Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 62 of 167
Found at i:19465282 original size:20 final size:22
Alignment explanation
Indices: 19465257--19465298 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
19465247 TGTATAGTGG
19465257 AAAATTTTCT-AAGTT-TTGGT
1 AAAATTTTCTAAAGTTCTTGGT
19465277 AAAATTTTCTAAAGTTCTTGGT
1 AAAATTTTCTAAAGTTCTTGGT
19465299 TTGGTTCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (22 bp):
AAAATTTTCTAAAGTTCTTGGT
Found at i:19466011 original size:31 final size:31
Alignment explanation
Indices: 19465973--19466034 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
19465963 GCTTGAGAAT
19465973 ACTATCAGGGTATTTGATGAGTTATCATGTA
1 ACTATCAGGGTATTTGATGAGTTATCATGTA
19466004 ACTATCAGGGTATTTGATGAGTTATCATGTA
1 ACTATCAGGGTATTTGATGAGTTATCATGTA
19466035 CACCCGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (31 bp):
ACTATCAGGGTATTTGATGAGTTATCATGTA
Found at i:19470876 original size:157 final size:157
Alignment explanation
Indices: 19470675--19470988 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
19470665 CACAACAAAC
19470675 GTTCATATTCCTCCATTAAGAAAAATACACACATGTAGCACATGGGTAAATTTTTAAACATCAAC
1 GTTCATATTCCTCCATTAAGAAAAATACACACATGTAGCACATGGGTAAATTTTTAAACATCAAC
19470740 CCTAGCTCAAATAAATGGTAGAAATAGCTAGAACTTATTACGAGGATTTCAAAAACATAAAAATC
66 CCTAGCTCAAATAAATGGTAGAAATAGCTAGAACTTATTACGAGGATTTCAAAAACATAAAAATC
19470805 ATTAAAAACGGGGCAAGAACGGACTTA
131 ATTAAAAACGGGGCAAGAACGGACTTA
19470832 GTTCATATTCCTCCATTAAGAAAAATACACACATGTAGCACATGGGTAAATTTTTAAACATCAAC
1 GTTCATATTCCTCCATTAAGAAAAATACACACATGTAGCACATGGGTAAATTTTTAAACATCAAC
19470897 CCTAGCTCAAATAAATGGTAGAAATAGCTAGAACTTATTACGAGGATTTCAAAAACATAAAAATC
66 CCTAGCTCAAATAAATGGTAGAAATAGCTAGAACTTATTACGAGGATTTCAAAAACATAAAAATC
19470962 ATTAAAAACGGGGCAAGAACGGACTTA
131 ATTAAAAACGGGGCAAGAACGGACTTA
19470989 CAATTGAGCT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (157 bp):
GTTCATATTCCTCCATTAAGAAAAATACACACATGTAGCACATGGGTAAATTTTTAAACATCAAC
CCTAGCTCAAATAAATGGTAGAAATAGCTAGAACTTATTACGAGGATTTCAAAAACATAAAAATC
ATTAAAAACGGGGCAAGAACGGACTTA
Found at i:19473610 original size:18 final size:18
Alignment explanation
Indices: 19473587--19473622 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19473577 TCGGTGATAA
*
19473587 AGTATTTCTGAAAGTATC
1 AGTATTTCTGAAAATATC
19473605 AGTATTTCTGAAAATATC
1 AGTATTTCTGAAAATATC
19473623 TTCGTGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (18 bp):
AGTATTTCTGAAAATATC
Found at i:19479181 original size:40 final size:40
Alignment explanation
Indices: 19479106--19479181 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
19479096 TATTCGGATA
**
19479106 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACT
*
19479146 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGT
19479182 AGTTATATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACT
Found at i:19487027 original size:29 final size:29
Alignment explanation
Indices: 19486962--19487079 Score: 134
Period size: 29 Copynumber: 4.1 Consensus size: 29
19486952 ACATACATAC
*
19486962 ATATGGCCCACTAGGCCC-AATC-TCA-TT
1 ATATGGCCCATTAGGCCCAAATCAT-ATTT
*
19486989 CTATGGCCCATTAGGCCCAAATCATATTT
1 ATATGGCCCATTAGGCCCAAATCATATTT
* * *
19487018 GTATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCATATTT
* * *
19487047 ATATGGCCCATTAGACCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCATATTT
19487076 ATAT
1 ATAT
19487080 ACATGCTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.20
28 5 0.06
29 60 0.74
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCATATTT
Found at i:19487066 original size:58 final size:56
Alignment explanation
Indices: 19486963--19487070 Score: 171
Period size: 58 Copynumber: 1.9 Consensus size: 56
19486953 CATACATACA
* *
19486963 TATGGCCCACTAGGCCCAATCTCATTCTATGGCCCATTAGGCCCAAATCATATTTG
1 TATGGCCCACTAGGCCCAATCACATTCTATGGCCCATTAGACCCAAATCATATTTG
*
19487019 TATGGCCCATTAGGCCCAAATCACATTCATATGGCCCATTAGACCCAAATCA
1 TATGGCCCACTAGGCCC-AATCACATTC-TATGGCCCATTAGACCCAAATCA
19487071 CATTCATATA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
56 16 0.34
57 9 0.19
58 22 0.47
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.26
Consensus pattern (56 bp):
TATGGCCCACTAGGCCCAATCACATTCTATGGCCCATTAGACCCAAATCATATTTG
Found at i:19491461 original size:29 final size:29
Alignment explanation
Indices: 19491429--19491484 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
19491419 ATTCGTATGG
19491429 CCCAGCAGGCCCAAATAACATTCATATCA
1 CCCAGCAGGCCCAAATAACATTCATATCA
** **
19491458 CCCATTAGGCCCAAATCCCATTCATAT
1 CCCAGCAGGCCCAAATAACATTCATAT
19491485 ACATGCTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.36, G:0.09, T:0.21
Consensus pattern (29 bp):
CCCAGCAGGCCCAAATAACATTCATATCA
Found at i:19493117 original size:17 final size:18
Alignment explanation
Indices: 19493095--19493135 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
19493085 GTGAAAAATC
*
19493095 ATATTTCTATTGATC-TT
1 ATATTTCCATTGATCTTT
19493112 ATATTTCCATTGATCTTT
1 ATATTTCCATTGATCTTT
19493130 ATATTT
1 ATATTT
19493136 TACATATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (18 bp):
ATATTTCCATTGATCTTT
Found at i:19495589 original size:6 final size:6
Alignment explanation
Indices: 19495578--19495604 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19495568 GCAGTAACCA
19495578 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
19495605 TCTAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:19499167 original size:27 final size:26
Alignment explanation
Indices: 19499150--19499219 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
19499140 ATATTAAGTC
19499150 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
19499177 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
19499205 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
19499220 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:19499213 original size:28 final size:28
Alignment explanation
Indices: 19499150--19499247 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
19499140 ATATTAAGTC
*
19499150 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
19499177 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
19499205 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
19499234 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19499248 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:19499705 original size:2 final size:2
Alignment explanation
Indices: 19499698--19499727 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19499688 CATACTTGTG
19499698 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
19499728 CTTCGGAATG
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:19501479 original size:56 final size:56
Alignment explanation
Indices: 19501393--19501509 Score: 234
Period size: 56 Copynumber: 2.1 Consensus size: 56
19501383 TAATCCAAAA
19501393 AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
1 AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
19501449 AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
1 AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
19501505 AGTAA
1 AGTAA
19501510 GTTCGTATAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (56 bp):
AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
Found at i:19517480 original size:22 final size:22
Alignment explanation
Indices: 19517454--19517498 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19517444 ATTATATGTA
19517454 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
19517476 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
19517498 T
1 T
19517499 GGGTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:19517889 original size:18 final size:19
Alignment explanation
Indices: 19517866--19517906 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
19517856 CATTCACATC
19517866 TTTTCTCTCTTCTCT-CCA
1 TTTTCTCTCTTCTCTGCCA
*
19517884 TTTTCTCTCTTCTTTGCCA
1 TTTTCTCTCTTCTCTGCCA
19517903 TTTT
1 TTTT
19517907 AAATTCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.05, C:0.32, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTCTCTCTTCTCTGCCA
Found at i:19519004 original size:22 final size:22
Alignment explanation
Indices: 19518976--19519051 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
19518966 GCTCACATTC
19518976 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
19518998 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
19519022 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
19519045 ATCACAT
1 ATCACAT
19519052 ATATACACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:19519017 original size:47 final size:47
Alignment explanation
Indices: 19518968--19519397 Score: 749
Period size: 47 Copynumber: 9.1 Consensus size: 47
19518958 CGGCTCATGC
* * * *
19518968 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA-TGC
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-T
* *
19519015 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
19519062 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
19519109 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
19519156 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
19519203 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
19519250 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
19519297 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
*
19519342 TCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTT
19519391 TCACATT
1 TCACATT
19519398 TATTCAAATA
Statistics
Matches: 373, Mismatches: 5, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
45 44 0.12
47 311 0.83
48 1 0.00
49 17 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
Found at i:19519378 original size:22 final size:22
Alignment explanation
Indices: 19519305--19519378 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
19519295 TTTCACATTC
*
19519305 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAAGCCTT
*** * * *
19519327 ATCACATATACACTTTCA-CATT
1 ATCACATCGGC-CATTAAGCCTT
19519349 CATCACATCGGCCATTAAGCCTT
1 -ATCACATCGGCCATTAAGCCTT
19519372 ATCACAT
1 ATCACAT
19519379 ATATATACAC
Statistics
Matches: 36, Mismatches: 13, Indels: 6
0.65 0.24 0.11
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAAGCCTT
Found at i:19523186 original size:24 final size:25
Alignment explanation
Indices: 19523154--19523211 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
19523144 AATTTTTCTC
*
19523154 CTAAATTTT-AATTTATTCAATTAT
1 CTAATTTTTCAATTTATTCAATTAT
*
19523178 CTAATTTTTCAATTTATTGAATTAT
1 CTAATTTTTCAATTTATTCAATTAT
19523203 -TAATATTTT
1 CTAAT-TTTT
19523212 TTATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (25 bp):
CTAATTTTTCAATTTATTCAATTAT
Found at i:19526497 original size:18 final size:19
Alignment explanation
Indices: 19526474--19526514 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
19526464 CATTCACATC
19526474 TTTTCTCTCTTC-TCTCCA
1 TTTTCTCTCTTCTTCTCCA
*
19526492 TTTTCTCTCTTCTTTTCCA
1 TTTTCTCTCTTCTTCTCCA
19526511 TTTT
1 TTTT
19526515 AAATTCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTCTCTCTTCTTCTCCA
Found at i:19532180 original size:55 final size:53
Alignment explanation
Indices: 19532102--19532358 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 53
19532092 ATTAGGGTTT
19532102 AAGGATACCATGTAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AA-TGGTAAGGTTTCTAAGGC
* * * * *
19532157 AAGGATACCATGTAAGATCATGCCAAGACATGGCATTGATAAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATGGTAAGGT-TTCTAAGGC
* * * * *
19532212 AAAGG-TCCCATGAAAGACCATGCCAAGGCATGGCATTGGTGA-G-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGG-AATGGTAAGGTTTC-TAAGGC
* ** *
19532265 AAGGATACCATGTCAGACCATATCGAGACATGGGAATGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GGAATGGTAAGGTTTCTAAGGC
* *
19532314 AAGGATACCACGTAAGACCAT-CACAAGTCATGGAAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGC-CAAGACATGG-AATGGTAAGGT
19532359 ACCCGTGTAT
Statistics
Matches: 165, Mismatches: 28, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
48 2 0.01
49 33 0.20
50 2 0.01
52 8 0.05
53 32 0.19
54 12 0.07
55 72 0.44
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATGGTAAGGTTTCTAAGGC
Found at i:19532308 original size:108 final size:110
Alignment explanation
Indices: 19532109--19532309 Score: 255
Period size: 108 Copynumber: 1.8 Consensus size: 110
19532099 TTTAAGGATA
*
19532109 CCATGTAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGAAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* * *
19532174 TCATGCCAAGACATGGCATTGATAAGTTATTATAAGGCAAAGGTC
66 CCATACCAAGACATGGCAATGATAAGTTATTATAAGGCAAAGGTC
* * * * *
19532219 CCATGAAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTCAG
1 CCATGAAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * * *
19532281 ACCATATCGAGACATGGGAATGGTAAGTT
65 ACCATACCAAGACATGGCAATGATAAGTT
19532310 TCAAAAGGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 3 0.04
108 44 0.57
109 6 0.08
110 24 0.31
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGAAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATACCAAGACATGGCAATGATAAGTTATTATAAGGCAAAGGTC
Found at i:19532559 original size:16 final size:16
Alignment explanation
Indices: 19532538--19532568 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19532528 ATAAATTTGA
19532538 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
19532554 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
19532569 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:19539789 original size:27 final size:26
Alignment explanation
Indices: 19539730--19539809 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
19539720 ATTTGCTTTG
** * *
19539730 TGTATTATAGATTTTAAAATGCTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
19539756 TACATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
19539783 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
19539809 T
1 T
19539810 TGTTTACTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:19544155 original size:27 final size:26
Alignment explanation
Indices: 19544096--19544175 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
19544086 ATTTGCTTTG
** * *
19544096 TGTATTATAGATTTTAAAATGCTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
19544122 TACATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
19544149 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
19544175 T
1 T
19544176 TGTTTACTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:19546586 original size:30 final size:30
Alignment explanation
Indices: 19546530--19546588 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
19546520 TCCGAGCCTT
*
19546530 GGGGCAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * *
19546560 GGGGCAAAAGTGTAATTTTGCCAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
19546589 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:19546988 original size:55 final size:53
Alignment explanation
Indices: 19546926--19547180 Score: 258
Period size: 55 Copynumber: 4.8 Consensus size: 53
19546916 CATTAGGGTT
*
19546926 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * *
19546981 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
19547036 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
*
19547089 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* *
19547138 AAGGATACCACGTAAGACCAT-CACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGC-CAAGACATGG-AATTGGTAAG
19547181 GTACCCCGTG
Statistics
Matches: 173, Mismatches: 19, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.23
54 12 0.07
55 71 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:19547132 original size:108 final size:110
Alignment explanation
Indices: 19546933--19547133 Score: 336
Period size: 108 Copynumber: 1.8 Consensus size: 110
19546923 GTTAAGGATA
19546933 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
19546998 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
19547043 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
19547105 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
19547134 TCAAAAGGAT
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
107 3 0.03
108 50 0.58
109 7 0.08
110 26 0.30
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:19552883 original size:3 final size:3
Alignment explanation
Indices: 19552875--19552904 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
19552865 TTTTCATTTA
19552875 AAT AAT AAT AAT AAT AAT AAT AAT AGAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
19552905 ACGCGATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:19553050 original size:13 final size:14
Alignment explanation
Indices: 19553028--19553065 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
19553018 TTAAAACTTT
19553028 AAAT-TATTTTTAC
1 AAATATATTTTTAC
*
19553041 AAA-ATATTTTTAT
1 AAATATATTTTTAC
19553054 AAATATATTTTT
1 AAATATATTTTT
19553066 TATATAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATATATTTTTAC
Found at i:19555407 original size:50 final size:52
Alignment explanation
Indices: 19555343--19555460 Score: 177
Period size: 50 Copynumber: 2.3 Consensus size: 52
19555333 TTAATAAAGT
* *
19555343 CATGCATTATGTAACTCTCATGTTAATT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAATTAAAGTTTGCATCATTAAATTAAGA
* *
19555393 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGC
1 CATGCATTATGTAACTCCCATGTTAATTAAAGTTTGCATCATTAAATTAAGA
*
19555445 CATGCATTAAGTAACT
1 CATGCATTATGTAACT
19555461 TATTTGTTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 26 0.43
51 12 0.20
52 23 0.38
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAATTAAAGTTTGCATCATTAAATTAAGA
Found at i:19567314 original size:40 final size:40
Alignment explanation
Indices: 19567277--19567461 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
19567267 GCTACTCGTT
*
19567277 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
19567317 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
19567357 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
19567396 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19567437 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19567462 CATCATTTAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19567388 original size:79 final size:81
Alignment explanation
Indices: 19567277--19567459 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
19567267 GCTACTCGTT
* ** *
19567277 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
19567341 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
19567357 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
19567420 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
19567437 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
19567460 GACATCATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 53 0.60
80 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:19589414 original size:46 final size:46
Alignment explanation
Indices: 19589347--19589521 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
19589337 TGTAACCCGC
* * * *
19589347 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
19589393 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
19589439 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
19589485 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
19589522 TGCTCAACCA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:19607253 original size:15 final size:16
Alignment explanation
Indices: 19607235--19607264 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19607225 AAATCGAAGT
19607235 GAAAAA-AATTTGAAA
1 GAAAAACAATTTGAAA
19607250 GAAAAACAATTTGAA
1 GAAAAACAATTTGAA
19607265 GTTGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.20
Consensus pattern (16 bp):
GAAAAACAATTTGAAA
Found at i:19608130 original size:23 final size:21
Alignment explanation
Indices: 19608074--19608130 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 21
19608064 GTAACGAAAG
**
19608074 AATAAGAGAAAAGGAAATTGA
1 AATAAGAGAAAACAAAATTGA
* *
19608095 AAGAAAAGAAAAACAAGAATTGA
1 AATAAGAG-AAAACAA-AATTGA
19608118 TAATAAGAGAAAA
1 -AATAAGAGAAAA
19608131 TGATCAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
21 6 0.22
22 5 0.19
23 10 0.37
24 6 0.22
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.12
Consensus pattern (21 bp):
AATAAGAGAAAACAAAATTGA
Found at i:19608195 original size:16 final size:16
Alignment explanation
Indices: 19608163--19608221 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
19608153 GAGAGAAGAA
*
19608163 AAAAAGAAA-TGAGAG
1 AAAAAGAAATTGAAAG
19608178 AAAAAGAAATTGAAAG
1 AAAAAGAAATTGAAAG
19608194 AAAAAGAAAGCTTGAAAG
1 AAAAAGAAA--TTGAAAG
19608212 AAAAGAGAAA
1 AAAA-AGAAA
19608222 GAAAAAGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
15 9 0.23
16 14 0.36
18 11 0.28
19 5 0.13
ACGTcount: A:0.68, C:0.02, G:0.22, T:0.08
Consensus pattern (16 bp):
AAAAAGAAATTGAAAG
Found at i:19610229 original size:50 final size:52
Alignment explanation
Indices: 19610169--19610287 Score: 170
Period size: 50 Copynumber: 2.3 Consensus size: 52
19610159 TTAATAAAGT
* * *
19610169 CATGCTTTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
* *
19610219 CATGGATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGC
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
*
19610271 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
19610288 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 25 0.42
51 12 0.20
52 23 0.38
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:19611676 original size:27 final size:27
Alignment explanation
Indices: 19611646--19611707 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
19611636 CGCATTTCAA
19611646 TCATTTTACCTCATAAGGGCAAAACAG
1 TCATTTTACCTCATAAGGGCAAAACAG
* * *
19611673 TCATTTTACCTCATGAGGGTAAAATAG
1 TCATTTTACCTCATAAGGGCAAAACAG
19611700 TCATTTTA
1 TCATTTTA
19611708 TTGATTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (27 bp):
TCATTTTACCTCATAAGGGCAAAACAG
Found at i:19617373 original size:14 final size:13
Alignment explanation
Indices: 19617345--19617385 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
19617335 CTGGCCCGCC
19617345 TATATTAATTTTT
1 TATATTAATTTTT
*
19617358 TATATTATTATTTT
1 TATATTAAT-TTTT
19617372 TATA-TAATTTTT
1 TATATTAATTTTT
19617384 TA
1 TA
19617386 AAAAATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.24
13 11 0.44
14 8 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATTAATTTTT
Found at i:19625013 original size:21 final size:21
Alignment explanation
Indices: 19624987--19625030 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
19624977 ATGTCATGCA
19624987 TTATACTAGAG-ACAATATAGC
1 TTATACTAGAGCA-AATATAGC
19625008 TTATACTAGAGCAAATATAGC
1 TTATACTAGAGCAAATATAGC
19625029 TT
1 TT
19625031 TTGTAGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (21 bp):
TTATACTAGAGCAAATATAGC
Found at i:19629891 original size:16 final size:17
Alignment explanation
Indices: 19629866--19629900 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19629856 ATTATTATTA
*
19629866 TTTTTACTTTTTTTTTC
1 TTTTTACTTTTCTTTTC
19629883 TTTTT-CTTTTCTTTTC
1 TTTTTACTTTTCTTTTC
19629899 TT
1 TT
19629901 AAGAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTACTTTTCTTTTC
Found at i:19632379 original size:13 final size:13
Alignment explanation
Indices: 19632361--19632385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19632351 TCTCTTCACC
19632361 TCTCTCTCATTTT
1 TCTCTCTCATTTT
19632374 TCTCTCTCATTT
1 TCTCTCTCATTT
19632386 CCTTTCATTG
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:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (13 bp):
TCTCTCTCATTTT
Found at i:19636667 original size:42 final size:41
Alignment explanation
Indices: 19636555--19636676 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 41
19636545 TACCATACCA
* **
19636555 ATGCCATATCCCAGATATGGTCTTACATGTAATCTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CTAATCTCATATCG
* *
19636597 ATGCCAATAGCCCAGCTATGGTCTTACACTAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACTAA-TCTCATATCG
* *
19636640 ATGCCATATCTCAAATATGGTCTTACACATAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACAC-TAATCTCA
19636677 GTAACCCTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACTAATCTCATATCG
Found at i:19638810 original size:21 final size:21
Alignment explanation
Indices: 19638771--19638810 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19638761 AAATATGGAC
* **
19638771 AAATTGAGATTGTGTAAATTG
1 AAATTGAAATTGTAAAAATTG
19638792 AAATTGAAATTGTAAAAAT
1 AAATTGAAATTGTAAAAAT
19638811 AAACAGAGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.35
Consensus pattern (21 bp):
AAATTGAAATTGTAAAAATTG
Found at i:19646688 original size:20 final size:20
Alignment explanation
Indices: 19646663--19646700 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19646653 ATACTTTATT
*
19646663 TTTTGTTAAGTATCGATAAA
1 TTTTGTTAAGTATAGATAAA
*
19646683 TTTTGTTGAGTATAGATA
1 TTTTGTTAAGTATAGATA
19646701 GATTCACAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (20 bp):
TTTTGTTAAGTATAGATAAA
Found at i:19654202 original size:25 final size:25
Alignment explanation
Indices: 19654168--19654218 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
19654158 CTAATACGCT
19654168 TCTGCTCATCTAGCAGTGAATTTCC
1 TCTGCTCATCTAGCAGTGAATTTCC
19654193 TCTGCTCATCTAGCAGTGAATTTCC
1 TCTGCTCATCTAGCAGTGAATTTCC
19654218 T
1 T
19654219 ATCTCGTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (25 bp):
TCTGCTCATCTAGCAGTGAATTTCC
Found at i:19659283 original size:46 final size:46
Alignment explanation
Indices: 19659233--19659454 Score: 290
Period size: 46 Copynumber: 4.8 Consensus size: 46
19659223 TGGTTGAGCA
19659233 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
19659279 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
19659325 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
19659370 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
19659418 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19659455 GCGGGTTACA
Statistics
Matches: 152, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 3 0.02
46 108 0.71
47 27 0.18
48 3 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19662642 original size:24 final size:24
Alignment explanation
Indices: 19662595--19662666 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
19662585 GCTTTATCAT
** *
19662595 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCCTTTTTTA
*
19662620 ATAACTGGGGCAAAGCCTTTTTTG
1 ATAACTGGGGCAAAGCCTTTTTTA
*
19662644 ATAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGGGGCAAAGCCTTTTT
19662667 CGGTAAACAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 14 0.34
25 27 0.66
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCTTTTTTA
Found at i:19662650 original size:25 final size:25
Alignment explanation
Indices: 19662622--19662691 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
19662612 CTCTTTTAAT
*
19662622 AACTGGGGCAAAGCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
19662647 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
19662672 AACAGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
19662692 AGCACTACCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:19662927 original size:27 final size:27
Alignment explanation
Indices: 19662897--19663141 Score: 337
Period size: 27 Copynumber: 9.1 Consensus size: 27
19662887 GGGAACATGA
* * * *
19662897 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
19662924 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
19662951 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
19662978 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
19663005 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* **
19663032 TAATTCTACCTTACAGGGGTATTTAAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
19663059 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * * **
19663086 TATTTCTGCCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGG
*
19663113 TAATTCTACCTTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
19663140 TA
1 TA
19663142 TTTTACAAAT
Statistics
Matches: 190, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:19663157 original size:27 final size:26
Alignment explanation
Indices: 19663129--19663279 Score: 153
Period size: 27 Copynumber: 5.7 Consensus size: 26
19663119 TACCTTACAG
*
19663129 GGGTATTTCGGT-ATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
19663155 GGGTATTTTGGTAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTACAAACAA
*
19663181 GAGGTATTTTAGTAATTTTACAAACCAA
1 G-GGTATTTTGGTAATTTTACAAA-CAA
* * *
19663209 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTAC-AAACAA
**
19663236 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* *
19663263 TGGTA-TTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
19663280 GTAAATTGAG
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
26 26 0.25
27 75 0.71
28 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:19663215 original size:54 final size:54
Alignment explanation
Indices: 19663141--19663279 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
19663131 GTATTTCGGT
*
19663141 ATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACC-AGAGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCGAG-GGTATTTTAGTA
** * *
19663195 ATTTTACAAACCAAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTA
** * *
19663249 ATTTTGTAAACCAATGGTA-TTTAGTAATTTT
1 ATTTTACAAACCAAGGGTATTTTGGTAATTTT
19663280 GTAAATTGAG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
53 11 0.15
54 62 0.83
55 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
ATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTA
Found at i:19663247 original size:81 final size:79
Alignment explanation
Indices: 19663129--19663279 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 79
19663119 TACCTTACAG
19663129 GGGTATTTCGGTATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAGA-GGTATTTTAG
1 GGGTATTTCGGTATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCA-ATGGTA-TTTAG
19663193 TAATTTTACAAACCAA
64 TAATTTTACAAACCAA
* ** * **
19663209 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTAGT
1 GGGTATTTCGGT-ATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAATGGTATTTAGT
19663274 AATTTT
65 AATTTT
19663280 GTAAATTGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 24 0.38
81 39 0.62
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (79 bp):
GGGTATTTCGGTATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAATGGTATTTAGTA
ATTTTACAAACCAA
Found at i:19663311 original size:27 final size:27
Alignment explanation
Indices: 19663281--19663425 Score: 218
Period size: 27 Copynumber: 5.4 Consensus size: 27
19663271 AGTAATTTTG
* *
19663281 TAAATTGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
19663308 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
* * *
19663335 TAAATCGAGGGTAAAATGGTAATTTTA
1 TAAATCGAGGGTAAAACGATAATTCTA
* *
19663362 TAAATCGAGGGTAAAATGATAATTCTG
1 TAAATCGAGGGTAAAACGATAATTCTA
19663389 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
*
19663416 TAAATTGAGG
1 TAAATCGAGG
19663426 ATATTTGGGT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGATAATTCTA
Found at i:19663376 original size:81 final size:81
Alignment explanation
Indices: 19663272--19663425 Score: 254
Period size: 81 Copynumber: 1.9 Consensus size: 81
19663262 ATGGTATTTA
* * *
19663272 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
19663337 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* *
19663353 GTAATTTTATAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
*
19663418 AATTGAGG
66 AATCGAGG
19663426 ATATTTGGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (81 bp):
GTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
AATCGAGGGTAAAATG
Found at i:19663466 original size:81 final size:81
Alignment explanation
Indices: 19663287--19663455 Score: 223
Period size: 81 Copynumber: 2.1 Consensus size: 81
19663277 TTTGTAAATT
* *
19663287 GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAT
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGATAAAAT
* *
19663352 GGTAATTTTATAAATC
66 GGTAATTTTAGAAACC
* * * **
19663368 GAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATTGAGGAT-ATTT
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGATAAAAT
*
19663432 GGGTAGTTTTAGAAACC
66 -GGTAATTTTAGAAACC
*
19663449 GTGGGTA
1 GAGGGTA
19663456 CTTTGGTAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
80 2 0.03
81 74 0.97
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.30
Consensus pattern (81 bp):
GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGATAAAAT
GGTAATTTTAGAAACC
Found at i:19665900 original size:25 final size:25
Alignment explanation
Indices: 19665866--19665935 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
19665856 CTCTTTTAAT
* *
19665866 AACTCGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
19665891 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
19665916 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
19665936 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:19666172 original size:27 final size:27
Alignment explanation
Indices: 19666142--19666471 Score: 250
Period size: 27 Copynumber: 12.3 Consensus size: 27
19666132 GGAAAAATGA
* * * *
19666142 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTTTACCCTACAGGGGTATTTCAG
* * *
19666169 TAATTCTATCCTACAGGGGTATTTCGG
1 TAATTTTACCCTACAGGGGTATTTCAG
*
19666196 T-ATTTCTA-CCTACAAGGGTATTTC-G
1 TAATTT-TACCCTACAGGGGTATTTCAG
* *
19666221 TTAA-TTTACTCTACAGGGGTATTTCAA
1 -TAATTTTACCCTACAGGGGTATTTCAG
*
19666248 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTTTACCCTACAGGGGTATTTCAG
* *
19666275 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTTTACCCTACAGGGGTATTTCAG
*
19666302 T-ATTTCTACCCTACAAGGGTATTTCAG
1 TAATTT-TACCCTACAGGGGTATTTCAG
*
19666329 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTTTACCCTACAGGGGTATTTCAG
** * **
19666356 T-ATTTTA-CAAATCAAGGGTATTTTGG
1 TAATTTTACCCTA-CAGGGGTATTTCAG
** *
19666382 TAATTTTA-CAAACTAGGGGTATTTTAG
1 TAATTTTACCCTAC-AGGGGTATTTCAG
**
19666409 TAATTTTA-CAAACCAGGGGTATATT-AG
1 TAATTTTACCCTA-CAGGGGTAT-TTCAG
** **
19666436 TAATTTTA-CAAACCAGGGGTATTTTGG
1 TAATTTTACCCTA-CAGGGGTATTTCAG
19666463 TAATTTTAC
1 TAATTTTAC
19666472 TGATCGAGGA
Statistics
Matches: 260, Mismatches: 28, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.02
26 61 0.23
27 188 0.72
28 6 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTTTACCCTACAGGGGTATTTCAG
Found at i:19666214 original size:26 final size:27
Alignment explanation
Indices: 19666142--19666357 Score: 276
Period size: 27 Copynumber: 8.1 Consensus size: 27
19666132 GGAAAAATGA
* * * * *
19666142 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
19666169 TAATTCTATCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
19666196 TATTTCTA-CCTACAAGGGTATTTC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
19666221 TTAATT-TACTCTACAGGGGTATTTCAA
1 -TAATTCTACCCTACAGGGGTATTTCAG
19666248 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
19666275 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
19666302 TATTTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
19666329 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
19666356 TA
1 TA
19666358 TTTTACAAAT
Statistics
Matches: 166, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
25 3 0.02
26 38 0.23
27 125 0.75
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:19666293 original size:106 final size:108
Alignment explanation
Indices: 19666141--19666354 Score: 317
Period size: 106 Copynumber: 2.0 Consensus size: 108
19666131 GGGAAAAATG
* * * * *
19666141 ATAATTTTACCCCACATGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGGTATTTCTA-C
1 ATAATTCTACCCCACAGGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
*
19666205 CTACAAGGGTATTTC-GTTAATT-TACTCTACAGGGGTATTTCA
66 CTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCA
* * *
19666247 ATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTATTTCTACC
1 ATAATTCTACCCCACAGGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
19666312 CTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
66 CTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
19666355 GTATTTTACA
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
106 55 0.57
107 21 0.22
108 20 0.21
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (108 bp):
ATAATTCTACCCCACAGGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
CTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:19666494 original size:54 final size:53
Alignment explanation
Indices: 19666342--19666523 Score: 188
Period size: 54 Copynumber: 3.4 Consensus size: 53
19666332 TTCTACCCTA
* *
19666342 CAGGGGTATTTCAGT-ATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTAGTAATTTTAC-AATCAAGGGTATTTTGATAATTTTACAAAC
* * * *
19666395 TAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATATT-AGTAATTTTACAAAC
1 CAGGGGTATTTTAGTAATTTTAC-AATCAAGGGTATTTTGA-TAATTTTACAAAC
* * * * **
19666449 CAGGGGTATTTTGGTAATTTTACTGATCGAGGATATTTTGATAATTTTGTAAAC
1 CAGGGGTATTTTAGTAATTTTAC-AATCAAGGGTATTTTGATAATTTTACAAAC
**
19666503 CAATGGTATTTTAGTAATTTT
1 CAGGGGTATTTTAGTAATTTT
19666524 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
53 13 0.12
54 92 0.87
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (53 bp):
CAGGGGTATTTTAGTAATTTTACAATCAAGGGTATTTTGATAATTTTACAAAC
Found at i:19666537 original size:27 final size:27
Alignment explanation
Indices: 19666345--19666537 Score: 153
Period size: 27 Copynumber: 7.2 Consensus size: 27
19666335 TACCCTACAG
* *
19666345 GGGTATTTCAGT-ATTTTACAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGA
* *
19666371 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTAGTAATTTTACAAATCGA
*
19666397 GGGGTATTTTAGTAATTTTACAAA-CCA
1 -GGGTATTTTAGTAATTTTACAAATCGA
* *
19666424 GGGGTATATTAGTAATTTTACAAA-CCA
1 -GGGTATTTTAGTAATTTTACAAATCGA
* **
19666451 GGGGTATTTTGGTAATTTTACTGATCGA
1 -GGGTATTTTAGTAATTTTACAAATCGA
* ** * *
19666479 GGATATTTT-GATAATTTTGTAAACCAA
1 GGGTATTTTAG-TAATTTTACAAATCGA
* **
19666506 TGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
19666533 GGGTA
1 GGGTA
19666538 AAATGGTAAT
Statistics
Matches: 139, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
26 13 0.09
27 123 0.88
28 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCGA
Found at i:19666537 original size:81 final size:81
Alignment explanation
Indices: 19666345--19666537 Score: 212
Period size: 81 Copynumber: 2.4 Consensus size: 81
19666335 TACCCTACAG
* * *
19666345 GGGTATTTCAGT-ATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAG
1 GGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGATATTTTAG
*
19666409 TAATTTTACAAACCAG
66 TAATTTTACAAACCAA
* * * * *
19666425 GGGTATATTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGATCGA-GGATATTTT-
1 GGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTAC-AAACGAGGGATATTTTA
**
19666488 GATAATTTTGTAAACCAA
65 G-TAATTTTACAAACCAA
* ** *
19666506 TGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTAGTAATTTTACAAATCAAGGGTA
19666538 AAATGGTAAT
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
80 11 0.12
81 78 0.85
82 3 0.03
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGATATTTTAG
TAATTTTACAAACCAA
Found at i:19666546 original size:27 final size:27
Alignment explanation
Indices: 19666516--19666669 Score: 191
Period size: 27 Copynumber: 5.7 Consensus size: 27
19666506 TGGTATTTTA
* *
19666516 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
19666543 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19666570 GTAATTCTATAAATCGATGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
19666597 ATAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19666624 GTAATCCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
19666651 ATAATTCTATAAATTGAGG
1 GTAATTCTGTAAATCGAGG
19666670 ATATTTGGGT
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:19666574 original size:54 final size:54
Alignment explanation
Indices: 19666515--19666669 Score: 211
Period size: 54 Copynumber: 2.9 Consensus size: 54
19666505 ATGGTATTTT
* * * * *
19666515 AGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
* * *
19666569 GGTAATTCTATAAATCGATGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
* * *
19666623 AGTAATCCTGTAAATCGAGGGTGAAACGATAATTCTATAAATTGAGG
1 AGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGG
19666670 ATATTTGGGT
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 87 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
Found at i:19668610 original size:14 final size:15
Alignment explanation
Indices: 19668580--19668613 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19668570 GTTGTATTAG
19668580 TAAAATAAATAATAA
1 TAAAATAAATAATAA
*
19668595 TAAAATAAGT-ATAA
1 TAAAATAAATAATAA
19668609 TAAAA
1 TAAAA
19668614 CATATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
TAAAATAAATAATAA
Found at i:19671715 original size:9 final size:9
Alignment explanation
Indices: 19671701--19671737 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19671691 TATAGTTTGA
19671701 TATTCGAAT
1 TATTCGAAT
19671710 TATTCGAAT
1 TATTCGAAT
*
19671719 TATTCGAGT
1 TATTCGAAT
19671728 TATTCGAAT
1 TATTCGAAT
19671737 T
1 T
19671738 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19671814 original size:18 final size:18
Alignment explanation
Indices: 19671788--19671822 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19671778 ATTCGAGTTG
*
19671788 ACTCGAATAACTCGATTA
1 ACTCAAATAACTCGATTA
19671806 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
19671823 CTTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:19674282 original size:30 final size:30
Alignment explanation
Indices: 19674248--19674305 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
19674238 TTTTCGGGCA
* *
19674248 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
19674278 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
19674306 ATGTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:19674716 original size:47 final size:45
Alignment explanation
Indices: 19674648--19675004 Score: 233
Period size: 47 Copynumber: 7.6 Consensus size: 45
19674638 TTTGTGCGCT
* * * **
19674648 AGTGTAAGACATGTCTAGGACATGCTTCGGCCACTTTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACTAGATGAGAGCC
* * * *
19674694 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATCCAGATGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA-CTAGATGAGAGCC
* *
19674742 AGTGTAAGACATGTCTAGGACATGCATCAGCCATACTA-A-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C--ACTAGATGAGAGCC
* * * *
19674788 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCAC-TAGATGAGAGCC
* * *
19674836 AGTGTAAGACATGTTTGGGACATGCATCGACCTTGAC-AGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-AGC---ACTAGATGAGAGCC
* * * * * * *
19674883 AGTGTAAGACGTGTCTGAGACACGCATC-G-GCTAAGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACT-AGATG-AGAGCC
* *
19674927 AGTGTAAGACATGTCTAGGACATGCATCAGCATGCGTATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--C-TAGATGAGAGCC
19674975 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
19675005 GACAATATAT
Statistics
Matches: 238, Mismatches: 47, Indels: 48
0.71 0.14 0.14
Matches are distributed among these distances:
41 1 0.00
43 4 0.02
44 26 0.11
45 3 0.01
46 35 0.15
47 85 0.36
48 61 0.26
49 16 0.07
50 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACTAGATGAGAGCC
Found at i:19674808 original size:94 final size:95
Alignment explanation
Indices: 19674645--19675005 Score: 404
Period size: 94 Copynumber: 3.9 Consensus size: 95
19674635 TGATTTGTGC
* * * *
19674645 GCTAGTGTAAGACATGTCTAGGACATGCTTCGGCCACT-TTA-TGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCA-TACTAGAGAGAGCCAGTGTAAGACCATG
* * * *
19674708 TTTGGGACATGGCATCAGCATCCAGATGAGG
65 TCTGGGACATGGCATCGGCATCAAGATGAGT
*
19674739 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTA-AGATAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTAGAGAGAGCCAGTGTAAGACCATGT
19674803 CTGGGACATGGCATCGGCA-CAGAGATGAGT
66 CTGGGACATGGCATCGGCATCA-AGATGAGT
* * * * *
19674833 GCTAGTGTAAGACATGTTTGGGACATGCATC-GACCTTGAC-AGAGATAGCCAGTGTAAGA-CGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAG-CCAT-ACTAGAGAGAGCCAGTGTAAGACCAT
* * *
19674895 GTCTGAGACA-CGCATCGGC-T-AAGA-GTTGT
64 GTCTGGGACATGGCATCGGCATCAAGATG-AGT
* *
19674924 GCTAGTGTAAGACATGTCTAGGACATGCATCAG-CATGCGTATATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATAC-TAGA-GAGAGCCAGTGTAAGACCAT
19674988 GTCTGGGACATGGCATCG
64 GTCTGGGACATGGCATCG
19675006 ACAATATATC
Statistics
Matches: 229, Mismatches: 25, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
89 1 0.00
90 3 0.01
91 36 0.16
92 17 0.07
93 22 0.10
94 131 0.57
95 19 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTAGAGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCATCAAGATGAGT
Found at i:19675004 original size:141 final size:140
Alignment explanation
Indices: 19674645--19675007 Score: 377
Period size: 141 Copynumber: 2.6 Consensus size: 140
19674635 TGATTTGTGC
* *
19674645 GCTAGTGTAAGACATGTCTAGGACATGCTTCGGCCAC-TTTATGAGAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-CACGTATATGAGAGCCAGTGTAAGACCATGT
* * * * *
19674709 TTGGGACATGGCATC-AGCATCCAGATGAGGGCTAGTGTAAGACATGTCTAGGACATGCATCAGC
65 TTGGGACATGGCATCGACCATACAGATGAGAGCCAGTGTAAGACATGTCTAGGACACGCATCAGC
19674773 CATACTAAGATA
130 CATAC-AAGATA
* * * * *
19674785 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAG-AGATGAGTGCTAGTGTAAGA-CAT
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCAC-GTATATGAGAGCCAGTGTAAGACCAT
* * *
19674848 GTTTGGGACAT-GCATCGACCTTGACAGA-GATAGCCAGTGTAAGACGTGTCT-GAGACACGCAT
63 GTTTGGGACATGGCATCGACCAT-ACAGATGAGAGCCAGTGTAAGACATGTCTAG-GACACGCAT
* * *
19674910 C-GGC-TA-AGAGTTGT
126 CAGCCATACA-AGAT-A
*
19674924 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCATGCGTATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCA--CGTATATGAGAGCCAGTGTAAGACCATG
*
19674989 TCTGGGACATGGCATCGAC
64 TTTGGGACATGGCATCGAC
19675008 AATATATCCC
Statistics
Matches: 184, Mismatches: 25, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
137 9 0.05
138 17 0.09
139 31 0.17
140 32 0.17
141 69 0.38
142 26 0.14
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (140 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCACGTATATGAGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGACCATACAGATGAGAGCCAGTGTAAGACATGTCTAGGACACGCATCAGCC
ATACAAGATA
Found at i:19679059 original size:16 final size:15
Alignment explanation
Indices: 19679029--19679071 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
19679019 ATCGAGTTGG
*
19679029 GAAAATTATTTAATT
1 GAAAATTAATTAATT
19679044 GAAAAGTTAATTAATT
1 GAAAA-TTAATTAATT
19679060 -AAAATTAATTAA
1 GAAAATTAATTAA
19679072 ATAAATAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 9 0.35
16 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
GAAAATTAATTAATT
Found at i:19679069 original size:14 final size:14
Alignment explanation
Indices: 19679030--19679076 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
19679020 TCGAGTTGGG
*
19679030 AAAATTATTTAATT
1 AAAATTAATTAATT
19679044 GAAAAGTTAATTAATT
1 -AAAA-TTAATTAATT
*
19679060 AAAATTAATTAAAT
1 AAAATTAATTAATT
19679074 AAA
1 AAA
19679077 TAATGTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.41
15 8 0.28
16 9 0.31
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (14 bp):
AAAATTAATTAATT
Found at i:19684296 original size:22 final size:22
Alignment explanation
Indices: 19684268--19684311 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
19684258 ATCAACTAAT
19684268 CCGATACTTTTTCCTTTCCCCG
1 CCGATACTTTTTCCTTTCCCCG
19684290 CCGATACTTTTTCCTTTCCCCG
1 CCGATACTTTTTCCTTTCCCCG
19684312 ATCTAAATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.41, G:0.09, T:0.41
Consensus pattern (22 bp):
CCGATACTTTTTCCTTTCCCCG
Found at i:19684937 original size:13 final size:14
Alignment explanation
Indices: 19684913--19684941 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19684903 GTAATGTGAT
19684913 TTTTGTTTTATTTA
1 TTTTGTTTTATTTA
19684927 TTTTG-TTTATTTA
1 TTTTGTTTTATTTA
19684940 TT
1 TT
19684942 ATTAAATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGTTTTATTTA
Found at i:19691353 original size:12 final size:12
Alignment explanation
Indices: 19691336--19691379 Score: 61
Period size: 12 Copynumber: 3.4 Consensus size: 12
19691326 TGACCTAGTA
19691336 TTACTCGACCTG
1 TTACTCGACCTG
19691348 TTACTCGACCTAG
1 TTACTCGACCT-G
19691361 TATTACTCGACCTG
1 --TTACTCGACCTG
19691375 TTACT
1 TTACT
19691380 GAGACATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 16 0.55
13 1 0.03
14 1 0.03
15 11 0.38
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (12 bp):
TTACTCGACCTG
Found at i:19691358 original size:27 final size:27
Alignment explanation
Indices: 19691327--19691379 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
19691317 CACTGGTTAT
19691327 GACCTAGTATTACTCGACCTGTTACTC
1 GACCTAGTATTACTCGACCTGTTACTC
19691354 GACCTAGTATTACTCGACCTGTTACT
1 GACCTAGTATTACTCGACCTGTTACT
19691380 GAGACATTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (27 bp):
GACCTAGTATTACTCGACCTGTTACTC
Found at i:19691368 original size:15 final size:15
Alignment explanation
Indices: 19691327--19691373 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
19691317 CACTGGTTAT
19691327 GACCTAGTATTACTC
1 GACCTAGTATTACTC
19691342 GACCT-G--TTACTC
1 GACCTAGTATTACTC
19691354 GACCTAGTATTACTC
1 GACCTAGTATTACTC
19691369 GACCT
1 GACCT
19691374 GTTACTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.38
13 1 0.03
14 1 0.03
15 16 0.55
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (15 bp):
GACCTAGTATTACTC
Found at i:19704126 original size:79 final size:80
Alignment explanation
Indices: 19703950--19704174 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
19703940 TTGAATGATG
* * * *
19703950 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTATATCCGGGCTAAGACCCGAAGGCATT
19704014 TGTGCGAGATACTAAA
65 TGTGCGAGATACTAAA
*
19704030 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTATA-TCCGGGCTAAGACCCGAAGGCA
*
19704091 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
* * * * * * *
19704109 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCAGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATATCCGGGCTAAGACCCGAAGGCATTT
19704174 G
66 G
19704175 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 65 0.52
80 49 0.40
81 9 0.07
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:19704138 original size:40 final size:40
Alignment explanation
Indices: 19703950--19704174 Score: 248
Period size: 40 Copynumber: 5.7 Consensus size: 40
19703940 TTGAATGATG
* * *
19703950 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
*
19703990 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
19704030 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
19704070 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
19704109 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
* *
19704150 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19704175 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 34 0.21
40 116 0.71
41 12 0.07
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:19704193 original size:119 final size:120
Alignment explanation
Indices: 19703950--19704180 Score: 269
Period size: 119 Copynumber: 1.9 Consensus size: 120
19703940 TTGAATGATG
*
19703950 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
19704015 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
* * * * **
19704070 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATTCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
19704132 TTGTGCGA-ATTACTATAA-CCAGG-CTATG-TCCCGAAGGCATTTGAACGAG
64 TTGTGCGAGA-TACTA-AATCC-GGACTAAGAT-CCGAAGGCATTTGAACGAG
19704181 GAGCTATATC
Statistics
Matches: 95, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
118 3 0.03
119 70 0.74
120 22 0.23
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
Found at i:19704196 original size:79 final size:79
Alignment explanation
Indices: 19704003--19704207 Score: 181
Period size: 79 Copynumber: 2.6 Consensus size: 79
19703993 GGACTAAGAT
** *
19704003 CCGAAGGCATTTGTGCGAGAT-ACTAAA-TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATA
1 CCGAAGGCATTTGAACGAG-TGACTAAATTCCGG-TTAA-ATCCCGAAGGCATTTGTGCGAGATA
* *
19704065 CTAATTCCGGGCTAAGC
63 CTAATACCAGGCTAAGC
** * * *
19704082 CCGAAGGCATTTGTGCGAGTTACTAAATTCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATTCCGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
19704146 -ATAACCAGGCTATGTC
65 AAT-ACCAGGCTAAG-C
* *
19704162 CCGAAGGCATTTGAACGAG-GAGCTATA-TCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATTCCGGTTAAATCCCGAAGG
19704208 TACGTGATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
78 5 0.05
79 75 0.71
80 26 0.25
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATTCCGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCAGGCTAAGC
Found at i:19710167 original size:43 final size:43
Alignment explanation
Indices: 19710095--19710259 Score: 226
Period size: 43 Copynumber: 3.8 Consensus size: 43
19710085 ACGGTACTAT
* *
19710095 TCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAGTTAATA
1 TCGGG-CTTCAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
*
19710139 TTGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
*
19710182 TCGAGCTTCGAA-CCTAGCAGGCTATAATGCCGGTGAGTTAATA
1 TCGGGCTTC-AAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* * * *
19710225 TCAGGCTTCGAGGCTAGCAGGC-GTAATGCCGGTGA
1 TCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGA
19710260 ATGAGTTTAG
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
42 13 0.12
43 90 0.83
44 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (43 bp):
TCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
Found at i:19710854 original size:16 final size:18
Alignment explanation
Indices: 19710823--19710855 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19710813 AACTCGTTAC
19710823 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
19710841 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
19710856 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:19712442 original size:24 final size:24
Alignment explanation
Indices: 19712410--19712480 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
19712400 AAGAATTTAG
* *
19712410 TCAAGATCATTCATATATTTTCAA
1 TCAAGATCATTCATGTATATTCAA
19712434 TCAAGATCATTCATGTATATTCAA
1 TCAAGATCATTCATGTATATTCAA
* *
19712458 TTAAAATCATTCATGTATATTCA
1 TCAAGATCATTCATGTATATTCA
19712481 CATAATTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (24 bp):
TCAAGATCATTCATGTATATTCAA
Found at i:19712678 original size:30 final size:31
Alignment explanation
Indices: 19712628--19712691 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
19712618 AAGTAGAGGC
*
19712628 ACGATTGTGCAATCAGAGGCACCAAAGTGCAA
1 ACGATTGT-CAATCAAAGGCACCAAAGTGCAA
*
19712660 ACGATTGT-AATCAAAGGCACTAAAGTGCAA
1 ACGATTGTCAATCAAAGGCACCAAAGTGCAA
19712690 AC
1 AC
19712692 CCGTACAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 22 0.73
32 8 0.27
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (31 bp):
ACGATTGTCAATCAAAGGCACCAAAGTGCAA
Found at i:19714203 original size:25 final size:25
Alignment explanation
Indices: 19714172--19714221 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19714162 GTATCCAAGC
19714172 ATAAAAAATAAGAGAAAATTTTCAA
1 ATAAAAAATAAGAGAAAATTTTCAA
19714197 ATAAAAAATAAGAGAAAATTTTCAA
1 ATAAAAAATAAGAGAAAATTTTCAA
19714222 TTTCTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (25 bp):
ATAAAAAATAAGAGAAAATTTTCAA
Found at i:19717092 original size:8 final size:8
Alignment explanation
Indices: 19717079--19717119 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
19717069 TTATGTAAGT
19717079 TTTATTTG
1 TTTATTTG
19717087 TTTATTT-
1 TTTATTTG
* *
19717094 ATT-TTTC
1 TTTATTTG
19717101 TTTATTTG
1 TTTATTTG
19717109 TTTATTTG
1 TTTATTTG
19717117 TTT
1 TTT
19717120 TTCTAGAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
6 3 0.11
7 4 0.14
8 21 0.75
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (8 bp):
TTTATTTG
Found at i:19717107 original size:22 final size:22
Alignment explanation
Indices: 19717079--19717123 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19717069 TTATGTAAGT
19717079 TTTATTTGTTTATTTATTTTTC
1 TTTATTTGTTTATTTATTTTTC
*
19717101 TTTATTTGTTTATTTGTTTTTC
1 TTTATTTGTTTATTTATTTTTC
19717123 T
1 T
19717124 AGAACGGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (22 bp):
TTTATTTGTTTATTTATTTTTC
Found at i:19720047 original size:123 final size:125
Alignment explanation
Indices: 19719898--19720207 Score: 428
Period size: 123 Copynumber: 2.5 Consensus size: 125
19719888 AGTCCAACGA
* * * *
19719898 AAAACCGAAACCTAGCATGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGC
1 AAAATCGAAACCCAGCATGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTCGC
* *
19719963 TTTAGAATTT-ATAAAACATGAGTGAAATTCTAAAGGAATATTCAATTA-TTT-CAAACCG
66 TTTAGAATTTGA-AAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTTACAAACAG
* * * *
19720021 GAAATCGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACGTTGAACATTGCCTCGT
1 AAAATCGAAACCCAGCATGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTCGC
19720086 TTTAGAATTTGAAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACAG
66 TTTAGAATTTGAAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTT--ACAAACAG
* * ** **
19720148 AAAATCGAAACCCAGCATGATAAGGCACGATTCCCCGAATTTTTAAACATCAAACATTGC
1 AAAATCGAAACCCAGCATGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGC
19720208 ATTCGTTTTA
Statistics
Matches: 163, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
123 102 0.63
124 4 0.02
127 57 0.35
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (125 bp):
AAAATCGAAACCCAGCATGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTCGC
TTTAGAATTTGAAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTTACAAACAG
Found at i:19724072 original size:29 final size:30
Alignment explanation
Indices: 19724015--19724082 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
19724005 CACCCTTAAA
* * * *
19724015 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
19724045 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
19724074 AGTATTTAC
1 A-TATTTAC
19724083 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:19725570 original size:45 final size:45
Alignment explanation
Indices: 19725504--19725721 Score: 162
Period size: 44 Copynumber: 4.9 Consensus size: 45
19725494 CTTCGATCTA
*
19725504 CTCCACTGCAACTTC-GGGAGATAAGATCTGCTAACTTCAGCCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGCTAACTTCAGCCTG
* * * * *
19725548 CTCTACTACAACTTCAGGGAGATAAGA-CTTGGGTAATTTTATCCTG
1 CTCCACTACAACTTCAGGGAGATAAGATC-T-GCTAACTTCAGCCTG
* * * * ** **
19725594 CTCTACTGCAACTTCAGAGAAATAAGGAT-TG-TGGCTTC-GATTTG
1 CTCCACTACAACTTCAGGGAGATAA-GATCTGCTAACTTCAG-CCTG
* * * *
19725638 CTCCACTGCAACTTCAGGGAGACAAGATCTGCTATCTTCAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGCTAACTTCAGCCTG
* *
19725683 CTCCACTACAACTTCAGGAAGATGAGA-CTTGCT-ACTTCA
1 CTCCACTACAACTTCAGGGAGATAAGATC-TGCTAACTTCA
19725722 ACCCACTCAA
Statistics
Matches: 136, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
43 3 0.02
44 48 0.35
45 48 0.35
46 35 0.26
47 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
CTCCACTACAACTTCAGGGAGATAAGATCTGCTAACTTCAGCCTG
Found at i:19725600 original size:46 final size:45
Alignment explanation
Indices: 19725411--19725624 Score: 168
Period size: 46 Copynumber: 4.7 Consensus size: 45
19725401 TCTACTACAA
* * * * *
19725411 CTGCTCCACTGCAACTTCAGGGAGATACGGTTCGTGTATTTTTATC
1 CTGCTCTACTGCAACTTCAGGGAGATAAGATT-GGGTAATTTTATC
** * **
19725457 CTGCTCTACTGCAACTTCAGATAGATAAGGATTGTGG--CTTCGAT-
1 CTGCTCTACTGCAACTTCAGGGAGATAA-GATTG-GGTAATTTTATC
* * * * * *
19725501 CTACTCCACTGCAACTTC-GGGAGATAAGATCT-GCTAACTTCAGC
1 CTGCTCTACTGCAACTTCAGGGAGATAAGAT-TGGGTAATTTTATC
*
19725545 CTGCTCTACTACAACTTCAGGGAGATAAGACTTGGGTAATTTTATC
1 CTGCTCTACTGCAACTTCAGGGAGATAAGA-TTGGGTAATTTTATC
* *
19725591 CTGCTCTACTGCAACTTCAGAGAAATAAGGATTG
1 CTGCTCTACTGCAACTTCAGGGAGATAA-GATTG
19725625 TGGCTTCGAT
Statistics
Matches: 129, Mismatches: 29, Indels: 20
0.72 0.16 0.11
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 10 0.08
44 31 0.24
45 16 0.12
46 62 0.48
47 6 0.05
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
CTGCTCTACTGCAACTTCAGGGAGATAAGATTGGGTAATTTTATC
Found at i:19725642 original size:134 final size:135
Alignment explanation
Indices: 19725411--19725713 Score: 448
Period size: 134 Copynumber: 2.3 Consensus size: 135
19725401 TCTACTACAA
* * * * *
19725411 CTGCTCCACTGCAACTTCAGGGAGATACG-GTTCGTGTATTTTTATCCTGCTCTACTGCAACTTC
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTT-GGGTAATTTTATCCTGCTCTACTGCAACTTC
* * *
19725475 AGATAGATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTC-GGGAGATAAGATCTGCTAAC
65 AGAGAAATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTGCTAAC
19725539 TTCAGC
130 TTCAGC
*
19725545 CTGCTCTACTACAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
* * *
19725610 GAGAAATAAGGATTGTGGCTTCGATTTGCTCCACTGCAACTTCAGGGAGACAAGATCTGCTATCT
66 GAGAAATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTGCTAACT
*
19725675 TCAGT
131 TCAGC
* *
19725680 CTGCTCCACTACAACTTCAGGAAGATGAGACTTG
1 CTGCTCCACTACAACTTCAGGGAGATAAGACTTG
19725714 CTACTTCAAC
Statistics
Matches: 151, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
134 95 0.63
135 56 0.37
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (135 bp):
CTGCTCCACTACAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGCAACTTCA
GAGAAATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTGCTAACT
TCAGC
Found at i:19725748 original size:135 final size:135
Alignment explanation
Indices: 19725467--19725752 Score: 375
Period size: 135 Copynumber: 2.1 Consensus size: 135
19725457 CTGCTCTACT
* *
19725467 GCAACTTCAGATAG-ATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCGGGAGATAAGAT
1 GCAACTTCAGAGAGAATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCGGGAGACAAGAT
* * * * * * **
19725531 CTGCTAACTTCAGCCTGCTCTACTACAACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCT
66 CTGCTAACTTCAGCCTGCTCCACTACAACTTCAGGAAGATAAGACTTGGCTAACTTCAACCCACT
* *
19725596 CTACT
131 CAACC
* *
19725601 GCAACTTCAGAGA-AATAAGGATTGTGGCTTCGATTTGCTCCACTGCAACTTCAGGGAGACAAGA
1 GCAACTTCAGAGAGAATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTC-GGGAGACAAGA
* * *
19725665 TCTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGAAGATGAGACTT-GCT-ACTTCAACCCAC
65 TCTGCTAACTTCAGCCTGCTCCACTACAACTTCAGGAAGATAAGACTTGGCTAACTTCAACCCAC
19725728 TCAACC
130 TCAACC
19725734 GCAACTTCAGAGAG-ATAAG
1 GCAACTTCAGAGAGAATAAG
19725753 TTTGCTATGA
Statistics
Matches: 132, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
133 29 0.22
134 50 0.38
135 53 0.40
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (135 bp):
GCAACTTCAGAGAGAATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCGGGAGACAAGAT
CTGCTAACTTCAGCCTGCTCCACTACAACTTCAGGAAGATAAGACTTGGCTAACTTCAACCCACT
CAACC
Found at i:19731846 original size:25 final size:22
Alignment explanation
Indices: 19731792--19731846 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
19731782 TTTCGGCTAG
19731792 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
19731814 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
19731839 AGGAAGAA
1 A-GAAGAA
19731847 TTCGGCACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:19740881 original size:127 final size:124
Alignment explanation
Indices: 19740577--19740900 Score: 420
Period size: 123 Copynumber: 2.6 Consensus size: 124
19740567 AACAAAAAAC
* * * * *
19740577 CGAAACCCAGCATGGTAGGGCACAATTCCTCGAATTTCTAAACATTGAACATTGCCTTGCTTTAG
1 CGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTTTTAG
*
19740642 AATTT-ATAAAACACGAGTGAAATTCTAAAGGGATATTCAATTATTTCAAACCGGAAAT
66 AATTTGATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTCAAACCGGAAAT
* *
19740700 CGAAACCCAGCACGATAGGGCATGATTCCTCGAATTTCCAAACGTTGAACATTGCCTTGTTTTAG
1 CGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTTTTAG
* *
19740765 AATTTGA-AAAACACGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAA-CGAGATAT
66 AATTTGATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTA-TTT---CAAACCG-GAAAT
* * * **
19740827 CGAAACTCAGCACGATAGGGTACGATTCCCCGAATTTCCAAACATCAAACATTGCCTTCGTTTTA
1 CGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTT-GTTTT-
19740892 AGGAATTTG
64 A-GAATTTG
19740901 CAGACGAATA
Statistics
Matches: 175, Mismatches: 17, Indels: 11
0.86 0.08 0.05
Matches are distributed among these distances:
123 97 0.55
124 4 0.02
126 2 0.01
127 59 0.34
128 5 0.03
129 1 0.01
130 7 0.04
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (124 bp):
CGAAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTTTTAG
AATTTGATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTCAAACCGGAAAT
Found at i:19742897 original size:77 final size:76
Alignment explanation
Indices: 19742762--19742906 Score: 256
Period size: 75 Copynumber: 1.9 Consensus size: 76
19742752 CTGAAAATCA
* *
19742762 CGTTTTGATTTTTGGTTGCTTTTTTTTTTATTTCAATGCGCGTATATTGTGCGTAAAAAAATTAC
1 CGTTTTGATTTTTGGTTGC-TTTTTTTGTATTTCAATGCGCGTATATTGTGCATAAAAAAATTAC
19742827 AATGAAAAATTT
65 AATGAAAAATTT
19742839 CGTTTTGATTTTTGGTTGC-TTTTTTGTATTTCAATGCGCGTATATTGTGCATAAAAAAATTACA
1 CGTTTTGATTTTTGGTTGCTTTTTTTGTATTTCAATGCGCGTATATTGTGCATAAAAAAATTACA
19742903 ATGA
66 ATGA
19742907 CAAAGTTTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
75 47 0.71
77 19 0.29
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (76 bp):
CGTTTTGATTTTTGGTTGCTTTTTTTGTATTTCAATGCGCGTATATTGTGCATAAAAAAATTACA
ATGAAAAATTT
Found at i:19744348 original size:18 final size:19
Alignment explanation
Indices: 19744322--19744366 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
19744312 AAGCCTATTG
* *
19744322 TTTTCATAAATTT-TTATA
1 TTTTTATAAATTTCTAATA
19744340 TTTTTAT-AATTTCTAATA
1 TTTTTATAAATTTCTAATA
19744358 TTTTT-TAAA
1 TTTTTATAAA
19744367 ACTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATAAATTTCTAATA
Found at i:19744655 original size:9 final size:9
Alignment explanation
Indices: 19744641--19744776 Score: 67
Period size: 10 Copynumber: 13.9 Consensus size: 9
19744631 TTTATTACAA
19744641 TTTTATAAT
1 TTTTATAAT
19744650 TTTTATAACT
1 TTTTATAA-T
*
19744660 TTTTAATACT
1 TTTT-ATAAT
*
19744670 TTTAATAAGT
1 TTTTATAA-T
19744680 TTTTATAACT
1 TTTTATAA-T
*
19744690 TTTTAAAAT
1 TTTTATAAT
19744699 TAATTTATATAT
1 T--TTTATA-AT
19744711 ATTTATATAAT
1 -TTT-TATAAT
*
19744722 TTCTTAT-AG
1 TT-TTATAAT
**
19744731 TTTTATTTT
1 TTTTATAAT
*
19744740 ATTTTATAAG
1 -TTTTATAAT
*
19744750 TTCTATAAT
1 TTTTATAAT
*
19744759 TTTATATTAT
1 TTT-TATAAT
*
19744769 TTATATAA
1 TTTTATAA
19744777 CAGTTTGATA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
8 4 0.04
9 29 0.30
10 43 0.45
11 13 0.14
12 6 0.06
13 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:19744723 original size:19 final size:18
Alignment explanation
Indices: 19744699--19744776 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 18
19744689 TTTTTAAAAT
19744699 TAATTTATATATATTTATA
1 TAATTT-TATATATTTATA
*
19744718 TAATTTCT-TATAGTTTTATT
1 TAATTT-TATATA--TTTATA
* * *
19744738 TTATTTTATA-AGTTCTA
1 TAATTTTATATATTTATA
19744755 TAATTTTATATTATTTATA
1 TAATTTTATA-TATTTATA
19744774 TAA
1 TAA
19744777 CAGTTTGATA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
17 12 0.27
18 4 0.09
19 17 0.38
20 12 0.27
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
TAATTTTATATATTTATA
Found at i:19744775 original size:28 final size:29
Alignment explanation
Indices: 19744702--19744776 Score: 100
Period size: 27 Copynumber: 2.6 Consensus size: 29
19744692 TTAAAATTAA
* *
19744702 TTTATATATATTTATATAATTTCTTATAGT
1 TTTATAT-TATTTATATAAGTTCTTATAAT
*
19744732 TTTATTTTATTT-TATAAGTTC-TATAAT
1 TTTATATTATTTATATAAGTTCTTATAAT
19744759 TTTATATTATTTATATAA
1 TTTATATTATTTATATAA
19744777 CAGTTTGATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 16 0.40
28 13 0.32
29 5 0.12
30 6 0.15
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTATATTATTTATATAAGTTCTTATAAT
Found at i:19744860 original size:28 final size:28
Alignment explanation
Indices: 19744753--19744851 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 28
19744743 TTATAAGTTC
* *
19744753 TATAATTTTATATTATTTATATAACAGTTT
1 TATAATTTTTTAATATTTA-ATAACA-TTT
* * * *
19744783 GATATCTTTTTCATAACATATTAATAATATTT
1 TATA-ATTTTT--TAATAT-TTAATAACATTT
19744815 TATAATTTTTTAATATTTAATAACA-TT
1 TATAATTTTTTAATATTTAATAACATTT
*
19744842 TATAGTTTTT
1 TATAATTTTT
19744852 CTATAATTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
27 11 0.20
28 8 0.15
29 5 0.09
30 3 0.06
31 9 0.17
32 6 0.11
33 9 0.17
34 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (28 bp):
TATAATTTTTTAATATTTAATAACATTT
Found at i:19747359 original size:234 final size:234
Alignment explanation
Indices: 19746950--19747425 Score: 889
Period size: 234 Copynumber: 2.0 Consensus size: 234
19746940 AGCTTTCTTC
*
19746950 CTTTAAAGGGACTTTCATTTTTTGGAAGCTGAAAGTAAACCAAGTAAAAAAATTGAGAAATTTCA
1 CTTTAAAGAGACTTTCATTTTTTGGAAGCTGAAAGTAAACCAAGTAAAAAAATTGAGAAATTTCA
* * *
19747015 ATTGATATATTTTCGGCCAGTTTAGTTGGGAAACTTAATTAGGGTTTGTTTGTTTACATGTAAAA
66 ATTGATATATTTTCAGCCAGTTTAGTTGGGAAACTTAAATAGGGTTCGTTTGTTTACATGTAAAA
19747080 GGTTTTAGGAAAATTATTTTCTGCATTTTCTTGTATTTGTTTCACAGAAAACAGTCTCGTCAACA
131 GGTTTTAGGAAAATTATTTTCTGCATTTTCTTGTATTTGTTTCACAGAAAACAGTCTCGTCAACA
19747145 GAAAATAACTTACATATCAACATAAAATAAGCTATTTTT
196 GAAAATAACTTACATATCAACATAAAATAAGCTATTTTT
19747184 CTTTAAAGAGACTTTCATTTTTTGGAAGCTGAAAGTAAACCAAGTAAAAAAATTGAGAAATTTCA
1 CTTTAAAGAGACTTTCATTTTTTGGAAGCTGAAAGTAAACCAAGTAAAAAAATTGAGAAATTTCA
19747249 ATTGATATATTTTCAGCCAGTTTAGTTGGGAAACTTAAATAGGGTTCGTTTGTTTACATGTAAAA
66 ATTGATATATTTTCAGCCAGTTTAGTTGGGAAACTTAAATAGGGTTCGTTTGTTTACATGTAAAA
*
19747314 GGTTTTAGGGAAATTATTTTCTGCATTTTCTTGTATTTGTTTCACAGAAAACAGTCTCGTCAACA
131 GGTTTTAGGAAAATTATTTTCTGCATTTTCTTGTATTTGTTTCACAGAAAACAGTCTCGTCAACA
*
19747379 GAAAATAACTTACATGTCAACATAAAATAAGCTATTTTT
196 GAAAATAACTTACATATCAACATAAAATAAGCTATTTTT
19747418 CTTGTAAA
1 CTT-TAAA
19747426 ATGACTTACT
Statistics
Matches: 235, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
234 231 0.98
235 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (234 bp):
CTTTAAAGAGACTTTCATTTTTTGGAAGCTGAAAGTAAACCAAGTAAAAAAATTGAGAAATTTCA
ATTGATATATTTTCAGCCAGTTTAGTTGGGAAACTTAAATAGGGTTCGTTTGTTTACATGTAAAA
GGTTTTAGGAAAATTATTTTCTGCATTTTCTTGTATTTGTTTCACAGAAAACAGTCTCGTCAACA
GAAAATAACTTACATATCAACATAAAATAAGCTATTTTT
Found at i:19747695 original size:16 final size:16
Alignment explanation
Indices: 19747646--19747688 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
19747636 TTATTTATAT
*
19747646 TTATTCATATAATAAA
1 TTATTAATATAATAAA
19747662 TTATTAATATAATAAA
1 TTATTAATATAATAAA
19747678 TTATTTAATAT
1 TTA-TTAATAT
19747689 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:19747715 original size:14 final size:14
Alignment explanation
Indices: 19747698--19747737 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
19747688 TTTAAATTTT
19747698 ATTTTAAAAATAAA
1 ATTTTAAAAATAAA
*
19747712 ATTTTAAAAA-ATA
1 ATTTTAAAAATAAA
19747725 ATTTTAAATAATA
1 ATTTTAAA-AATA
19747738 TTTATTACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 12 0.52
15 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTTAAAAATAAA
Found at i:19747727 original size:13 final size:13
Alignment explanation
Indices: 19747698--19747737 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
19747688 TTTAAATTTT
*
19747698 ATTTTAAAAATAAA
1 ATTTTAAAAA-ATA
19747712 ATTTTAAAAAATA
1 ATTTTAAAAAATA
*
19747725 ATTTTAAATAATA
1 ATTTTAAAAAATA
19747738 TTTATTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTTTAAAAAATA
Found at i:19750989 original size:16 final size:16
Alignment explanation
Indices: 19750970--19751016 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
19750960 TTCTGATTTT
19750970 TATTTTTATTTTTTGA
1 TATTTTTATTTTTTGA
* *
19750986 TATTTTTAAATTTCTGA
1 TATTTTT-ATTTTTTGA
19751003 -ATTTTGTATTTTTT
1 TATTTT-TATTTTTT
19751017 AAAATTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (16 bp):
TATTTTTATTTTTTGA
Found at i:19751292 original size:20 final size:21
Alignment explanation
Indices: 19751242--19751293 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
19751232 CTTCCTTTTG
19751242 TTTTTAAAATTTTTTGAGATT
1 TTTTTAAAATTTTTTGAGATT
*
19751263 TTTTT-GAATTTTTTG-G-TT
1 TTTTTAAAATTTTTTGAGATT
19751281 ATTTTTAAAATTT
1 -TTTTTAAAATTT
19751294 ATTTCAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.07
19 6 0.22
20 14 0.52
21 5 0.19
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (21 bp):
TTTTTAAAATTTTTTGAGATT
Found at i:19759965 original size:49 final size:49
Alignment explanation
Indices: 19759893--19759990 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
19759883 GGATGATGGG
19759893 CAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAACAAAATAAGAA
1 CAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAACAAAATAAGAA
* *
19759942 CAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAA
1 CAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAACAAAATAAGAA
19759991 GCATGGGCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.50, C:0.09, G:0.17, T:0.23
Consensus pattern (49 bp):
CAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAACAAAATAAGAA
Found at i:19761174 original size:49 final size:47
Alignment explanation
Indices: 19761116--19761468 Score: 589
Period size: 47 Copynumber: 7.4 Consensus size: 47
19761106 ATTGATGTAC
* * * * *
19761116 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19761163 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19761212 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19761261 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19761308 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
19761355 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
19761402 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
19761449 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
19761469 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 203 0.69
49 92 0.31
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:19765409 original size:19 final size:20
Alignment explanation
Indices: 19765382--19765420 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
19765372 GACCAGGTTT
19765382 AAGGATTTTTAGGGT-TTTA
1 AAGGATTTTTAGGGTATTTA
*
19765401 AAGGGTTTTTAGGGTATTTA
1 AAGGATTTTTAGGGTATTTA
19765421 TCTTTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
AAGGATTTTTAGGGTATTTA
Found at i:19767598 original size:128 final size:127
Alignment explanation
Indices: 19767421--19767652 Score: 322
Period size: 128 Copynumber: 1.8 Consensus size: 127
19767411 CATGCACTGA
* * *
19767421 AATTTTAAAAGGATATTCGGTTATTTGGTCAAACGACAAATCGACACCCAGCACATTAGGGTACG
1 AATTTTAAAAGGATATTCGGTCATTTGGTCAAACGACAAATCGAAACCCAGCACATTAGGGCACG
* *
19767486 ATTTCTCGAACTTCCAAACACGAAATATTGCCTTGTTTTCTAATTGAAGAAATCATAGACGG
66 ATTTCTCGAACTTACAAACACGAAATATTGCCTTATTTTCTAATTGAAGAAATCATAGACGG
* * * * *
19767548 AATTTTAAAAAGGGTATTTGGTCATTTGGTTAAACAGA-AAATTGAAACCCAGCACGTTAGGGCA
1 AATTTT-AAAAGGATATTCGGTCATTTGGTCAAAC-GACAAATCGAAACCCAGCACATTAGGGCA
* * *
19767612 TGATTTCTCGAATTTACAAACATGAAATATTGCCTTATTTT
64 CGATTTCTCGAACTTACAAACACGAAATATTGCCTTATTTT
19767653 GAGAACTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
127 6 0.07
128 82 0.91
129 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (127 bp):
AATTTTAAAAGGATATTCGGTCATTTGGTCAAACGACAAATCGAAACCCAGCACATTAGGGCACG
ATTTCTCGAACTTACAAACACGAAATATTGCCTTATTTTCTAATTGAAGAAATCATAGACGG
Found at i:19770685 original size:133 final size:133
Alignment explanation
Indices: 19770518--19770834 Score: 433
Period size: 133 Copynumber: 2.4 Consensus size: 133
19770508 TACCGCAGAA
* * * *
19770518 AGATAATA-CTACAATCTTCAACATGTTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAA
1 AGATAAGATCTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAA
* * * * *
19770582 CTCTACTCCCCTACTACCTCGGGAAGATAAGATTCGCCCTCTTCGATCTACTTCATTACTGCTTA
66 ATCTACTCCCCTACTACCTCGGGAAGATAAGATTCGCCCTCTTCAATCTACTCCACTAATGCTTA
19770647 GGG
131 GGG
* *
19770650 AGATAAGATCTACAATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAAGCTGATGGCTAAA
1 AGATAAGATCTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAA
* *
19770715 ATCTACTCCCCTACTACCTCGGGAAGATACGATTCGCCCTCTTCAATCTGCTCCACTAATGCTTA
66 ATCTACTCCCCTACTACCTCGGGAAGATAAGATTCGCCCTCTTCAATCTACTCCACTAATGCTTA
19770780 GGG
131 GGG
* * ** *
19770783 AGAGAAGATCTACAATCCTCAGTCTGCT-TCCTTACTACCTCAG-GAAGATAAG
1 AGATAAGATCTACAATCTTCAACCTGCTCT-CTTGCTACCTCAGAG-AGATAAG
19770835 ACTACAATCC
Statistics
Matches: 162, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
132 9 0.06
133 153 0.94
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (133 bp):
AGATAAGATCTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGCTAAA
ATCTACTCCCCTACTACCTCGGGAAGATAAGATTCGCCCTCTTCAATCTACTCCACTAATGCTTA
GGG
Found at i:19770686 original size:177 final size:177
Alignment explanation
Indices: 19770319--19770688 Score: 433
Period size: 177 Copynumber: 2.1 Consensus size: 177
19770309 GATTCGCTGT
* * * * * *
19770319 CTGCTCTCTTGCTACCTCAAGAAAATGAGACTACAATCTCCAGCCTGCTCCCTTGCTACCTTAGG
1 CTGCTCTCTTGCTACCGCAAGAAAATAAGACTACAATCTCCAACATGCTCCCTTGCTACCTCAGA
* * *
19770384 GAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATTTTC
66 GAGATAAGGCTAGTGGCTAAAATCTACTCCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTC
* ** * **
19770449 GATCTGTCCCATTGTTATCTCAAGGAGACAAGATCTACATCATCAGT
131 GATCTCTCCCATTACTAGCTCAAGGAGACAAGATCTACATCATCAAC
* * * *
19770496 CTGCT-TCCTTGCTACCGC-AGAAAGATAATACTACAATCTTCAACATGTTCTCTTGCTACCTCA
1 CTGCTCT-CTTGCTACCGCAAGAAA-ATAAGACTACAATCTCCAACATGCTCCCTTGCTACCTCA
* * *
19770559 GAGAGATAAGGCTGGTGGCTAAACTCTACTCCCCTACTACCTCGGGAAGATAAGATTCGCCCTCT
64 GAGAGATAAGGCTAGTGGCTAAAATCTACTCCCCTACTACCTCGGGAAGATAAGATTCGCCATCT
* * * * *
19770624 TCGATCTACT-TCATTACT-GCTTAGGGAGATAAGATCTACAATCTTCAAC
129 TCGATCT-CTCCCATTACTAGCTCAAGGAGACAAGATCTAC-ATCATCAAC
19770673 CTGCTCTCTTGCTACC
1 CTGCTCTCTTGCTACC
19770689 TTAGAGAGAT
Statistics
Matches: 161, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
176 23 0.14
177 136 0.84
178 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (177 bp):
CTGCTCTCTTGCTACCGCAAGAAAATAAGACTACAATCTCCAACATGCTCCCTTGCTACCTCAGA
GAGATAAGGCTAGTGGCTAAAATCTACTCCCCTACTACCTCGGGAAGATAAGATTCGCCATCTTC
GATCTCTCCCATTACTAGCTCAAGGAGACAAGATCTACATCATCAAC
Found at i:19770854 original size:44 final size:45
Alignment explanation
Indices: 19770782--19770878 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
19770772 AATGCTTAGG
* **
19770782 GAGAGAAGATCTACAATCCTCAGTCTGCT-TCCTTACTACCTCAG-
1 GAGATAAGATCTACAATCCTCAACCTGCTCT-CTTACTACCTCAGA
* *
19770826 GAAGATAAGA-CTACAATCCTTAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGATCTACAATCCTCAACCTGCTCTCTTACTACCTCAGA
19770871 GAGATAAG
1 GAGATAAG
19770879 GCTGGTGGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
44 36 0.80
45 9 0.20
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (45 bp):
GAGATAAGATCTACAATCCTCAACCTGCTCTCTTACTACCTCAGA
Found at i:19770911 original size:310 final size:309
Alignment explanation
Indices: 19770349--19771011 Score: 861
Period size: 310 Copynumber: 2.1 Consensus size: 309
19770339 GAAAATGAGA
* * * *
19770349 CTACAATCTCCAGCCTGCTCCCTTGCTACCTTAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCC
1 CTACAATCTTCAGCCTGCTCTCTTGCTACCTTA-GGAGATAAAGCTAGTGGCTAAAATCTACTCC
* * * * *
19770414 CCTGCTACCTCGGGAAGATAAGATTCGCCATTTTCGATCTGTCCCATTGTTATCTCAAGGAGACA
65 CCTACTACCTCGGGAAGATAAGATTCGCCATCTTCAATCTGTCCCA-TCTAATCTCAAGGAGACA
* * *
19770479 AGATCTACATCATCAGTCTGCTTCCTTGCTACCGCAGAAAGATAATACTACAATCTTCAACATGT
129 AGATCTACATCATCAGTCTGCTTCCTTACTACCGCAGAAAGATAAGACTACAATCTTCAACATGC
*
19770544 TCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAACTCTACTCCCCTACTACCTCGGGAAGA
194 TCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCCCTACTACCTCGGGAAGA
* * * *
19770609 TAAGATTCGCCCTCTTCGATCTACTTCATTACT-GCTTAGGGAGATAAGAT
259 TAAGATTCGCCCTCCTCGATCTACTCCACTACTAGCTCAGGGAGATAAGAT
*
19770659 CTACAATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAAGCT-GATGGCTAAAATCTACTC
1 CTACAATCTTCAGCCTGCTCTCTTGCTACCTTAG-GAGATAAAGCTAG-TGGCTAAAATCTACTC
* * * *
19770723 CCCTACTACCTCGGGAAGATACGATTCGCCCTCTTCAATCTG-CTCCA-CTAATGCTTAGGGAGA
64 CCCTACTACCTCGGGAAGATAAGATTCGCCATCTTCAATCTGTC-CCATCTAAT-CTCAAGGAGA
* * * *
19770786 GAAGATCTACAATCCTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTACAATCCTT-AAC
127 CAAGATCTAC-ATCATCAGTCTGCTTCCTTACTACCGCAGAAAGATAAGACTACAAT-CTTCAAC
* * *
19770850 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGG
190 ATGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCCCTACTACCTCGGG
* * * *
19770915 AAGATAAGATTCGCCGTCCTCGATCTGCTCCACTACTATCTCAGGGAGATGAGAT
255 AAGATAAGATTCGCCCTCCTCGATCTACTCCACTACTAGCTCAGGGAGATAAGAT
** * *
19770970 CTTTAATCTTCAGTCTACT-TCTTTGCTACCTTAGGAAGATAA
1 CTACAATCTTCAGCCTGCTCTC-TTGCTACCTTAGG-AGATAA
19771012 GACTACAATC
Statistics
Matches: 306, Mismatches: 38, Indels: 17
0.85 0.11 0.05
Matches are distributed among these distances:
308 3 0.01
309 20 0.07
310 234 0.76
311 49 0.16
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (309 bp):
CTACAATCTTCAGCCTGCTCTCTTGCTACCTTAGGAGATAAAGCTAGTGGCTAAAATCTACTCCC
CTACTACCTCGGGAAGATAAGATTCGCCATCTTCAATCTGTCCCATCTAATCTCAAGGAGACAAG
ATCTACATCATCAGTCTGCTTCCTTACTACCGCAGAAAGATAAGACTACAATCTTCAACATGCTC
TCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCCCTACTACCTCGGGAAGATA
AGATTCGCCCTCCTCGATCTACTCCACTACTAGCTCAGGGAGATAAGAT
Done.