Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, 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: 7441454
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 92215 characters in sequence are not A, C, G, or T
File 10 of 18
Found at i:4085235 original size:41 final size:40
Alignment explanation
Indices: 4085153--4085235 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 40
4085143 CAATCGCGCG
* *
4085153 ATCAGGTGAACGACCGCGGAACCCCCAATTCCCTGACAAA
1 ATCAGGTGAACGACCACGCAACCCCCAATTCCCTGACAAA
*
4085193 ATCAGGTGAACGACCACGCAACTCCCCGATTCCCTGACAAA
1 ATCAGGTGAACGACCACGCAAC-CCCCAATTCCCTGACAAA
4085234 AT
1 AT
4085236 TGTGTATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 20 0.51
41 19 0.49
ACGTcount: A:0.33, C:0.35, G:0.18, T:0.14
Consensus pattern (40 bp):
ATCAGGTGAACGACCACGCAACCCCCAATTCCCTGACAAA
Found at i:4092182 original size:80 final size:79
Alignment explanation
Indices: 4092064--4092285 Score: 264
Period size: 80 Copynumber: 2.8 Consensus size: 79
4092054 AACTATCTTT
* * * * * *
4092064 ATGCTTAGCCCATAGTGTATACGAAATTCTCAACACATACATCTAATGGTATACATTTCATAATC
1 ATGCTTAGCCCATAATGTACATGAAATTCTCAACACATACATCTCATGGAATACATGTCATAATC
4092129 TCATAATGCACTCCC
66 TCATAATGCA-TCCC
* * * *
4092144 ATGCTTAGGCCATAATGTACATGACATACTCAACACATACATCTCATGGCATACATGTCATAATC
1 ATGCTTAGCCCATAATGTACATGAAATTCTCAACACATACATCTCATGGAATACATGTCATAATC
* * *
4092209 TTATAATTCATCTC
66 TCATAATGCATCCC
* * * * * *
4092223 ACGCTTAGTCCATATTGTACATGATATTCTTAACACATACATCTCATGGAACACATGTCATAA
1 ATGCTTAGCCCATAATGTACATGAAATTCTCAACACATACATCTCATGGAATACATGTCATAA
4092286 CTTCATAGAT
Statistics
Matches: 122, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 58 0.48
80 64 0.52
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (79 bp):
ATGCTTAGCCCATAATGTACATGAAATTCTCAACACATACATCTCATGGAATACATGTCATAATC
TCATAATGCATCCC
Found at i:4102015 original size:15 final size:15
Alignment explanation
Indices: 4101995--4102026 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4101985 ATTATAATAG
4101995 TACTACTAGTATATT
1 TACTACTAGTATATT
*
4102010 TACTACTATTATATT
1 TACTACTAGTATATT
4102025 TA
1 TA
4102027 ATAACACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.12, G:0.03, T:0.50
Consensus pattern (15 bp):
TACTACTAGTATATT
Found at i:4102995 original size:30 final size:31
Alignment explanation
Indices: 4102931--4103000 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
4102921 TATAAACTTT
* *
4102931 TTTTAAAAAAAATAGGGGTAAAATCATAAAA
1 TTTTAAAACAAATAAGGGTAAAATCATAAAA
* * *
4102962 TTTTAAAACAAGTAAGGG-AAAATTATAAGA
1 TTTTAAAACAAATAAGGGTAAAATCATAAAA
4102992 TTTTAAAAC
1 TTTTAAAAC
4103001 TTTGGGTGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 19 0.56
31 15 0.44
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (31 bp):
TTTTAAAACAAATAAGGGTAAAATCATAAAA
Found at i:4106100 original size:15 final size:14
Alignment explanation
Indices: 4106080--4106134 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
4106070 ATTCCAATGC
4106080 AATGTGATTACAGAT
1 AATGTGATTACA-AT
*
4106095 AATGTGATTGCAAGT
1 AATGTGATTACAA-T
* *
4106110 AATGTGATTGCAAAC
1 AATGTGATTAC-AAT
4106125 AATGTGATTA
1 AATGTGATTA
4106135 TAGGGAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.03
15 32 0.91
16 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (14 bp):
AATGTGATTACAAT
Found at i:4106347 original size:60 final size:58
Alignment explanation
Indices: 4106283--4106457 Score: 179
Period size: 55 Copynumber: 3.1 Consensus size: 58
4106273 AAAATACAAG
4106283 TTAATATATTTATTTTTTTTATTATTAATTTTTATATAATATCCTTTCTTAAATATATTT
1 TTAATATATTTA-TTTTTTTATTATTAATTTTTATATAATAT-CTTTCTTAAATATATTT
* * * * *
4106343 TTAATGTCATATATTTTTTTA-T-TT-A-TTAT-TATAATAT-TTTC-T-ATTTTATTT
1 TTAATAT-ATTTATTTTTTTATTATTAATTTTTATATAATATCTTTCTTAAATATATTT
* *
4106394 TTAATATATTTATATTTATATTATTAATTTTTATATAATATCATATT-TTAAATATATTT
1 TTAATATATTTATTTTTTTATTATTAATTTTTATATAATATC-T-TTCTTAAATATATTT
4106453 TTAAT
1 TTAAT
4106458 GTCATATATT
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
50 10 0.11
51 14 0.15
52 3 0.03
53 5 0.05
54 3 0.03
55 16 0.17
56 3 0.03
57 2 0.02
58 5 0.05
59 13 0.14
60 14 0.15
61 4 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (58 bp):
TTAATATATTTATTTTTTTATTATTAATTTTTATATAATATCTTTCTTAAATATATTT
Found at i:4106380 original size:23 final size:23
Alignment explanation
Indices: 4106353--4106429 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 23
4106343 TTAATGTCAT
*
4106353 ATATTTTTTTATTTATTATTATA
1 ATATTTTTATATTTATTATTATA
4106376 ATATTTTCTAT-TTTATT-TT-TA
1 ATATTTT-TATATTTATTATTATA
* *
4106397 ATATATTTATATTTA-TATTATT
1 ATATTTTTATATTTATTATTATA
4106419 A-ATTTTTATAT
1 ATATTTTTATAT
4106430 AATATCATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
20 4 0.09
21 23 0.50
22 4 0.09
23 13 0.28
24 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (23 bp):
ATATTTTTATATTTATTATTATA
Found at i:4106405 original size:15 final size:15
Alignment explanation
Indices: 4106387--4106452 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 15
4106377 TATTTTCTAT
4106387 TTTATTTTTAATATA
1 TTTATTTTTAATATA
*
4106402 TTTATATTT-ATATTA
1 TTTATTTTTAATA-TA
*
4106417 TTAATTTTTATATAATA
1 TTTATTTTTA-AT-ATA
* *
4106434 TCATATTTTAAATATA
1 T-TTATTTTTAATATA
4106450 TTT
1 TTT
4106453 TTAATGTCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
14 3 0.08
15 18 0.46
16 4 0.10
17 7 0.18
18 7 0.18
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATTTTTAATATA
Found at i:4106409 original size:17 final size:16
Alignment explanation
Indices: 4106384--4106542 Score: 69
Period size: 18 Copynumber: 9.8 Consensus size: 16
4106374 TAATATTTTC
4106384 TATTT-TATTTTTAATA
1 TATTTATATTTTT-ATA
*
4106400 TATTTATATTTATAT-
1 TATTTATATTTTTATA
4106415 TA-TTA-ATTTTTATA
1 TATTTATATTTTTATA
* *
4106429 TAATATCATATTTTAAATA
1 T-AT-TTATATTTT-TATA
* * * *
4106448 TATTTTTAATGTCATA
1 TATTTATATTTTTATA
*
4106464 TATTT-TATTTTCATA
1 TATTTATATTTTTATA
* *
4106479 TATTATTATAATCTTATA
1 TA-T-TTATATTTTTATA
* *
4106497 TATTT-TATTTTCATT
1 TATTTATATTTTTATA
* *
4106512 TCTTTAATATATTTTTTA
1 TATTT-ATAT-TTTTATA
4106530 TATTATATATTTT
1 TATT-TATATTTT
4106543 ATTTTAATTT
Statistics
Matches: 106, Mismatches: 23, Indels: 27
0.68 0.15 0.17
Matches are distributed among these distances:
13 7 0.07
14 4 0.04
15 23 0.22
16 18 0.17
17 22 0.21
18 27 0.25
19 5 0.05
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (16 bp):
TATTTATATTTTTATA
Found at i:4106426 original size:21 final size:22
Alignment explanation
Indices: 4106357--4106429 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
4106347 TGTCATATAT
*
4106357 TTTTTTATTTATTATTA-TAATA
1 TTTTATATTTA-TATTATTAATA
* *
4106379 TTTTCTATTT-TATTTTTAATA
1 TTTTATATTTATATTATTAATA
4106400 TATTTATATTTATATTATTAAT-
1 T-TTTATATTTATATTATTAATA
4106422 TTTTATAT
1 TTTTATAT
4106430 AATATCATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.09
21 13 0.30
22 18 0.41
23 9 0.20
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTATATTTATATTATTAATA
Found at i:4106430 original size:23 final size:23
Alignment explanation
Indices: 4106353--4106430 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
4106343 TTAATGTCAT
*
4106353 ATATTTTTTTATTTATTATTA-TA
1 ATATTTTTATATTTA-TATTATTA
4106376 ATATTTTCTAT-TTTAT-TT-TTA
1 ATATTTT-TATATTTATATTATTA
*
4106397 ATATATTTATATTTATATTATTA
1 ATATTTTTATATTTATATTATTA
4106420 AT-TTTTATATA
1 ATATTTT-TATA
4106431 ATATCATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
20 3 0.07
21 15 0.33
22 6 0.13
23 20 0.43
24 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATTTTTATATTTATATTATTA
Found at i:4106445 original size:110 final size:114
Alignment explanation
Indices: 4106283--4106507 Score: 343
Period size: 110 Copynumber: 2.0 Consensus size: 114
4106273 AAAATACAAG
* * *
4106283 TTAATATATTTATTTTTTTTATTATTAATTTTTATATAATATCCTTTCTTAAATATATTTTTAAT
1 TTAATATATTTATTATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
* * *
4106348 GTCATATA-TTT-TTTT-ATTTATTATTATAATATTTTCTATTTTATTT
66 GTCATATATTTTATTTTCATATATTATTATAATATTATATATTTTATTT
4106394 TTAATATATTTA-TATTTATATTATTAATTTTTATATAATATCATATT-TTAAATATATTTTTAA
1 TTAATATATTTATTATTTATATTATTAATTTTTATATAATATCAT-TTCTTAAATATATTTTTAA
*
4106457 TGTCATATATTTTATTTTCATATATTATTATAATCTTATATATTTTATTT
65 TGTCATATATTTTATTTTCATATATTATTATAATATTATATATTTTATTT
4106507 T
1 T
4106508 CATTTCTTTA
Statistics
Matches: 103, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
110 54 0.52
111 17 0.17
112 4 0.04
113 28 0.27
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (114 bp):
TTAATATATTTATTATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
GTCATATATTTTATTTTCATATATTATTATAATATTATATATTTTATTT
Found at i:4106464 original size:16 final size:16
Alignment explanation
Indices: 4106445--4106502 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
4106435 CATATTTTAA
*
4106445 ATATATTTTTAATGTC
1 ATATATTTTTAATCTC
* *
4106461 ATATA-TTTTATTTTC
1 ATATATTTTTAATCTC
*
4106476 ATATATTATTATAATCTT
1 ATATATT-TT-TAATCTC
4106494 ATATATTTT
1 ATATATTTT
4106503 ATTTTCATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 13 0.38
16 6 0.18
17 4 0.12
18 11 0.32
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (16 bp):
ATATATTTTTAATCTC
Found at i:4106485 original size:18 final size:17
Alignment explanation
Indices: 4106461--4106510 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
4106451 TTTTAATGTC
4106461 ATATATTTTATTTTCAT
1 ATATATTTTATTTTCAT
* ** *
4106478 ATAT-TATTATAATCTT
1 ATATATTTTATTTTCAT
4106494 ATATATTTTATTTTCAT
1 ATATATTTTATTTTCAT
4106511 TTCTTTAATA
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTTTATTTTCAT
Found at i:4106503 original size:33 final size:31
Alignment explanation
Indices: 4106445--4106510 Score: 96
Period size: 33 Copynumber: 2.1 Consensus size: 31
4106435 CATATTTTAA
*
4106445 ATATATTTTTAATGTCATATATTTTATTTTC
1 ATATATTTTTAATCTCATATATTTTATTTTC
*
4106476 ATATATTATTATAATCTTATATATTTTATTTTC
1 ATATATT-TT-TAATCTCATATATTTTATTTTC
4106509 AT
1 AT
4106511 TTCTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 7 0.23
32 2 0.06
33 22 0.71
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (31 bp):
ATATATTTTTAATCTCATATATTTTATTTTC
Found at i:4112971 original size:13 final size:14
Alignment explanation
Indices: 4112951--4112982 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
4112941 AACACGTCAA
4112951 ACTTTTTTTAT-TT
1 ACTTTTTTTATATT
4112964 -CTTTTTTTATATT
1 ACTTTTTTTATATT
4112977 ACTTTT
1 ACTTTT
4112983 CTAACAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.59
13 2 0.12
14 5 0.29
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (14 bp):
ACTTTTTTTATATT
Found at i:4123428 original size:24 final size:24
Alignment explanation
Indices: 4123395--4123448 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
4123385 TGAATTTTTT
*
4123395 ATATT-AAATAACCTCATTCTAGA
1 ATATTCAAATAACCTCATTCTAAA
**
4123418 ATATTCAAATAGTCTCATTCTAAA
1 ATATTCAAATAACCTCATTCTAAA
4123442 ATATTCA
1 ATATTCA
4123449 GTGCGACTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.37
Consensus pattern (24 bp):
ATATTCAAATAACCTCATTCTAAA
Found at i:4123910 original size:18 final size:17
Alignment explanation
Indices: 4123884--4123927 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
4123874 TTATTCAGAT
*
4123884 GTGATTATTCAAATTAAA
1 GTGACTATTCAAATT-AA
*
4123902 GTGACTATTTAAATTAA
1 GTGACTATTCAAATTAA
*
4123919 GTGTCTATT
1 GTGACTATT
4123928 TAAACTAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (17 bp):
GTGACTATTCAAATTAA
Found at i:4123926 original size:17 final size:17
Alignment explanation
Indices: 4123884--4123936 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
4123874 TTATTCAGAT
* *
4123884 GTGATTATTCAAATTAAA
1 GTGACTATTTAAATT-AA
4123902 GTGACTATTTAAATTAA
1 GTGACTATTTAAATTAA
* *
4123919 GTGTCTATTTAAACTAA
1 GTGACTATTTAAATTAA
4123936 G
1 G
4123937 ACATGACTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 18 0.58
18 13 0.42
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (17 bp):
GTGACTATTTAAATTAA
Found at i:4132405 original size:13 final size:13
Alignment explanation
Indices: 4132387--4132413 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4132377 TCAAAATTAT
4132387 AACTTATAAAAAA
1 AACTTATAAAAAA
4132400 AACTTATAAAAAA
1 AACTTATAAAAAA
4132413 A
1 A
4132414 TAATTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AACTTATAAAAAA
Found at i:4139050 original size:2 final size:2
Alignment explanation
Indices: 4139043--4139077 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4139033 TACTTTACTC
* *
4139043 TA TA TA TA AA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4139078 CTTTTATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:4147154 original size:19 final size:18
Alignment explanation
Indices: 4147111--4147144 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4147101 TAAGAATTAA
4147111 AAAT-TAAAAAAATAAAT
1 AAATATAAAAAAATAAAT
4147128 AAATATAAAAAAATAAA
1 AAATATAAAAAAATAAA
4147145 ATTTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATATAAAAAAATAAAT
Found at i:4147232 original size:34 final size:32
Alignment explanation
Indices: 4147194--4147256 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
4147184 CAATAAAAAA
*
4147194 ATTATATTAAAGAAATAAAAATAAAATATATAAG
1 ATTATAAT-AAGAAATAAAAAT-AAATATATAAG
* *
4147228 ATTATAATAATAAATGAAAATAAATATAT
1 ATTATAATAAGAAATAAAAATAAATATAT
4147257 GACATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 8 0.31
33 11 0.42
34 7 0.27
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (32 bp):
ATTATAATAAGAAATAAAAATAAATATATAAG
Found at i:4160863 original size:17 final size:18
Alignment explanation
Indices: 4160830--4160865 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4160820 TCCAAGTCAA
4160830 AAAAATTAAGAGAAAAAC
1 AAAAATTAAGAGAAAAAC
* *
4160848 AAAAATAAAGACAAAAAC
1 AAAAATTAAGAGAAAAAC
4160866 TAATAGTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.08
Consensus pattern (18 bp):
AAAAATTAAGAGAAAAAC
Found at i:4161087 original size:14 final size:14
Alignment explanation
Indices: 4161068--4161094 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4161058 TAGCGCCACA
4161068 GCACCATGCTCATG
1 GCACCATGCTCATG
4161082 GCACCATGCTCAT
1 GCACCATGCTCAT
4161095 AAGTTGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (14 bp):
GCACCATGCTCATG
Found at i:4161455 original size:15 final size:15
Alignment explanation
Indices: 4161435--4161474 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
4161425 ATCTCTCCTA
4161435 CAATCACATTAGTTG
1 CAATCACATTAGTTG
*
4161450 CAATCACATTATTTG
1 CAATCACATTAGTTG
*
4161465 TAATCACATT
1 CAATCACATT
4161475 GCGTTATAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (15 bp):
CAATCACATTAGTTG
Found at i:4164727 original size:13 final size:13
Alignment explanation
Indices: 4164709--4164733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4164699 TAGGTGAAAA
4164709 TTTTGATCATTTC
1 TTTTGATCATTTC
4164722 TTTTGATCATTT
1 TTTTGATCATTT
4164734 TAAAATATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTTGATCATTTC
Found at i:4169121 original size:31 final size:31
Alignment explanation
Indices: 4169083--4169146 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
4169073 AGATTCAGCC
*
4169083 CTAAAGGATGTCCCATTTTGTTTCTTTCTTT
1 CTAAAGGATGTCCCATTTTCTTTCTTTCTTT
* *
4169114 CTAAAGGATGTGCCATTTTCTTTCTTTGTTT
1 CTAAAGGATGTCCCATTTTCTTTCTTTCTTT
4169145 CT
1 CT
4169147 TCATTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.52
Consensus pattern (31 bp):
CTAAAGGATGTCCCATTTTCTTTCTTTCTTT
Found at i:4176995 original size:39 final size:39
Alignment explanation
Indices: 4176892--4177012 Score: 140
Period size: 39 Copynumber: 3.2 Consensus size: 39
4176882 ATCATATCCA
* * * * * * *
4176892 GAATAAGGCGGTGAATTGTGCTGAAAATTGCTTGTGTGC
1 GAATAAGGAGATGCATTCTGCTGAAAACTGCTTGAGCGC
4176931 GAATAA-GA-A-GCATTCTGCTGAAAACTGCTTGAGCGC
1 GAATAAGGAGATGCATTCTGCTGAAAACTGCTTGAGCGC
* *
4176967 GAATAAGGAGATGCATTCTGCTGGAAACTGCTTGAGCGA
1 GAATAAGGAGATGCATTCTGCTGAAAACTGCTTGAGCGC
4177006 GAATAAG
1 GAATAAG
4177013 ACTTTGGGGT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
36 28 0.40
37 2 0.03
38 2 0.03
39 38 0.54
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (39 bp):
GAATAAGGAGATGCATTCTGCTGAAAACTGCTTGAGCGC
Found at i:4181619 original size:2 final size:2
Alignment explanation
Indices: 4181612--4181647 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4181602 TCTCCTTTTC
*
4181612 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4181648 AACAAGGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4183336 original size:16 final size:16
Alignment explanation
Indices: 4183315--4183348 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4183305 TTTATAATTC
4183315 ATTTTAAATATTTTTA
1 ATTTTAAATATTTTTA
4183331 ATTTTAAATATTTTTA
1 ATTTTAAATATTTTTA
4183347 AT
1 AT
4183349 AAGAAGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTAAATATTTTTA
Found at i:4183638 original size:30 final size:30
Alignment explanation
Indices: 4183598--4183662 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
4183588 AATCAAGTCC
*
4183598 TTATATTTTTATTTTAAA-CTAAATAAACTT
1 TTATACTTTTATTTTAAATC-AAATAAACTT
*
4183628 TTATACTTTTATTTTGAATCAAATAAACTT
1 TTATACTTTTATTTTAAATCAAATAAACTT
4183658 TTATA
1 TTATA
4183663 ATTAATGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (30 bp):
TTATACTTTTATTTTAAATCAAATAAACTT
Found at i:4186306 original size:18 final size:20
Alignment explanation
Indices: 4186241--4186306 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 20
4186231 ATTTTTTTGA
*
4186241 AATTTTATAAGTTATTTTACAAT
1 AATTTTATAAGATATTTT---AT
*
4186264 AATTTTATAATATATTTT-T
1 AATTTTATAAGATATTTTAT
*
4186283 -ATTTTTTAAGA-ATTTTAT
1 AATTTTATAAGATATTTTAT
4186301 AATTTT
1 AATTTT
4186307 GTTCGTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 5 0.14
18 10 0.27
19 6 0.16
23 16 0.43
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (20 bp):
AATTTTATAAGATATTTTAT
Found at i:4186328 original size:11 final size:11
Alignment explanation
Indices: 4186241--4186328 Score: 51
Period size: 11 Copynumber: 8.0 Consensus size: 11
4186231 ATTTTTTTGA
4186241 AATTTTATAAGT
1 AATTTTATAA-T
* *
4186253 TATTTTACAAT
1 AATTTTATAAT
4186264 AATTTTATAAT
1 AATTTTATAAT
4186275 ATATTTT-T-AT
1 A-ATTTTATAAT
*
4186285 --TTTT-TAAG
1 AATTTTATAAT
4186293 AATTTTATAAT
1 AATTTTATAAT
**
4186304 TTTGTTCGTATAAT
1 AAT-TT--TATAAT
4186318 AATTTTATAAT
1 AATTTTATAAT
4186329 TTTAGCTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
7 5 0.09
8 1 0.02
10 6 0.10
11 22 0.38
12 15 0.26
13 2 0.03
14 7 0.12
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (11 bp):
AATTTTATAAT
Found at i:4195097 original size:2 final size:2
Alignment explanation
Indices: 4195090--4195114 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4195080 GAAACGCATT
4195090 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4195115 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4197626 original size:21 final size:22
Alignment explanation
Indices: 4197601--4197641 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4197591 CATGAATATA
4197601 TAAAA-GAAAAAAAATATTTAG
1 TAAAAGGAAAAAAAATATTTAG
* *
4197622 TAAAAGGATAAATAATATTT
1 TAAAAGGAAAAAAAATATTT
4197642 CGTGGATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (22 bp):
TAAAAGGAAAAAAAATATTTAG
Found at i:4202338 original size:200 final size:200
Alignment explanation
Indices: 4201995--4202399 Score: 720
Period size: 200 Copynumber: 2.0 Consensus size: 200
4201985 TATATATTAT
* *
4201995 TGAAGGTGTTTCTGGTGGCAATTTTGAGCAATAATTGTTTTGAAGTTTTGTCAGAGTGATATTTA
1 TGAAGGTGTTTCTGGTGGCAATTTTGAGCAATAATCGTTTTGAAGTTTTGCCAGAGTGATATTTA
*
4202060 CAATTTAGTGGTAGAATCCGGGAGTTGTTTGAATCTTACTACTTTGCAGATAGACAAGAACAAAA
66 CAATTTAGTGGTAGAATCCAGGAGTTGTTTGAATCTTACTACTTTGCAGATAGACAAGAACAAAA
** * *
4202125 GCAATTAACATTAAATGTGGAAAAGAAAGTATGTGTCGCAATAGTTTTAGAACTATACAGTCTAA
131 GCAATTAACATTAAATGCAGAAAAGAAAGTACGTGTCACAATAGTTTTAGAACTATACAGTCTAA
4202190 TGTAG
196 TGTAG
*
4202195 TGAAGGTGTTTCTGGTGGCAATTTTGAGCAATAATCGTTTTGAAGTTTTGCCAGAGTGATTTTTA
1 TGAAGGTGTTTCTGGTGGCAATTTTGAGCAATAATCGTTTTGAAGTTTTGCCAGAGTGATATTTA
* *
4202260 CAATTTAGTGGTAGAATCCAGGAGTTGTTTGAATCTTCCTACTTTGCAGATAGAGAAGAACAAAA
66 CAATTTAGTGGTAGAATCCAGGAGTTGTTTGAATCTTACTACTTTGCAGATAGACAAGAACAAAA
4202325 GCAATTAACATTAAATGCAGAAAAGAAAGTACGTGTCACAATAGTTTTAGAACTATACAGTCTAA
131 GCAATTAACATTAAATGCAGAAAAGAAAGTACGTGTCACAATAGTTTTAGAACTATACAGTCTAA
4202390 TGTAG
196 TGTAG
4202395 TGAAG
1 TGAAG
4202400 TTGTGCATGT
Statistics
Matches: 195, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
200 195 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (200 bp):
TGAAGGTGTTTCTGGTGGCAATTTTGAGCAATAATCGTTTTGAAGTTTTGCCAGAGTGATATTTA
CAATTTAGTGGTAGAATCCAGGAGTTGTTTGAATCTTACTACTTTGCAGATAGACAAGAACAAAA
GCAATTAACATTAAATGCAGAAAAGAAAGTACGTGTCACAATAGTTTTAGAACTATACAGTCTAA
TGTAG
Found at i:4207962 original size:247 final size:245
Alignment explanation
Indices: 4206964--4208813 Score: 1829
Period size: 247 Copynumber: 7.5 Consensus size: 245
4206954 TTGTTACATG
* * ** * * *
4206964 AACTCTCACATATTTACGTTAAGATTTTAACTTTTTTTATTCCACTTTTATAAGA-TTTTACATT
1 AACTCTCACATATTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAA-ATTTTTACGTC
* * * * * *
4207028 AATTCTTATAATTTTACGTCAAACCTTT-TCAATAGT-AACTTTTAACTATAATTATCTTTATCT
65 AATTCTTACAGTTTTACGTCAAA-ATTTATCTAT-GTCAA-TTTTGACTATAATTAT-TTT-T-A
* * * * *
4207091 TTATTATTCTTTATTTAACATAAAAATTTGA-ATATCGTTACATGCTTTTAGTCCAATAATATAA
124 TTATTATTATTTATTTAAAATTAAAATTT-ATATATCGTTACATACTTTTAGT-CAATAATATAT
***
4207155 ATATAAATGCATATTTTTCATTAAAATTAG-ATTTTTTACTTAATTAACTTATTACGTT
187 ATATAAATATTTATTTTTCATTAAAATTAGAATTTTTTACTTAATTAACTTATTACGTT
* * * * *
4207213 AATTCT-A-ATACATTACGTTAA-AATTAAAATTT-ATTATTCCACCTTCAT-AAGTTTTACGTC
1 AACTCTCACATA-TTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAAATTTTTACGTC
* *
4207273 AATTCTTACAGTTTTACGTTAAAATTTATCTATGACAATTTTGAGCTATAATTA--TTT-TTATT
65 AATTCTTACAGTTTTACGTCAAAATTTATCTATGTCAATTTTGA-CTATAATTATTTTTATTATT
4207335 ATTATTTA---AAAATTAAAATTTATATATCGTTA-A-ACATATTTAGTCAA-AGACTATATAT-
129 ATTATTTATTTAAAATTAAAATTTATATATCGTTACATAC-T-TTTAGTCAATA-A-TATATATA
* * * *
4207393 TAAATATTTATTTTTCACTAAAA-TAAAATTTTTTACTCAATTGACTTATTACGTT
190 TAAATATTTATTTTTCATTAAAATTAGAATTTTTTACTTAATTAACTTATTACGTT
* *
4207448 AACTCTCACATA-TTACGTTAAGATTTAAAATTTAA-TATTTCA-CTTTATAAGTTTTTACGTCA
1 AACTCTCACATATTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAAATTTTTACGTCA
* * * *
4207510 ACTGTTACAGTTTTACGTCAAGATTTATCTATGTCAATTTTGAACTACAATTATTTTTTATTATT
66 ATTCTTACAGTTTTACGTCAAAATTTATCTATGTCAATTTTG-ACTATAATTA-TTTTTATTATT
* * * * * * * *
4207575 ATATTTTTATTTAAAAATAAAATTTAT-GATCGTTAAACATTTTTAGTC-CTAGATATATATTTA
129 AT-TATTTATTTAAAATTAAAATTTATATATCGTTACATACTTTTAGTCAATA-ATATATATATA
* * * *
4207638 AATATTTATTTATCACTAAAATTAGATTTTTTTTAC-TAATAAACTTTATTACGTT
192 AATATTTATTTTTCATTAAAATTAGA-ATTTTTTACTTAATTAAC-TTATTACGTT
* * * **
4207693 AACTCT--CATAGTTTAGGTTAAGATTTAAAATTTAATTGTTCTATTTTTATAAATTTTTACGTC
1 AACTCTCACATA-TTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAAATTTTTACGTC
* * * * * * * *
4207756 AATTCTTTAAAATTTTACTTTAAGACTTATCTATGTCAATTTAT-ACTATGATTATTTTTATTCT
65 AATTC-TTACAGTTTTACGTCAAAATTTATCTATGTCAATTT-TGACTATAATTATTTTTATTAT
* * * *
4207820 TATTATTTATTTAAAATTAAAATTTATATATTGTTACATACTTTTAACTCGATAATATAAATATA
128 TATTATTTATTTAAAATTAAAATTTATATATCGTTACATACTTTT-AGTCAATAATATATATATA
* * *
4207885 AATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACATT
192 AATATTTATTTTTCATTAAAATTAGAATTTTTTACTTAATTAACTTATTACGTT
* * * *
4207939 AACTCTCACATATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACATTA
1 AACTCTCACATATTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAAATTTTTACGTCA
* *
4208004 ATTCTTACA--TTTAAGTCAAAATTTATTTATGAT-AATTTTGAGCTATAATTA-TTTTATTATT
66 ATTCTTACAGTTTTACGTCAAAATTTATCTATG-TCAATTTTGA-CTATAATTATTTTTATTATT
* * * * * *
4208065 ATTTTTTATTTAAAATTTAAATTTATATATCGTTAAATA-TATTTA-ACAAAGAATATATATTTA
129 ATTATTTATTTAAAATTAAAATTTATATATCGTTACATACT-TTTAGTC-AATAATATATATATA
* * * * * * *
4208128 AATATTTACTTTTCACTAAAATTAAAATTTTTTACTCAATTGACTTGTTATGTT
192 AATATTTATTTTTCATTAAAATTAGAATTTTTTACTTAATTAACTTATTACGTT
* * **
4208182 AACTTTCACATA-TTACGTTAAGATTTAAAATTTAATTATTTCACCTTTATAGGTTTTTACGTCA
1 AACTCTCACATATTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAAATTTTTACGTCA
* *
4208246 ACTGTTACAGTTTTACGTC-AAATTTATCTATGTCAATTTTGAACTATAATTATTTTTATTATTA
66 ATTCTTACAGTTTTACGTCAAAATTTATCTATGTCAATTTTG-ACTATAATTA--TTT-TTATTA
* * * * *
4208310 TTATTATTTATTTAAAAAATAAAATTTATATATCGTTAAACACTTTTAGTCCAAGAATATATATT
127 TTATTATTTATTT-AAAATTAAAATTTATATATCGTTACATACTTTTAGT-CAATAATATATATA
* * ** * *
4208375 TAAATATTTATTTTTTATTAAAATTAGATTTTTTTTACTTAATGGACTTGTTATGTT
190 TAAATATTTATTTTTCATTAAAATTAGA-ATTTTTTACTTAATTAACTTATTACGTT
* * ** * * * * *
4208432 AAGTCTCATACGTTTACGTTAAGATTTAAAATTTAGTTATTCTACTTTTATAAATTTTTACATTA
1 AACTCTCACATATTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAAATTTTTACGTCA
* * * * * *
4208497 ATTCTTACAGTTTTATGTTAAGACTTATCTATGTCAATTTTATAATATAATTATTTTTATCT-TT
66 ATTCTTACAGTTTTACGTCAAAATTTATCTATGTCAATTTT-GACTATAATTATTTTTAT-TATT
* * *
4208561 ATTATTTTATTTAAAAATTAAAATTTATATATTGTTACATACTTTTAGCTCGATAATATAAATAT
129 ATTA-TTTATTT-AAAATTAAAATTTATATATCGTTACATACTTTTAG-TCAATAATATATATAT
* *
4208626 AAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTT
191 AAATATTTATTTTTCATTAAAATTAGAATTTTTTACTTAATTAACTTATTACGTT
* * * *
4208681 AACTGTCAC--ATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTGTACGTCA
1 AACTCTCACATATTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAAATTTTTACGTCA
* * * *
4208744 ATTCTTACAGTTTTACATTAAAATTTATCTATGACAATTTTGAGCTATAATTATTATTATTATTA
66 ATTCTTACAGTTTTACGTCAAAATTTATCTATGTCAATTTTGA-CTATAATTATTTTTATTATTA
4208809 TTATT
130 TTATT
4208814 ATTATTATTA
Statistics
Matches: 1333, Mismatches: 198, Indels: 143
0.80 0.12 0.09
Matches are distributed among these distances:
234 4 0.00
235 71 0.05
236 105 0.08
237 5 0.00
239 15 0.01
240 7 0.01
241 6 0.00
242 65 0.05
243 140 0.11
244 111 0.08
245 121 0.09
246 74 0.06
247 250 0.19
248 76 0.06
249 83 0.06
250 112 0.08
251 60 0.05
252 28 0.02
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (245 bp):
AACTCTCACATATTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAAATTTTTACGTCA
ATTCTTACAGTTTTACGTCAAAATTTATCTATGTCAATTTTGACTATAATTATTTTTATTATTAT
TATTTATTTAAAATTAAAATTTATATATCGTTACATACTTTTAGTCAATAATATATATATAAATA
TTTATTTTTCATTAAAATTAGAATTTTTTACTTAATTAACTTATTACGTT
Found at i:4208702 original size:987 final size:973
Alignment explanation
Indices: 4206952--4208813 Score: 2253
Period size: 987 Copynumber: 1.9 Consensus size: 973
4206942 TATTATTATC
* * * ** *
4206952 ACTTGTTACATGAACTCTCACATATTTACGTTAAGATTTTAACTTTTTTTATTCCACTTTTATAA
1 ACTTATTACATGAACTCTCACATATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
* *
4207017 GATTTTACATTAATTCTTATAATTTTACGTCAAACCTTTTCAATAGTAACTTTTAACTATAATTA
66 GATTTTACATTAATTCTTATAATTTTAAGTCAAACATTTTCAATAGTAACTTTTAACTATAATTA
* * * * *
4207082 TCTTTATCTTTATTATTCTTTATTTAACATAAAAATTTGAATATCGTTACATGCTTTTAGTCCAA
131 TCTTTA--TTTATTATTCTTTATTTAAAATAAAAATTTGAATATCGTTAAATGATTTTAGACAAA
* * * * * *
4207147 TAATATAAATATAAATGCATATTTTTCATTAAAATTAGATTTTTTACTTAATTAACTTATTACGT
194 GAATATAAATATAAATACATACTTTTCACTAAAATTAAATTTTTTACTCAATTAACTTATTACGT
* *
4207212 TAATTCTAATACATTACGTTAAAATTAAAATTTATTATTCCACCTTCATAAGTTTTACGTCAATT
259 TAATTCTAACACATTACGTTAAAATTAAAATTTATTATTCCACCTTCATAAGTTTTACGTCAACT
*
4207277 CTTACAGTTTTACGTTAAAATTTATCTATGACAATTTTGAGCTATAATTATTTTTATTATTATTT
324 CTTACAGTTTTACGTTAAAATTTATCTATGACAATTTTGAACTATAATTATTTTTATTATTATTT
* *
4207342 AAAAATTAAAATTTATATATCGTTAAACATATTTAGTCAAAGACTATATATTAAATATTTATTTT
389 AAAAAATAAAATTTATATATCGTTAAACATATTTAGTCAAAGAATATATATTAAATATTTATTTT
*
4207407 TCACTAAAATAAAATTTTTTACTCAATTGACTTATTACGTTAACTCTCACATATTACGTTAAGAT
454 TCACTAAAATAAAATTTTTTACTCAATGGACTTATTACGTTAACTCTCACATATTACGTTAAGAT
* * * *
4207472 TTAAAATTTAATATTTCACTTTATAAGTTTTTACGTCAACTGTTACAGTTTTACGTCAAGATTTA
519 TTAAAATTTAATATTTCACTTTATAAATTTTTACATCAACTCTTACAGTTTTACGTCAAGACTTA
*
4207537 TCTATGTCAATTTTGAACTACAATTATTTTTTATTATTATATTTTTATTTAAAAATAAAATTTAT
584 TCTATGTCAATTTTGAAATACAATTATTTTTTATTATTATATTTTTATTTAAAAATAAAATTTAT
* * * * * *
4207602 GATCGTTAAACATTTTTAGTCCTAGATATATATTTAAATATTTATTTATCACTAAAATTAGATTT
649 GATCGTTAAACACTTTTAGTCATAGATATAAATATAAATACTTATTTATCACTAAAATTAGATCT
* * *
4207667 TTTTTACTAATAAACTTTATTACGTTAACTCTCATAGTTTAGGTTAAGATTTAAAATTTAATTGT
714 TTTTTACTAATAAACTTTATTACGTTAACTCTCACAGTTTACGTTAAGATTTAAAATTTAATTAT
* ** * * * *
4207732 TCTATTTTTATAAATTTTTACGTCAATTCTTTAAAATTTTACTTTAAGACTTATCTATGTCAATT
779 TCCACCTTTATAAATTTGTACGTCAATTC-TTAAAATTTTACATTAAAACTTATCTATGACAATT
* * *
4207797 TAT-A-CTATGATTATTTTTATTCTTATTATTTATTTAAAATTAAAATTTATATATTGTTACATA
843 T-TGAGCTATAATTATTATTATTATTATTATTTATTTAAAATTAAAATTTATATATTGTTACATA
4207860 CTTTTAACTCGATAATATAAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAAT
907 CTTTTAACTCGATAATATAAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAAT
4207925 TA
972 TA
*
4207927 ACTTATTACATTAACTCTCACATATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
1 ACTTATTACATGAACTCTCACATATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
* * ** *
4207992 GTTTTTACATTAATTCTTA-CA-TTTAAGTCAAA-ATTTATTTAT-GATAA-TTTTGAGCTATAA
66 GATTTTACATTAATTCTTATAATTTTAAGTCAAACATTT-TCAATAG-TAACTTTT-AACTATAA
* **
4208052 TTAT-TTTA-TTATTATTTTTTATTTAAAATTTAAATTT-ATATATCGTTAAAT-ATATTTA-AC
128 TTATCTTTATTTATTATTCTTTATTTAAAATAAAAATTTGA-ATATCGTTAAATGAT-TTTAGAC
* * ** * *
4208112 AAAGAATATATATTTAAATATTTACTTTTCACTAAAATTAAAATTTTTTACTCAATTGACTTGTT
191 AAAGAATATAAATATAAATACATACTTTTCACTAAAATT-AAATTTTTTACTCAATTAACTTATT
* * * * * * *
4208177 ATGTTAACTT-TCACATATTACGTTAAGATTTAAAATTTAATTATTTCACCTTTATAGGTTTTTA
255 ACGTTAA-TTCTAACACATTACGTTAA-AATTAAAATTT-ATTATTCCACCTTCATAAG-TTTTA
* * *
4208241 CGTCAACTGTTACAGTTTTACG-TCAAATTTATCTATGTCAATTTTGAACTATAATTATTTTTAT
316 CGTCAACTCTTACAGTTTTACGTTAAAATTTATCTATGACAATTTTGAACTAT-A--A---TTA-
*
4208305 TATTATTATTATTTATTTAAAAAATAAAATTTATATATCGTTAAACACT-TTTAGTCCAAGAATA
374 T-TT-TTATTA-TTATTTAAAAAATAAAATTTATATATCGTTAAACA-TATTTAGTCAAAGAATA
* * ** * * *
4208369 TATATTTAAATATTTATTTTTTATTAAAATTAGATTTTTTTTACTTAATGGACTTGTTATGTTAA
435 TATA-TTAAATATTTATTTTTCACTAAAA-TA-AAATTTTTTACTCAATGGACTTATTACGTTAA
* * * *
4208434 GTCTCATACGT-TTACGTTAAGATTTAAAATTTAGT-TATTCTACTTTTATAAATTTTTACATTA
497 CTCTC--ACATATTACGTTAAGATTTAAAATTTAATAT-TTC-AC-TTTATAAATTTTTACATCA
* * * *
4208497 ATTCTTACAGTTTTATGTTAAGACTTATCTATGTCAATTTT-ATAATATAATTA-TTTTTATCT-
557 ACTCTTACAGTTTTACGTCAAGACTTATCTATGTCAATTTTGA-AATACAATTATTTTTTAT-TA
* * * *
4208559 TTAT-TATTTTATTTAAAAATTAAAATTTATATATTGTTACATACTTTTAGCTCGATA-ATATAA
620 TTATAT-TTTTATTTAAAAA-TAAAATTTAT-GATCGTTAAACACTTTTAG-TC-ATAGATATAA
* * *
4208622 ATATAAATACTTATTTTTCATTAAAATTAGA-CTTTTTTACTTAATTAAC-TTATTACGTTAACT
680 ATATAAATACTTATTTATCACTAAAATTAGATCTTTTTTAC-TAATAAACTTTATTACGTTAACT
* * *
4208685 GTCACA-TTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTGTACGTCAATTCT
744 CTCACAGTTTACGTTAAGATTTAAAATTTAATTATTCCACCTTTATAAATTTGTACGTCAATTCT
* * *
4208749 TACAGTTTTACATTAAAATTTATCTATGACAATTTTGAGCTATAATTATTATTATTATTATTATT
809 TAAAATTTTACATTAAAACTTATCTATGACAATTTTGAGCTATAATTATTATTATTATTATTATT
4208814 ATTATTATTA
Statistics
Matches: 745, Mismatches: 103, Indels: 66
0.82 0.11 0.07
Matches are distributed among these distances:
968 33 0.04
969 80 0.11
970 12 0.02
971 43 0.06
972 38 0.05
973 27 0.04
974 2 0.00
975 76 0.10
977 3 0.00
978 1 0.00
979 2 0.00
980 6 0.01
981 51 0.07
982 23 0.03
983 2 0.00
984 31 0.04
985 28 0.04
986 61 0.08
987 143 0.19
988 40 0.05
989 41 0.06
990 2 0.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (973 bp):
ACTTATTACATGAACTCTCACATATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAA
GATTTTACATTAATTCTTATAATTTTAAGTCAAACATTTTCAATAGTAACTTTTAACTATAATTA
TCTTTATTTATTATTCTTTATTTAAAATAAAAATTTGAATATCGTTAAATGATTTTAGACAAAGA
ATATAAATATAAATACATACTTTTCACTAAAATTAAATTTTTTACTCAATTAACTTATTACGTTA
ATTCTAACACATTACGTTAAAATTAAAATTTATTATTCCACCTTCATAAGTTTTACGTCAACTCT
TACAGTTTTACGTTAAAATTTATCTATGACAATTTTGAACTATAATTATTTTTATTATTATTTAA
AAAATAAAATTTATATATCGTTAAACATATTTAGTCAAAGAATATATATTAAATATTTATTTTTC
ACTAAAATAAAATTTTTTACTCAATGGACTTATTACGTTAACTCTCACATATTACGTTAAGATTT
AAAATTTAATATTTCACTTTATAAATTTTTACATCAACTCTTACAGTTTTACGTCAAGACTTATC
TATGTCAATTTTGAAATACAATTATTTTTTATTATTATATTTTTATTTAAAAATAAAATTTATGA
TCGTTAAACACTTTTAGTCATAGATATAAATATAAATACTTATTTATCACTAAAATTAGATCTTT
TTTACTAATAAACTTTATTACGTTAACTCTCACAGTTTACGTTAAGATTTAAAATTTAATTATTC
CACCTTTATAAATTTGTACGTCAATTCTTAAAATTTTACATTAAAACTTATCTATGACAATTTTG
AGCTATAATTATTATTATTATTATTATTTATTTAAAATTAAAATTTATATATTGTTACATACTTT
TAACTCGATAATATAAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTA
Found at i:4208706 original size:740 final size:735
Alignment explanation
Indices: 4206972--4209073 Score: 2729
Period size: 740 Copynumber: 2.8 Consensus size: 735
4206962 TGAACTCTCA
* * ** *
4206972 CATA-TTTACGTTAAGATTTTAACTTTTTTTATTCCACTTTTATAAGA-TTTTACATTAATTCTT
1 CATAGTTTACGTTAAGATTTAAAATTTAATTATTCTACTTTTATAA-ATTTTTACATTAATTCTT
* * * * * *
4207035 ATAATTTTACGTCAA-ACCTTTTCAATAGT-AACTTTTA-ACTATAATTATCTTTATCTTTATTA
65 AAAATTTTATGTTAAGA-CTTATCTAT-GTCAA-TTTTATACTATAATTATTTTTATCTTTATTA
* * * * *
4207097 TTCTTTATTTAACATAAAAATTTGA-ATATCGTTACATGCTTTTAG-TCCAATAATATAAATATA
127 -T-TTTATTTAAAATTAAAATTT-ATATATTGTTACATACTTTTAGCT-CGATAATATAAATATA
* *
4207160 AATGCATATTTTTCATTAAAATTAGA-TTTTTTACTTAATTAACTTATTACGTTAATTCTAAT-A
188 AATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAA--CT-ATCA
* *
4207223 CA-TTACGTTAA-AATTAAAATTTA-TTATTCCACCTTCATAAG-TTTTACGTCAATTCTTACAG
250 CATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTCTTACAG
* *
4207284 TTTTACGTTAAAATTTATCTATGACAATTTTGAGCTATAATTA-TTT-TTATTATTATTTA---A
315 -TTTAAGTTAAAATTTATCTATGACAATTTTGAGCTATAATTATTTTATTATTATTTTTTATTTA
* * *
4207344 AAATTAAAATTTATATATCGTTAAACATATTTAGTCAAAGACTATATA-TTAAATATTTATTTTT
379 AAATTTAAATTTATATATCGTTAAACATATTTA-ACAAAGAATATATATTTAAATATTTATTTTT
* *
4207408 CACTAAAA-TAAAATTTTTTACTCAATTGACTTATTACGTTAACTCTCACATATTACGTTAAGAT
443 CACTAAAATTAAAATTTTTTACTCAATTGACTTGTTACGTTAACTTTCACATATTACGTTAAGAT
*
4207472 TTAAAATTTAA-TATTTCA-CTTTATAAGTTTTTACGTCAACTGTTACAGTTTTACGTCAAGATT
508 TTAAAATTTAATTATTTCACCTTTATAGGTTTTTACGTCAACTGTTACAGTTTTACGTCAAGATT
*
4207535 TATCTATGTCAATTTTGAACTACAATTATTTTTTATTATTATATTTTTATTTAAAAATAAAATTT
573 TATCTATGTCAATTTTGAACTATAATTA-TTTTTATTATTATATTTTTATTTAAAAATAAAATTT
* *
4207600 ATGATCGTTAAACATTTTTAGTCCTAGATATATATTTAAATATTTATTTATCACTAAAATTAGAT
637 ATGATCGTTAAACACTTTTAGTCCAAGATATATATTTAAATATTTATTTATCACTAAAATTAGAT
4207665 TTTTTTTACTAATAAACTTTATTACGTTAACTCT
702 TTTTTTTACTAATAAACTTTATTACGTTAACTCT
* * * * *
4207699 CATAGTTTAGGTTAAGATTTAAAATTTAATTGTTCTATTTTTATAAATTTTTACGTCAATTCTTT
1 CATAGTTTACGTTAAGATTTAAAATTTAATTATTCTACTTTTATAAATTTTTACATTAATTC-TT
*
4207764 AAAATTTTACT-TTAAGACTTATCTATGTCAA-TTTATACTATGATTATTTTTAT-TCTTATTA-
65 AAAATTTTA-TGTTAAGACTTATCTATGTCAATTTTATACTATAATTATTTTTATCT-TTATTAT
*
4207825 TTTATTTAAAATTAAAATTTATATATTGTTACATACTTTTAACTCGATAATATAAATATAAATAC
128 TTTATTTAAAATTAAAATTTATATATTGTTACATACTTTTAGCTCGATAATATAAATATAAATAC
* *
4207890 TTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACATTAACTCTCACATATTTA
193 TTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAACTATCAC--ATTTA
* *
4207955 CGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACATTAATTCTTACA-TTTAAG
256 CGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTCTTACAGTTTAAG
* * *
4208019 TCAAAATTTATTTATGATAATTTTGAGCTATAATTATTTTATTATTATTTTTTATTTAAAATTTA
321 TTAAAATTTATCTATGACAATTTTGAGCTATAATTATTTTATTATTATTTTTTATTTAAAATTTA
* *
4208084 AATTTATATATCGTTAAATATATTTAACAAAGAATATATATTTAAATATTTACTTTTCACTAAAA
386 AATTTATATATCGTTAAACATATTTAACAAAGAATATATATTTAAATATTTATTTTTCACTAAAA
*
4208149 TTAAAATTTTTTACTCAATTGACTTGTTATGTTAACTTTCACATATTACGTTAAGATTTAAAATT
451 TTAAAATTTTTTACTCAATTGACTTGTTACGTTAACTTTCACATATTACGTTAAGATTTAAAATT
4208214 TAATTATTTCACCTTTATAGGTTTTTACGTCAACTGTTACAGTTTTACGTCAA-ATTTATCTATG
516 TAATTATTTCACCTTTATAGGTTTTTACGTCAACTGTTACAGTTTTACGTCAAGATTTATCTATG
*
4208278 TCAATTTTGAACTATAATTATTTTTATTATTATTATTATTTATTTAAAAAATAAAATTTATATAT
581 TCAATTTTGAACTATAATTATTTTTATTATTA-TATT-TTTATTT-AAAAATAAAATTTAT-GAT
* * *
4208343 CGTTAAACACTTTTAGTCCAAGAATATATATTTAAATATTTATTTTTTATTAAAATTAGATTTTT
642 CGTTAAACACTTTTAGTCCAAG-ATATATATTTAAATATTTATTTATCACTAAAATTAGATTTTT
** * * *
4208408 TTTACTTAATGGAC-TTGTTATGTTAAGTCT
706 TTTAC-TAATAAACTTTATTACGTTAACTCT
*
4208438 CATACGTTTACGTTAAGATTTAAAATTTAGTTATTCTACTTTTATAAATTTTTACATTAATTCTT
1 CATA-GTTTACGTTAAGATTTAAAATTTAATTATTCTACTTTTATAAATTTTTACATTAATTCTT
* * *
4208503 ACAGTTTTATGTTAAGACTTATCTATGTCAATTTTATAATATAATTATTTTTATCTTTATTATTT
65 AAAATTTTATGTTAAGACTTATCTATGTCAATTTTATACTATAATTATTTTTATCTTTATTATTT
4208568 TATTTAAAAATTAAAATTTATATATTGTTACATACTTTTAGCTCGATAATATAAATATAAATACT
130 TATTT-AAAATTAAAATTTATATATTGTTACATACTTTTAGCTCGATAATATAAATATAAATACT
*
4208633 TATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAACTGTCACATTTACGT
194 TATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAACTATCACATTTACGT
*
4208698 TAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTGTACGTCAATTCTTACAGTTTTACA-T
259 TAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTCTTACAG-TTTA-AGT
4208762 TAAAATTTATCTATGACAATTTTGAGCTATAATTATTATTATTATTATTATTATTATTATTATTA
322 TAAAATTTATCTATGACAATTTTGAGC--T-A-TA--ATTATT-TTATTATTATT-TT-TTA-T-
* * *
4208827 TTATTATTATTTATTTAAAAATTAAAATTTATATATCATTAAACACATTTAACCAAATAATATAT
376 TTA--A--A---A--T-----TT-AAATTTATATATCGTTAAACATATTTAA-CAAAGAATATAT
* * * * *
4208892 ATTTAAATATTTATTTTTTATTAAAATTAGAATTTTTATTACTTAATTGACTTGTTACATTAACT
425 ATTTAAATATTTATTTTTCACTAAAATTA-AAATTTT-TTACTCAATTGACTTGTTACGTTAACT
* * *
4208957 TTCACATATTTACTTTAAAATTTAAAATTTAATTA-TTCTACCTTTATAGGCTTTTACGTCAACT
488 TTCACATA-TTACGTTAAGATTTAAAATTTAATTATTTC-ACCTTTATAGGTTTTTACGTCAACT
* * * *
4209021 ATTACAGTTTTATGTCAAGATTTATCTAT-ACTAATTTTGAATTATAATTATTT
551 GTTACAGTTTTACGTCAAGATTTATCTATGTC-AATTTTGAACTATAATTATTT
4209074 ATTTAAAAAA
Statistics
Matches: 1206, Mismatches: 94, Indels: 104
0.86 0.07 0.07
Matches are distributed among these distances:
723 1 0.00
724 5 0.00
725 74 0.06
726 30 0.02
727 19 0.02
728 117 0.10
729 42 0.03
730 30 0.02
732 12 0.01
733 55 0.05
734 76 0.06
735 41 0.03
736 47 0.04
737 15 0.01
738 23 0.02
739 90 0.07
740 144 0.12
741 8 0.01
742 142 0.12
743 1 0.00
744 1 0.00
745 1 0.00
746 2 0.00
748 6 0.00
749 11 0.01
750 2 0.00
751 3 0.00
752 1 0.00
753 3 0.00
755 1 0.00
757 1 0.00
760 1 0.00
762 1 0.00
767 2 0.00
768 25 0.02
769 37 0.03
770 6 0.00
771 35 0.03
772 65 0.05
773 30 0.02
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.49
Consensus pattern (735 bp):
CATAGTTTACGTTAAGATTTAAAATTTAATTATTCTACTTTTATAAATTTTTACATTAATTCTTA
AAATTTTATGTTAAGACTTATCTATGTCAATTTTATACTATAATTATTTTTATCTTTATTATTTT
ATTTAAAATTAAAATTTATATATTGTTACATACTTTTAGCTCGATAATATAAATATAAATACTTA
TTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAACTATCACATTTACGTTA
AGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACGTCAATTCTTACAGTTTAAGTTAAA
ATTTATCTATGACAATTTTGAGCTATAATTATTTTATTATTATTTTTTATTTAAAATTTAAATTT
ATATATCGTTAAACATATTTAACAAAGAATATATATTTAAATATTTATTTTTCACTAAAATTAAA
ATTTTTTACTCAATTGACTTGTTACGTTAACTTTCACATATTACGTTAAGATTTAAAATTTAATT
ATTTCACCTTTATAGGTTTTTACGTCAACTGTTACAGTTTTACGTCAAGATTTATCTATGTCAAT
TTTGAACTATAATTATTTTTATTATTATATTTTTATTTAAAAATAAAATTTATGATCGTTAAACA
CTTTTAGTCCAAGATATATATTTAAATATTTATTTATCACTAAAATTAGATTTTTTTTACTAATA
AACTTTATTACGTTAACTCT
Found at i:4208801 original size:3 final size:3
Alignment explanation
Indices: 4208793--4208837 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
4208783 TTGAGCTATA
4208793 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4208838 TATTTAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4209241 original size:755 final size:728
Alignment explanation
Indices: 4206952--4209266 Score: 2464
Period size: 755 Copynumber: 3.1 Consensus size: 728
4206942 TATTATTATC
* * * ** * * ** *
4206952 ACTTGTTACATGAACTCTCACATATTTACGTTAAGATTTTAACTTTTTTTATTCCACTTTTATAA
1 ACTTGTTACGTTAACTCTCATACGTTTACGTTAAGATTTAAAATTTAATTATTCTACTTTTATAA
* * * * * * * *
4207017 GA-TTTTACATTAATTCTTATAATTTTACGTCAA-ACCTTTTCAATAGT-AACTTT-TAACTATA
66 -ATTTTTACGTCAATTCTTACAGTTTTACTTTAAGA-CTTATCTAT-GTCAA-TTTATAA-TATA
* * * * *
4207078 ATTATCTTTA-TCTTTATTATTCTTTATTTAACATAAAAATTTGA-ATATCGTTACATGCTTTT-
126 ATTATTTTTATTC-TTATTA---TTTATTTAAAATTAAAATTT-ATATATTGTTACATACTTTTA
* * * *
4207140 AGTCCAATAATATAAATATAAATGCATATTTTTCATTAAAATTAGA-TTTTTTACTTAATTAACT
186 ACT-CGATAATATAAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACT
* * * * * *
4207204 TATTACGTTAATTCTAATACA-TTACGTTAA-AATTAAAATTTA-TTATTCCACCTTCATAAGTT
250 TATTACATTAACTCTCACA-ATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTT
* * *
4207266 T-TACGTCAATTCTTACAGTTTTACGTTAAAATTTATCTATGACAATTTTGAGCTATAATTA-TT
314 TGTACATCAATTCTTACA--TTTAAGTCAAAATTTATCTATGACAATTTTGAGCTATAATTATTT
* * * * * *
4207329 T-TTATTATTATTTA---AAAATTAAAATTTATATATCGTTAAACATATTTAGTCAAAGACTATA
377 TATTATTATTTTTTATTTAAAATTTAAATTTATATATCATTAAACACATTTA-ACAAAGAATATA
* * * *
4207390 TA-TTAAATATTTATTTTTCACTAAAA-TAAAATTTTTTACTCAATTGACTTATTACGTTAACTC
441 TATTTAAATATTTACTTTTCACTAAAATTAAAATTTTTTACTCAATTGACTTGTTACATTAACTT
* * * *
4207453 TCACATATTACGTTAAGATTTAAAATTTAA-TATTTCA-CTTTATAAGTTTTTACGTCAACTGTT
506 TCACATATTACGTTAAAATTTAAAATTTAATTATTTCACCTTTATAGGCTTTTACGTCAACTATT
* *
4207516 ACAGTTTTACGTCAAGATTTATCTATGTCAATTTTGAACTACAATTATTTT-TTATTATTATATT
571 ACAGTTTTACGTCAA-ATTTATC--T-T-AA--TT-AAC-ATAA-TATTTTGATATTA-TA-ATT
* * *
4207580 -TTTATTT-AAAAATAAAATTTAT-GATCGTTAAACATTTTTAGTCCTAG-ATATATATTTAAAT
624 ATTTATTTAAAAAATAAAATTTATATATCGTTAAACACTTTTAGTCCAAGAATATATATTTAAAT
* * * *
4207641 ATTTATTTATCACTAAAATTAGATTTTTTTTAC-TAATAA
689 ATTTATTTTTTACTAAAATTAAATTTTTTTTACTTAATGA
* * * *
4207680 ACTTTATTACGTTAACTCTCATA-GTTTAGGTTAAGATTTAAAATTTAATTGTTCTATTTTTATA
1 AC-TTGTTACGTTAACTCTCATACGTTTACGTTAAGATTTAAAATTTAATTATTCTACTTTTATA
* * * *
4207744 AATTTTTACGTCAATTCTTTAAAATTTTACTTTAAGACTTATCTATGTCAATTTATACTATGATT
65 AATTTTTACGTCAATTC-TTACAGTTTTACTTTAAGACTTATCTATGTCAATTTATAATATAATT
4207809 ATTTTTATTCTTATTATTTATTTAAAATTAAAATTTATATATTGTTACATACTTTTAACTCGATA
129 ATTTTTATTCTTATTATTTATTTAAAATTAAAATTTATATATTGTTACATACTTTTAACTCGATA
4207874 ATATAAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACATT
194 ATATAAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACATT
* *
4207939 AACTCTCACATATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACATTA
259 AACTCTCACA-ATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTGTACATCA
* *
4208004 ATTCTTACATTTAAGTCAAAATTTATTTATGATAATTTTGAGCTATAATTATTTTATTATTATTT
323 ATTCTTACATTTAAGTCAAAATTTATCTATGACAATTTTGAGCTATAATTATTTTATTATTATTT
* * *
4208069 TTTATTTAAAATTTAAATTTATATATCGTTAAATATATTTAACAAAGAATATATATTTAAATATT
388 TTTATTTAAAATTTAAATTTATATATCATTAAACACATTTAACAAAGAATATATATTTAAATATT
**
4208134 TACTTTTCACTAAAATTAAAATTTTTTACTCAATTGACTTGTTATGTTAACTTTCACATATTACG
453 TACTTTTCACTAAAATTAAAATTTTTTACTCAATTGACTTGTTACATTAACTTTCACATATTACG
* * *
4208199 TTAAGATTTAAAATTTAATTATTTCACCTTTATAGGTTTTTACGTCAACTGTTACAGTTTTACGT
518 TTAAAATTTAAAATTTAATTATTTCACCTTTATAGGCTTTTACGTCAACTATTACAGTTTTACGT
* *
4208264 CAAATTTATCTATGTCAATTTTGAACTATAATTATTTTTATTATTATTATTATTTATTTAAAAAA
583 CAAATTTATC--T-T-AA--TT-AAC-ATAA-TATTTTGA-TATTATAATTATTTATTTAAAAAA
*
4208329 TAAAATTTATATATCGTTAAACACTTTTAGTCCAAGAATATATATTTAAATATTTATTTTTTATT
638 TAAAATTTATATATCGTTAAACACTTTTAGTCCAAGAATATATATTTAAATATTTATTTTTTACT
* *
4208394 AAAATTAGATTTTTTTTACTTAATGG
703 AAAATTAAATTTTTTTTACTTAATGA
* * *
4208420 ACTTGTTATGTTAAGTCTCATACGTTTACGTTAAGATTTAAAATTTAGTTATTCTACTTTTATAA
1 ACTTGTTACGTTAACTCTCATACGTTTACGTTAAGATTTAAAATTTAATTATTCTACTTTTATAA
* *
4208485 ATTTTTACATTAATTCTTACAGTTTTA-TGTTAAGACTTATCTATGTCAATTTTATAATATAATT
66 ATTTTTACGTCAATTCTTACAGTTTTACT-TTAAGACTTATCTATGTCAA-TTTATAATATAATT
*
4208549 ATTTTTA-TCTTTATTATTTTATTTAAAAATTAAAATTTATATATTGTTACATACTTTTAGCTCG
129 ATTTTTATTC-TTATTA-TTTATTT-AAAATTAAAATTTATATATTGTTACATACTTTTAACTCG
4208613 ATAATATAAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTAC
191 ATAATATAAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTAC
* * *
4208678 GTTAACTGTCAC-ATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTGTACGT
256 ATTAACTCTCACAATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTGTACAT
*
4208742 CAATTCTTACAGTTTTACA-TTAAAATTTATCTATGACAATTTTGAGCTATAATTATTATTATTA
321 CAATTCTTACA--TTTA-AGTCAAAATTTATCTATGACAATTTTGAGC--T-A-TA--ATTATT-
4208806 TTATTATTATTATTATTATTATTATTATTATTTATTTAAAAATTAAAATTTATATATCATTAAAC
376 TTATTATTATT-TT-TTA-T-TTA--A--A---A--T-----TT-AAATTTATATATCATTAAAC
* * * * * *
4208871 ACATTTAACCAAATAATATATATTTAAATATTTATTTTTTATTAAAATTAGAATTTTTATTACTT
422 ACATTTAA-CAAAGAATATATATTTAAATATTTACTTTTCACTAAAATTA-AAATTTT-TTACTC
*
4208936 AATTGACTTGTTACATTAACTTTCACATATTTACTTTAAAATTTAAAATTTAATTA-TTCTACCT
484 AATTGACTTGTTACATTAACTTTCACATA-TTACGTTAAAATTTAAAATTTAATTATTTC-ACCT
*
4209000 TTATAGGCTTTTACGTCAACTATTACAGTTTTATGTCAAGATTTATC-T-A-T-AC-T-A-ATTT
547 TTATAGGCTTTTACGTCAACTATTACAGTTTTACGTCAA-ATTTATCTTAATTAACATAATATTT
********** *
4209058 TGA-ATTATAATTATTTATTTAAAAAATAAAATTTATATATCGTTNNNNNNNNNNAGTCCGAGAA
611 TGATATTATAATTATTTATTTAAAAAATAAAATTTATATATCGTTAAACACTTTTAGTCCAAGAA
* *
4209122 TATATATTTAAATATTTATTTTTTACTAATATTAAATTTTTTTTATTTAATGA
676 TATATATTTAAATATTTATTTTTTACTAAAATTAAATTTTTTTTACTTAATGA
********** * *
4209175 ACTTGTTACGTTAACNNNNNNNNNNTTATGTTAAGATTTAAAATTTAATTATTTTACTTTTATAA
1 ACTTGTTACGTTAACTCTCATACGTTTACGTTAAGATTTAAAATTTAATTATTCTACTTTTATAA
*
4209240 A-TTTTACGTCAATTCTTACGGTTTTAC
66 ATTTTTACGTCAATTCTTACAGTTTTAC
4209267 ATTAGGGCAC
Statistics
Matches: 1376, Mismatches: 139, Indels: 117
0.84 0.09 0.07
Matches are distributed among these distances:
724 1 0.00
725 73 0.05
726 36 0.03
727 10 0.01
728 119 0.09
729 66 0.05
730 27 0.02
732 12 0.01
733 55 0.04
734 64 0.05
735 44 0.03
736 48 0.03
737 20 0.01
738 23 0.02
739 92 0.07
740 143 0.10
741 7 0.01
742 142 0.10
743 1 0.00
744 1 0.00
745 1 0.00
746 2 0.00
748 6 0.00
749 11 0.01
750 2 0.00
751 3 0.00
752 1 0.00
753 3 0.00
754 22 0.02
755 149 0.11
757 7 0.01
759 1 0.00
760 2 0.00
762 3 0.00
764 1 0.00
767 3 0.00
768 25 0.02
769 38 0.03
770 6 0.00
771 35 0.03
772 64 0.05
773 7 0.01
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (728 bp):
ACTTGTTACGTTAACTCTCATACGTTTACGTTAAGATTTAAAATTTAATTATTCTACTTTTATAA
ATTTTTACGTCAATTCTTACAGTTTTACTTTAAGACTTATCTATGTCAATTTATAATATAATTAT
TTTTATTCTTATTATTTATTTAAAATTAAAATTTATATATTGTTACATACTTTTAACTCGATAAT
ATAAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACATTAA
CTCTCACAATTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTGTACATCAATT
CTTACATTTAAGTCAAAATTTATCTATGACAATTTTGAGCTATAATTATTTTATTATTATTTTTT
ATTTAAAATTTAAATTTATATATCATTAAACACATTTAACAAAGAATATATATTTAAATATTTAC
TTTTCACTAAAATTAAAATTTTTTACTCAATTGACTTGTTACATTAACTTTCACATATTACGTTA
AAATTTAAAATTTAATTATTTCACCTTTATAGGCTTTTACGTCAACTATTACAGTTTTACGTCAA
ATTTATCTTAATTAACATAATATTTTGATATTATAATTATTTATTTAAAAAATAAAATTTATATA
TCGTTAAACACTTTTAGTCCAAGAATATATATTTAAATATTTATTTTTTACTAAAATTAAATTTT
TTTTACTTAATGA
Found at i:4214392 original size:79 final size:79
Alignment explanation
Indices: 4214236--4214408 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 79
4214226 TATTTATTTT
* * *
4214236 TTAAGACAATTTAGAAATAATATCTTAATTAAACCAATTAAGATTTATTTATTGATCATCTAAGT
1 TTAAGATAATTTAGAAATAATATCTTAAATAAACCAATTAAAATTTATTTATTGATCATCTAAGT
*
4214301 TATTTCTAAATAAA
66 TATCTCTAAATAAA
* * * *
4214315 TTAAGATAATTTAGACATAATAT-TTAAATATGACTAATTAAAATTTATTTATTGATCAT-TCGA
1 TTAAGATAATTTAGAAATAATATCTTAAATA-AACCAATTAAAATTTATTTATTGATCATCT-AA
* * *
4214378 TTTATCTCTCAATAAG
64 GTTATCTCTAAATAAA
* *
4214394 TCAATATAATTTAGA
1 TTAAGATAATTTAGA
4214409 GATTAAATCC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 7 0.09
79 72 0.91
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.42
Consensus pattern (79 bp):
TTAAGATAATTTAGAAATAATATCTTAAATAAACCAATTAAAATTTATTTATTGATCATCTAAGT
TATCTCTAAATAAA
Found at i:4221163 original size:20 final size:20
Alignment explanation
Indices: 4221140--4221209 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
4221130 TCATATATTT
4221140 TATTTTTATTTTTATTATAA
1 TATTTTTATTTTTATTATAA
* *
4221160 TA-TTTAATATTTTATTTTAA
1 TATTTTTAT-TTTTATTATAA
* *
4221180 TATATTTATATTTATATTATTA
1 TAT-TTT-TATTTTTATTATAA
4221202 -ATTTTTAT
1 TATTTTTAT
4221210 ATAATATCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 8 0.20
20 17 0.43
21 2 0.05
22 11 0.28
23 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTTTATTTTTATTATAA
Found at i:4221177 original size:25 final size:23
Alignment explanation
Indices: 4221132--4221643 Score: 82
Period size: 21 Copynumber: 22.7 Consensus size: 23
4221122 TTTTAATATC
4221132 ATATATTT-TATTTTTATTTTTATT
1 ATATATTTATA-TTTTA-TTTTATT
4221156 ATAATATTTAATATTTTATTTTA--
1 AT-ATATTT-ATATTTTATTTTATT
*
4221179 ATATATTTATA-TTTATATTATT
1 ATATATTTATATTTTATTTTATT
* ** **
4221201 A-ATTTTTATATAATATCATATT
1 ATATATTTATATTTTATTTTATT
** ** *
4221223 -T-TAAATATATTTT-TAATATC
1 ATATATTTATATTTTATTTTATT
*
4221243 ATATATTTTAT-TTTAATTTATTATT
1 ATATA-TTTATATTTTA-TT-TTATT
* *
4221268 ATAATTTTATATATTTTATTTT-TA
1 AT-ATATT-TATATTTTATTTTATT
*
4221292 ATATATTTATATTTT-TATTATT
1 ATATATTTATATTTTATTTTATT
* ** *
4221314 A-ATTTTTATATAATATCATTTCTT
1 ATATATTTATATTTTAT--TTTATT
* * *
4221338 A-A-ATATAT-TTTTAATGTCA-T
1 ATATATTTATATTTT-ATTTTATT
4221358 ATAT-TTTAT-T-TTATTTATTATT
1 ATATATTTATATTTTA-TT-TTATT
*
4221380 ATAATATTTTATATTTTATTTT-TA
1 AT-ATA-TTTATATTTTATTTTATT
* *
4221404 ATTTATTTATA-TTTATATTATT
1 ATATATTTATATTTTATTTTATT
** **
4221426 A-AT-TTTATATAATATCAATATT
1 ATATATTTATATTTTAT-TTTATT
** ** *
4221448 -TA-AAATATATTTT-TAATATC
1 ATATATTTATATTTTATTTTATT
4221468 ATATATTT-TATTTT-TATTTATT
1 ATATATTTATATTTTAT-TTTATT
*
4221490 ATTATAATTTTATATTTT-TTATTTTT
1 A-TAT-A-TTTATATTTTATT-TTATT
*
4221516 AT-TTTTTAATATATTT-TTTATATT
1 ATATATTT-ATAT-TTTATTT-TATT
*
4221540 ATATATTT-TATTTTAATTTGTTTT
1 ATATATTTATATTTT-ATTT-TATT
*
4221564 ACCTATATTATATAAATTTTAATTT-TT
1 A--TATATT-TAT--ATTTTATTTTATT
4221591 -TATATTT-TATTTTATTTTA--
1 ATATATTTATATTTTATTTTATT
* *
4221610 AT-T-TTTAT-TCTTATATTA-T
1 ATATATTTATATTTTATTTTATT
4221629 ATATATTT-TATTTTA
1 ATATATTTATATTTTA
4221644 ATATTTTTAT
Statistics
Matches: 356, Mismatches: 69, Indels: 129
0.64 0.12 0.23
Matches are distributed among these distances:
18 11 0.03
19 5 0.01
20 41 0.12
21 69 0.19
22 68 0.19
23 31 0.09
24 40 0.11
25 36 0.10
26 33 0.09
27 12 0.03
28 2 0.01
29 3 0.01
30 5 0.01
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATTTATATTTTATTTTATT
Found at i:4221280 original size:10 final size:9
Alignment explanation
Indices: 4221172--4221550 Score: 60
Period size: 8 Copynumber: 43.9 Consensus size: 9
4221162 TTTAATATTT
4221172 TATTTTAATA
1 TATTTT-ATA
*
4221182 TATTTATATT
1 TATTT-TATA
*
4221192 TATATTAT-
1 TATTTTATA
4221200 TAATTTT-TA
1 T-ATTTTATA
**
4221209 TATAATATCA
1 TATTTTAT-A
4221219 TATTTTAAATA
1 TATTTT--ATA
4221230 TATTTT-TA
1 TATTTTATA
* *
4221238 -ATATCATA
1 TATTTTATA
4221246 TA-TTT-TA
1 TATTTTATA
* *
4221253 T-TTTAATT
1 TATTTTATA
4221261 TATTATTATA
1 TATT-TTATA
4221271 -ATTTTATA
1 TATTTTATA
4221279 TATTTTAT-
1 TATTTTATA
*
4221287 T-TTTAATA
1 TATTTTATA
4221295 TA-TTTATA
1 TATTTTATA
4221303 T-TTTTATTA
1 TATTTTA-TA
4221312 TTAATTTT-TA
1 -T-ATTTTATA
**
4221322 TATAATATCA
1 TATTTTAT-A
4221332 T-TTCTTAAATA
1 TATT-TT--ATA
4221343 TATTTT-TA
1 TATTTTATA
* *
4221351 -ATGTCATA
1 TATTTTATA
4221359 TATTTTAT-
1 TATTTTATA
*
4221367 TTTATTTAT-
1 TAT-TTTATA
*
4221376 TATTATA-A
1 TATTTTATA
4221384 TA-TTT-TA
1 TATTTTATA
4221391 TATTTTAT-
1 TATTTTATA
* *
4221399 T-TTTAATT
1 TATTTTATA
*
4221407 TATTTATATT
1 TATTT-TATA
*
4221417 TATATTAT-
1 TATTTTATA
4221425 TAATTTTATA
1 T-ATTTTATA
* *
4221435 TAATATCA-A
1 T-ATTTTATA
*
4221444 TATTTAAAATA
1 TATTT--TATA
4221455 TATTTT-TA
1 TATTTTATA
* *
4221463 -ATATCATA
1 TATTTTATA
4221471 TA-TTT-TA
1 TATTTTATA
*
4221478 T-TTTTATT
1 TATTTTATA
4221486 TATTATTATA
1 TATT-TTATA
4221496 -ATTTTATA
1 TATTTTATA
4221504 T-TTTT-TA
1 TATTTTATA
4221511 T-TTTTAT-
1 TATTTTATA
4221518 T-TTTTAATA
1 TATTTT-ATA
4221527 TATTTT-T-
1 TATTTTATA
*
4221534 TATATTATA
1 TATTTTATA
4221543 TATTTTAT
1 TATTTTAT
4221551 TTTAATTTGT
Statistics
Matches: 268, Mismatches: 46, Indels: 111
0.63 0.11 0.26
Matches are distributed among these distances:
7 52 0.19
8 73 0.27
9 68 0.25
10 47 0.18
11 18 0.07
12 10 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTTTATA
Found at i:4221283 original size:33 final size:33
Alignment explanation
Indices: 4221243--4221554 Score: 113
Period size: 32 Copynumber: 9.6 Consensus size: 33
4221233 TTTTAATATC
4221243 ATATATTTTATTTTAATTTATTATTATAATTTT
1 ATATATTTTATTTTAATTTATTATTATAATTTT
* *
4221276 ATATATTTTATTTTTAATATA-T-TTATATTTTT
1 ATATATTTTA-TTTTAATTTATTATTATAATTTT
* * * * *
4221308 AT-TA-TTAATTTTTATATAATATCAT--TTCTT
1 ATATATTTTATTTTAATTTATTATTATAATT-TT
* * * *
4221338 AAATA-TAT-TTTTAATGTCATATATT-TTATTTT
1 ATATATTTTATTTTAAT-TTAT-TATTATAATTTT
* ** * *
4221370 ATTTATTATTATAATATTTTA-TATT-TTATTTT
1 ATATATT-TTATTTTAATTTATTATTATAATTTT
4221402 -TA-A-TTTA-TTTATATTTA-TATTATTAATTTT
1 ATATATTTTATTTTA-ATTTATTATTA-TAATTTT
* * * * *
4221432 ATATAATATCAATATTTAAAATATATT-TT-TAATATC
1 ATAT-AT-T--TTATTT-TAATTTATTATTATAATTTT
*
4221468 ATATATTTTATTTTTATTTATTATTATAATTTT
1 ATATATTTTATTTTAATTTATTATTATAATTTT
* * * *
4221501 ATATTTTTTATTTTTATTTTTTAATAT-ATTTT
1 ATATATTTTATTTTAATTTATTATTATAATTTT
* *
4221533 TTATATTATATATTTTATTTTA
1 ATATATT-T-TATTTTAATTTA
4221555 ATTTGTTTTA
Statistics
Matches: 206, Mismatches: 44, Indels: 57
0.67 0.14 0.19
Matches are distributed among these distances:
27 2 0.01
28 11 0.05
29 12 0.06
30 20 0.10
31 19 0.09
32 47 0.23
33 45 0.22
34 22 0.11
35 7 0.03
36 9 0.04
37 2 0.01
38 8 0.04
39 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (33 bp):
ATATATTTTATTTTAATTTATTATTATAATTTT
Found at i:4221330 original size:113 final size:114
Alignment explanation
Indices: 4221065--4221516 Score: 728
Period size: 113 Copynumber: 4.0 Consensus size: 114
4221055 AAAATATAAG
* *
4221065 TTTAATATA-TTATATTTTTATTATTAATTTTCATATAATATCATTTCTTAAATATATTTTTAAT
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
4221129 ATCATATATTTTATTTTTATTT-TTATTATAATATTTA-ATATTTTA-T
66 ATCATATATTTTATTTTTATTTATTATTATAATATTTATATATTTTATT
4221175 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATATT-TTAAATATATTTTTAA
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCAT-TTCTTAAATATATTTTTAA
*
4221239 TATCATATATTTTATTTTAATTTATTATTATAAT-TTTATATATTTTATT
65 TATCATATATTTTATTTTTATTTATTATTATAATATTTATATATTTTATT
*
4221288 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
*
4221353 GTCATATATTTTA-TTTTATTTATTATTATAATATTT-TATATTTTATT
66 ATCATATATTTTATTTTTATTTATTATTATAATATTTATATATTTTATT
* *
4221400 TTTAATTTATTTATATTTATATTATTAA-TTTTATATAATATCAATATT-TAAAATATATTTTTA
1 TTTAATATATTTATATTTATATTATTAATTTTTATATAATATC-AT-TTCTTAAATATATTTTTA
*
4221463 ATATCATATATTTTATTTTTATTTATTATTATAAT-TTTATATTTTTTATT
64 ATATCATATATTTTATTTTTATTTATTATTATAATATTTATATATTTTATT
4221513 TTTA
1 TTTA
4221517 TTTTTTAATA
Statistics
Matches: 320, Mismatches: 11, Indels: 19
0.91 0.03 0.05
Matches are distributed among these distances:
110 9 0.03
111 89 0.28
112 110 0.34
113 112 0.35
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (114 bp):
TTTAATATATTTATATTTATATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAAT
ATCATATATTTTATTTTTATTTATTATTATAATATTTATATATTTTATT
Found at i:4221484 original size:6 final size:6
Alignment explanation
Indices: 4221473--4221521 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
4221463 ATATCATATA
* *
4221473 TTTTAT TTTTAT TTATTAT TATAAT TTTATATT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTT-TA-T TTTTAT TTTTAT TTTT
4221522 TAATATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 24 0.67
7 8 0.22
8 4 0.11
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:4221564 original size:54 final size:52
Alignment explanation
Indices: 4221478--4221660 Score: 139
Period size: 55 Copynumber: 3.5 Consensus size: 52
4221468 ATATATTTTA
* *
4221478 TTTTTAT-TTATTATTATAATTTT-ATATTTTTTATTTTTATTTTTTAATATAT
1 TTTTTATATTATTATT-TTATTTTAAT-TTTTTTATTTTTATTTATTAATATAT
** * * *
4221530 TTTTTATATTATATATTTTATTTTAATTTGTTTTACCTATATTATATAAATTTTAAT
1 TTTTTATATTAT-TATTTTATTTTAATTT-TTTTATTTTTATT-TATTAA-TAT-AT
*
4221587 TTTTTATATT-TTATTTTATTTTAA--TTTTTATTCTTA--TATT-ATATAT
1 TTTTTATATTATTATTTTATTTTAATTTTTTTATTTTTATTTATTAATATAT
* * *
4221633 ATTTTATTTTAATATTTTTATTTTAATT
1 TTTTTATATTATTA-TTTTATTTTAATT
4221661 ATAATATTAT
Statistics
Matches: 104, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
46 10 0.10
47 4 0.04
48 12 0.12
49 3 0.03
52 14 0.13
53 13 0.12
54 16 0.15
55 17 0.16
56 3 0.03
57 12 0.12
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (52 bp):
TTTTTATATTATTATTTTATTTTAATTTTTTTATTTTTATTTATTAATATAT
Found at i:4221594 original size:24 final size:25
Alignment explanation
Indices: 4221567--4221615 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4221557 TTGTTTTACC
4221567 TATATTATA-TAAATTTTAATTTTT
1 TATATTATATTAAATTTTAATTTTT
* **
4221591 TATATTTTATTTTATTTTAATTTTT
1 TATATTATATTAAATTTTAATTTTT
4221616 ATTCTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
TATATTATATTAAATTTTAATTTTT
Found at i:4221638 original size:34 final size:33
Alignment explanation
Indices: 4221598--4221668 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 33
4221588 TTTTATATTT
4221598 TATTTTATTTT-A-ATTTTTATTCTTATATTATATA
1 TATTTTATTTTAATATTTTTATT-TTA-ATTATA-A
4221632 TATTTTATTTTAATATTTTTATTTTAATTATAA
1 TATTTTATTTTAATATTTTTATTTTAATTATAA
4221665 TATT
1 TATT
4221669 ATAAAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
33 5 0.14
34 17 0.49
35 4 0.11
36 9 0.26
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (33 bp):
TATTTTATTTTAATATTTTTATTTTAATTATAA
Found at i:4221638 original size:89 final size:83
Alignment explanation
Indices: 4221486--4221645 Score: 209
Period size: 89 Copynumber: 1.9 Consensus size: 83
4221476 TATTTTTATT
4221486 TATTATTATAATTTTATATTTTTTATTTTTATTTTTTAATATATTTTTTATATTATATATTTTAT
1 TATTATTATAATTTTATATTTTTTATTTTTATTTTTTAATATATTTTTTATATTATATATTTTAT
4221551 TTTAATTTGTTTTACCTA
66 TTTAATTTGTTTTACCTA
*
4221569 TATTA-TATAAATTTTA-ATTTTTTATATTTTATTTTATTTTAAT-TTTTATTCTTATATTATAT
1 TATTATTAT-AATTTTATATTTTTTAT-TTTTA--TT-TTTTAATATATT-TT-TTATA-T-TAT
4221631 ATATTTTATTTTAAT
57 ATATTTTATTTTAAT
4221646 ATTTTTATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 12
0.84 0.01 0.15
Matches are distributed among these distances:
82 12 0.18
83 17 0.25
85 5 0.07
86 9 0.13
87 5 0.07
88 1 0.01
89 18 0.27
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (83 bp):
TATTATTATAATTTTATATTTTTTATTTTTATTTTTTAATATATTTTTTATATTATATATTTTAT
TTTAATTTGTTTTACCTA
Found at i:4221663 original size:39 final size:37
Alignment explanation
Indices: 4221579--4221671 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 37
4221569 TATTATATAA
* *
4221579 ATTTTAATT-TTTTATATTTTATTTTATTTTAATTTTT
1 ATTTTAATTATATTATA-TATATTTTATTTTAATTTTT
*
4221616 A--TT-CTTATATTATATATATTTTATTTTAATATTTTT
1 ATTTTAATTATATTATATATATTTTATTTT-A-ATTTTT
*
4221652 ATTTTAATTATAATAT-TATA
1 ATTTTAATTATATTATATATA
4221672 AAATATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
34 14 0.31
35 9 0.20
36 7 0.16
37 1 0.02
38 6 0.13
39 8 0.18
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (37 bp):
ATTTTAATTATATTATATATATTTTATTTTAATTTTT
Found at i:4222211 original size:17 final size:19
Alignment explanation
Indices: 4222180--4222219 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
4222170 AGTTGTTTAA
4222180 TTTTTGCTTATTTTAACTT
1 TTTTTGCTTATTTTAACTT
*
4222199 TTTTTGC-TA-TTTAGCTT
1 TTTTTGCTTATTTTAACTT
4222216 TTTT
1 TTTT
4222220 GTCAAGCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTGCTTATTTTAACTT
Found at i:4228270 original size:79 final size:79
Alignment explanation
Indices: 4228184--4228358 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 79
4228174 TTATTCTTTG
* * * * *
4228184 AGATAATTTAGAGATAATATCTT-AACTAAACCAATTAAGATTTATTTATTGGTTATTCAAGTTA
1 AGATAATTTAAACATAATAT-TTAAACTAAACCAATTAAAATTTATTTATTGATCATTCAAGTTA
*
4228248 TCTCTAAATAAATTA
65 TCTCTAAATAAATCA
* ** * *
4228263 AGATAATTTAAACATAATATTTAAATTTGACCACTTAAAATTTATTTATTGATCATTCAATTTAT
1 AGATAATTTAAACATAATATTTAAACTAAACCAATTAAAATTTATTTATTGATCATTCAAGTTAT
4228328 CTCTAAATAAATCA
66 CTCTAAATAAATCA
* *
4228342 AAATAATTTAAAAATAA
1 AGATAATTTAAACATAA
4228359 AATACAAATT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 2 0.02
79 80 0.98
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (79 bp):
AGATAATTTAAACATAATATTTAAACTAAACCAATTAAAATTTATTTATTGATCATTCAAGTTAT
CTCTAAATAAATCA
Found at i:4230584 original size:76 final size:77
Alignment explanation
Indices: 4230458--4230606 Score: 187
Period size: 76 Copynumber: 1.9 Consensus size: 77
4230448 ACGAGGAAAT
* * * * *
4230458 AAAATGCCAAGATTGCATGACTCAAAGTTGTCTCATGGATGAACTTTAA-T-TTCAATTGGTGTT
1 AAAATGCCAAGATTGCATGACACAAAATTGTCTCAAGAATGAACTTTAATTATTCAA-TGGTGTC
4230521 AAGACAAACAAAA
65 AAGACAAACAAAA
* *
4230534 AAAATGTCAAGATTGCATGAGACAAAATTGTCTCAAGAATGAA-TTATAATTAATTCAATGGTGT
1 AAAATGCCAAGATTGCATGACACAAAATTGTCTCAAGAATGAACTT-TAATT-ATTCAATGGTGT
4230598 CAAGACAAA
64 CAAGACAAA
4230607 ATATGTCAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
75 2 0.03
76 40 0.65
77 1 0.02
78 14 0.23
79 5 0.08
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (77 bp):
AAAATGCCAAGATTGCATGACACAAAATTGTCTCAAGAATGAACTTTAATTATTCAATGGTGTCA
AGACAAACAAAA
Found at i:4231823 original size:124 final size:125
Alignment explanation
Indices: 4231602--4231826 Score: 321
Period size: 124 Copynumber: 1.8 Consensus size: 125
4231592 CCCTTAAAAT
* * * *
4231602 GAAGATTTTAAAGATCCAAAGCCTTTCTGGTTTCCATAAATTTAAGAAGAAAGATCTAAAGACCA
1 GAAGATTTTAAAGATCCAAAGCCTCTCTAGTTTCCACAAATTCAAGAAGAAAGATCTAAAGACCA
*
4231667 AAGCCTCTAAAGTTCCACTTATATAATAAGGAAGATTTGACGACCAAAGGCTTTTCAGAA
66 AAGCCTCTAAAGTTCCACATATATAATAAGGAAGATTTGACGACCAAAGGCTTTTCAGAA
* * *
4231727 GAAGATTTTGAATATCCAAAGCCTCTCTAAG-TT-CACAAATTCAAGAAGGAAGATCTAAAGACC
1 GAAGATTTTAAAGATCCAAAGCCTCTCT-AGTTTCCACAAATTCAAGAAGAAAGATCTAAAGACC
* *
4231790 AAAGCCTCTAGAGTTCCACATATCT-ATGAAGGAAGAT
65 AAAGCCTCTAAAGTTCCACATATATAAT-AAGGAAGAT
4231827 CTGAAGATCA
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
123 2 0.02
124 58 0.66
125 27 0.31
126 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (125 bp):
GAAGATTTTAAAGATCCAAAGCCTCTCTAGTTTCCACAAATTCAAGAAGAAAGATCTAAAGACCA
AAGCCTCTAAAGTTCCACATATATAATAAGGAAGATTTGACGACCAAAGGCTTTTCAGAA
Found at i:4231861 original size:48 final size:47
Alignment explanation
Indices: 4231742--4231901 Score: 184
Period size: 48 Copynumber: 3.4 Consensus size: 47
4231732 TTTTGAATAT
* *
4231742 CCAAAGCCTCTCTA-AG-TTCACAAATTCAAGAAGGAAGATCTAAAGA
1 CCAAAG-CTCTCTAGAGTTTCACATATCCAAGAAGGAAGATCTAAAGA
* * * *
4231788 CCAAAGC-CTCTAGAGTTCCACATATCTATGAAGGAAGATCTGAAGA
1 CCAAAGCTCTCTAGAGTTTCACATATCCAAGAAGGAAGATCTAAAGA
* *
4231834 TCAAAGCATCTCTAGAGTTTCACATATCCAAGATGGAAGATCTAAAGA
1 CCAAAGC-TCTCTAGAGTTTCACATATCCAAGAAGGAAGATCTAAAGA
*
4231882 CCAAAGCCTTTCTAGA-TTTC
1 CCAAAG-CTCTCTAGAGTTTC
4231902 CAATTTACAA
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
44 5 0.05
45 3 0.03
46 36 0.38
47 4 0.04
48 46 0.48
49 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (47 bp):
CCAAAGCTCTCTAGAGTTTCACATATCCAAGAAGGAAGATCTAAAGA
Found at i:4231972 original size:30 final size:29
Alignment explanation
Indices: 4231931--4232036 Score: 135
Period size: 28 Copynumber: 3.7 Consensus size: 29
4231921 CTACAGAACT
4231931 AAGATTCTAAAGATCAAAGCCTCAAGAAGG
1 AAGATTCTAAAGATCAAAGCCTC-AGAAGG
*
4231961 AAGATTTTAAAGATCAAAGCCTC-GAAGG
1 AAGATTCTAAAGATCAAAGCCTCAGAAGG
* * *
4231989 AAGATTCTAAAGGTCAAAACTTCA-AAGG
1 AAGATTCTAAAGATCAAAGCCTCAGAAGG
* *
4232017 AAAATTTTAAAGATCAAAGC
1 AAGATTCTAAAGATCAAAGC
4232037 ATTTAGAGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 44 0.67
30 22 0.33
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (29 bp):
AAGATTCTAAAGATCAAAGCCTCAGAAGG
Found at i:4232374 original size:49 final size:49
Alignment explanation
Indices: 4232269--4232374 Score: 126
Period size: 49 Copynumber: 2.1 Consensus size: 49
4232259 GCGAAGTCTC
* **
4232269 CAAATTATTCATTTTCAAGATCAAGTCACAAGTCCCTTGAAATGAAGTCT
1 CAAATTATTCA-TTTCAAGATCAAGTCACAAGACCCTTGAAATGAAACCT
*
4232319 CTAAATTATTCA-TTCAAGATCAAGTCACAAGACGCTT-AAAGTGAAACCTT
1 C-AAATTATTCATTTCAAGATCAAGTCACAAGACCCTTGAAA-TGAAACC-T
4232369 CAAATT
1 CAAATT
4232375 GTTCTTAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
48 3 0.06
49 33 0.67
50 3 0.06
51 10 0.20
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (49 bp):
CAAATTATTCATTTCAAGATCAAGTCACAAGACCCTTGAAATGAAACCT
Found at i:4232968 original size:2 final size:2
Alignment explanation
Indices: 4232961--4232988 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4232951 CGTAAAGTGC
4232961 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
4232989 GGATGCTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4236609 original size:21 final size:22
Alignment explanation
Indices: 4236571--4236622 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
4236561 AAATGACAAA
* *
4236571 AATATTTT-TATTATAATATTT
1 AATATTTTAAATTAAAATATTT
4236592 AAT-TTTTAAATTAAAATATTT
1 AATATTTTAAATTAAAATATTT
*
4236613 ATTATTTTAA
1 AATATTTTAA
4236623 TAATTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 16 0.62
22 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATATTTTAAATTAAAATATTT
Found at i:4236726 original size:27 final size:29
Alignment explanation
Indices: 4236667--4236732 Score: 93
Period size: 27 Copynumber: 2.4 Consensus size: 29
4236657 AACTTTAATG
*
4236667 TAATTATTTA-TTTTAATTTATAGAATAT
1 TAATAATTTATTTTTAATTTATAGAATAT
*
4236695 TAATAATTTATTTTTCATTTA-A-AATAT
1 TAATAATTTATTTTTAATTTATAGAATAT
4236722 TAATAATTTAT
1 TAATAATTTAT
4236733 CATTAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 16 0.46
28 10 0.29
29 9 0.26
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (29 bp):
TAATAATTTATTTTTAATTTATAGAATAT
Found at i:4236745 original size:22 final size:23
Alignment explanation
Indices: 4236704--4236746 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4236694 TTAATAATTT
* *
4236704 ATTTTTCATTTAAAATATTAATA
1 ATTTATCATTTAAAAAATTAATA
4236727 ATTTATCA-TTAAAAAATTAA
1 ATTTATCATTTAAAAAATTAA
4236747 CATCATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTATCATTTAAAAAATTAATA
Found at i:4247896 original size:118 final size:118
Alignment explanation
Indices: 4247684--4247897 Score: 358
Period size: 118 Copynumber: 1.8 Consensus size: 118
4247674 TATAAATGAA
*
4247684 TTCCTATTCTTTCAACAAAAACCCAAAATCCCCCTACCAAATTCCTCAATCTCTCTCTTAGAGTT
1 TTCCTATTCTTTCAACAAAAACCCAAAATCCCCCTACCAAATTCCTCAATCTCTCTCATAGAGTT
4247749 TCAACAATTTCTCTCTCTTAGGGTCTCAGAAAGATACAGCGTTTTGGTTTGAG
66 TCAACAATTTCTCTCTCTTAGGGTCTCAGAAAGATACAGCGTTTTGGTTTGAG
**
4247802 TTCCTATTCTTTCAACAAAAACCTGAAATCCCCCTACCAAATTCCTCAATCTCTCTCATAG-GAT
1 TTCCTATTCTTTCAACAAAAACCCAAAATCCCCCTACCAAATTCCTCAATCTCTCTCATAGAG-T
* * *
4247866 TTCAGCAATTTCTGTCTCTTAGGGTTTCAGAA
65 TTCAACAATTTCTCTCTCTTAGGGTCTCAGAA
4247898 CAATTTTATT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
117 1 0.01
118 88 0.99
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (118 bp):
TTCCTATTCTTTCAACAAAAACCCAAAATCCCCCTACCAAATTCCTCAATCTCTCTCATAGAGTT
TCAACAATTTCTCTCTCTTAGGGTCTCAGAAAGATACAGCGTTTTGGTTTGAG
Found at i:4254618 original size:23 final size:21
Alignment explanation
Indices: 4254589--4254834 Score: 109
Period size: 23 Copynumber: 11.2 Consensus size: 21
4254579 TAATTATATT
4254589 TATATTTATTATTAATTTTATA
1 TATATTTATTATTAATTTT-TA
* *
4254611 TAATATTTTCTTAAATATATTTTTA
1 T-ATA-TTTATT-ATTA-ATTTTTA
* *
4254636 TATCA-ATATTATTTATTTTTA
1 TAT-ATTTATTATTAATTTTTA
*
4254657 TTTA-TTATTA-TAATATTTTA
1 TATATTTATTATTAAT-TTTTA
*
4254677 TAT-TTTATTTTTAATATATTTA
1 TATATTTATTATTAAT-T-TTTA
*
4254699 TATTTTTATTATTAATTTTTA
1 TATATTTATTATTAATTTTTA
*
4254720 TATA---A-TA-TCATTTCTTA
1 TATATTTATTATTAATTT-TTA
*
4254737 AATATTT-TTAATGTCATATATTTTA
1 TATATTTATT-AT-T-A-AT-TTTTA
*
4254762 TTTTTATTTATTATTATAATATTTT-
1 --TATATTTATTA-T-TAAT-TTTTA
* *
4254787 TATATTTATTTTTAATATATTA
1 TATATTTATTATTAAT-TTTTA
4254809 TATATTTTATTATTAATTTTTA
1 TATA-TTTATTATTAATTTTTA
4254831 TATA
1 TATA
4254835 ATATCAATTT
Statistics
Matches: 173, Mismatches: 24, Indels: 54
0.69 0.10 0.22
Matches are distributed among these distances:
16 5 0.03
17 8 0.05
18 1 0.01
19 3 0.02
20 19 0.11
21 31 0.18
22 24 0.14
23 38 0.22
24 7 0.04
25 12 0.07
26 14 0.08
27 7 0.04
28 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TATATTTATTATTAATTTTTA
Found at i:4254791 original size:34 final size:30
Alignment explanation
Indices: 4254753--4255166 Score: 125
Period size: 30 Copynumber: 13.4 Consensus size: 30
4254743 TTTAATGTCA
*
4254753 TATATTTTATTTTTATTTATTATTATAATATTTT
1 TATA-TTTATTTTTA-ATA-TATTAT-ATATTTT
4254787 TATATTTATTTTTAATATATTATATA-TTT
1 TATATTTATTTTTAATATATTATATATTTT
* *
4254816 TATTATTAATTTTT-ATATAATATCA-ATTTT
1 TA-TATTTATTTTTAATATATTAT-ATATTTT
* * *
4254846 TAAATATA-TTTTAATATCA-TATATTTTATT
1 TATATTTATTTTTAATAT-ATTATATATT-TT
* * *
4254876 TTTATTTATTATTATAATTTATTATTTTATTTTT
1 TATATTTATT-TT-TAATATATTA-TATA-TTTT
4254910 TATATATTATATGTTT-AT-TATTA-AT-TTTT
1 TATAT-TTAT-T-TTTAATATATTATATATTTT
* * **
4254939 ATATAATATCATTTCTTAAATATATT-TTTAATGTCA
1 -TAT-AT-TTATTT-TT-AATATATTATAT-AT-TTT
*
4254975 TATATTTATTTATTTAT-TATTATA-ATATTT
1 TATATTTATTT-TTAATATATTATATAT-TTT
*
4255005 TATATTT-TATTTTAATATATT-TATATTTA
1 TATATTTAT-TTTTAATATATTATATATTTT
* *
4255034 TATTATTAATTTTT-AT-TAATATCATA-TTT
1 TA-TATTTATTTTTAATATATTAT-ATATTTT
* * *
4255063 TAAATATATTTTTAATGTCA-TATAT-TTATT
1 TATATTTATTTTTAATAT-ATTATATATT-TT
* * * *
4255093 TTTATTTATTATT-ATA-ATTTTATATATT
1 TATATTTATTTTTAATATATTATATATTTT
* * *
4255121 TAT-TTTCATTTCTTTAATATATTTTTTATATTA
1 TATATTT-A-TT-TTTAATATATTATATAT-TTT
4255154 TATATTTTATTTT
1 TATA-TTTATTTT
4255167 AATTTTTTTA
Statistics
Matches: 285, Mismatches: 47, Indels: 98
0.66 0.11 0.23
Matches are distributed among these distances:
27 4 0.01
28 25 0.09
29 59 0.21
30 79 0.28
31 23 0.08
32 20 0.07
33 40 0.14
34 17 0.06
35 14 0.05
36 4 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (30 bp):
TATATTTATTTTTAATATATTATATATTTT
Found at i:4254959 original size:109 final size:111
Alignment explanation
Indices: 4254577--4255126 Score: 787
Period size: 111 Copynumber: 5.0 Consensus size: 111
4254567 AAAATATAAG
* * *
4254577 TTTAATTATATT-TATATTTATTATTAA-TTTTATATAATAT--TTTCTTAAATATATTTTTATA
1 TTTAA-TATATTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTAATG
4254638 TCA-ATATTATTTATTTTTATTTATTATTATAATATTTTATATTTTATT
65 TCATATA-T-TTTATTTTTATTTATTATTATAATATTTTATATTTTATT
4254686 TTTAATATATTTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATAT-TTTTAATG
1 TTTAATATA-TTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTAATG
4254750 TCATATATTTTATTTTTATTTATTATTATAATATTTT-TATATTTATT
65 TCATATATTTTATTTTTATTTATTATTATAATATTTTATAT-TTTATT
4254797 TTTAATATATTATATATTTTATTATTAATTTTTATATAATATCAATTT-TTAAATATATTTTAAT
1 TTTAATATATTATAT-TTTTATTATTAATTTTTATATAATATC-ATTTCTTAAATATATTTTAAT
* *
4254861 ATCATATATTTTATTTTTATTTATTATTATAAT-TTAT-TATTTTATT
64 GTCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
* *
4254907 TTTTATATATTATATGTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTTAATG
1 TTTAATATATTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATA-TTTTAATG
4254972 TCATATA-TTTA--TTTATTTATTATTATAATATTTTATATTTTA-T
65 TCATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
*
4255015 TTTAATATATTTATATTTATATTATTAATTTTTAT-TAATATCATATT-TTAAATATATTTTTAA
1 TTTAATATA-TTATATTTTTATTATTAATTTTTATATAATATCAT-TTCTTAAATATA-TTTTAA
4255078 TGTCATATA-TTTATTTTTATTTATTATTAT-A-ATTTTATATATTTATT
63 TGTCATATATTTTATTTTTATTTATTATTATAATATTTTATAT-TTTATT
4255125 TT
1 TT
4255127 CATTTCTTTA
Statistics
Matches: 409, Mismatches: 12, Indels: 39
0.89 0.03 0.08
Matches are distributed among these distances:
107 18 0.04
108 67 0.16
109 83 0.20
110 75 0.18
111 98 0.24
112 53 0.13
113 15 0.04
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (111 bp):
TTTAATATATTATATTTTTATTATTAATTTTTATATAATATCATTTCTTAAATATATTTTAATGT
CATATATTTTATTTTTATTTATTATTATAATATTTTATATTTTATT
Found at i:4255118 original size:32 final size:32
Alignment explanation
Indices: 4255082--4255165 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
4255072 TTTTAATGTC
*
4255082 ATATATTTATTTTTATTTA-TTATTATAATTTT
1 ATATATTTATTTTTATTTATTTAATAT-ATTTT
* *
4255114 ATATATTTATTTTCATTTCTTTAATATATTTT
1 ATATATTTATTTTTATTTATTTAATATATTTT
*
4255146 TTATATTATATATTTTATTT
1 ATATATT-TAT-TTTTATTT
4255166 TAATTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
32 28 0.64
33 9 0.20
34 7 0.16
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (32 bp):
ATATATTTATTTTTATTTATTTAATATATTTT
Found at i:4255236 original size:30 final size:31
Alignment explanation
Indices: 4255202--4255274 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
4255192 TGTTAATTTT
* *
4255202 TTATATTTTATTTTTATTTTAAT-TTTTATC
1 TTATATTATATATTTATTTTAATATTTTATC
*
4255232 TTATATTATATATTTATTTTAATATTTTATT
1 TTATATTATATATTTATTTTAATATTTTATC
4255263 TTA-ATTATATAT
1 TTATATTATATAT
4255275 ATAAAATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 30 0.77
31 9 0.23
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (31 bp):
TTATATTATATATTTATTTTAATATTTTATC
Found at i:4255260 original size:56 final size:56
Alignment explanation
Indices: 4255144--4255261 Score: 150
Period size: 56 Copynumber: 2.1 Consensus size: 56
4255134 TTAATATATT
* *
4255144 TTTTATATTATATATTTTATTTTAATTTTTTTACCTATATTATATAAATGTTAATT
1 TTTTATATTATATATTTTATTTTAATTTTTATACCTATATTATATAAATGTTAATA
* * * *
4255200 TTTTATATTTTAT-TTTTATTTTAATTTTTAT-CTTATATTATATATTTATTTTAATA
1 TTTTATATTATATATTTTATTTTAATTTTTATACCTATATTATATA--AATGTTAATA
4255256 TTTTAT
1 TTTTAT
4255262 TTTAATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
54 12 0.22
55 17 0.31
56 25 0.46
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.67
Consensus pattern (56 bp):
TTTTATATTATATATTTTATTTTAATTTTTATACCTATATTATATAAATGTTAATA
Found at i:4255266 original size:13 final size:12
Alignment explanation
Indices: 4255194--4255268 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 12
4255184 TATATAAATG
4255194 TTAATTTTTTATAT
1 TTAA-TTTTTAT-T
*
4255208 TTTATTTTTATT
1 TTAATTTTTATT
4255220 TTAATTTTTATCT
1 TTAATTTTTAT-T
4255233 TATATTATATATTTATT
1 T-TA--AT-T-TTTATT
4255250 TTAATATTTTATT
1 TTAAT-TTTTATT
4255263 TTAATT
1 TTAATT
4255269 ATATATATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
12 12 0.23
13 20 0.38
14 9 0.17
16 4 0.08
17 3 0.06
18 5 0.09
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (12 bp):
TTAATTTTTATT
Found at i:4259164 original size:63 final size:63
Alignment explanation
Indices: 4259086--4259205 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
4259076 ATCTTTCTCT
* * * * *
4259086 CTCAGCTCTGTGAACTATATCGA-CTCTGTTAACTCTCTATTAAGCACCATTGTCATCAAGTTG
1 CTCAACTCTCTGAACTATAT-GAGCTCTGTCAACTATCTATTAAGCACCATCGTCATCAAGTTG
* * *
4259149 CTCAACTCTCTGAACTGTATGAGCTCTGTCAACTATCTGTTGAGCACCATCGTCATC
1 CTCAACTCTCTGAACTATATGAGCTCTGTCAACTATCTATTAAGCACCATCGTCATC
4259206 GTGCTGTGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 2 0.04
63 46 0.96
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (63 bp):
CTCAACTCTCTGAACTATATGAGCTCTGTCAACTATCTATTAAGCACCATCGTCATCAAGTTG
Found at i:4259616 original size:13 final size:13
Alignment explanation
Indices: 4259598--4259622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4259588 GTTTGAGGGC
4259598 TTGAAGAAGTTGG
1 TTGAAGAAGTTGG
4259611 TTGAAGAAGTTG
1 TTGAAGAAGTTG
4259623 TTAGGGTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (13 bp):
TTGAAGAAGTTGG
Found at i:4265076 original size:31 final size:31
Alignment explanation
Indices: 4265041--4265256 Score: 299
Period size: 31 Copynumber: 7.0 Consensus size: 31
4265031 AAAACAACAC
* *
4265041 AAAGGTGGTGACACGTCATGCACAACAAGTA
1 AAAGGTGGTGACACGCCATGCATAACAAGTA
*
4265072 AAAGGTAGTGACACGCCATGCATAACAAGTA
1 AAAGGTGGTGACACGCCATGCATAACAAGTA
* * * *
4265103 AAAGGTTGTGATACACCATGCATAAGAAGTA
1 AAAGGTGGTGACACGCCATGCATAACAAGTA
*
4265134 AAATGTGGTGACACGCCATGCATAACAAGTA
1 AAAGGTGGTGACACGCCATGCATAACAAGTA
* *
4265165 AAAGGTCGTGACATGCCATGCATAACAAGTA
1 AAAGGTGGTGACACGCCATGCATAACAAGTA
*
4265196 AAAGGTCGTGACACGCCATGCATAACAAGTA
1 AAAGGTGGTGACACGCCATGCATAACAAGTA
* *
4265227 AAATGTGGTCACACGCCAAT-CATAACAAGT
1 AAAGGTGGTGACACGCC-ATGCATAACAAGT
4265257 CAAATGTCGC
Statistics
Matches: 165, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
31 163 0.99
32 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (31 bp):
AAAGGTGGTGACACGCCATGCATAACAAGTA
Found at i:4265215 original size:93 final size:93
Alignment explanation
Indices: 4265045--4265303 Score: 340
Period size: 93 Copynumber: 2.8 Consensus size: 93
4265035 CAACACAAAG
* * * * *
4265045 GTGGTGACACGTCATGCACAACAAGTAAAAGGTAGTGACACGCCATGCATAACAAGTAAAAGGTT
1 GTGGTGACACGCCATGCATAACAAGTAAAAGGTCGTGACAAGCCATGCATAACAAGTAAAAGGTC
* * *
4265110 GTGATACACCATGCATAAGAAGTAAAAT
66 GTGACACGCCATGCATAACAAGTAAAAT
*
4265138 GTGGTGACACGCCATGCATAACAAGTAAAAGGTCGTGACATGCCATGCATAACAAGTAAAAGGTC
1 GTGGTGACACGCCATGCATAACAAGTAAAAGGTCGTGACAAGCCATGCATAACAAGTAAAAGGTC
4265203 GTGACACGCCATGCATAACAAGTAAAAT
66 GTGACACGCCATGCATAACAAGTAAAAT
* * * * ** * **
4265231 GTGGTCACACGCCAAT-CATAACAAGTCAAATGTCGCGACAAGCTTTGCATAACAAGTCAAATAT
1 GTGGTGACACGCC-ATGCATAACAAGTAAAAGGTCGTGACAAGCCATGCATAACAAGTAAAAGGT
4265295 CGTGACACG
65 CGTGACACG
4265304 ATATGCAGTC
Statistics
Matches: 147, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
93 145 0.99
94 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (93 bp):
GTGGTGACACGCCATGCATAACAAGTAAAAGGTCGTGACAAGCCATGCATAACAAGTAAAAGGTC
GTGACACGCCATGCATAACAAGTAAAAT
Found at i:4265262 original size:31 final size:31
Alignment explanation
Indices: 4265048--4265303 Score: 298
Period size: 31 Copynumber: 8.3 Consensus size: 31
4265038 CACAAAGGTG
* * * *
4265048 GTGACACGTCATGCACAACAAGTAAAAGGTA
1 GTGACACGCCATGCATAACAAGTAAAATGTC
* *
4265079 GTGACACGCCATGCATAACAAGTAAAAGGTT
1 GTGACACGCCATGCATAACAAGTAAAATGTC
* * * *
4265110 GTGATACACCATGCATAAGAAGTAAAATGTG
1 GTGACACGCCATGCATAACAAGTAAAATGTC
*
4265141 GTGACACGCCATGCATAACAAGTAAAAGGTC
1 GTGACACGCCATGCATAACAAGTAAAATGTC
* *
4265172 GTGACATGCCATGCATAACAAGTAAAAGGTC
1 GTGACACGCCATGCATAACAAGTAAAATGTC
*
4265203 GTGACACGCCATGCATAACAAGTAAAATGTG
1 GTGACACGCCATGCATAACAAGTAAAATGTC
* *
4265234 GTCACACGCCAAT-CATAACAAGTCAAATGTC
1 GTGACACGCC-ATGCATAACAAGTAAAATGTC
* * ** * *
4265265 GCGACAAGCTTTGCATAACAAGTCAAATATC
1 GTGACACGCCATGCATAACAAGTAAAATGTC
4265296 GTGACACG
1 GTGACACG
4265304 ATATGCAGTC
Statistics
Matches: 195, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
30 1 0.01
31 192 0.98
32 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (31 bp):
GTGACACGCCATGCATAACAAGTAAAATGTC
Found at i:4265989 original size:22 final size:21
Alignment explanation
Indices: 4265914--4265993 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 21
4265904 CTCTGAACAC
4265914 TGGCGTGTCACAGATTCCTCCTA
1 TGGCGTGTCACA-ATTCCTCC-A
*
4265937 TGGCGTGTCACAA-ACCTGAACC-
1 TGGCGTGTCACAATTCCT---CCA
* *
4265959 TGTCATGTCACAATTCCCTCCA
1 TGGCGTGTCACAATT-CCTCCA
4265981 TGGCGTGTCACAA
1 TGGCGTGTCACAA
4265994 ACTCTGAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
21 5 0.11
22 23 0.51
23 12 0.27
24 5 0.11
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (21 bp):
TGGCGTGTCACAATTCCTCCA
Found at i:4266037 original size:47 final size:46
Alignment explanation
Indices: 4265828--4266420 Score: 451
Period size: 47 Copynumber: 12.9 Consensus size: 46
4265818 ACACACATGG
*
4265828 CGTGTCACAGATTCTCT-CAGTGCGTGTCAC-AACT-TG-A-ACGTGT
1 CGTGTCACAGATTCCCTCCA-TGCGTGTCACAAACTCTGAATAC-TGT
** ** * * *
4265871 CGTGTCACA-AAGCTTTCGC-TGCCGTGTCACCAACTCTGAACACTGG
1 CGTGTCACAGATTCCCTC-CATG-CGTGTCACAAACTCTGAATACTGT
*
4265917 CGTGTCACAGATT-CCTCCTATGGCGTGTCACAAAC-CTGAA-CCTGT
1 CGTGTCACAGATTCCCTCC-AT-GCGTGTCACAAACTCTGAATACTGT
* *
4265962 CATGTCACA-ATTCCCTCCATGGCGTGTCACAAACTCTGAATATTGT
1 CGTGTCACAGATTCCCTCCAT-GCGTGTCACAAACTCTGAATACTGT
* * **
4266008 CGTGTCACAGATTCCATCCATGCTATGT--CAAACTCTGAACT-CTAA
1 CGTGTCACAGATTCCCTCCATGC-GTGTCACAAACTCTGAA-TACTGT
* * * * * *
4266053 CGTGTCATAGATTCCCTCCATGCCGTGTCACTAACTTTAAACATTAG-
1 CGTGTCACAGATTCCCTCCATG-CGTGTCACAAACTCTGAATACT-GT
* *
4266100 CGTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTGAACACTAGT
1 CGTGTCACAGATTCCCTCCATG-CGTGTCACAAACTCTGAATACT-GT
* * **
4266148 -GTGTCACAGATTCTCTTCATGACGTGTCACAAACT-TGAACCCTGT
1 CGTGTCACAGATTCCCTCCATG-CGTGTCACAAACTCTGAATACTGT
* *
4266193 AGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTAAATACTGT
1 CGTGTCACAGATTCCCTCCAT-GCGTGTCACAAACTCTGAATACTGT
* * *
4266240 CATGTCACAGATTCCATCCATGCCATGT--CAAACTCTGAACT-CTGAT
1 CGTGTCACAGATTCCCTCCATG-CGTGTCACAAACTCTGAA-TACTG-T
* *
4266286 -GTGTCACAGATTCCCTCCATGTGATGTCACAAACTATGAACT-CTAG-
1 CGTGTCACAGATTCCCTCCATGCG-TGTCACAAACTCTGAA-TACT-GT
* * *
4266332 AGTGTCACAGATTCTCTCCATGACGTGTCACAAACTCTGAACT-CTGG
1 CGTGTCACAGATTCCCTCCATG-CGTGTCACAAACTCTGAA-TACTGT
*
4266379 AGTGTCACAGATTCCCTCCATGGCGTGTCACCAAACTCTGAA
1 CGTGTCACAGATTCCCTCCAT-GCGTGTCA-CAAACTCTGAA
4266421 CCTTGCCGTG
Statistics
Matches: 454, Mismatches: 58, Indels: 71
0.78 0.10 0.12
Matches are distributed among these distances:
42 6 0.01
43 17 0.04
44 24 0.05
45 96 0.21
46 76 0.17
47 220 0.48
48 15 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CGTGTCACAGATTCCCTCCATGCGTGTCACAAACTCTGAATACTGT
Found at i:4266104 original size:92 final size:92
Alignment explanation
Indices: 4265890--4266421 Score: 466
Period size: 92 Copynumber: 5.7 Consensus size: 92
4265880 AAGCTTTCGC
*
4265890 TGCCGTGTCACCAACTCTGAACA-CTGGCGTGTCACAGATT-CCTCCTATGGCGTGTCACAAAC-
1 TGCCGTGTCACAAACTCTGAACATCT-GCGTGTCACAGATTCCCTCC-AT-GCGTGT-ACAAACT
** *
4265952 CTGAAC-CTGTCATGTCACA-ATTCCCTCCA
62 CTGAACTCTAACGTGTCACAGATTCCCTCCA
* * * *
4265981 TGGCGTGTCACAAACTCTGAATAT-TGTCGTGTCACAGATTCCATCCATGCTATGT-CAAACTCT
1 TGCCGTGTCACAAACTCTGAACATCTG-CGTGTCACAGATTCCCTCCATGC-GTGTACAAACTCT
*
4266044 GAACTCTAACGTGTCATAGATTCCCTCCA
64 GAACTCTAACGTGTCACAGATTCCCTCCA
* * * *
4266073 TGCCGTGTCACTAACTTTAAACAT-TAGCGTGTCACAGATTCCCTCCATGCCGTGTCACCAACTC
1 TGCCGTGTCACAAACTCTGAACATCT-GCGTGTCACAGATTCCCTCCATG-CGTGT-ACAAACTC
* ** * *
4266137 TGAACACTAGTGTGTCACAGATTCTCTTCA
63 TGAACTCTAACGTGTCACAGATTCCCTCCA
* * *
4266167 TGACGTGTCACAAACT-TGAAC-CCTGTAGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTC
1 TGCCGTGTCACAAACTCTGAACATCTG-CGTGTCACAGATTCCCTCCAT-GCGTGT-ACAAACTC
* ** * *
4266230 T-AAATACTGTCATGTCACAGATTCCATCCA
63 TGAACT-CTAACGTGTCACAGATTCCCTCCA
* * * *
4266260 TGCCATGT--CAAACTCTGAAC-TCTGATGTGTCACAGATTCCCTCCATGTGATGTCACAAACTA
1 TGCCGTGTCACAAACTCTGAACATCTG-CGTGTCACAGATTCCCTCCATGCG-TGT-ACAAACTC
*
4266322 TGAACTCTAGA-GTGTCACAGATTCTCTCCA
63 TGAACTCTA-ACGTGTCACAGATTCCCTCCA
* *
4266352 TGACGTGTCACAAACTCTGAAC-TCTGGAGTGTCACAGATTCCCTCCATGGCGTGTCACCAAACT
1 TGCCGTGTCACAAACTCTGAACATCT-GCGTGTCACAGATTCCCTCCAT-GCGTGT-A-CAAACT
4266416 CTGAAC
62 CTGAAC
4266422 CTTGCCGTGT
Statistics
Matches: 361, Mismatches: 56, Indels: 44
0.78 0.12 0.10
Matches are distributed among these distances:
89 5 0.01
90 9 0.02
91 56 0.16
92 125 0.35
93 67 0.19
94 85 0.24
95 14 0.04
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (92 bp):
TGCCGTGTCACAAACTCTGAACATCTGCGTGTCACAGATTCCCTCCATGCGTGTACAAACTCTGA
ACTCTAACGTGTCACAGATTCCCTCCA
Found at i:4266299 original size:232 final size:230
Alignment explanation
Indices: 4265890--4266422 Score: 759
Period size: 232 Copynumber: 2.3 Consensus size: 230
4265880 AAGCTTTCGC
* *
4265890 TGCCGTGTCACCAACTCTGAACACTGGCGTGTCACAGATTCCTCCTATGGCGTGTCACAAACCTG
1 TGCCGTGTCACCAACTCTGAACACTGGAGTGTCACAGATTCCTCC-ATGGCGTGTCACAAACTTG
* * *
4265955 AA-CCTGTCATGTCACAATTCCCTCCATGGCGTGTCACAAACTCTGAATATTGTCGTGTCACAGA
65 AACCCTGTCATGTCACAATTCCCTCCATGGCGTGTCACAAACTCTAAATACTGTCATGTCACAGA
* *
4266019 TTCCATCCATGCTATGTCAAACTCTGAACTCTAACGTGTCATAGATTCCCTCCATGCCG-TGTCA
130 TTCCATCCATGCCATGTCAAACTCTGAACTCTAACGTGTCACAGATTCCCTCCATG-CGATGTCA
* * *
4266083 CTAACTTTAAACAT-TAGCGTGTCACAGATTCCCTCCA
194 CAAACTATAAAC-TCTAGAGTGTCACAGATTCCCTCCA
* * * *
4266120 TGCCGTGTCACCAACTCTGAACACTAGTGTGTCACAGATTCTCTTCATGACGTGTCACAAACTTG
1 TGCCGTGTCACCAACTCTGAACACTGGAGTGTCACAGATTC-CTCCATGGCGTGTCACAAACTTG
4266185 AACCCTGT-AGTGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTAAATACTGTCATGTCACA
65 AACCCTGTCA-TGTCACA-ATTCCCTCCATGGCGTGTCACAAACTCTAAATACTGTCATGTCACA
* * *
4266249 GATTCCATCCATGCCATGTCAAACTCTGAACTCTGATGTGTCACAGATTCCCTCCATGTGATGTC
128 GATTCCATCCATGCCATGTCAAACTCTGAACTCTAACGTGTCACAGATTCCCTCCATGCGATGTC
* *
4266314 ACAAACTATGAACTCTAGAGTGTCACAGATTCTCTCCA
193 ACAAACTATAAACTCTAGAGTGTCACAGATTCCCTCCA
* * *
4266352 TGACGTGTCACAAACTCTGAACTCTGGAGTGTCACAGATTCCCTCCATGGCGTGTCACCAAACTC
1 TGCCGTGTCACCAACTCTGAACACTGGAGTGTCACAGATT-CCTCCATGGCGTGTCA-CAAACT-
4266417 TGAACC
63 TGAACC
4266423 TTGCCGTGTC
Statistics
Matches: 269, Mismatches: 25, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
230 59 0.22
231 17 0.06
232 180 0.67
233 7 0.03
234 6 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (230 bp):
TGCCGTGTCACCAACTCTGAACACTGGAGTGTCACAGATTCCTCCATGGCGTGTCACAAACTTGA
ACCCTGTCATGTCACAATTCCCTCCATGGCGTGTCACAAACTCTAAATACTGTCATGTCACAGAT
TCCATCCATGCCATGTCAAACTCTGAACTCTAACGTGTCACAGATTCCCTCCATGCGATGTCACA
AACTATAAACTCTAGAGTGTCACAGATTCCCTCCA
Found at i:4266386 original size:24 final size:23
Alignment explanation
Indices: 4266310--4266387 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
4266300 CTCCATGTGA
*
4266310 TGTCACAAACTATGAACTCTAGAG
1 TGTCACAAACTCTGAACTCT-GAG
* *
4266334 TGTCACAGATTCT---CTCCATGACG
1 TGTCACAAACTCTGAACT-C-TGA-G
4266357 TGTCACAAACTCTGAACTCTGGAG
1 TGTCACAAACTCTGAACTCT-GAG
4266381 TGTCACA
1 TGTCACA
4266388 GATTCCCTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
21 2 0.05
22 3 0.07
23 13 0.31
24 19 0.45
25 3 0.07
26 2 0.05
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (23 bp):
TGTCACAAACTCTGAACTCTGAG
Found at i:4275928 original size:2 final size:2
Alignment explanation
Indices: 4275923--4275977 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
4275913 TGTGAATTTC
4275923 TA TA TA TA TA TA 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 TA TA TA TA TA TA
4275965 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
4275978 CTTCTAGTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4282148 original size:2 final size:2
Alignment explanation
Indices: 4282141--4282179 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4282131 GCCTCATGGG
4282141 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4282180 TAAGGAACCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4285777 original size:19 final size:20
Alignment explanation
Indices: 4285753--4285797 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
4285743 TATATTTGAT
4285753 TAAATTTTTAT-ATTAAAAA
1 TAAATTTTTATAATTAAAAA
*
4285772 TAAATTTTTATAATTATAAA
1 TAAATTTTTATAATTAAAAA
4285792 TAAATT
1 TAAATT
4285798 AATTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAATTTTTATAATTAAAAA
Found at i:4290927 original size:14 final size:14
Alignment explanation
Indices: 4290908--4290943 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
4290898 TAGAAGCTGT
4290908 TTTGCTTCTGTTGA
1 TTTGCTTCTGTTGA
4290922 TTTGCTTCTGTTGA
1 TTTGCTTCTGTTGA
4290936 TTTGCTTC
1 TTTGCTTC
4290944 AATCATGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.06, C:0.17, G:0.19, T:0.58
Consensus pattern (14 bp):
TTTGCTTCTGTTGA
Found at i:4301443 original size:24 final size:25
Alignment explanation
Indices: 4301399--4301450 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
4301389 TACTATTATG
4301399 TTTATTGATAATGAAAGTCA-TAAA
1 TTTATTGATAATGAAAGTCATTAAA
* *
4301423 TTTATTTATATATGACA-TCATTAAA
1 TTTATTGATA-ATGAAAGTCATTAAA
4301448 TTT
1 TTT
4301451 TATCATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (25 bp):
TTTATTGATAATGAAAGTCATTAAA
Found at i:4302180 original size:3 final size:3
Alignment explanation
Indices: 4302172--4302199 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4302162 TAAAAAGGCC
4302172 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
4302200 TGACATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:4302388 original size:16 final size:14
Alignment explanation
Indices: 4302365--4302404 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
4302355 TTTGGGTATT
4302365 TCTTTTCCTTTTCC
1 TCTTTTCCTTTTCC
*
4302379 TTCATTTTCCCTTTCC
1 -TC-TTTTCCTTTTCC
4302395 TCTTTTCCTT
1 TCTTTTCCTT
4302405 CATCTTCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 7 0.32
15 4 0.18
16 11 0.50
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTTTCCTTTTCC
Found at i:4303472 original size:10 final size:11
Alignment explanation
Indices: 4303452--4303476 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4303442 TAATTGCTTA
4303452 TTTCTTTTTTT
1 TTTCTTTTTTT
4303463 TTTCTTTTTTT
1 TTTCTTTTTTT
4303474 TTT
1 TTT
4303477 TTGGGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:4305062 original size:19 final size:19
Alignment explanation
Indices: 4305038--4305086 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
4305028 TCAAAATCTA
*
4305038 TATAAAAAAATTATAATAT
1 TATAAAAAAATTATAATAC
* * * *
4305057 TATAAAATATTTTTAATGC
1 TATAAAAAAATTATAATAC
4305076 TATAAAAAAAT
1 TATAAAAAAAT
4305087 AAAATGTTTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TATAAAAAAATTATAATAC
Found at i:4310158 original size:26 final size:27
Alignment explanation
Indices: 4310129--4310188 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
4310119 TGGTTTCATG
*
4310129 TAATCTAAATTAGAT-TAT-TTAATGAA
1 TAATCTAAATTAG-TGTATGTTAATAAA
*
4310155 TAATCT-TATTAGTGTATGTTAATAAA
1 TAATCTAAATTAGTGTATGTTAATAAA
4310181 TAATCTAA
1 TAATCTAA
4310189 TTTATTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.04
25 8 0.29
26 19 0.68
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (27 bp):
TAATCTAAATTAGTGTATGTTAATAAA
Found at i:4311547 original size:16 final size:16
Alignment explanation
Indices: 4311526--4311556 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4311516 ATCTCTTTCC
*
4311526 TTTCTCACTGTTAAAT
1 TTTCTCACTCTTAAAT
4311542 TTTCTCACTCTTAAA
1 TTTCTCACTCTTAAA
4311557 CCTTCAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.48
Consensus pattern (16 bp):
TTTCTCACTCTTAAAT
Found at i:4314995 original size:2 final size:2
Alignment explanation
Indices: 4314988--4315013 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4314978 ACTCCACTGC
4314988 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
4315014 ACAAAACGCA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4328181 original size:38 final size:38
Alignment explanation
Indices: 4328103--4328196 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
4328093 GAATAATAGC
4328103 GGATGTGTTGATGCCCACATATAATGAGTATGTAGATGT
1 GGAT-TGTTGATGCCCACATATAATGAGTATGTAGATGT
* *
4328142 GGATATGTTGATGCCCAC-TCTTATGAGTATGTA-AGTGT
1 GGAT-TGTTGATGCCCACATATAATGAGTATGTAGA-TGT
4328180 GGATTGTT-ATGCCCACA
1 GGATTGTTGATGCCCACA
4328197 CACATGAGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
36 8 0.16
37 5 0.10
38 20 0.40
39 17 0.34
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (38 bp):
GGATTGTTGATGCCCACATATAATGAGTATGTAGATGT
Found at i:4334224 original size:21 final size:21
Alignment explanation
Indices: 4334198--4334246 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4334188 CAATAATTTG
* *
4334198 ATGTTATTACT-GATGAACATT
1 ATGTTATTA-TGGATCAACACT
*
4334219 ATGTTAGTATGGATCAACACT
1 ATGTTATTATGGATCAACACT
4334240 ATGTTAT
1 ATGTTAT
4334247 CAAGGTCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (21 bp):
ATGTTATTATGGATCAACACT
Found at i:4334979 original size:2 final size:2
Alignment explanation
Indices: 4334972--4335000 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4334962 TTCCAGGATT
4334972 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4335001 CTCCTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4345326 original size:105 final size:105
Alignment explanation
Indices: 4345144--4345347 Score: 356
Period size: 105 Copynumber: 1.9 Consensus size: 105
4345134 CAACGTCATC
*
4345144 TTCATTATCTTTCCAGCTATCAATCTTCTTATTGTATTTTGATGACTGACTTGTCTCCTTCTGTT
1 TTCATTATCTTTCCAGCTATCAATCTTCTTATTGTATCTTGATGACTGACTTGTCTCCTTCTGTT
4345209 GCTTAACCAGTGAAACTCTTCTTATTTTCGACGAAGGACT
66 GCTTAACCAGTGAAACTCTTCTTATTTTCGACGAAGGACT
* *
4345249 TTCATTATCTTTCCAGCTATCAA-CGTTCTTCTTGTATCTTGGTGACTGACTTGTCTCCTTCTGT
1 TTCATTATCTTTCCAGCTATCAATC-TTCTTATTGTATCTTGATGACTGACTTGTCTCCTTCTGT
*
4345313 TGCTTAACCAGTGAAACTCTTCTTATTTTTGACGA
65 TGCTTAACCAGTGAAACTCTTCTTATTTTCGACGA
4345348 GGGGCTTACA
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 1 0.01
105 93 0.99
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.44
Consensus pattern (105 bp):
TTCATTATCTTTCCAGCTATCAATCTTCTTATTGTATCTTGATGACTGACTTGTCTCCTTCTGTT
GCTTAACCAGTGAAACTCTTCTTATTTTCGACGAAGGACT
Found at i:4349441 original size:95 final size:95
Alignment explanation
Indices: 4349278--4349462 Score: 307
Period size: 95 Copynumber: 1.9 Consensus size: 95
4349268 ATTCAATACT
*
4349278 TTTGTTTTTAGTTATATCAAATTTTATTAATTATAACTCCTAAAAAAGTAACTAATGTTAGAATT
1 TTTGTTTTTAGTTATATCAAATTTTATTAATTATAACTCCTAAAAAAGTAACTAAGGTTAGAATT
4349343 CTATTAATCAAATTTAAGGATAAAACAAAC
66 CTATTAATCAAATTTAAGGATAAAACAAAC
* * * * * *
4349373 TTTGTTTTTAGTTATATCAAATTTTATTAATTATAATTCTTGAAAATGTAATTGAGGTTAGAATT
1 TTTGTTTTTAGTTATATCAAATTTTATTAATTATAACTCCTAAAAAAGTAACTAAGGTTAGAATT
4349438 CTATTAATCAAATTTAAGGATAAAA
66 CTATTAATCAAATTTAAGGATAAAA
4349463 TATACTAACA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 83 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (95 bp):
TTTGTTTTTAGTTATATCAAATTTTATTAATTATAACTCCTAAAAAAGTAACTAAGGTTAGAATT
CTATTAATCAAATTTAAGGATAAAACAAAC
Found at i:4358085 original size:29 final size:30
Alignment explanation
Indices: 4358014--4358085 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
4358004 TATTAATTAT
*
4358014 AAAATTTATTTAAATTAAAATAAAAATATA
1 AAAATTTATTTAAAATAAAATAAAAATATA
* *
4358044 TAAATTTGA--TAAAATATAATAAAAA-ATA
1 AAAATTT-ATTTAAAATAAAATAAAAATATA
4358072 AAAATTTATTTAAA
1 AAAATTTATTTAAA
4358086 TTTTTTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 1 0.03
28 9 0.26
29 18 0.51
30 6 0.17
31 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAATTTATTTAAAATAAAATAAAAATATA
Found at i:4358102 original size:18 final size:21
Alignment explanation
Indices: 4358079--4358119 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
4358069 ATAAAAATTT
4358079 ATTT-AAA-TTTTTTT-AATA
1 ATTTAAAAGTTTTTTTAAATA
4358097 ATTTAAAAGTTTTTTTAAATA
1 ATTTAAAAGTTTTTTTAAATA
4358118 AT
1 AT
4358120 ATGTCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 3 0.15
20 7 0.35
21 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTAAAAGTTTTTTTAAATA
Found at i:4361040 original size:101 final size:100
Alignment explanation
Indices: 4360852--4361032 Score: 265
Period size: 100 Copynumber: 1.8 Consensus size: 100
4360842 GGAGAGTACT
** *
4360852 TGAGCCTAGGCTGTAGTCTTAGGTTGAATATAAGCTGAACAGTTATGTTTGGTCTAAATAGACTT
1 TGAGCCTAGGCTGTAGTCTTAACTTGAATATAAGCTGAACAGTTATGTTTGGTCTAAATAGACCT
4360917 GGGAATAAATAACTTAGCTGTCTGCATTAGTGTTG
66 GGGAATAAATAACTTAGCTGTCTGCATTAGTGTTG
* * * *
4360952 TGAGCCTAGGTTGTAGTCTTAACTTGAATATATGCT-ATATAGTTTATGTTTGGTCTAAATAGCC
1 TGAGCCTAGGCTGTAGTCTTAACTTGAATATAAGCTGA-ACAG-TTATGTTTGGTCTAAATAGAC
*
4361016 CTGGGAATAAATCACTT
64 CTGGGAATAAATAACTT
4361033 GGTTGTCTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
99 1 0.01
100 35 0.49
101 35 0.49
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (100 bp):
TGAGCCTAGGCTGTAGTCTTAACTTGAATATAAGCTGAACAGTTATGTTTGGTCTAAATAGACCT
GGGAATAAATAACTTAGCTGTCTGCATTAGTGTTG
Found at i:4364068 original size:8 final size:8
Alignment explanation
Indices: 4364055--4364080 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
4364045 TTGATTCAAT
4364055 TTTTAAAA
1 TTTTAAAA
4364063 TTTTAAAA
1 TTTTAAAA
4364071 TTTTAAAA
1 TTTTAAAA
4364079 TT
1 TT
4364081 AAACCACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTTAAAA
Found at i:4365814 original size:13 final size:14
Alignment explanation
Indices: 4365790--4365819 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4365780 GTTCTTTGTC
4365790 AATTTATTAATTTT
1 AATTTATTAATTTT
4365804 AATTT-TTAATTTT
1 AATTTATTAATTTT
4365817 AAT
1 AAT
4365820 ACTATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTATTAATTTT
Found at i:4372139 original size:4 final size:4
Alignment explanation
Indices: 4372130--4372155 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4372120 TGTTAAAACT
4372130 TTCC TTCC TTCC TTCC TTCC TTCC TT
1 TTCC TTCC TTCC TTCC TTCC TTCC TT
4372156 GCTTAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (4 bp):
TTCC
Found at i:4374594 original size:6 final size:6
Alignment explanation
Indices: 4374585--4374609 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4374575 GCTTGTTCTT
4374585 GCAGTG GCAGTG GCAGTG GCAGTG G
1 GCAGTG GCAGTG GCAGTG GCAGTG G
4374610 ACGGGCTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (6 bp):
GCAGTG
Found at i:4382339 original size:35 final size:35
Alignment explanation
Indices: 4382300--4382379 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
4382290 GTTCTACATA
* *
4382300 AAGTAATGCTCCACTTATTCTAGTTGTTTCATGTG
1 AAGTAATGCTCCACTTATTCTAATTATTTCATGTG
* * * * *
4382335 AAGTAATACTTCACTTGTTTTAATTATTTTATGTG
1 AAGTAATGCTCCACTTATTCTAATTATTTCATGTG
*
4382370 AAGTAGTGCT
1 AAGTAATGCT
4382380 TCATTTGTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.45
Consensus pattern (35 bp):
AAGTAATGCTCCACTTATTCTAATTATTTCATGTG
Found at i:4397797 original size:49 final size:50
Alignment explanation
Indices: 4397725--4397822 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 50
4397715 CCTTGTACTC
4397725 TCCTCCTCTTTGTTGTCGTGCTTTCACCA-TTTACGA-TCAATTGGCATCT
1 TCCTCCTCTTTGTTGTCGTGCTTTCACCATTTTAC-ACTCAATTGGCATCT
* * *
4397774 TCCTCCTCTTTGTTTTCTTGCTTTCCCCATTTTACACTCAATTGGCATC
1 TCCTCCTCTTTGTTGTCGTGCTTTCACCATTTTACACTCAATTGGCATC
4397823 ATAACATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 27 0.61
50 17 0.39
ACGTcount: A:0.13, C:0.31, G:0.11, T:0.45
Consensus pattern (50 bp):
TCCTCCTCTTTGTTGTCGTGCTTTCACCATTTTACACTCAATTGGCATCT
Found at i:4401306 original size:21 final size:21
Alignment explanation
Indices: 4401273--4401314 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4401263 TGGGAGTAGG
* *
4401273 GTTTTACATTGCTTTTACCGA
1 GTTTGACAATGCTTTTACCGA
4401294 GTTTGACAATGCTTTTACCGA
1 GTTTGACAATGCTTTTACCGA
4401315 TGTCTATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (21 bp):
GTTTGACAATGCTTTTACCGA
Found at i:4404180 original size:2 final size:2
Alignment explanation
Indices: 4404175--4404223 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
4404165 GCTCTCTTAT
4404175 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4404214 TA TA TA TA TA
1 TA TA TA TA TA
4404224 AAATAACCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4426919 original size:30 final size:29
Alignment explanation
Indices: 4426851--4426925 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
4426841 TAATTAATTA
*
4426851 TAAGGGTTTATTTGACTCAAAATAAAAGT
1 TAAGGGCTTATTTGACTCAAAATAAAAGT
* *
4426880 TCAATGGCTTATTT-AGTCTAAAATAAAAGT
1 T-AAGGGCTTATTTGACTC-AAAATAAAAGT
*
4426910 GTAAGGGCTTAATTGA
1 -TAAGGGCTTATTTGA
4426926 ATATACTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
29 4 0.11
30 31 0.84
31 2 0.05
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.35
Consensus pattern (29 bp):
TAAGGGCTTATTTGACTCAAAATAAAAGT
Found at i:4435725 original size:17 final size:17
Alignment explanation
Indices: 4435703--4435746 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4435693 TCTTCTTATC
*
4435703 CATCAAACAAATTCGCT
1 CATCAAACAAATTCGAT
* *
4435720 CATCAAATAAATTTGAT
1 CATCAAACAAATTCGAT
*
4435737 CACCAAACAA
1 CATCAAACAA
4435747 TGTCTTCCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.48, C:0.25, G:0.05, T:0.23
Consensus pattern (17 bp):
CATCAAACAAATTCGAT
Found at i:4436914 original size:16 final size:17
Alignment explanation
Indices: 4436893--4436926 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4436883 AATTATACTA
*
4436893 AAAATATTTAA-AAAAT
1 AAAATAATTAATAAAAT
4436909 AAAATAATTAATAAAAT
1 AAAATAATTAATAAAAT
4436926 A
1 A
4436927 TTTATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATAATTAATAAAAT
Found at i:4437187 original size:56 final size:56
Alignment explanation
Indices: 4437120--4437241 Score: 136
Period size: 56 Copynumber: 2.2 Consensus size: 56
4437110 TATTAATTCT
** * *
4437120 CAACTATTTTTTCTATTTTCATTCAATTAACAATAATATGTATTTAATAATCTCCAA
1 CAACTA-TTTTTCTATTTTCAAACAACTAACAATAAAATGTATTTAATAATCTCCAA
* * ** * * *
4437177 CACCTATTTTTTTATTTTCAAACAACTAACCGTAAAATGTATTTAATGATTTTCAA
1 CAACTATTTTTCTATTTTCAAACAACTAACAATAAAATGTATTTAATAATCTCCAA
4437233 CAACTATTT
1 CAACTATTT
4437242 AATTTCCTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
56 48 0.91
57 5 0.09
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.44
Consensus pattern (56 bp):
CAACTATTTTTCTATTTTCAAACAACTAACAATAAAATGTATTTAATAATCTCCAA
Found at i:4437677 original size:22 final size:21
Alignment explanation
Indices: 4437638--4437681 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
4437628 TATTTGAAAA
4437638 TTTTAAATAAAAAAATGATATT
1 TTTTAAATAAAAAAATGA-ATT
*
4437660 TTTTAAA-ATAAAATATGAATT
1 TTTTAAATA-AAAAAATGAATT
4437681 T
1 T
4437682 GTTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TTTTAAATAAAAAAATGAATT
Found at i:4437728 original size:19 final size:19
Alignment explanation
Indices: 4437694--4437738 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4437684 TATTAAAAAC
*
4437694 TTTTAA-AAAAATTCTTAA
1 TTTTAATAAAAAGTCTTAA
*
4437712 TTTTAATAAAAAGTCTTGA
1 TTTTAATAAAAAGTCTTAA
*
4437731 TTTGAATA
1 TTTTAATA
4437739 TTTTACTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (19 bp):
TTTTAATAAAAAGTCTTAA
Found at i:4439501 original size:19 final size:19
Alignment explanation
Indices: 4439477--4439516 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4439467 ATTCTTTATC
4439477 ATTTAATGTTAATTTTTTT
1 ATTTAATGTTAATTTTTTT
4439496 ATTTAATGTTAATTTTTTT
1 ATTTAATGTTAATTTTTTT
4439515 AT
1 AT
4439517 ATTATTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
ATTTAATGTTAATTTTTTT
Found at i:4440937 original size:35 final size:36
Alignment explanation
Indices: 4440873--4440951 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 36
4440863 GTAAGGCGTC
**
4440873 ATACCACATGTGTTTAAAGGCCAAATGTGGGATGTT
1 ATACCACATGTGTGCAAAGGCCAAATGTGGGATGTT
* *
4440909 ATACCACATGTG-GCAAGGGCCAAATGTGGGGTGTT
1 ATACCACATGTGTGCAAAGGCCAAATGTGGGATGTT
*
4440944 ATATCACA
1 ATACCACA
4440952 CAAATACCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
35 26 0.68
36 12 0.32
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (36 bp):
ATACCACATGTGTGCAAAGGCCAAATGTGGGATGTT
Found at i:4444169 original size:2 final size:2
Alignment explanation
Indices: 4444162--4444186 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4444152 TTTCGCCCCT
4444162 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
4444187 TTTTGTTTTT
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:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Done.