGC
65 AAAAAAAGAAATTAAGC
97144858 TCCTACTCTT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
87 23 0.34
88 36 0.54
90 8 0.12
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (88 bp):
TTTTTTTTCACTCAATTGAACACTTGAACTTTCAAAGTGCATCAAAAAAGCCCTCAAAATTTTGA
AAAAAAGAAATTAAGCCCCTGCC
Found at i:97144910 original size:18 final size:17
Alignment explanation
Indices: 97144887--97144934 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
97144877 TATAAATAAT
97144887 AAAAATAATAAATTTTA
1 AAAAATAATAAATTTTA
*
97144904 GAAAAATTATTAAATTTTA
1 -AAAAA-TAATAAATTTTA
97144923 ATAAAAT-ATAAA
1 A-AAAATAATAAA
97144935 AACTTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 7 0.27
19 15 0.58
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAAATAATAAATTTTA
Found at i:97144928 original size:19 final size:19
Alignment explanation
Indices: 97144883--97144929 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
97144873 AAATTATAAA
*
97144883 TAATAAAAATAATAAATTT
1 TAATAAAATTAATAAATTT
*
97144902 TAGA-AAAATTATTAAATTT
1 TA-ATAAAATTAATAAATTT
97144921 TAATAAAAT
1 TAATAAAAT
97144930 ATAAAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TAATAAAATTAATAAATTT
Found at i:97145245 original size:27 final size:27
Alignment explanation
Indices: 97145210--97145268 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
97145200 AGTTTATAAA
97145210 ATTTTATAA-TTTTTA-ATATTTCTATAT
1 ATTTTATAACTTTTTACA-ATTT-TATAT
97145237 ATTTTATAACTTTTTACAATTTTATAT
1 ATTTTATAACTTTTTACAATTTTATAT
97145264 ATTTT
1 ATTTT
97145269 TTATGTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 19 0.63
28 10 0.33
29 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (27 bp):
ATTTTATAACTTTTTACAATTTTATAT
Found at i:97145554 original size:88 final size:91
Alignment explanation
Indices: 97145401--97145567 Score: 202
Period size: 88 Copynumber: 1.9 Consensus size: 91
97145391 TTGTTTTTTT
** * * * *
97145401 CTTTTTTTGCAAAAGTTTGAGAGAGTTTTTTTGATGTATTTTGAAAGTTAAAGTACCTAATTGAG
1 CTTTTTTTGCAAAAGTTTGAGAGAGCCTTTTTGATATATTTTAAAAGTCAAAGTACCTAAATGAG
*
97145466 TGTAAAA-AAAATAGATGTTTAATTG
66 TGAAAAAGAAAATAGATGTTTAATTG
97145491 CTTTTTTTG-AAAAGGTTTGAG-G-GCCTTTTTGATATATTTTAAAAGCTCAAA-TATCC-AAAT
1 CTTTTTTTGCAAAA-GTTTGAGAGAGCCTTTTTGATATATTTTAAAAG-TCAAAGTA-CCTAAAT
97145551 GAGTGAAAAAGAAAATA
63 GAGTGAAAAAGAAAATA
97145568 AGTACCTAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
88 33 0.50
89 17 0.26
90 16 0.24
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.39
Consensus pattern (91 bp):
CTTTTTTTGCAAAAGTTTGAGAGAGCCTTTTTGATATATTTTAAAAGTCAAAGTACCTAAATGAG
TGAAAAAGAAAATAGATGTTTAATTG
Found at i:97154836 original size:29 final size:28
Alignment explanation
Indices: 97154800--97154876 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 28
97154790 TTTTAAAAAC
97154800 TTTAAAAATTAAAAAATATATAA-ATTA
1 TTTAAAAATTAAAAAATATATAAGATTA
*
97154827 TTTTTAAAAATTAAAAAACAT-TAAGATTA
1 --TTTAAAAATTAAAAAATATATAAGATTA
* *
97154856 TTTAAAAAGTATAAAATATAT
1 TTTAAAAATTAAAAAATATAT
97154877 TTTCTTAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 16 0.38
28 4 0.10
29 22 0.52
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (28 bp):
TTTAAAAATTAAAAAATATATAAGATTA
Found at i:97155049 original size:1 final size:1
Alignment explanation
Indices: 97155043--97155068 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
97155033 TAAAAGATGC
97155043 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
97155069 TTATTGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:97158950 original size:6 final size:6
Alignment explanation
Indices: 97158939--97158978 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
97158929 AGATGAGATG
97158939 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGG
1 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGG
97158979 AAGAGCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:97160252 original size:18 final size:19
Alignment explanation
Indices: 97160229--97160305 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 19
97160219 ATTCAATCCT
97160229 AATTTTAAAAAAT-CATAA
1 AATTTTAAAAAATACATAA
97160247 AATTTTAATTAAAAATACATAA
1 AATTTT-A--AAAAATACATAA
* * *
97160269 AAGTTT-CAAAAT-TA-AA
1 AATTTTAAAAAATACATAA
97160285 AATATTTAAAAAATACATAA
1 AAT-TTTAAAAAATACATAA
97160305 A
1 A
97160306 TAAAACAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
16 4 0.09
17 4 0.09
18 16 0.36
19 2 0.04
20 3 0.07
21 6 0.13
22 10 0.22
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.32
Consensus pattern (19 bp):
AATTTTAAAAAATACATAA
Found at i:97168010 original size:3 final size:3
Alignment explanation
Indices: 97168002--97168033 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
97167992 ATTGAGTTTA
97168002 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
97168034 AGAAAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:97172014 original size:32 final size:29
Alignment explanation
Indices: 97171977--97172084 Score: 87
Period size: 32 Copynumber: 3.6 Consensus size: 29
97171967 AGTTCTCTTG
97171977 AAATTTTTAAACAAATTTAATTAGGTCCTTCA
1 AAATTTTTAAA-AAATTTAATTA--TCCTTCA
* ** *
97172009 AAATTTTGAAATGATTTCATTTAT-CTT--
1 AAATTTTTAAAAAATTT-AATTATCCTTCA
*
97172036 AAATTTTTAAAAAAATTGTAATTAACCCTTCA
1 AAATTTTT-AAAAAATT-TAATT-ATCCTTCA
97172068 AAATTTTTAAAAAATTT
1 AAATTTTTAAAAAATTT
97172085 CTTTATATCT
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
27 7 0.12
28 9 0.15
29 5 0.08
30 5 0.08
31 12 0.20
32 22 0.37
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.44
Consensus pattern (29 bp):
AAATTTTTAAAAAATTTAATTATCCTTCA
Found at i:97172018 original size:60 final size:59
Alignment explanation
Indices: 97171952--97172085 Score: 162
Period size: 59 Copynumber: 2.3 Consensus size: 59
97171942 CCTCTCAATT
* * * **
97171952 TTTTGAAAAAATTTTAGTTCTCTTGAAATTTTTAAACAAATT-TAATTAGGTCCTTCAAAA
1 TTTTGAAAAAATTTCAGTTATCTT-AAATTTTTAAAAAAATTGTAATTA-ACCCTTCAAAA
** *
97172012 TTTTGAAATGATTTCATTTATCTTAAATTTTTAAAAAAATTGTAATTAACCCTTCAAAA
1 TTTTGAAAAAATTTCAGTTATCTTAAATTTTTAAAAAAATTGTAATTAACCCTTCAAAA
*
97172071 TTTTTAAAAAATTTC
1 TTTTGAAAAAATTTC
97172086 TTTATATCTT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
59 37 0.60
60 25 0.40
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (59 bp):
TTTTGAAAAAATTTCAGTTATCTTAAATTTTTAAAAAAATTGTAATTAACCCTTCAAAA
Found at i:97186116 original size:27 final size:27
Alignment explanation
Indices: 97186059--97186116 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
97186049 AACAGTCGTG
* * *
97186059 CCATGTGCACCTAGTCCAAAAGAGACC
1 CCATATGCACCTAGTCCAAAAGACAAC
* * *
97186086 CCATATGCACCTGGTCCAACAGACAAT
1 CCATATGCACCTAGTCCAAAAGACAAC
97186113 CCAT
1 CCAT
97186117 TTGCGGCAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.34, G:0.16, T:0.17
Consensus pattern (27 bp):
CCATATGCACCTAGTCCAAAAGACAAC
Found at i:97201267 original size:27 final size:27
Alignment explanation
Indices: 97201237--97201298 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
97201227 GGGCAAAATG
97201237 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
97201264 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
97201291 GTAATTTT
1 GTAATTTT
97201299 CAAACCATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:97201321 original size:53 final size:54
Alignment explanation
Indices: 97201253--97201378 Score: 141
Period size: 53 Copynumber: 2.4 Consensus size: 54
97201243 TTACCCCACA
* **
97201253 AGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTT-CAAA-CC
1 AGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAATCC
* * **
97201305 ATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
*
97201360 AGGGTATTTTTGTAATTTT
1 AGGGTATTTTAGTAATTTT
97201379 GTAAATCGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
52 4 0.06
53 36 0.58
54 21 0.34
55 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.44
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
Found at i:97201337 original size:27 final size:27
Alignment explanation
Indices: 97201279--97201378 Score: 132
Period size: 27 Copynumber: 3.7 Consensus size: 27
97201269 TTTACCCTAC
* *
97201279 AGGGGTATTTTAGTAATTTT-CAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
*
97201305 ATGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
97201332 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
97201358 TGAGGGTATTTTTGTAATTTT
1 AG-GGGTATTTTGGTAATTTT
97201379 GTAAATCGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 20 0.30
27 46 0.70
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:97201384 original size:27 final size:27
Alignment explanation
Indices: 97201281--97201392 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
97201271 TACCCTACAG
* **
97201281 GGGTATTTTAGTAATTTT-CAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATTGA
*
97201306 TGGGTATTTTGGTAATTTTACAAACT-A
1 -GGGTATTTTGGTAATTTTACAAATTGA
97201333 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATTGA
* ** *
97201361 GGGTATTTTTGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATTGA
97201388 GGGTA
1 GGGTA
97201393 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 17 0.23
27 57 0.76
28 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTGA
Found at i:97201700 original size:27 final size:27
Alignment explanation
Indices: 97201371--97201689 Score: 386
Period size: 27 Copynumber: 11.8 Consensus size: 27
97201361 GGGTATTTTT
* **
97201371 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * **
97201398 GTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
97201425 GTAATTCTATAAATTGACGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
97201452 ATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
97201479 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
97201506 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
97201533 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * **
97201560 ATAATTTTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
97201587 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
97201614 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
97201641 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
97201668 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
97201690 CTTTGGTAAT
Statistics
Matches: 248, Mismatches: 44, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 248 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:97201700 original size:54 final size:54
Alignment explanation
Indices: 97201371--97201689 Score: 433
Period size: 54 Copynumber: 5.9 Consensus size: 54
97201361 GGGTATTTTT
* * * * * * *
97201371 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAACA
* * *
97201425 GTAATTCTATAAATTGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* * *
97201479 GTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* *
97201533 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* *
97201587 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
* * * *
97201641 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
97201690 CTTTGGTAAT
Statistics
Matches: 236, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
54 235 1.00
55 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
Found at i:97201716 original size:27 final size:27
Alignment explanation
Indices: 97201695--97201784 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
97201685 GGGTACTTTG
*
97201695 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
97201722 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
97201749 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
97201776 GTAATTTTA
1 GTAATTTTA
97201785 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:97201736 original size:54 final size:54
Alignment explanation
Indices: 97201678--97201784 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
97201668 ATAATTCTGT
* * *
97201678 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
97201732 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
97201785 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:97201798 original size:27 final size:27
Alignment explanation
Indices: 97201695--97201799 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
97201685 GGGTACTTTG
* *
97201695 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
97201722 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
97201749 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
97201776 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
97201800 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:97211421 original size:9 final size:9
Alignment explanation
Indices: 97211407--97211443 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
97211397 TTATCAATTC
97211407 TCAATGTGT
1 TCAATGTGT
97211416 TCAATGTGT
1 TCAATGTGT
*
97211425 GCAATGTGT
1 TCAATGTGT
97211434 TCAATGTGT
1 TCAATGTGT
97211443 T
1 T
97211444 GGAAATTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (9 bp):
TCAATGTGT
Found at i:97218825 original size:48 final size:48
Alignment explanation
Indices: 97218727--97218858 Score: 122
Period size: 48 Copynumber: 2.8 Consensus size: 48
97218717 ACCGCGATTA
* *
97218727 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCACTGTTAAT
1 ATGAGAGCCAATGTAAGACCATGTCTGAGACATGGCATCACTATTAAT
* * * * *
97218775 ATGATAGCCAGTGTAAGGCCATGTCTGAGACATTGCATCGAC-ATTGAT
1 ATGAGAGCCAATGTAAGACCATGTCTGAGACATGGCATC-ACTATTAAT
* * * * * * *
97218823 ATGTGTGCTAGTGTAAGACCATATCTGGGATATGGC
1 ATGAGAGCCAATGTAAGACCATGTCTGAGACATGGC
97218859 GTCGGCCTGG
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
48 65 0.97
49 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (48 bp):
ATGAGAGCCAATGTAAGACCATGTCTGAGACATGGCATCACTATTAAT
Found at i:97220924 original size:34 final size:34
Alignment explanation
Indices: 97220878--97220975 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 34
97220868 TTGAACAGTC
* * **
97220878 TGGGCCTAAGCCCATTTTAGTCGCAATATCAATG
1 TGGGCCTTAGCCCATTTCAGTAACAATATCAATG
* * * * *
97220912 TGGGCCTTAGCCCAATACAGTAACAGTATCAGTT
1 TGGGCCTTAGCCCATTTCAGTAACAATATCAATG
*
97220946 TGGGCCTTAGCCCATTTCAGT-ACAGTATCA
1 TGGGCCTTAGCCCATTTCAGTAACAATATCA
97220976 GAAATGCATA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
33 9 0.17
34 44 0.83
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTTCAGTAACAATATCAATG
Found at i:97223651 original size:46 final size:48
Alignment explanation
Indices: 97223601--97223820 Score: 210
Period size: 47 Copynumber: 4.7 Consensus size: 48
97223591 TTGAGCATCT
* *
97223601 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAACAGGATCC
* *
97223647 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAC-AGG-ATCC
* **
97223694 GAACTCGTTGAGTTGAGTCCAAGTTCA-TGA--GATATAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAC-AGG-ATCC
* * *
97223741 GAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC--G-CCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGC-AACAGGATCC
* *
97223787 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTGATGG
97223821 GCGGGTTATA
Statistics
Matches: 150, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
43 6 0.04
45 4 0.03
46 59 0.39
47 72 0.48
48 3 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (48 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAACAGGATCC
Found at i:97223713 original size:47 final size:47
Alignment explanation
Indices: 97223644--97223767 Score: 212
Period size: 47 Copynumber: 2.6 Consensus size: 47
97223634 GATGCAAATG
* *
97223644 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATATAACTAGGCA
*
97223691 TCCGAACTCGTTGAGTTGAGTCCAAGTTCATGAGATATAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATATAACTAGGCA
*
97223738 TCCGAACTCATTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
97223768 CTCATGGATG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATATAACTAGGCA
Found at i:97226672 original size:13 final size:13
Alignment explanation
Indices: 97226654--97226693 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
97226644 GAAGTAATTG
*
97226654 CACACGGGTGTGT
1 CACACGGGCGTGT
97226667 CACACGGGCGTGT
1 CACACGGGCGTGT
97226680 CACACGGGCGTGT
1 CACACGGGCGTGT
97226693 C
1 C
97226694 CCTGCCGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:97230811 original size:55 final size:55
Alignment explanation
Indices: 97230750--97230868 Score: 139
Period size: 55 Copynumber: 2.2 Consensus size: 55
97230740 CTACCAAAAC
* * *
97230750 AACACGGGCCTGCAACACGCCCGTGTGGAAGACCCGTGGTTGAAACTGAGAAATT
1 AACACGGGCCTGCAACACGCCCGTGTCGAACACCCGTGGTCGAAACTGAGAAATT
* ** * * * **
97230805 AACACGGGCGTGCGGCACGCCTGTGTCTAACACCCGTGGTCGAACCTGTTAAATT
1 AACACGGGCCTGCAACACGCCCGTGTCGAACACCCGTGGTCGAAACTGAGAAATT
97230860 AACACGGGC
1 AACACGGGC
97230869 GTGGAGCTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.18
Consensus pattern (55 bp):
AACACGGGCCTGCAACACGCCCGTGTCGAACACCCGTGGTCGAAACTGAGAAATT
Found at i:97238846 original size:25 final size:22
Alignment explanation
Indices: 97238792--97238846 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
97238782 TTTCGGCTAG
97238792 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
97238814 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
97238839 AGGAAGAA
1 A-GAAGAA
97238847 TTCAGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:97240127 original size:27 final size:27
Alignment explanation
Indices: 97240089--97240144 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
97240079 GTTCTAAAGA
* *
97240089 TGAAAATTCTTCTGGATGGTTATATAG
1 TGAAAATTCTTCTAGATGGTCATATAG
97240116 TGAAAATTCTTCTAGATGGTCATATAG
1 TGAAAATTCTTCTAGATGGTCATATAG
97240143 TG
1 TG
97240145 GAGGTGACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
TGAAAATTCTTCTAGATGGTCATATAG
Found at i:97241737 original size:21 final size:21
Alignment explanation
Indices: 97241713--97241771 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
97241703 GTCTCTGGCT
*
97241713 CACACGGGTGTGTGCCTTAGC
1 CACACGGCTGTGTGCCTTAGC
97241734 CACACGGCTGTGTGCCTTAGC
1 CACACGGCTGTGTGCCTTAGC
97241755 CACACGGCTGTGTGCCT
1 CACACGGCTGTGTGCCT
97241772 CCTCCCACAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.32, G:0.31, T:0.24
Consensus pattern (21 bp):
CACACGGCTGTGTGCCTTAGC
Found at i:97243530 original size:40 final size:41
Alignment explanation
Indices: 97243385--97243530 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 41
97243375 GCTACTCGTT
* * *
97243385 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * * *
97243425 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
** *
97243465 CAAATGCCTTC-GGATCTTATTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
97243506 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
97243531 CATCATTCGA
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 73 0.84
41 11 0.13
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:97244244 original size:2 final size:2
Alignment explanation
Indices: 97244237--97244262 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97244227 ATGTGCAAAC
97244237 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
97244263 GTGCAAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97251435 original size:39 final size:40
Alignment explanation
Indices: 97251390--97251574 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
97251380 GCTACTCGTT
*
97251390 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
97251430 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
97251469 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
97251509 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
97251550 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
97251575 CATCATTCGA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 37 0.28
40 83 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:97262041 original size:41 final size:41
Alignment explanation
Indices: 97261984--97262066 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
97261974 CTATAACTAA
97261984 ATCATACCTCAAATTAGTGCCAAAAATAGGTAGATCGAGTT
1 ATCATACCTCAAATTAGTGCCAAAAATAGGTAGATCGAGTT
*
97262025 ATCATACCTCAAATTAGTGCCAGAAATAGGTAGATCGAGTT
1 ATCATACCTCAAATTAGTGCCAAAAATAGGTAGATCGAGTT
97262066 A
1 A
97262067 CAACGACTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.27
Consensus pattern (41 bp):
ATCATACCTCAAATTAGTGCCAAAAATAGGTAGATCGAGTT
Found at i:97268813 original size:6 final size:6
Alignment explanation
Indices: 97268799--97268847 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
97268789 ACATACATGC
* * * *
97268799 TCAGTT TCAGAT TCAGAT TCAGAT TTAGAT ATCGGAT TTAGAT TCAGAT
1 TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT -TCAGAT TCAGAT TCAGAT
97268848 AGCAAATATG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (6 bp):
TCAGAT
Found at i:97271125 original size:11 final size:11
Alignment explanation
Indices: 97271109--97271135 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
97271099 ATTAGATCTT
97271109 TACTTTTTTTA
1 TACTTTTTTTA
97271120 TACTTTTTTTA
1 TACTTTTTTTA
97271131 TACTT
1 TACTT
97271136 CTTATGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (11 bp):
TACTTTTTTTA
Done.