Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 193 of 292
Found at i:57645311 original size:183 final size:183
Alignment explanation
Indices: 57645003--57645341 Score: 633
Period size: 183 Copynumber: 1.9 Consensus size: 183
57644993 TTTCATGAAC
*
57645003 TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCCG
1 TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCCA
*
57645068 TCTAAGGAGATTGAAACTTAAGCGGGACCGCTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
66 TCTAAGGAGATTGAAACTTAAGCAGGACCGCTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
57645133 AATGTAATTTGTTAAGCAAAAATTTTCTAATTAAGATTTAAAATTTTTAAGTT
131 AATGTAATTTGTTAAGCAAAAATTTTCTAATTAAGATTTAAAATTTTTAAGTT
*
57645186 TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCTA
1 TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCCA
*
57645251 TCTAAGGATATTGAAACTTAAGCAGGACCGCTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
66 TCTAAGGAGATTGAAACTTAAGCAGGACCGCTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
*
57645316 AATGTAATTTGTTAAGCAGAAATTTT
131 AATGTAATTTGTTAAGCAAAAATTTT
57645342 TAAATTTTTA
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 151 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (183 bp):
TCATTTTTTAAATAAATAAATAATTATAACTTATTTTCTTAACTTATTACATTTAATTAATTCCA
TCTAAGGAGATTGAAACTTAAGCAGGACCGCTGTGACCCCTCCAACCTTTCCTGGAAATTAATTT
AATGTAATTTGTTAAGCAAAAATTTTCTAATTAAGATTTAAAATTTTTAAGTT
Found at i:57647241 original size:183 final size:183
Alignment explanation
Indices: 57646933--57647271 Score: 615
Period size: 183 Copynumber: 1.9 Consensus size: 183
57646923 TAAAAATTTA
57646933 AAAATTTCTACTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
1 AAAATTTCTACTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
* * * *
57646998 CCTGCTTAAGTTTCAATATCCTTAGATAGAATTAATTAAATGTAATAAGTTAAGAAAATAAGTTA
66 CCCGATTAAGTTTCAATATCCTTAGACAGAATTAATTAAATGTAATAAGTTAAAAAAATAAGTTA
57647063 TAATTATTTATTTATTTAAAAAATGAAACTTAAAAATTTTAAATCTTAATTAG
131 TAATTATTTATTTATTTAAAAAATGAAACTTAAAAATTTTAAATCTTAATTAG
* *
57647116 AAAATTTTTGCTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
1 AAAATTTCTACTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
*
57647181 CCCGATTAAGTTTCAATCTCCTTAGACAGAATTAATTAAATGTAATAAGTTAAAAAAATAAGTTA
66 CCCGATTAAGTTTCAATATCCTTAGACAGAATTAATTAAATGTAATAAGTTAAAAAAATAAGTTA
57647246 TAATTATTTATTTATTTAAAAAATGA
131 TAATTATTTATTTATTTAAAAAATGA
57647272 GTTCATGAAA
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 149 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (183 bp):
AAAATTTCTACTTAACAAATTACATTAAATTAATTTCCAGGAAAGGTTGGAGGGGTCACAGCGGT
CCCGATTAAGTTTCAATATCCTTAGACAGAATTAATTAAATGTAATAAGTTAAAAAAATAAGTTA
TAATTATTTATTTATTTAAAAAATGAAACTTAAAAATTTTAAATCTTAATTAG
Found at i:57653790 original size:30 final size:30
Alignment explanation
Indices: 57653754--57653813 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
57653744 AACATGTTTG
57653754 GTGAAGTTATGTACTTA-GCAAATGGCCATA
1 GTGAAGTTATGTAC-TAGGCAAATGGCCATA
57653784 GTGAAGTTATGTACTAGGCAAATGGCCATA
1 GTGAAGTTATGTACTAGGCAAATGGCCATA
57653814 TAGTATTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (30 bp):
GTGAAGTTATGTACTAGGCAAATGGCCATA
Found at i:57659116 original size:27 final size:27
Alignment explanation
Indices: 57659067--57659118 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
57659057 GGACTTCCTT
* ***
57659067 GTGTTTAGTGTCTCGGGGGACTACCCC
1 GTGTTTACTGTCTCGGCAAACTACCCC
57659094 GTGTTTACTGTCTCGGCAAACTACC
1 GTGTTTACTGTCTCGGCAAACTACC
57659119 TATGTTGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (27 bp):
GTGTTTACTGTCTCGGCAAACTACCCC
Found at i:57664152 original size:93 final size:93
Alignment explanation
Indices: 57664040--57664211 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57664030 GCCCATAAGT
* *
57664040 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57664105 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
57664133 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57664198 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
57664212 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57664207 original size:46 final size:46
Alignment explanation
Indices: 57664032--57664207 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
57664022 TGTAACCCGC
* * *
57664032 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
57664078 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
57664128 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
57664171 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57664208 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:57666630 original size:29 final size:29
Alignment explanation
Indices: 57666591--57666678 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
57666581 CAAAGATAAC
*
57666591 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
57666620 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
57666649 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
57666679 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:57666649 original size:15 final size:15
Alignment explanation
Indices: 57666591--57666669 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
57666581 CAAAGATAAC
*
57666591 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
57666605 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
57666620 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
57666634 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
57666649 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
57666664 AAGAAA
1 AAGAAA
57666670 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:57666678 original size:15 final size:15
Alignment explanation
Indices: 57666602--57666678 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
57666592 AGAAAACCGA
57666602 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
57666617 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
57666631 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
57666645 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
57666661 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
57666676 ATA
1 ATA
57666679 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:57669738 original size:93 final size:93
Alignment explanation
Indices: 57669626--57669797 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57669616 GCCCATAAGT
* *
57669626 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57669691 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
57669719 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57669784 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
57669798 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57669793 original size:46 final size:46
Alignment explanation
Indices: 57669618--57669793 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
57669608 TGTAACCCGC
* * *
57669618 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
57669664 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
57669714 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
57669757 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57669794 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:57677301 original size:46 final size:46
Alignment explanation
Indices: 57677234--57677461 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
57677224 AGTGTGCTCT
57677234 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
57677280 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
57677326 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
57677372 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
57677418 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
57677462 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:57680391 original size:12 final size:12
Alignment explanation
Indices: 57680357--57680404 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
57680347 GATTATATGC
*
57680357 ATAAGATATATA
1 ATAAAATATATA
*
57680369 TATATATATATATA
1 -ATA-AAATATATA
*
57680383 ATGAAATATATA
1 ATAAAATATATA
57680395 ATAAAATATA
1 ATAAAATATA
57680405 ATTTATAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 17 0.57
13 5 0.17
14 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (12 bp):
ATAAAATATATA
Found at i:57680464 original size:19 final size:19
Alignment explanation
Indices: 57680442--57680515 Score: 52
Period size: 22 Copynumber: 4.1 Consensus size: 19
57680432 AATATAATGG
57680442 ATAATATATATAAATAAAA
1 ATAATATATATAAATAAAA
**
57680461 ATAATAACTAATATTTATAAAA
1 ATAAT-A-T-ATATAAATAAAA
57680483 ATAA-ATA-AT--ATAAAA
1 ATAATATATATAAATAAAA
*
57680498 A-AATATTTA-AAATAAAA
1 ATAATATATATAAATAAAA
57680515 A
1 A
57680516 AGGATTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
14 2 0.04
15 9 0.20
16 1 0.02
17 9 0.20
18 1 0.02
19 6 0.13
20 2 0.04
21 1 0.02
22 14 0.31
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAATATATATAAATAAAA
Found at i:57680464 original size:26 final size:26
Alignment explanation
Indices: 57680443--57680492 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
57680433 ATATAATGGA
57680443 TAATATATATAAATAA-AAATAATAAC
1 TAATATATATAAA-AATAAATAATAAC
*
57680469 TAATATTTATAAAAATAAATAATA
1 TAATATATATAAAAATAAATAATA
57680493 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
TAATATATATAAAAATAAATAATAAC
Found at i:57680467 original size:22 final size:23
Alignment explanation
Indices: 57680442--57680494 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
57680432 AATATAATGG
57680442 ATAATATATATAAATAAAAAT-A
1 ATAATATATATAAATAAAAATAA
**
57680464 ATAACTA-ATATTTATAAAAATAA
1 ATAA-TATATATAAATAAAAATAA
57680487 ATAATATA
1 ATAATATA
57680495 AAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATATATATAAATAAAAATAA
Found at i:57682453 original size:206 final size:206
Alignment explanation
Indices: 57681943--57682484 Score: 820
Period size: 204 Copynumber: 2.6 Consensus size: 206
57681933 CTGCTTTTTC
* * *
57681943 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAGCGTAAGCACGCGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* * * * *
57682008 AAACCAAATCAGGTATGTCTTCGATTTGCTCCTTGTAAGCACGAGGATACCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
* * * * * ** *
57682073 CTGCTTCATTCTAATCATTTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCAAAAATGGAGA
131 CTACTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCTCTCCATCAAAAATGGAGA
57682138 CGCCAAACTTT
196 CGCCAAACTTT
*
57682149 GATTTGTTCTCTGACAAT--AGAGATGCCAAATCATCTTAGACTTGCTTCAGT-GTAAGCACGTG
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-TCGTAAGCACGTG
* * *
57682211 AAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGA
65 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGA
* * *
57682276 TCTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCGAATATGGAG
130 TCTACTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCTCTCCATCAAAAATGGAG
57682341 ACGCCAAACTTT
195 ACGCCAAACTTT
* *
57682353 GATTTGTTCCCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
*
57682418 AGGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
57682483 CT
131 CT
57682485 TGTTTTAGCC
Statistics
Matches: 302, Mismatches: 30, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
204 179 0.59
205 1 0.00
206 122 0.40
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
CTACTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCTCTCCATCAAAAATGGAGA
CGCCAAACTTT
Found at i:57692271 original size:40 final size:39
Alignment explanation
Indices: 57692106--57692289 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
57692096 AAATTGAATG
* * *
57692106 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
57692146 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
57692186 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
57692226 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
57692265 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
57692290 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:57692314 original size:80 final size:81
Alignment explanation
Indices: 57692146--57692334 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
57692136 GCTGGAAATT
* * * *
57692146 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
57692211 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
57692227 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
57692290 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
57692306 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
57692335 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:57703622 original size:19 final size:20
Alignment explanation
Indices: 57703594--57703635 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
57703584 GTCTTTTCGC
* *
57703594 GAAATTTAATGCACATG-AT
1 GAAATGTAATGCAAATGAAT
57703613 GAAATGTAATGCAAATGAAT
1 GAAATGTAATGCAAATGAAT
57703633 GAA
1 GAA
57703636 TGCAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATGTAATGCAAATGAAT
Found at i:57708145 original size:49 final size:45
Alignment explanation
Indices: 57708065--57708202 Score: 122
Period size: 47 Copynumber: 3.0 Consensus size: 45
57708055 GGAAAAGAAG
* * *
57708065 AAATTTAAAATAAACAATATAGAACAA-TTTAAAATAACTAATA-
1 AAATTTAAAATAAATAATATATAAAAAGTTTAAAATAACTAATAT
*
57708108 AAGAGGGTTTAAAATAAATAATATATAAAATAGTTTAACTACATAA-TGTATAT
1 AA-A---TTTAAAATAAATAATATATAAAA-AGTTTAA--A-ATAACT-AATAT
*
57708161 AAATTTAAAATAAATAATATGT-AAAAGTTTAAAATAACTAAT
1 AAATTTAAAATAAATAATATATAAAAAGTTTAAAATAACTAAT
57708203 GCATATAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 23
0.73 0.06 0.22
Matches are distributed among these distances:
43 2 0.03
44 7 0.09
45 2 0.03
47 27 0.35
48 4 0.05
49 23 0.30
51 2 0.03
52 8 0.10
53 2 0.03
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (45 bp):
AAATTTAAAATAAATAATATATAAAAAGTTTAAAATAACTAATAT
Found at i:57708191 original size:24 final size:24
Alignment explanation
Indices: 57708068--57708212 Score: 102
Period size: 24 Copynumber: 6.0 Consensus size: 24
57708058 AAAGAAGAAA
* *
57708068 TTTAAAATAAACAATATAGAACAA-
1 TTTAAAATAAATAATATATAA-AAG
* **
57708092 TTTAAAATAACTAATA-A-AGAGGG
1 TTTAAAATAAATAATATATA-AAAG
57708115 TTTAAAATAAATAATATATAAAATAG
1 TTTAAAATAAATAATATAT-AAA-AG
* * *
57708141 TTT-AACTACATAATGTATATAAA-
1 TTTAAAATAAATAATATATA-AAAG
*
57708164 TTTAAAATAAATAATATGTAAAAG
1 TTTAAAATAAATAATATATAAAAG
*
57708188 TTTAAAATAACTAATGCATATAAAA
1 TTTAAAATAAATAAT--ATATAAAA
57708213 AGAAAATCAT
Statistics
Matches: 94, Mismatches: 16, Indels: 20
0.72 0.12 0.15
Matches are distributed among these distances:
22 1 0.01
23 23 0.24
24 43 0.46
25 15 0.16
26 12 0.13
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (24 bp):
TTTAAAATAAATAATATATAAAAG
Found at i:57713030 original size:3 final size:3
Alignment explanation
Indices: 57713024--57713063 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
57713014 TATTAAAATT
*
57713024 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
57713064 CTACCTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:57714118 original size:47 final size:47
Alignment explanation
Indices: 57714009--57714119 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 47
57713999 CCTATTTTTA
* *
57714009 GGCCCAGCCCGGGCCCAATAAATGGGCATGATTTTTTAGTTGAGCCC
1 GGCCCAACCCGGGCCCAATAAATGGACATGATTTTTTAGTTGAGCCC
* ** * * *
57714056 GGCTCGGCCCGGGCCCAATAAATGGACATTATTTTTTAGTTGCGCTC
1 GGCCCAACCCGGGCCCAATAAATGGACATGATTTTTTAGTTGAGCCC
57714103 GGCCCAAACCC-GGCCCA
1 GGCCC-AACCCGGGCCCA
57714120 GCCCGGCCCA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 51 0.94
48 3 0.06
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (47 bp):
GGCCCAACCCGGGCCCAATAAATGGACATGATTTTTTAGTTGAGCCC
Found at i:57720566 original size:29 final size:28
Alignment explanation
Indices: 57720490--57720566 Score: 64
Period size: 29 Copynumber: 2.6 Consensus size: 28
57720480 ATTGAACCTG
* *
57720490 AATTTTAAAATTTAAAAAATAGAGAGACTA
1 AATTTT-AAATTT-AAAAGTAGAAAGACTA
** * *
57720520 AATTTCTAAAAATAAAAGTATAAAGATTA
1 AATTT-TAAATTTAAAAGTAGAAAGACTA
57720549 AATTTTAAATTTATAAAG
1 AATTTTAAATTTA-AAAG
57720567 AAATAGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
28 6 0.16
29 21 0.57
30 9 0.24
31 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (28 bp):
AATTTTAAATTTAAAAGTAGAAAGACTA
Found at i:57722241 original size:74 final size:74
Alignment explanation
Indices: 57722117--57722264 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
57722107 CTTTTTGGTT
*
57722117 TCTTAAATGGGCTTGGACCCAAAAAGTAAACCCAAAGCCTAATGTCCAAATAAGCTTGACTTTTT
1 TCTTAAATGGGCTTGGACCCAAAAACTAAACCCAAAGCCTAATGTCCAAATAAGCTTGACTTTTT
57722182 TAAACAAAA
66 TAAACAAAA
* * *
57722191 TCTTAAATGGGCTTTGACCCGAAAACTAAACCCAAAGCCTAATGTTCAAATAAGCTTGACTTTTT
1 TCTTAAATGGGCTTGGACCCAAAAACTAAACCCAAAGCCTAATGTCCAAATAAGCTTGACTTTTT
57722256 TAAACAAAA
66 TAAACAAAA
57722265 AAGGACAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (74 bp):
TCTTAAATGGGCTTGGACCCAAAAACTAAACCCAAAGCCTAATGTCCAAATAAGCTTGACTTTTT
TAAACAAAA
Found at i:57726149 original size:2 final size:2
Alignment explanation
Indices: 57726142--57726166 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57726132 GAGTTGGTTT
57726142 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 T
57726167 TTTAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57733392 original size:24 final size:23
Alignment explanation
Indices: 57733315--57733399 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 23
57733305 CTTATTATTA
57733315 ATATTTT-AATA--TATAAAATAT
1 ATATTTTAAATATTTATAAAAT-T
* *
57733336 AAATTTTAAATATTTTTAAGCAATT
1 ATATTTTAAATATTTATAA--AATT
* *
57733361 A-ATATTAATTATTTATAAAATGT
1 ATATTTTAAATATTTATAAAAT-T
57733384 ATATTTTAAATATTTA
1 ATATTTTAAATATTTA
57733400 AATATAACCA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
21 6 0.12
22 7 0.14
23 2 0.04
24 30 0.60
25 2 0.04
26 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATTTTAAATATTTATAAAATT
Found at i:57733433 original size:21 final size:21
Alignment explanation
Indices: 57733357--57733434 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 21
57733347 ATTTTTAAGC
*
57733357 AATTA-ATATTAATTATTTAT
1 AATTATATATTAAATATTTAT
*
57733377 AAAATGTATATTTTAAATATTTA-
1 --AAT-TATATATTAAATATTTAT
*
57733400 AA-TATAACCATTAAATATTTAT
1 AATTAT-A-TATTAAATATTTAT
57733422 AATTATATATTAA
1 AATTATATATTAA
57733435 CACATTTGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 3 0.07
20 1 0.02
21 18 0.40
22 6 0.13
23 5 0.11
24 12 0.27
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (21 bp):
AATTATATATTAAATATTTAT
Found at i:57737009 original size:30 final size:30
Alignment explanation
Indices: 57736973--57737032 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
57736963 ACTACCAAAG
57736973 ATACTCTAAATACATGAGAAAACTTGAAAA
1 ATACTCTAAATACATGAGAAAACTTGAAAA
57737003 ATACTCTAAATACATGAGAAAACTTGAAAA
1 ATACTCTAAATACATGAGAAAACTTGAAAA
57737033 GATCTTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (30 bp):
ATACTCTAAATACATGAGAAAACTTGAAAA
Found at i:57737656 original size:6 final size:6
Alignment explanation
Indices: 57737613--57737638 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
57737603 GATAAGTCAT
57737613 ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT
57737639 ATCTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:57739820 original size:11 final size:11
Alignment explanation
Indices: 57739804--57739835 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57739794 AACTGAATTA
57739804 TAATTTTTATT
1 TAATTTTTATT
57739815 TAATTTTTA-T
1 TAATTTTTATT
57739825 TAA-TTTTATT
1 TAATTTTTATT
57739835 T
1 T
57739836 TTATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.25
10 6 0.30
11 9 0.45
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TAATTTTTATT
Found at i:57742873 original size:2 final size:2
Alignment explanation
Indices: 57742868--57742893 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57742858 AAAATTCTGG
57742868 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
57742894 TAAATTTAAG
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:57743202 original size:24 final size:23
Alignment explanation
Indices: 57743160--57743234 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
57743150 AAATTACATA
*
57743160 TAAAATTA-TATA-AAAATTAAC
1 TAAAATTATTATATTAAATTAAC
*
57743181 TAAAAATT-TTATATTAATATTAAG
1 T-AAAATTATTATATTAA-ATTAAC
57743205 TAAAATTCATTATATTAAATT-AC
1 TAAAATT-ATTATATTAAATTAAC
57743228 ATAAAAT
1 -TAAAAT
57743235 AAAATAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 1 0.02
22 10 0.23
23 9 0.20
24 15 0.34
25 9 0.20
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (23 bp):
TAAAATTATTATATTAAATTAAC
Found at i:57744482 original size:19 final size:21
Alignment explanation
Indices: 57744454--57744502 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
57744444 GTGGGGAGAG
*
57744454 TTTTATTTTA-TTATAATAAT
1 TTTTATTTAATTTATAATAAT
57744474 TTTTATTTAATTTTATAATAAT
1 TTTTATTTAA-TTTATAATAAT
57744496 TATTTAT
1 T-TTTAT
57744503 AATACATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 9 0.36
22 11 0.44
23 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATTTAATTTATAATAAT
Found at i:57744511 original size:25 final size:22
Alignment explanation
Indices: 57744464--57744515 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 22
57744454 TTTTATTTTA
*
57744464 TTATAATAATTTTTATTTAATT
1 TTATAATAATTTTTATATAATT
57744486 TTATAATAATTATTTATAATACATT
1 TTATAATAATT-TTTAT-ATA-ATT
57744511 TTATA
1 TTATA
57744516 TTTTTAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
23 5 0.19
24 2 0.08
25 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATAATAATTTTTATATAATT
Found at i:57746040 original size:2 final size:2
Alignment explanation
Indices: 57745997--57746026 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57745987 AAATAAATTT
57745997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57746027 AACAAACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57747159 original size:14 final size:14
Alignment explanation
Indices: 57747142--57747172 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57747132 AGTAAAATGT
57747142 TTTCTGGAAAATAA
1 TTTCTGGAAAATAA
*
57747156 TTTCTGGAAAATGA
1 TTTCTGGAAAATAA
57747170 TTT
1 TTT
57747173 ACTTTTCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (14 bp):
TTTCTGGAAAATAA
Found at i:57747199 original size:20 final size:20
Alignment explanation
Indices: 57747156--57747197 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
57747146 TGGAAAATAA
57747156 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
57747176 TTTCT-GAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
57747195 TTT
1 TTT
57747198 TCGGTGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:57747300 original size:24 final size:24
Alignment explanation
Indices: 57747273--57747327 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
57747263 CCGGAAAAGC
57747273 TATATTTATATATATTAATAAATT
1 TATATTTATATATATTAATAAATT
* *
57747297 TATATATATATATATTAGTAAATT
1 TATATTTATATATATTAATAAATT
57747321 TATATTT
1 TATATTT
57747328 TAAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TATATTTATATATATTAATAAATT
Found at i:57749550 original size:93 final size:93
Alignment explanation
Indices: 57749391--57749562 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
57749381 AGGATGGTTG
* *
57749391 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
57749456 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
57749484 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
57749549 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
57749563 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:57749565 original size:46 final size:46
Alignment explanation
Indices: 57749396--57749567 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
57749386 GGTTGAGCAT
* * * *
57749396 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* *
57749442 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAAGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
57749487 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
*
57749535 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57749568 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 60 0.56
47 28 0.26
48 4 0.04
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:57750470 original size:21 final size:21
Alignment explanation
Indices: 57750432--57750476 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
57750422 CTGTTCTGAC
* *
57750432 TTTAAAAATTCATAATAAATT
1 TTTAAAAAATAATAATAAATT
* *
57750453 TTTAAAAAATAATTATAAGTT
1 TTTAAAAAATAATAATAAATT
57750474 TTT
1 TTT
57750477 CTTATATGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTAAAAAATAATAATAAATT
Found at i:57752060 original size:6 final size:6
Alignment explanation
Indices: 57752049--57752088 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
57752039 AAGTGAGGGG
* * *
57752049 GAAGGA GAAGGA GAAGGA GAAGGG GAAGGG GAAGGG GAAG
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAG
57752089 AAGCTTCATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.57, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:57752066 original size:12 final size:12
Alignment explanation
Indices: 57752046--57752088 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
57752036 GATAAGTGAG
57752046 GGGGAAGGAGAA
1 GGGGAAGGAGAA
*
57752058 GGAGAAGGAGAA
1 GGGGAAGGAGAA
*
57752070 GGGGAAGGGGAA
1 GGGGAAGGAGAA
57752082 GGGGAAG
1 GGGGAAG
57752089 AAGCTTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (12 bp):
GGGGAAGGAGAA
Found at i:57752076 original size:18 final size:18
Alignment explanation
Indices: 57752046--57752088 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
57752036 GATAAGTGAG
57752046 GGGGAAGGAGAAGGAGAA
1 GGGGAAGGAGAAGGAGAA
* * *
57752064 GGAGAAGGGGAAGGGGAA
1 GGGGAAGGAGAAGGAGAA
57752082 GGGGAAG
1 GGGGAAG
57752089 AAGCTTCATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GGGGAAGGAGAAGGAGAA
Found at i:57755276 original size:14 final size:14
Alignment explanation
Indices: 57755257--57755296 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
57755247 GAAAAGGTTG
57755257 AAAAGCTTTT-CTGC
1 AAAAGCTTTTAC-GC
57755271 AAAAGCTTTTACGC
1 AAAAGCTTTTACGC
57755285 AAAAGCTTTTAC
1 AAAAGCTTTTAC
57755297 CCCTAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 24 0.96
15 1 0.04
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (14 bp):
AAAAGCTTTTACGC
Found at i:57759732 original size:30 final size:30
Alignment explanation
Indices: 57759696--57759758 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
57759686 GGACTAAAAC
*
57759696 AAGCTCCACAAGTTTGGTGTGGTCATATTG
1 AAGCTCCACAAGTTCGGTGTGGTCATATTG
57759726 AAGCTCCACAAGTTCGGTGTGGTCATATTG
1 AAGCTCCACAAGTTCGGTGTGGTCATATTG
57759756 AAG
1 AAG
57759759 GCGCTCTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (30 bp):
AAGCTCCACAAGTTCGGTGTGGTCATATTG
Found at i:57761949 original size:29 final size:30
Alignment explanation
Indices: 57761910--57761967 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
57761900 AATTGGTCTC
57761910 TTCTTTTTGAGAA-ACTCTGTAATTATTCT
1 TTCTTTTTGAGAAGACTCTGTAATTATTCT
*
57761939 TTCTTTTTGAGAAGGTCTCTGTAATTATT
1 TTCTTTTTGAGAA-GACTCTGTAATTATT
57761968 ATAGTGAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
31 13 0.50
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (30 bp):
TTCTTTTTGAGAAGACTCTGTAATTATTCT
Found at i:57769775 original size:3 final size:3
Alignment explanation
Indices: 57769767--57769807 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
57769757 TTAATTCACC
57769767 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
57769808 ATAACGAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:57770778 original size:29 final size:29
Alignment explanation
Indices: 57770746--57770808 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
57770736 AGTCTTTGTA
57770746 ATTTTAAAAATTT-AGAATTTAGTTTTTAT
1 ATTTT-AAAATTTAAGAATTTAGTTTTTAT
* ** *
57770775 ATTTTTATTTTTAAGAATTTAGTTTTTTT
1 ATTTTAAAATTTAAGAATTTAGTTTTTAT
57770804 ATTTT
1 ATTTT
57770809 TTTTATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.63
Consensus pattern (29 bp):
ATTTTAAAATTTAAGAATTTAGTTTTTAT
Found at i:57780300 original size:52 final size:51
Alignment explanation
Indices: 57780241--57780394 Score: 173
Period size: 52 Copynumber: 2.9 Consensus size: 51
57780231 GACGGAAAAG
*
57780241 ATGTGATATGTGCTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATATGTG-TTTCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
* * * **
57780293 ATGTGATACGTGTTCCCGTATAAGACCATAACTGGGCTATGACATCGGTGTG
1 ATGTGATATGTGTT-TCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
* * * * *
57780345 ATGTGATAATATGATTCTGTATAAGACTATATCTGGGATATGGCATCGGT
1 ATGTGAT-ATGTGTTTC-GTATAAGACCATAACTGGGCTATGGCATCGGT
57780395 ATGATATGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
51 2 0.02
52 51 0.60
53 32 0.38
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
ATGTGATATGTGTTTCGTATAAGACCATAACTGGGCTATGGCATCGGTGCA
Found at i:57790174 original size:68 final size:65
Alignment explanation
Indices: 57790113--57790359 Score: 230
Period size: 65 Copynumber: 3.7 Consensus size: 65
57790103 AGATGGGATC
* * * *
57790113 ATCATTTACACCGATCTTAGAACATCTATCTCAATTTAT-AGGAATTCTTGAACAAATGAGATAG
1 ATCATTTACACCAATCTTAGGACTTCTATCTCAATTTATCA-GAATTCTTGAACAAATGAGATGG
57790177 G
65 G
* * * *
57790178 ATCATTTACACCAAGCCTAGGACTTTCT-TC-CTAATTTTATCAGAATTCTAGAACAAAGGAGAT
1 ATCATTTACACCAATCTTAGGAC-TTCTATCTC-AA-TTTATCAGAATTCTTGAACAAATGAGAT
*
57790241 GGAATC
63 GG---G
** * * **
57790247 ATCATTTACACTGATCTTAGGACTTTTATCTCATTTTATCAGAATTCTTGAACAAACAAGATGGG
1 ATCATTTACACCAATCTTAGGACTTCTATCTCAATTTATCAGAATTCTTGAACAAATGAGATGGG
* * * * *
57790312 GTCATTTATACCAATTTTAGGACTTCTATCTCATTTTATCGGAATTCT
1 ATCATTTACACCAATCTTAGGACTTCTATCTCAATTTATCAGAATTCT
57790360 AGTCTAGACC
Statistics
Matches: 147, Mismatches: 26, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
64 1 0.01
65 64 0.44
66 28 0.19
67 1 0.01
68 30 0.20
69 22 0.15
70 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (65 bp):
ATCATTTACACCAATCTTAGGACTTCTATCTCAATTTATCAGAATTCTTGAACAAATGAGATGGG
Found at i:57790401 original size:70 final size:70
Alignment explanation
Indices: 57790247--57790492 Score: 250
Period size: 71 Copynumber: 3.6 Consensus size: 70
57790237 AGATGGAATC
* * *
57790247 ATCATTTACACTGATCTTAGGACTTTTATCTCATTTTATCAGAATTC---T-T-GAACAAACAAG
1 ATCATTTACACTGATCTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAA
57790307 ATGGG
66 ATGGG
* * ** * *
57790312 GTCATTTATACCAATTTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGACCAAACAAA
1 ATCATTTACACTGATCTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAA
*
57790377 ATGGT
66 ATGGG
* * * * ***
57790382 TTCATTTACACTGATTTTAGGACTTCTATCTCATCTTTTTCGGAGTTCTAGTCTAGAACAAGTTA
1 ATCATTTACACTGATCTTAGGACTTCTATCTCAT-TTTATCGGAATTCTAGTCTAGAACAAACAA
57790447 AATGGG
65 AATGGG
* ** * *
57790453 ATCATTTTCGTTGGTCTTAGGACTTCTATCTCATCTTATC
1 ATCATTTACACTGATCTTAGGACTTCTATCTCATTTTATC
57790493 AGCTGTATGG
Statistics
Matches: 146, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
65 40 0.27
68 1 0.01
69 1 0.01
70 47 0.32
71 57 0.39
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (70 bp):
ATCATTTACACTGATCTTAGGACTTCTATCTCATTTTATCGGAATTCTAGTCTAGAACAAACAAA
ATGGG
Found at i:57795964 original size:20 final size:20
Alignment explanation
Indices: 57795939--57795980 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
57795929 GAACAATTAG
57795939 ATATTACAACCCAAGAATCA
1 ATATTACAACCCAAGAATCA
57795959 ATATTACAACCCAAGAATCA
1 ATATTACAACCCAAGAATCA
57795979 AT
1 AT
57795981 CATGAGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.21
Consensus pattern (20 bp):
ATATTACAACCCAAGAATCA
Found at i:57802722 original size:14 final size:14
Alignment explanation
Indices: 57802703--57802730 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57802693 GCATGTACAT
57802703 AAGTGTTAATATAA
1 AAGTGTTAATATAA
57802717 AAGTGTTAATATAA
1 AAGTGTTAATATAA
57802731 GAGACTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGTGTTAATATAA
Found at i:57808403 original size:16 final size:16
Alignment explanation
Indices: 57808382--57808413 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57808372 TAGAGACAAG
57808382 TTGGATATGCTATTTA
1 TTGGATATGCTATTTA
57808398 TTGGATATGCTATTTA
1 TTGGATATGCTATTTA
57808414 GACTTAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (16 bp):
TTGGATATGCTATTTA
Found at i:57811224 original size:90 final size:90
Alignment explanation
Indices: 57811105--57811322 Score: 247
Period size: 90 Copynumber: 2.4 Consensus size: 90
57811095 CAATATATGA
* * * * * * *
57811105 TCCCGTATAAGACCATATCAGGGATATGGCTTCGGCATCGTTAAGTGATTTCGTATAAGACCATG
1 TCCCGTATAAGACCATGTCTGGGATATGGCTTCGGCACCGATAAGAGACTTCGTATAAGACCATA
* *
57811170 TCTGGGACATGGCATTGATATGAGG
66 TCTGGGACATGACATCGATATGAGG
* * * *
57811195 TCCCGTATAAGACAATGTTTGGGATATGGCATCGGCACCGATATGAGACTTCGTATAAGACCATA
1 TCCCGTATAAGACCATGTCTGGGATATGGCTTCGGCACCGATAAGAGACTTCGTATAAGACCATA
* * *
57811260 TTTGGGATATGACATCGATATGCGG
66 TCTGGGACATGACATCGATATGAGG
* * * * *
57811285 ACCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAC
1 TCCCGTATAAGACCATGTCTGGGATATGGCTTCGGCAC
57811323 TCTATTTGGT
Statistics
Matches: 104, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
90 104 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (90 bp):
TCCCGTATAAGACCATGTCTGGGATATGGCTTCGGCACCGATAAGAGACTTCGTATAAGACCATA
TCTGGGACATGACATCGATATGAGG
Found at i:57811264 original size:48 final size:48
Alignment explanation
Indices: 57811002--57811276 Score: 167
Period size: 48 Copynumber: 5.8 Consensus size: 48
57810992 ATCATGGTTA
* * * * *
57811002 ATGAGA-TCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCATCCGAG
1 ATGAGACTCC-GTATAAGACCATATCTGGGATATGGCATCGGCA-CCGAT
* * * * *
57811051 ATGAGAGC-CAGTGTAAGACCATATCTGGGATATGGCATCAGTACCAAT
1 ATGAGA-CTCCGTATAAGACCATATCTGGGATATGGCATCGGCACCGAT
* * * *
57811099 AT-ATGA-TCCCGTATAAGACCATATCAGGGATATGGCTTCGGCATCGTT
1 ATGA-GACT-CCGTATAAGACCATATCTGGGATATGGCATCGGCACCGAT
* * * * * **
57811147 AAGTGATTTCGTATAAGACCATGTCTGGG--A---CAT-GGCATTGAT
1 ATGAGACTCCGTATAAGACCATATCTGGGATATGGCATCGGCACCGAT
* * * *
57811189 ATGAG-GTCCCGTATAAGACAATGTTTGGGATATGGCATCGGCACCGAT
1 ATGAGACT-CCGTATAAGACCATATCTGGGATATGGCATCGGCACCGAT
* * *
57811237 ATGAGACTTCGTATAAGACCATATTTGGGATATGACATCG
1 ATGAGACTCCGTATAAGACCATATCTGGGATATGGCATCG
57811277 ATATGCGGAC
Statistics
Matches: 175, Mismatches: 36, Indels: 31
0.72 0.15 0.13
Matches are distributed among these distances:
41 1 0.01
42 28 0.16
43 2 0.01
44 1 0.01
46 1 0.01
47 4 0.02
48 99 0.57
49 38 0.22
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
ATGAGACTCCGTATAAGACCATATCTGGGATATGGCATCGGCACCGAT
Found at i:57814100 original size:10 final size:10
Alignment explanation
Indices: 57814067--57814100 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
57814057 GAATTAGATC
57814067 AAAATTACTA
1 AAAATTACTA
*
57814077 AAAA-TAATA
1 AAAATTACTA
57814086 AAAATTACTA
1 AAAATTACTA
57814096 AAAAT
1 AAAAT
57814101 AACTTTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAATTACTA
Found at i:57815642 original size:20 final size:20
Alignment explanation
Indices: 57815573--57815642 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
57815563 TGTACAAAAA
* *
57815573 GCATACTTGGCACACGAAGT
1 GCATTCTTGGCACATGAAGT
* * * *
57815593 ACATTCCTAGCATAT-AAGT
1 GCATTCTTGGCACATGAAGT
*
57815612 GCATAGC-TGGCACATGAAGT
1 GCAT-TCTTGGCACATGAAGT
57815632 GCATTCTTGGC
1 GCATTCTTGGC
57815643 GCATAAATGC
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (20 bp):
GCATTCTTGGCACATGAAGT
Found at i:57819361 original size:43 final size:44
Alignment explanation
Indices: 57819278--57819363 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
57819268 CTATGTATAT
* * * *
57819278 ATTAATATGGTTAAATCATATGAGATGGTAAACCAGAAGTTTAC
1 ATTAATATCGTTAAATCATATGACATAGTAAACCAAAAGTTTAC
*
57819322 ATTAGTATCGTTAAATCATATG-CATAGTAAACCAAAAGTTTA
1 ATTAATATCGTTAAATCATATGACATAGTAAACCAAAAGTTTA
57819364 TTAGTCCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 17 0.46
44 20 0.54
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (44 bp):
ATTAATATCGTTAAATCATATGACATAGTAAACCAAAAGTTTAC
Found at i:57823155 original size:23 final size:23
Alignment explanation
Indices: 57823133--57823232 Score: 123
Period size: 23 Copynumber: 4.3 Consensus size: 23
57823123 CAGCTTATTG
* *
57823133 GAGCTTACCGATTCAGCTCATTG
1 GAGCTTACCGATTCAGCTCAATA
57823156 GAGCTTACCGATTCAGCTCGAA-A
1 GAGCTTACCGATTCAGCTC-AATA
* *
57823179 GAGTTTACTG-TTCAGCTCAATA
1 GAGCTTACCGATTCAGCTCAATA
*
57823201 GAGCTTACCGTTTTCAGCTCAATA
1 GAGCTTACCG-ATTCAGCTCAATA
57823225 GAGCTTAC
1 GAGCTTAC
57823233 TGTTTATCAG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
21 2 0.03
22 17 0.25
23 27 0.40
24 21 0.31
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (23 bp):
GAGCTTACCGATTCAGCTCAATA
Found at i:57823220 original size:24 final size:24
Alignment explanation
Indices: 57823133--57823246 Score: 112
Period size: 23 Copynumber: 4.9 Consensus size: 24
57823123 CAGCTTATTG
* *
57823133 GAGCTTACCG-ATTCAGCTCATTG
1 GAGCTTACCGTATTCAGCTCAATA
57823156 GAGCTTACCG-ATTCAGCTCGAA-A
1 GAGCTTACCGTATTCAGCTC-AATA
* *
57823179 GAGTTTA-C-TGTTCAGCTCAATA
1 GAGCTTACCGTATTCAGCTCAATA
*
57823201 GAGCTTACCGTTTTCAGCTCAATA
1 GAGCTTACCGTATTCAGCTCAATA
* *
57823225 GAGCTTACTGTTTATCAGCTCA
1 GAGCTTACCGTAT-TCAGCTCA
57823247 GGAGGAGTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.03
22 16 0.21
23 26 0.33
24 26 0.33
25 8 0.10
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (24 bp):
GAGCTTACCGTATTCAGCTCAATA
Found at i:57823480 original size:20 final size:20
Alignment explanation
Indices: 57823452--57823549 Score: 110
Period size: 20 Copynumber: 4.9 Consensus size: 20
57823442 ACATTGTATT
*
57823452 AATGCATGAATTACTGTTGA
1 AATGAATGAATTACTGTTGA
57823472 AATGAATGAATTACTGTTGA
1 AATGAATGAATTACTGTTGA
* * * * *
57823492 TATGGATGAGTTGCTGCTGA
1 AATGAATGAATTACTGTTGA
57823512 AATGAATGAATTACTGTTGA
1 AATGAATGAATTACTGTTGA
57823532 TACA-G-ATGAATTACTGTT
1 -A-ATGAATGAATTACTGTT
57823550 TATACGGATA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 62 0.95
21 2 0.03
22 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (20 bp):
AATGAATGAATTACTGTTGA
Found at i:57823554 original size:20 final size:20
Alignment explanation
Indices: 57823517--57823606 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
57823507 GCTGAAATGA
*
57823517 ATGAATTACTGTTGATACAG
1 ATGAATTACTGTTTATACAG
*
57823537 ATGAATTACTGTTTATACGG
1 ATGAATTACTGTTTATACAG
* *
57823557 ATAAATTATTG-TTATTACTA-
1 ATGAATTACTGTTTA-TAC-AG
* * *
57823577 ATGAGTTACTGGTTATACGG
1 ATGAATTACTGTTTATACAG
*
57823597 ATGAACTACT
1 ATGAATTACT
57823607 AGTTATATGA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
19 3 0.05
20 49 0.89
21 3 0.05
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (20 bp):
ATGAATTACTGTTTATACAG
Found at i:57823564 original size:40 final size:40
Alignment explanation
Indices: 57823520--57823624 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 40
57823510 GAAATGAATG
*
57823520 AATTACTGTTGA-TAC-AGATGAATTACTGTTTATACGGATA
1 AATTACTGTT-ATTACTA-ATGAATTACTGGTTATACGGATA
* * *
57823560 AATTATTGTTATTACTAATGAGTTACTGGTTATACGGATG
1 AATTACTGTTATTACTAATGAATTACTGGTTATACGGATA
*
57823600 AACTACTAGTTA-TA-TGAATGAATTA
1 AATTACT-GTTATTACT-AATGAATTA
57823625 GAGTTTATAC
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.04
40 47 0.87
41 5 0.09
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (40 bp):
AATTACTGTTATTACTAATGAATTACTGGTTATACGGATA
Found at i:57823620 original size:20 final size:20
Alignment explanation
Indices: 57823583--57823621 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57823573 ACTAATGAGT
* *
57823583 TACTGGTTATACGGATGAAC
1 TACTAGTTATACGAATGAAC
*
57823603 TACTAGTTATATGAATGAA
1 TACTAGTTATACGAATGAA
57823622 TTAGAGTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
TACTAGTTATACGAATGAAC
Found at i:57825169 original size:20 final size:21
Alignment explanation
Indices: 57825138--57825178 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
57825128 GCAGGGGAAG
57825138 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
*
57825159 GAAAG-AAGAAAAAGGGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
57825179 TTGAAGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:57827414 original size:46 final size:46
Alignment explanation
Indices: 57827357--57827666 Score: 442
Period size: 46 Copynumber: 6.7 Consensus size: 46
57827347 ATGAAATGTG
* * **
57827357 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
*
57827403 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
57827449 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
57827495 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-GGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAA
* *** **
57827541 TAAGACCATGGTTGAAAGATACAATGGCAGTGTGACATAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * *
57827587 TAAGACCATGGTTAAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * * *
57827633 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
57827667 TTAAAGATAA
Statistics
Matches: 238, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 2 0.01
46 236 0.99
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:57827947 original size:16 final size:17
Alignment explanation
Indices: 57827926--57827957 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57827916 ATGATGGAGC
57827926 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
57827942 ATGAAATGATTGATAT
1 ATGAAATGATTGATAT
57827958 GTACTTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:57830246 original size:42 final size:42
Alignment explanation
Indices: 57830134--57830268 Score: 116
Period size: 42 Copynumber: 3.2 Consensus size: 42
57830124 CTGAAGGCTG
* * * * *
57830134 AACAGAAGCTC-ATGAGAGCTAAACAAAAACCCGTAAGGGTTG
1 AACAGAAGCTCAAT-AGAGCTGAACAGAAACCCATAAGAGTTA
* * *
57830176 AAC-GAAAG-TC-GTAAGAGCTGAACGGAAACCCATAAGGGTTA
1 AACAG-AAGCTCAAT-AGAGCTGAACAGAAACCCATAAGAGTTA
* * *
57830217 AATAGAAGCTCAATAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCAATAGAGCTGAACAGAAACCCATAAGAGTTA
57830259 AACAGAAGCT
1 AACAGAAGCT
57830269 TATGAGATCT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
41 32 0.43
42 42 0.56
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCAATAGAGCTGAACAGAAACCCATAAGAGTTA
Found at i:57830262 original size:21 final size:21
Alignment explanation
Indices: 57830238--57830287 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
57830228 AATAGAGCTG
57830238 AACAGAAACTCATATGAG-T-TA
1 AACAGAAACT--TATGAGATCTA
*
57830259 AACAGAAGCTTATGAGATCTA
1 AACAGAAACTTATGAGATCTA
57830280 AACAGAAA
1 AACAGAAA
57830288 GTAAACACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 1 0.04
21 18 0.72
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (21 bp):
AACAGAAACTTATGAGATCTA
Found at i:57831192 original size:57 final size:57
Alignment explanation
Indices: 57831099--57831216 Score: 209
Period size: 57 Copynumber: 2.1 Consensus size: 57
57831089 ATGAAGCTAA
* *
57831099 AATATGAAATCCGGCATTAAGAGCTCTTCAATGGTGTTTTTGGAAAAAAAATTGGAG
1 AATATGAAATCCAGCATTAAGAGCTCTTCAACGGTGTTTTTGGAAAAAAAATTGGAG
*
57831156 AATATGAAATCCAGCATTAAGAGCTCTTCAACGGTGTTTTTGGACAAAAAATTGGAG
1 AATATGAAATCCAGCATTAAGAGCTCTTCAACGGTGTTTTTGGAAAAAAAATTGGAG
57831213 AATA
1 AATA
57831217 AATGGTCTAG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (57 bp):
AATATGAAATCCAGCATTAAGAGCTCTTCAACGGTGTTTTTGGAAAAAAAATTGGAG
Found at i:57837927 original size:2 final size:2
Alignment explanation
Indices: 57837920--57837956 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
57837910 GAGACTAGTC
57837920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57837957 CATGTCATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57840454 original size:44 final size:44
Alignment explanation
Indices: 57840405--57840495 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
57840395 CTAGCCATGG
57840405 CTTCCCCCATGCTAATTTCAGCCTCCATGAAAAAGATGAGTCAA
1 CTTCCCCCATGCTAATTTCAGCCTCCATGAAAAAGATGAGTCAA
57840449 CTTCCCCCATGCTAATTTCAGCCTCCATGAAAAAGATGAGTCAA
1 CTTCCCCCATGCTAATTTCAGCCTCCATGAAAAAGATGAGTCAA
57840493 CTT
1 CTT
57840496 TGGCTTTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (44 bp):
CTTCCCCCATGCTAATTTCAGCCTCCATGAAAAAGATGAGTCAA
Found at i:57841542 original size:27 final size:28
Alignment explanation
Indices: 57841505--57841644 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
57841495 AGCATGGCTG
* *
57841505 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
57841531 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
57841559 CCAGA-ACAAATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
57841586 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
57841613 CCAGAT-TAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
57841640 CCAGA
1 CCAGA
57841645 ACGCTTCCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.05
27 81 0.79
28 17 0.17
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:57841811 original size:28 final size:26
Alignment explanation
Indices: 57841747--57841822 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
57841737 CAAAATTAAC
**
57841747 CCTAGGGGTATAACGGTAATTTTGCA
1 CCTAGGGGTATAATAGTAATTTTGCA
*
57841773 CCTAGGGGTATAATAGTAATTTTTCA
1 CCTAGGGGTATAATAGTAATTTTGCA
*
57841799 CACATAGGGGTATTATAGTAATTT
1 C-C-TAGGGGTATAATAGTAATTT
57841823 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
27 1 0.02
28 19 0.43
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (26 bp):
CCTAGGGGTATAATAGTAATTTTGCA
Found at i:57843298 original size:26 final size:26
Alignment explanation
Indices: 57843262--57843371 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
57843252 CATGAAATTC
*
57843262 TTATCATGAAACATTTACCAAACCCA
1 TTATCATGAAACATTTACCTAACCCA
57843288 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
57843314 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
57843340 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
57843366 TTATCA
1 TTATCA
57843372 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:57844450 original size:10 final size:10
Alignment explanation
Indices: 57844435--57844462 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
57844425 GTCCATGGTG
57844435 AACCCTTTAA
1 AACCCTTTAA
57844445 AACCCTTTAA
1 AACCCTTTAA
57844455 AACCCTTT
1 AACCCTTT
57844463 CCATATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (10 bp):
AACCCTTTAA
Found at i:57845417 original size:23 final size:22
Alignment explanation
Indices: 57845372--57845415 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
57845362 ATGTTATTGT
*
57845372 TTGTTAAATTTTAATTATAAAA
1 TTGTTAAATATTAATTATAAAA
57845394 TTGTATAAATATTAA-TATAAAA
1 TTGT-TAAATATTAATTATAAAA
57845416 ATAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (22 bp):
TTGTTAAATATTAATTATAAAA
Found at i:57848002 original size:2 final size:2
Alignment explanation
Indices: 57847997--57848030 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
57847987 TATATACATA
57847997 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
57848031 GGCATTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:57850638 original size:6 final size:6
Alignment explanation
Indices: 57850624--57850666 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
57850614 ACCGTGCCCG
* *
57850624 ACATAT ACATGT ACATAT ACATAT ACATAT ACATAT ACGTAT A
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT A
57850667 TAACACTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:57851256 original size:17 final size:16
Alignment explanation
Indices: 57851234--57851267 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57851224 TCAACAATTC
57851234 GAAGAAAAAAAAAAGAA
1 GAAG-AAAAAAAAAGAA
*
57851251 GAAGAAGAAAAAAGAA
1 GAAGAAAAAAAAAGAA
57851267 G
1 G
57851268 CTTATGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
GAAGAAAAAAAAAGAA
Found at i:57851375 original size:13 final size:13
Alignment explanation
Indices: 57851348--57851385 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
57851338 GTGGTAGATA
*
57851348 AATTCATTTTCTGT
1 AATT-ATTTTTTGT
57851362 AATTATTTTTTGT
1 AATTATTTTTTGT
57851375 AATTATTTTTT
1 AATTATTTTTT
57851386 AAAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (13 bp):
AATTATTTTTTGT
Found at i:57852018 original size:29 final size:30
Alignment explanation
Indices: 57851985--57852050 Score: 100
Period size: 29 Copynumber: 2.2 Consensus size: 30
57851975 CACCACTAAC
57851985 CATTTTCTGTTACAGA-TGTAACGGA-CTAT
1 CATTTTCTGTTACAGACT-TAACGGAGCTAT
*
57852014 CATTTTCTGTTACAGACTTAACGGAGCTGT
1 CATTTTCTGTTACAGACTTAACGGAGCTAT
57852044 CATTTTC
1 CATTTTC
57852051 CATCCCTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 23 0.68
30 11 0.32
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (30 bp):
CATTTTCTGTTACAGACTTAACGGAGCTAT
Found at i:57853481 original size:21 final size:21
Alignment explanation
Indices: 57853455--57853496 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
57853445 TTTACCCTAG
57853455 TTTTAATTTCAATGTAATTCA
1 TTTTAATTTCAATGTAATTCA
*
57853476 TTTTAATTTCAATGTGATTCA
1 TTTTAATTTCAATGTAATTCA
57853497 AAAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (21 bp):
TTTTAATTTCAATGTAATTCA
Found at i:57854089 original size:60 final size:58
Alignment explanation
Indices: 57853968--57854104 Score: 134
Period size: 60 Copynumber: 2.3 Consensus size: 58
57853958 GAGTTCAACA
* * * * *
57853968 TTTTTTTGTCCAAGTTAAAGCCCTAAATTTAATAATTATTCCCACATTAAGGCTTGTATTT
1 TTTTTTTGTCCAAGTT-AGGCCCTAAACTTAACAATTATTCCCACATT-AGGCTT-AAATT
* * *
57854029 TTTTTTTGTCCAAGTTAGGCCCTAGACTTGACAATTGTTCCCACATT-GGATCTTAAATT
1 TTTTTTTGTCCAAGTTAGGCCCTAAACTTAACAATTATTCCCACATTAGG--CTTAAATT
*
57854088 TTTTGTT-TCCAAGTTAG
1 TTTTTTTGTCCAAGTTAG
57854105 TTCCTGATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
58 12 0.18
59 9 0.14
60 28 0.43
61 16 0.25
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (58 bp):
TTTTTTTGTCCAAGTTAGGCCCTAAACTTAACAATTATTCCCACATTAGGCTTAAATT
Found at i:57855077 original size:56 final size:54
Alignment explanation
Indices: 57854942--57855081 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 54
57854932 TCAGGAATTG
* * * * *
57854942 AAAAAAAAAATTGGGTGCTAGGTCATTGATGGCC-AGCACCCTTGTAATAGATTT
1 AAAAAAAAAATTTGGTGCTGGGACACTGATAGCCGA-CACCCTTGTAATAGATTT
* *
57854996 AAAAAAAAAATTTGGTGCTGGGACACTGATAGCCGACACCTTTGTACTAGATTT
1 AAAAAAAAAATTTGGTGCTGGGACACTGATAGCCGACACCCTTGTAATAGATTT
*
57855050 -TAAAAAAAATTCTAAGGTGCTGGGACACTGAT
1 AAAAAAAAAATT-T--GGTGCTGGGACACTGAT
57855082 GGTCAGGACC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
53 10 0.14
54 46 0.62
55 1 0.01
56 17 0.23
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (54 bp):
AAAAAAAAAATTTGGTGCTGGGACACTGATAGCCGACACCCTTGTAATAGATTT
Found at i:57855977 original size:3 final size:3
Alignment explanation
Indices: 57855969--57856012 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
57855959 AGTAAAAATA
57855969 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
57856013 AGCTATAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:57856034 original size:9 final size:10
Alignment explanation
Indices: 57855969--57856039 Score: 68
Period size: 9 Copynumber: 7.8 Consensus size: 10
57855959 AGTAAAAATA
57855969 TATTATT-AT
1 TATTATTAAT
57855978 TATTATT-AT
1 TATTATTAAT
57855987 TATTATT-AT
1 TATTATTAAT
57855996 TATTATT-AT
1 TATTATTAAT
*
57856005 TATTATTAAGC
1 TATTATTAA-T
57856016 TA-TA--AAT
1 TATTATTAAT
57856023 TA-TATTAAT
1 TATTATTAAT
57856032 TATTATTA
1 TATTATTA
57856040 TATTTTGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
7 4 0.07
8 2 0.04
9 39 0.71
10 8 0.15
11 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (10 bp):
TATTATTAAT
Found at i:57856195 original size:35 final size:32
Alignment explanation
Indices: 57856112--57856200 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 32
57856102 TTAAATAAGT
57856112 ATATTTGTATTATTTATGTA-TAATTAGTGAAAAG
1 ATATTT-TA-TATTTAT-TATTAATTAGTGAAAAG
*
57856146 ATATTTTATATTTATTATTAATTAGT-AAAAT
1 ATATTTTATATTTATTATTAATTAGTGAAAAG
57856177 ATATTTATTAGATATTTATTATTA
1 ATA-TT-TT--ATATTTATTATTA
57856201 TTAAAATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
31 9 0.18
32 17 0.35
33 4 0.08
34 6 0.12
35 13 0.27
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (32 bp):
ATATTTTATATTTATTATTAATTAGTGAAAAG
Found at i:57857307 original size:19 final size:19
Alignment explanation
Indices: 57857283--57857325 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
57857273 TATGTGAATT
57857283 GAAAATTAATTGAAAAGTG
1 GAAAATTAATTGAAAAGTG
*
57857302 GAAAA-TGATTGAAAAGTG
1 GAAAATTAATTGAAAAGTG
57857320 GAAAAT
1 GAAAAT
57857326 GATTGAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (19 bp):
GAAAATTAATTGAAAAGTG
Found at i:57857314 original size:18 final size:18
Alignment explanation
Indices: 57857291--57857332 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
57857281 TTGAAAATTA
57857291 ATTGAAAAGTGGAAAATG
1 ATTGAAAAGTGGAAAATG
57857309 ATTGAAAAGTGGAAAATG
1 ATTGAAAAGTGGAAAATG
57857327 ATTGAA
1 ATTGAA
57857333 TTGAAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (18 bp):
ATTGAAAAGTGGAAAATG
Found at i:57857573 original size:38 final size:38
Alignment explanation
Indices: 57857471--57857603 Score: 117
Period size: 38 Copynumber: 3.4 Consensus size: 38
57857461 GACCTCGAGT
* * *
57857471 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGCTAG-TC
** * * *
57857512 CGATGAGGTACTGGGT-ACCACTTTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
* *
57857549 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTTTACTTCG-GCTAGTC
*
57857587 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
57857604 CCAAATTGGT
Statistics
Matches: 74, Mismatches: 16, Indels: 7
0.76 0.16 0.07
Matches are distributed among these distances:
37 14 0.19
38 42 0.57
39 3 0.04
40 1 0.01
41 14 0.19
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
Found at i:57858825 original size:90 final size:90
Alignment explanation
Indices: 57858716--57858926 Score: 262
Period size: 90 Copynumber: 2.3 Consensus size: 90
57858706 ATTGTAGTCA
* * * * * *
57858716 GTATTATTTTTTGGTCAAATTTTATATTTTCGTATATCAGTTTTGTAAAATATTTGTGTTATTTT
1 GTATTATTTGTTGATCAAATTTTATATTTTCGTATATCAATTTTCTAAAATATTCGTATTATTTT
*
57858781 TGGATCTGTAAA-AATATTTTAGAAC
66 TGGATCTGTAAATAA-AATTTAGAAC
* * *
57858806 GTATTATTTGTCGATCAAATTTTATATTTTTGTATATCAATTTTCTAAAATGTTCGTATTATTTT
1 GTATTATTTGTTGATCAAATTTTATATTTTCGTATATCAATTTTCTAAAATATTCGTATTATTTT
* ***
57858871 TGTATCTGTAAATAAAATTTAGTTG
66 TGGATCTGTAAATAAAATTTAGAAC
**
57858896 GTATTATTTGTTGATTGAATTTTATATTTTC
1 GTATTATTTGTTGATCAAATTTTATATTTTC
57858927 ATTTTGTAGA
Statistics
Matches: 102, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
90 100 0.98
91 2 0.02
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (90 bp):
GTATTATTTGTTGATCAAATTTTATATTTTCGTATATCAATTTTCTAAAATATTCGTATTATTTT
TGGATCTGTAAATAAAATTTAGAAC
Found at i:57858970 original size:16 final size:17
Alignment explanation
Indices: 57858945--57858978 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
57858935 GAATGCTTGT
57858945 ATTTTCTTATATATGTA
1 ATTTTCTTATATATGTA
*
57858962 ATTTT-TTATATCTGTA
1 ATTTTCTTATATATGTA
57858978 A
1 A
57858979 ATAAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTTTCTTATATATGTA
Found at i:57862044 original size:16 final size:16
Alignment explanation
Indices: 57862023--57862057 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
57862013 TTAATTATGA
57862023 ATATTAATATTCATGG
1 ATATTAATATTCATGG
*
57862039 ATATTACTATTCATGG
1 ATATTAATATTCATGG
57862055 ATA
1 ATA
57862058 GATGAGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATTAATATTCATGG
Found at i:57872231 original size:2 final size:2
Alignment explanation
Indices: 57872224--57872254 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57872214 AGCGTTTTTA
57872224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57872255 ATAAACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57874501 original size:22 final size:21
Alignment explanation
Indices: 57874473--57874515 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
57874463 CCATCTGAAA
57874473 TAATAATT-TTAATTGATTTTTT
1 TAATAATTATT-ATT-ATTTTTT
57874495 TAATAATTATTATTATTTTTT
1 TAATAATTATTATTATTTTTT
57874516 ATCAACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 11 0.55
23 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TAATAATTATTATTATTTTTT
Found at i:57875693 original size:26 final size:26
Alignment explanation
Indices: 57875664--57875715 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
57875654 TATACATTAA
57875664 TTTTA-AACATAATTTAGTTAATTTAT
1 TTTTATAACATAA-TTAGTTAATTTAT
* *
57875690 TTTTATAATATCATTAGTTAATTTAT
1 TTTTATAACATAATTAGTTAATTTAT
57875716 ATACTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTTATAACATAATTAGTTAATTTAT
Found at i:57875724 original size:26 final size:26
Alignment explanation
Indices: 57875677--57875726 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
57875667 TAAACATAAT
**
57875677 TTAGTTAATTTATTTTTATAATATCA
1 TTAGTTAATTTATTACTATAATATCA
57875703 TTAGTTAATTTATATACT-TAATAT
1 TTAGTTAATTTAT-TACTATAATAT
57875727 TGTTAACGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (26 bp):
TTAGTTAATTTATTACTATAATATCA
Found at i:57879875 original size:20 final size:20
Alignment explanation
Indices: 57879852--57879891 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57879842 TATTCAAACT
* *
57879852 ATATTACTTGAATAGTTATA
1 ATATTACATGAATAATTATA
*
57879872 ATATTAGATGAATAATTATA
1 ATATTACATGAATAATTATA
57879892 TGTCTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (20 bp):
ATATTACATGAATAATTATA
Found at i:57882556 original size:11 final size:11
Alignment explanation
Indices: 57882540--57882567 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
57882530 TGACTTTGGA
57882540 GTATGTATTTT
1 GTATGTATTTT
57882551 GTATGTATTTT
1 GTATGTATTTT
57882562 GTATGT
1 GTATGT
57882568 TAGACTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (11 bp):
GTATGTATTTT
Found at i:57882752 original size:15 final size:16
Alignment explanation
Indices: 57882732--57882761 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57882722 CAATATTGCC
57882732 TTGTTTTGGT-TAAAG
1 TTGTTTTGGTATAAAG
57882747 TTGTTTTGGTATAAA
1 TTGTTTTGGTATAAA
57882762 TGATGTGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (16 bp):
TTGTTTTGGTATAAAG
Found at i:57886299 original size:18 final size:18
Alignment explanation
Indices: 57886262--57886313 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
57886252 AAAAGTCTAG
*
57886262 AAAAATACAAATAAACAA
1 AAAAATAAAAATAAACAA
57886280 AAAAATAAAAATAAGA-AA
1 AAAAATAAAAATAA-ACAA
*
57886298 AAATATAAAAAATAAA
1 AAAAAT-AAAAATAAA
57886314 TGGATTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (18 bp):
AAAAATAAAAATAAACAA
Found at i:57887962 original size:22 final size:22
Alignment explanation
Indices: 57887936--57887999 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
57887926 AAACATAAAA
**
57887936 AATAAACTTATATTAATAAATG
1 AATAAACAAATATTAATAAATG
* *
57887958 AATAAACAAATATTAATATATT
1 AATAAACAAATATTAATAAATG
* *
57887980 AATAAATAAATGAATAATAA
1 AATAAACAAAT-ATTAATAA
57888000 TAATAATAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (22 bp):
AATAAACAAATATTAATAAATG
Found at i:57888000 original size:3 final size:3
Alignment explanation
Indices: 57887992--57888077 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
57887982 TAAATAAATG
57887992 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57888040 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
57888078 GAGAAGAAAT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57890183 original size:42 final size:43
Alignment explanation
Indices: 57890077--57890193 Score: 166
Period size: 43 Copynumber: 2.7 Consensus size: 43
57890067 TACCAGTGCT
* *
57890077 ATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCA
1 ATATCCCAGATATGGTCTTACATGTAATCTCATATCAATGCCA
* *
57890120 ATAGCCCAGCTATGGTCTTACATG-AAGTCTCATATCAATGCC-
1 ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCAATGCCA
*
57890162 ATATCCCAGATATAGTCTTACATGTAATCTCA
1 ATATCCCAGATATGGTCTTACATGTAATCTCA
57890194 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
42 28 0.43
43 37 0.57
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACATGTAATCTCATATCAATGCCA
Found at i:57894330 original size:7 final size:7
Alignment explanation
Indices: 57894297--57894328 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
57894287 ACATTTCTAA
57894297 TCATCCC
1 TCATCCC
57894304 TCATCCC
1 TCATCCC
57894311 TCATCCC
1 TCATCCC
*
57894318 TCATTCC
1 TCATCCC
57894325 TCAT
1 TCAT
57894329 TCATTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.50, G:0.00, T:0.34
Consensus pattern (7 bp):
TCATCCC
Found at i:57895648 original size:13 final size:13
Alignment explanation
Indices: 57895626--57895658 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
57895616 AAGTTTCACG
57895626 TTCTTCTTTTTT-T
1 TTCTT-TTTTTTCT
57895639 TTCTTTTTTTTCT
1 TTCTTTTTTTTCT
57895652 TTCTTTT
1 TTCTTTT
57895659 CTTCCTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTCTTTTTTTTCT
Found at i:57900331 original size:29 final size:29
Alignment explanation
Indices: 57900289--57900359 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
57900279 GTTCTTCAGC
*
57900289 ATAGTTTGATTTGATTGTTAATTGGTGTG
1 ATAGTTTGATTTGATTGTTAATTGGTGCG
57900318 ATAGTTTGATTTGATTGTTAATTGGTGCG
1 ATAGTTTGATTTGATTGTTAATTGGTGCG
57900347 A-A--TTGATTTGATT
1 ATAGTTTGATTTGATT
57900360 AAATCATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 11 0.27
28 1 0.02
29 29 0.71
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (29 bp):
ATAGTTTGATTTGATTGTTAATTGGTGCG
Found at i:57900697 original size:63 final size:63
Alignment explanation
Indices: 57900530--57900827 Score: 300
Period size: 63 Copynumber: 4.7 Consensus size: 63
57900520 GCCACACGGC
* * * *
57900530 TGTGTGTC-AGGCCGTGTAACTCACTGTTTGTGAATTAAGGTCACATAGGTTAGAA-ACACGAG
1 TGTGTGTCTAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACATGGGCTA-AAGACACGAG
** * * * * * *
57900592 CATGTGTCTAGGC-ATGCAACTCATTGTTTGTGAATTAGGGTCACATGGGCTAAAGATATGGG
1 TGTGTGTCTAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACATGGGCTAAAGACACGAG
* * * *
57900654 TGTGTGTCTAGGCTGTGTAATTCACTGTTTGTGAATTAGGGTCAGACGGGC-AAGAGACACGAA
1 TGTGTGTCTAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACATGGGCTAA-AGACACGAG
* * * * *
57900717 TGTGTGTCCAGGCTGTATAACTCACTATTTTTTGAATTAGGGTCACACGGGGCTAAAGACACCG-
1 TGTGTGTCTAGGCTGTGTAACTCACT-GTTTGTGAATTAGGGTCACA-TGGGCTAAAGACA-CGA
57900781 G
63 G
* * *
57900782 CGTGTGTCTAGGCTGTGTAACTCACTATTTATGAATTAGGGTCACA
1 TGTGTGTCTAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACA
57900828 CGATCCAAAG
Statistics
Matches: 192, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
61 2 0.01
62 56 0.29
63 63 0.33
64 35 0.18
65 32 0.17
66 4 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (63 bp):
TGTGTGTCTAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACATGGGCTAAAGACACGAG
Found at i:57900807 original size:128 final size:125
Alignment explanation
Indices: 57900526--57900828 Score: 333
Period size: 125 Copynumber: 2.4 Consensus size: 125
57900516 GTAAGCCACA
* * * **
57900526 CGGCTGTGTGTC-AGGCCGTGTAACTCACTGTTTGTGAATTAAGGTCACATAGGTTAGAAACACG
1 CGGC-GTGTGTCTAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCAAGAAACACG
* * * * *
57900590 AGCATGTGTCTAGGCATGCAACTCATTGTTTGTGAATTAGGGTCACATGGGCTAAAGATAT
65 AACATGTGTCCAGGCATGCAACTCATTGTTTGTGAATTAGGGTCACAGGGGCTAAAGACAC
* * * * * *
57900651 GGGTGTGTGTCTAGGCTGTGTAATTCACTGTTTGTGAATTAGGGTCAGACGGGCAAGAGACACGA
1 CGGCGTGTGTCTAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCAAGAAACACGA
** * *
57900716 ATGTGTGTCCAGGC-TGTATAACTCACTAT-TTTTTGAATTAGGGTCACACGGGGCTAAAGACAC
66 ACATGTGTCCAGGCATG--CAACTCA-T-TGTTTGTGAATTAGGGTCACA-GGGGCTAAAGACAC
* *
57900779 CGGCGTGTGTCTAGGCTGTGTAACTCACTATTTATGAATTAGGGTCACAC
1 CGGCGTGTGTCTAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACAC
57900829 GATCCAAAGA
Statistics
Matches: 146, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
124 9 0.06
125 56 0.38
126 6 0.04
127 19 0.13
128 56 0.38
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (125 bp):
CGGCGTGTGTCTAGGCTGTGTAACTCACTGTTTGTGAATTAGGGTCACACAGGCAAGAAACACGA
ACATGTGTCCAGGCATGCAACTCATTGTTTGTGAATTAGGGTCACAGGGGCTAAAGACAC
Found at i:57900865 original size:61 final size:63
Alignment explanation
Indices: 57900658--57900872 Score: 208
Period size: 64 Copynumber: 3.4 Consensus size: 63
57900648 TATGGGTGTG
* * * * *
57900658 TGTCTAGGCTGTGTAATTCACTGTTTGTGAATTAGGGTCAGACGG-G-CAAGAGACACGAATGTG
1 TGTCTAGGCTGTGTAACTCACTATTTATGAATTAGGGTCACACGGAGCCAA-AGACAC-AA-GCG
57900721 -
63 A
* * * * * ** *
57900721 TGTCCAGGCTGTATAACTCACTATTTTTTGAATTAGGGTCACACGGGGCTAAAGACACCGGCGTG
1 TGTCTAGGCTGTGTAACTCACTA-TTTATGAATTAGGGTCACACGGAGCCAAAGACACAAGCG-A
*
57900786 TGTCTAGGCTGTGTAACTCACTATTTATGAATTAGGGTCACAC-GATCCAAAGACACAAGC-A
1 TGTCTAGGCTGTGTAACTCACTATTTATGAATTAGGGTCACACGGAGCCAAAGACACAAGCGA
57900847 TGTCTAGG-TCGTGTAACTCACTATTT
1 TGTCTAGGCT-GTGTAACTCACTATTT
57900873 TAAGCTACAC
Statistics
Matches: 127, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
60 1 0.01
61 24 0.19
63 33 0.26
64 39 0.31
65 28 0.22
66 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (63 bp):
TGTCTAGGCTGTGTAACTCACTATTTATGAATTAGGGTCACACGGAGCCAAAGACACAAGCGA
Found at i:57902726 original size:31 final size:31
Alignment explanation
Indices: 57902668--57902749 Score: 78
Period size: 31 Copynumber: 2.6 Consensus size: 31
57902658 AATTATGTTG
*
57902668 ATGA-TATTTTAA-ATTAATTAATTAGATAAAT
1 ATGATTATTTTAATATT--TTAATAAGATAAAT
* * **
57902699 ATTATTTTTTTAATATTTTAATAAGATATTT
1 ATGATTATTTTAATATTTTAATAAGATAAAT
*
57902730 ATGATTATTTTATTATTTTA
1 ATGATTATTTTAATATTTTA
57902750 TTTAGTATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
31 31 0.76
32 7 0.17
33 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (31 bp):
ATGATTATTTTAATATTTTAATAAGATAAAT
Found at i:57907254 original size:16 final size:16
Alignment explanation
Indices: 57907233--57907263 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57907223 TTTGCTATTA
*
57907233 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
57907249 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
57907264 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:57908751 original size:24 final size:24
Alignment explanation
Indices: 57908723--57908768 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
57908713 CGGTGGTGCC
57908723 GGCGGTTGCGTCA-CAATGGTTGGT
1 GGCGGTTG-GTCATCAATGGTTGGT
*
57908747 GGCGGTTGGTCATCAGTGGTTG
1 GGCGGTTGGTCATCAATGGTTG
57908769 AGTAGTGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.11, C:0.15, G:0.43, T:0.30
Consensus pattern (24 bp):
GGCGGTTGGTCATCAATGGTTGGT
Found at i:57912735 original size:26 final size:26
Alignment explanation
Indices: 57912701--57912753 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
57912691 CAAAATTACG
*
57912701 TTTTTGCCCCTAAACTTTGTCATATT
1 TTTTTGCCCCTAAACTTTATCATATT
*
57912727 TTTTTGCCCCTAAATTTTATCATATT
1 TTTTTGCCCCTAAACTTTATCATATT
57912753 T
1 T
57912754 ACACTTTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.53
Consensus pattern (26 bp):
TTTTTGCCCCTAAACTTTATCATATT
Found at i:57920644 original size:40 final size:40
Alignment explanation
Indices: 57920587--57920754 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
57920577 CAATTGAATG
* * * *
57920587 ATATCCGGGTTACGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATT
57920627 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGATT
* * * *
57920667 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATT
** *
57920707 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGATT
57920747 ATATCCGG
1 ATATCCGG
57920755 TTGTATTCCA
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
39 6 0.05
40 100 0.91
41 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATT
Done.