Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 42 of 290
Found at i:13814840 original size:3 final size:3
Alignment explanation
Indices: 13814832--13814857 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13814822 ATAACTTCCT
13814832 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
13814858 TAAATATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13821035 original size:17 final size:16
Alignment explanation
Indices: 13821015--13821048 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13821005 TTCATAAGTA
*
13821015 TATATCATTCATTTCAT
1 TATATCAAT-ATTTCAT
13821032 TATATCAATATTTCAT
1 TATATCAATATTTCAT
13821048 T
1 T
13821049 GTCTATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATCAATATTTCAT
Found at i:13821590 original size:138 final size:138
Alignment explanation
Indices: 13821336--13821645 Score: 413
Period size: 138 Copynumber: 2.2 Consensus size: 138
13821326 GACATGATGT
* ** * * *
13821336 CATAGTGTCTTTCAATTATGGTCTTACTCATTTTCTGTAATGTTGCCATGGTAACTTTCAACCAT
1 CATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTAATGTTGCCATGGTAACTCTCAACCAT
* * * * ** *
13821401 GGTCTTATTCGTTTCATGTCACGTTGTCATGGTATCTTTCAGCCATGGTCTTATTCATTTCATGT
66 GGTCTTATTCGTTTCATGTCACATTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
13821466 CACACTAC
131 CACACTAC
* * *
13821474 CATAGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTCTCAACCAT
1 CATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTAATGTTGCCATGGTAACTCTCAACCAT
*
13821539 GGTCTTATTCTTTTCATGTCACATTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
66 GGTCTTATTCGTTTCATGTCACATTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
*** *
13821604 CATGTTGC
131 CACACTAC
* *
13821612 CATGGTATCTTTCAACCATGGTCTTACACATTTC
1 CATAGTATCTTTCAACCATGGTCTTACTCATTTC
13821646 ATTTCAGAGA
Statistics
Matches: 148, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
138 148 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (138 bp):
CATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTAATGTTGCCATGGTAACTCTCAACCAT
GGTCTTATTCGTTTCATGTCACATTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
CACACTAC
Found at i:13821638 original size:46 final size:46
Alignment explanation
Indices: 13821343--13821647 Score: 360
Period size: 46 Copynumber: 6.6 Consensus size: 46
13821333 TGTCATAGTG
** * * *
13821343 TCTTTCAATTATGGTCTTACTCATTTTC-TGTAATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTTGCCATGGTA
* * *
13821389 ACTTTCAACCATGGTCTTATTCGTTTCATGTCACGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
* ** * *
13821435 TCTTTCAGCCATGGTCTTATTCATTTCATGTCACACTACCATAGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
** *
13821481 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
* * *
13821527 TCTCTCAACCATGGTCTTATTCTTTTCATGTCACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
* ** * *
13821573 TCTTTCAACCATAGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
**
13821619 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTATTCATTTCAT
13821648 TTCAGAGAGC
Statistics
Matches: 219, Mismatches: 39, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
45 4 0.02
46 215 0.98
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
Found at i:13823504 original size:11 final size:11
Alignment explanation
Indices: 13823488--13823535 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
13823478 CTTTATATAC
13823488 TAATAAAATAA
1 TAATAAAATAA
*
13823499 TAATAAAATATCT
1 TAATAAAATA--A
* *
13823512 TATTAAAATAT
1 TAATAAAATAA
13823523 TAATAAAATAA
1 TAATAAAATAA
13823534 TA
1 TA
13823536 TTTATTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13824714 original size:54 final size:54
Alignment explanation
Indices: 13824646--13824767 Score: 199
Period size: 54 Copynumber: 2.3 Consensus size: 54
13824636 AACGTAAATG
**
13824646 TTAATATGAAATGAATGTAAGGTCAGCTATTGTTATGGCTAACAAATCTTGGTT
1 TTAATATGTGATGAATGTAAGGTCAGCTATTGTTATGGCTAACAAATCTTGGTT
*
13824700 TTAATATGTGATGAATGTAAGGTCAGCTATTGTTATGGCTAGCAAATCTTGGTT
1 TTAATATGTGATGAATGTAAGGTCAGCTATTGTTATGGCTAACAAATCTTGGTT
**
13824754 TTGGTATGTGATGA
1 TTAATATGTGATGA
13824768 GGTTATCTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.39
Consensus pattern (54 bp):
TTAATATGTGATGAATGTAAGGTCAGCTATTGTTATGGCTAACAAATCTTGGTT
Found at i:13845512 original size:8 final size:8
Alignment explanation
Indices: 13845499--13845532 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
13845489 TCTTACGAAG
13845499 ATATTAAA
1 ATATTAAA
13845507 ATATTAAA
1 ATATTAAA
*
13845515 ATA-TAGA
1 ATATTAAA
13845522 ATATTAAA
1 ATATTAAA
13845530 ATA
1 ATA
13845533 GCATTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (8 bp):
ATATTAAA
Found at i:13856451 original size:26 final size:26
Alignment explanation
Indices: 13856374--13856461 Score: 108
Period size: 25 Copynumber: 3.5 Consensus size: 26
13856364 TAGCTCTTAT
* *
13856374 GAGCTTACTGTTA-TTCAACTCGGAG
1 GAGCTTACCGTTATTTCAGCTCGGAG
* **
13856399 GAGCTTATCGTTATTT-AGCTCAAAG
1 GAGCTTACCGTTATTTCAGCTCGGAG
*
13856424 GAGCTTACCATTATTTCAGCTCGGAG
1 GAGCTTACCGTTATTTCAGCTCGGAG
13856450 GAGCTTACCGTT
1 GAGCTTACCGTT
13856462 TACAGCTCGT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
25 31 0.61
26 20 0.39
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (26 bp):
GAGCTTACCGTTATTTCAGCTCGGAG
Found at i:13860557 original size:22 final size:23
Alignment explanation
Indices: 13860495--13860570 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
13860485 ATTTAAGTTA
*
13860495 TAAAATTGTTTGATAAAT-TACT
1 TAAAATTGTTTGATAAATATAAT
** *
13860517 TAAAATTAATT-ATGCAATATAAT
1 TAAAATTGTTTGAT-AAATATAAT
13860540 T-AAATTGTTTGATAAATATAAAAT
1 TAAAATTGTTTGATAAATAT--AAT
13860564 TAAAATT
1 TAAAATT
13860571 ATAAAGAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.05
22 24 0.59
23 6 0.15
24 4 0.10
25 5 0.12
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (23 bp):
TAAAATTGTTTGATAAATATAAT
Found at i:13860953 original size:13 final size:13
Alignment explanation
Indices: 13860937--13860962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13860927 CATAGAAATA
13860937 GTACTTGAAGTTG
1 GTACTTGAAGTTG
13860950 GTACTTGAAGTTG
1 GTACTTGAAGTTG
13860963 AAAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
GTACTTGAAGTTG
Found at i:13873246 original size:17 final size:17
Alignment explanation
Indices: 13873211--13873249 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13873201 AAAGATAGTT
* *
13873211 TTAAAATATATTAATAA
1 TTAAAATATATCAAAAA
*
13873228 TTAAAATATGTCAAAAA
1 TTAAAATATATCAAAAA
13873245 TTAAA
1 TTAAA
13873250 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
TTAAAATATATCAAAAA
Found at i:13877326 original size:178 final size:177
Alignment explanation
Indices: 13876865--13877849 Score: 1276
Period size: 178 Copynumber: 5.6 Consensus size: 177
13876855 TTAGAAAGAT
* * * * * * *
13876865 TAAGGCTGGTGGTAAAATATGCTCTATTGCCGATACATGGAGATAAAATCCACCATCTTCGATCT
1 TAAGGCTGGCGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCTTCTTCGATCT
* * *
13876930 GCTCCACTGCAACTTCAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTTAGAA
66 GCTCCGCTACAACTTCAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAGAA
* *
13876995 AGATAAGACTTAATTCTTCAACCTGCTCTCTTGCTACCTCAAAGAGA
131 AGATAAGACTCAATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGA
* * * * *
13877042 TATGGCTGGCGGTAGAATCTGCTACATTGCTGATAGATGGAGATAAGATTCGCCTTCTTCGATCT
1 TAAGGCTGGCGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCTTCTTCGATCT
* * *
13877107 GCTCTGCTACAACTTTAGGGAGATAAAATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAGAA
66 GCTCCGCTACAACTTCAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAGAA
* * *
13877172 AGATAAGACTCAATTTTTCAACCCGTTCTCTTGCTACCTCAGAGAGA
131 AGATAAGACTCAATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGA
* * * * *
13877219 TGAGGCTGGCGGTAAAAATATGCTCCATTGCTGATAGATGGAGATAAGATTCGCCTTCTTCAATC
1 TAAGGCTGGCGGT-AAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCTTCTTCGATC
* *
13877284 TGCTCCGCTACAACTTTAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACGTCAGA
65 TGCTCCGCTACAACTTCAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAGA
*
13877349 AAGATAAGACTCAATTCTTCAACCCGCTCTCTTGCTACCTCAGAGAGA
130 AAGATAAGACTCAATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGA
*
13877397 TAAGGCTGGCGGTAAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATC
1 TAAGGCTGGCGGT-AAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCTTCTTCGATC
* * * * * * * *
13877462 TGTTCTGCTACAACTTTAGGGAGATAAAATCTTCAATCTTTAGTCTACTTCCTTACTACCTCAGG
65 TGCTCCGCTACAACTTCAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAGA
* * * * ** *
13877527 AAGATAAAAC-CAATATCTTCAACCTGTTC-CACTGCAATTTCAGGGAGA
130 AAGATAAGACTCAAT-TCTTCAACCTGCTCTC-TTGCTACCTCAGAGAGA
* * * * * * * * *
13877575 TAAGGCTGGTGACTTAAATCTGCTCCATTACCGGTACATGGAGATAAGATTTGTCGTCCTCGATC
1 TAAGGCTGGCG-GTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCTTCTTCGATC
* * * *
13877640 TGCTCCGCTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGG
65 TGCTCCGCTACAACTTCAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAGA
* *
13877705 AAGATAAGACTC-ATTCTTCAACCTGCTCTCTTACTATCTCAGAGAGA
130 AAGATAAGACTCAATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGA
* * * *
13877752 TAAGGCTGGTGGTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTC-ACTATATTCGATC
1 TAAGGCTGGCGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCT-TCTTCGATC
* *
13877816 TGCTCCTCTGCAACTTCAGGGAGATAAGATCTTC
65 TGCTCCGCTACAACTTCAGGGAGATAAGATCTTC
13877850 CTTTATCAAT
Statistics
Matches: 712, Mismatches: 89, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
175 1 0.00
176 76 0.11
177 206 0.29
178 427 0.60
179 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (177 bp):
TAAGGCTGGCGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCTTCTTCGATCT
GCTCCGCTACAACTTCAGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAGAA
AGATAAGACTCAATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGA
Found at i:13877704 original size:45 final size:43
Alignment explanation
Indices: 13877655--13877755 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
13877645 CGCTGCAACT
** *
13877655 TCAGGGAGATAAGATCTTCAATCTTCAGTCTGCT-TCCTTGCTACC
1 TCAGGGAGATAAGA-C-TCAATCTTCAACCTGCTCT-CTTACTACC
* * *
13877700 TCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTACTATC
1 TCAGGGAGATAAGACTCAATCTTCAACCTGCTCTCTTACTACC
*
13877743 TCAGAGAGATAAG
1 TCAGGGAGATAAG
13877756 GCTGGTGGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
43 32 0.68
44 2 0.04
45 13 0.28
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (43 bp):
TCAGGGAGATAAGACTCAATCTTCAACCTGCTCTCTTACTACC
Found at i:13880443 original size:46 final size:47
Alignment explanation
Indices: 13880356--13880458 Score: 154
Period size: 46 Copynumber: 2.2 Consensus size: 47
13880346 CACATGAATT
* *
13880356 ATTCCTGTCTCCAATGCCATATATATATAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCA-ATATATATAATATGGACTTACATGGCTC
*
13880404 ATTCCTGTCTCCAAAGCC-ATATATATGATATGGACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCAATATATATAATATGGACTTACATGGCTC
*
13880450 ATTTCTGTC
1 ATTCCTGTC
13880459 CTGTCCTGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 34 0.67
48 17 0.33
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATTCCTGTCTCCAAAGCCAATATATATAATATGGACTTACATGGCTC
Found at i:13887826 original size:46 final size:47
Alignment explanation
Indices: 13887722--13887841 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 47
13887712 TGTCTTCGAC
** *
13887722 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAATGCCA-ATATATATAAT
* * **
13887770 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAT-CC-ATATATCTGGT
1 ATGGACTTACATGGCTCATTCCTGTCTCC-AATGCCAATATATATAAT
*
13887816 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
13887842 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 32 0.52
48 27 0.44
49 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAATGCCAATATATATAAT
Found at i:13896414 original size:19 final size:19
Alignment explanation
Indices: 13896390--13896429 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13896380 TATGGTCTTT
*
13896390 AATGCATATG-ATGTAATGC
1 AATGCAAATGCATG-AATGC
13896409 AATGCAAATGCATGAATGC
1 AATGCAAATGCATGAATGC
13896428 AA
1 AA
13896430 ATGAGACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (19 bp):
AATGCAAATGCATGAATGC
Found at i:13898433 original size:46 final size:46
Alignment explanation
Indices: 13898383--13898558 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 46
13898373 TGTTTGGGCA
* *
13898383 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
13898429 TCCGAACTCGTTGAGTTTAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * * * *
13898476 TCCGAGCTTGTTGAGTTGATTCCGAGTTCACTTATGAATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
13898522 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13898559 GTGAGTTACA
Statistics
Matches: 98, Mismatches: 29, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
46 66 0.67
47 32 0.33
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:13898538 original size:93 final size:93
Alignment explanation
Indices: 13898379--13898550 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
13898369 AGGATGTTTG
* * * * *
13898379 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGCCCGAACTCATTGAG
*
13898444 TTTAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
13898472 GGCATCCGAGCTTGTTGAGTTGATTCCGAGTTCACTTATGAATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGCCCGAACTCATTGAG
13898537 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13898551 ACTTATGGGT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:13899743 original size:15 final size:15
Alignment explanation
Indices: 13899723--13899791 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
13899713 GTATCTTGGG
13899723 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
13899738 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
13899753 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
13899768 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
13899783 TTTCTTTAT
1 TTTCTTTAT
13899792 TCGATTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:13899792 original size:30 final size:30
Alignment explanation
Indices: 13899714--13899793 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
13899704 CATAATATCG
* * *
13899714 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
13899744 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
13899774 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
13899794 GATTTTCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:13902011 original size:47 final size:47
Alignment explanation
Indices: 13901956--13902321 Score: 633
Period size: 47 Copynumber: 7.8 Consensus size: 47
13901946 ATTTAGGATT
*
13901956 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
13902003 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
13902050 CGATCTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
13902097 CGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
13902144 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
13902191 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
13902238 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
13902285 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
13902322 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 304 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:13902496 original size:37 final size:37
Alignment explanation
Indices: 13902440--13902518 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
13902430 CCGAGCTCTA
* * * *
13902440 AAGACCCGATGACTACGTGTGGGGATTTTGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
13902477 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13902514 AAGAC
1 AAGAC
13902519 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13904512 original size:78 final size:78
Alignment explanation
Indices: 13904369--13904813 Score: 388
Period size: 79 Copynumber: 5.6 Consensus size: 78
13904359 TCGAATGATG
* * *
13904369 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-AAGTGACTATATCCGGGCTAAG-TCCGAAGGCATT
*
13904433 TGTGTGAGTTACTA-A
63 TGTGCGAGTTACTATA
* * * * *
13904448 TTCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCGAAGGCATTCGTGCAAGTGACTATATCCGGGCTAAGTCCGAAGGCATTTG
13904513 TGCGAGTTACTATA
65 TGCGAGTTACTATA
* * *
13904527 ACCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGA-TGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCGAAG-GCATTCGTGCAAGTGACTATATCCGGGCTAAGT-CCGAAG-GCATT
** * * *
13904591 CATGCTAGTGA-TGTA
63 TGTGCGAGTTACTATA
* *
13904606 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TGTATCCGGGCTAAGTCCCGAAGAGCA-
1 TCCGGGCTAAG-TCCGAAG-GCATTCGTGCAAGTGACTATATCCGGGCTAAGT-CCGAAG-GCAT
* * * *
13904669 TTCTGCTAGTGA-TGTA
62 TTGTGCGAGTTACTATA
* *
13904685 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TGTATCCGGGCTAAGTCCGAAGAGCATT
1 TCCGGGCTAAG-TCCGAAG-GCATTCGTGCAAGTGACTATATCCGGGCTAAGTCCGAAG-GCATT
** * * *
13904749 CATGCTAGTGA-TGTA
63 TGTGCGAGTTACTATA
* *
13904764 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TATATCCGTGCTAA
1 TCCGGGCTAAG-TCCGAAG-GCATTCGTGCAAGTGACTATATCCGGGCTAA
13904814 ACCCCGAAGA
Statistics
Matches: 331, Mismatches: 27, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
78 65 0.20
79 185 0.56
80 81 0.24
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCAAGTGACTATATCCGGGCTAAGTCCGAAGGCATTTGT
GCGAGTTACTATA
Found at i:13904688 original size:79 final size:80
Alignment explanation
Indices: 13904449--13904866 Score: 571
Period size: 79 Copynumber: 5.3 Consensus size: 80
13904439 AGTTACTAAT
* * * ** *
13904449 TCCGGGCTAAG-TCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGTTAAGT-CCGAAG-GCAT
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TGTATCCGGGCTAAGTCCCGAAGAGCAT
** * * *
13904510 TTGTGCGAGTTACTATA
65 TCATGCTAGTGA-TGTA
*
13904527 ACCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
13904591 CATGCTAGTGATGTA
66 CATGCTAGTGATGTA
13904606 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
13904671 C-TGCTAGTGATGTA
66 CATGCTAGTGATGTA
13904685 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT-CCGAAGAGCATT
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
13904749 CATGCTAGTGATGTA
66 CATGCTAGTGATGTA
* * **
13904764 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATT
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
* * * *
13904829 CGTGCTGGTGTTATA
66 CATGCTAGTGATGTA
* *
13904844 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTTCCGAAGAGCA
13904867 ATCATGCTGG
Statistics
Matches: 311, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
78 43 0.14
79 158 0.51
80 110 0.35
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
CATGCTAGTGATGTA
Found at i:13904834 original size:119 final size:119
Alignment explanation
Indices: 13904449--13904879 Score: 557
Period size: 119 Copynumber: 3.6 Consensus size: 119
13904439 AGTTACTAAT
* * * ** *
13904449 TCCGGGCTAAGT-CCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAG-GCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TGTATCCGGGCTAAGTCCGAAGAGCATT
** * * * *
13904511 TGTGCGAGTTACTATAACCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATGTA
65 CATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
13904566 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TCCGAAGAGCATT
* *
13904631 CGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTC-TGCTAGTGATGTA
65 CATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
*
13904685 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTC
*
13904750 ATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
66 ATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * * * *
13904804 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT-CCGAAGAGCATT
*
13904869 CATGCTGGTGA
65 CATGCTAGTGA
13904880 CGTGTATTCG
Statistics
Matches: 279, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
117 12 0.04
118 70 0.25
119 150 0.54
120 47 0.17
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTC
ATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:13904878 original size:40 final size:40
Alignment explanation
Indices: 13904369--13904866 Score: 554
Period size: 40 Copynumber: 12.6 Consensus size: 40
13904359 TCGAATGATG
* **
13904369 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* * * *
13904409 TCCGGACTAAGAT-CCGAAG-GCATTTGTG-TGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* * * **
13904448 TTCCGGGCTAAGT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* * * * *
13904488 TCCGGGTTAAGT-CCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TGTA
*
13904527 ACCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13904566 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13904606 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
13904646 TCCGGGCTAAGTCCCGAAGAGCATTC-TGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13904685 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13904725 TCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
13904764 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * *
13904804 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13904844 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
13904867 ATCATGCTGG
Statistics
Matches: 413, Mismatches: 36, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
39 165 0.40
40 241 0.58
41 7 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:13907817 original size:47 final size:47
Alignment explanation
Indices: 13907761--13908289 Score: 977
Period size: 47 Copynumber: 11.3 Consensus size: 47
13907751 GATGAATGTG
*
13907761 ATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
13907808 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
13907855 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
13907902 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
13907949 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
13907996 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
13908043 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
13908090 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
13908137 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
13908184 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * *
13908231 ATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
13908278 AAATGTGATAAG
1 ATATGTGATAAG
13908290 TCCCGAAGGG
Statistics
Matches: 471, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 471 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:13908464 original size:37 final size:37
Alignment explanation
Indices: 13908408--13908486 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
13908398 CCGAGCTCTA
* * *
13908408 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
13908445 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13908482 AAGAC
1 AAGAC
13908487 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13910307 original size:39 final size:38
Alignment explanation
Indices: 13910163--13910381 Score: 162
Period size: 40 Copynumber: 5.6 Consensus size: 38
13910153 TCGAATGATG
* * * *
13910163 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG--CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
13910203 TCCGGACTAAGATCCGAAGGCATTTGT--GAGTTACTAAT
1 TCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
*
13910241 TCCGGGCTAA-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCGAAGGCATTTGTGCGAGTTACTAAA
*
13910278 TCCGGGTTAAGCCTGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGCC-GAAGGCATTTGTGCGAGTTACTA-AA
* * * **
13910318 -CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TGTA
1 TCCGGGCTAAG--CCGAAG-GCATTTGTGCGAGTTACTAAA
13910357 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAG--CCGAAG-GCATT
13910382 CATCTAGTGA
Statistics
Matches: 149, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
35 13 0.09
37 19 0.13
38 17 0.11
39 32 0.21
40 48 0.32
41 20 0.13
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13910362 original size:40 final size:40
Alignment explanation
Indices: 13910318--13910658 Score: 533
Period size: 40 Copynumber: 8.6 Consensus size: 40
13910308 GTTACTATAA
13910318 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
13910358 CCGGGCTAAGTCCCGAAGAGCATTCAT-CTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
13910397 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
13910437 CCGGGCTAAG-TCCGAAGAGCATTCCTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
13910476 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
13910516 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
*
13910556 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
* *** * * *
13910596 CCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
13910636 CCGGGCTAGGTCCCGAAGAGCAT
1 CCGGGCTAAGTTCCGAAGAGCAT
13910659 CATGCTGGTG
Statistics
Matches: 278, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 75 0.27
40 203 0.73
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:13913614 original size:47 final size:47
Alignment explanation
Indices: 13913558--13913993 Score: 800
Period size: 47 Copynumber: 9.3 Consensus size: 47
13913548 GTGTGAAATG
13913558 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
13913605 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
13913652 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
13913699 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
13913746 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
13913793 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
13913840 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
13913887 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * *
13913934 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
13913981 TAAATGTGATAAG
1 TATATGTGATAAG
13913994 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 379 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:13914168 original size:37 final size:37
Alignment explanation
Indices: 13914112--13914190 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
13914102 CCGAGCTCTA
* * *
13914112 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
13914149 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13914186 AAGAC
1 AAGAC
13914191 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13916558 original size:40 final size:40
Alignment explanation
Indices: 13916045--13916546 Score: 563
Period size: 40 Copynumber: 12.6 Consensus size: 40
13916035 TCGAATGATG
* **
13916045 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* * * *
13916085 TCCGGACTAAGAT-CCGAAG-GCATTTGTG-TGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* * * **
13916124 TTCCGGGCTAAGT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* * * * * *
13916164 TCCGGGTTAAGTCCTGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* *
13916204 ACCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13916244 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13916284 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13916324 TCCGGGCTAAGTCCCGAAGAGCATTCCTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13916364 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13916404 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
13916444 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * *
13916484 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
13916524 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
13916547 ATCATGCTGG
Statistics
Matches: 411, Mismatches: 44, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.08
40 357 0.87
41 20 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:13918476 original size:46 final size:46
Alignment explanation
Indices: 13918426--13918601 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 46
13918416 TGTTTGGGCA
*
13918426 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
13918472 TCCGAACTCCTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * * * *
13918519 TCCGAGCTCGTTGAGTTGATTCCGAGTTCAATTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
13918565 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13918602 GCTGGTTACA
Statistics
Matches: 101, Mismatches: 26, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
46 68 0.67
47 33 0.33
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:13918581 original size:93 final size:93
Alignment explanation
Indices: 13918422--13918593 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
13918412 AGGATGTTTG
* *** *
13918422 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCCTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACACCCGAACTCATTGAG
13918487 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
13918515 GGCATCCGAGCTCGTTGAGTTGATTCCGAGTTCAATTATGGATGCGAACACCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACACCCGAACTCATTGAG
*
13918580 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
13918594 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACACCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:13922835 original size:40 final size:40
Alignment explanation
Indices: 13922744--13922993 Score: 312
Period size: 40 Copynumber: 6.3 Consensus size: 40
13922734 ACCCAATTAT
* * * *
13922744 CTTCGGGATTTAG-CCGG-ATATAATCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGC
* * * *
13922782 CTTCGGGTCTTAGCCCGG-ATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGC
**
13922822 CTTTAGGACTTAGCCC-GAATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGC
13922862 CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
13922902 CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
* * * *
13922942 CTTCGGGACTTAGCCCGGAATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
13922982 CTTCGGGACTTA
1 CTTCGGGACTTA
13922994 ACCCCGTTAG
Statistics
Matches: 190, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 11 0.06
39 18 0.09
40 157 0.83
41 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
Found at i:13926562 original size:49 final size:49
Alignment explanation
Indices: 13926509--13926607 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
13926499 GTACACGATA
13926509 ACTTAAATAATATATAAAATGTGAAAGAATAATAAAAATACATGATAAG
1 ACTTAAATAATATATAAAATGTGAAAGAATAATAAAAATACATGATAAG
13926558 ACTTAAATAATATATAAAATGTGAAAGAATAATAAAAATACATGATAAG
1 ACTTAAATAATATATAAAATGTGAAAGAATAATAAAAATACATGATAAG
13926607 A
1 A
13926608 TATAATACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.26
Consensus pattern (49 bp):
ACTTAAATAATATATAAAATGTGAAAGAATAATAAAAATACATGATAAG
Found at i:13926613 original size:23 final size:22
Alignment explanation
Indices: 13926533--13926614 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 22
13926523 TAAAATGTGA
13926533 AAGAATAATAAAAATACATGAT
1 AAGAATAATAAAAATACATGAT
* * *
13926555 AAGACTTAAATAATATATAAAATG-T
1 AAGA-AT-AATAA-AAAT-ACATGAT
13926580 GAAAGAATAATAAAAATACATGAT
1 --AAGAATAATAAAAATACATGAT
13926604 AAGATATAATA
1 AAGA-ATAATA
13926615 CTAAGAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
22 8 0.17
23 11 0.24
24 9 0.20
25 9 0.20
26 5 0.11
27 4 0.09
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.26
Consensus pattern (22 bp):
AAGAATAATAAAAATACATGAT
Found at i:13932626 original size:26 final size:25
Alignment explanation
Indices: 13932597--13932653 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
13932587 TTGAAAAAAT
* *
13932597 TTCTCCATTTTTCTTTTTTTTTTCTG
1 TTCTCCA-TTTTCTTTTCTTTTTCTC
*
13932623 TTCTCTATTTTCTTTTCTTTTTCTC
1 TTCTCCATTTTCTTTTCTTTTTCTC
13932648 TTCTCC
1 TTCTCC
13932654 TCTTCTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.70
Consensus pattern (25 bp):
TTCTCCATTTTCTTTTCTTTTTCTC
Found at i:13935744 original size:46 final size:45
Alignment explanation
Indices: 13935687--13935853 Score: 136
Period size: 46 Copynumber: 3.5 Consensus size: 45
13935677 ACACACCGTA
13935687 GCCATAGCCCAGCCATGGTCTTACATGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACA-GAATCACATATCACACTGAT
* ** * * *
13935733 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTC-T-TACAGAATCACAT-ATCAC--A---CTGAT
* * *
13935786 GCCATAGCCCAGCTATGGTCTTACACAGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACAGA-ATCACATATCACACTGAT
* * *
13935832 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
13935854 TTCCGTCAAT
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
46 39 0.41
47 8 0.08
48 8 0.08
49 1 0.01
50 1 0.01
51 9 0.09
52 6 0.06
53 23 0.24
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (45 bp):
GCCATAGCCCAGCCATGGTCTTACAGAATCACATATCACACTGAT
Found at i:13936965 original size:23 final size:21
Alignment explanation
Indices: 13936915--13936979 Score: 87
Period size: 23 Copynumber: 3.0 Consensus size: 21
13936905 CCTGATCAGT
13936915 ATACGACACATAAGTGCCTG-
1 ATACGACACATAAGTGCCTGA
*
13936935 ATACGACACACAAGGTGCCTGAA
1 ATACGACACATAA-GTGCCTG-A
13936958 ATACGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA
13936980 TCAGTATAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 12 0.31
21 7 0.18
22 1 0.03
23 17 0.44
24 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (21 bp):
ATACGACACATAAGTGCCTGA
Found at i:13937242 original size:29 final size:29
Alignment explanation
Indices: 13937164--13937243 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 29
13937154 CACCAAAATG
* * *
13937164 TCCAACCAAAACACACCAGTATTATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
*
13937193 TCC-TCCCAAACACACCAGAATAATATAA
1 TCCATCCAAAACACACCAGAATAATATAA
13937221 TCCATCCAAAACACACCAGAATA
1 TCCATCCAAAACACACCAGAATA
13937244 GCACAAAGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.17
Consensus pattern (29 bp):
TCCATCCAAAACACACCAGAATAATATAA
Found at i:13945611 original size:9 final size:9
Alignment explanation
Indices: 13945597--13945621 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13945587 AAAATGTATT
13945597 TTATTTTTA
1 TTATTTTTA
13945606 TTATTTTTA
1 TTATTTTTA
13945615 TTATTTT
1 TTATTTT
13945622 AATGTCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTATTTTTA
Found at i:13947033 original size:48 final size:46
Alignment explanation
Indices: 13946913--13947033 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
13946903 TGATATGTGT
* * *
13946913 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATTATTAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATTAAA
* * *
13946959 GCCAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGATA-TACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-ATATTA-AA
*
13947007 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
13947034 GCGTTAGCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 33 0.52
47 3 0.05
48 27 0.43
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATTAAA
Found at i:13955938 original size:15 final size:15
Alignment explanation
Indices: 13955918--13955947 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13955908 TGTGTTAGAA
13955918 CACATTCGAGTGGCT
1 CACATTCGAGTGGCT
*
13955933 CACATTCTAGTGGCT
1 CACATTCGAGTGGCT
13955948 ATAGCAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (15 bp):
CACATTCGAGTGGCT
Found at i:13961715 original size:153 final size:153
Alignment explanation
Indices: 13961512--13961964 Score: 694
Period size: 153 Copynumber: 3.0 Consensus size: 153
13961502 ACTATCCGAG
* * * **
13961512 TTTGTTTTTGAGTTTAATTTGAGATTTCTTAATACTAATTAAAAATTTAAAAATACTATTAAGCT
1 TTTGTTTTTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
* * * *
13961577 TGTGAATTACTTAAATCTAGTATTCA-ATTACTCAAATCCAATCACCGTGATAACTACAATAATT
66 TGTGAAATACTTAAATCTAGTATT-AGAATACTCAAATCCAGTCACCGTGATAACTAGAATAATT
* *
13961641 TGTGAGAATACGTATTTCGTATAA
130 TCTGAGAATATGTATTTCGTATAA
*
13961665 TTTGTTTTTGAGTTTAAATTGAAACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
1 TTTGTTTTTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
* * * *
13961730 TGTGAAATACTTAAATCTAGTATTAGAATACTCAAATCTAGTAACAGTGATAATTAGAATAATTT
66 TGTGAAATACTTAAATCTAGTATTAGAATACTCAAATCCAGTCACCGTGATAACTAGAATAATTT
* *
13961795 CTGAGAATATGTATTTTGTATAG
131 CTGAGAATATGTATTTCGTATAA
*
13961818 TTTGTTTTTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAACTTAAAAATGTTATTAAGCT
1 TTTGTTTTTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
* *
13961883 TGTGAAATAATTAAATCTAGCATTAGAATA-TCAAATCCAGTCACCGTGATAACTAGAATAATTT
66 TGTGAAATACTTAAATCTAGTATTAGAATACTCAAATCCAGTCACCGTGATAACTAGAATAATTT
13961947 CTGAGAATATGTATTTCG
131 CTGAGAATATGTATTTCG
13961965 CTTAAGAAAG
Statistics
Matches: 272, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
152 48 0.18
153 224 0.82
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (153 bp):
TTTGTTTTTGAGTTTAAATTGAGACTTCTTAATACTAATTAAAAAATTAAAAATGTTATTAAGCT
TGTGAAATACTTAAATCTAGTATTAGAATACTCAAATCCAGTCACCGTGATAACTAGAATAATTT
CTGAGAATATGTATTTCGTATAA
Found at i:13964491 original size:27 final size:28
Alignment explanation
Indices: 13964407--13964504 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
13964397 CATGAGATTG
* * * *
13964407 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
13964436 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
13964464 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13964491 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13964505 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:13964515 original size:27 final size:27
Alignment explanation
Indices: 13964435--13964517 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
13964425 TAAATTGTAC
* *
13964435 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
13964463 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
13964490 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
13964517 A
1 A
13964518 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:13964518 original size:29 final size:27
Alignment explanation
Indices: 13964407--13964518 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
13964397 CATGAGATTG
** * *
13964407 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
13964436 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
13964464 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
13964491 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
13964519 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:13973303 original size:5 final size:5
Alignment explanation
Indices: 13973289--13973344 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
13973279 TTCCCACATT
*
13973289 AAAA- AAAAC AAAAC -AAA- AAAAC AAAAC AAAAT AAAAC AAAAAC AAAA-
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC
13973336 ACAAAC AAA
1 A-AAAC AAA
13973345 CAGTTTTTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
4 11 0.25
5 27 0.61
6 6 0.14
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (5 bp):
AAAAC
Found at i:13973307 original size:6 final size:6
Alignment explanation
Indices: 13973292--13973340 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
13973282 CCACATTAAA
* *
13973292 AAAAAC -AAAAC AAAAAA ACAAAAC -AAAA- TAAAAC AAAAAC AAAAAC
1 AAAAAC AAAAAC AAAAAC A-AAAAC AAAAAC AAAAAC AAAAAC AAAAAC
13973338 AAA
1 AAA
13973341 CAAACAGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 13 0.36
6 19 0.53
7 4 0.11
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (6 bp):
AAAAAC
Found at i:13973329 original size:22 final size:23
Alignment explanation
Indices: 13973289--13973344 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
13973279 TTCCCACATT
13973289 AAAA-AAAACAAAACAAAAAA-A
1 AAAACAAAACAAAACAAAAAACA
*
13973310 CAAAACAAAATAAAAC-AAAAACA
1 -AAAACAAAACAAAACAAAAAACA
13973333 AAAAC-AAACAAA
1 AAAACAAAACAAA
13973345 CAGTTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 6 0.20
22 14 0.47
23 10 0.33
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (23 bp):
AAAACAAAACAAAACAAAAAACA
Found at i:13974881 original size:30 final size:30
Alignment explanation
Indices: 13974835--13974894 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13974825 TTCCCGAGCC
*
13974835 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* * *
13974865 TAGGGGTAAAAATGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
13974895 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:13984192 original size:44 final size:44
Alignment explanation
Indices: 13984129--13984215 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
13984119 GACACCTATG
*
13984129 TTTTCATGATAAAATGCTCAATTTGGAATGTTTGAAACTTTGAA
1 TTTTCATGATAAAATGCTCAACTTGGAATGTTTGAAACTTTGAA
*
13984173 TTTTCATGATAAAATGCTCAACTTGGAATGTTTGAAATTTTGA
1 TTTTCATGATAAAATGCTCAACTTGGAATGTTTGAAACTTTGA
13984216 GATATTATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.41
Consensus pattern (44 bp):
TTTTCATGATAAAATGCTCAACTTGGAATGTTTGAAACTTTGAA
Found at i:13986785 original size:40 final size:40
Alignment explanation
Indices: 13986722--13986942 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
13986712 ATTCGGATTG
13986722 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
13986761 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
13986801 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
13986841 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
13986881 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
13986921 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
13986943 TACTTGGTTT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 29 0.17
40 141 0.83
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:13999751 original size:21 final size:21
Alignment explanation
Indices: 13999722--13999771 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
13999712 AAATTTTTTA
* *
13999722 AAAAGTTTGAAA-TTAAATAAT
1 AAAATTTTGAAAGATAAA-AAT
13999743 AAAATTTTGAAAGATAAAAAT
1 AAAATTTTGAAAGATAAAAAT
*
13999764 ATAATTTT
1 AAAATTTT
13999772 ATAATGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAATTTTGAAAGATAAAAAT
Found at i:13999802 original size:31 final size:28
Alignment explanation
Indices: 13999763--13999825 Score: 72
Period size: 32 Copynumber: 2.1 Consensus size: 28
13999753 AAGATAAAAA
* *
13999763 TATAATTTTATAATGTATTAATTTATTATTTT
1 TATATTTTTA-AATG-ATTAA-ATATT-TTTT
13999795 TATATTTTTAAATGATTAAATATTTTTT
1 TATATTTTTAAATGATTAAATATTTTTT
13999823 TAT
1 TAT
13999826 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.24
29 4 0.14
30 5 0.17
31 4 0.14
32 9 0.31
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
TATATTTTTAAATGATTAAATATTTTTT
Found at i:14002384 original size:31 final size:30
Alignment explanation
Indices: 14002322--14002385 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
14002312 TAAAATGGTG
*
14002322 ACTAAACTATTCAAAAAATTCATTTATGTC
1 ACTAAACTATTCAAAAAATTCATTTAAGTC
** *
14002352 ACTAAACTATTCAAAAGTTTTTATTTAAGTC
1 ACTAAACTATTCAAAA-AATTCATTTAAGTC
14002383 ACT
1 ACT
14002386 GAGTTGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.39
Consensus pattern (30 bp):
ACTAAACTATTCAAAAAATTCATTTAAGTC
Found at i:14009037 original size:29 final size:30
Alignment explanation
Indices: 14009005--14009065 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
14008995 ACTTAATTTA
*
14009005 TTGTTAATTTT-TTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
14009034 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
14009064 TT
1 TT
14009066 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:14009728 original size:3 final size:3
Alignment explanation
Indices: 14009716--14009750 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
14009706 TTGTTGTTGC
14009716 TGG TGG -GG TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
14009751 GGATGAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
TGG
Found at i:14012991 original size:12 final size:12
Alignment explanation
Indices: 14012940--14012994 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
14012930 TTTCTTTTGT
14012940 TTCTTTTTCTAA-
1 TTCTTTTTC-AAC
* *
14012952 TTCATTTTC-TC
1 TTCTTTTTCAAC
14012963 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
14012976 TTCTTTTTCAAT
1 TTCTTTTTCAAC
14012988 TTCTTTT
1 TTCTTTT
14012995 CTGTTTCACT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.14
12 23 0.66
13 7 0.20
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.65
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:14024401 original size:6 final size:6
Alignment explanation
Indices: 14024334--14024399 Score: 96
Period size: 6 Copynumber: 11.0 Consensus size: 6
14024324 TTCCAATTTG
*
14024334 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT GTTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
* * *
14024382 GTTTTT GTTTTT GTTTTT
1 ATTTTT ATTTTT ATTTTT
14024400 GTAGAAATTA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:14024665 original size:27 final size:27
Alignment explanation
Indices: 14024627--14024682 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
14024617 CAATTATCAA
*
14024627 TTTTGTTGATAGTTTTTAAAAAAGTTG
1 TTTTGTTGATAGTTTTCAAAAAAGTTG
14024654 TTTTGTTGATAGTTTTCAAAAAAGTTG
1 TTTTGTTGATAGTTTTCAAAAAAGTTG
14024681 TT
1 TT
14024683 AACTTGATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.52
Consensus pattern (27 bp):
TTTTGTTGATAGTTTTCAAAAAAGTTG
Found at i:14024689 original size:27 final size:27
Alignment explanation
Indices: 14024632--14024691 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
14024622 ATCAATTTTG
* ***
14024632 TTGATAGTTTTTAAAAAAGTTGTTTTG
1 TTGATAGTTTTCAAAAAAGTTGTTAAC
14024659 TTGATAGTTTTCAAAAAAGTTGTTAAC
1 TTGATAGTTTTCAAAAAAGTTGTTAAC
14024686 TTGATA
1 TTGATA
14024692 TCTCTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (27 bp):
TTGATAGTTTTCAAAAAAGTTGTTAAC
Found at i:14026189 original size:28 final size:28
Alignment explanation
Indices: 14026153--14026209 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
14026143 ATTATTTATT
14026153 TCTATTACATTTTTTTTCATATATTTTC
1 TCTATTACATTTTTTTTCATATATTTTC
14026181 TCTATTACATTTTTTTTCATATATTTTC
1 TCTATTACATTTTTTTTCATATATTTTC
14026209 T
1 T
14026210 TACTCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (28 bp):
TCTATTACATTTTTTTTCATATATTTTC
Found at i:14026206 original size:14 final size:14
Alignment explanation
Indices: 14026161--14026207 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14026151 TTTCTATTAC
14026161 ATTTTTTTTCATAT
1 ATTTTTTTTCATAT
* * *
14026175 ATTTTCTCT-ATTAC
1 ATTTTTTTTCA-TAT
14026189 ATTTTTTTTCATAT
1 ATTTTTTTTCATAT
14026203 ATTTT
1 ATTTT
14026208 CTTACTCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTTTTCATAT
Found at i:14027537 original size:41 final size:41
Alignment explanation
Indices: 14027489--14027571 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
14027479 ATTTCTAGAG
*
14027489 TGAGCACTAAAAACAATTAATCACTGTATTAATGATTTCAT
1 TGAGCACTAAAAACAATTAATCACCGTATTAATGATTTCAT
*
14027530 TGAGCACTAAAAACAATTAATCACCGTATTAATGGTTTCAT
1 TGAGCACTAAAAACAATTAATCACCGTATTAATGATTTCAT
14027571 T
1 T
14027572 AATTTTACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (41 bp):
TGAGCACTAAAAACAATTAATCACCGTATTAATGATTTCAT
Found at i:14028981 original size:17 final size:16
Alignment explanation
Indices: 14028941--14028982 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
14028931 TCAATTATTT
14028941 AAATA-TTATTTTTTA
1 AAATATTTATTTTTTA
**
14028956 TTATATTTATTTTTTA
1 AAATATTTATTTTTTA
14028972 AAATAGTTTAT
1 AAATA-TTTAT
14028983 ATATTATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 3 0.14
16 13 0.62
17 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
AAATATTTATTTTTTA
Found at i:14032669 original size:27 final size:27
Alignment explanation
Indices: 14032607--14032669 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
14032597 AAGGGCAAAA
* * * *
14032607 CAGTCATTTTACCCTATAGGGGTATGT
1 CAGTAATTTTACACTACAAGGGTATGT
* * *
14032634 CGGTTATTTTACACTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATGT
14032661 CAGTAATTT
1 CAGTAATTT
14032670 CTCTTTATTA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATGT
Found at i:14035668 original size:26 final size:26
Alignment explanation
Indices: 14035638--14035690 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
14035628 CCACGCTGAA
*
14035638 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
14035664 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
14035690 T
1 T
14035691 TTCACATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:14035770 original size:26 final size:26
Alignment explanation
Indices: 14035740--14035791 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14035730 ACCAATGAAC
*
14035740 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
14035766 CGGGGAATCAGCACATAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
14035792 TTTCACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:14035781 original size:101 final size:102
Alignment explanation
Indices: 14035607--14035970 Score: 569
Period size: 101 Copynumber: 3.6 Consensus size: 102
14035597 TAACCGTTAT
* * *
14035607 TGGTGGATCTCGCACTTAGCACCACGC-TGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACATAGCACCAC-CATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
14035671 ATCAGCACATAGCAACCCC-TTTCACATTTC-AAGATA
65 ATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATA
*
14035707 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACATAGCACCACC-ATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
14035772 ATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATA
65 ATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATA
14035810 TGGTGG--ATCGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACATAGCACCACC-ATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
14035873 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
64 AATCAGCACATAGCAA-CCCCTTTTCACATTTCAAAGATA
* **
14035913 TGGTGGATCA-CGCACATAGCACCACCATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACATAGCACCACCATGAACCGGGGAATCAGCACTTAGCAACCCCT
14035971 TTTATATACA
Statistics
Matches: 249, Mismatches: 6, Indels: 14
0.93 0.02 0.05
Matches are distributed among these distances:
99 1 0.00
100 24 0.10
101 106 0.43
102 31 0.12
103 41 0.16
104 29 0.12
105 16 0.06
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (102 bp):
TGGTGGATATCGCACATAGCACCACCATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGAA
TCAGCACATAGCAACCCCTTTTCACATTTCAAAGATA
Found at i:14036346 original size:30 final size:29
Alignment explanation
Indices: 14036300--14036359 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
14036290 TCCACCACCC
14036300 AACTTTTGAAAATTACAATTTTGCCCCCA
1 AACTTTTGAAAATTACAATTTTGCCCCCA
* * *
14036329 AACTTTTGCATAATTACACTTTTGTCCCCA
1 AACTTTTG-AAAATTACAATTTTGCCCCCA
14036359 A
1 A
14036360 GCTCGGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTTGAAAATTACAATTTTGCCCCCA
Found at i:14042100 original size:29 final size:29
Alignment explanation
Indices: 14042067--14042130 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
14042057 TAATCCACCA
14042067 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
14042096 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
14042126 CCCAA
1 CCCAA
14042131 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:14042104 original size:30 final size:30
Alignment explanation
Indices: 14042074--14042130 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
14042064 CCACCCAACT
14042074 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
14042103 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
14042131 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:14048236 original size:12 final size:12
Alignment explanation
Indices: 14048219--14048243 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14048209 TTTGTACTGT
14048219 TAAAAACTGATG
1 TAAAAACTGATG
14048231 TAAAAACTGATG
1 TAAAAACTGATG
14048243 T
1 T
14048244 GGCTGATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TAAAAACTGATG
Found at i:14051693 original size:30 final size:31
Alignment explanation
Indices: 14051658--14051720 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
14051648 CAACCCAATC
14051658 GACTTAAA-AAAAGCTTTTGAATAGTTAAGT
1 GACTTAAATAAAAGCTTTTGAATAGTTAAGT
* *
14051688 GACTTAAATAAAATCTTTTGAATAGTTTAGT
1 GACTTAAATAAAAGCTTTTGAATAGTTAAGT
14051719 GA
1 GA
14051721 TAATTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (31 bp):
GACTTAAATAAAAGCTTTTGAATAGTTAAGT
Found at i:14051803 original size:17 final size:17
Alignment explanation
Indices: 14051781--14051816 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
14051771 AGTTTAGTGA
*
14051781 CCTTGTATGTTGTTTGC
1 CCTTGTATGTAGTTTGC
14051798 CCTTGTATGTAGTTTGC
1 CCTTGTATGTAGTTTGC
14051815 CC
1 CC
14051817 AAAGTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.08, C:0.22, G:0.22, T:0.47
Consensus pattern (17 bp):
CCTTGTATGTAGTTTGC
Found at i:14058831 original size:18 final size:19
Alignment explanation
Indices: 14058808--14058850 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
14058798 AATTTGATTA
* *
14058808 AAAAATTATTAA-AAATTT
1 AAAAATTAATAATAAAATT
14058826 AAAAA-TAATAATAAAATT
1 AAAAATTAATAATAAAATT
14058844 AAAAATT
1 AAAAATT
14058851 TAATTTAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 15 0.71
19 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTAATAATAAAATT
Found at i:14059085 original size:14 final size:14
Alignment explanation
Indices: 14059066--14059105 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
14059056 TTGATTGGCA
14059066 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
14059080 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
14059094 GGAAAATGTTTT
1 GTAAAATGTTTT
14059106 ACATTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:14059127 original size:20 final size:20
Alignment explanation
Indices: 14059088--14059127 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14059078 CCGTAAAATG
**
14059088 ATTTCTGGAAAATGTTTTAC
1 ATTTCTGGAAAATGACTTAC
*
14059108 ATTTCTGTAAAATGACTTAC
1 ATTTCTGGAAAATGACTTAC
14059128 TGGAAAATGT
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:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
ATTTCTGGAAAATGACTTAC
Found at i:14059135 original size:35 final size:34
Alignment explanation
Indices: 14059075--14059140 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
14059065 AGTAAAATGT
*
14059075 TTTCCGTAAAATGATTTCTGGAAAATGTTTTACA
1 TTTCCGTAAAATGATTACTGGAAAATGTTTTACA
*
14059109 TTTCTGTAAAATGACTTACTGGAAAATGTTTT
1 TTTCCGTAAAATGA-TTACTGGAAAATGTTTT
14059141 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTCCGTAAAATGATTACTGGAAAATGTTTTACA
Found at i:14060312 original size:18 final size:18
Alignment explanation
Indices: 14060278--14060312 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14060268 GCTTCGAAAC
*
14060278 GGGAAAGGGAAGGAGAAG
1 GGGAAAGGGAAGAAGAAG
*
14060296 GGGAAAGGGGAGAAGAA
1 GGGAAAGGGAAGAAGAA
14060313 TGAGTCATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (18 bp):
GGGAAAGGGAAGAAGAAG
Found at i:14063080 original size:2 final size:2
Alignment explanation
Indices: 14063073--14063099 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14063063 GTTGGACTTT
14063073 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 T
14063100 TATTTATTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14065462 original size:31 final size:32
Alignment explanation
Indices: 14065418--14065482 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 32
14065408 TTTCAAAAAA
*
14065418 AAATGATATACATGAAACTTCGGTTGTGGTTC
1 AAATGATATACATGAAACTTCGATTGTGGTTC
*
14065450 AAATG-TATACATGAAACTTTGATTGTGGTTC
1 AAATGATATACATGAAACTTCGATTGTGGTTC
14065481 AA
1 AA
14065483 TCATACACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 26 0.84
32 5 0.16
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (32 bp):
AAATGATATACATGAAACTTCGATTGTGGTTC
Found at i:14073060 original size:14 final size:14
Alignment explanation
Indices: 14073031--14073075 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
14073021 ATATGTGAAG
**
14073031 AATATTATTTAAAA
1 AATATTATTTTTAA
14073045 AATATTATTTTTAA
1 AATATTATTTTTAA
*
14073059 AAT-TTATTATTAA
1 AATATTATTTTTAA
14073072 AATA
1 AATA
14073076 AAATTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:14073066 original size:16 final size:17
Alignment explanation
Indices: 14073033--14073070 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
14073023 ATGTGAAGAA
14073033 TATTATTTAAAAAATAT
1 TATTATTTAAAAAATAT
**
14073050 TATT-TTTAAAATTTAT
1 TATTATTTAAAAAATAT
14073066 TATTA
1 TATTA
14073071 AAATAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATTTAAAAAATAT
Found at i:14073071 original size:13 final size:14
Alignment explanation
Indices: 14072985--14073075 Score: 51
Period size: 14 Copynumber: 6.0 Consensus size: 14
14072975 TACAAAACAT
14072985 TTATTATTAAAATA
1 TTATTATTAAAATA
* *
14072999 TTAATATTAAATATT
1 TTATTATTAAA-ATA
14073014 TTCAATAATATGTGAAGAATA
1 TT--AT--TAT-T-AA-AATA
*
14073035 TTATT-TAAAAAATA
1 TTATTAT-TAAAATA
*
14073049 TTATTTTTAAAAT-
1 TTATTATTAAAATA
14073062 TTATTATTAAAATA
1 TTATTATTAAAATA
14073076 AAATTGAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
13 12 0.20
14 24 0.41
15 7 0.12
16 1 0.02
17 2 0.03
19 5 0.08
20 1 0.02
21 6 0.10
22 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (14 bp):
TTATTATTAAAATA
Found at i:14073142 original size:27 final size:24
Alignment explanation
Indices: 14073087--14073131 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14073077 AATTGAAATA
* *
14073087 TTAA-ATAAATTATTATATATGAC
1 TTAATATAAATAATTAAATATGAC
14073110 TTAATATAAATAATTAAATATG
1 TTAATATAAATAATTAAATATG
14073132 TACATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
TTAATATAAATAATTAAATATGAC
Found at i:14078641 original size:46 final size:46
Alignment explanation
Indices: 14078591--14078945 Score: 489
Period size: 46 Copynumber: 7.7 Consensus size: 46
14078581 GATAGAAAAT
*
14078591 GTGTAAGACCATGGTTGAAAGATTCCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
*
14078637 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
14078683 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
14078729 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* * *
14078775 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* * *
14078821 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGA-AGGGGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA--TGAAAC
** * * * * *
14078868 GAATAAGACCATGGTTGAATGATACAATGGCAACATGACA-GAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAAC
* * * * *
14078914 GAGTAAGTCCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
14078946 TCATGTCGAA
Statistics
Matches: 287, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
45 2 0.01
46 246 0.86
47 38 0.13
48 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
Found at i:14084003 original size:15 final size:15
Alignment explanation
Indices: 14083983--14084039 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
14083973 CGATGAATTT
14083983 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
14083998 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
*
14084013 ACTGAATTTATATTG
1 ATTGAATTTATATTG
14084028 ATTGAA-TTATAT
1 ATTGAATTTATAT
14084040 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:14084441 original size:23 final size:22
Alignment explanation
Indices: 14084411--14084518 Score: 98
Period size: 21 Copynumber: 5.0 Consensus size: 22
14084401 GCTTTATCGA
14084411 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTA-T
* **
14084434 TCAGGCACCTCGTGTGTCGTA-
1 TCAGGCACTTTATGTGTCGTAT
*
14084455 TCAGGCACCTCT-TGTGTCGTA-
1 TCAGGCA-CTTTATGTGTCGTAT
* **
14084476 TCAGGCACCTCGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAT
*
14084497 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
14084519 ACTGATCAGG
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.01
21 47 0.69
22 2 0.03
23 18 0.26
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAT
Found at i:14084458 original size:21 final size:21
Alignment explanation
Indices: 14084423--14084518 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
14084413 AGGCACTTTA
14084423 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
14084446 TGTGTCGTATCAGGCACCTCT
1 TGTGTCGTATCAGGCACCTCG
14084467 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
14084488 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
14084509 TGTGTCGTAT
1 TGTGTCGTAT
14084519 ACTGATCAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
21 56 0.86
23 9 0.14
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:14084493 original size:42 final size:42
Alignment explanation
Indices: 14084410--14084518 Score: 157
Period size: 42 Copynumber: 2.5 Consensus size: 42
14084400 GGCTTTATCG
14084410 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
14084454 ATCAGGCACCTCT-TGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCA-CTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
* *
14084496 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
14084519 ACTGATCAGG
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
41 3 0.05
42 36 0.61
44 17 0.29
45 3 0.05
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.37
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:14088360 original size:63 final size:63
Alignment explanation
Indices: 14088261--14088387 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
14088251 GACACCTATG
* *
14088261 TAAGAACATTGGGATACCATCTTCTTTGATAAAAGATTAAATTTCAAACTCTCCTTT-CCAATT
1 TAAGAACATTGGGATACCATATTCTTTAATAAAAGATTAAATTTCAAACTCT-CTTTGCCAATT
*
14088324 TAAGAACGTTGGGATACCATATTCTTTAATAAAAGATTAAATTTCAAACTCTCTTTGCCAATT
1 TAAGAACATTGGGATACCATATTCTTTAATAAAAGATTAAATTTCAAACTCTCTTTGCCAATT
14088387 T
1 T
14088388 GATTTGATTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 4 0.07
63 56 0.93
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (63 bp):
TAAGAACATTGGGATACCATATTCTTTAATAAAAGATTAAATTTCAAACTCTCTTTGCCAATT
Found at i:14092877 original size:62 final size:59
Alignment explanation
Indices: 14092772--14092887 Score: 178
Period size: 62 Copynumber: 1.9 Consensus size: 59
14092762 TTAATATTAA
* * *
14092772 ATTAATATAATATAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAATTTT
1 ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATTTT
14092831 ATTAAAATAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 ATTAAAATAATAGAATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAA
14092888 GATAATCACC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
59 19 0.37
61 1 0.02
62 31 0.61
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (59 bp):
ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATTTT
Found at i:14096486 original size:14 final size:14
Alignment explanation
Indices: 14096467--14096495 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14096457 TAGTTAAATA
14096467 ATAATCTATATAAC
1 ATAATCTATATAAC
14096481 ATAATCTATATAAC
1 ATAATCTATATAAC
14096495 A
1 A
14096496 AAGTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:14098437 original size:20 final size:21
Alignment explanation
Indices: 14098371--14098439 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
14098361 TCACTTCGTT
14098371 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
14098392 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
14098413 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
14098434 -CTTTTT
1 TCTTTTT
14098440 TATTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:14101837 original size:21 final size:21
Alignment explanation
Indices: 14101796--14101853 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
14101786 AAAAAAAACT
** *
14101796 AAAAATTA-AAAAAGTTTATA
1 AAAAATTATAAAAAAATAATA
*
14101816 AAATATT-TAAAATAAATAATA
1 AAAAATTATAAAA-AAATAATA
14101837 AAAAATTATAAAAAAAT
1 AAAAATTATAAAAAAAT
14101854 TAATCATGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 10 0.33
21 15 0.50
22 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATTATAAAAAAATAATA
Found at i:14105572 original size:46 final size:46
Alignment explanation
Indices: 14105520--14105839 Score: 453
Period size: 46 Copynumber: 7.0 Consensus size: 46
14105510 AGTGTGCTCT
*
14105520 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
14105566 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
14105612 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
14105658 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
14105704 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
14105750 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
14105796 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
14105840 TCATGTCAAA
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 254 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:14107660 original size:22 final size:21
Alignment explanation
Indices: 14107630--14107689 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
14107620 TTTTCACTTT
*
14107630 TAATTTTTTATAATATTTTAAA
1 TAATATTTTATAATATTTT-AA
*
14107652 TAATATTTTGTAAT-TTTTAA
1 TAATATTTTATAATATTTTAA
* *
14107672 T-ATATTTTTTAAAATTTT
1 TAATATTTTATAATATTTT
14107690 GCTCATGTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.30
20 7 0.21
21 4 0.12
22 12 0.36
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TAATATTTTATAATATTTTAA
Found at i:14108376 original size:22 final size:23
Alignment explanation
Indices: 14108323--14108376 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
14108313 ATTATGTTAT
* *
14108323 ATATATTATATAATTTATAATAC
1 ATATATAATAAAATTTATAATAC
* *
14108346 ATA-AAAATAAAATTTATAGTA-
1 ATATATAATAAAATTTATAATAC
14108367 ATATATAATA
1 ATATATAATA
14108377 CTATAAAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATATAATAAAATTTATAATAC
Found at i:14110084 original size:39 final size:39
Alignment explanation
Indices: 14110030--14110110 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
14110020 TAATATATGG
14110030 TGTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTA
1 TGTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTA
14110069 TGTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTA
1 TGTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTA
14110108 TGT
1 TGT
14110111 GGTGTGTAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (39 bp):
TGTAAGTTCATGGATGAAAGATGCTATAACAATTTGGTA
Found at i:14114621 original size:12 final size:11
Alignment explanation
Indices: 14114592--14114633 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
14114582 TAAATAAGAG
*
14114592 AAAATAAAATT
1 AAAATAAAAAT
*
14114603 TAAATAAAAAT
1 AAAATAAAAAT
14114614 AAATATAAAAAT
1 AAA-ATAAAAAT
14114626 AAAATAAA
1 AAAATAAA
14114634 GGGCCTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:14117670 original size:13 final size:13
Alignment explanation
Indices: 14117652--14117676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14117642 CTCGGCAGGG
14117652 ACACGCCCGTGTA
1 ACACGCCCGTGTA
14117665 ACACGCCCGTGT
1 ACACGCCCGTGT
14117677 TCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:14123048 original size:21 final size:21
Alignment explanation
Indices: 14123006--14123048 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14122996 TTCACTATAC
*
14123006 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
14123027 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
14123048 A
1 A
14123049 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:14124159 original size:39 final size:37
Alignment explanation
Indices: 14124092--14124184 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
14124082 ACCAGAATGG
* *
14124092 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
14124131 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
14124168 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
14124185 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:14124547 original size:3 final size:3
Alignment explanation
Indices: 14124539--14124586 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
14124529 ATTCCCACTC
* * * *
14124539 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14124587 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:14124587 original size:18 final size:18
Alignment explanation
Indices: 14124540--14124588 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
14124530 TTCCCACTCA
*
14124540 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
14124558 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
14124576 TAATATTAATACT
1 TAATAATAATACT
14124589 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:14124588 original size:12 final size:12
Alignment explanation
Indices: 14124539--14124586 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
14124529 ATTCCCACTC
*
14124539 ATAATAATAATA
1 ATAATACTAATA
14124551 ATAATACTAATA
1 ATAATACTAATA
14124563 ATAATACTAATA
1 ATAATACTAATA
* *
14124575 CTAATATTAATA
1 ATAATACTAATA
14124587 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:14125327 original size:20 final size:20
Alignment explanation
Indices: 14125293--14125332 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14125283 TTCTATTCTG
*
14125293 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
14125313 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
14125333 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:14125499 original size:31 final size:28
Alignment explanation
Indices: 14125463--14125530 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
14125453 TTGTCTTTAT
**
14125463 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
14125493 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
14125522 TTAATTTAT
1 TTAATTTAT
14125531 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:14125547 original size:21 final size:20
Alignment explanation
Indices: 14125509--14125547 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14125499 TAATTTAATA
*
14125509 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
14125529 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
14125548 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:14130658 original size:6 final size:6
Alignment explanation
Indices: 14130647--14130698 Score: 77
Period size: 6 Copynumber: 8.5 Consensus size: 6
14130637 AAAATTTAAT
* *
14130647 AAATAA AAATAA AATCTAA AACTAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AA-ATAA AAATAA AAATAA AAATAA AAATAA AAATAA
14130696 AAA
1 AAA
14130699 ACATATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:14130684 original size:18 final size:19
Alignment explanation
Indices: 14130624--14130697 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
14130614 TAACCTAATC
* *
14130624 ATAAAAATTACAA-AAAAT
1 ATAAAAATAAAAATAAAAT
*
14130642 TTAATAAATAAAAATAAAAT
1 ATAA-AAATAAAAATAAAAT
* *
14130662 CTAAAACTAAAAATAAAA-
1 ATAAAAATAAAAATAAAAT
14130680 ATAAAAATAAAAATAAAA
1 ATAAAAATAAAAATAAAA
14130698 AACATATAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
18 19 0.40
19 20 0.43
20 8 0.17
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAAAATAAAAT
Found at i:14130699 original size:25 final size:25
Alignment explanation
Indices: 14130647--14130698 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
14130637 AAAATTTAAT
* *
14130647 AAATAAAAATAAAATCTAAAACTAA
1 AAATAAAAATAAAATATAAAAATAA
14130672 AAATAAAAATAAAA-ATAAAAATAA
1 AAATAAAAATAAAATATAAAAATAA
14130696 AAA
1 AAA
14130699 ACATATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (25 bp):
AAATAAAAATAAAATATAAAAATAA
Found at i:14130736 original size:9 final size:9
Alignment explanation
Indices: 14130718--14130786 Score: 68
Period size: 9 Copynumber: 7.7 Consensus size: 9
14130708 TTTATACAAA
*
14130718 TAATTTGGT
1 TAATTCGGT
14130727 TAATTCGGT
1 TAATTCGGT
* *
14130736 TAATTTGGG
1 TAATTCGGT
14130745 TAATTCGAG-
1 TAATTCG-GT
*
14130754 TAATTCAGT
1 TAATTCGGT
* *
14130763 TAATTTGAT
1 TAATTCGGT
14130772 TAATTCGGT
1 TAATTCGGT
14130781 TAATTC
1 TAATTC
14130787 TATACTTATT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
8 1 0.02
9 46 0.96
10 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:14130757 original size:27 final size:27
Alignment explanation
Indices: 14130718--14130786 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
14130708 TTTATACAAA
* * *
14130718 TAATTTGGTTAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTCAGTTAATTTGAG
*
14130745 TAATTCGAG-TAATTCAGTTAATTTGAT
1 TAATTCG-GTTAATTCAGTTAATTTGAG
14130772 TAATTCGGTTAATTC
1 TAATTCGGTTAATTC
14130787 TATACTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (27 bp):
TAATTCGGTTAATTCAGTTAATTTGAG
Found at i:14134394 original size:74 final size:75
Alignment explanation
Indices: 14134269--14134407 Score: 253
Period size: 74 Copynumber: 1.9 Consensus size: 75
14134259 TAATTCATGT
14134269 AAGTTAATATTAATTATTGAAGTAACATATATTACAATACGCAAACCAAAGTTTTAATTT-TTTC
1 AAGTTAATATTAATTATTGAAGTAACATATATTACAATACGCAAACCAAAGTTTTAATTTCTTTC
14134333 TGTAAAATGG
66 TGTAAAATGG
* *
14134343 AAGTTAATATTAATTATTGAAGTAACATATATTACAATATGCAAACTAAAGTTTTAATTTCTTTC
1 AAGTTAATATTAATTATTGAAGTAACATATATTACAATACGCAAACCAAAGTTTTAATTTCTTTC
14134408 AGTACCTTCT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
74 58 0.94
75 4 0.06
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (75 bp):
AAGTTAATATTAATTATTGAAGTAACATATATTACAATACGCAAACCAAAGTTTTAATTTCTTTC
TGTAAAATGG
Found at i:14150177 original size:18 final size:18
Alignment explanation
Indices: 14150154--14150192 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14150144 ATGATTTTTG
*
14150154 ATATAATCAGTTAAA-AAA
1 ATATAAACAG-TAAACAAA
14150172 ATATAAACAGTAAACAAA
1 ATATAAACAGTAAACAAA
14150190 ATA
1 ATA
14150193 AAAGCTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (18 bp):
ATATAAACAGTAAACAAA
Done.