Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 135 of 138
Found at i:19489192 original size:2 final size:2
Alignment explanation
Indices: 19489185--19489229 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
19489175 ATCCCTCCTC
19489185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19489227 AT A
1 AT A
19489230 AACATCATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19489515 original size:100 final size:100
Alignment explanation
Indices: 19489338--19489542 Score: 376
Period size: 100 Copynumber: 2.1 Consensus size: 100
19489328 AAAGCCTAAT
19489338 AAGT-GTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
1 AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
*
19489402 AGAGCTAAGCAGCATTTCTATCCATGGACATAAGA
66 AGAGCTAAGCAGCATTTCCATCCATGGACATAAGA
19489437 AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
1 AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
*
19489502 AGAGCTAAGCAGCATTTCCATCCATGGACCTAAGA
66 AGAGCTAAGCAGCATTTCCATCCATGGACATAAGA
*
19489537 TAGTAG
1 AAGTAG
19489543 GTGATTCTAG
Statistics
Matches: 102, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
99 4 0.04
100 98 0.96
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (100 bp):
AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
AGAGCTAAGCAGCATTTCCATCCATGGACATAAGA
Found at i:19489817 original size:3 final size:3
Alignment explanation
Indices: 19489809--19489841 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
19489799 GAACAACTAG
*
19489809 TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19489842 AAAGAAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19492842 original size:192 final size:192
Alignment explanation
Indices: 19492515--19492895 Score: 744
Period size: 192 Copynumber: 2.0 Consensus size: 192
19492505 ATATGGACCA
19492515 TAAATTGCACAATCTTTCAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
1 TAAATTGCACAATCTTTCAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
19492580 CTAAACACTCTAAGAAACATAATGTAATCTCCTAAAAACAAGACAAAAGAGGACTGAAAAACTTA
66 CTAAACACTCTAAGAAACATAATGTAATCTCCTAAAAACAAGACAAAAGAGGACTGAAAAACTTA
19492645 AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTTAAG
131 AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTTAAG
*
19492707 TAAATTGCACAATCTTTTAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
1 TAAATTGCACAATCTTTCAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
*
19492772 CTAAACACTCTAAGAAACATAATGTAATCTCCTACAAACAAGACAAAAGAGGACTGAAAAACTTA
66 CTAAACACTCTAAGAAACATAATGTAATCTCCTAAAAACAAGACAAAAGAGGACTGAAAAACTTA
19492837 AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTT
131 AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTT
19492896 GAGGAAAGGC
Statistics
Matches: 187, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 187 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (192 bp):
TAAATTGCACAATCTTTCAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
CTAAACACTCTAAGAAACATAATGTAATCTCCTAAAAACAAGACAAAAGAGGACTGAAAAACTTA
AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTTAAG
Found at i:19494760 original size:3 final size:3
Alignment explanation
Indices: 19494752--19494797 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
19494742 CCATCTGTGA
19494752 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19494798 ATCTAGAGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19494781 original size:20 final size:20
Alignment explanation
Indices: 19494756--19494796 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19494746 CTGTGAAATA
19494756 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
19494776 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
19494796 A
1 A
19494797 AATCTAGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:19496234 original size:2 final size:2
Alignment explanation
Indices: 19496227--19496251 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19496217 TTACCCCTCA
19496227 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19496252 ATGGTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19496463 original size:2 final size:2
Alignment explanation
Indices: 19496456--19496485 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19496446 TTTGACCAAT
19496456 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
19496486 ATCATGTAAG
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:19497329 original size:15 final size:15
Alignment explanation
Indices: 19497285--19497348 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
19497275 TATCTAACTT
**
19497285 AAAAAATAAAAAAGTG
1 AAAAAATAAAAAA-CA
* *
19497301 AAAAGATAATAAACA
1 AAAAAATAAAAAACA
*
19497316 ACAAAATAAAAAACA
1 AAAAAATAAAAAACA
19497331 AAAAAATAGAAAAA-A
1 AAAAAATA-AAAAACA
19497346 AAA
1 AAA
19497349 CTCATAAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
15 23 0.59
16 16 0.41
ACGTcount: A:0.80, C:0.05, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAAATAAAAAACA
Found at i:19497813 original size:29 final size:29
Alignment explanation
Indices: 19497785--19497840 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
19497775 AAGAAAAAAT
19497785 TTAAAAT-TTAAAAAATAGAT-TTATTAAA
1 TTAAAATATTAAAAAATA-ATCTTATTAAA
*
19497813 TTAAAATATTAAATAATAATCTTATTAA
1 TTAAAATATTAAAAAATAATCTTATTAA
19497841 TGTAATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (29 bp):
TTAAAATATTAAAAAATAATCTTATTAAA
Found at i:19503045 original size:60 final size:60
Alignment explanation
Indices: 19502937--19503052 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
19502927 GATCCTAAAA
* *
19502937 AAAAATGGAAAGGGATTATTAAAGGCATTTTTGGTAGAAAATGCCTTGAATAATCCCCTTT
1 AAAAATGGAAAGGGAATATTAAAGGCATTTTTGGTAAAAAAT-CCTTGAATAATCCCCTTT
* * *
19502998 AAAAATTG-AAGGGAATATTTAAGGCGTTTTTGGTTAAAAAAAT-CTTGAATAATCC
1 AAAAATGGAAAGGGAATATTAAAGGCATTTTTGG-T-AAAAAATCCTTGAATAATCC
19503053 ACTCAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
60 34 0.71
61 8 0.17
62 6 0.12
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (60 bp):
AAAAATGGAAAGGGAATATTAAAGGCATTTTTGGTAAAAAATCCTTGAATAATCCCCTTT
Found at i:19505288 original size:51 final size:51
Alignment explanation
Indices: 19505208--19505362 Score: 177
Period size: 51 Copynumber: 3.0 Consensus size: 51
19505198 CAAAAATCAT
* * * * *
19505208 TTTTTAAACTGATTTTAGGATCCTCCCAACTCTTTAGCAAAATCCTAAAAG
1 TTTTTAAATTGAATTTAAGATCCTCCCAACTCTTTAGTAAAATCCTAAAAA
* * * *
19505259 TTTTTAAATTGAATTTAAGATCATCCCAACTCTTTGGTGAAATACTAAAAA
1 TTTTTAAATTGAATTTAAGATCCTCCCAACTCTTTAGTAAAATCCTAAAAA
* * *
19505310 TTTTTAAATTGGA-TTGAGAATCCTCCTAACTCTTTAGTAAAATCCTTAAAAA
1 TTTTTAAATTGAATTTAAG-ATCCTCCCAACTCTTTAGTAAAATCC-TAAAAA
19505362 T
1 T
19505363 CATTTATCTC
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
50 4 0.05
51 75 0.87
52 7 0.08
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (51 bp):
TTTTTAAATTGAATTTAAGATCCTCCCAACTCTTTAGTAAAATCCTAAAAA
Found at i:19505507 original size:27 final size:25
Alignment explanation
Indices: 19505459--19505518 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
19505449 TTAATTTTTG
* *
19505459 TTATTATTTTATCTTTTATTTTTCTAT
1 TTATTATTTCATCTATTA-TTTT-TAT
19505486 TTATTATTTCAT-TATTATTTTTAT
1 TTATTATTTCATCTATTATTTTTAT
19505510 TTATTATTT
1 TTATTATTT
19505519 AAATAAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 12 0.39
25 4 0.13
26 4 0.13
27 11 0.35
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (25 bp):
TTATTATTTCATCTATTATTTTTAT
Found at i:19505916 original size:21 final size:19
Alignment explanation
Indices: 19505887--19505941 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
19505877 AATATCATAG
19505887 AAAACAAAATACAAAAAAAA
1 AAAACAAAA-ACAAAAAAAA
**
19505907 AAAACCAAAAATGAAAAAAA
1 AAAA-CAAAAACAAAAAAAA
*
19505927 AAAAGAAAAA-AAAAA
1 AAAACAAAAACAAAAA
19505942 GGGAAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.13
19 5 0.17
20 16 0.53
21 5 0.17
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.04
Consensus pattern (19 bp):
AAAACAAAAACAAAAAAAA
Found at i:19505947 original size:13 final size:12
Alignment explanation
Indices: 19505899--19505941 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
19505889 AACAAAATAC
19505899 AAAAAAAAA-AA
1 AAAAAAAAAGAA
** *
19505910 ACCAAAAATGAA
1 AAAAAAAAAGAA
19505922 AAAAAAAAAGAA
1 AAAAAAAAAGAA
19505934 AAAAAAAA
1 AAAAAAAA
19505942 GGGAAACTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:19506414 original size:16 final size:16
Alignment explanation
Indices: 19506395--19506432 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
19506385 TGGATGAGAC
*
19506395 TTTTTATTTTTGAGTT
1 TTTTTATTTTTGACTT
*
19506411 TTTTTGTTTTTGACTT
1 TTTTTATTTTTGACTT
19506427 TTTTTA
1 TTTTTA
19506433 AATAAAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTTGACTT
Found at i:19511220 original size:19 final size:20
Alignment explanation
Indices: 19511179--19511220 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19511169 TATGTATTTA
19511179 TTTTTTATTACAAACATGTT
1 TTTTTTATTACAAACATGTT
*
19511199 TTTTTTATT-CGAACTATGTT
1 TTTTTTATTACAAAC-ATGTT
19511219 TT
1 TT
19511221 GTAAGACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTTTATTACAAACATGTT
Found at i:19519413 original size:2 final size:2
Alignment explanation
Indices: 19519408--19519432 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19519398 TGATTATATT
19519408 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
19519433 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:19520659 original size:17 final size:19
Alignment explanation
Indices: 19520629--19520665 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
19520619 AAATATATTC
19520629 ATATATCAATAAATCTTTT
1 ATATATCAATAAATCTTTT
*
19520648 ATATAT-AA-AAATTTTTT
1 ATATATCAATAAATCTTTT
19520665 A
1 A
19520666 AAATGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATCAATAAATCTTTT
Found at i:19522364 original size:31 final size:32
Alignment explanation
Indices: 19522329--19522407 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 32
19522319 TACAAATGAA
* * *
19522329 ATCAAATTAAATCCAA-GTGCATTAATATTTT
1 ATCAAATGAAATCAAACATGCATTAATATTTT
*
19522360 ATCAAATGAAATCAAACATGCATTAGTATTTT
1 ATCAAATGAAATCAAACATGCATTAATATTTT
*
19522392 ACCAAATGAAATCAAA
1 ATCAAATGAAATCAAA
19522408 TGAAATTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 14 0.33
32 28 0.67
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (32 bp):
ATCAAATGAAATCAAACATGCATTAATATTTT
Found at i:19523900 original size:19 final size:21
Alignment explanation
Indices: 19523854--19523906 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 21
19523844 TATATAAGAA
19523854 AATCAAATA-AAATCATATTT
1 AATCAAATATAAATCATATTT
* *
19523874 AATGAAATATAAAT-GTA-TT
1 AATCAAATATAAATCATATTT
19523893 AATCAAATATAAAT
1 AATCAAATATAAAT
19523907 TAATAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 15 0.52
20 10 0.34
21 4 0.14
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.34
Consensus pattern (21 bp):
AATCAAATATAAATCATATTT
Found at i:19524391 original size:23 final size:24
Alignment explanation
Indices: 19524351--19524396 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
19524341 TTTATAATTG
*
19524351 TAATTATAGTATTTATTGATTTAT
1 TAATTATAGTATTGATTGATTTAT
19524375 TAATTATA-TATTGATTGATTTA
1 TAATTATAGTATTGATTGATTTA
19524397 ATTTATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (24 bp):
TAATTATAGTATTGATTGATTTAT
Found at i:19524935 original size:814 final size:814
Alignment explanation
Indices: 19523053--19525483 Score: 3647
Period size: 816 Copynumber: 3.0 Consensus size: 814
19523043 TTAATATTTT
*
19523053 ATCAAATGAAATCATATTTAATGAAATATAAATGTATTAATCAAATATAAATTCATAAAATATTT
1 ATCAAATGAAATCATATTTAATGAAATATAAATGTATTAATCAAATATAAATTAATAAAATATTT
* **
19523118 TATTCCATTAATTTAATTATGGAGAATTAATTTGATATA-TTGCTTTATAT-ATT-----T-TCA
66 T-TTCCATTAATTTAATTATGGAGAATTAATTTAATATATTTGCTTTATATAATTACACATGAAA
* * * *
19523175 TACATCATGAAATACATCAGA-TGCTCAAATAGATATTATATTTAATCAAATATAAATATATCAA
130 TACATCATGAAATACATCA-ATTACTCAAATGGATACTATATTTAATCAAATATAAATGTATCAA
19523239 ATAATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAGTATTTATTAATTTATTAATTAT
194 ATAATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAGTATTTATTAATTTATTAATTAT
*
19523304 ATATTGATTGATTTAATTTGTCAAATTAA-AAATTTTTTAAATTTTAATAATTTTAATATGAATT
259 ATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATAATTTTAATATGAATT
* * *
19523368 AAATTGACAGTAATTTAAAATCAATAATAAAAACATAAATATAATCAATTTAGTTTTTTGAATTA
324 GAATTGAAAGTGATTTAAAATCAATAATAAAAACATAAATATAATCAATTTAGTTTTTTGAATTA
* *
19523433 TATTTGCTTTATATATTTACACATAAAATACATCAATTACTAAATACTATATTTAATCAAATATA
389 TATTTGCTTTATATATTTACACATAAAATACATTAATTACTAGATACTATATTTAATCAAATATA
*
19523498 AATGTATCAAATAATTGATTAGAGAATCAACTATTTTATAATTGTAATTGTAGTATTTCTTAATT
454 AATGTATCAAATAATTGATTAGAGAATCAACTATTTTATAATTGTAATTGTAGTATTTATTAATT
* * *
19523563 TAGTAATTATATATTGATTGATTTAATTTGTCACATTAAGAAA-ATTTT-AA----AAT--TTTT
519 TATTAATTATATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTTAAATTTTAATAATTTT
*
19523620 AATATGAATTGAATTGAGAACATTTAAGGTTAATAATAAAAACAGAAATATAATCAATTTAGTTT
584 AATATGAATTGAATTGAGAACATTTAAGGTTAATAATAAAAACATAAATATAATCAATTTAGTTT
*
19523685 TTTGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATATGTTTATTAGATGTCACATG
649 TTTGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATATTTTTATTAGATGTCACATG
* * * **
19523750 ATGACTTTTAAAATAATCCACATGTCAATTTTTTAA-GCTGTTCACATATGATTTTTTTTTTCAT
714 ATGATTTTTAAACT-ATCTACATGTCAACATTTTAAGGC-GTTCACATATGA---TTTTTTTCAT
19523814 TTTTGCCAAAAGCTTTGGCTTTTATATATTTATATAAGAAA
774 TTTTGCCAAAAGCTTTGGCTTTTATATATTTATATAAGAAA
*
19523855 ATCAAATAAAATCATATTTAATGAAATATAAATGTATTAATCAAATATAAATTAATAAAATATTT
1 ATCAAATGAAATCATATTTAATGAAATATAAATGTATTAATCAAATATAAATTAATAAAATATTT
* * * *
19523920 AATTCCTTTAATTTAATTATGGAGAATTAATTTAATATGTTTGCTTTATATATTTACACATGAAA
66 -TTTCCATTAATTTAATTATGGAGAATTAATTTAATATATTTGCTTTATATAATTACACATGAAA
* *
19523985 TACATCATAAAATACGTCAATTACTCAAATGGATACTATATTTAATCAAATATAAATGTATCAAA
130 TACATCATGAAATACATCAATTACTCAAATGGATACTATATTTAATCAAATATAAATGTATCAAA
* * * *
19524050 TAATTAATTAAAGAATCAACTATTTTATAATT-TCAATTCTAGTAGTTATTAATTTGTTAATTAT
195 TAATTAATTAGAGAATCAACTATTTTATAATTGT-AATTATAGTATTTATTAATTTATTAATTAT
* * *
19524114 TTATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATACTTTTAATATGAACT
259 ATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATAATTTTAATATGAATT
* *
19524179 GAATTGAAAGTGATTT-AAATCAATAATAAAAACATAAATATAATCAATTTAG-TTTTTAAATGA
324 GAATTGAAAGTGATTTAAAATCAATAATAAAAACATAAATATAATCAATTTAGTTTTTTGAATTA
19524242 TATTTGCTTTATATATTTACACATAAAATACATTAATTACTAGATACTATATTTAATCAAATATA
389 TATTTGCTTTATATATTTACACATAAAATACATTAATTACTAGATACTATATTTAATCAAATATA
* * *
19524307 AATGTATCAAATAATTGATTGGAGAATCAACTATTTTATAATTGTAATTATAGTATTTATTGATT
454 AATGTATCAAATAATTGATTAGAGAATCAACTATTTTATAATTGTAATTGTAGTATTTATTAATT
*
19524372 TATTAATTATATATTGATTGATTTAATTTATCAAATTAAGAAATTTTTTAAATTTTAATAATTTT
519 TATTAATTATATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTTAAATTTTAATAATTTT
** * * * * * *
19524437 AATATGAATTGAATTGAGAGTTATTTAAAGTTAATAATAACAACATAAGTATAGTTAATTTAGCT
584 AATATGAATTGAATTGAGA-ACATTTAAGGTTAATAATAAAAACATAAATATAATCAATTTAGTT
* * * * *
19524502 TGTTAAATTATTTTTAAATTAAAATTGTATTAAATAAAATAAAATGTTTTTATTAGATATCAC-T
648 TTTTGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATATTTTTATTAGATGTCACAT
* *
19524566 TAGTGATTTTTAAGACTATCTATATGTCAACATTTTAAGGCGTTCACATATGATTTTTTTCATTT
713 GA-TGATTTTTAA-ACTATCTACATGTCAACATTTTAAGGCGTTCACATATGATTTTTTTCATTT
* *
19524631 TTGCCAATAGCTTTGGCTTTTATATATTTGTATAAGAAA
776 TTGCCAAAAGCTTTGGCTTTTATATATTTATATAAGAAA
* * *
19524670 ATTAAATGAAATCATATTGAATGAAATATAAATGTATCAATCAAATATAAATTAATAAAATATTT
1 ATCAAATGAAATCATATTTAATGAAATATAAATGTATTAATCAAATATAAATTAATAAAATATTT
* * *
19524735 TTTCCATTAATTTAATTATGAAAAATTAATTTTATATATTTGCTTTATATAATTACACATGAAAT
66 TTTCCATTAATTTAATTATGGAGAATTAATTTAATATATTTGCTTTATATAATTACACATGAAAT
* *
19524800 ACATCATGAAATATATCAATTACTCAAATGGATACTATATTTAATCAAATATAAATGTATCAAAC
131 ACATCATGAAATACATCAATTACTCAAATGGATACTATATTTAATCAAATATAAATGTATCAAAT
* * *
19524865 AATTAATTAGAGAATCAATTATTTTATAATTGTAATTGTAATATTTATTAATTTATTAATTATAT
196 AATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAGTATTTATTAATTTATTAATTATAT
* * *
19524930 ATTGATTAATTTAATTTGTCAAATTAAGAAATTTTTAAATTTTTAATATTTTTAATATGAATTGA
261 ATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATAATTTTAATATGAATTGA
* *
19524995 ATTGAAAGTGATTTAAAATCAATAATAAAAACGTAAATATAATTAATTTAGTTTTTTGAATTATA
326 ATTGAAAGTGATTTAAAATCAATAATAAAAACATAAATATAATCAATTTAGTTTTTTGAATTATA
* * *
19525060 TTTGCTTTATATATTTACACATGAAATACATTAATTATTGGATACTATATTTAATCAAATATAAA
391 TTTGCTTTATATATTTACACATAAAATACATTAATTACTAGATACTATATTTAATCAAATATAAA
* * *
19525125 TGTATCAAATAATTAATTAGAGAATTAACTATTTTATAATTATAATTGTAGTATTTATTAATTTA
456 TGTATCAAATAATTGATTAGAGAATCAACTATTTTATAATTGTAATTGTAGTATTTATTAATTTA
* * *
19525190 TTAATTATATATTGATTGATTTAATTTGTCAATTTAA-AATTTTTTTAAAATTTTAGTAATTTTA
521 TTAATTATATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTT-AAATTTTAATAATTTTA
* * *
19525254 ATATCAATTAAATTGAGAACGACTTAAGGTTAATAATAAAAACATAAATATAATCAATTTAGTTT
585 ATATGAATTGAATTGAGAAC-ATTTAAGGTTAATAATAAAAACATAAATATAATCAATTTAGTTT
*
19525319 TTTGAATTATTTTTAAACTAAAAATGTATTAAATAAAATAAAATATATTTT-TTAGATGTCACAT
649 TTTGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATAT-TTTTATTAGATGTCACAT
* * * * *
19525383 GACGATTTTTAAAACTGT-TCACATGTCAACATTTTAAGTCGTTCACATA-GGTTGTTTTCCATT
713 GATGATTTTT-AAACTATCT-ACATGTCAACATTTTAAGGCGTTCACATATGATT-TTTTTCATT
19525446 TTTGCCAAAAGCTTTGGCTTTTATATATTTATATAAGA
775 TTTGCCAAAAGCTTTGGCTTTTATATATTTATATAAGA
19525484 TTTTAAAATT
Statistics
Matches: 1464, Mismatches: 131, Indels: 54
0.89 0.08 0.03
Matches are distributed among these distances:
802 97 0.07
803 11 0.01
804 2 0.00
809 176 0.12
810 184 0.13
811 47 0.03
814 250 0.17
815 160 0.11
816 369 0.25
817 33 0.02
818 131 0.09
819 4 0.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (814 bp):
ATCAAATGAAATCATATTTAATGAAATATAAATGTATTAATCAAATATAAATTAATAAAATATTT
TTTCCATTAATTTAATTATGGAGAATTAATTTAATATATTTGCTTTATATAATTACACATGAAAT
ACATCATGAAATACATCAATTACTCAAATGGATACTATATTTAATCAAATATAAATGTATCAAAT
AATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAGTATTTATTAATTTATTAATTATAT
ATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATAATTTTAATATGAATTGA
ATTGAAAGTGATTTAAAATCAATAATAAAAACATAAATATAATCAATTTAGTTTTTTGAATTATA
TTTGCTTTATATATTTACACATAAAATACATTAATTACTAGATACTATATTTAATCAAATATAAA
TGTATCAAATAATTGATTAGAGAATCAACTATTTTATAATTGTAATTGTAGTATTTATTAATTTA
TTAATTATATATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTTAAATTTTAATAATTTTAA
TATGAATTGAATTGAGAACATTTAAGGTTAATAATAAAAACATAAATATAATCAATTTAGTTTTT
TGAATTATTTTTAAATTAAAAATGTATTAAATAAAATAAAATATTTTTATTAGATGTCACATGAT
GATTTTTAAACTATCTACATGTCAACATTTTAAGGCGTTCACATATGATTTTTTTCATTTTTGCC
AAAAGCTTTGGCTTTTATATATTTATATAAGAAA
Found at i:19525315 original size:270 final size:270
Alignment explanation
Indices: 19524828--19525328 Score: 790
Period size: 270 Copynumber: 1.9 Consensus size: 270
19524818 ATTACTCAAA
*
19524828 TGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAATTATTTTATA
1 TGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAACTATTTTATA
*
19524893 ATTGTAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAATTAAG
66 ATTATAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAATTAAG
* * * * * *
19524958 AAATTTTTAAATTTTTAATATTTTTAATATGAATTGAATTGAAAGTGATTTAAAATCAATAATAA
131 AAATTTTTAAAATTTTAATAATTTTAATATCAATTAAATTGAAAGCGACTTAAAATCAATAATAA
* *
19525023 AAACGTAAATATAATTAATTTAGTTTTTTGAATTATATTTGCTTTATATATTTACACATGAAATA
196 AAACATAAATATAATCAATTTAGTTTTTTGAATTATATTTGCTTTATATATTTACACATGAAATA
19525088 CATTAATTAT
261 CATTAATTAT
* *
19525098 TGGATACTATATTTAATCAAATATAAATGTATCAAATAATTAATTAGAGAATTAACTATTTTATA
1 TGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAACTATTTTATA
* * *
19525163 ATTATAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTGTCAATTTAA-
66 ATTATAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAATTAAG
* * ** *
19525227 AATTTTTTTAAAATTTTAGTAATTTTAATATCAATTAAATTGAGAA-CGACTTAAGGTTAATAAT
131 AA-ATTTTTAAAATTTTAATAATTTTAATATCAATTAAATTGA-AAGCGACTTAAAATCAATAAT
19525291 AAAAACATAAATATAATCAATTTAGTTTTTTGAATTAT
194 AAAAACATAAATATAATCAATTTAGTTTTTTGAATTAT
19525329 TTTTAAACTA
Statistics
Matches: 209, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
269 2 0.01
270 205 0.98
271 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.46
Consensus pattern (270 bp):
TGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAACTATTTTATA
ATTATAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAATTAAG
AAATTTTTAAAATTTTAATAATTTTAATATCAATTAAATTGAAAGCGACTTAAAATCAATAATAA
AAACATAAATATAATCAATTTAGTTTTTTGAATTATATTTGCTTTATATATTTACACATGAAATA
CATTAATTAT
Found at i:19526000 original size:40 final size:40
Alignment explanation
Indices: 19525947--19526025 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
19525937 GACTATGGCA
* *
19525947 TTTGTTAATAAGACTATGGCATTTAGAATCATATAGCATT
1 TTTGTTAAAAAGACTATGGCATTTACAATCATATAGCATT
19525987 TTTGTTAAAAAGACTATGGCATTTACAATCATATAGCAT
1 TTTGTTAAAAAGACTATGGCATTTACAATCATATAGCAT
19526026 GATGATAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (40 bp):
TTTGTTAAAAAGACTATGGCATTTACAATCATATAGCATT
Found at i:19531085 original size:20 final size:19
Alignment explanation
Indices: 19531043--19531125 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 19
19531033 AAAAATTTTC
* *
19531043 AAAATTTT-GAAAATTTCAA
1 AAAATTTTAAAAAAATTC-A
*
19531062 AAAATTTTAAAAAAATTCGC
1 AAAATTTTAAAAAAATTC-A
** *
19531082 AAAACATAAAAAAAATTCA
1 AAAATTTTAAAAAAATTCA
* *
19531101 AAAATTTTGAAATAAATTAA
1 AAAATTTT-AAAAAAATTCA
19531121 AAAAT
1 AAAAT
19531126 ATTTGAAAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
19 13 0.27
20 36 0.73
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAATTTTAAAAAAATTCA
Found at i:19531130 original size:21 final size:20
Alignment explanation
Indices: 19531094--19531133 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19531084 AACATAAAAA
*
19531094 AAATTCAAAAATTTTGAAAT
1 AAATTAAAAAATTTTGAAAT
19531114 AAATTAAAAAATATTTGAAA
1 AAATTAAAAAAT-TTTGAAA
19531134 ATTCAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATTAAAAAATTTTGAAAT
Found at i:19531187 original size:35 final size:36
Alignment explanation
Indices: 19531108--19531196 Score: 105
Period size: 34 Copynumber: 2.6 Consensus size: 36
19531098 TCAAAAATTT
* *
19531108 TGAAATAAATT-AAAAAATATTTGAAAATTCAAAATA
1 TGAAAT-AATTAAAAAAATATTTGAAAAATCAAAAAA
*
19531144 TG-AA-AATTAAAAAAATCTTTGAAAAAT-AAAAAA
1 TGAAATAATTAAAAAAATATTTGAAAAATCAAAAAA
*
19531177 TGAAATAATTATAAAAATAT
1 TGAAATAATTAAAAAAATAT
19531197 AATGAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
33 11 0.24
34 18 0.40
35 14 0.31
36 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (36 bp):
TGAAATAATTAAAAAAATATTTGAAAAATCAAAAAA
Found at i:19531324 original size:9 final size:9
Alignment explanation
Indices: 19531309--19531342 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
19531299 AAAAAAAAAC
19531309 TAAAAAATTT
1 TAAAAAA-TT
*
19531319 TTAAAAATT
1 TAAAAAATT
19531328 TAAAAAATT
1 TAAAAAATT
19531337 TAAAAA
1 TAAAAA
19531343 TTCAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAAAATT
Found at i:19531403 original size:17 final size:17
Alignment explanation
Indices: 19531378--19531454 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
19531368 TAAAATCCTC
*
19531378 AAAATTAAAAAATATGA
1 AAAAATAAAAAATATGA
* *
19531395 GAAAATAAAAATTACT-A
1 AAAAATAAAAAATA-TGA
*
19531412 AAAAATAAAAAAAATGA
1 AAAAATAAAAAATATGA
* *
19531429 AACATATTAAAAAA-ATCA
1 AA-A-AATAAAAAATATGA
19531447 AAAAATAA
1 AAAAATAA
19531455 TTTGAAAAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
16 5 0.11
17 27 0.57
18 7 0.15
19 8 0.17
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAAATAAAAAATATGA
Found at i:19532098 original size:24 final size:24
Alignment explanation
Indices: 19532052--19532099 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
19532042 AAAAATAGGT
*
19532052 TAAAAATAAAATCAAATCAAAAAA
1 TAAAAATAAAATAAAATCAAAAAA
*
19532076 TAAAAATAAAAATAAAATGAAAAA
1 TAAAAAT-AAAATAAAATCAAAAA
19532100 GGGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (24 bp):
TAAAAATAAAATAAAATCAAAAAA
Found at i:19532978 original size:17 final size:17
Alignment explanation
Indices: 19532958--19533000 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
19532948 AAAAACAAAA
*
19532958 AATATTATAAAAATAAT
1 AATATAATAAAAATAAT
*
19532975 AATATAATAAAAATAGT
1 AATATAATAAAAATAAT
19532992 AATAATAAT
1 AAT-ATAAT
19533001 GATACTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AATATAATAAAAATAAT
Found at i:19533557 original size:32 final size:33
Alignment explanation
Indices: 19533521--19533590 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 33
19533511 GATCGAGCTA
*
19533521 AAATCACGA-GTCAAAATATAG-TGACCAGGACC
1 AAATCACGAGGTCAAAA-ATAGATGACCAAGACC
* *
19533553 AAAT--CGAGGTCAAAAATAGATGATCAAGACG
1 AAATCACGAGGTCAAAAATAGATGACCAAGACC
19533584 AAATCAC
1 AAATCAC
19533591 AAATCATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
30 7 0.23
31 19 0.61
32 4 0.13
33 1 0.03
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (33 bp):
AAATCACGAGGTCAAAAATAGATGACCAAGACC
Found at i:19533754 original size:186 final size:186
Alignment explanation
Indices: 19533440--19533793 Score: 539
Period size: 186 Copynumber: 1.9 Consensus size: 186
19533430 ATGAAAGGTA
** * *
19533440 AGTCGAGGTCGAAAATGACCAAGATACAATCATGAATCATAAAAATAATTTAGATTGAGCCAAGA
1 AGTCGAGGTAAAAAATGACCAAGATACAATCATGAATCATAAAAATAATTTAGACTAAGCCAAGA
* * * *
19533505 TCAAGTGATCGAGCTAAAATCACGAGTCAAAATATAGTGACCAGGACCAAATCGAGGTCAAAAAT
66 TCAAATGATCGAGCTAAAATCACAAGTCAAAATAAAGTGACCAGAACCAAATCGAGGTCAAAAAT
*
19533570 AGATGATCAAGACGAAATCACAAATCATAAAAAATGATTAAGATGAAAGGTAACCG
131 AGATGATCAAGACGAAACCACAAATCATAAAAAATGATTAAGATGAAAGGTAACCG
*
19533626 AGTCGAGGTAAAAAATGACCAAGATACAATCATGAATCATGAAAATAATTTAGACTAAGCCAAGA
1 AGTCGAGGTAAAAAATGACCAAGATACAATCATGAATCATAAAAATAATTTAGACTAAGCCAAGA
* * *
19533691 TCAAATGATC-AGGCTAAAATCACAAGTCAAAATAAAGTGACCAGAATCGAGTCGAGGTCAAAAA
66 TCAAATGATCGA-GCTAAAATCACAAGTCAAAATAAAGTGACCAGAACCAAATCGAGGTCAAAAA
* ** *
19533755 TAGATGATTAAGACGAAACCATGAATCATAAGAAATGAT
130 TAGATGATCAAGACGAAACCACAAATCATAAAAAATGAT
19533794 CTAGACTGAG
Statistics
Matches: 150, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
185 1 0.01
186 149 0.99
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.19
Consensus pattern (186 bp):
AGTCGAGGTAAAAAATGACCAAGATACAATCATGAATCATAAAAATAATTTAGACTAAGCCAAGA
TCAAATGATCGAGCTAAAATCACAAGTCAAAATAAAGTGACCAGAACCAAATCGAGGTCAAAAAT
AGATGATCAAGACGAAACCACAAATCATAAAAAATGATTAAGATGAAAGGTAACCG
Found at i:19533807 original size:119 final size:119
Alignment explanation
Indices: 19533638--19534412 Score: 614
Period size: 119 Copynumber: 6.5 Consensus size: 119
19533628 TCGAGGTAAA
* * * * * * * *
19533638 AAATGACCAAGA-TACAATCATGAATCATGA-AAATAATTTAGACTAAGCCAAGATCAAATGATC
1 AAATGACCAAGACGA-AACCATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATC
* * *
19533701 AGGCTAAAATCACAAGTCAAAATAAAGTGACCAGAATCGAGTCGAGGTCAAAAAT
65 AGGATAAAACCACAAGTCAAAATAAAGTGACCAGAATCGAGTCAAGGTCAAAAAT
* ** * *
19533756 AGATGATTAAGACGAAACCATGAATCATAAGAAATGATCTAGACTGAGCCAAGATCAAGTGACCA
1 AAATGACCAAGACGAAACCATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCA
** * * * * *
19533821 AAAT-AAACCACCAGTCAAAATAAAGTGACAAGGACCGAGTCAAGGTAAAAAAT
66 GGATAAAACCACAAGTCAAAATAAAGTGACCAGAATCGAGTCAAGGTCAAAAAT
* * * * * * * * * **
19533874 AGATGACTAGGATGAAACCACGAATCATCAGAAATGATTTGGATTGAGCCAAGATCAAATGATTG
1 AAATGACCAAGACGAAACCATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCA
* * * * * * ** *
19533939 GGATAAAATCACTAGTCAAAACAAAAGCGACTAGGATCGAGTTGAGGTAAAAAAT
66 GGATAAAACCACAAGTCAAAA-TAAAGTGACCAGAATCGAGTCAAGGTCAAAAAT
* * * *
19533994 AGATGACCGAGA-TAACACCATGAATCATCAGAAATGATCTGGACTGAGCCAAGA-CTAAGTGAT
1 AAATGACCAAGACGAA-ACCATGAATCATAAGAAATGATCTGGACTGAGCCAAGATC-AAGTGAT
* * *
19534057 CAGGACAAAACCACAAGTCAAAATGAAA-TGACCA-AGATCGAGTCAAGATCAAGAAT
64 CAGGATAAAACCACAAGTCAAAAT-AAAGTGACCAGA-ATCGAGTCAAGGTCAAAAAT
* * * * * * *
19534113 AAATGATCAGGACGAAACCATGAATTATAATAAATGATCTGGACTAAGCCAAGATTAAGTGATCG
1 AAATGACCAAGACGAAACCATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCA
* * * * * * * ** *
19534178 GGATGAAATCACTAGTCAAAATAAAATGACTAGGA-CTAAGTTGAGGTTAAAAAT
66 GGATAAAACCACAAGTCAAAATAAAGTGACCAGAATC-GAGTCAAGGTCAAAAAT
*** * * * ** *
19534232 AAATGACTGGGATGAAACCACGAATCATCAGAAATGATCTGGACTGAGTTAAGA-CTAAGTGACC
1 AAATGACCAAGACGAAACCATGAATCATAAGAAATGATCTGGACTGAGCCAAGATC-AAGTGATC
* * * ** * * *
19534296 AGGATGAAACCACGAGTTAAAATAAAACGATCAAAATCGAGTCAAGGTCAAGAAT
65 AGGATAAAACCACAAGTCAAAATAAAGTGACCAGAATCGAGTCAAGGTCAAAAAT
* * * * *
19534351 AAATGATCGAGACGAAACCATAAATCATAAGAAATGATCTAGACTGAGCCAAGATCACGTGA
1 AAATGACCAAGACGAAACCATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGA
19534413 GTGAATAATG
Statistics
Matches: 515, Mismatches: 126, Indels: 31
0.77 0.19 0.05
Matches are distributed among these distances:
118 123 0.24
119 290 0.56
120 102 0.20
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (119 bp):
AAATGACCAAGACGAAACCATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCA
GGATAAAACCACAAGTCAAAATAAAGTGACCAGAATCGAGTCAAGGTCAAAAAT
Found at i:19534041 original size:238 final size:234
Alignment explanation
Indices: 19533656--19534407 Score: 796
Period size: 238 Copynumber: 3.2 Consensus size: 234
19533646 AAGATACAAT
* * * * * * * *
19533656 CATGAATCATGA-AAATAATTTAGACTAAGCCAAGATCAAATGATCAGGCTAAAATCACAAGTCA
1 CATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAATGATCGGGATAAAATCACTAGTCA
* * * * * * * * *
19533720 AAATAAAGTGACCAGAATCGAGTCGAGGTCAAAAATAGATGATTAAGACGAAACCATGAATCATA
66 AAAAAAAGTGACTAGGATCGAGTTGAGGTAAAAAATAGATGACTGAGA-TAAACCATGAATCATC
* *
19533785 AGAAATGATCTAGACTGAGCCAAGA-TCAAGTGACCAAAATAAACCACCAGTCAAAATAAAGTGA
130 AGAAATGATCTGGACTGAGCCAAGACT-AAGTGACCAAAATAAACCACAAGTCAAAATAAA-TGA
* * * * *
19533849 -CAAGGACCGAGTCAAGGTAAAAAATAGATGACTAGGATGAAAC
193 CCAA-GATCGAGTCAAGGTCAAGAATAAATGA-TAGGACGAAAC
* * * * *
19533892 CACGAATCATCAGAAATGATTTGGATTGAGCCAAGATCAAATGATTGGGATAAAATCACTAGTCA
1 CATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAATGATCGGGATAAAATCACTAGTCA
* *
19533957 AAACAAAAGCGACTAGGATCGAGTTGAGGTAAAAAATAGATGACCGAGATAACACCATGAATCAT
66 AAA-AAAAGTGACTAGGATCGAGTTGAGGTAAAAAATAGATGACTGAGATAA-ACCATGAATCAT
* *
19534022 CAGAAATGATCTGGACTGAGCCAAGACTAAGTGATCAGGACA-AAACCACAAGTCAAAATGAAAT
129 CAGAAATGATCTGGACTGAGCCAAGACTAAGTGACCA--AAATAAACCACAAGTCAAAAT-AAAT
*
19534086 GACCAAGATCGAGTCAAGATCAAGAATAAATGATCAGGACGAAAC
191 GACCAAGATCGAGTCAAGGTCAAGAATAAATGAT-AGGACGAAAC
* * * * * *
19534131 CATGAATTATAATAAATGATCTGGACTAAGCCAAGATTAAGTGATCGGGATGAAATCACTAGTCA
1 CATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAATGATCGGGATAAAATCACTAGTCA
* * * * *
19534196 AAATAAAA-TGACTAGGA-CTAAGTTGAGGTTAAAAATAAATGACTGGGATGAAACCACGAATCA
66 AAA-AAAAGTGACTAGGATC-GAGTTGAGGTAAAAAATAGATGACTGAGAT-AAACCATGAATCA
** ** * * *
19534259 TCAGAAATGATCTGGACTGAGTTAAGACTAAGTGACCAGGATGAAACCACGAGTTAAAATAAAAC
128 TCAGAAATGATCTGGACTGAGCCAAGACTAAGTGACCAAAAT-AAACCACAAGTCAAAAT-AAAT
* * *
19534324 GATCAAAATCGAGTCAAGGTCAAGAATAAATGATCGAGACGAAAC
191 GACCAAGATCGAGTCAAGGTCAAGAATAAATGATAG-GACGAAAC
* *
19534369 CATAAATCATAAGAAATGATCTAGACTGAGCCAAGATCA
1 CATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCA
19534408 CGTGAGTGAA
Statistics
Matches: 433, Mismatches: 69, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
236 11 0.03
237 51 0.12
238 249 0.58
239 114 0.26
240 8 0.02
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (234 bp):
CATGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAATGATCGGGATAAAATCACTAGTCA
AAAAAAAGTGACTAGGATCGAGTTGAGGTAAAAAATAGATGACTGAGATAAACCATGAATCATCA
GAAATGATCTGGACTGAGCCAAGACTAAGTGACCAAAATAAACCACAAGTCAAAATAAATGACCA
AGATCGAGTCAAGGTCAAGAATAAATGATAGGACGAAAC
Found at i:19534386 original size:357 final size:357
Alignment explanation
Indices: 19533676--19534407 Score: 850
Period size: 357 Copynumber: 2.1 Consensus size: 357
19533666 GAAAATAATT
* *
19533676 TAGACTAAGCCAAGATCAAATGATCAGGCTAAAATCACAAGTCAAAATAAAGTGACCAGAATCGA
1 TAGACTGAGCCAAGATCAAATGATCAGGCTAAAACCACAAGTCAAAATAAAGTGACCAGAATCGA
* * * * *
19533741 GTCGAGGTCAAAAATAGATGATTAAGACGAAACCATGAATCATAAGAAATGATCTAGACTGAGCC
66 GTCAAGATCAAAAATAAATGATCAAGACGAAACCATGAATCATAAGAAATGATCTAGACTAAGCC
* *
19533806 AAGATCAAGTGACCAAAATAAACCACCAGTCAAAATAAAGTGACAAGGACCGAGTCAAGGTAAAA
131 AAGATCAAGTGACCAAAATAAACCACCAGTCAAAATAAAATGACAAGGACCAAGTCAAGGTAAAA
* * *
19533871 AATAGATGACTAGGATGAAACCACGAATCATCAGAAATGATTTGGATTGAGCCAAGATCAAATGA
196 AATAAATGACTAGGATGAAACCACGAATCATCAGAAATGATCTGGACTGAGCCAAGATCAAATGA
*** * * ** ** *
19533936 TTGGGATAAAATCACTAGTCAAAACAAAAGCGACTAGGATCGAGTTGAGGTAAAAAATAGATGAC
261 CCAGGATAAAACCACGAGTCAAAACAAAAGCGACTAAAATCGAGTCAAGGTAAAAAATAAATGAC
* * *
19534001 CGAGATAACACCATGAATCATCAGAAATGATC
326 CGAGAGAACACCATAAATCATAAGAAATGATC
* *
19534033 TGGACTGAGCCAAGA-CTAAGTGATCAGGAC-AAAACCACAAGTCAAAATGAAA-TGACCA-AGA
1 TAGACTGAGCCAAGATC-AAATGATCAGG-CTAAAACCACAAGTCAAAAT-AAAGTGACCAGA-A
* * * * *
19534094 TCGAGTCAAGATCAAGAATAAATGATCAGGACGAAACCATGAATTATAATAAATGATCTGGACTA
62 TCGAGTCAAGATCAAAAATAAATGATCAAGACGAAACCATGAATCATAAGAAATGATCTAGACTA
* * *** * * * * **
19534159 AGCCAAGATTAAGTGATCGGGATGAAATCACTAGTCAAAATAAAATGACTAGGACTAAGTTGAGG
127 AGCCAAGATCAAGTGACCAAAAT-AAACCACCAGTCAAAATAAAATGACAAGGACCAAGTCAAGG
* * **
19534224 TTAAAAATAAATGACTGGGATGAAACCACGAATCATCAGAAATGATCTGGACTGAGTTAAGA-CT
191 TAAAAAATAAATGACTAGGATGAAACCACGAATCATCAGAAATGATCTGGACTGAGCCAAGATC-
* * * * * *
19534288 AAGTGACCAGGATGAAACCACGAGTTAAAATAAAA-CGA-TCAAAATCGAGTCAAGGTCAAGAAT
255 AAATGACCAGGATAAAACCACGAGTCAAAACAAAAGCGACT-AAAATCGAGTCAAGGTAAAAAAT
*
19534351 AAATGATCGAGACGAA-ACCATAAATCATAAGAAATGATC
319 AAATGACCGAGA-GAACACCATAAATCATAAGAAATGATC
19534390 TAGACTGAGCCAAGATCA
1 TAGACTGAGCCAAGATCA
19534408 CGTGAGTGAA
Statistics
Matches: 311, Mismatches: 55, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
356 3 0.01
357 187 0.60
358 121 0.39
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (357 bp):
TAGACTGAGCCAAGATCAAATGATCAGGCTAAAACCACAAGTCAAAATAAAGTGACCAGAATCGA
GTCAAGATCAAAAATAAATGATCAAGACGAAACCATGAATCATAAGAAATGATCTAGACTAAGCC
AAGATCAAGTGACCAAAATAAACCACCAGTCAAAATAAAATGACAAGGACCAAGTCAAGGTAAAA
AATAAATGACTAGGATGAAACCACGAATCATCAGAAATGATCTGGACTGAGCCAAGATCAAATGA
CCAGGATAAAACCACGAGTCAAAACAAAAGCGACTAAAATCGAGTCAAGGTAAAAAATAAATGAC
CGAGAGAACACCATAAATCATAAGAAATGATC
Found at i:19545574 original size:6 final size:6
Alignment explanation
Indices: 19545553--19545606 Score: 60
Period size: 6 Copynumber: 9.0 Consensus size: 6
19545543 CAAAATGGGT
19545553 TAAAAA T-AAAA T-AAAA TAAAAAA TAAAAA TAAAAA TAAAAAA TAGAAAA
1 TAAAAA TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA T-AAAAA TA-AAAA
19545602 -AAAAA
1 TAAAAA
19545607 CCTGCGATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
5 14 0.32
6 15 0.34
7 15 0.34
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (6 bp):
TAAAAA
Found at i:19546019 original size:21 final size:21
Alignment explanation
Indices: 19545970--19546019 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
19545960 TTAACCAAAC
* **
19545970 CTAGAAAAATCCAAAAAAGTT
1 CTAGAAAAATACAAAAAAAAT
* *
19545991 TTAAAAAAATACAAAAAAAAT
1 CTAGAAAAATACAAAAAAAAT
19546012 CTAGAAAA
1 CTAGAAAA
19546020 CCTCTTAGTC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.66, C:0.10, G:0.06, T:0.18
Consensus pattern (21 bp):
CTAGAAAAATACAAAAAAAAT
Found at i:19546696 original size:17 final size:18
Alignment explanation
Indices: 19546667--19546701 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
19546657 TTACAATAAT
19546667 GTTTTATTTTTTTCAAAA
1 GTTTTATTTTTTTCAAAA
19546685 GTTTTA-TTTTTTCAAAA
1 GTTTTATTTTTTTCAAAA
19546702 TTTGATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (18 bp):
GTTTTATTTTTTTCAAAA
Found at i:19546709 original size:16 final size:17
Alignment explanation
Indices: 19546674--19546709 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19546664 AATGTTTTAT
*
19546674 TTTTTTCAAAAGTTTTA
1 TTTTTTCAAAAGTTTGA
19546691 TTTTTTCAAAA-TTTGA
1 TTTTTTCAAAAGTTTGA
19546707 TTT
1 TTT
19546710 AGTTTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTTTCAAAAGTTTGA
Found at i:19546871 original size:27 final size:27
Alignment explanation
Indices: 19546841--19546898 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
19546831 AAGTTTCTCA
19546841 TTTTCTAATTTTCTT-AGATCTTTT-AAT
1 TTTTCT-ATTTTCTTCA-ATCTTTTGAAT
* *
19546868 TTTTCTTTTTTCTTCAATTTTTTGAAT
1 TTTTCTATTTTCTTCAATCTTTTGAAT
19546895 TTTT
1 TTTT
19546899 AGATTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.69
Consensus pattern (27 bp):
TTTTCTATTTTCTTCAATCTTTTGAAT
Found at i:19546907 original size:19 final size:18
Alignment explanation
Indices: 19546885--19546927 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
19546875 TTTTCTTCAA
*
19546885 TTTTTTGAATTTTTAGAT
1 TTTTTTTAATTTTTAGAT
*
19546903 TTTTTATTAATTTTTGGAT
1 TTTTT-TTAATTTTTAGAT
19546922 TTTTTT
1 TTTTTT
19546928 GTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (18 bp):
TTTTTTTAATTTTTAGAT
Found at i:19548116 original size:45 final size:45
Alignment explanation
Indices: 19548052--19548143 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
19548042 AGTTAGAAGC
19548052 AAAGGTTGAAGGTGTCTTCCACATTTGTGTTTTAATGCTTAAGTT
1 AAAGGTTGAAGGTGTCTTCCACATTTGTGTTTTAATGCTTAAGTT
19548097 AAAGGTTGAAGGTGTCTTCCACATTTGTGTTTTAATGCTTAAGTT
1 AAAGGTTGAAGGTGTCTTCCACATTTGTGTTTTAATGCTTAAGTT
19548142 AA
1 AA
19548144 TGACTGAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (45 bp):
AAAGGTTGAAGGTGTCTTCCACATTTGTGTTTTAATGCTTAAGTT
Found at i:19549553 original size:26 final size:26
Alignment explanation
Indices: 19549486--19549555 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
19549476 GTAAAAATAT
** *
19549486 TTTTAT-TATTTATTT-AGTTTTTTA
1 TTTTATATATTTATTTAAAATTGTTA
*
19549510 -TTTATATATATTA-ATAAAATTGTTA
1 TTTTATATAT-TTATTTAAAATTGTTA
19549535 TTTTATATATTTATTTAAAAT
1 TTTTATATATTTATTTAAAAT
19549556 ATTAATTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
23 5 0.14
24 4 0.11
25 12 0.33
26 15 0.42
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTTATATATTTATTTAAAATTGTTA
Found at i:19552553 original size:2 final size:2
Alignment explanation
Indices: 19552546--19552572 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19552536 ATCCCTCCTC
19552546 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
19552573 AACATCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19552859 original size:100 final size:100
Alignment explanation
Indices: 19552681--19552985 Score: 567
Period size: 100 Copynumber: 3.1 Consensus size: 100
19552671 AAAGCCTAAT
*
19552681 AAGT-GTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAAGT
1 AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
19552745 AGAGCTAAGCAGCATTTCTATCCATGGACATAAGA
66 AGAGCTAAGCAGCATTTCTATCCATGGACATAAGA
19552780 AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
1 AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
*
19552845 AGAGCTAAGTAGCATTTCTATCCATGGACATAAGA
66 AGAGCTAAGCAGCATTTCTATCCATGGACATAAGA
19552880 AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
1 AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
* *
19552945 AGAGCTAAGCAGCATTTCCATCCATGGACCTAAGA
66 AGAGCTAAGCAGCATTTCTATCCATGGACATAAGA
19552980 AAGTAG
1 AAGTAG
19552986 GTGATTCTAG
Statistics
Matches: 200, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
99 4 0.02
100 196 0.98
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (100 bp):
AAGTAGTGGCAAATTTCACAAGTAGTCATGTACCTCAACAATTATTGTTCCTACTTCTAGCAGGT
AGAGCTAAGCAGCATTTCTATCCATGGACATAAGA
Found at i:19553260 original size:3 final size:3
Alignment explanation
Indices: 19553252--19553284 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
19553242 GAACAACTAG
*
19553252 TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19553285 AAAGAAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19556312 original size:192 final size:192
Alignment explanation
Indices: 19555985--19556365 Score: 753
Period size: 192 Copynumber: 2.0 Consensus size: 192
19555975 ATATGGACCA
19555985 TAAATTGCACAATCTTTCAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
1 TAAATTGCACAATCTTTCAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
19556050 CTAAACACTCTAAGAAACATAATGTAATCTCCTAAAAACAAGACAAAAGAGGACTGAAAAACTTA
66 CTAAACACTCTAAGAAACATAATGTAATCTCCTAAAAACAAGACAAAAGAGGACTGAAAAACTTA
19556115 AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTTAAG
131 AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTTAAG
*
19556177 TAAATTGCACAATCTTTTAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
1 TAAATTGCACAATCTTTCAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
19556242 CTAAACACTCTAAGAAACATAATGTAATCTCCTAAAAACAAGACAAAAGAGGACTGAAAAACTTA
66 CTAAACACTCTAAGAAACATAATGTAATCTCCTAAAAACAAGACAAAAGAGGACTGAAAAACTTA
19556307 AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTT
131 AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTT
19556366 GAGGAAAGGC
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 188 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (192 bp):
TAAATTGCACAATCTTTCAAGTCTCAAGGGTAGCTGATGAAGTCAGAATAATACTGGTATAAATG
CTAAACACTCTAAGAAACATAATGTAATCTCCTAAAAACAAGACAAAAGAGGACTGAAAAACTTA
AACTAGACTTTATGCAGCTGTGTAAATGGTTAGGTTGCAATGGCCTTTTTATTTACCTTAAG
Found at i:19558231 original size:3 final size:3
Alignment explanation
Indices: 19558223--19558260 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19558213 CCATCTGTGA
19558223 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19558261 ATCTAGAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19559710 original size:2 final size:2
Alignment explanation
Indices: 19559703--19559733 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19559693 TTACCCCTCA
19559703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19559734 ATGGTACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19559935 original size:2 final size:2
Alignment explanation
Indices: 19559928--19559953 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19559918 TTTGACCAAT
19559928 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
19559954 ATCATGTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19560798 original size:15 final size:15
Alignment explanation
Indices: 19560753--19560817 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
19560743 TATCTAACTT
*
19560753 AAAAAAATAAAAAAGT
1 AAAAAAATAAAAAA-C
* * *
19560769 GAAAAGATAATAAAC
1 AAAAAAATAAAAAAC
*
19560784 AACAAAATAAAAAAC
1 AAAAAAATAAAAAAC
19560799 AAAAAAATAGAAAAA-
1 AAAAAAATA-AAAAAC
19560814 AAAA
1 AAAA
19560818 CTCATAAAGG
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
15 23 0.59
16 16 0.41
ACGTcount: A:0.80, C:0.05, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAAAATAAAAAAC
Found at i:19560869 original size:29 final size:28
Alignment explanation
Indices: 19560836--19560935 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 28
19560826 GGATGTCATA
19560836 AAATATTAAGTTTTTAAAATTAAAGTATC
1 AAATATTAA-TTTTTAAAATTAAAGTATC
* *
19560865 AAATAATT-A-TTTTATCAATATAATA-TAATA
1 AAAT-ATTAATTTTTA-AAAT-TAA-AGT-ATC
*
19560895 AAATATTAATTTTTAAAATTAAAGCATC
1 AAATATTAATTTTTAAAATTAAAGTATC
19560923 AAATAATT-ATTTT
1 AAAT-ATTAATTTT
19560936 ATATATTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 19
0.70 0.06 0.23
Matches are distributed among these distances:
27 5 0.09
28 15 0.26
29 18 0.32
30 14 0.25
31 5 0.09
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (28 bp):
AAATATTAATTTTTAAAATTAAAGTATC
Found at i:19561285 original size:29 final size:29
Alignment explanation
Indices: 19561257--19561312 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
19561247 AAGAAAAAAT
19561257 TTAAAAT-TTAAAAAATAGAT-TTATTAAA
1 TTAAAATATTAAAAAATA-ATCTTATTAAA
*
19561285 TTAAAATATTAAATAATAATCTTATTAA
1 TTAAAATATTAAAAAATAATCTTATTAA
19561313 TGTAATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (29 bp):
TTAAAATATTAAAAAATAATCTTATTAAA
Found at i:19566170 original size:350 final size:349
Alignment explanation
Indices: 19565513--19566186 Score: 872
Period size: 350 Copynumber: 1.9 Consensus size: 349
19565503 TTTTTCACAG
* * * * * * *
19565513 AAAATACCTCGAATAATCCCTTTTAAGAAATTGAAGGGGATTATTAAAGGTGTTTTGGGCCAAAA
1 AAAATACCTCGAATAATCCCCTCTAAAAAATTGAAAGGGATTATTAAAGGCGATTTGAGCCAAAA
* * * * * *
19565578 ACGCCTTCAATAAGATAGGAATTATTCAAGATATTTTTGGCCAGTAATGCCTTCAATGACCCAAT
66 ACGCCTTCAATAAGACAGGAATTATTAAAGACATTTTTGGCCAGAAACGCCTTCAATAACCCAAT
* *
19565643 TCAATATTTTGTTAGGGATTATTCAAGGTATTTTTGGGCAAAAATGCCTTCAATAAAATCCTCAT
131 TCAATATTTTGTTAGGGATTATTCAAGGTATTTTTAGACAAAAATGCCTTCAATAAAATCCTCAT
* * * ***
19565708 AATTGCCTAAAGGTGATTATTCAAGGCATTTTTTGCCATAAAAGCCTTAACTAATCCTAACGGAT
196 AAATGCCGAAAGGTGATTATTCAAGGCATTTTTTACCATAAAAGCCTTAACTAATCCTAAAAAAT
*
19565773 TATTCAAAGTGTTTTATCACAAAATCATCTTGAATGATCCCAAAAAAAATAAGAGGGGATTATTG
261 TATTCAAAGTGTTTTATCACAAAATCA-CTTGAATGAT-CCAAAAAAAATAAGAGGAGATTATTG
19565838 AATGCGTTTTTACAGAAAATGTGCAA
324 AATGCGTTTTTACAGAAAATGTGCAA
* *
19565864 AAAATGCCTCG-ATAATCCCCTCTAAAAAATTGAAAGGGATTATTAAAGGCGATTT-AGCTAAAA
1 AAAATACCTCGAATAATCCCCTCTAAAAAATTGAAAGGGATTATTAAAGGCGATTTGAGCCAAAA
* ** * ** *
19565927 ATGCCTTCAATAATCCAGGAATTATTAAAGGCATTTTTGGCTTGAAACGCCTTCAATAACCCCAT
66 ACGCCTTCAATAAGACAGGAATTATTAAAGACATTTTTGGCCAGAAACGCCTTCAATAACCCAAT
* * * **
19565992 TCAATATTTTGTTAGGGATTATTTAAGGTGTTTTCTAGACAAAAATGCCTTCAGTAATCTCCTCA
131 TCAATATTTTGTTAGGGATTATTCAAGGTATTTT-TAGACAAAAATGCCTTCAATAAAATCCTCA
* * * *
19566057 TAAATGATCGAAA-GTGATTATTCAAGGCGTTTTTTACCATAAATGCCTTGACTAA-CCGTAAAA
195 TAAATG-CCGAAAGGTGATTATTCAAGGCATTTTTTACCATAAAAGCCTTAACTAATCC-TAAAA
* *
19566120 AATTATTCAAGGTGTTTTATCACAAAAATTC-CTTGAATGATCCAAAAAAAATAGGAGGAGATTA
258 AATTATTCAAAGTGTTTTATCAC-AAAA-TCACTTGAATGATCCAAAAAAAATAAGAGGAGATTA
19566184 TTG
321 TTG
19566187 GAGGTGTTTT
Statistics
Matches: 276, Mismatches: 42, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
349 116 0.42
350 140 0.51
351 18 0.07
352 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (349 bp):
AAAATACCTCGAATAATCCCCTCTAAAAAATTGAAAGGGATTATTAAAGGCGATTTGAGCCAAAA
ACGCCTTCAATAAGACAGGAATTATTAAAGACATTTTTGGCCAGAAACGCCTTCAATAACCCAAT
TCAATATTTTGTTAGGGATTATTCAAGGTATTTTTAGACAAAAATGCCTTCAATAAAATCCTCAT
AAATGCCGAAAGGTGATTATTCAAGGCATTTTTTACCATAAAAGCCTTAACTAATCCTAAAAAAT
TATTCAAAGTGTTTTATCACAAAATCACTTGAATGATCCAAAAAAAATAAGAGGAGATTATTGAA
TGCGTTTTTACAGAAAATGTGCAA
Found at i:19566489 original size:60 final size:59
Alignment explanation
Indices: 19566381--19566503 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 59
19566371 TTTTATCAAA
* *
19566381 AAAATGCCTTGAATGATCCTAAAAAATATGGAAGGGGATTATTAAAGGCATTTTTGGTAG
1 AAAATGCCTTGAATAATCCTAAAAAATATGGAAGGGGAATATTAAAGGCATTTTTGGT-G
* * *
19566441 AAAATGCCTTGAATAATCCCCTTTAAAAAT-T-GAA-GGGAATATTTAAGGCGTTTTTGGTG
1 AAAATGCCTTGAATAAT--CC-TAAAAAATATGGAAGGGGAATATTAAAGGCATTTTTGGTG
19566500 AAAA
1 AAAA
19566504 AAATCTTGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
59 5 0.09
60 37 0.67
61 3 0.05
62 3 0.05
63 7 0.13
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (59 bp):
AAAATGCCTTGAATAATCCTAAAAAATATGGAAGGGGAATATTAAAGGCATTTTTGGTG
Found at i:19568751 original size:54 final size:56
Alignment explanation
Indices: 19568683--19568791 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 56
19568673 TATTTTATTT
* * * *
19568683 ATTTATTAGAACTAATTTTAGGATTATTCCAACTCTTTGGCAAAATTC-AAAAGTC
1 ATTTATTAGAACTAATTTTAGGATCATCCCAACTCTTTAGCAAAATCCTAAAAGTC
* *
19568738 ATTTTTTA-AACTAATTTTAGGATCCTCCCAACTCTTTAGCAAAATCCTAAAAGT
1 ATTTATTAGAACTAATTTTAGGATCATCCCAACTCTTTAGCAAAATCCTAAAAGT
19568792 TTTTAAATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 34 0.72
55 13 0.28
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (56 bp):
ATTTATTAGAACTAATTTTAGGATCATCCCAACTCTTTAGCAAAATCCTAAAAGTC
Found at i:19568820 original size:51 final size:51
Alignment explanation
Indices: 19568740--19568894 Score: 170
Period size: 51 Copynumber: 3.0 Consensus size: 51
19568730 CAAAAGTCAT
* * * *
19568740 TTTTTAAACT-AATTTTAGGATCCTCCCAACTCTTTAGCAAAATCCTAAAAG
1 TTTTTAAATTGAA-TTTAAGATCCTCCCAACTCTTTAGTAAAATCCTAAAAA
* * * *
19568791 TTTTTAAATTGAATTTAAGATCATCCCAACTCTTTGGTGAAATACTAAAAA
1 TTTTTAAATTGAATTTAAGATCCTCCCAACTCTTTAGTAAAATCCTAAAAA
* * *
19568842 TTTTTAAATTGGA-TTGAGAATCCTCCTAACTCTTTAGTAAAATCCTTAAAAA
1 TTTTTAAATTGAATTTAAG-ATCCTCCCAACTCTTTAGTAAAATCC-TAAAAA
19568894 T
1 T
19568895 CATTTATCTC
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
50 4 0.05
51 73 0.85
52 9 0.10
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (51 bp):
TTTTTAAATTGAATTTAAGATCCTCCCAACTCTTTAGTAAAATCCTAAAAA
Found at i:19569011 original size:24 final size:24
Alignment explanation
Indices: 19568991--19569049 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
19568981 TTAATTTTTG
* *
19568991 TTATTATTTTATCTTTTATTTTTTAT
1 TTATTATTTCAT-TATTA-TTTTTAT
19569017 TTATTATTTCATTATTATTTTTAT
1 TTATTATTTCATTATTATTTTTAT
19569041 TTATTATTT
1 TTATTATTT
19569050 AAATAAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 16 0.52
25 4 0.13
26 11 0.35
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (24 bp):
TTATTATTTCATTATTATTTTTAT
Found at i:19569016 original size:14 final size:14
Alignment explanation
Indices: 19568991--19569049 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
19568981 TTAATTTTTG
19568991 TTATTATTTTATCTT-
1 TTATT-TTTTAT-TTA
19569006 TTATTTTTTATTTA
1 TTATTTTTTATTTA
*
19569020 TTA--TTTCA-TTA
1 TTATTTTTTATTTA
19569031 TTA-TTTTTATTTA
1 TTATTTTTTATTTA
19569044 TTATTT
1 TTATTT
19569050 AAATAAATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 6 0.16
12 8 0.21
13 8 0.21
14 11 0.29
15 5 0.13
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTTTTTATTTA
Found at i:19569456 original size:11 final size:12
Alignment explanation
Indices: 19569418--19569475 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 12
19569408 AATATCATAG
*
19569418 AAAACAAAATACA
1 AAAATAAAAT-CA
* *
19569431 AAAAAAAAACCA
1 AAAATAAAATCA
*
19569443 AAAATGAAAT-A
1 AAAATAAAATCA
19569454 AAAATAAAATCAA
1 AAAATAAAATC-A
19569467 AAAATAAAA
1 AAAATAAAA
19569476 AGAAAAAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 10 0.27
12 9 0.24
13 18 0.49
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.10
Consensus pattern (12 bp):
AAAATAAAATCA
Found at i:19569487 original size:19 final size:19
Alignment explanation
Indices: 19569449--19569488 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19569439 ACCAAAAATG
* *
19569449 AAATAAAAATAAAATCAAA
1 AAATAAAAAGAAAAACAAA
*
19569468 AAATAAAAAGAAAAAGAAA
1 AAATAAAAAGAAAAACAAA
19569487 AA
1 AA
19569489 GGGAAACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (19 bp):
AAATAAAAAGAAAAACAAA
Found at i:19569960 original size:16 final size:17
Alignment explanation
Indices: 19569941--19569979 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
19569931 TGGATGAGAC
19569941 TTTTTATTTTTGAGTTT
1 TTTTTATTTTTGAGTTT
*
19569958 TTTTTGTTTTTGA-TTT
1 TTTTTATTTTTGAGTTT
19569974 TTTTTA
1 TTTTTA
19569980 AATAAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTTGAGTTT
Found at i:19573329 original size:19 final size:20
Alignment explanation
Indices: 19573288--19573329 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19573278 TATGTATTTA
19573288 TTTTTTATTACAAACATGTT
1 TTTTTTATTACAAACATGTT
*
19573308 TTTTTTATT-CGAACTATGTT
1 TTTTTTATTACAAAC-ATGTT
19573328 TT
1 TT
19573330 GTAAGACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTTTATTACAAACATGTT
Found at i:19583229 original size:23 final size:24
Alignment explanation
Indices: 19583189--19583234 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
19583179 TTTATAATTG
*
19583189 TAATTATAGTATTTATTGATTTAT
1 TAATTATAGTATTGATTGATTTAT
19583213 TAATTATA-TATTGATTGATTTA
1 TAATTATAGTATTGATTGATTTA
19583235 ATTTATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (24 bp):
TAATTATAGTATTGATTGATTTAT
Found at i:19584154 original size:270 final size:270
Alignment explanation
Indices: 19582851--19584167 Score: 908
Period size: 270 Copynumber: 4.9 Consensus size: 270
19582841 ATTACTCAAA
* *
19582851 TGGATACTATATTTAATCAAATATAAATGTATCAAATAATTAATTAAAGAATCAACTATTTTATA
1 TGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAACTATTTTATA
* * * * * *
19582916 ATT-TCAATTCTAGTAGTTATTAATTTGTTAATTATTTATTGATTGATTTAATTTGTCAAATTAA
66 ATTGT-AATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAATTAA
* * * * * *
19582980 GAAATTTTTAAAATTTTAATACTTTTAATATGAACTGAATTGAAAGTGA-TTTAAATCAATAATA
130 GAAATTTTTAAAATTTTAATAATTTTAATATCAATTAAATTGAAAGCGACTTAAAATCAATAATA
* * * *
19583044 AAAACATAAATATAATCAATTTAGTTTTTTAAATGATATTTGCTTTATATATTTACACATAAAAT
195 AAAACATAAATATAATCAATTTAGTTTTTTGAATTATATTTGTTTTATATATTTACACATGAAAT
*
19583109 ACATTAATTAC
260 ACATTAATTAT
* * * *
19583120 TAGATACTATATTTAATCAAATATAAATGTATCAAATAATTGATTGGAGAATCAACTATTTTATA
1 TGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAACTATTTTATA
* * * * *
19583185 ATTGTAATTATAGTATTTATTGATTTATTAATTATATATTGATTGATTTAATTTATCAAATTAAG
66 ATTGTAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAATTAAG
* * * * ** * * *
19583250 AAATTTTTTAAATTTTAATAATTTTAATATGAATTGAATTGAGAGTTATTTAAAGTTAATAATAA
131 AAATTTTTAAAATTTTAATAATTTTAATATCAATTAAATTGAAAGCGACTTAAAATCAATAATAA
* * * * * * * * *** * * * *
19583315 CAACATAAGTATAGTTAATTTAGCTTGTTAAATTATTTTTAAATTA-AAATTGTATTAAATAAAA
196 AAACATAAATATAATCAATTTAGTTTTTTGAATTATATTTGTTTTATATATT-TA-CACATGAAA
* **
19583379 TAAAATGTTTTTAT
259 T-ACAT-TAATTAT
* * ** * * **
19583393 TAGATATCACTTAGTGATTT--TTAAGACTATCTATATGTC-AAC-ATT--TTA-AGGCGTTCAC
1 T-G-GAT-AC-TA-T-ATTTAATCAA-A-TATAAATGTATCAAACAATTAATTAGA-G-AATCA-
* * * * ** * * * *
19583451 ATATGATTTTTTTCATT-T--TTGCCAATAGCTTTGGCT--TTTATATATTTGTATA-AGA-AAA
55 A-CT-A-TTTTATAATTGTAATTG-TAATA--TTT-ATTAATTTAT-TAATTATATATTGATTAA
* *** * * * * * * *
19583509 TTAAATGAAATCATATTGAATGAAA--TAT-AAATGTATCAATCAAATATAA-ATTAATAAAATA
112 TTTAAT-TTGTCAAATT-AA-GAAATTTTTAAAAT-T-TTAAT-AATTTTAATATCAAT-TAA-A
***** * * * * * * * * *
19583570 TTTTTTTCCA-TT-AATTTAATTATGAAAA-ATTAATTTTAT-ATATTT-GCTTTATAT-AATTA
169 TTGAAAGCGACTTAAAATCAATAATAAAAACATAAATATAATCA-ATTTAG-TTT-TTTGAATTA
* ** * *
19583629 CACATG----A-A-A--TACATCATGAAATATATCAATTACT
231 TATTTGTTTTATATATTTACA-CATGAAATACATTAATTA-T
*
19583663 CAAATGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAATTATTT
1 ----TGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAACTATTT
19583728 TATAATTGTAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAAT
62 TATAATTGTAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAAT
* * * * *
19583793 TAAGAAATTTTTAAAATTTTAATATTTTTAATATGAATTGAATTGAAAGTGATTTAAAATCAATA
127 TAAGAAATTTTTAAAATTTTAATAATTTTAATATCAATTAAATTGAAAGCGACTTAAAATCAATA
*
19583858 ATAAAAACATAAATATAATTAATTTAGTTTTTTGAATTATATTTGTTTTATATATTTACACATGA
192 ATAAAAACATAAATATAATCAATTTAGTTTTTTGAATTATATTTGTTTTATATATTTACACATGA
19583923 AATACATTAATTAT
257 AATACATTAATTAT
* *
19583937 TGGATACTATATTTAATCAAATATAAATGTATCAAATAATTAATTAGAGAATTAACTATTTTATA
1 TGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAACTATTTTATA
* * *
19584002 ATTGTAATTGTAGTATTTATTAATTTATTAATTATATATTGATTGATTTAATTTGTCAATTTAA-
66 ATTGTAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAATTAAG
* * ** *
19584066 AATTTTTTTAAAATTTTAGTAATTTTAATATCAATTAAATTGAGAA-CGACTTAAGGTTAATAAT
131 AA-ATTTTTAAAATTTTAATAATTTTAATATCAATTAAATTGA-AAGCGACTTAAAATCAATAAT
19584130 AAAAACATAAATATAATCAATTTAGTTTTTTGAATTAT
194 AAAAACATAAATATAATCAATTTAGTTTTTTGAATTAT
19584168 TTTTAAACTA
Statistics
Matches: 802, Mismatches: 170, Indels: 151
0.71 0.15 0.13
Matches are distributed among these distances:
265 4 0.00
266 13 0.02
267 44 0.05
268 53 0.07
269 193 0.24
270 276 0.34
271 23 0.03
272 10 0.01
273 8 0.01
274 5 0.01
275 23 0.03
276 9 0.01
277 11 0.01
278 20 0.02
279 49 0.06
280 43 0.05
281 14 0.02
282 4 0.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (270 bp):
TGGATACTATATTTAATCAAATATAAATGTATCAAACAATTAATTAGAGAATCAACTATTTTATA
ATTGTAATTGTAATATTTATTAATTTATTAATTATATATTGATTAATTTAATTTGTCAAATTAAG
AAATTTTTAAAATTTTAATAATTTTAATATCAATTAAATTGAAAGCGACTTAAAATCAATAATAA
AAACATAAATATAATCAATTTAGTTTTTTGAATTATATTTGTTTTATATATTTACACATGAAATA
CATTAATTAT
Found at i:19584287 original size:817 final size:811
Alignment explanation
Indices: 19582553--19584322 Score: 2643
Period size: 817 Copynumber: 2.2 Consensus size: 811
19582543 ATCTTATATA
* * * * *
19582553 ATTAAATAAAATAAAAGACGTTTATTAGATGTCACATGATGACTTTTAAAA-TAATCCACATGTC
1 ATTAAATAAAATAAAATA-TTTTTTTAGATGTCACATGATGATTTTTAAAACT--TTCACATGTC
**
19582617 AATTTTTTAAGCTGTTCACATATGATTTTTTTTTCATTTTTGCCAAAAGCTTTGGCTTTTATATA
63 AACATTTTAAGC-GTTCACATATGA--TTTTTTTCATTTTTGCCAAAAGCTTTGGCTTTTATATA
* *
19582682 TTTATATAAG-ATCAAATAAAATCATATTTAATGAAATATAAATGTATTAATCAAATATAAATTA
125 TTTATATAAGAATCAAATAAAATCATATTGAATGAAATATAAATGTATCAATCAAATATAAATTA
* * * * *
19582746 ATAAAATATTTAATTCCTTTAATTTAATTATGGAGAATTAATTTAATATGTTTGCTTTATATATT
190 ATAAAATATTTAATTCCATTAATTTAATTATGAAAAATTAATTTAATATATTTGCTTTATATAAT
*
19582811 TACACATGAAATACATCATAAAATACGTCAATTACTCAAATGGATACTATATTTAATCAAATATA
255 TACACATGAAATACATCATAAAATACATCAATTACTCAAATGGATACTATATTTAATCAAATATA
* *
19582876 AATGTATCAAATAATTAATTAAAGAATCAACTATTTTATAATTTCAATTCTAGTAGTTATTAATT
320 AATGTATCAAACAATTAATTAAAGAATCAACTATTTTATAATTTCAATTCTAATAGTTATTAATT
* * *
19582941 TGTTAATTATTTATTGATTGATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATACTTTT
385 TATTAATTATATATTGATTAATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATACTTTT
19583006 AATATGAACTGAATTGAAAGTGATTTAAATCAATAATAAAAACATAAATATAATCAATTTAGTTT
450 AATATGAACTGAATTGAAAGTGATTTAAATCAATAATAAAAACATAAATATAATCAATTTAGTTT
19583071 TTTAAATGATATTTGCTTTATATATTTACACATAAAATACATTAATTACTAGATACTATATTTAA
515 TTTAAATGATATTTGCTTTATATATTTACACATAAAATACATTAATTACTAGATACTATATTTAA
* *
19583136 TCAAATATAAATGTATCAAATAATTGATTGGAGAATCAACTATTTTATAATTGTAATTATAGTAT
580 TCAAATATAAATGTATCAAATAATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAGTAT
*
19583201 TTATTGATTTATTAATTATATATTGATTGATTTAATTTATCAAATTAAGAAATTTTTTAAATTTT
645 TTATTAATTTATTAATTATATATTGATTGATTTAATTTATCAAATTAAGAAATTTTTTAAATTTT
* * *** * * * * *
19583266 AATAATTTTAATATGAATTGAATTGAGAGTTATTTAAAGTTAATAATAACAACATAAGTATAGTT
710 AATAATTTTAATATCAATTAAATTGAGAACGACTTAAAGTTAATAATAAAAACATAAATATAATC
* *
19583331 AATTTAGCTTGTTAAATTATTTTTAAATTAAAATTGT
775 AATTTAGCTTGTTAAATTATTTTTAAACTAAAAATGT
* * * * * *
19583368 ATTAAATAAAATAAAATGTTTTTATTAGATATCAC-TTAGTGATTTTTAAGACTATCTATATGTC
1 ATTAAATAAAATAAAATATTTTT-TTAGATGTCACATGA-TGATTTTTAAAACTTTC-ACATGTC
*
19583432 AACATTTTAAGGCGTTCACATATGATTTTTTTCATTTTTGCCAATAGCTTTGGCTTTTATATATT
63 AACATTTTAA-GCGTTCACATATGATTTTTTTCATTTTTGCCAAAAGCTTTGGCTTTTATATATT
* * *
19583497 TGTATAAGAAAATTAAATGAAATCATATTGAATGAAATATAAATGTATCAATCAAATATAAATTA
127 TATATAAG--AATCAAATAAAATCATATTGAATGAAATATAAATGTATCAATCAAATATAAATTA
** *
19583562 ATAAAATATTTTTTTCCATTAATTTAATTATGAAAAATTAATTTTATATATTTGCTTTATATAAT
190 ATAAAATATTTAATTCCATTAATTTAATTATGAAAAATTAATTTAATATATTTGCTTTATATAAT
* *
19583627 TACACATGAAATACATCATGAAATATATCAATTACTCAAATGGATACTATATTTAATCAAATATA
255 TACACATGAAATACATCATAAAATACATCAATTACTCAAATGGATACTATATTTAATCAAATATA
* * * *
19583692 AATGTATCAAACAATTAATTAGAGAATCAATTATTTTATAATTGT-AATTGTAATATTTATTAAT
320 AATGTATCAAACAATTAATTAAAGAATCAACTATTTTATAATT-TCAATTCTAATAGTTATTAAT
*
19583756 TTATTAATTATATATTGATTAATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATATTTT
384 TTATTAATTATATATTGATTAATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATACTTT
* *
19583821 TAATATGAATTGAATTGAAAGTGATTTAAAATCAATAATAAAAACATAAATATAATTAATTTAGT
449 TAATATGAACTGAATTGAAAGTGATTT-AAATCAATAATAAAAACATAAATATAATCAATTTAGT
* * * * * *
19583886 TTTTTGAATTATATTTGTTTTATATATTTACACATGAAATACATTAATTATTGGATACTATATTT
513 TTTTTAAATGATATTTGCTTTATATATTTACACATAAAATACATTAATTACTAGATACTATATTT
* *
19583951 AATCAAATATAAATGTATCAAATAATTAATTAGAGAATTAACTATTTTATAATTGTAATTGTAGT
578 AATCAAATATAAATGTATCAAATAATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAGT
* * *
19584016 ATTTATTAATTTATTAATTATATATTGATTGATTTAATTTGTCAATTTAA-AATTTTTTTAAAAT
643 ATTTATTAATTTATTAATTATATATTGATTGATTTAATTTATCAAATTAAGAAATTTTTT-AAAT
* *
19584080 TTTAGTAATTTTAATATCAATTAAATTGAGAACGACTTAAGGTTAATAATAAAAACATAAATATA
707 TTTAATAATTTTAATATCAATTAAATTGAGAACGACTTAAAGTTAATAATAAAAACATAAATATA
* * *
19584145 ATCAATTTAGTTTTTTGAATTATTTTTAAACTAAAAATGT
772 ATCAATTTAGCTTGTTAAATTATTTTTAAACTAAAAATGT
*
19584185 ATTAAATAAAATAAAATATATTTTTTAGATGTCACATGACGATTTTTAAAACTGTTCACATGTCA
1 ATTAAATAAAATAAAATAT-TTTTTTAGATGTCACATGATGATTTTTAAAACT-TTCACATGTCA
* *
19584250 ACATTTTAAGTCGTTCACATA-GGTTGTTTTCCATTTTTGCCAAAAGCTTTGGCTTTTATATATT
64 ACATTTTAAG-CGTTCACATATGATT-TTTTTCATTTTTGCCAAAAGCTTTGGCTTTTATATATT
19584314 TATATAAGA
127 TATATAAGA
19584323 TTTTAAAATT
Statistics
Matches: 855, Mismatches: 84, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
813 46 0.05
814 6 0.01
815 63 0.07
816 327 0.38
817 405 0.47
818 8 0.01
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (811 bp):
ATTAAATAAAATAAAATATTTTTTTAGATGTCACATGATGATTTTTAAAACTTTCACATGTCAAC
ATTTTAAGCGTTCACATATGATTTTTTTCATTTTTGCCAAAAGCTTTGGCTTTTATATATTTATA
TAAGAATCAAATAAAATCATATTGAATGAAATATAAATGTATCAATCAAATATAAATTAATAAAA
TATTTAATTCCATTAATTTAATTATGAAAAATTAATTTAATATATTTGCTTTATATAATTACACA
TGAAATACATCATAAAATACATCAATTACTCAAATGGATACTATATTTAATCAAATATAAATGTA
TCAAACAATTAATTAAAGAATCAACTATTTTATAATTTCAATTCTAATAGTTATTAATTTATTAA
TTATATATTGATTAATTTAATTTGTCAAATTAAGAAATTTTTAAAATTTTAATACTTTTAATATG
AACTGAATTGAAAGTGATTTAAATCAATAATAAAAACATAAATATAATCAATTTAGTTTTTTAAA
TGATATTTGCTTTATATATTTACACATAAAATACATTAATTACTAGATACTATATTTAATCAAAT
ATAAATGTATCAAATAATTAATTAGAGAATCAACTATTTTATAATTGTAATTATAGTATTTATTA
ATTTATTAATTATATATTGATTGATTTAATTTATCAAATTAAGAAATTTTTTAAATTTTAATAAT
TTTAATATCAATTAAATTGAGAACGACTTAAAGTTAATAATAAAAACATAAATATAATCAATTTA
GCTTGTTAAATTATTTTTAAACTAAAAATGT
Found at i:19584840 original size:40 final size:40
Alignment explanation
Indices: 19584787--19584905 Score: 211
Period size: 40 Copynumber: 3.0 Consensus size: 40
19584777 GACTATGGCA
* *
19584787 TTTGTTAATAAGACTATGGCATTTAGAATCATATAGCATT
1 TTTGTTAAAAAGACTATGGCATTTACAATCATATAGCATT
19584827 TTTGTTAAAAAGACTATGGCATTTACAATCATATAGCATT
1 TTTGTTAAAAAGACTATGGCATTTACAATCATATAGCATT
*
19584867 TTTGGTAAAAAGACTATGGCATTTACAATCATATAGCAT
1 TTTGTTAAAAAGACTATGGCATTTACAATCATATAGCAT
19584906 GATGATAACA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (40 bp):
TTTGTTAAAAAGACTATGGCATTTACAATCATATAGCATT
Found at i:19592913 original size:6 final size:6
Alignment explanation
Indices: 19592902--19592934 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
19592892 AAATAACTTC
19592902 AATTGG AATTGG AATTGG AATTGG AATTGG AAT
1 AATTGG AATTGG AATTGG AATTGG AATTGG AAT
19592935 AATAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (6 bp):
AATTGG
Found at i:19595721 original size:17 final size:19
Alignment explanation
Indices: 19595695--19595740 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
19595685 CTATGTGACA
*
19595695 TTTTTATTTG-AGTTTTT-
1 TTTTTTTTTGTAGTTTTTC
19595712 TTTTTTTTTGTAGTTTTTC
1 TTTTTTTTTGTAGTTTTTC
19595731 TTTTGTTTTT
1 TTTT-TTTTT
19595741 AATTATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 9 0.36
18 7 0.28
19 4 0.16
20 5 0.20
ACGTcount: A:0.07, C:0.02, G:0.11, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTGTAGTTTTTC
Found at i:19596175 original size:24 final size:24
Alignment explanation
Indices: 19596141--19596188 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
19596131 AAATGAAATT
*
19596141 ATATAATTTTTAAG-TCAATAAAAA
1 ATATAAATTTT-AGTTCAATAAAAA
19596165 ATATAAATTTTAGTTCAATAAAAA
1 ATATAAATTTTAGTTCAATAAAAA
19596189 TTTTAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATAAATTTTAGTTCAATAAAAA
Found at i:19606307 original size:4 final size:4
Alignment explanation
Indices: 19606298--19606338 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
19606288 AATACTTTAA
* *
19606298 AAAT AAAT AAAC AAAT AAA- AAAT AACT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
19606339 GTAACTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:19606320 original size:19 final size:19
Alignment explanation
Indices: 19606296--19606335 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
19606286 AAAATACTTT
19606296 AAAAATAAATAAACAAATA
1 AAAAATAAATAAACAAATA
* *
19606315 AAAAATAACTAAATAAATA
1 AAAAATAAATAAACAAATA
19606334 AA
1 AA
19606336 TAAGTAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAAATAAATAAACAAATA
Found at i:19607119 original size:19 final size:19
Alignment explanation
Indices: 19607063--19607121 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
19607053 TTTAAATTTC
* *
19607063 AACTCCAAA-TTTTAAATCC
1 AACT-CAAACTTTTCAATCT
* * *
19607082 AACTCAAACTCTCCTATCT
1 AACTCAAACTTTTCAATCT
19607101 AACTCAAACTTTTCAATCT
1 AACTCAAACTTTTCAATCT
19607120 AA
1 AA
19607122 ACAGACAAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 4 0.13
19 27 0.87
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (19 bp):
AACTCAAACTTTTCAATCT
Found at i:19607489 original size:43 final size:42
Alignment explanation
Indices: 19607440--19607547 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 42
19607430 CTTAACGACT
* *
19607440 TTTGAAAAATAAATAAGGTTCCTCTAAACAGAGGCTCACA-AC
1 TTTGAAAAATAAATAAGGCTCCTCTAAACAAAGGCTCA-AGAC
* *
19607482 TTCTGAAAAATAAATAAGGCTCTTCTAAACAAAGGTTCAATGAC
1 TT-TGAAAAATAAATAAGGCTCCTCTAAACAAAGGCTCAA-GAC
19607526 TTT-AAAAATAAATAAGGCTCCT
1 TTTGAAAAATAAATAAGGCTCCT
19607548 AAGGGTGTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 21 0.36
43 33 0.57
44 4 0.07
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.27
Consensus pattern (42 bp):
TTTGAAAAATAAATAAGGCTCCTCTAAACAAAGGCTCAAGAC
Found at i:19608233 original size:22 final size:22
Alignment explanation
Indices: 19608208--19608251 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19608198 ATTTTTATGA
19608208 GGAGATTAATT-AAGGTGTTTTT
1 GGAGATT-ATTAAAGGTGTTTTT
*
19608230 GGAGGTTATTAAAGGTGTTTTT
1 GGAGATTATTAAAGGTGTTTTT
19608252 AGGCAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (22 bp):
GGAGATTATTAAAGGTGTTTTT
Found at i:19608802 original size:61 final size:61
Alignment explanation
Indices: 19608721--19608857 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 61
19608711 TTTAATAAGG
19608721 GATTATTTAAGGTGTATTTGGGT-AACAAA-AGCCTTGAATAATC-CCCT-A-AAAAATGAGAGG
1 GATTA-TTAAGGTGTATTT-GGTCAA-AAATA-CCTTGAATAA-CACCCTCATAAAAATGAGAGG
19608781 C
61 C
* * *
19608782 GATTATTAACGGTGTTTTTGGTCAAAAATACCTTGAATAACACCCTCATAAAAATTAGAGGG
1 GATTATTAA-GGTGTATTTGGTCAAAAATACCTTGAATAACACCCTCATAAAAATGAGAGGC
19608844 GATTATTCAAGGTG
1 GATTATT-AAGGTG
19608858 AATATCCTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
59 1 0.02
60 24 0.36
61 17 0.26
62 22 0.33
63 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (61 bp):
GATTATTAAGGTGTATTTGGTCAAAAATACCTTGAATAACACCCTCATAAAAATGAGAGGC
Found at i:19609152 original size:45 final size:44
Alignment explanation
Indices: 19609046--19609412 Score: 263
Period size: 43 Copynumber: 8.5 Consensus size: 44
19609036 TACAACCCTA
* *
19609046 AAGGCTCCTCTAAACAGAGGCTC-ATGACTTTTGATAAATGAAT
1 AAGGCTCCTTTAAACAGAGGCTCAATGACTTTTGAAAAATGAAT
* * * *
19609089 AAAGCTCCTTCAAACAGAGACTCAATGACTTTTTAAAAA-GTAATT
1 AAGGCTCCTTTAAACAGAGGCTCAATGACTTTTGAAAAATG-AA-T
* * *
19609134 AAGGCTCCTTTAAGCAGAGGCTCAATGAC-TTTAAAAAATAAAT
1 AAGGCTCCTTTAAACAGAGGCTCAATGACTTTTGAAAAATGAAT
** * * * *
19609177 AAAACTCTTTTAAATAGAGGCTTAATGAC-TTT-AAAAATAAAT
1 AAGGCTCCTTTAAACAGAGGCTCAATGACTTTTGAAAAATGAAT
* ** * * *
19609219 AAGACTCCTCCAAACAAAGGCTCACA--ATTTTTGATAAATGAAT
1 AAGGCTCCTTTAAACAGAGGCTCA-ATGACTTTTGAAAAATGAAT
* * * * * *
19609262 AAAGCTCCTCTAAACAAAGGCTCAACGAC-TTT-AAAAATAAAAAA
1 AAGGCTCCTTTAAACAGAGGCTCAATGACTTTTGAAAAAT--GAAT
* ** *
19609306 AAGGCTCCTTTAAGCAGAGGCTCAACAAC-TTT-AAAAATAAAT
1 AAGGCTCCTTTAAACAGAGGCTCAATGACTTTTGAAAAATGAAT
* * ** *
19609348 AAGGCTCCTTTAAGCAAAGGCTCAACAAC-TTTGAAAAATAAAT
1 AAGGCTCCTTTAAACAGAGGCTCAATGACTTTTGAAAAATGAAT
* *
19609391 AAGGCTCATTTAAGCAGAGGCT
1 AAGGCTCCTTTAAACAGAGGCT
19609413 TAACAACATT
Statistics
Matches: 268, Mismatches: 44, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.00
42 70 0.26
43 110 0.41
44 61 0.23
45 26 0.10
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.26
Consensus pattern (44 bp):
AAGGCTCCTTTAAACAGAGGCTCAATGACTTTTGAAAAATGAAT
Found at i:19609418 original size:43 final size:42
Alignment explanation
Indices: 19609120--19609435 Score: 292
Period size: 43 Copynumber: 7.4 Consensus size: 42
19609110 TCAATGACTT
* **
19609120 TTTAAAAAGTAATTAAGGCTCCTTTAAGCAGAGGCTCAATGAC
1 TTTAAAAA-TAAATAAGGCTCCTTTAAGCAGAGGCTCAACAAC
** * ** * **
19609163 TTTAAAAAATAAATAAAACTCTTTTAAATAGAGGCTTAATGAC
1 TTT-AAAAATAAATAAGGCTCCTTTAAGCAGAGGCTCAACAAC
* ** * * *
19609206 TTTAAAAATAAATAAGACTCCTCCAAACAAAGGCTC-ACAATT
1 TTTAAAAATAAATAAGGCTCCTTTAAGCAGAGGCTCAACAA-C
* * * * * * *
19609248 TTTGATAAATGAATAAAGCTCCTCTAAACAAAGGCTCAACGAC
1 TTT-AAAAATAAATAAGGCTCCTTTAAGCAGAGGCTCAACAAC
*
19609291 TTTAAAAATAAAAAAAAGGCTCCTTTAAGCAGAGGCTCAACAAC
1 TTTAAAAAT--AAATAAGGCTCCTTTAAGCAGAGGCTCAACAAC
*
19609335 TTTAAAAATAAATAAGGCTCCTTTAAGCAAAGGCTCAACAAC
1 TTTAAAAATAAATAAGGCTCCTTTAAGCAGAGGCTCAACAAC
* *
19609377 TTTGAAAAATAAATAAGGCTCATTTAAGCAGAGGCTTAACAAC
1 TTT-AAAAATAAATAAGGCTCCTTTAAGCAGAGGCTCAACAAC
*
19609420 ATTGAAAAATAAATAA
1 -TTTAAAAATAAATAA
19609436 AACTCCTCAA
Statistics
Matches: 227, Mismatches: 38, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
41 2 0.01
42 68 0.30
43 112 0.49
44 45 0.20
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (42 bp):
TTTAAAAATAAATAAGGCTCCTTTAAGCAGAGGCTCAACAAC
Found at i:19615169 original size:19 final size:21
Alignment explanation
Indices: 19615145--19615186 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
19615135 GTTTAGAGGA
19615145 TAAAAA-AAT-TATTTTTATT
1 TAAAAATAATATATTTTTATT
*
19615164 TAAAAATAATATTTTTTTATT
1 TAAAAATAATATATTTTTATT
19615185 TA
1 TA
19615187 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 3 0.15
21 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TAAAAATAATATATTTTTATT
Found at i:19615253 original size:23 final size:23
Alignment explanation
Indices: 19615202--19615251 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
19615192 TTTAAAAAGA
*
19615202 TTTTTTATTTATCATTTTTTTAC
1 TTTTTTAATTATCATTTTTTTAC
*
19615225 TTTTTTAATTATTA-TTTTTT-C
1 TTTTTTAATTATCATTTTTTTAC
19615246 TTTTTT
1 TTTTTT
19615252 TTTTACTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 6 0.24
23 12 0.48
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTAATTATCATTTTTTTAC
Found at i:19615262 original size:26 final size:24
Alignment explanation
Indices: 19615225--19615281 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 24
19615215 ATTTTTTTAC
19615225 TTTTTTAATTATTATTTTT-TCTTTT
1 TTTTTTAATTA-TATTTTTAT-TTTT
*
19615250 TTTTTTACTTTATATTTTTATTTTT
1 TTTTTTA-ATTATATTTTTATTTTT
19615275 TTATTTT
1 TT-TTTT
19615282 CTCTCTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTAATTATATTTTTATTTTT
Found at i:19615405 original size:19 final size:18
Alignment explanation
Indices: 19615366--19615405 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
19615356 AAAATGGGTT
*
19615366 AAAATAAAATAAAATCCA
1 AAAATAAAATAAAATCAA
*
19615384 AAAATAAAAATAAAATGAA
1 AAAAT-AAAATAAAATCAA
19615403 AAA
1 AAA
19615406 GGAAAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAATAAAATCAA
Found at i:19615411 original size:19 final size:19
Alignment explanation
Indices: 19615371--19615412 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
19615361 GGGTTAAAAT
*
19615371 AAAATAAAATCCAAAAATA
1 AAAATAAAATCCAAAAAGA
*
19615390 AAAATAAAAT-GAAAAAGGA
1 AAAATAAAATCCAAAAA-GA
19615409 AAAA
1 AAAA
19615413 CTTGTGATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAATAAAATCCAAAAAGA
Found at i:19616276 original size:12 final size:11
Alignment explanation
Indices: 19616248--19616275 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
19616238 GTAAAGAAGG
19616248 AAAAAAGAAAA
1 AAAAAAGAAAA
19616259 AAAAAAGAAAA
1 AAAAAAGAAAA
19616270 AAAAAA
1 AAAAAA
19616276 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:19618105 original size:57 final size:56
Alignment explanation
Indices: 19617988--19618092 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 56
19617978 CCAAGTCACC
** ** *
19617988 CTTTTAGGTTTTTGACTTAAACTTCTCTCTTTTTTTTTTTTTGGGTTCAAATTGCC
1 CTTTTAGGTTTTTGACTTAAACTTCTCTCTTTTTTTTTTTTTGGAATCAAAAAGCA
* * *
19618044 CTTTTAGGTTTTTGATTTGAACTT-TCTCTTTTTTTTTTTTTTGAATCAA
1 CTTTTAGGTTTTTGACTTAAACTTCTCTCTTTTTTTTTTTTTGGAATCAA
19618093 GCAAAGTACT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 22 0.50
56 22 0.50
ACGTcount: A:0.15, C:0.13, G:0.11, T:0.60
Consensus pattern (56 bp):
CTTTTAGGTTTTTGACTTAAACTTCTCTCTTTTTTTTTTTTTGGAATCAAAAAGCA
Found at i:19626460 original size:16 final size:17
Alignment explanation
Indices: 19626439--19626476 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
19626429 TGGGTTAAAT
*
19626439 AAAATAAAAT-TAAAAA
1 AAAATAAAATAGAAAAA
19626455 AAAATAAAATAGAAAAA
1 AAAATAAAATAGAAAAA
19626472 AAAAT
1 AAAAT
19626477 CTACGATCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAGAAAAA
Found at i:19626474 original size:21 final size:21
Alignment explanation
Indices: 19626435--19626475 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19626425 AAAATGGGTT
*
19626435 AAATAAAATAAAATTAAAAAA
1 AAATAAAATAAAATAAAAAAA
*
19626456 AAATAAAATAGAA-AAAAAAA
1 AAATAAAATAAAATAAAAAAA
19626476 TCTACGATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (21 bp):
AAATAAAATAAAATAAAAAAA
Found at i:19627317 original size:6 final size:6
Alignment explanation
Indices: 19627308--19627335 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19627298 TAAAAATAAA
19627308 AATATT AATATT AATATT AATATT AATA
1 AATATT AATATT AATATT AATATT AATA
19627336 ATGGTAACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATATT
Found at i:19630362 original size:48 final size:48
Alignment explanation
Indices: 19630257--19630354 Score: 146
Period size: 48 Copynumber: 2.1 Consensus size: 48
19630247 ATTTTACAAG
* *
19630257 TTTTATTTCTAAATTTTTCACCATTTGGGTCAATTTAGAAAATTTCTT
1 TTTTATTTCTAAATTTTCCACCATTTAGGTCAATTTAGAAAATTTCTT
* *
19630305 TTTGATTTCTAAATTTTCCACCATTTAGGTCTATTTAG-AAA-TTCTT
1 TTTTATTTCTAAATTTTCCACCATTTAGGTCAATTTAGAAAATTTCTT
19630351 TTTT
1 TTTT
19630355 TTTTTTCTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
46 8 0.18
47 3 0.07
48 34 0.76
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (48 bp):
TTTTATTTCTAAATTTTCCACCATTTAGGTCAATTTAGAAAATTTCTT
Found at i:19630993 original size:21 final size:19
Alignment explanation
Indices: 19630967--19631021 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
19630957 ATACTTTAAA
19630967 AATAAATAAACAAATAAAAT
1 AATAAATAAA-AAATAAAAT
*
19630987 AACTAAATAATTAAATAAAAT
1 AA-TAAATAA-AAAATAAAAT
19631008 AA-AAATAAAAAATA
1 AATAAATAAAAAATA
19631022 CCAAAAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 5 0.16
19 6 0.19
20 2 0.06
21 18 0.58
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
AATAAATAAAAAATAAAAT
Found at i:19631774 original size:19 final size:19
Alignment explanation
Indices: 19631752--19631792 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
19631742 ATTTTAAGTA
19631752 CAACTCAAACTTTCCAATC
1 CAACTCAAACTTTCCAATC
* *
19631771 CAACTTAAACTTTTCAATC
1 CAACTCAAACTTTCCAATC
19631790 CAA
1 CAA
19631793 ACAGACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (19 bp):
CAACTCAAACTTTCCAATC
Found at i:19634674 original size:17 final size:19
Alignment explanation
Indices: 19634644--19634679 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
19634634 ATCAATAGGT
19634644 ACAAGAAAATATAAGCAAA
1 ACAAGAAAATATAAGCAAA
19634663 ACAA-AAAA-ATAAGCAAA
1 ACAAGAAAATATAAGCAAA
19634680 TGAATAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.72, C:0.11, G:0.08, T:0.08
Consensus pattern (19 bp):
ACAAGAAAATATAAGCAAA
Found at i:19639309 original size:3 final size:3
Alignment explanation
Indices: 19639303--19639367 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
19639293 TGCTTAATTG
* * * * *
19639303 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA AAA CAA CAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
19639351 TAA TAA TTAT TAA TAA T
1 TAA TAA -TAA TAA TAA T
19639368 TAATTATTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 53 0.96
4 2 0.04
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:19639728 original size:25 final size:24
Alignment explanation
Indices: 19639700--19639747 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19639690 TTTACTTGAT
*
19639700 TGATTTTTTATGATTTTTTTATTTA
1 TGATTTTTT-TGAGTTTTTTATTTA
*
19639725 TGATTTTTTTTAGTTTTTTATTT
1 TGATTTTTTTGAGTTTTTTATTT
19639748 CTTTAACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (24 bp):
TGATTTTTTTGAGTTTTTTATTTA
Found at i:19639736 original size:16 final size:15
Alignment explanation
Indices: 19639706--19639734 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19639696 TGATTGATTT
19639706 TTTATGATTTTTTTA
1 TTTATGATTTTTTTA
19639721 TTTATGATTTTTTT
1 TTTATGATTTTTTT
19639735 TAGTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTATGATTTTTTTA
Found at i:19640092 original size:22 final size:22
Alignment explanation
Indices: 19640061--19640127 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
19640051 CTTAGAGATT
* *
19640061 TTAGAGATTATGCTCAAAGGTC
1 TTAGAAATTATGCCCAAAGGTC
* *
19640083 TTGGAAATTATGCCCAAAGATC
1 TTAGAAATTATGCCCAAAGGTC
* *
19640105 TTAGAGATTATGCCCATAGGTC
1 TTAGAAATTATGCCCAAAGGTC
19640127 T
1 T
19640128 CACAAATCTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (22 bp):
TTAGAAATTATGCCCAAAGGTC
Found at i:19640358 original size:126 final size:126
Alignment explanation
Indices: 19640129--19640358 Score: 318
Period size: 126 Copynumber: 1.8 Consensus size: 126
19640119 CATAGGTCTC
* * * **
19640129 ACAAATCTCAAAATCTTTGAATGCTCCTCGTAACAGAGGTGTTGAAACTTTAAAAATTTAAAATA
1 ACAAATATCAAAATCTTTGAATACTCCTCGTAACAAAGGCATTGAAACTTTAAAAATTTAAAATA
**
19640194 TTTTGTCTCAAGGTCTTAAAAATTGTGGTTGAAAGTCTTAGAGATTTTGCCTGAGGGTTTT
66 TTTTGTCTCAAGGTCTTAAAAATTGTGCCTGAAAGTCTTAGAGATTTTGCCTGAGGGTTTT
* * *
19640255 ACAAATATCAAAATCTTTGAATACTCCTCGTAATAAATGCATTGAAACTTTGAAAATTTAAAATA
1 ACAAATATCAAAATCTTTGAATACTCCTCGTAACAAAGGCATTGAAACTTTAAAAATTTAAAATA
* ** *
19640320 TTTTG-CTTGAAGGTCTTAAGGATTGTGCCTGAAGGTCTT
66 TTTTGTC-TCAAGGTCTTAAAAATTGTGCCTGAAAGTCTT
19640359 TGAAATATGC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
125 1 0.01
126 88 0.99
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (126 bp):
ACAAATATCAAAATCTTTGAATACTCCTCGTAACAAAGGCATTGAAACTTTAAAAATTTAAAATA
TTTTGTCTCAAGGTCTTAAAAATTGTGCCTGAAAGTCTTAGAGATTTTGCCTGAGGGTTTT
Found at i:19642633 original size:26 final size:26
Alignment explanation
Indices: 19642592--19642661 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 26
19642582 GAAGTATTTA
* *
19642592 AAATAAATAAATAATAATGATAATAAATG
1 AAATAAA-AAATAAAAAT-A-AAAAAATG
19642621 AAATTAAAAAATAAAAATAAAAAAATG
1 AAA-TAAAAAATAAAAATAAAAAAATG
*
19642648 AAATAGAAAATAAA
1 AAATAAAAAATAAA
19642662 TAAGAAACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.27
27 10 0.27
28 1 0.03
29 12 0.32
30 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (26 bp):
AAATAAAAAATAAAAATAAAAAAATG
Found at i:19642687 original size:27 final size:27
Alignment explanation
Indices: 19642643--19642723 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
19642633 AAAAATAAAA
* *
19642643 AAATGAAATAGAAAATAAATAAGAAACT
1 AAATGAAAAATAAAATAAATAA-AAACT
** *
19642671 TTA-GGAAAATAAAATAAATAAAAATCT
1 AAATGAAAAATAAAATAAATAAAAA-CT
19642698 AAATGAAAAATAAAATAAAATAAAAA
1 AAATGAAAAATAAAAT-AAATAAAAA
19642724 ACTACAATCA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
26 3 0.07
27 18 0.43
28 12 0.29
29 9 0.21
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (27 bp):
AAATGAAAAATAAAATAAATAAAAACT
Found at i:19643110 original size:20 final size:20
Alignment explanation
Indices: 19643087--19643125 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19643077 TCCTAAATCC
19643087 AGAAAAACCTAATTTTTTTT
1 AGAAAAACCTAATTTTTTTT
*
19643107 AGAAAAACCTAGTTTTTTT
1 AGAAAAACCTAATTTTTTT
19643126 CAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (20 bp):
AGAAAAACCTAATTTTTTTT
Found at i:19643253 original size:20 final size:22
Alignment explanation
Indices: 19643228--19643276 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
19643218 ATTGGTTCCC
*
19643228 AAAAAACAAACCAA-A-TCTAG
1 AAAAAAAAAACCAAGACTCTAG
19643248 AAAAAAAAAACCAAGACTCTAG
1 AAAAAAAAAACCAAGACTCTAG
*
19643270 AACAAAA
1 AAAAAAA
19643277 TCCAAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.52
21 1 0.04
22 11 0.44
ACGTcount: A:0.67, C:0.18, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAAAAAAAACCAAGACTCTAG
Found at i:19643593 original size:3 final size:3
Alignment explanation
Indices: 19643585--19643646 Score: 88
Period size: 3 Copynumber: 20.0 Consensus size: 3
19643575 AAATTAAACC
19643585 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
19643631 TGT AAAT AAT AAT AAT
1 AAT -AAT AAT AAT AAT
19643647 TTGGGGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
3 49 0.92
4 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:19643625 original size:28 final size:28
Alignment explanation
Indices: 19643585--19643646 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
19643575 AAATTAAACC
19643585 AATAATAATAATAATAAATAATAATAAT
1 AATAATAATAATAATAAATAATAATAAT
**
19643613 AATAATAATAATAAT-AATTGTAAATAAT
1 AATAATAATAATAATAAATAAT-AATAAT
19643641 AATAAT
1 AATAAT
19643647 TTGGGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
AATAATAATAATAATAAATAATAATAAT
Found at i:19644113 original size:17 final size:18
Alignment explanation
Indices: 19644091--19644124 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19644081 GAACCGTAAG
19644091 TCTAAAAAAT-AAAATGA
1 TCTAAAAAATCAAAATGA
*
19644108 TCTAAAAGATCAAAATG
1 TCTAAAAAATCAAAATG
19644125 TGTGACCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (18 bp):
TCTAAAAAATCAAAATGA
Found at i:19644322 original size:65 final size:64
Alignment explanation
Indices: 19644113--19645041 Score: 456
Period size: 65 Copynumber: 14.4 Consensus size: 64
19644103 AATGATCTAA
* * * * * ** *
19644113 AAGATCAAAATGTGTGACCAAGATTGAACCACAAGTCTAAAAATAAAATGATCTAAACTAAGTC
1 AAGATCAAAATGAGTGACGAGGATTGAACCATAGGTCTAAAAATAAAATGATCTGGACTAAGCC
* * * * * *
19644177 GAGGTCAAAATGAGTGACTG-GGATTGAAACGCA-A-GTCTGAAAATAAAATGATTTGGATTGAG
1 AAGATCAAAATGAGTGAC-GAGGATTG-AAC-CATAGGTCTAAAAATAAAATGATCTGGACTAAG
*
19644239 CG
63 CC
* * *
19644241 AAGTTCAAAACGAGTGACGAGGATTGAACCATAGGTCAGAAAAATAAAATGATCTGGACTAAGCC
1 AAGATCAAAATGAGTGACGAGGATTGAACCATAGGTC-TAAAAATAAAATGATCTGGACTAAGCC
* ** * * * * **
19644306 AAGATCACAATGAGTGATTAGGATTGAACCATAGGTCTAAAAATAAAATAATCTCGATTGAGTT
1 AAGATCAAAATGAGTGACGAGGATTGAACCATAGGTCTAAAAATAAAATGATCTGGACTAAGCC
* * * * * * *
19644370 GAGATCGAAATGAGTGATCG-GGATTGAATCGTAGGTTTAAAAAATAAAATAATTTGGA-TCAAG
1 AAGATCAAAATGAGTGA-CGAGGATTGAACCATAGGTCT-AAAAATAAAATGATCTGGACT-AAG
*
19644433 CT
63 CC
* * * ** *
19644435 GAGACCAAAATGAGTGAC-AGGATTG-------GTTAAAAAAATAAAATGATTTGGA-TAGAGCC
1 AAGATCAAAATGAGTGACGAGGATTGAACCATAGGTCTAAAAATAAAATGATCTGGACTA-AGCC
* * * * * * *
19644491 AAAATTAAAATGAGTGATC-AAGATTGAACCTACAAGTCTAAAAATAAAATGATCTAGACTGAGC
1 AAGATCAAAATGAGTGA-CGAGGATTGAACC-ATAGGTCTAAAAATAAAATGATCTGGACTAAGC
*
19644555 A
64 C
* * * * * * *
19644556 AAGATCGAAACGAGTGATTGA-GATAGAACCGTAGGTTTAAAAAATAAAATGATTTGGACTAAGC
1 AAGATCAAAATGAGTGA-CGAGGATTGAACCATAGGTCT-AAAAATAAAATGATCTGGACTAAGC
19644620 C
64 C
* * * *
19644621 AATATCAAAATGAGTGACTG-GGATTGAACCGTAGGTCTAAAAATAAAATGATCTAGA-TGGAGC
1 AAGATCAAAATGAGTGAC-GAGGATTGAACCATAGGTCTAAAAATAAAATGATCTGGACT-AAGC
19644684 C
64 C
* * * * * * *
19644685 AGGATCAAAACGAGTGACCAAGATTGAA-C-TGCGAGTCTAAAAATAAAATGATTTAGA-TCAAG
1 AAGATCAAAATGAGTGACGAGGATTGAACCAT-AG-GTCTAAAAATAAAATGATCTGGACT-AAG
*
19644747 CT
63 CC
* * * * **
19644749 AAGATTGAAAATGAGTGATCGA-GATTGAATCGC-T-GGTTTGAAAAATAAAATGATTTGCACCG
1 AAGA-TCAAAATGAGTGA-CGAGGATTGAA-C-CATAGGTCT-AAAAATAAAATGATCTGGACTA
19644811 AGCC
61 AGCC
* ** * * * * * *
19644815 AAGATCGAAGATGAGCAACCAAGATTGAACCACAGGTTTAAAAAGTAAAATGATCTGGACCAAGT
1 AAGATC-AAAATGAGTGACGAGGATTGAACCATAGGTCTAAAAA-TAAAATGATCTGGACTAAGC
*
19644880 T
64 C
* * * * *
19644881 GAGATCAAAGATGAATGAACGA-AATTGAATCATAGGTCTGAAAAATAAAATGATCAGGACTAAG
1 AAGATCAAA-ATGAGTG-ACGAGGATTGAACCATAGGTCT-AAAAATAAAATGATCTGGACTAAG
*
19644945 CT
63 CC
* * * * * * * *
19644947 GAGATAAAAAATGAGTGATTG-TGATTGAA-C-TACGAGTCTAAAAAATAAAATGATTTAGATTG
1 AAGAT-CAAAATGAGTGA-CGAGGATTGAACCATA-G-GTCT-AAAAATAAAATGATCTGGACTA
19645009 AGCC
61 AGCC
* * *
19645013 AAGATCAAAGATGAGCGACCAAGATTGAA
1 AAGATCAAA-ATGAGTGACGAGGATTGAA
19645042 TTACAGATCT
Statistics
Matches: 663, Mismatches: 150, Indels: 102
0.72 0.16 0.11
Matches are distributed among these distances:
55 1 0.00
56 35 0.05
57 9 0.01
62 3 0.00
63 8 0.01
64 202 0.30
65 225 0.34
66 167 0.25
67 11 0.02
68 2 0.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (64 bp):
AAGATCAAAATGAGTGACGAGGATTGAACCATAGGTCTAAAAATAAAATGATCTGGACTAAGCC
Found at i:19644385 original size:129 final size:128
Alignment explanation
Indices: 19644113--19644777 Score: 335
Period size: 129 Copynumber: 5.2 Consensus size: 128
19644103 AATGATCTAA
* * * * * * * *
19644113 AAGATCAAAATGTGTGACCAAGATTGAACCACAAGTCTAAAAATAAAATGATCTAAACTAAGTCG
1 AAGATCAAAATGAGTGACGAGGATTGAACCATAGGTCAAAAAATAAAATGATCTAAACTAAGCCA
* * * * * *
19644178 AGGTCAAAATGAGTGACTGGGATTGAAACGCAAGTCTGAAAATAAAATGATTTGGATTGAGCG
66 AGATCAAAATGAGTGACTAGGATTGAAACGCAAGTCTAAAAATAAAATAATCTCGATTGAGCG
* * **
19644241 AAGTTCAAAACGAGTGACGAGGATTGAACCATAGGTCAGAAAAATAAAATGATCTGGACTAAGCC
1 AAGATCAAAATGAGTGACGAGGATTGAACCATAGGTCA-AAAAATAAAATGATCTAAACTAAGCC
* *
19644306 AAGATCACAATGAGTGATTAGGATTG-AAC-CATAGGTCTAAAAATAAAATAATCTCGATTGAGT
65 AAGATCAAAATGAGTGACTAGGATTGAAACGCA-A-GTCTAAAAATAAAATAATCTCGATTGAG-
*
19644369 TG
127 CG
* * * * * * **
19644371 -AGATCGAAATGAGTGATCG-GGATTGAATCGTAGGTTTAAAAAATAAAATAATTTGGA-TCAAG
1 AAGATCAAAATGAGTGA-CGAGGATTGAACCATAGG-TCAAAAAATAAAATGATCTAAACT-AAG
** * * * * * *
19644433 CTGAGACCAAAATGAGTGAC-AGGATTG----GTTAA----AAAAATAAAATGATTTGGATAGAG
63 CCAAGATCAAAATGAGTGACTAGGATTGAAACG-CAAGTCTAAAAATAAAATAATCTCGATTGAG
*
19644489 CC
127 CG
* * * * * * * *
19644491 AAAATTAAAATGAGTGATC-AAGATTGAACCTACAAGTCTAAAAATAAAATGATCTAGACTGAGC
1 AAGATCAAAATGAGTGA-CGAGGATTGAACC-ATAGGTCAAAAAATAAAATGATCTAAACTAAGC
* * * * * * * * * * * * * *
19644555 AAAGATCGAAACGAGTGA-TTGAGATAGAACCGTAGGTTTAAAAAATAAAATGATTTGGACTAAG
64 CAAGATCAAAATGAGTGACTAG-GATTGAAACGCAAGTCT-AAAAATAAAATAATCTCGATTGAG
*
19644619 CC
127 CG
* * * * *
19644621 AATATCAAAATGAGTGACTG-GGATTGAACCGTAGGTCTAAAAATAAAATGATCTAGA-TGGAGC
1 AAGATCAAAATGAGTGAC-GAGGATTGAACCATAGGTCAAAAAATAAAATGATCTAAACT-AAGC
* * * * * * * * **
19644684 CAGGATCAAAACGAGTGACCAAGATTG-AACTGCGAGTCTAAAAATAAAATGATTTAGATCAAGC
64 CAAGATCAAAATGAGTGACTAGGATTGAAAC-GCAAGTCTAAAAATAAAATAATCTCGATTGAGC
*
19644748 T
128 G
*
19644749 AAGATTGAAAATGAGTGATCGA-GATTGAA
1 AAGA-TCAAAATGAGTGA-CGAGGATTGAA
19644778 TCGCTGGTTT
Statistics
Matches: 415, Mismatches: 90, Indels: 63
0.73 0.16 0.11
Matches are distributed among these distances:
121 77 0.19
122 7 0.02
125 2 0.00
126 2 0.00
127 3 0.01
128 70 0.17
129 201 0.48
130 53 0.13
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.23
Consensus pattern (128 bp):
AAGATCAAAATGAGTGACGAGGATTGAACCATAGGTCAAAAAATAAAATGATCTAAACTAAGCCA
AGATCAAAATGAGTGACTAGGATTGAAACGCAAGTCTAAAAATAAAATAATCTCGATTGAGCG
Found at i:19644665 original size:250 final size:250
Alignment explanation
Indices: 19644216--19644669 Score: 553
Period size: 250 Copynumber: 1.8 Consensus size: 250
19644206 CGCAAGTCTG
* * * * * *
19644216 AAAATAAAATGATTTGGATTGAGCGAAGTTCAAAACGAGTGACGAGGATTGAACCATAGGTCAGA
1 AAAATAAAATGATTTGGATAGAGCAAAATTCAAAACGAGTGACGAAGATTGAACCACAAGTCAGA
* * * *
19644281 AAAATAAAATGATCTGGACTAAGCCAAGATCACAATGAGTGATTAGGATTGAACCATAGGTCTAA
66 AAAATAAAATGATCTAGACTAAGCAAAGATCACAACGAGTGATTAGGATAGAACCATAGGTCTAA
* * *** * * *
19644346 AAATAAAATAATCTCGATTGAGTTGAGATCGAAATGAGTGATCGGGATTGAATCGTAGGTTTAAA
131 AAATAAAATAATCTCGACTAAGCCAAGATCAAAATGAGTGATCGGGATTGAACCGTAGGTCTAAA
19644411 AAATAAAATAATTTGGATCAAGCTGAGACCAAAATGAGTGACAGGATTGGTTAAA
196 AAATAAAATAATTTGGATCAAGCTGAGACCAAAATGAGTGACAGGATTGGTTAAA
*
19644466 AAAATAAAATGATTTGGATAGAGCCAAAATT-AAAATGAGTGATC-AAGATTGAACCTACAAGTC
1 AAAATAAAATGATTTGGATAGAG-CAAAATTCAAAACGAGTGA-CGAAGATTGAACC-ACAAGTC
* * *
19644529 -TAAAAATAAAATGATCTAGACTGAGCAAAGATCGA-AACGAGTGATT-GAGATAGAACCGTAGG
63 AGAAAAATAAAATGATCTAGACTAAGCAAAGATC-ACAACGAGTGATTAG-GATAGAACCATAGG
* * * * *
19644591 TTTAAAAAATAAAATGATTTGGACTAAGCCAATATCAAAATGAGTGA-CTGGGATTGAACCGTAG
126 TCT-AAAAATAAAATAATCTCGACTAAGCCAAGATCAAAATGAGTGATC-GGGATTGAACCGTAG
19644655 GTCT-AAAAATAAAAT
189 GTCTAAAAAATAAAAT
19644670 GATCTAGATG
Statistics
Matches: 170, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
249 1 0.01
250 107 0.63
251 62 0.36
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.24
Consensus pattern (250 bp):
AAAATAAAATGATTTGGATAGAGCAAAATTCAAAACGAGTGACGAAGATTGAACCACAAGTCAGA
AAAATAAAATGATCTAGACTAAGCAAAGATCACAACGAGTGATTAGGATAGAACCATAGGTCTAA
AAATAAAATAATCTCGACTAAGCCAAGATCAAAATGAGTGATCGGGATTGAACCGTAGGTCTAAA
AAATAAAATAATTTGGATCAAGCTGAGACCAAAATGAGTGACAGGATTGGTTAAA
Found at i:19645053 original size:66 final size:65
Alignment explanation
Indices: 19644464--19645063 Score: 327
Period size: 66 Copynumber: 9.2 Consensus size: 65
19644454 GGATTGGTTA
* * * * * *
19644464 AAAAAATAAAATGATTTGGA-TAGAGCCAAAATTAAAATGAGTGATCAAGATTGAACCTACAAGT
1 AAAAAATAAAATGATTTAGACCA-AGCCAAGATCAAAATGAGTGACCAAGATTGAACC-ACAGGT
19644528 CT
64 CT
* ** * * * *** * ** *
19644530 -AAAAATAAAATGATCTAGACTGAGCAAAGATCGAAACGAGTGATTGAGATAGAACCGTAGGTTT
1 AAAAAATAAAATGATTTAGACCAAGCCAAGATCAAAATGAGTGACCAAGATTGAACCACAGGTCT
* * * *** **
19644594 AAAAAATAAAATGATTTGGACTAAGCCAATATCAAAATGAGTGACTGGGATTGAACCGTAGGTCT
1 AAAAAATAAAATGATTTAGACCAAGCCAAGATCAAAATGAGTGACCAAGATTGAACCACAGGTCT
* *** * * **
19644659 -AAAAATAAAATGATCTAGATGGAGCCAGGATCAAAACGAGTGACCAAGATTGAACTGC-GAGTC
1 AAAAAATAAAATGATTTAGACCAAGCCAAGATCAAAATGAGTGACCAAGATTGAACCACAG-GTC
19644722 T
65 T
* * * * * * * * *
19644723 -AAAAATAAAATGATTTAGATCAAGCTAAGATTGAAAATGAGTGATCGAGATTGAATCGCTGGTT
1 AAAAAATAAAATGATTTAGACCAAGCCAAGA-TCAAAATGAGTGACCAAGATTGAACCACAGGTC
19644787 T
65 T
* * * **
19644788 GAAAAATAAAATGATTT-GCACCGAGCCAAGATCGAAGATGAGCAACCAAGATTGAACCACAGGT
1 AAAAAATAAAATGATTTAG-ACCAAGCCAAGATC-AAAATGAGTGACCAAGATTGAACCACAGGT
*
19644852 TT
64 CT
* * * *** * * * *
19644854 AAAAAGTAAAATGATCTGGACCAAGTTGAGATCAAAGATGAATGAACGAA-ATTGAATCATAGGT
1 AAAAAATAAAATGATTTAGACCAAGCCAAGATCAAA-ATGAGTG-ACCAAGATTGAACCACAGGT
19644918 CT
64 CT
* * * ** * **** *
19644920 GAAAAATAAAATGA-TCAGGACTAAGCTGAGATAAAAAATGAGTGATTGTGATTGAACTAC-GAG
1 AAAAAATAAAATGATTTA-GACCAAGCCAAGAT-CAAAATGAGTGACCAAGATTGAACCACAG-G
19644983 TCT
63 TCT
*** * ** *
19644986 AAAAAATAAAATGATTTAGATTGAGCCAAGATCAAAGATGAGCGACCAAGATTGAATTACAGATC
1 AAAAAATAAAATGATTTAGACCAAGCCAAGATCAAA-ATGAGTGACCAAGATTGAACCACAGGTC
19645051 T
65 T
19645052 AAAAAATAAAAT
1 AAAAAATAAAAT
19645064 TCAAATCTTT
Statistics
Matches: 408, Mismatches: 108, Indels: 36
0.74 0.20 0.07
Matches are distributed among these distances:
63 1 0.00
64 78 0.19
65 130 0.32
66 188 0.46
67 11 0.03
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.23
Consensus pattern (65 bp):
AAAAAATAAAATGATTTAGACCAAGCCAAGATCAAAATGAGTGACCAAGATTGAACCACAGGTCT
Found at i:19645265 original size:17 final size:17
Alignment explanation
Indices: 19645239--19645282 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
19645229 CCAAGTTTCA
* *
19645239 CAAGAGTTTTAGGTTTG
1 CAAGAATTTTAGGTTCG
*
19645256 TAAGAATTTTAGGTTCG
1 CAAGAATTTTAGGTTCG
19645273 CAAGAATTTT
1 CAAGAATTTT
19645283 TATCATTGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (17 bp):
CAAGAATTTTAGGTTCG
Found at i:19646802 original size:18 final size:18
Alignment explanation
Indices: 19646779--19646818 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
19646769 CCCATCAATT
*
19646779 TTTTCTTTATT-TTTTTTA
1 TTTTCTTT-TTATTTTGTA
19646797 TTTTCTTTTTATTTTGTA
1 TTTTCTTTTTATTTTGTA
19646815 TTTT
1 TTTT
19646819 TTTCATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTATTTTGTA
Found at i:19650653 original size:3 final size:3
Alignment explanation
Indices: 19650639--19650668 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
19650629 AGAAACATTT
19650639 TTA TTA TATA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT
19650669 TATAAATAAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19650757 original size:12 final size:12
Alignment explanation
Indices: 19650742--19650781 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
19650732 TAAAAAAATC
19650742 TAAAAAATAAAA
1 TAAAAAATAAAA
19650754 TAAAAAATAAAA
1 TAAAAAATAAAA
* * *
19650766 TGAAATAGAAAA
1 TAAAAAATAAAA
19650778 TAAA
1 TAAA
19650782 TAAAAATGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:19650765 original size:17 final size:17
Alignment explanation
Indices: 19650745--19650786 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
19650735 AAAAATCTAA
19650745 AAAATAAAATAAAAAAT
1 AAAATAAAATAAAAAAT
* *
19650762 AAAATGAAATAGAAAAT
1 AAAATAAAATAAAAAAT
19650779 -AAATAAAA
1 AAAATAAAA
19650787 ATGGAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAAAAT
Found at i:19650799 original size:23 final size:21
Alignment explanation
Indices: 19650758--19650804 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
19650748 ATAAAATAAA
19650758 AAATAAAATGAAATAGAAAAT
1 AAATAAAATGAAATAGAAAAT
* *
19650779 AAATAAAAATGGAAATGGAAATT
1 AAAT-AAAAT-GAAATAGAAAAT
19650802 AAA
1 AAA
19650805 ATGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 5 0.23
23 13 0.59
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (21 bp):
AAATAAAATGAAATAGAAAAT
Found at i:19651695 original size:3 final size:3
Alignment explanation
Indices: 19651687--19651732 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
19651677 AAATTAAACC
19651687 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19651733 CAACAATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19652120 original size:5 final size:5
Alignment explanation
Indices: 19652110--19652134 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19652100 TTGCTTCTTT
19652110 TTTTG TTTTG TTTTG TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG
19652135 GAAACATCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:19661671 original size:3 final size:3
Alignment explanation
Indices: 19661665--19661730 Score: 105
Period size: 3 Copynumber: 22.0 Consensus size: 3
19661655 TGCTTAATTG
* * *
19661665 TAA TAA TAA CAA TAA TAA TAA TAA CAA TAA TGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19661713 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
19661731 ATTTATTTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:19663451 original size:33 final size:34
Alignment explanation
Indices: 19663397--19663462 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
19663387 AAAAAAATCT
*
19663397 AATAAATAAAATAAATAAG-AAAATGAAATAAAA
1 AATAAATAAAATAAATAAGAAAAATAAAATAAAA
* *
19663430 AATAAATAAGAA-AATTTAGAAAAATAAAATAAA
1 AATAAATAA-AATAAATAAGAAAAATAAAATAAA
19663463 TAAAAATGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (34 bp):
AATAAATAAAATAAATAAGAAAAATAAAATAAAA
Done.