Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 22 of 170
Found at i:5870150 original size:31 final size:31
Alignment explanation
Indices: 5870092--5870160 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
5870082 CAAAGAATAG
* * *
5870092 AGAACAGCTGGAACAATAGAAACACAGAAGC
1 AGAAAAGCAGGAACAATAGAAACACAGAAAC
*
5870123 AGAAAAGCAGGAA-AATAGGAACAACAGAAAC
1 AGAAAAGCAGGAACAATAGAAAC-ACAGAAAC
*
5870154 AAAAAAG
1 AGAAAAG
5870161 GAGAAAACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.59, C:0.14, G:0.22, T:0.04
Consensus pattern (31 bp):
AGAAAAGCAGGAACAATAGAAACACAGAAAC
Found at i:5872219 original size:21 final size:21
Alignment explanation
Indices: 5872186--5872230 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5872176 TTCAGACTGA
* *
5872186 AAAATGCGAGAGCCATATATC
1 AAAATACGAGAGCCACATATC
*
5872207 AAAATACGGGAGCCACATATC
1 AAAATACGAGAGCCACATATC
5872228 AAA
1 AAA
5872231 GAGCCATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.16
Consensus pattern (21 bp):
AAAATACGAGAGCCACATATC
Found at i:5875610 original size:144 final size:144
Alignment explanation
Indices: 5875442--5875707 Score: 381
Period size: 144 Copynumber: 1.8 Consensus size: 144
5875432 AAAGTTACCA
* * * * *
5875442 TAGCGAATCTTATCTTCATGAAGTTACAGTGGAGTAAGATAAAGCTACAAGTCCTATACCCCTGA
1 TAGCAAATCTTATCTCCATAAAGTTACAGTGGAGCAAGATAAAGCTACAAGTCCTATACCCCTAA
*
5875507 AGTTACAGTAAGTCGAA-TCGAAACTACAACGGCAAATCTTGTCTCCCTAAAGTTGCAATGGGTC
66 AGTTACAGTAAGTCGAACT-GAAACTACAACGGCAAATCTTATCTCCCTAAAGTTGCAATGGGTC
5875571 AGATTGAAACTACAG
130 AGATTGAAACTACAG
* *
5875586 TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTACAAGTCCTATACCCCTAA
1 TAGCAAATCTTATCTCCATAAAGTTACAGTGGAGCAAGATAAAGCTACAAGTCCTATACCCCTAA
** * * * * *
5875651 AGTTACAGTGGGTTGGACTGAAACTACAATGGCGAATCTTATCTCCCTGAAGTTGCA
66 AGTTACAGTAAGTCGAACTGAAACTACAACGGCAAATCTTATCTCCCTAAAGTTGCA
5875708 GTAGAGCAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
144 105 0.99
145 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (144 bp):
TAGCAAATCTTATCTCCATAAAGTTACAGTGGAGCAAGATAAAGCTACAAGTCCTATACCCCTAA
AGTTACAGTAAGTCGAACTGAAACTACAACGGCAAATCTTATCTCCCTAAAGTTGCAATGGGTCA
GATTGAAACTACAG
Found at i:5875673 original size:94 final size:94
Alignment explanation
Indices: 5875556--5876189 Score: 689
Period size: 94 Copynumber: 6.7 Consensus size: 94
5875546 TGTCTCCCTA
* * * *
5875556 AAGTTGCAATGGGTCAGATTGAAACTACAGTAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGC
1 AAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGC
* * *
5875621 AAGATAAAGCTACAAGTCCTATACCCCTA
66 AAGATAAAGCTACAAATCCTATACCCTTG
* * * * * *
5875650 AAGTTACAGTGGGTTGGACTGAAACTACAATGGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGC
1 AAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGC
* *
5875715 AAAATAAAGCTACAAATCCTACACCCTTG
66 AAGATAAAGCTACAAATCCTATACCCTTG
* ** ** * * *
5875744 AAGTTGTAGTGGGTCAAATTGAAACTACGGTAGCGAATCTTATCTCCTTAAAGTTGCAATGGAGA
1 AAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGC
* *
5875809 AAGTTAAAGCTACAAGTCCTATACCCTTG
66 AAGATAAAGCTACAAATCCTATACCCTTG
* * * * * *
5875838 AAGTTTCAATTGGTCGGATTGAAACTACAATGGTGAATCTTATCT-CCTAAAAGTTACAGTGGAG
1 AAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCT-AAAGTTGCAGTGGAG
5875902 CAAGATGAAA-CTACAAATCCTATACCCTTG
65 CAAGAT-AAAGCTACAAATCCTATACCCTTG
* * ** * *
5875932 AAGTTGTAGTGGATAAGATTGAAACTACAAT-GACGAATCTTATCTCCATGAAGTTGCAGTGGAG
1 AAGTTGCAGTGGGTCGGATTGAAACTACAATAG-CGAATCTTATCTCCCTAAAGTTGCAGTGGAG
* *
5875996 TAAGATAAAGCTACAAATCTTATACCCTTG
65 CAAGATAAAGCTACAAATCCTATACCCTTG
* ** * * * *
5876026 AAGGTATAGTGGGTTGAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAGTGGAGC
1 AAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGC
* * *
5876091 AAGATGAAGCTACAAATCCTATACCCCTA
66 AAGATAAAGCTACAAATCCTATACCCTTG
* * * * * * * ** *
5876120 AAGATGCAATGGGTTGGAATGAAACTACAACAACAAATCTTATCTCTTTAAAGTTGCAATGGAGC
1 AAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGC
5876185 AAGAT
66 AAGAT
5876190 GAAACTGTGA
Statistics
Matches: 445, Mismatches: 89, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
93 6 0.01
94 433 0.97
95 6 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (94 bp):
AAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGC
AAGATAAAGCTACAAATCCTATACCCTTG
Found at i:5875986 original size:282 final size:281
Alignment explanation
Indices: 5875551--5876195 Score: 824
Period size: 282 Copynumber: 2.3 Consensus size: 281
5875541 AATCTTGTCT
* *
5875551 CCCTAAAGTTGCAATGGGTCAGATTGAAACTACAGTAGCAAATCTTATCTCCCTAAAGTTGCAGT
1 CCCTAAAGTTGCAATGGGTCGGATTGAAACTACAATAGCAAATCTTATCT-CCTAAAGTTGCAGT
* * **
5875616 GGAGCAAGAT-AAAGCTACAAGTCCTATACCCCTAAAGTTACAGTGGGTTGGACTGAAACTACAA
65 GGAGCAAGATGAAA-CTACAAATCCTATACCCCTAAAGTTACAGTGGATAAGACTGAAACTACAA
* *
5875680 TGGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAAAATAAAGCTACAAATCCTACACCCTTGA
129 TGACGAATCTTATCTCCATGAAGTTGCAGTAGAGCAAAATAAAGCTACAAATCCTACACCCTTGA
* * ** * * *
5875745 AGTTGTAGTGGGTCAAATTGAAACTACGGTAGCGAATCTTATCTCCTTAAAGTTGCAATGGAGAA
194 AGGTATAGTGGGTCAAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAATGGAGAA
* *
5875810 AGTTAAAGCTACAAGTCCTATAC
259 AGATAAAGCTACAAATCCTATAC
* * * * * ** *
5875833 CCTTGAAGTTTCAATTGGTCGGATTGAAACTACAATGGTGAATCTTATCTCCTAAAAGTTACAGT
1 CCCTAAAGTTGCAATGGGTCGGATTGAAACTACAATAGCAAATCTTATCTCCT-AAAGTTGCAGT
* * ** *
5875898 GGAGCAAGATGAAACTACAAATCCTATACCCTTGAAGTTGTAGTGGATAAGATTGAAACTACAAT
65 GGAGCAAGATGAAACTACAAATCCTATACCCCTAAAGTTACAGTGGATAAGACTGAAACTACAAT
* * * * *
5875963 GACGAATCTTATCTCCATGAAGTTGCAGTGGAGTAAGATAAAGCTACAAATCTTATACCCTTGAA
130 GACGAATCTTATCTCCATGAAGTTGCAGTAGAGCAAAATAAAGCTACAAATCCTACACCCTTGAA
** * *
5876028 GGTATAGTGGGTTGAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAGTGGAGCAA
195 GGTATAGTGGGTCAAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAATGGAGAAA
*
5876093 GATGAAGCTACAAATCCTATAC
260 GATAAAGCTACAAATCCTATAC
* * * * * * *
5876115 CCCTAAAGATGCAATGGGTTGGAATGAAACTACAACAACAAATCTTATCTCTTTAAAGTTGCAAT
1 CCCTAAAGTTGCAATGGGTCGGATTGAAACTACAATAGCAAATCTTATCTC-CTAAAGTTGCAGT
5876180 GGAGCAAGATGAAACT
65 GGAGCAAGATGAAACT
5876196 GTGACACTAA
Statistics
Matches: 305, Mismatches: 55, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
281 3 0.01
282 298 0.98
283 4 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (281 bp):
CCCTAAAGTTGCAATGGGTCGGATTGAAACTACAATAGCAAATCTTATCTCCTAAAGTTGCAGTG
GAGCAAGATGAAACTACAAATCCTATACCCCTAAAGTTACAGTGGATAAGACTGAAACTACAATG
ACGAATCTTATCTCCATGAAGTTGCAGTAGAGCAAAATAAAGCTACAAATCCTACACCCTTGAAG
GTATAGTGGGTCAAATTGAAACTACAATAGCAAATCTTATCTCCCTAAAATTGCAATGGAGAAAG
ATAAAGCTACAAATCCTATAC
Found at i:5876493 original size:18 final size:18
Alignment explanation
Indices: 5876470--5876508 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
5876460 CCCAAATACA
5876470 AAAAAAAACTAAAAGCCC
1 AAAAAAAACTAAAAGCCC
** *
5876488 AAAAAACCCTTAAAGCCC
1 AAAAAAAACTAAAAGCCC
5876506 AAA
1 AAA
5876509 GACCACTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.26, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAAAAACTAAAAGCCC
Found at i:5884697 original size:29 final size:26
Alignment explanation
Indices: 5884635--5884698 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 26
5884625 TTAATAAATG
*
5884635 AAAAATATATATAATTTTTAAATAAA
1 AAAAATATATATAATATTTAAATAAA
5884661 AAATAATATAATATAAATATTTAAA-AAA
1 AAA-AATAT-ATAT-AATATTTAAATAAA
5884689 ATTAAAATAT
1 A--AAAATAT
5884699 GGTTGGACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 3 0.09
27 5 0.16
28 8 0.25
29 14 0.44
30 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAAATATATATAATATTTAAATAAA
Found at i:5887135 original size:17 final size:17
Alignment explanation
Indices: 5887113--5887150 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
5887103 TTTTTTTTTT
5887113 AAATTA-AAAAATCATTA
1 AAATTATAAAAATCA-TA
5887130 AAATTATTAAAAATCATA
1 AAATTA-TAAAAATCATA
5887148 AAA
1 AAA
5887151 GAATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTATAAAAATCATA
Found at i:5888030 original size:19 final size:18
Alignment explanation
Indices: 5887998--5888042 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
5887988 TTTTATGCAT
5887998 TATTTTTCTCTTTTTTTA
1 TATTTTTCTCTTTTTTTA
5888016 TATTTTTCTCTTTTTTT-
1 TATTTTTCTCTTTTTTTA
5888033 TATTTCTTCT
1 TATTT-TTCT
5888043 TTTATAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (18 bp):
TATTTTTCTCTTTTTTTA
Found at i:5888043 original size:16 final size:17
Alignment explanation
Indices: 5887997--5888045 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
5887987 ATTTTATGCA
*
5887997 TTATTTTTC-TCTTTTT
1 TTATATTTCTTCTTTTT
5888013 TTATATTT-TTCTCTTTT
1 TTATATTTCTTCT-TTTT
*
5888030 TTTTATTTCTTCTTTT
1 TTATATTTCTTCTTTT
5888046 ATAATATCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 10 0.36
17 14 0.50
18 4 0.14
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (17 bp):
TTATATTTCTTCTTTTT
Found at i:5891250 original size:58 final size:59
Alignment explanation
Indices: 5891188--5891301 Score: 151
Period size: 58 Copynumber: 1.9 Consensus size: 59
5891178 ATCACTTTAA
* *
5891188 TATTAAATTAATATAATACTTATCAAGATAAATATTAGAT-TAAAT-TTAATATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGAAAAATATTA-ATATAAATATTAATATTAAATC
* * * *
5891246 TATTAAATTAATAGAATATTTATCTATAAAAATATTAATATTAATATTAATATTAA
1 TATTAAATTAATAGAATACTTATCAAGAAAAATATTAATATAAATATTAATATTAA
5891302 TATTAATATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 2 0.04
58 36 0.75
59 10 0.21
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATCAAGAAAAATATTAATATAAATATTAATATTAAATC
Found at i:5891287 original size:6 final size:6
Alignment explanation
Indices: 5891276--5891328 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
5891266 TATCTATAAA
* *
5891276 AATATT AATATT AATATT AATATT AATATT AATATC AATATC AATATT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
5891324 AATAT
1 AATAT
5891329 AATCACTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (6 bp):
AATATT
Found at i:5891895 original size:13 final size:13
Alignment explanation
Indices: 5891879--5891915 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
5891869 ATTTTTCAAG
5891879 AAAATTCTTTAAT
1 AAAATTCTTTAAT
5891892 AAAATTCTTTAAT
1 AAAATTCTTTAAT
*
5891905 CAAATTCTTTA
1 AAAATTCTTTA
5891916 GTTGAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTCTTTAAT
Found at i:5903417 original size:14 final size:14
Alignment explanation
Indices: 5903398--5903428 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5903388 CAAGGTTCGA
5903398 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
*
5903412 GTTTAGGGTTTGAG
1 GTTTAGGGTTTAAG
5903426 GTT
1 GTT
5903429 CAAATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:5904293 original size:48 final size:45
Alignment explanation
Indices: 5904241--5904340 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
5904231 ATTTTATTTT
*
5904241 TTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAAATTTTTTTAA
1 TTTTAAATTTAAAATA-TTTTAAAATAC--TTTTTAAAATTTTTTTAA
* *
5904289 TTTTAAATTTAAAATATTTTTAAATACTTTTTAAATTTTTTTTAA
1 TTTTAAATTTAAAATATTTTAAAATACTTTTTAAAATTTTTTTAA
5904334 TTTTAAA
1 TTTTAAA
5904341 ATATTTTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
45 24 0.49
47 10 0.20
48 15 0.31
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (45 bp):
TTTTAAATTTAAAATATTTTAAAATACTTTTTAAAATTTTTTTAA
Found at i:5904348 original size:11 final size:11
Alignment explanation
Indices: 5904247--5904360 Score: 60
Period size: 11 Copynumber: 10.4 Consensus size: 11
5904237 TTTTTTTTAA
*
5904247 TTTTAAAATAC
1 TTTTAAAATAT
5904258 TTTTAAAATACTTT
1 TTTTAAAATA---T
*
5904272 TTTTAAAATTT
1 TTTTAAAATAT
** *
5904283 TTTTAATTTTAA
1 TTTTAA-AATAT
*
5904295 ATTTAAAATAT
1 TTTTAAAATAT
5904306 TTTT-AAATACT
1 TTTTAAAATA-T
5904317 TTTT-AAAT-T
1 TTTTAAAATAT
* *
5904326 TTTT---TTAA
1 TTTTAAAATAT
5904334 TTTTAAAATAT
1 TTTTAAAATAT
5904345 TTTTAAAATAAT
1 TTTTAAAAT-AT
5904357 TTTT
1 TTTT
5904361 TTAATTTTTA
Statistics
Matches: 78, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
7 1 0.01
8 4 0.05
9 5 0.06
10 5 0.06
11 42 0.54
12 12 0.15
14 9 0.12
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:5904360 original size:12 final size:12
Alignment explanation
Indices: 5904334--5904382 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
5904324 TTTTTTTTAA
5904334 TTTTAAAAT-AT
1 TTTTAAAATAAT
5904345 TTTTAAAATAAT
1 TTTTAAAATAAT
*
5904357 TTTT---TTAAT
1 TTTTAAAATAAT
5904366 TTTTAAAATAAAT
1 TTTTAAAAT-AAT
5904379 TTTT
1 TTTT
5904383 GGTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
11 9 0.29
12 7 0.23
13 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:5904367 original size:21 final size:21
Alignment explanation
Indices: 5904343--5904382 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5904333 ATTTTAAAAT
*
5904343 ATTTTTAAAATAATTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
5904364 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
5904383 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:5904389 original size:22 final size:20
Alignment explanation
Indices: 5904342--5904389 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
5904332 AATTTTAAAA
*
5904342 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTG
5904362 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTT-G
5904385 TATTT
1 TATTT
5904390 ATTTAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 11 0.46
23 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:5908734 original size:44 final size:43
Alignment explanation
Indices: 5908640--5908736 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 43
5908630 ACTGTATCTT
*
5908640 CAAGGAGATAAGACTTGTATCTTCGATCTACTCCACTACTGCC
1 CAAGGAGATAAGACTTGTATCTTCAATCTACTCCACTACTGCC
* * *
5908683 TAAGGAGATAAGA-TCTGTAATCTTCAATCTATTCCAC-AGTTGCC
1 CAAGGAGATAAGACT-TGT-ATCTTCAATCTACTCCACTA-CTGCC
*
5908727 CATGGAGATA
1 CAAGGAGATA
5908737 GAATTATTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
42 1 0.02
43 16 0.36
44 28 0.62
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
CAAGGAGATAAGACTTGTATCTTCAATCTACTCCACTACTGCC
Found at i:5909173 original size:89 final size:89
Alignment explanation
Indices: 5908921--5909940 Score: 784
Period size: 89 Copynumber: 11.5 Consensus size: 89
5908911 TCTGCTGTGC
* * * * *
5908921 TTGATCTACTTCACTCCAATACATGAAGACAAGGTATGTTCTT-TTTGATCTA-TTCCACCACCA
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTT-TTCTTCGATCTACTT-CACCACCA
* *
5908984 GTATGGGGAGACAAGATCTGTTGTCT
64 GTATGGGAAGACAAGATCTGTTATCT
* * **
5909010 TTGATCTA-TTACACG-CA--AAATGAAGACAAGATCTATTTT-TTCGATCTGTTTCACCACCAG
1 TTGATCTACTT-CACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAG
* *
5909070 TATGTGAAGACAAGATCTATTATCT
65 TATGGGAAGACAAGATCTGTTATCT
* * * *
5909095 TTGATCTACTCCACGCCAGTACACGAAGACAAGATCTGCTTTCTTCGATCTGCTTCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGT
*
5909160 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
5909184 TTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCGGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGT
*
5909249 ATGGGAAGACAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
5909273 TTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTTCGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGT
* *
5909338 ATGAGAAGACAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
5909362 TTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTCGATCTACTTCA-CGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGT
*** * *
5909426 ACATGAAGACAAGATCTACTT-TAT
66 ATGGGAAGACAAGATCT-GTTATCT
** * * * * * *
5909450 TCAATCTGCTTCACCGCCAGTATGA-GAAGGCAAGATCTGTTATCTTTGATCTACTTCA-CGCCA
1 TTGATCTACTTCA-CGCCAGTA-CATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCA
*** * * *
5909513 GTACATGAAGAGAAGATCT-TTTTTT
64 GTATGGGAAGACAAGATCTGTTATCT
* * * * *** * * * *
5909538 TTCGATATGCTTCACCACCGGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCA-CGCCA
1 TT-GATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCA
*** *
5909602 GTACATGAAGACAAGATCTGTTTTCT
64 GTATGGGAAGACAAGATCTGTTATCT
* * * *** * * *
5909628 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCA-CGCCAG
1 TTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAG
***
5909692 TACATGAAGACAAGATCTGCTT-TCT
65 TATGGGAAGACAAGATCTG-TTATCT
* * * *** * * * **
5909717 TCGATCTGCTTCGCCGCCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCA-TGCCAG
1 TTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAG
*** *
5909781 TACATGAAGACAAGATCTGTTTTCT
65 TATGGGAAGACAAGATCTGTTATCT
* * * *** * * *
5909806 TCGATCTGCTTCACCACCAGTATGGGAAGACAAGATCTAG-TATCTTTGATCTACTTCA-CGCCA
1 TTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCT-GTTTTCTTCGATCTACTTCACCACCA
***
5909869 GTACATGAAGACAAGATCTGCTT-TCT
64 GTATGGGAAGACAAGATCTG-TTATCT
* * * * * *
5909895 TCGATCTGCTTCAC-CACTAGTATAGGAAGGCAAGATCTGTTATCTT
1 TTGATCTACTTCACGC-C-AGTACATGAAGACAAGATCTGTTTTCTT
5909941 TCAACCTACT
Statistics
Matches: 828, Mismatches: 80, Indels: 46
0.87 0.08 0.05
Matches are distributed among these distances:
85 51 0.06
86 21 0.03
87 3 0.00
88 62 0.07
89 679 0.82
90 12 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:5909782 original size:311 final size:310
Alignment explanation
Indices: 5909074--5909940 Score: 1089
Period size: 311 Copynumber: 2.8 Consensus size: 310
5909064 CACCAGTATG
* * *
5909074 TGAAGACAAGATCTA-TTATCTTTGATCTACTCCACGCCAGTACACGAAGACAAGATCTGCTTTC
1 TGAAGACAAGATCTACTT-TCTTCGATCTACTTCACGCCAGTACAGGAAGACAAGATCTG-TTTC
* * *
5909138 TTCGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCATGCCAG
64 TTCGATCTGCTTCACCGCCAGTATGAGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAG
* *
5909203 TACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCGGTATGGGAAGACAAGATCTGG
129 TACATGAAGACAAGATCTGTTTTCTTCGATATACTTCACCACCGGTATGGGAAGACAAGATCTGG
*
5909268 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTTCGATCTACTTCGCCA
194 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCA
5909333 CCAGTATGAGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACA
259 CCAGTATGAGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACA
* * * * *
5909385 TGAAGATAAGATCTATTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTAT
1 TGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAGTACAGGAAGACAAGATCT-GTTTCT
*
5909450 TCAATCTGCTTCACCGCCAGTATGAGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGT
65 TCGATCTGCTTCACCGCCAGTATGAGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGT
* * * * * *
5909515 ACATGAAGAGAAGATCTTTTTTTTTCGATATGCTTCACCACCGGTATGGGAAGGCAAGATCTGTT
130 ACATGAAGACAAGATCTGTTTTCTTCGATATACTTCACCACCGGTATGGGAAGACAAGATCTGGT
5909580 ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCAC
195 ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCAC
* *
5909645 CAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACA
260 CAGTATGAGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACA
* * * ** *
5909696 TGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCGCCAGTATGGGAAGGCAAGATCTGTTATC
1 TGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCAGTACAGGAAGACAAGATCTGTT-TC
* * * * * * * * *
5909761 TTTGATCTACTTCA-TGCCAGTA-CATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCACCACC
64 TTCGATCTGCTTCACCGCCAGTATGA-GAAGGCAAGATCTGTTATCTTTGATCTACTTCA-CGCC
*** * * * * * ***
5909824 AGTATGGGAAGACAAGATCTAG-TATCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATC
127 AGTACATGAAGACAAGATCT-GTTTTCTTCGATATACTTCACCACCGGTATGGGAAGACAAGATC
* * * * * * * *
5909887 TGCTTTCTTCGATCTGCTTCAC-CACTAGTATAGGAAGGCAAGATCTGTTATCTT
191 TGGTATCTTTGATCTACTTCACGC-C-AGTACATGAAGACAAGATCTGTTTTCTT
5909941 TCAACCTACT
Statistics
Matches: 481, Mismatches: 66, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
310 2 0.00
311 389 0.81
312 90 0.19
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (310 bp):
TGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAGTACAGGAAGACAAGATCTGTTTCTT
CGATCTGCTTCACCGCCAGTATGAGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTA
CATGAAGACAAGATCTGTTTTCTTCGATATACTTCACCACCGGTATGGGAAGACAAGATCTGGTA
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACC
AGTATGAGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACA
Found at i:5909941 original size:89 final size:89
Alignment explanation
Indices: 5909119--5909941 Score: 886
Period size: 89 Copynumber: 9.2 Consensus size: 89
5909109 GCCAGTACAC
* * * *** *
5909119 GAAGACAAGATCTGCTT-TCTTCGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTG-TTAT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT-T
* * ** ***
5909182 CTTTGATCTACTTCA-TGCCAGTACAT
63 CTTCGATCTGCTTCACCACCAGTATGG
* * * * * *** * *
5909208 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCGGTATGGGAAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTCT
* * * ***
5909273 TTGATCTACTTCA-CGCCAGTACAT
65 TCGATCTGCTTCACCACCAGTATGG
* * * * * * * *
5909297 GAAGACAAGATTTGTTTTCTTCGATCTACTTCGCCACCAGTATGA-GAAGACAAGATCTGGTATC
1 GAAGACAAGATCTGTTATCTTTGATCTACTTC-ACGCCAGTA-CATGAAGACAAGATCTGCTTTC
* * * ***
5909361 TTTGATCTACTTCA-CGCCAGTACAT
64 TTCGATCTGCTTCACCACCAGTATGG
* * * * * *
5909386 GAAGATAAGATCTATTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTATT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* * *
5909451 CAATCTGCTTCACCGCCAGTATGA
66 CGATCTGCTTCACCACCAGTATGG
* * ** *
5909475 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAGAAGATCTTTTTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
5909540 CGATATGCTTCACCACCGGTATGG
66 CGATCTGCTTCACCACCAGTATGG
* *
5909564 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
5909629 CGATCTACTTCGCCACCAGTATGG
66 CGATCTGCTTCACCACCAGTATGG
5909653 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
5909718 CGATCTGCTTCGCCGCCAGTATGG
66 CGATCTGCTTCACCACCAGTATGG
* * *
5909742 GAAGGCAAGATCTGTTATCTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
5909807 CGATCTGCTTCACCACCAGTATGG
66 CGATCTGCTTCACCACCAGTATGG
5909831 GAAGACAAGATCTAG-TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCT-GTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
* *
5909895 TCGATCTGCTTCACCACTAGTATAG
65 TCGATCTGCTTCACCACCAGTATGG
*
5909920 GAAGGCAAGATCTGTTATCTTT
1 GAAGACAAGATCTGTTATCTTT
5909942 CAACCTACTC
Statistics
Matches: 664, Mismatches: 62, Indels: 16
0.89 0.08 0.02
Matches are distributed among these distances:
87 1 0.00
88 36 0.05
89 625 0.94
90 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (89 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
CGATCTGCTTCACCACCAGTATGG
Found at i:5914355 original size:47 final size:47
Alignment explanation
Indices: 5914292--5914935 Score: 938
Period size: 47 Copynumber: 13.6 Consensus size: 47
5914282 CCCTTCGGGA
* * * *
5914292 CTTATCGCATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
5914339 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
5914386 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
5914433 CTTATCACACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
5914480 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
5914527 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
5914574 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
5914621 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
5914670 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
5914717 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
5914766 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
5914813 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
5914860 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
5914909 CTTATCACATATATATACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
5914936 TATTCAAATA
Statistics
Matches: 565, Mismatches: 24, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 427 0.76
49 136 0.24
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:5916449 original size:56 final size:56
Alignment explanation
Indices: 5916382--5916501 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
5916372 TATTAGTTTA
5916382 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
5916438 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
5916494 TTGCCCAT
1 TTGCCCAT
5916502 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:5923462 original size:20 final size:20
Alignment explanation
Indices: 5923437--5923476 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
5923427 TAAATGTCTT
*
5923437 TAATGCATATAATGCGATGC
1 TAATGCATATAATACGATGC
*
5923457 TAATGCATATGATACGATGC
1 TAATGCATATAATACGATGC
5923477 ATGAGATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
TAATGCATATAATACGATGC
Found at i:5929311 original size:41 final size:41
Alignment explanation
Indices: 5929265--5929350 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
5929255 AAACTAGAAT
* * *
5929265 AATTTAGTTCCCATCAATTTTGAAAGTCAGCAACTATAGGC
1 AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGGC
5929306 AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGGC
1 AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGGC
5929347 AATT
1 AATT
5929351 AACCACAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (41 bp):
AATTTAGTCCCCATCAATCTTGAAAGTCAACAACTATAGGC
Found at i:5930873 original size:18 final size:16
Alignment explanation
Indices: 5930838--5930877 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 16
5930828 TCCGACCCGG
5930838 TAAACACCAAAAATAAA
1 TAAA-ACCAAAAATAAA
5930855 TAAAACCAATAAATAAAA
1 TAAAACCAA-AAAT-AAA
5930873 TAAAA
1 TAAAA
5930878 GTCTAAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 8 0.38
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
TAAAACCAAAAATAAA
Found at i:5937063 original size:19 final size:17
Alignment explanation
Indices: 5937039--5937073 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
5937029 AAACAGTTTG
5937039 TAAAGATAAATATAAAAAT
1 TAAAGA-AAATA-AAAAAT
5937058 TAAAGAAAATAAAAAA
1 TAAAGAAAATAAAAAA
5937074 ACAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
TAAAGAAAATAAAAAAT
Found at i:5937073 original size:18 final size:19
Alignment explanation
Indices: 5937039--5937074 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5937029 AAACAGTTTG
*
5937039 TAAAGATAAATATAAAAAT
1 TAAAGATAAATAAAAAAAT
5937058 TAAAGA-AAATAAAAAAA
1 TAAAGATAAATAAAAAAA
5937075 CAAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
TAAAGATAAATAAAAAAAT
Found at i:5946362 original size:20 final size:20
Alignment explanation
Indices: 5946337--5946396 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
5946327 AACCCCAAAC
5946337 CCCAAACACTAAACCTTGAA
1 CCCAAACACTAAACCTTGAA
*
5946357 CCCAAACCCTAAACCTTGAA
1 CCCAAACACTAAACCTTGAA
*
5946377 CCCCAA-ACTCAAA-CTTGAA
1 CCCAAACACT-AAACCTTGAA
5946396 C
1 C
5946397 TTTGGATCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.25
20 27 0.75
ACGTcount: A:0.42, C:0.38, G:0.05, T:0.15
Consensus pattern (20 bp):
CCCAAACACTAAACCTTGAA
Found at i:5946446 original size:13 final size:14
Alignment explanation
Indices: 5946430--5946467 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
5946420 AGGTTTAAGG
5946430 TTTAGGGTTCAA-A
1 TTTAGGGTTCAAGA
* *
5946443 TTTAGGATTCAAGG
1 TTTAGGGTTCAAGA
5946457 TTTAGGGTTCA
1 TTTAGGGTTCA
5946468 TAGTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (14 bp):
TTTAGGGTTCAAGA
Found at i:5946467 original size:14 final size:14
Alignment explanation
Indices: 5946421--5946467 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
5946411 TGAGGTTCTA
*
5946421 GGTTTAAGGTTTAG
1 GGTTCAAGGTTTAG
*
5946435 GGTTCAA-ATTTAG
1 GGTTCAAGGTTTAG
*
5946448 GATTCAAGGTTTAG
1 GGTTCAAGGTTTAG
5946462 GGTTCA
1 GGTTCA
5946468 TAGTAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.26, C:0.06, G:0.30, T:0.38
Consensus pattern (14 bp):
GGTTCAAGGTTTAG
Found at i:5949364 original size:35 final size:35
Alignment explanation
Indices: 5949323--5949590 Score: 284
Period size: 35 Copynumber: 7.9 Consensus size: 35
5949313 TTGTCTTTTC
* *
5949323 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTCTG
* * * * *
5949358 TCGCAGGGAATCTTTCCTGTTGA--CATCATT-TC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTCTG
* *
5949390 TTGCAGGGAATCTCTCCTGTTCAGGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTCTG
* *
5949425 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTCTG
* * *
5949460 TTGCAGGGAATCTTTCCTGTTCA--CATCATT-TC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTCTG
* * *
5949492 TTACAGGGAATCTCTCCTGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTCTG
* *
5949527 TTGCAGGGAATCTCTCCTGTTCA--CATCATT-TC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTCTG
* *
5949559 TTGCAGGGAATCTCTCCTGTTCATGTATTATT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATT
5949591 TCTTTTTGGA
Statistics
Matches: 199, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
32 67 0.34
33 17 0.09
34 16 0.08
35 99 0.50
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (35 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTCTG
Found at i:5949499 original size:102 final size:102
Alignment explanation
Indices: 5949318--5949581 Score: 392
Period size: 102 Copynumber: 2.6 Consensus size: 102
5949308 TTCACTTGTC
* * * * * * *
5949318 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTCGCAGGGAATCTTTCCTGTTGACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
*
5949383 TCATTTCTTGCAGGGAATCTCTCCTGTTCA-GGCATTA
66 TCATTTCTTACAGGGAATCTCTCCTGTTCACGG-ATTA
5949420 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
5949485 TCATTTCTTACAGGGAATCTCTCCTGTTCACGGATTA
66 TCATTTCTTACAGGGAATCTCTCCTGTTCACGGATTA
* * *
5949522 TTTTGTTGCAGGGAATCTCTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
5949582 TGTATTATTT
Statistics
Matches: 150, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
99 25 0.17
100 6 0.04
102 117 0.78
103 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTACAGGGAATCTCTCCTGTTCACGGATTA
Found at i:5949589 original size:67 final size:67
Alignment explanation
Indices: 5949318--5949591 Score: 313
Period size: 67 Copynumber: 4.0 Consensus size: 67
5949308 TTCACTTGTC
* * * * * *
5949318 TTTTCTTGCAGGGAATATTTCCTGTTCAC-GCATTATTCTGTCGCAGGGAATCTTTCCTGTTGA-
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCA-T-TTCT-T-GCAGGGAATCTCTCCTGTTCAC
*
5949381 -CATCA
62 GCATTA
* * * *
5949386 -TTTCTTGCAGGGAATCTCTCCTGTTCAGGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
5949450 CATTA
63 CATTA
* * *
5949455 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTACAGGGAATCTCTCCTGTTCACGGAT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
5949520 TA
66 TA
* *
5949522 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTAT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
5949587 TA
66 TA
5949589 TTT
1 TTT
5949592 CTTTTTGGAC
Statistics
Matches: 181, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
67 140 0.77
68 5 0.03
69 8 0.04
70 28 0.15
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (67 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
TA
Found at i:5952365 original size:105 final size:101
Alignment explanation
Indices: 5952186--5952381 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 101
5952176 GAATTGACGG
* * * *
5952186 ATAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGCTGGGCTATGACATTTTA
1 ATAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACAATAGCTAGGCTATGACATTCTA
*
5952251 ATGAAAAGACCACAATTGGGTTATGGTACCTTGAAC
66 ATGAAAAGACCACAACTGGGTTATGGTACCTTGAAC
*
5952287 ATAAGACCATGGTTGGACCATGGCAGTATAG-ATACATGTGTAAGACAATAGCTAGGCTATGACA
1 ATAAGACCATGGTTGGACCATGGCA--AT-GTATA-A-ATGTAAGACAATAGCTAGGCTATGACA
* * *
5952351 TTCTGATGATAAGACCATAACTGGGTTATGG
61 TTCTAATGAAAAGACCACAACTGGGTTATGG
5952382 CACTACAAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
101 25 0.31
103 4 0.05
104 2 0.02
105 50 0.62
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (101 bp):
ATAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACAATAGCTAGGCTATGACATTCTA
ATGAAAAGACCACAACTGGGTTATGGTACCTTGAAC
Found at i:5952397 original size:105 final size:101
Alignment explanation
Indices: 5952186--5952436 Score: 244
Period size: 105 Copynumber: 2.5 Consensus size: 101
5952176 GAATTGACGG
* * * *
5952186 ATAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGCTGGGCTATGACATTTTA
1 ATAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACAATAGCTAGGCTATGACATTCTA
* * **
5952251 ATGAAAAGACCACAATTGGGTTATGGTACCTTGAAC
66 ATGAAAAGACCACAACTGGGTTATGGCACCTACAAC
*
5952287 ATAAGACCATGGTTGGACCATGGCAGTATAG-ATACATGTGTAAGACAATAGCTAGGCTATGACA
1 ATAAGACCATGGTTGGACCATGGCA--AT-GTATA-A-ATGTAAGACAATAGCTAGGCTATGACA
* * *
5952351 TTCTGATGATAAGACCATAACTGGGTTATGGCA-CTACAA-
61 TTCTAATGAAAAGACCACAACTGGGTTATGGCACCTACAAC
** * *
5952390 ATGTAAGACCATGGCAAGG-CCATGGCAATGCAT--ATGTAAGACCATAG
1 A--TAAGACCATGG-TTGGACCATGGCAATGTATAAATGTAAGACAATAG
5952437 TTGGACCATG
Statistics
Matches: 125, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
99 12 0.10
101 25 0.20
102 1 0.01
103 9 0.07
104 6 0.05
105 70 0.56
106 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (101 bp):
ATAAGACCATGGTTGGACCATGGCAATGTATAAATGTAAGACAATAGCTAGGCTATGACATTCTA
ATGAAAAGACCACAACTGGGTTATGGCACCTACAAC
Found at i:5953139 original size:33 final size:32
Alignment explanation
Indices: 5953102--5953197 Score: 91
Period size: 33 Copynumber: 3.2 Consensus size: 32
5953092 TGAGTTAATG
5953102 CATGACTTAATTTAATGATGCACACTTAACTAA
1 CATGACTTAATTTAATGATGCA-ACTTAACTAA
* *
5953135 CATGA---AAGTT-A-CAT--AA-TTAAACTAA
1 CATGACTTAATTTAATGATGCAACTT-AACTAA
5953160 CATGACTTAATTTAATGATGCAAACTTAACTAA
1 CATGACTTAATTTAATGATGC-AACTTAACTAA
5953193 CATGA
1 CATGA
5953198 AAGTTACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
24 2 0.04
25 12 0.24
26 1 0.02
28 6 0.12
29 2 0.04
30 6 0.12
33 18 0.37
34 2 0.04
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (32 bp):
CATGACTTAATTTAATGATGCAACTTAACTAA
Found at i:5954492 original size:42 final size:42
Alignment explanation
Indices: 5954434--5954528 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
5954424 ATTAATTATA
* ** *
5954434 AATAAT-AATTATAAAATTAATGGATGTTCACACTATT-TTAC
1 AATAATGATTTATAAAATTAATAAATATTCACACT-TTCTTAC
*
5954475 AATAATGATTTATAAAATTAATAAATATTCACTCTTTCTTAC
1 AATAATGATTTATAAAATTAATAAATATTCACACTTTCTTAC
5954517 AATAATGATTTA
1 AATAATGATTTA
5954529 CCATAATATG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
41 8 0.17
42 39 0.83
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.41
Consensus pattern (42 bp):
AATAATGATTTATAAAATTAATAAATATTCACACTTTCTTAC
Found at i:5957371 original size:10 final size:11
Alignment explanation
Indices: 5957343--5957370 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5957333 AACAGCAAGC
5957343 AGAAAAACAAA
1 AGAAAAACAAA
5957354 AGAAAAACAAA
1 AGAAAAACAAA
5957365 AGAAAA
1 AGAAAA
5957371 CTCAAGAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (11 bp):
AGAAAAACAAA
Found at i:5964025 original size:11 final size:11
Alignment explanation
Indices: 5964005--5964108 Score: 61
Period size: 11 Copynumber: 10.4 Consensus size: 11
5963995 TTAAAAATTA
5964005 AAAAAGTATTTT
1 AAAAA-TATTTT
5964017 AAAAATATTTT
1 AAAAATATTTT
5964028 --AAA-A--TT
1 AAAAATATTTT
*
5964034 AAAAA-A-ATT
1 AAAAATATTTT
5964043 AAAAATATTTT
1 AAAAATATTTT
*
5964054 TAAAATATTTT
1 AAAAATATTTT
*
5964065 --AAA-A-TTA
1 AAAAATATTTT
* *
5964072 AAAAATA-ATA
1 AAAAATATTTT
5964082 AAAAAGTATTTT
1 AAAAA-TATTTT
5964094 AAAAATATTTT
1 AAAAATATTTT
5964105 AAAA
1 AAAA
5964109 TTAAAAAATA
Statistics
Matches: 76, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 6 0.08
9 16 0.21
10 9 0.12
11 30 0.39
12 11 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:5964103 original size:40 final size:40
Alignment explanation
Indices: 5964003--5964126 Score: 209
Period size: 40 Copynumber: 3.2 Consensus size: 40
5963993 TTTTAAAAAT
5964003 TAAAAAAGTATTTTAAAAATATTTTAAAATT-AAAAA-AA
1 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
* *
5964041 TTAAAAA-TATTTTTAAAATATTTTAAAATTAAAAAATAA
1 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
5964080 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
1 TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
5964120 TAAAAAA
1 TAAAAAA
5964127 ATATAACAGC
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
37 22 0.28
38 11 0.14
39 8 0.10
40 38 0.48
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (40 bp):
TAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
Found at i:5964607 original size:14 final size:13
Alignment explanation
Indices: 5964567--5964614 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
5964557 TAAAGTATAT
*
5964567 TATTATTTTATTA
1 TATTATTATATTA
* *
5964580 TATT-GTAAATTA
1 TATTATTATATTA
5964592 TATTTATTATATTA
1 TA-TTATTATATTA
5964606 TATTATTAT
1 TATTATTAT
5964615 TTTTTAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 7 0.25
13 13 0.46
14 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:5968102 original size:126 final size:126
Alignment explanation
Indices: 5967871--5968225 Score: 595
Period size: 126 Copynumber: 2.8 Consensus size: 126
5967861 ATTATTTCGA
* * *
5967871 GTTGACGTTTCTTATCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAATAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
5967936 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
* * * *
5967997 -TCTGATGTTTCTGAGCAAATAGTATAAAATCGTTTCTACGAGAATGCTATTTGAGAAGAAATTG
1 GT-TGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
*
5968061 TGAAATCGCGCCCTCGTGGACGCGATTTTTCTACAGTAGGTCATGTAAGAAATAATTTTTTT
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
* *
5968123 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTATACCAGGATGCTATTTAAGAAGAAATTGT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
*
5968188 GAAATCGCGCCCTCGTGGACGCGATTTTGCTATAGTAG
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
5968226 CAAGTTTGAG
Statistics
Matches: 211, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
125 1 0.00
126 209 0.99
127 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (126 bp):
GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
Found at i:5971353 original size:10 final size:10
Alignment explanation
Indices: 5971338--5971362 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5971328 CAAATCTAAC
5971338 ATTATGTAAA
1 ATTATGTAAA
5971348 ATTATGTAAA
1 ATTATGTAAA
5971358 ATTAT
1 ATTAT
5971363 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:5971495 original size:29 final size:29
Alignment explanation
Indices: 5971473--5972104 Score: 623
Period size: 29 Copynumber: 21.9 Consensus size: 29
5971463 GGGTTTTTAA
*
5971473 TTAAGTTAGGTTAGGGTTAGGGTTAGGGTTT
1 TTAA-TTAAGTTA-GGTTAGGGTTAGGGTTT
5971504 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
*
5971533 TTAATTAATTTAGGTTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
*
5971562 TTAATTAATTTAGGTTAGGGTT----TTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
* *
5971587 AGTTAGGTTAGGTTAGGGTTAGGGTTAGGGTTT
1 --TTA-ATTAAGTTA-GGTTAGGGTTAGGGTTT
5971620 TTAATTAAGTTAGGTTAGGGTTAGGGTTAAGGTTT
1 TTAATTAAGTTAGGTTAGGGTTA--G----GGTTT
*
5971655 TTAATTAAGTAAGGTTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
* * *
5971684 TTAGTTAGGTTAGATTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
*
5971713 TTAATTAATTTAGGTTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
*
5971742 TTAATTAATTTAGGTTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
5971771 TTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTT
1 TTAATT-A---A-GTTA-GGTTAGGGTTAGGGTTT
*
5971806 TTAATTAAGTAAGGTTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
* *
5971835 TTAGTTAGGTTAGGTTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
5971864 TTAATTAATTTAGGTTAGGTTAGGGTTAGGGTTT
1 TTAATT-A---A-GTTAGGTTAGGGTTAGGGTTT
* *
5971898 TTAATTAATTTAGGTTAGGGTTAAGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
5971927 TTAATTAAGTTAGGTTA-GGTTA-GG---
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
* *****
5971951 ----TTAGGTTAGGTTAGGGTT-TTTAAT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
* * *
5971975 TAAGTTAGGTTAGGGTTAGGG-T-----TT
1 TTAATTAAGTTA-GGTTAGGGTTAGGGTTT
*
5971999 TTAATTAAGTTAGGTTAAGGTTAGGG--T
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
5972026 TT--TT-AGTTAGGTTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
*
5972052 TTAATTAATTTAGGTTAGGGTTAGGGTTT
1 TTAATTAAGTTAGGTTAGGGTTAGGGTTT
5972081 TTAATTAAGTTAGGTTA-GGTTAGG
1 TTAATTAAGTTAGGTTAGGGTTAGG
5972105 TTAGGGTTTT
Statistics
Matches: 519, Mismatches: 37, Indels: 93
0.80 0.06 0.14
Matches are distributed among these distances:
20 12 0.02
21 4 0.01
23 7 0.01
24 29 0.06
25 5 0.01
26 3 0.01
27 8 0.02
28 29 0.06
29 306 0.59
30 20 0.04
31 9 0.02
33 6 0.01
34 31 0.06
35 50 0.10
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (29 bp):
TTAATTAAGTTAGGTTAGGGTTAGGGTTT
Found at i:5971629 original size:151 final size:149
Alignment explanation
Indices: 5971462--5972127 Score: 891
Period size: 151 Copynumber: 4.4 Consensus size: 149
5971452 AATTGTGTTA
5971462 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA
*
5971527 GGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTT-TTTAGTT
66 GGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTGTTTA-TT
* **
5971591 AGGTTAGGTTAGGGTTAGGGTT
130 A-ATTAATTTA-GGTTAGGGTT
* *
5971613 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAAGGTTTTTAATTAAGTAAGGTTAGGGTTA
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA
* * *
5971678 GGGTTTTTAGTTAGGTTAGATTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTT-
66 GGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTT---GTTTA
5971742 TTAATTAATTTAGGTTAGGGTT
128 TTAATTAATTTAGGTTAGGGTT
*
5971764 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTAAGGTTAGGGTTA
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA
* *
5971829 GGGTTTTTAGTTAGGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGTTAGGGTTAGG
66 GGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA--T---TTAGGTTAGGGTT---
5971894 GTTT-TTAATTAATTTAGGTTAGGGTT
123 GTTTATTAATTAATTTAGGTTAGGGTT
*
5971920 AAGGTTTTTAATTAAGTTAGGTTAGGTTAGGTTAGGTTAGGTTAGGGTTTTTAATTAAGTTAGGT
1 AGGGTTTTTAATTAAGTTAGGTTA-G---GGTTA-G---GGTTAGGGTTTTTAATTAAGTTAGGT
* * **
5971985 TAGGGTTAGGGTTTTTAATTAAGTTAGGTTAAGGTTAGGGTTTTTAGTTAGGTTAGGGTTA-GG-
58 TAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTA-GGTTAGGGT
5972048 -GTTT-TTAATTAATTTAGGTTAGGGTT
122 TGTTTATTAATTAATTTAGGTTAGGGTT
* *
5972074 AGGGTTTTTAATTAAGTTAGGTTA-GGTTA-GGTTAGGGTTTTCAATTAAATTAGG
1 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
5972128 GTTTTTATTT
Statistics
Matches: 475, Mismatches: 22, Indels: 43
0.88 0.04 0.08
Matches are distributed among these distances:
144 23 0.05
149 5 0.01
151 232 0.49
152 6 0.01
153 4 0.01
154 49 0.10
155 3 0.01
156 65 0.14
157 1 0.00
159 5 0.01
160 10 0.02
161 1 0.00
164 71 0.15
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (149 bp):
AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA
GGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTGTTTATTA
ATTAATTTAGGTTAGGGTT
Found at i:5971969 original size:43 final size:45
Alignment explanation
Indices: 5971907--5971994 Score: 153
Period size: 43 Copynumber: 2.0 Consensus size: 45
5971897 TTTAATTAAT
5971907 TTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGGTTA-GGTTAGG
1 TTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
*
5971951 TTAGGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
1 TTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
5971995 GTTTTTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 27 0.64
44 15 0.36
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (45 bp):
TTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAGGTTAGGGTTAGG
Found at i:5971988 original size:5 final size:5
Alignment explanation
Indices: 5971935--5971965 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
5971925 TTTTAATTAA
5971935 GTTAG GTTAG GTTAG GTTAG GTTAG GTTAG G
1 GTTAG GTTAG GTTAG GTTAG GTTAG GTTAG G
5971966 GTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (5 bp):
GTTAG
Found at i:5972038 original size:53 final size:53
Alignment explanation
Indices: 5971950--5972099 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
5971940 GTTAGGTTAG
5971950 GTTAGGTT-AGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAAGGTTAGGG--TTT--TT-AGTTAGGTTAGGGTTAGGGTTTTTAATTAA
5972007 GTTAGGTTAAGGTTAGGGTTTTTAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGTTAAGGTTAGGGTTTTTAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
* * * *
5972060 TTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA-GGTTAGG
1 GTTAGGTTAAGGTTAGGGTTTTTAGTTAGGTTAGGGTTAGG
5972100 TTAGGTTAGG
Statistics
Matches: 88, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
52 7 0.08
53 59 0.67
54 2 0.02
56 3 0.03
57 8 0.09
58 9 0.10
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (53 bp):
GTTAGGTTAAGGTTAGGGTTTTTAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:5972053 original size:82 final size:80
Alignment explanation
Indices: 5971511--5972104 Score: 565
Period size: 93 Copynumber: 6.9 Consensus size: 80
5971501 TTTTTAATTA
* *
5971511 AGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGG
1 AGTTAGGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
*** *
5971576 TTAGGGTTTTTAGTTAGGTT
65 TTA-GG-TTAGGGTT--TTT
5971596 AGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTAAGGTTTTTAATT
1 A-GTTA-GGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTA--G----GGTTTTTAATT
*
5971661 AAGTAAGGTTAGGGTTAGGGTTTTT
57 AAGTTAGGTTA-GGTTAGGGTTTTT
* *
5971686 AGTTAGGTTAGATTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAT
1 AGTTA-G---G-TTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAG
5971751 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTT
60 TTAGGTTA-GGTTAGGG----T--TT---TT
* * *
5971782 AGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAGTAAGGTTAGGGTTAGGGTTTTTAGTTAGGTTA
1 A-GTTA-GGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTA
5971847 GGTTAGGGTTAGGGTTTTTAATTAATTT
63 GGTTA-GGTTAGGG-------TT--TTT
* *
5971875 AGGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAAGGTTTTTAATTAAGTTAG
1 A-GTTAGGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAG
5971940 GTTAGGTTA--G-----
64 GTTAGGTTAGGGTTTTT
5971950 -GTTAGGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGT
1 AGTTAGGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGT
5972014 TAAGGTTAGGGTTTTT
66 T-AGGTTAGGGTTTTT
*
5972030 AGTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
1 AGTTAGGTTA-GGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGG
5972095 TTAGGTTAGG
65 TTAGGTTAGG
5972105 TTAGGGTTTT
Statistics
Matches: 447, Mismatches: 25, Indels: 78
0.81 0.05 0.14
Matches are distributed among these distances:
72 54 0.12
73 15 0.03
75 1 0.00
81 17 0.04
82 55 0.12
85 1 0.00
86 4 0.01
87 68 0.15
89 8 0.02
90 3 0.01
91 7 0.02
92 64 0.14
93 135 0.30
94 2 0.00
96 7 0.02
97 6 0.01
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (80 bp):
AGTTAGGTTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGT
TAGGTTAGGGTTTTT
Found at i:5972094 original size:18 final size:18
Alignment explanation
Indices: 5972071--5972134 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
5972061 TTAGGTTAGG
5972071 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* *
5972089 GTTA-GG---TTAGGTTAG
1 GTTAGGGTTTTTA-ATTAA
*
5972104 GTTAGGGTTTTCAATTAA
1 GTTAGGGTTTTTAATTAA
*
5972122 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
5972135 TTTTATTATA
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
14 3 0.09
15 7 0.21
16 2 0.06
17 2 0.06
18 18 0.53
19 2 0.06
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.47
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:5972205 original size:26 final size:25
Alignment explanation
Indices: 5972175--5972223 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
5972165 CTTCAAAAAT
5972175 TTCTATGCGTATTACATCAAATAAAC
1 TTCTAT-CGTATTACATCAAATAAAC
**
5972201 TTCTATTTTATTACATCAAATAA
1 TTCTATCGTATTACATCAAATAA
5972224 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (25 bp):
TTCTATCGTATTACATCAAATAAAC
Found at i:5972664 original size:18 final size:18
Alignment explanation
Indices: 5972620--5972665 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
5972610 TATTCGGAAA
* *
5972620 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
5972638 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
5972656 AGGAAACATA
1 AGGATACATA
5972666 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:5974258 original size:15 final size:16
Alignment explanation
Indices: 5974233--5974263 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
5974223 ATAATTATCT
5974233 AAAAATACTTAAATAA
1 AAAAATACTTAAATAA
5974249 AAAAAT-CTTAAATAA
1 AAAAATACTTAAATAA
5974264 TAATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATACTTAAATAA
Found at i:5974375 original size:10 final size:10
Alignment explanation
Indices: 5974356--5974403 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
5974346 GCCATTGATG
*
5974356 AAAATATAAA
1 AAAATTTAAA
5974366 AAAATTTAAA
1 AAAATTTAAA
** *
5974376 ACTATTTTAA
1 AAAATTTAAA
*
5974386 AAAATATAAA
1 AAAATTTAAA
5974396 AAAATTTA
1 AAAATTTA
5974404 TAATTATTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:5974390 original size:30 final size:30
Alignment explanation
Indices: 5974356--5974421 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
5974346 GCCATTGATG
5974356 AAAATATAAAAAAATTTAAAACTATTTTAA
1 AAAATATAAAAAAATTTAAAACTATTTTAA
* *
5974386 AAAATATAAAAAAATTTATAATTATTTTAA
1 AAAATATAAAAAAATTTAAAACTATTTTAA
5974416 AAAATA
1 AAAATA
5974422 GATTTGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAACTATTTTAA
Found at i:5975230 original size:65 final size:56
Alignment explanation
Indices: 5975179--5975360 Score: 186
Period size: 56 Copynumber: 3.2 Consensus size: 56
5975169 AATCCCCTCC
*
5975179 CAAAAAAAAAACTTT-TTTAACTTCTAAATTTCATAAATTTTCTAACTATAGTTTCA
1 CAAAAAAAAAA-TTTATTTAACTTCTAAATTTCATAAATTTTCTAACAATAGTTTCA
* * *
5975235 CAAAAAAAACATTTATTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTTAA
1 CAAAAAAAAAATTTATTTAACTTCTAAATTTCATAAATTTTCTAACAATAG-TTTCA
* ** * * ** * * * *
5975292 CCCAAAAAATTAGTTCTTTTGCTTCTCAATTTCATAACTTTTTTAACCATAGTTTCAA
1 -CAAAAAAAAAATTTATTTAACTTCTAAATTTCATAAATTTTCTAACAATAGTTTC-A
5975350 CAAAAAAAAAA
1 CAAAAAAAAAA
5975361 GAACTTCAGC
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
55 3 0.03
56 44 0.43
57 15 0.15
58 41 0.40
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (56 bp):
CAAAAAAAAAATTTATTTAACTTCTAAATTTCATAAATTTTCTAACAATAGTTTCA
Found at i:5975459 original size:120 final size:120
Alignment explanation
Indices: 5975199--5975530 Score: 337
Period size: 120 Copynumber: 2.8 Consensus size: 120
5975189 ACTTTTTTAA
* * * * ***
5975199 CTTCTAAATTTCATAAATTTTCTAACTATAGTTTCACAAAAAAAACATTTA-TT-TAACTTCTTA
1 CTTCTCAATTTCATAACTCTTCTAACCATAGTTTCACAAAAAAAA-AAACACTTCTAACTTCTTA
* * * * * **
5975262 ATTTCATAAATTTTCTAACAATAGTTTTAA---CCC--AAAAAATTAGTTCTTTTG
65 ATTTCACAAATTCTCTAACTATAGTTTCAACCCCCCTAAAAAAATCACATCTTTTG
* * *
5975313 CTTCTCAATTTCATAACTTTTTTAACCATAGTTTCAACAAAAAAAAAAGA-ACTTC-AGCTTCTT
1 CTTCTCAATTTCATAACTCTTCTAACCATAGTTTC-ACAAAAAAAAAA-ACACTTCTAACTTCTT
* *
5975376 AATTTGACAAA-TCTTCT-ATTAATAGTTTCAACCCCCCTAAAAAAATCACATCTTTTG
64 AATTTCACAAATTC-TCTAACT-ATAGTTTCAACCCCCCTAAAAAAATCACATCTTTTG
5975433 CTTCTCAATTTCATAAAC-CTTCTAACCATAGTTTCACAAAAAAAAAAACACTTCTTTAACTTCT
1 CTTCTCAATTTCAT-AACTCTTCTAACCATAGTTTCACAAAAAAAAAAACACTTC--TAACTTCT
5975497 TAATTTCACAAATTCTCTAACTATAGTTTCAACC
63 TAATTTCACAAATTCTCTAACTATAGTTTCAACC
5975531 ACCACCCCAA
Statistics
Matches: 179, Mismatches: 21, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
114 35 0.20
115 40 0.22
118 4 0.02
119 17 0.09
120 44 0.25
121 3 0.02
122 32 0.18
123 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (120 bp):
CTTCTCAATTTCATAACTCTTCTAACCATAGTTTCACAAAAAAAAAAACACTTCTAACTTCTTAA
TTTCACAAATTCTCTAACTATAGTTTCAACCCCCCTAAAAAAATCACATCTTTTG
Found at i:5975477 original size:57 final size:56
Alignment explanation
Indices: 5975194--5975527 Score: 200
Period size: 57 Copynumber: 5.7 Consensus size: 56
5975184 AAAAAACTTT
* * * ** *
5975194 TTTAACTTCTAAATTTCATAAATTTTCTAACTATAGTTTCACAAAAAAAACATTTA
1 TTTAGCTTCTCAATTTCATAAATTTTCTAACAATAGTTTCACAAAAAAAACAGATC
* * * * ** *
5975250 TTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTTAACCCAAAAAATTAGTTC
1 TTTAGCTTCTCAATTTCATAAATTTTCTAACAATAG-TTTCA-CAAAAAAAACAGATC
* * * * * *
5975308 TTTTGCTTCTCAATTTCATAACTTTTTTAACCATAGTTTCAACAAAAAAAAAAGAAC
1 TTTAGCTTCTCAATTTCATAAATTTTCTAACAATAGTTTC-ACAAAAAAAACAGATC
* * * * * ** * *
5975365 TTCAGCTTCTTAATTTGACAAATCTTCTATTAATAGTTTCAACCCCCCTAAAAAAATCACATC
1 TTTAGCTTCTCAATTTCATAAATTTTCTAACAATAGTTTC-A-----C-AAAAAAAACAGATC
* ** * **
5975428 TTTTGCTTCTCAATTTCATAAACCTTCTAACCATAGTTTCACAAAAAAAAAAACACTTC
1 TTTAGCTTCTCAATTTCATAAATTTTCTAACAATAGTTTCAC---AAAAAAAACAGATC
* * * * *
5975487 TTTAACTTCTTAATTTCACAAATTCTCTAACTATAGTTTCA
1 TTTAGCTTCTCAATTTCATAAATTTTCTAACAATAGTTTCA
5975528 ACCACCACCC
Statistics
Matches: 212, Mismatches: 55, Indels: 19
0.74 0.19 0.07
Matches are distributed among these distances:
56 34 0.16
57 49 0.23
58 41 0.19
59 45 0.21
62 2 0.01
63 41 0.19
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (56 bp):
TTTAGCTTCTCAATTTCATAAATTTTCTAACAATAGTTTCACAAAAAAAACAGATC
Found at i:5975502 original size:59 final size:59
Alignment explanation
Indices: 5975180--5975527 Score: 237
Period size: 59 Copynumber: 5.9 Consensus size: 59
5975170 ATCCCCTCCC
* * *
5975180 AAAAAAAAA-ACTTTTTTAACTTCTAAATTTCATAAATTTTCTAACTATAGTTTCAC--
1 AAAAAAAAACACTTCTTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTCACAA
* * * *
5975236 -AAAAAAAACATTTATTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTTA-AC
1 AAAAAAAAACACTTCTTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTCACAA
** ** * ** * * * *
5975293 CCAAAAAATTAGTTCTTTTGCTTCTCAATTTCATAACTTTTTTAACCATAGTTTCAACAA
1 AAAAAAAAACACTTCTTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTC-ACAA
* * * * ** **
5975353 AAAAAAAAGA-ACTTC---AGCTTCTTAATTTGACAAATCTTCTATTAATAGTTTCAACCCCCC
1 AAAAAAAA-ACACTTCTTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTC-A---CAA
* * * ** * ** *
5975413 TAAAAAAATCACATCTTTTGCTTCTCAATTTCATAAACCTTCTAACCATAGTTTCACAA
1 AAAAAAAAACACTTCTTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTCACAA
* * *
5975472 AAAAAAAAACACTTCTTTAACTTCTTAATTTCACAAATTCTCTAACTATAGTTTCA
1 AAAAAAAAACACTTCTTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTCA
5975528 ACCACCACCC
Statistics
Matches: 220, Mismatches: 58, Indels: 25
0.73 0.19 0.08
Matches are distributed among these distances:
55 8 0.04
56 41 0.19
57 29 0.13
58 42 0.19
59 47 0.21
60 23 0.10
62 1 0.00
63 29 0.13
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.38
Consensus pattern (59 bp):
AAAAAAAAACACTTCTTTAACTTCTTAATTTCATAAATTTTCTAACAATAGTTTCACAA
Found at i:5975688 original size:60 final size:60
Alignment explanation
Indices: 5975553--5975688 Score: 132
Period size: 60 Copynumber: 2.3 Consensus size: 60
5975543 ACAATCGTTT
* * * *
5975553 TTTAGTTTTTCAATTTCAAAACACTTTTAACAATAGTTCCCCCGTAAAAAAAATAGTTTT
1 TTTAGCTTTTCAATTTCAAAACACTTTTAACAATAGTTCACCCGTAAAAAAAATAGCTTC
* * *** * * *
5975613 TTTATCTTCTT-AATTTCATAATTGTTTTAACCATAGTTTCACTCTTAAAAAAAATA-CTTC
1 TTTAGCTT-TTCAATTTCAAAACACTTTTAACAATAG-TTCACCCGTAAAAAAAATAGCTTC
5975673 TTTAGCTTTTCAATTT
1 TTTAGCTTTTCAATTT
5975689 AACAAGTCTT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
59 2 0.03
60 40 0.67
61 18 0.30
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (60 bp):
TTTAGCTTTTCAATTTCAAAACACTTTTAACAATAGTTCACCCGTAAAAAAAATAGCTTC
Found at i:5975847 original size:23 final size:23
Alignment explanation
Indices: 5975821--5975865 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5975811 TTTAGTAGTG
* * *
5975821 AAATCTTCTAACCATAGTTTCAA
1 AAATATTCTAAACATAATTTCAA
5975844 AAATATTCTAAACATAATTTCA
1 AAATATTCTAAACATAATTTCA
5975866 CCAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATATTCTAAACATAATTTCAA
Found at i:5976351 original size:65 final size:64
Alignment explanation
Indices: 5976220--5976824 Score: 472
Period size: 65 Copynumber: 9.5 Consensus size: 64
5976210 CCCCCCCAAA
* * * * * *
5976220 AAAAAAAATACAGTTCTTTAGTTTCTCAATTTTACAACTCTTTTAACCATAGTTTC-A----CCC
1 AAAAAAAA-ACACTTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCC
* * *
5976280 AAAAAAAATA-A-TTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACAATAGTTTCAACCCCCCC
1 AAAAAAAA-ACACTTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCC
* * * * * *
5976343 -TAAAAAAA-AGTTAC-TTATCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAACCCTCCC
1 AAAAAAAAACACTT-CTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCC-CCC
5976405 C
64 C
* * * * *
5976406 ACAAAGAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATGGTTTCAA---CCCC
1 AAAAAAAAACACTTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCC
* * * * * * * *
5976467 -TAAAAAAACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCAACCCTTCCC
1 AAAAAAAAACACTTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCAA--C--CCC
5976531 CCC
62 CCC
* * * *
5976534 ACCACAAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTTTAACCATAGTTTCAACCCTT
1 A--A-AAAAAAACACTTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCAA-CC--
5976599 CCCCC
60 CCCCC
* * *
5976604 ACCAAAAAAACACTTCTTTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTCAAACCCCCT
1 A-AAAAAAAACACTTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTC-AACCCCC-
5976669 CC
63 CC
* * * ** * * *
5976671 -CAAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTTTAACCCACAC
1 AAAAAAAAACACTTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCC
* * * *
5976734 AAAAAAAAACACTTTTTTACCTT-TTCAATTTCACAAATCTTCTAACCATAGTTTCAA-CTCCTC
1 AAAAAAAAACACTTCTTTAGCTTCTT-AATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCC
* * *
5976797 -TAAAAAAACACCTCTTTAACTTCTTAAT
1 AAAAAAAAACACTTCTTTAGCTTCTTAAT
5976825 GATGTAGTCA
Statistics
Matches: 442, Mismatches: 74, Indels: 56
0.77 0.13 0.10
Matches are distributed among these distances:
58 35 0.08
59 2 0.00
60 55 0.12
61 6 0.01
62 66 0.15
63 16 0.04
64 58 0.13
65 86 0.19
66 3 0.01
67 6 0.01
68 50 0.11
69 3 0.01
70 8 0.02
71 48 0.11
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (64 bp):
AAAAAAAAACACTTCTTTAGCTTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCC
Found at i:5976561 original size:71 final size:69
Alignment explanation
Indices: 5976468--5976791 Score: 319
Period size: 64 Copynumber: 4.8 Consensus size: 69
5976458 TTCAACCCCT
* * * * * *
5976468 AAAAAAACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCAACCCTTCCCCC
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCTT-CCCC
5976533 CACCAC
65 CACC-C
* * * * *
5976539 AAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTTTAACCATAGTTTCAACCCTTCCCCC
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCTTCCCCC
5976604 A-CC
66 ACCC
* * *
5976607 AAAAAAACACTTCTTTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTCAA----ACCCCC
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCTTCCCCC
*
5976668 TCCC
66 ACCC
* ** * *
5976672 AAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTTTAA-----CCCAC
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCTTCCCCC
**
5976732 ACAA
66 ACCC
* * *
5976736 AAAAAAACACTTTTTTACCTT-TTCAATTTCACAAATCTTCTAACCATAGTTTCAAC
1 AAAAAAACACTTCTTTAGCTTCTT-AATTTCATAAATCTTCTAACCATAGTTTCAAC
5976792 TCCTCTAAAA
Statistics
Matches: 218, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.01
64 55 0.25
65 51 0.23
68 50 0.23
69 1 0.00
70 6 0.03
71 53 0.24
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (69 bp):
AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCTTCCCCC
ACCC
Found at i:5976697 original size:264 final size:262
Alignment explanation
Indices: 5976281--5976791 Score: 615
Period size: 264 Copynumber: 1.9 Consensus size: 262
5976271 GTTTCACCCA
*
5976281 AAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACAATAGTTTCAACCCCCCCTAA
1 AAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACAATAGTTTCAACCCCCCCCAA
* * * * * *
5976346 AAAAAAGTTACTTATCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAACCCTCCCCACAAA
66 AAAAAACTTACTTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTCAACCCTCCCCACAAA
* * *
5976411 GAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATGGTTTCAA-CC-C-C-TAAAA
131 AAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCCACACAAAAAA
* * * * *
5976472 AAACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCAACCCTTCCCCCCACC
196 AAACACTTATTTACCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCCTTCCCCCCACC
5976537 AC
261 AC
* * * * *
5976539 AAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTT-TAACCATAGTTTCAACCCTTCCCC
1 AAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAAT-TTTCTAACAATAGTTTCAA--C--CCCC
5976603 CACCAAAAAAACACTT-CTTTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTCAAACCC-
61 C-CCAAAAAAA-ACTTAC-TTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTC-AACCCT
* * * * ** *
5976666 CCTCC-CAAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTTTAACCC
122 CC-CCACAAAAAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCC
* *
5976730 ACACAAAAAAAAACACTTTTTTACCTTTTCAATTTCACAAATCTTCTAACCATAGTTTCAAC
186 ACACAAAAAAAAACACTTATTTACCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAAC
5976792 TCCTCTAAAA
Statistics
Matches: 210, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
258 46 0.22
259 3 0.01
260 1 0.00
262 5 0.02
263 9 0.04
264 86 0.41
265 9 0.04
266 1 0.00
267 1 0.00
268 49 0.23
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (262 bp):
AAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACAATAGTTTCAACCCCCCCCAA
AAAAAACTTACTTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTCAACCCTCCCCACAAA
AAAACAATTCTTTAGATTCTTAATTTCACAAATCTTCTAACCATAGTTTCAACCCACACAAAAAA
AAACACTTATTTACCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCCTTCCCCCCACC
AC
Found at i:5978694 original size:3 final size:3
Alignment explanation
Indices: 5978686--5978727 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
5978676 ATAAATTTGA
*
5978686 TAT TAT TAT TAT TAT TAC TAT TAT TAT TATT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA
5978728 GTTTTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:5979605 original size:72 final size:72
Alignment explanation
Indices: 5979488--5979629 Score: 239
Period size: 72 Copynumber: 2.0 Consensus size: 72
5979478 TATTTTCAAA
* * *
5979488 CAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
1 CAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTAACTGGGCATGATCCCTT
5979553 TTTTTCT
66 TTTTTCT
* *
5979560 CAAGTTTTAAACGGTATCGGGAATTAAGAAAAGATTGTGTCCTAACTAACTGGGCATGATCCCTT
1 CAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTAACTGGGCATGATCCCTT
5979625 TTTTT
66 TTTTT
5979630 AAATCCGAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (72 bp):
CAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTAACTGGGCATGATCCCTT
TTTTTCT
Found at i:5991712 original size:50 final size:50
Alignment explanation
Indices: 5991599--5992638 Score: 756
Period size: 50 Copynumber: 20.7 Consensus size: 50
5991589 GCAGCGGAAC
* * * * *
5991599 AGATTGAAGCTAGAACAGCGAATCTTGCTTCCCCT-GAAATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTT-CCCTAG-CAGTGCAGTGAAAT
* *
5991650 AGATTGAAGCTACAACAGCGAATCTTACTTCACTAGCAGTGCAGTGAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * * *
5991700 AGATTGAAGCTACAACAACGAATCTTGCTTCCCCAACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* ** * * *
5991750 AGATTGAAGCTACAATAGCGAATCTTACTTCCCTAGTGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * * * *
5991800 AGATTGAAGCTACAATAGTGAATCTTGCTTTCCCGA-CATTACAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTAC-TTCCCTAGCAGTGCAGTGAAAT
* * * * * *
5991850 AGATTGAAGCTACAACAACGAATCTTGCTTCCC-CGACATTGTAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
* ** * * *
5991900 AGATTGAAGCTGCAACAATGAATCTTACTTCCCTAGCGGTGTAGTGGAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * * * * *
5991950 AGATTGAAGCTACAACATCAAATCTTACGTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * * *
5992000 AGATTGAAGCTACAACAACAAATCTTGCTTCCC-CGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
** * * * * *
5992050 AGATTGAAGCTACAACAGTTAATCTTATTTCCCTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * *
5992100 AGATTGAAGCTGCAACAGCGAATCTTGCTTCCCT-GACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
** * * *
5992150 AGATTGAAGCTACAACAGCGAATCTTACTTTTCTAGTAGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * *
5992200 AGATTGAAGCTACAACAGCAAATCTTGCTTCCC-CGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
* * * * *
5992250 AGATTGAAGCTACAATAGCGAATCTTACTTCCCTAGCTGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * ** * * *
5992300 AGATTGAAGCTACAACAGTGAATCTTGCTTTCCC-AAAATTACAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTAC-TTCCCTAGCAGTGCAGTGAAAT
* * * * * *
5992350 AGATTGAAGCTACAACAACGAATCTTACTTTCCT-GACGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
* * * * * *
5992400 AGACTGAAGCTACAACAGCGAATCTTGCTTCCC-CGACATTGTAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAG-CAGTGCAGTGAAAT
* ** * * * * * *
5992450 AGATTGAAGTTACAACAATGAATCATACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* * * * *
5992500 AGATTGAAGCTACAACATCAAATCTTATTTCCGTGGCA-TGGCAGT-AGAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGT-GCAGTGA-AAT
* * * ** * * *
5992550 AGATTAAAACTAAAGACAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAAT
1 AGATTGAAGCTACA-ACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
* *
5992601 AGATTAAAGCTGA-AGGCAGCGAATCTTA-TCTCCCTAGC
1 AGATTGAAGCT-ACA-ACAGCGAATCTTACT-TCCCTAGC
5992639 GTTAAGACTG
Statistics
Matches: 778, Mismatches: 188, Indels: 46
0.77 0.19 0.05
Matches are distributed among these distances:
49 13 0.02
50 660 0.85
51 103 0.13
52 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGCAGTGCAGTGAAAT
Found at i:5992551 original size:100 final size:100
Alignment explanation
Indices: 5991594--5992611 Score: 1194
Period size: 100 Copynumber: 10.2 Consensus size: 100
5991584 AAGTCGCAGC
* *
5991594 GGAACAGATTGAAGCTAGAACAGCGAATCTTGCTTCCCCTGAAATTGCAGTTAAATAGATTGAAG
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCC-GACATTGCAGTTAAATAGATTGAAG
* * * *
5991659 CTACAACAGCGAATCTTACTTCACTAGCAGTGCAGT
65 CTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
* * *
5991695 GAAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCAACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * *
5991760 TACAATAGCGAATCTTACTTCCCTAGTGGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
* * * *
5991795 GGAACAGATTGAAGCTACAATAGTGAATCTTGCTTTCCCGACATTACAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * * * **
5991860 TACAACAACGAATCTTGCTTCCCCGACATTGTAGT
66 TACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
** * * ** * * ** * **
5991895 TAAATAGATTGAAGCTGCAACAATGAATCTTACTT-CCCTAGCGGTGTAGTGGAATAGATTGAAG
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGA-CATTGCAGTTAAATAGATTGAAG
* * *
5991959 CTACAACATCAAATCTTACGTCCCTGGCGGTGTAGT
65 CTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
* *
5991995 GGAACAGATTGAAGCTACAACAACAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
** * *
5992060 TACAACAGTTAATCTTATTTCCCTGGCGGTGCAGT
66 TACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
* *
5992095 GGAACAGATTGAAGCTGCAACAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
** * ** *
5992160 TACAACAGCGAATCTTACTTTTCTAGTAGTGCAGT
66 TACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
*
5992195 GGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * *
5992260 TACAATAGCGAATCTTACTTCCCTAGCTGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
* * * * *
5992295 GGAACAGATTGAAGCTACAACAGTGAATCTTGCTTTCCCAAAATTACAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * *
5992360 TACAACAACGAATCTTACTTTCCTGACGGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
* * *
5992395 GGAACAGACTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGTAGTTAAATAGATTGAAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
** *
5992460 TACAACAATGAATCATACTTCCCTGGCGGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
* * ** ** * * * *
5992495 GGAACAGATTGAAGCTACAACATCAAATCTTATTTCCGTGGCATGGCAG-TAGAATAGATTAAAA
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA-AATAGATTGAAG
* ** ** *
5992559 CTAAAGACAGCGAATCTTGTTTCCCTGGCATTGCAGT
65 CTACA-ACAGCGAATCTTACTTCCCTGGCGGTGTAGT
* *
5992596 GGAATAGATTAAAGCT
1 GGAACAGATTGAAGCT
5992612 GAAGGCAGCG
Statistics
Matches: 777, Mismatches: 136, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
99 6 0.01
100 694 0.89
101 77 0.10
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (100 bp):
GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
TACAACAGCGAATCTTACTTCCCTGGCGGTGTAGT
Found at i:5992582 original size:51 final size:51
Alignment explanation
Indices: 5992520--5992635 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
5992510 TACAACATCA
*
5992520 AATCTTATTTCCGTGGCATGGCAGTAGAATAGATTAAAACTAAAGACAGCG
1 AATCTTATTTCCCTGGCATGGCAGTAGAATAGATTAAAACTAAAGACAGCG
* * * * * *
5992571 AATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTGAAGGCAGCG
1 AATCTTATTTCCCTGGCATGGCAGTAGAATAGATTAAAACTAAAGACAGCG
*
5992622 AATCTTATCTCCCT
1 AATCTTATTTCCCT
5992636 AGCGTTAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (51 bp):
AATCTTATTTCCCTGGCATGGCAGTAGAATAGATTAAAACTAAAGACAGCG
Found at i:5992870 original size:132 final size:132
Alignment explanation
Indices: 5992704--5992963 Score: 385
Period size: 132 Copynumber: 2.0 Consensus size: 132
5992694 AAGATACCAG
* * *
5992704 CCTTGTCTCCTTGAGAAGCAGTAGAGTAGGTTGAAGATTGTATATCATGTCTCCCTAAGCAGTAG
1 CCTTGTCTCCCTGAGAAGCAGTAGAGTAGATTGAAGATTGTAGATCATGTCTCCCTAAGCAGTAG
* * * *
5992769 TGGAGAAGATCGAAGACGGTAAATCTTATTTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAAC
66 TAGAGAAGATCGAAGACAGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAAC
5992834 AA
131 AA
* *
5992836 CCTTGTCTCCCTGAGAAGCAGTGGAGTAGATTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAG
1 CCTTGTCTCCCTGAGAAGCAGTAGAGTAGATTGAAGATTGTAGATCATGTCTCCCTAAGCAGTAG
* ** * * *
5992901 TAGAGCAGATCGAAGGTAGCGAATCTTATCTTCTCAAGGTAGTAGGGAAGTAGATTTAAGCCA
66 TAGAGAAGATCGAAGACAGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
5992964 CTAGTCTTAT
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 113 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (132 bp):
CCTTGTCTCCCTGAGAAGCAGTAGAGTAGATTGAAGATTGTAGATCATGTCTCCCTAAGCAGTAG
TAGAGAAGATCGAAGACAGCAAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCAAC
AA
Found at i:5994406 original size:38 final size:38
Alignment explanation
Indices: 5994355--5994430 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
5994345 GAAAAGGCGC
* *
5994355 TTAAAAGGGCACTCTTTTATTTTCGCCGACCGCCGTAT
1 TTAAAAGGGCACTCTTTTATTTTCACCGACCACCGTAT
5994393 TTAAAAGGGCACTCTTTTATTTTCACCGACCACCGTAT
1 TTAAAAGGGCACTCTTTTATTTTCACCGACCACCGTAT
5994431 ACGGCGGCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (38 bp):
TTAAAAGGGCACTCTTTTATTTTCACCGACCACCGTAT
Found at i:5995894 original size:72 final size:72
Alignment explanation
Indices: 5995808--5995949 Score: 239
Period size: 72 Copynumber: 2.0 Consensus size: 72
5995798 TATTTTCAAA
* * * *
5995808 CAAGTTTTAAACGATCTCGTGAATTAATAAGAGATCGTGTCCTAACTTACTATGCATGATCCCTT
1 CAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTT
5995873 TTTTTCT
66 TTTTTCT
*
5995880 CAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTAGGCATGATCCCTT
1 CAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTT
5995945 TTTTT
66 TTTTT
5995950 AAATCCGAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (72 bp):
CAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTT
TTTTTCT
Found at i:6004213 original size:31 final size:31
Alignment explanation
Indices: 6004175--6004258 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 31
6004165 ATAAATATAT
*
6004175 TTATTTTTTAATTTTAAAATACTTTTTT-TTA
1 TTATTTTTTAATTTTAAAATA-TTTTTTAATA
6004206 TTATTTTTTAATTTTAAAAT-TTTTTTAAAATA
1 TTATTTTTTAATTTTAAAATATTTTTT--AATA
6004238 TT-TTTTTTAATTTTTAAAATA
1 TTATTTTTTAA-TTTTAAAATA
6004259 AAATTTTGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
29 6 0.13
31 28 0.60
32 13 0.28
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (31 bp):
TTATTTTTTAATTTTAAAATATTTTTTAATA
Found at i:6005420 original size:31 final size:31
Alignment explanation
Indices: 6005385--6005452 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
6005375 AAAAAAACAT
*
6005385 AATAGCCCAATGACTTAAATAAAAACTTTCA
1 AATAGCCCAATAACTTAAATAAAAACTTTCA
** * *
6005416 AATAGTTCAATAACTTAAATGAAAACTTTCG
1 AATAGCCCAATAACTTAAATAAAAACTTTCA
6005447 AATAGC
1 AATAGC
6005453 TCCGTGACCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (31 bp):
AATAGCCCAATAACTTAAATAAAAACTTTCA
Found at i:6012797 original size:23 final size:23
Alignment explanation
Indices: 6012771--6012816 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
6012761 TTTGCTTTAA
6012771 GGTTAGTTTATTAATAGATTTTT
1 GGTTAGTTTATTAATAGATTTTT
6012794 GGTTAGTTTATTAATAGATTTTT
1 GGTTAGTTTATTAATAGATTTTT
6012817 TCTTTCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (23 bp):
GGTTAGTTTATTAATAGATTTTT
Found at i:6013743 original size:13 final size:13
Alignment explanation
Indices: 6013726--6013756 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6013716 TTATTTTTTT
6013726 ATATAAAAATATA
1 ATATAAAAATATA
*
6013739 TTATAAAAATATA
1 ATATAAAAATATA
6013752 ATATA
1 ATATA
6013757 TCAAATACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAAAATATA
Found at i:6015425 original size:29 final size:30
Alignment explanation
Indices: 6015379--6015438 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
6015369 CCAAAAATAT
*
6015379 TATGTTATAAAAATATTATAT-TAATTATA
1 TATGTTATAAAAAAATTATATATAATTATA
*
6015408 TATGTTA-AATAAAAATTATATATATTTATA
1 TATGTTATAA-AAAAATTATATATAATTATA
6015438 T
1 T
6015439 TAAATCACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 17 0.63
30 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TATGTTATAAAAAAATTATATATAATTATA
Found at i:6025004 original size:27 final size:27
Alignment explanation
Indices: 6024957--6025071 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 27
6024947 TCCAGTCTGA
* *
6024957 TCCAAAGCC-CAGGTTGGAGAATGTGGG
1 TCCAAAGCCTGAGG-TGGAGAATGAGGG
*
6024984 TCCAAAGCCTGAGGTGAAGAATGAGGG
1 TCCAAAGCCTGAGGTGGAGAATGAGGG
* * *
6025011 TTCAAAGCCCGAGGTGGAGATTGAGGG
1 TCCAAAGCCTGAGGTGGAGAATGAGGG
* * * * *
6025038 TCTAAAGGCTGAGGGGGAGAATGATGA
1 TCCAAAGCCTGAGGTGGAGAATGAGGG
6025065 TCCAAAG
1 TCCAAAG
6025072 GGCCAGCTGC
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 68 0.96
28 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.37, T:0.17
Consensus pattern (27 bp):
TCCAAAGCCTGAGGTGGAGAATGAGGG
Found at i:6025071 original size:54 final size:54
Alignment explanation
Indices: 6024954--6025071 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
6024944 AGCTCCAGTC
* *
6024954 TGATCCAAAGCCCAGGTTGGAGAATGTGGGTCCAAAGCCTGAGGTGAAGAATGA
1 TGATCCAAAGCCCAGGTTGGAGAATGAGGGTCCAAAGCCTGAGGGGAAGAATGA
* * * * * * *
6025008 GGGTTCAAAGCCCGAGG-TGGAGATTGAGGGTCTAAAGGCTGAGGGGGAGAATGA
1 TGATCCAAAGCCC-AGGTTGGAGAATGAGGGTCCAAAGCCTGAGGGGAAGAATGA
6025062 TGATCCAAAG
1 TGATCCAAAG
6025072 GGCCAGCTGC
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
54 48 0.94
55 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (54 bp):
TGATCCAAAGCCCAGGTTGGAGAATGAGGGTCCAAAGCCTGAGGGGAAGAATGA
Found at i:6028573 original size:21 final size:22
Alignment explanation
Indices: 6028549--6028598 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
6028539 TAAAATTTTA
*
6028549 TTTTTTTAATTATGT-T-AATAT
1 TTTTTTTAA-TAAGTCTAAATAT
6028570 TTTTTTT-ATAAGTCTAAATAT
1 TTTTTTTAATAAGTCTAAATAT
6028591 TTTTTTTA
1 TTTTTTTA
6028599 TGTTATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 2 0.08
21 19 0.76
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTTTTAATAAGTCTAAATAT
Found at i:6028607 original size:20 final size:20
Alignment explanation
Indices: 6028565--6028609 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6028555 TAATTATGTT
*
6028565 AATATTTTTTTTATAAGTCTA
1 AATATTTTTTTTAT-AGTATA
6028586 AATATTTTTTTTAT-GTTATA
1 AATATTTTTTTTATAG-TATA
6028606 AATA
1 AATA
6028610 GACGGGGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 7 0.32
21 14 0.64
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
AATATTTTTTTTATAGTATA
Found at i:6030803 original size:27 final size:27
Alignment explanation
Indices: 6030748--6030804 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
6030738 AACTGCAGGG
* * *
6030748 TTCAAATCCTCAGCTGGAGAGTGATGA
1 TTCAAAGCCTCAGCTGGACAGTGAAGA
* *
6030775 TTCAAAGCCTCAGCTTGACATTGAAGA
1 TTCAAAGCCTCAGCTGGACAGTGAAGA
6030802 TTC
1 TTC
6030805 GAAGGTGCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (27 bp):
TTCAAAGCCTCAGCTGGACAGTGAAGA
Found at i:6034761 original size:26 final size:25
Alignment explanation
Indices: 6034720--6034778 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
6034710 ATATTTTAGA
6034720 TTTTTATAAAAAAATTATTTT-TAAT
1 TTTTTATAAAAAAATT-TTTTATAAT
6034745 TTTTTA-AAAATATAATTTTTTATAA-
1 TTTTTATAAAA-A-AATTTTTTATAAT
6034770 TTTTTATAA
1 TTTTTATAA
6034779 TTTTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 4 0.13
25 17 0.57
26 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTTATAAAAAAATTTTTTATAAT
Found at i:6034766 original size:24 final size:24
Alignment explanation
Indices: 6034713--6034764 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
6034703 GAATTATATA
*
6034713 TTTTAGATTTTTATAAAAAAATTAT
1 TTTTAGATTTTT-TAAAAAAATAAT
*
6034738 TTTTA-ATTTTTTAAAAATATAAT
1 TTTTAGATTTTTTAAAAAAATAAT
6034761 TTTT
1 TTTT
6034765 TATAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.56
24 6 0.24
25 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTTAGATTTTTTAAAAAAATAAT
Found at i:6034770 original size:10 final size:10
Alignment explanation
Indices: 6034755--6034799 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
6034745 TTTTTAAAAA
6034755 TATAATTTTT
1 TATAATTTTT
6034765 TATAA-TTTT
1 TATAATTTTT
6034774 TATAATTTTT
1 TATAATTTTT
* *
6034784 TTTTATTTTT
1 TATAATTTTT
6034794 TATAAT
1 TATAAT
6034800 AACATAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 9 0.30
10 21 0.70
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATAATTTTT
Found at i:6037419 original size:2 final size:2
Alignment explanation
Indices: 6037412--6037452 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6037402 TGTTACAGGA
6037412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6037453 CGTGAATGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6039963 original size:61 final size:61
Alignment explanation
Indices: 6039885--6040002 Score: 150
Period size: 61 Copynumber: 1.9 Consensus size: 61
6039875 TAAAAGGTAT
* *
6039885 CATGAGAATTTTCAAAAA-CTTGATGGGTCTAATTAAAATTTTCTAAAAACTTCAAGGGATA
1 CATGAGAATTTTCAAAAATCTTG-GGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGGATA
* * * *
6039946 CATGA-AATTTTTCAAAAATTTTGGGGGTTTAAATAAAATTTTTTAAAAATTTCAAGG
1 CATGAGAA-TTTTCAAAAATCTTGGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGG
6040003 AAAAAATCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 2 0.04
61 44 0.90
62 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.36
Consensus pattern (61 bp):
CATGAGAATTTTCAAAAATCTTGGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGGATA
Found at i:6040019 original size:61 final size:60
Alignment explanation
Indices: 6039891--6040025 Score: 137
Period size: 61 Copynumber: 2.2 Consensus size: 60
6039881 GTATCATGAG
* * * * * *
6039891 AATTTTCAAAAACTTGATGGGTCTAATTAAAATTTTCTAAAAACTTCAAGGGATACATGA
1 AATTTTCAAAAACTTGAGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGAAAAAATCA
* * * *
6039951 AATTTTTCAAAAATTTTG-GGGGTTTAAATAAAATTTTTTAAAAATTTCAAGGAAAAAATCA
1 AA-TTTTCAAAAA-CTTGAGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGAAAAAATCA
6040012 TAATTTTCCAAAAA
1 -AATTTT-CAAAAA
6040026 AAAATTTGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
60 2 0.03
61 48 0.79
62 11 0.18
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (60 bp):
AATTTTCAAAAACTTGAGGGGTCTAAATAAAATTTTCTAAAAACTTCAAGGAAAAAATCA
Found at i:6040913 original size:2 final size:2
Alignment explanation
Indices: 6040906--6040936 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6040896 TGATAAGTTT
6040906 TA 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 TA T
6040937 TAGTTTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6042169 original size:138 final size:138
Alignment explanation
Indices: 6041919--6042341 Score: 688
Period size: 138 Copynumber: 3.1 Consensus size: 138
6041909 GTTGCGACAT
*
6041919 TAAGAGTGTTGTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGA
1 TAAGAGTGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGA
* * *
6041984 AAAAGCCAGGACTACTGCTGAGGATGTCGCAACACCAACCAGCTAGTGTTGCAACATTGAGAACC
66 AGAAGCCAGGACTACTGCTGAGAATGTCGCAACACCAACCAGTTAGTGTTGCAACATTGAGAACC
*
6042049 CCTAAAGC
131 CCCAAAGC
* * * *
6042057 TAAGAATGTTTTGTCACAACACCAAGCCTCGAAGGTCACGATACCACTGCTGATTGTTGAAGTGA
1 TAAGAGTGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGA
* * *
6042122 GGAAGCCAGGACTACTGTTGAGAATGTCGTAACACCAACCAGTTAGTGTTGCAACATTGAGAACC
66 AGAAGCCAGGACTACTGCTGAGAATGTCGCAACACCAACCAGTTAGTGTTGCAACATTGAGAACC
6042187 CCCAAAGC
131 CCCAAAGC
6042195 TAAGAGTGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGA
1 TAAGAGTGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGA
*
6042260 AGAAGCCAGGACTACTGCTGA-AGATGTCGCAACACCAACCAGTTAGAGTTGCAACATTGAGAAC
66 AGAAGCCAGGACTACTGCTGAGA-ATGTCGCAACACCAACCAGTTAGTGTTGCAACATTGAGAAC
*
6042324 CTCCAAAG-
130 CCCCAAAGC
6042332 TCAAGAGTGT
1 T-AAGAGTGT
6042342 GCCACTATCA
Statistics
Matches: 262, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
137 2 0.01
138 260 0.99
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (138 bp):
TAAGAGTGTTTTGTCACGACACCAAGCCTCCAAGGTCGCGATACCACTGCTGATTGTTGAAGTGA
AGAAGCCAGGACTACTGCTGAGAATGTCGCAACACCAACCAGTTAGTGTTGCAACATTGAGAACC
CCCAAAGC
Found at i:6044367 original size:21 final size:22
Alignment explanation
Indices: 6044334--6044374 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6044324 TAGATTTAAA
*
6044334 ATAGAAGAGAAAAACAAAATAT
1 ATAGAAGAGAAAAAAAAAATAT
6044356 ATAGAA-AGAAAAAAAAAAT
1 ATAGAAGAGAAAAAAAAAAT
6044375 CATAAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (22 bp):
ATAGAAGAGAAAAAAAAAATAT
Found at i:6046225 original size:5 final size:5
Alignment explanation
Indices: 6046210--6046239 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
6046200 TCCCTTTTTA
6046210 TATTT TA-TT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
6046240 TATTATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:6046226 original size:16 final size:16
Alignment explanation
Indices: 6046205--6046243 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
6046195 ATGATTCCCT
6046205 TTTTATATTTTA-TTTA
1 TTTT-TATTTTATTTTA
6046221 -TTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
6046236 TTTTTATT
1 TTTTTATT
6046244 ATTCATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
16 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:6049844 original size:2 final size:2
Alignment explanation
Indices: 6049837--6049905 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
6049827 TCTTGCCATT
6049837 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6049879 TC 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 TC T
6049906 TATTATCAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6052218 original size:20 final size:20
Alignment explanation
Indices: 6052195--6052234 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6052185 CATTGATCGG
* *
6052195 TGTTTATCAGCGTTGACCAA
1 TGTTTATAAGCATTGACCAA
6052215 TGTTTATAAGCATTGACCAA
1 TGTTTATAAGCATTGACCAA
6052235 ACGTTGACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (20 bp):
TGTTTATAAGCATTGACCAA
Found at i:6052364 original size:8 final size:8
Alignment explanation
Indices: 6052353--6052383 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
6052343 TAAAAAGTTA
6052353 AAATTTTT
1 AAATTTTT
6052361 AAATTTTT
1 AAATTTTT
6052369 AAA-TTTT
1 AAATTTTT
6052376 AAATTTTT
1 AAATTTTT
6052384 TATAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
AAATTTTT
Found at i:6052644 original size:17 final size:18
Alignment explanation
Indices: 6052629--6052665 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6052619 AAATTTTATT
*
6052629 TTAATATGTTTTTTATAA
1 TTAATATATTTTTTATAA
6052647 TTAATATA-TTTTTATAA
1 TTAATATATTTTTTATAA
6052664 TT
1 TT
6052666 TTATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTAATATATTTTTTATAA
Found at i:6053407 original size:16 final size:18
Alignment explanation
Indices: 6053388--6053425 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
6053378 ATTCTCTATT
6053388 ATTTAAATTTT-TTTA-A
1 ATTTAAATTTTATTTATA
*
6053404 ATTTGAATTTTATTTATA
1 ATTTAAATTTTATTTATA
6053422 ATTT
1 ATTT
6053426 TTATTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTAAATTTTATTTATA
Found at i:6054489 original size:21 final size:21
Alignment explanation
Indices: 6054465--6054521 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
6054455 AAAATTAAAA
6054465 AAATATTTTTAAATTT-TTTAG
1 AAATATTTTTAAATTTGTTT-G
* *
6054486 AAATAATTTATATATTTGTTTG
1 AAAT-ATTTTTAAATTTGTTTG
6054508 -AAT-TTTTTAAATTT
1 AAATATTTTTAAATTT
6054522 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 9 0.30
21 7 0.23
22 11 0.37
23 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (21 bp):
AAATATTTTTAAATTTGTTTG
Found at i:6055604 original size:14 final size:14
Alignment explanation
Indices: 6055587--6055621 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
6055577 TAATTTAAAA
6055587 TTTTTAAAATACTT
1 TTTTTAAAATACTT
6055601 TTTTTAAAATACTT
1 TTTTTAAAATACTT
6055615 TTTTTAA
1 TTTTTAA
6055622 TTTTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTAAAATACTT
Found at i:6055642 original size:31 final size:32
Alignment explanation
Indices: 6055584--6055674 Score: 114
Period size: 31 Copynumber: 2.8 Consensus size: 32
6055574 TTTTAATTTA
*
6055584 AAATTTTTAAAATACTTTTTTTAAAATACTTTTTT
1 AAATTTTTAAAATA--TTTTTT-AAATAATTTTTT
*
6055619 TAA-TTTTAAAATATTTTTTAAATAATTTTTT
1 AAATTTTTAAAATATTTTTTAAATAATTTTTT
*
6055650 AAATTTTTAAAA-ATTTTTAAAATAA
1 AAATTTTTAAAATATTTTTTAAATAA
6055675 ATATAGGCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
31 25 0.49
32 14 0.27
34 10 0.20
35 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (32 bp):
AAATTTTTAAAATATTTTTTAAATAATTTTTT
Found at i:6055668 original size:10 final size:10
Alignment explanation
Indices: 6055622--6055671 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
6055612 CTTTTTTTAA
6055622 TTTTAAAATATT
1 TTTTAAAA-A-T
6055634 TTTTAAATAAT
1 TTTTAAA-AAT
*
6055645 TTTT-TAAAT
1 TTTTAAAAAT
6055654 TTTTAAAAAT
1 TTTTAAAAAT
6055664 TTTTAAAA
1 TTTTAAAA
6055672 TAAATATAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 7 0.21
10 13 0.38
11 5 0.15
12 8 0.24
13 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAAAT
Found at i:6060082 original size:6 final size:7
Alignment explanation
Indices: 6060064--6060092 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
6060054 ATAAATATAT
6060064 ATTTTTA
1 ATTTTTA
6060071 ATTTTTA
1 ATTTTTA
6060078 ATTTTTA
1 ATTTTTA
6060085 ATTTTTA
1 ATTTTTA
6060092 A
1 A
6060093 ATACTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTTTA
Found at i:6060150 original size:23 final size:23
Alignment explanation
Indices: 6060098--6060151 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
6060088 TTTAAATACT
*
6060098 TTAAAAATATTTTTATTTTTATT
1 TTAAAAATATTTTTATTTTTATA
*
6060121 TTTAAAATATTTTT-TTGTGTT-TA
1 TTAAAAATATTTTTATT-T-TTATA
6060144 TTAAAAAT
1 TTAAAAAT
6060152 TGGGCCGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.08
23 22 0.85
24 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TTAAAAATATTTTTATTTTTATA
Found at i:6060163 original size:5 final size:5
Alignment explanation
Indices: 6060153--6060177 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6060143 ATTAAAAATT
6060153 GGGCC GGGCC GGGCC GGGCC GGGCC
1 GGGCC GGGCC GGGCC GGGCC GGGCC
6060178 CATGCCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.60, T:0.00
Consensus pattern (5 bp):
GGGCC
Found at i:6060316 original size:17 final size:18
Alignment explanation
Indices: 6060284--6060318 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6060274 GATTTTAAAT
*
6060284 TAATTTTTATTATTAATA
1 TAATTTCTATTATTAATA
6060302 TAATTTCTA-TATTAATA
1 TAATTTCTATTATTAATA
6060319 GAAAGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTTCTATTATTAATA
Found at i:6061839 original size:28 final size:29
Alignment explanation
Indices: 6061781--6061837 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
6061771 TTTCTTGTTA
*
6061781 ATTTTGGATTTATTAAATGGTGTATTTTT
1 ATTTTGGATTTATTAAATGGAGTATTTTT
6061810 ATTTGTGGACTTTATT-AAT-GAGTATTTT
1 ATTT-TGGA-TTTATTAAATGGAGTATTTT
6061838 ATATAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.25, C:0.02, G:0.18, T:0.56
Consensus pattern (29 bp):
ATTTTGGATTTATTAAATGGAGTATTTTT
Found at i:6065922 original size:124 final size:126
Alignment explanation
Indices: 6065617--6065968 Score: 523
Period size: 126 Copynumber: 2.8 Consensus size: 126
6065607 TAATTTCGAG
* **
6065617 TTGACATTTCTGATAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
6065682 AAATTG-TGCCATCGTGGACGCGTTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGGCC-TCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
*
6065743 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAACAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * * *
6065808 AAATCGCGGCCTCGT-TAGCGCGCTTTTACTATAGTAGGTCATGTAAGAAATAA-T-TTTTT
66 AAATCGCGGCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
* *
6065867 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAAGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
6065932 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAG
6065969 CATGTTTGGG
Statistics
Matches: 204, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
124 98 0.48
125 3 0.01
126 100 0.49
127 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
Found at i:6069183 original size:116 final size:115
Alignment explanation
Indices: 6068998--6069214 Score: 364
Period size: 116 Copynumber: 1.9 Consensus size: 115
6068988 TGATAAATTG
* *
6068998 TATTAAGTCAAAAAAAATTTTAATGGTTTGTAAAATTATCAAATTATATAAAATTATTAATTGTT
1 TATTAAGTCAAAAAAAATTTTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTT
6069063 AGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 AGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* * *
6069113 TATTAAGTC-AAAAAATTGTATTAATGATTAGTAAAATTATCAAATTATGTAAAATTATTATTTG
1 TATTAAGTCAAAAAAAAT-T-TTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTG
6069177 TTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
64 TTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
6069215 CGTTAAGGTT
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
114 7 0.07
115 10 0.11
116 78 0.82
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (115 bp):
TATTAAGTCAAAAAAAATTTTAATGATTAGTAAAATTATCAAATTATATAAAATTATTAATTGTT
AGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:6069283 original size:29 final size:29
Alignment explanation
Indices: 6069240--6069707 Score: 663
Period size: 29 Copynumber: 16.4 Consensus size: 29
6069230 TTTTAAGTTA
*
6069240 AGGGTTTAAGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
6069270 AGGGTTAGGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
6069294 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
6069322 AGGATTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
6069351 AGGGTTAGGGTTTGTAATT-AA-T---TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
6069375 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
6069403 AGGGTTAAGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
6069432 AGGGGTTAGGGTTTTTAATTAAATTAGATT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
*
6069462 AGGGTTAGGATTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
6069491 AGGGTTAAGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
6069520 AGGGTTATGGTTTTTAATTAAATTACGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
6069549 AGGGTTAGGGTTTATAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
6069578 AGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
* *
6069608 AGAGTTAGGGTTTTTAATTAAATTTGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
6069637 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
6069666 AGGGTTAGGGTTTTTAATTAATTTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
6069695 AGGGTTTAGGGTT
1 AGGG-TTAGGGTT
6069708 AAATTAGATT
Statistics
Matches: 393, Mismatches: 30, Indels: 30
0.87 0.07 0.07
Matches are distributed among these distances:
23 33 0.08
24 10 0.03
25 1 0.00
26 2 0.01
27 1 0.00
28 10 0.03
29 272 0.69
30 64 0.16
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:6069318 original size:18 final size:21
Alignment explanation
Indices: 6069273--6069324 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 21
6069263 TTAGGTTAGG
6069273 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
6069295 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
6069318 GGTTAGG
1 -GTTAGG
6069325 ATTAGGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:6069582 original size:146 final size:146
Alignment explanation
Indices: 6069240--6069707 Score: 692
Period size: 146 Copynumber: 3.3 Consensus size: 146
6069230 TTTTAAGTTA
* *
6069240 AGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA---A--TTA--GGT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTATAATTAATTTAGGTTAGGGGT
*
6069298 TAGGGTTTTTAATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
65 TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT
*
6069363 TGTAATT-AA-T---TT
130 TTTAATTAAATTAGGTT
* *
6069375 A-GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTGTAATTAATTTAGGTTAGGGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTATAATTAATTTAGGTTAGGGGTT
* * *
6069439 AGGGTTTTTAATTAAATTAGATTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAAGGTTT
66 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT
6069504 TTAATTAAATTAGGTT
131 TTAATTAAATTAGGTT
* *
6069520 AGGGTTATGGTTTTTAATTAAATTACGTTAGGGTTAGGGTTTATAATTAATTTAGGTTAGGGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTATAATTAATTTAGGTTAGGGGTT
* *
6069585 AGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTTGGTTAGGGTTAGGGTTT
66 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT
6069650 TTAATTAAATTAGGTT
131 TTAATTAAATTAGGTT
* *
6069666 AGGGTTAGGGTTTTTAATTAATTTAAGTTAGGGTTTAGGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTT
6069708 AAATTAGATT
Statistics
Matches: 299, Mismatches: 20, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
133 43 0.14
134 2 0.01
135 1 0.00
136 1 0.00
138 3 0.01
140 70 0.23
141 2 0.01
142 1 0.00
145 3 0.01
146 165 0.55
147 8 0.03
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (146 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTATAATTAATTTAGGTTAGGGGTT
AGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT
TTAATTAAATTAGGTT
Found at i:6069704 original size:117 final size:116
Alignment explanation
Indices: 6069231--6069707 Score: 656
Period size: 117 Copynumber: 4.2 Consensus size: 116
6069221 GGTTAGGGTT
*
6069231 TTTAAGTTAAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-AA--A-
1 TTTAAGTT-AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
*
6069292 -TTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGATTAGGGTTTTTAATTAA
64 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* * *
6069343 ATTAGGTTAGGGTTAGGGTTTGTAATT-AA-T---TTA-GGTTAGGGTTTTTAATTAAATTAGGT
1 TTTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGT
* * *
6069402 TAGGGTTAAGGTTTGTAATTAATTTAGGTTAGGGGTTAGGGTTTTTAATTAA
66 TAGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGGTTAGGGTTTTTAATTAA
* * *
6069454 ATT-AGATTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGG
1 TTTAAG-TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
* * *
6069518 TTAGGGTTATGGTTTTTAATTAAATTACGTTAGGGTTAGGGTTTATAATTAA
65 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* * *
6069570 TTTAGGTTAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTTGG
1 TTTAAGTTA-GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
6069635 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
65 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
6069687 TTTAAGTTAGGGTTTAGGGTT
1 TTTAAGTTAGGG-TTAGGGTT
6069708 AAATTAGATT
Statistics
Matches: 321, Mismatches: 27, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
104 17 0.05
105 5 0.02
107 1 0.00
108 1 0.00
109 5 0.02
110 39 0.12
111 45 0.14
112 8 0.02
113 1 0.00
116 30 0.09
117 169 0.53
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (116 bp):
TTTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGT
TAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:6069801 original size:44 final size:45
Alignment explanation
Indices: 6069733--6069819 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
6069723 TTTTATTACA
*
6069733 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
* *
6069778 TCAAA-AAATTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
6069820 TTTAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:6070262 original size:18 final size:18
Alignment explanation
Indices: 6070239--6070273 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6070229 CGGAAAAAGA
*
6070239 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
6070257 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
6070274 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:6075871 original size:17 final size:17
Alignment explanation
Indices: 6075850--6075900 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
6075840 TTATTATATT
*
6075850 ATTAATAAAATTTAATT
1 ATTAATAAAATTTAATA
*
6075867 TTTAA-AAATATTTAA-A
1 ATTAATAAA-ATTTAATA
6075883 ATTAATAAAATATTAATA
1 ATTAATAAAAT-TTAATA
6075901 TAAAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 9 0.33
17 17 0.63
18 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAATAAAATTTAATA
Found at i:6076001 original size:13 final size:14
Alignment explanation
Indices: 6075960--6076025 Score: 64
Period size: 13 Copynumber: 4.6 Consensus size: 14
6075950 ATATATAATC
6075960 AAATAATAAATTATT
1 AAATAATAAATT-TT
**
6075975 AACATAATTTATTTT
1 AA-ATAATAAATTTT
6075990 -AATAATAAATTTT
1 AAATAATAAATTTT
6076003 AAAAATAATAAA-TTT
1 --AAATAATAAATTTT
6076018 AAATAATA
1 AAATAATA
6076026 TTCTTCATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 18 0.42
14 1 0.02
15 7 0.16
16 17 0.40
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATAATAAATTTT
Done.