Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 323 of 410
Found at i:100367558 original size:13 final size:14
Alignment explanation
Indices: 100367528--100367562 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
100367518 ACAAATGTAG
100367528 AATTTGTTGAATTA
1 AATTTGTTGAATTA
100367542 AATTTGTTGAA-TA
1 AATTTGTTGAATTA
100367555 AATTTGTT
1 AATTTGTT
100367563 AACATAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (14 bp):
AATTTGTTGAATTA
Found at i:100370317 original size:21 final size:20
Alignment explanation
Indices: 100370279--100370317 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
100370269 TCCAAAAAAT
* *
100370279 AGTTACTTTTATTTATTTCA
1 AGTTACTTTTAGTCATTTCA
100370299 AGTTACATTTTAGTCATTT
1 AGTTAC-TTTTAGTCATTT
100370318 ATGTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (20 bp):
AGTTACTTTTAGTCATTTCA
Found at i:100376094 original size:18 final size:19
Alignment explanation
Indices: 100376055--100376100 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
100376045 TATTTTGTTA
100376055 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
100376074 TTTATTTTTATTTCATC-T
1 TTTATTTTTATTTCATCTT
100376092 TTTATTTTT
1 TTTATTTTT
100376101 TACTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:100380352 original size:16 final size:15
Alignment explanation
Indices: 100380327--100380382 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 15
100380317 CTATTTTAAG
100380327 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
100380342 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
100380359 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
100380374 TTTAATTTT
1 TTT-ATTTT
100380383 TTAAGCTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
15 12 0.33
16 16 0.44
17 8 0.22
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:100381299 original size:18 final size:19
Alignment explanation
Indices: 100381260--100381306 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
100381250 TATTTTGTTA
100381260 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
100381279 TTTATTTTTATTTCATC-T
1 TTTATTTTTATTTCATCTT
100381297 TTTATTTTTA
1 TTTATTTTTA
100381307 CTTTTTACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:100385548 original size:16 final size:15
Alignment explanation
Indices: 100385523--100385570 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
100385513 CTATTTTAAG
100385523 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
100385538 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
100385555 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
100385570 T
1 T
100385571 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:100386484 original size:19 final size:18
Alignment explanation
Indices: 100386459--100386506 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
100386449 TATTTTGTTA
*
100386459 TTTATTTTTATTTCATCT
1 TTTATTTTTATTTCATAT
100386477 TGTTATTTTTATTTCATAT
1 T-TTATTTTTATTTCATAT
100386496 TTTACTTTTTA
1 TTTA-TTTTTA
100386507 CTTTTTACGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTTTTATTTCATAT
Found at i:100389068 original size:27 final size:26
Alignment explanation
Indices: 100389008--100389069 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
100388998 ATTTTATTTT
100389008 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
100389034 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
100389062 ATTTTATT
1 ATTTTATT
100389070 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:100392784 original size:7 final size:6
Alignment explanation
Indices: 100392769--100392878 Score: 61
Period size: 6 Copynumber: 18.7 Consensus size: 6
100392759 CCAATCTTTC
* * ** *
100392769 TTTTTA TTTTTA ATTTTC TTTTTA TTTATTA -TTTT- CCTTTC TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA
** *
100392816 TTTATTA TTTTCC TTTCT- TTTTTA TTTATTA TTTATTA -TTTTA -TTTTA
1 TTT-TTA TTTTTA TTTTTA TTTTTA TTT-TTA TTT-TTA TTTTTA TTTTTA
*
100392864 TTTCTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTT
100392879 AGTTAAATAT
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
5 21 0.26
6 41 0.51
7 19 0.23
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:100392788 original size:18 final size:18
Alignment explanation
Indices: 100392765--100392866 Score: 70
Period size: 18 Copynumber: 5.7 Consensus size: 18
100392755 CAACCCAATC
100392765 TTTCTTTTTATTT-TTAAT
1 TTTCTTTTTATTTATT-AT
100392783 TTTCTTTTTATTTATTAT
1 TTTCTTTTTATTTATTAT
100392801 TTTCCTTTCTT-TTTATT-T
1 TTT-CTTT-TTATTTATTAT
* * ** *
100392819 ATTATTTTCCTTTCTT-T
1 TTTCTTTTTATTTATTAT
*
100392836 TTTATTTATTATTTATTAT
1 TTTCTTT-TTATTTATTAT
*
100392855 TTT-ATTTTATTT
1 TTTCTTTTTATTT
100392867 CTATTTTATT
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
16 1 0.01
17 21 0.30
18 29 0.42
19 16 0.23
20 2 0.03
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTTATTTATTAT
Found at i:100392814 original size:24 final size:23
Alignment explanation
Indices: 100392783--100392849 Score: 125
Period size: 23 Copynumber: 2.9 Consensus size: 23
100392773 TATTTTTAAT
100392783 TTTCTTTTTATTTATTATTTTCC
1 TTTCTTTTTATTTATTATTTTCC
100392806 TTTCTTTTTATTTATTATTTTCC
1 TTTCTTTTTATTTATTATTTTCC
100392829 TTTCTTTTTTATTTATTATTT
1 TTTC-TTTTTATTTATTATTT
100392850 ATTATTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
23 27 0.63
24 16 0.37
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTCTTTTTATTTATTATTTTCC
Found at i:100392876 original size:31 final size:31
Alignment explanation
Indices: 100392813--100392872 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
100392803 TCCTTTCTTT
* *
100392813 TTATTTATTATTTTCCTTTCTTTTTTATTTA
1 TTATTTATTATTTTCATTTCTTTTCTATTTA
100392844 TTATTTATTATTTT-ATTT-TATTTCTATTT
1 TTATTTATTATTTTCATTTCT-TTTCTATTT
100392873 TATTTTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 11 0.42
31 14 0.54
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (31 bp):
TTATTTATTATTTTCATTTCTTTTCTATTTA
Found at i:100394192 original size:1 final size:1
Alignment explanation
Indices: 100394186--100394229 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
100394176 AATAAAATTT
* * * *
100394186 AAAAAAATAAAAAAAAAAAAAAAAAGAAAAAAGAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
100394230 TAAGTACTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.00, G:0.07, T:0.02
Consensus pattern (1 bp):
A
Found at i:100394203 original size:21 final size:21
Alignment explanation
Indices: 100394164--100394203 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
100394154 TATTCCTAAG
* * *
100394164 TAAATAAATAATAATAAAATT
1 TAAAAAAATAAAAAAAAAATT
100394185 TAAAAAAATAAAAAAAAAA
1 TAAAAAAATAAAAAAAAAA
100394204 AAAAAAAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAAAAATAAAAAAAAAATT
Found at i:100396205 original size:44 final size:44
Alignment explanation
Indices: 100395976--100396215 Score: 132
Period size: 44 Copynumber: 5.5 Consensus size: 44
100395966 ATTCACAGAT
* *
100395976 CTTATCTCCCTAAGCAGTAGTGGAGC-AGATGAAAGACAGTGAGC
1 CTTAACTCCCTAAGCAGTAGTGGAGCAAG-TCAAAGACAGTGAGC
* * ** * * * * ** *
100396020 TTTAACCCCCTAAATAGTAG-GGTAACAGGCCGAAGATTGT-AGAT
1 CTTAACTCCCTAAGCAGTAGTGG-AGCAAGTCAAAGACAGTGAG-C
** * *
100396064 CTTGTCTCTCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGAGC
1 CTTAACTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACAGTGAGC
* * * * * ** *
100396108 CTTAACCCCCTAAGTAGTAG-GGTAAC-AGGCTGAAGATTGT-AGAT
1 CTTAACTCCCTAAGCAGTAGTGG-AGCAAGTC-AAAGACAGTGAG-C
** *
100396152 CTTGTCTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACGGTGAGC
1 CTTAACTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACAGTGAGC
100396196 CTTAACTCCCTAAGCAGTAG
1 CTTAACTCCCTAAGCAGTAG
100396216 GGTAACAGGC
Statistics
Matches: 133, Mismatches: 52, Indels: 22
0.64 0.25 0.11
Matches are distributed among these distances:
43 10 0.08
44 111 0.83
45 12 0.09
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (44 bp):
CTTAACTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACAGTGAGC
Found at i:100396226 original size:88 final size:88
Alignment explanation
Indices: 100395972--100396229 Score: 410
Period size: 88 Copynumber: 2.9 Consensus size: 88
100395962 GTGAATTCAC
* * * *
100395972 AGATCTTATCTCCCTAAGCAGTAGTGGAGC-AGATGAAAGACAGTGAGCTTTAACCCCCTAAATA
1 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAG-TCAAAGACAGTGAGCCTTAACCCCCTAAGTA
*
100396036 GTAGGGTAACAGGCCGAAGATTGT
65 GTAGGGTAACAGGCTGAAGATTGT
* *
100396060 AGATCTTGTCTCTCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGAGCCTTAACCCCCTAAGTAG
1 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACAGTGAGCCTTAACCCCCTAAGTAG
100396125 TAGGGTAACAGGCTGAAGATTGT
66 TAGGGTAACAGGCTGAAGATTGT
* * *
100396148 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACGGTGAGCCTTAACTCCCTAAGCAG
1 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACAGTGAGCCTTAACCCCCTAAGTAG
100396213 TAGGGTAACAGGCTGAA
66 TAGGGTAACAGGCTGAA
100396230 AATTACAAGT
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
88 156 0.99
89 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (88 bp):
AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAGTCAAAGACAGTGAGCCTTAACCCCCTAAGTAG
TAGGGTAACAGGCTGAAGATTGT
Found at i:100398384 original size:21 final size:22
Alignment explanation
Indices: 100398366--100398406 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
100398356 TTCATATAGT
100398366 TGTTTTTAAAT-TATTTATATA
1 TGTTTTTAAATCTATTTATATA
100398387 TGTTTTTAAATCTA-TTATAT
1 TGTTTTTAAATCTATTTATAT
100398407 GTATAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (22 bp):
TGTTTTTAAATCTATTTATATA
Found at i:100398840 original size:8 final size:8
Alignment explanation
Indices: 100398827--100398859 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
100398817 AATTATTGGT
100398827 TTTGTTAA
1 TTTGTTAA
100398835 TTTGTTAA
1 TTTGTTAA
*
100398843 -TTATTAA
1 TTTGTTAA
100398850 TTTGTTAA
1 TTTGTTAA
100398858 TT
1 TT
100398860 GGCATTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (8 bp):
TTTGTTAA
Found at i:100398851 original size:15 final size:15
Alignment explanation
Indices: 100398831--100398859 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
100398821 ATTGGTTTTG
100398831 TTAATTTGTTAATTA
1 TTAATTTGTTAATTA
100398846 TTAATTTGTTAATT
1 TTAATTTGTTAATT
100398860 GGCATTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (15 bp):
TTAATTTGTTAATTA
Found at i:100399274 original size:129 final size:129
Alignment explanation
Indices: 100399039--100399276 Score: 286
Period size: 129 Copynumber: 1.8 Consensus size: 129
100399029 GTAGATTCAC
* * * *
100399039 TAAAACAAAGGTAATAGTTGATGTTTGGGAACTCGAGGAATCGTGCCCAACGGTGCTGGGTTTCG
1 TAAAACAAAGGCAATAGTTGATGTTTGGAAACTCGAGGAATCGTGCCCAACGGTGCTGGGTTGCA
* * *
100399104 ATTTGCTATTTGTCCAAATGATCAAATATTCCTTTGAAATTTCATCCGTACTTTGAAAATTCCT
66 ATTTCCCATTTGTCCAAATAATCAAATATTCCTTTGAAATTTCATCCGTACTTTGAAAATTCCT
* * *
100399168 TAAAACGAAGGCAAT-GTTCGATGTTTGGAAATTCG-GGAAATCGTGCCCTATC-GTGCTGGGTT
1 TAAAACAAAGGCAATAGTT-GATGTTTGGAAACTCGAGG-AATCGTGCCC-AACGGTGCTGGGTT
* * * *
100399230 GCAATTTCCCGTTTGTTCAAATAATCGAATATTTCTTT-AGAATTTCA
63 GCAATTTCCCATTTGTCCAAATAATCAAATATTCCTTTGA-AATTTCA
100399277 CTCATGTTCT
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
128 6 0.07
129 83 0.91
130 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (129 bp):
TAAAACAAAGGCAATAGTTGATGTTTGGAAACTCGAGGAATCGTGCCCAACGGTGCTGGGTTGCA
ATTTCCCATTTGTCCAAATAATCAAATATTCCTTTGAAATTTCATCCGTACTTTGAAAATTCCT
Found at i:100401402 original size:3 final size:3
Alignment explanation
Indices: 100401388--100401431 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
100401378 ACAATTCACT
*
100401388 ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
100401432 CCTGCCTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:100409419 original size:16 final size:17
Alignment explanation
Indices: 100409382--100409426 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
100409372 TTAATTTCGC
100409382 CATTTTTATTTTTATTG
1 CATTTTTATTTTTATTG
* *
100409399 CA-TTTTATTTTTGTTT
1 CATTTTTATTTTTATTG
*
100409415 TATTTTTATTTT
1 CATTTTTATTTT
100409427 AAGTACTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (17 bp):
CATTTTTATTTTTATTG
Found at i:100412508 original size:22 final size:20
Alignment explanation
Indices: 100412450--100412501 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
100412440 ATCACCCCAA
*
100412450 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
*
100412470 TATTAATTGTTATATTATTTAT
1 T-TTTATT-TTATATTATTTAT
100412492 TTTTATTTTA
1 TTTTATTTTA
100412502 CTAATTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 13 0.48
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:100412552 original size:16 final size:15
Alignment explanation
Indices: 100412531--100412591 Score: 56
Period size: 17 Copynumber: 4.0 Consensus size: 15
100412521 ATTCTTATAC
100412531 TTATATTTTAAATTTT
1 TTATATTTT-AATTTT
100412547 TTATATATTGTAATTTT
1 TTATAT-TT-TAATTTT
*
100412564 TATATATTTTTA-TTT
1 T-TATATTTTAATTTT
100412579 TTAT-TTTT-ATTTT
1 TTATATTTTAATTTT
100412592 GCTATTTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
12 1 0.03
13 7 0.17
14 3 0.08
15 4 0.10
16 8 0.20
17 11 0.28
18 6 0.15
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
TTATATTTTAATTTT
Found at i:100412555 original size:18 final size:16
Alignment explanation
Indices: 100412532--100412582 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
100412522 TTCTTATACT
100412532 TATATTTTAAATTTTTTA
1 TATATTTT-AA-TTTTTA
*
100412550 TATATTGTAATTTTTA
1 TATATTTTAATTTTTA
*
100412566 TATATTTTTATTTTTA
1 TATATTTTAATTTTTA
100412582 T
1 T
100412583 TTTTATTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 21 0.70
17 2 0.07
18 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATATTTTAATTTTTA
Found at i:100412585 original size:5 final size:6
Alignment explanation
Indices: 100412568--100412606 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
100412558 AATTTTTATA
100412568 TATTTT TATTTT TATTTT TATTTT GCTATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT --TATTTT TATTTT T
100412607 TTCTTTTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 25 0.81
8 6 0.19
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:100412613 original size:14 final size:14
Alignment explanation
Indices: 100412568--100412614 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
100412558 AATTTTTATA
100412568 TATTTTTA--TTTT
1 TATTTTTATTTTTT
**
100412580 TATTTTTATTTTGC
1 TATTTTTATTTTTT
100412594 TATTTTTATTTTTT
1 TATTTTTATTTTTT
*
100412608 TCTTTTT
1 TATTTTT
100412615 CGTATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 8 0.29
14 20 0.71
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (14 bp):
TATTTTTATTTTTT
Found at i:100412680 original size:3 final size:3
Alignment explanation
Indices: 100412672--100412705 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
100412662 ATCATTGAGT
*
100412672 TTA TTA TTA TTA TT- TTA TTA TTT TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
100412706 TCTCTATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:100414520 original size:30 final size:30
Alignment explanation
Indices: 100414484--100414544 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
100414474 GAGTTTTCAG
* * * *
100414484 GATCCACACGGGCTGGGCTCATGCCCATGT
1 GATCCACACGGACAGGCCACATGCCCATGT
100414514 GATCCACACGGACAGGCCACATGCCCATGT
1 GATCCACACGGACAGGCCACATGCCCATGT
100414544 G
1 G
100414545 CCATCCGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.16
Consensus pattern (30 bp):
GATCCACACGGACAGGCCACATGCCCATGT
Found at i:100416435 original size:46 final size:46
Alignment explanation
Indices: 100416210--100416521 Score: 192
Period size: 46 Copynumber: 6.6 Consensus size: 46
100416200 TTGCCGATAC
* * *
100416210 CATGTCCCAGACATGGTCTTACACTGGCTA-TCATCATCGAGGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGC-ACTCGTC-TCAAGGCCGATG
* * * * * **
100416258 CCATGTCCCAAACATGGTCTTACACTAGCTCTCGTACTTACGTGTTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCACTCGT-CTCAAG-GCCGATG
* * * * * *
100416308 CCATGTCCCAGACATGGTCTAACATTAGCACAAC-TCT-TA-GCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCAC-TCGTCTCAAGGCCGATG
* * *
100416354 CATGTCCCAGACATGTTTTACACTAGCTTA-T-GTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC--ACTCGTCTCAAGGCCGATG
* * *
100416400 CATGTCCCAGACATGTCTAACGCTGGCACTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAAGGCCGATG
*
100416446 CCATGTCCCAGACATGGTCTTACACT-GC-CTC-TCATAATATGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCACTCGTC-TCA-A-GGCCGATG
*
100416494 CATGTCCCACACATGTCTTACACTGGCA
1 CATGTCCCAGACATGTCTTACACTGGCA
100416522 TACAACTTAC
Statistics
Matches: 210, Mismatches: 35, Indels: 37
0.74 0.12 0.13
Matches are distributed among these distances:
44 14 0.07
45 18 0.09
46 62 0.30
47 32 0.15
48 15 0.07
49 33 0.16
50 35 0.17
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAAGGCCGATG
Found at i:100416461 original size:47 final size:48
Alignment explanation
Indices: 100416392--100416521 Score: 162
Period size: 47 Copynumber: 2.8 Consensus size: 48
100416382 TATGTCTCGA
* * *
100416392 GGCCGATGCATGTCCCAGACATGTCTAACGCTGGCACTCGTC-TCA-AT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTC-TCATAATAT
100416439 -GCCGATGCCATGTCCCAGACATGGTCTTACACT-GC-CTCTCATAATAT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCTCATAATAT
*
100416486 GGCCGATGCATGTCCCACACATGTCTTACACTGGCA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCA
100416522 TACAACTTAC
Statistics
Matches: 72, Mismatches: 4, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
45 2 0.03
46 22 0.31
47 33 0.46
48 15 0.21
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (48 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCTCATAATAT
Found at i:100420578 original size:23 final size:23
Alignment explanation
Indices: 100420548--100420595 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
100420538 TAAAATAGTA
* *
100420548 GAGAGAATTGAGAGAATATGATT
1 GAGAGAATTGAAAGAATAGGATT
*
100420571 GAGAGAATTGAAAGACTAGGATT
1 GAGAGAATTGAAAGAATAGGATT
100420594 GA
1 GA
100420596 ATGAAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (23 bp):
GAGAGAATTGAAAGAATAGGATT
Found at i:100420618 original size:38 final size:38
Alignment explanation
Indices: 100420576--100420653 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
100420566 TGATTGAGAG
*
100420576 AATTGAAAGACTAGGATTGAATGAAGAAAAAAGAAAAT
1 AATTGAAAGAATAGGATTGAATGAAGAAAAAAGAAAAT
*
100420614 AATTGAAAGAATAGGATTGAATGGAGAAAAAAGAAAAT
1 AATTGAAAGAATAGGATTGAATGAAGAAAAAAGAAAAT
100420652 AA
1 AA
100420654 GTAGGGTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.59, C:0.01, G:0.22, T:0.18
Consensus pattern (38 bp):
AATTGAAAGAATAGGATTGAATGAAGAAAAAAGAAAAT
Found at i:100425434 original size:104 final size:104
Alignment explanation
Indices: 100425305--100425495 Score: 319
Period size: 104 Copynumber: 1.8 Consensus size: 104
100425295 GTTGTTCTAA
* * * * *
100425305 AAAAATATTTCCTATAGCATAAAAAACGTTGAGTCATATTGACATATTGAGTATTTTATAATTTC
1 AAAAATATTTCCCACAGCATAAAAAACGTTGAGTCATACTGACATATTGAATATCTTATAATTTC
100425370 AATCATAGGTAAAATTGAGATGATTCATATTTCAAATCT
66 AATCATAGGTAAAATTGAGATGATTCATATTTCAAATCT
*
100425409 AAAAATATTTCCCACAGCATAAAAAATGTTGAGTCATACTGACATATTGAATATCTTATAATTTC
1 AAAAATATTTCCCACAGCATAAAAAACGTTGAGTCATACTGACATATTGAATATCTTATAATTTC
*
100425474 AATCATAGGTAGAATTGAGATG
66 AATCATAGGTAAAATTGAGATG
100425496 GCCTATACTT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 80 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (104 bp):
AAAAATATTTCCCACAGCATAAAAAACGTTGAGTCATACTGACATATTGAATATCTTATAATTTC
AATCATAGGTAAAATTGAGATGATTCATATTTCAAATCT
Found at i:100432430 original size:29 final size:29
Alignment explanation
Indices: 100432396--100432452 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
100432386 TTACTATTAC
100432396 TATTGTTATTACTACTTCCATTATTTTTG
1 TATTGTTATTACTACTTCCATTATTTTTG
100432425 TATTGTTATTACTACTTCCATTATTTTT
1 TATTGTTATTACTACTTCCATTATTTTT
100432453 ATTTCTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60
Consensus pattern (29 bp):
TATTGTTATTACTACTTCCATTATTTTTG
Found at i:100432486 original size:19 final size:19
Alignment explanation
Indices: 100432444--100432493 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
100432434 TACTACTTCC
* * *
100432444 ATTATTTTTATTTCTATCT
1 ATTATTTTTATGTATATAT
*
100432463 TTTATTTTTATGTATATAT
1 ATTATTTTTATGTATATAT
100432482 ATTATTATTTAT
1 ATTATT-TTTAT
100432494 ATCATCATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (19 bp):
ATTATTTTTATGTATATAT
Found at i:100432505 original size:18 final size:16
Alignment explanation
Indices: 100432465--100432516 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
100432455 TTCTATCTTT
* *
100432465 TATTTTTATGTATATA
1 TATTATTATTTATATA
100432481 TATTATTATTTATATCA
1 TATTATTATTTATAT-A
100432498 TCATTATTA-TTAT-TA
1 T-ATTATTATTTATATA
100432513 TATT
1 TATT
100432517 TTTGTATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 3 0.09
15 2 0.06
16 14 0.44
17 6 0.19
18 7 0.22
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTATTATTTATATA
Found at i:100436907 original size:9 final size:9
Alignment explanation
Indices: 100436893--100436924 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
100436883 CAACGCTTTT
100436893 TTGCATTCA
1 TTGCATTCA
100436902 TTGCATTCA
1 TTGCATTCA
100436911 TTGCATTCA
1 TTGCATTCA
100436920 -TGCAT
1 TTGCAT
100436925 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:100444697 original size:43 final size:44
Alignment explanation
Indices: 100444650--100444741 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
100444640 GCCTCAGCGA
* * *
100444650 AGCAGATTGAAGTTACTAGCCTTATCTCCCTGAAGT-GCAGTGG
1 AGCAGACTGAAGTTACAAGCCTCATCTCCCTGAAGTCGCAGTGG
* * *
100444693 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCGTAGTGG
1 AGCAGACTGAAGTTACAAGCCTCATCTCCCTGAAGTCGCAGTGG
100444737 AGCAG
1 AGCAG
100444742 GCTAAATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 31 0.74
44 11 0.26
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (44 bp):
AGCAGACTGAAGTTACAAGCCTCATCTCCCTGAAGTCGCAGTGG
Found at i:100444913 original size:42 final size:42
Alignment explanation
Indices: 100444805--100444913 Score: 164
Period size: 43 Copynumber: 2.6 Consensus size: 42
100444795 GTGAACCTTA
* * *
100444805 AACCCTTAAGCAGTAAGGTAATAGGTTGGATTTACAGATCTT
1 AACCCCTAAGCAGTAGGGTAACAGGTTGGATTTACAGATCTT
*
100444847 AACCCCCTAAACAGTAGGGTAACAGGTTGGATTTACAGATCTT
1 AA-CCCCTAAGCAGTAGGGTAACAGGTTGGATTTACAGATCTT
*
100444890 AACCCCTAAGCAGTAGGGAAACAG
1 AACCCCTAAGCAGTAGGGTAACAG
100444914 ATCAAAAGCG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 22 0.37
43 38 0.63
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (42 bp):
AACCCCTAAGCAGTAGGGTAACAGGTTGGATTTACAGATCTT
Found at i:100446495 original size:3 final size:3
Alignment explanation
Indices: 100446487--100446544 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
100446477 GAATTAAATA
100446487 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
100446535 TAT TAT TAT T
1 TAT TAT TAT T
100446545 CTTGCTGTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:100446650 original size:18 final size:16
Alignment explanation
Indices: 100446610--100446653 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
100446600 TTCTAACTTT
* *
100446610 TATTTTTATGTATATA
1 TATTATTATTTATATA
100446626 TATTATTATTTATATCA
1 TATTATTATTTATAT-A
100446643 TCATTATTATT
1 T-ATTATTATT
100446654 ACTATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 13 0.54
17 2 0.08
18 9 0.38
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (16 bp):
TATTATTATTTATATA
Found at i:100447198 original size:10 final size:10
Alignment explanation
Indices: 100447165--100447207 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
100447155 ATTTATTTTA
100447165 TTATTTCA-T
1 TTATTTCATT
*
100447174 TTATCATCATAT
1 TTAT-TTCAT-T
100447186 TTATTTCATT
1 TTATTTCATT
100447196 TTATTTCATT
1 TTATTTCATT
100447206 TT
1 TT
100447208 GGTCTCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 16 0.55
11 4 0.14
12 5 0.17
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATTTCATT
Found at i:100449906 original size:14 final size:14
Alignment explanation
Indices: 100449887--100449921 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
100449877 CTAAAAATAC
100449887 TATAAATTTGTAAA
1 TATAAATTTGTAAA
100449901 TATAAATTTGTAAA
1 TATAAATTTGTAAA
*
100449915 TTTAAAT
1 TATAAAT
100449922 ATGAATTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (14 bp):
TATAAATTTGTAAA
Found at i:100450711 original size:29 final size:30
Alignment explanation
Indices: 100450657--100450721 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
100450647 TTTAATATAT
*
100450657 AATTGTATACATAAATTTTAATTTTG-TAC
1 AATTTTATACATAAATTTTAATTTTGATAC
* *
100450686 AATTTTATACATGAAATTTTGA-TTTGATTC
1 AATTTTATACAT-AAATTTTAATTTTGATAC
100450716 AATTTT
1 AATTTT
100450722 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (30 bp):
AATTTTATACATAAATTTTAATTTTGATAC
Found at i:100452388 original size:38 final size:38
Alignment explanation
Indices: 100452337--100452414 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
100452327 GTATGAACAT
100452337 TATGTGACGTATACATTTAACCGCCATTAGAGATTTAA
1 TATGTGACGTATACATTTAACCGCCATTAGAGATTTAA
*
100452375 TATGTGACGTATACATTTAACCGCTATTAGAGATTTAA
1 TATGTGACGTATACATTTAACCGCCATTAGAGATTTAA
100452413 TA
1 TA
100452415 GTTCTATGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (38 bp):
TATGTGACGTATACATTTAACCGCCATTAGAGATTTAA
Found at i:100453493 original size:2 final size:2
Alignment explanation
Indices: 100453486--100453526 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
100453476 TTATTATTAT
100453486 TA TA TA TA TA 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 TA TA TA TA TA T
100453527 TGGTGATACA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100462127 original size:49 final size:49
Alignment explanation
Indices: 100462070--100462165 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 49
100462060 GCGATTTTCT
* ** *
100462070 TCCCTTCTTATAAAATGAGACTGTCGGAGTCGCGCGATATATAATTTAA
1 TCCCTTCTTATAAAATGAGACCGGAGGAGTCGCGCGATACATAATTTAA
100462119 TCCCTTCTTATAAAATGAGACCGGAGGAGTCGCGCGATACATAATTT
1 TCCCTTCTTATAAAATGAGACCGGAGGAGTCGCGCGATACATAATTT
100462166 TATCTCCCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (49 bp):
TCCCTTCTTATAAAATGAGACCGGAGGAGTCGCGCGATACATAATTTAA
Found at i:100465935 original size:25 final size:23
Alignment explanation
Indices: 100465907--100465988 Score: 101
Period size: 23 Copynumber: 3.5 Consensus size: 23
100465897 TTAAAGGACC
*
100465907 TTAGCGCTCTCCGATTATTAGCATA
1 TTAGTGCTCTCC-ATT-TTAGCATA
* *
100465932 TTAGTGCTCTCTATTGTAGCATA
1 TTAGTGCTCTCCATTTTAGCATA
*
100465955 TTAGTGCTCTCCATTTTAGCACA
1 TTAGTGCTCTCCATTTTAGCATA
*
100465978 TTCGTGCTCTC
1 TTAGTGCTCTC
100465989 TGTATAGCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 37 0.74
24 3 0.06
25 10 0.20
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (23 bp):
TTAGTGCTCTCCATTTTAGCATA
Found at i:100468074 original size:9 final size:9
Alignment explanation
Indices: 100468049--100468079 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
100468039 CAAGTGTGAA
100468049 AAATAAAAT
1 AAATAAAAT
100468058 AGAATAAAAT
1 A-AATAAAAT
100468068 AAATAAAAT
1 AAATAAAAT
100468077 AAA
1 AAA
100468080 GAACACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:100476130 original size:63 final size:64
Alignment explanation
Indices: 100476044--100476195 Score: 252
Period size: 67 Copynumber: 2.3 Consensus size: 64
100476034 TATTTAGTAA
*
100476044 TAATAATATAAAATAATAATATGTACATAAAAATAC-ATATATATATGCATATAATAAAAGTATG
1 TAATAATA-ATAATAATAATATGTACATAAAAATACAATATATATATGCATATAATAAAAGTATG
100476108 TAATAATAATAATAATAATATGTACATAAAAATACATATATATATATATGCATATAATAAAAGTA
1 TAATAATAATAATAATAATATGTACATAAAAATAC--A-ATATATATATGCATATAATAAAAGTA
100476173 TG
63 TG
100476175 TAATAATAATAATAATAATAT
1 TAATAATAATAATAATAATAT
100476196 CTATAATAAA
Statistics
Matches: 83, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
63 26 0.31
64 8 0.10
67 49 0.59
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (64 bp):
TAATAATAATAATAATAATATGTACATAAAAATACAATATATATATGCATATAATAAAAGTATG
Found at i:100476298 original size:2 final size:2
Alignment explanation
Indices: 100476285--100476328 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
100476275 ATATGTACAA
* * *
100476285 AT AT AT AA AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100476327 AT
1 AT
100476329 GTACATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:100476333 original size:8 final size:8
Alignment explanation
Indices: 100476285--100476335 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
100476275 ATATGTACAA
*
100476285 ATATATAA
1 ATATATAC
*
100476293 ATATATAA
1 ATATATAC
*
100476301 ATATATAT
1 ATATATAC
*
100476309 ATATATAT
1 ATATATAC
100476317 ATATATAC
1 ATATATAC
*
100476325 ATATGTAC
1 ATATATAC
100476333 ATA
1 ATA
100476336 AAATATACAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (8 bp):
ATATATAC
Found at i:100477046 original size:16 final size:16
Alignment explanation
Indices: 100477027--100477063 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
100477017 TTTCTTCTTT
*
100477027 TTTTTTTTGGGTTAGG
1 TTTTTTTTGGGGTAGG
100477043 TTTTTTTTGGGGTAGG
1 TTTTTTTTGGGGTAGG
100477059 TTTTT
1 TTTTT
100477064 CTTTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.00, G:0.30, T:0.65
Consensus pattern (16 bp):
TTTTTTTTGGGGTAGG
Found at i:100477063 original size:44 final size:44
Alignment explanation
Indices: 100477015--100477112 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
100477005 AGGTTTTTCT
*
100477015 TTTTTCTTCTTT-TTTTTTTTGGGTTAGGTTTTTTTTGGGGTAGG
1 TTTTTCTT-TTTCTTTTTTTTGGCTTAGGTTTTTTTTGGGGTAGG
** * * *
100477059 TTTTTCTTTTTCTTTTTTTTTTCTTTGTTTTTTTTTGGGTTAGG
1 TTTTTCTTTTTCTTTTTTTTGGCTTAGGTTTTTTTTGGGGTAGG
100477103 TTTTT-TTTTT
1 TTTTTCTTTTT
100477113 GGGGGGCTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 8 0.17
44 39 0.83
ACGTcount: A:0.03, C:0.05, G:0.17, T:0.74
Consensus pattern (44 bp):
TTTTTCTTTTTCTTTTTTTTGGCTTAGGTTTTTTTTGGGGTAGG
Found at i:100477089 original size:12 final size:11
Alignment explanation
Indices: 100477059--100477092 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
100477049 TTGGGGTAGG
100477059 TTTTTCTTTTTC
1 TTTTT-TTTTTC
100477071 TTTTTTTTTTC
1 TTTTTTTTTTC
100477082 TTTGTTTTTTT
1 TTT-TTTTTTT
100477093 TTGGGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:100479462 original size:18 final size:20
Alignment explanation
Indices: 100479421--100479467 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
100479411 TATTTCAAGC
* *
100479421 TCAATATCAGTCAATATTTT
1 TCAATATCAATCAATATTTA
100479441 TCAATATCAATC-A-ATTTA
1 TCAATATCAATCAATATTTA
100479459 TCAATATCA
1 TCAATATCA
100479468 TTCAGTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 1 0.04
20 11 0.44
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (20 bp):
TCAATATCAATCAATATTTA
Found at i:100479471 original size:28 final size:28
Alignment explanation
Indices: 100479431--100479485 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
100479421 TCAATATCAG
** *
100479431 TCAATATTTTTCAATATCAATCAATTTA
1 TCAATATCATTCAATAACAATCAATTTA
* *
100479459 TCAATATCATTCAGTAACAATTAATTT
1 TCAATATCATTCAATAACAATCAATTT
100479486 TTCAGTAGCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.44
Consensus pattern (28 bp):
TCAATATCATTCAATAACAATCAATTTA
Found at i:100479491 original size:18 final size:18
Alignment explanation
Indices: 100479467--100479546 Score: 106
Period size: 18 Copynumber: 4.4 Consensus size: 18
100479457 TATCAATATC
*
100479467 ATTCAGTAACAATTAATT
1 ATTCAGTAACAATCAATT
* * *
100479485 TTTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
100479503 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* *
100479521 ATTCAGTAACAGTCAATC
1 ATTCAGTAACAATCAATT
100479539 ATTCAGTA
1 ATTCAGTA
100479547 CCTTTATTCA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:100479753 original size:43 final size:44
Alignment explanation
Indices: 100479699--100479789 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 44
100479689 TCGAAGTAAC
*
100479699 AGTAGCAGTACGACACACATTGTGCCTCATCGACTCGAA-GTCGA
1 AGTAGCAGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGA
**
100479743 AGTA-CAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAGCAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
100479786 AGTA
1 AGTA
100479790 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 2 0.05
43 37 0.86
44 4 0.09
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (44 bp):
AGTAGCAGTACGACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:100481203 original size:15 final size:17
Alignment explanation
Indices: 100481174--100481205 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
100481164 ATAAAAAATG
100481174 CATATATTACAATTGTT
1 CATATATTACAATTGTT
100481191 CATATA-TAC-ATTGTT
1 CATATATTACAATTGTT
100481206 ACATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
CATATATTACAATTGTT
Found at i:100486874 original size:3 final size:3
Alignment explanation
Indices: 100486866--100486951 Score: 124
Period size: 3 Copynumber: 29.0 Consensus size: 3
100486856 AACTTAAAAT
100486866 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
100486914 TAA T-A TAA -AA CT-A TAC TAA TAA TTAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA TAA TAA TAA
100486952 AATCTTAGAT
Statistics
Matches: 76, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
2 5 0.07
3 68 0.89
4 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:100487970 original size:2 final size:2
Alignment explanation
Indices: 100487947--100487996 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
100487937 TTATACCATG
* *
100487947 TA TA TA T- TT TA TA AA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100487987 TA TA T- TA TA T
1 TA TA TA TA TA T
100487997 TGTGTACATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:100488519 original size:3 final size:3
Alignment explanation
Indices: 100488429--100488507 Score: 124
Period size: 3 Copynumber: 26.3 Consensus size: 3
100488419 ATATTCTTAC
* *
100488429 TAT TAT CAT TAC TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
100488476 TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT T
100488508 TGACATATTA
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
2 2 0.03
3 66 0.93
4 3 0.04
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:100492760 original size:50 final size:50
Alignment explanation
Indices: 100492644--100492869 Score: 210
Period size: 50 Copynumber: 4.5 Consensus size: 50
100492634 CTAATACGCA
* * * * *
100492644 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATC-CAGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGAGTACACG
* *
100492693 TAGTAGCCTGCACTTAGTACTCCACACGTGACCTCACCATCTGA-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCTGAGTACACG
* * * *
100492743 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CCATCTGAGTACACG
* ** * * *
100492794 TAGTAGCCTGCACTTAGTACTACACATGCAACTTAA-CAGTATG-GTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-CAACCA-TCTGAGTACACG
*
100492844 CAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
100492870 TGTGTATTCA
Statistics
Matches: 150, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
49 32 0.21
50 77 0.51
51 41 0.27
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGAGTACACG
Found at i:100492909 original size:15 final size:15
Alignment explanation
Indices: 100492889--100492918 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
100492879 ACAATGGGTC
100492889 ATTCGTATTGTTCCT
1 ATTCGTATTGTTCCT
100492904 ATTCGTATTGTTCCT
1 ATTCGTATTGTTCCT
100492919 GTTCCGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (15 bp):
ATTCGTATTGTTCCT
Found at i:100498589 original size:15 final size:14
Alignment explanation
Indices: 100498551--100498589 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
100498541 TCAGGAAAAT
*
100498551 AAGTCATTTTCTAG
1 AAGTCATTTTTTAG
* *
100498565 AAATCATTTTTCAG
1 AAGTCATTTTTTAG
100498579 AAGTCATTTTT
1 AAGTCATTTTT
100498590 AGTGAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (14 bp):
AAGTCATTTTTTAG
Found at i:100502820 original size:10 final size:10
Alignment explanation
Indices: 100502805--100502854 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
100502795 TAATTTTATG
100502805 ATTTAT-TTT
1 ATTTATCTTT
100502814 CATTTATCTTT
1 -ATTTATCTTT
100502825 ATTTATCTTT
1 ATTTATCTTT
100502835 ATTTAT-TTGT
1 ATTTATCTT-T
100502845 ATTTATCTTT
1 ATTTATCTTT
100502855 TAGAATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:100506661 original size:10 final size:10
Alignment explanation
Indices: 100506644--100506710 Score: 72
Period size: 10 Copynumber: 7.0 Consensus size: 10
100506634 ACTTTTCTTA
100506644 ATTT-TTATT
1 ATTTATTATT
100506653 ATTTATTA-T
1 ATTTATTATT
100506662 -TTTATT-TT
1 ATTTATTATT
100506670 ATTTTATTATT
1 A-TTTATTATT
100506681 ATTTATTATT
1 ATTTATTATT
*
100506691 -TTATTTTATT
1 ATT-TATTATT
100506701 ATTTATTATT
1 ATTTATTATT
100506711 TTATTTTAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
8 7 0.14
9 7 0.14
10 30 0.61
11 5 0.10
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
ATTTATTATT
Found at i:100506668 original size:5 final size:5
Alignment explanation
Indices: 100506658--100506718 Score: 70
Period size: 5 Copynumber: 11.6 Consensus size: 5
100506648 TTATTATTTA
*
100506658 TTATT TTATT TTATT TTATT ATTATTT ATTATT TTATT TTATT ATT-TA
1 TTATT TTATT TTATT TTATT -TTA-TT -TTATT TTATT TTATT -TTATT
100506706 TTATT TTATT TTA
1 TTATT TTATT TTA
100506719 GTTATTAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
4 2 0.04
5 35 0.70
6 7 0.14
7 6 0.12
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:100506671 original size:20 final size:20
Alignment explanation
Indices: 100506647--100506724 Score: 96
Period size: 20 Copynumber: 4.1 Consensus size: 20
100506637 TTTCTTAATT
100506647 TTTATTA-TTTATTATT-TTA
1 TTTATTATTTTATT-TTATTA
100506666 -TT-TTATTTTA--TTATTA
1 TTTATTATTTTATTTTATTA
100506682 TTTATTATTTTATTTTATTA
1 TTTATTATTTTATTTTATTA
100506702 TTTATTATTTTATTTTAGTTA
1 TTTATTATTTTATTTTA-TTA
100506723 TT
1 TT
100506725 AATAAAAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.04
16 3 0.06
17 5 0.10
18 14 0.27
20 23 0.44
21 5 0.10
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.74
Consensus pattern (20 bp):
TTTATTATTTTATTTTATTA
Found at i:100506688 original size:28 final size:27
Alignment explanation
Indices: 100506647--100506718 Score: 112
Period size: 28 Copynumber: 2.7 Consensus size: 27
100506637 TTTCTTAATT
*
100506647 TTTATTATTTATTATTTTATTTTATTT
1 TTTATTATTTATTATTTTATTTTATTA
100506674 TATTATTATTTATTATTTTATTTTATTA
1 T-TTATTATTTATTATTTTATTTTATTA
100506702 TTTATTA-TT-TTATTTTA
1 TTTATTATTTATTATTTTA
100506719 GTTATTAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
25 8 0.19
26 2 0.05
27 7 0.16
28 26 0.60
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTATTATTTATTATTTTATTTTATTA
Found at i:100507905 original size:16 final size:16
Alignment explanation
Indices: 100507870--100507906 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
100507860 AAATTAAATT
*
100507870 AAAAACAAAAAAATAC
1 AAAAACAAAAAAAAAC
*
100507886 AAAAACAAAAAAAAAG
1 AAAAACAAAAAAAAAC
100507902 AAAAA
1 AAAAA
100507907 AATATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAACAAAAAAAAAC
Found at i:100508517 original size:23 final size:24
Alignment explanation
Indices: 100508473--100508518 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
100508463 ATTTTAATTA
*
100508473 TTTAGGATTTTTATTTAGATTTAAT
1 TTTAGGA-TTTTATTTACATTTAAT
*
100508498 TTTAGGA-TTTATTTTCATTTA
1 TTTAGGATTTTATTTACATTTA
100508519 TCCTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
25 7 0.37
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (24 bp):
TTTAGGATTTTATTTACATTTAAT
Found at i:100508539 original size:10 final size:10
Alignment explanation
Indices: 100508504--100508563 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
100508494 TAATTTTAGG
100508504 ATTTAT-TTT
1 ATTTATCTTT
100508513 CATTTATCCTTT
1 -ATTTAT-CTTT
100508525 -TTTATCTTT
1 ATTTATCTTT
* *
100508534 AATTATATTT
1 ATTTATCTTT
100508544 ATTTAT-TTGT
1 ATTTATCTT-T
100508554 ATTTATCTTT
1 ATTTATCTTT
100508564 TAGAATTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
9 6 0.14
10 31 0.74
11 2 0.05
12 3 0.07
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:100514587 original size:20 final size:23
Alignment explanation
Indices: 100514545--100514587 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
100514535 ATACTCTTAC
*
100514545 ATTATATTATATTGTATATAAAA
1 ATTATATTATATTGTATAGAAAA
100514568 ATTATA-TAT-TTGTAT-GAAAA
1 ATTATATTATATTGTATAGAAAA
100514588 TATAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 3 0.16
23 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (23 bp):
ATTATATTATATTGTATAGAAAA
Found at i:100515230 original size:13 final size:13
Alignment explanation
Indices: 100515212--100515236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100515202 TCTACAACCC
100515212 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
100515225 TTTTCTTTTTTT
1 TTTTCTTTTTTT
100515237 GCTTTTTCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:100517830 original size:2 final size:2
Alignment explanation
Indices: 100517823--100517852 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
100517813 TAGTTTCTCA
100517823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100517853 TTTACGCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100519654 original size:66 final size:67
Alignment explanation
Indices: 100519579--100519721 Score: 198
Period size: 66 Copynumber: 2.1 Consensus size: 67
100519569 CATTTCTTTG
* * **
100519579 CAAATTTTTAGTATTGTATTGAAATCATCATGGTAACTATATT-GAATCACCATCCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCACCATGAAAACTATATTAGAATCACCATCCATTTGCATT
100519643 TA
66 TA
* * * * *
100519645 TAAAATTTTAGTATTGTATTGGAATCACCCTGAAAACTATATTAGAATCACTATTCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCACCATGAAAACTATATTAGAATCACCATCCATTTGCATT
100519710 TA
66 TA
100519712 CAAAATTTTA
1 CAAAATTTTA
100519722 ATACTGTAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
66 36 0.55
67 30 0.45
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.41
Consensus pattern (67 bp):
CAAAATTTTAGTATTGTATTGAAATCACCATGAAAACTATATTAGAATCACCATCCATTTGCATT
TA
Found at i:100519661 original size:104 final size:105
Alignment explanation
Indices: 100519480--100519668 Score: 281
Period size: 104 Copynumber: 1.8 Consensus size: 105
100519470 GGTTACAAAA
* * * * ** * *
100519480 TTTAGTATTGTATTGGAATCATCATGGTAATTGTTTTAGAATCATTATTCATTTGCATTTGCAAA
1 TTTAGTATTGTATTGAAATCATCATGGTAACTATATTAGAATCACCATCCATTTGCATTTACAAA
100519545 ATCTTAGTATTGTATTGGAAATACCATTTCTTTGCAAATT
66 ATCTTAGTATTGTATTGGAAATACCATTTCTTTGCAAATT
*
100519585 TTTAGTATTGTATTGAAATCATCATGGTAACTATATT-GAATCACCATCCATTTGCATTTATAAA
1 TTTAGTATTGTATTGAAATCATCATGGTAACTATATTAGAATCACCATCCATTTGCATTTACAAA
*
100519649 ATTTTAGTATTGTATTGGAA
66 ATCTTAGTATTGTATTGGAA
100519669 TCACCCTGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
104 41 0.55
105 33 0.45
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (105 bp):
TTTAGTATTGTATTGAAATCATCATGGTAACTATATTAGAATCACCATCCATTTGCATTTACAAA
ATCTTAGTATTGTATTGGAAATACCATTTCTTTGCAAATT
Found at i:100521530 original size:2 final size:2
Alignment explanation
Indices: 100521523--100521553 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
100521513 AGTATGCTTG
100521523 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
100521554 GTCTGGAATG
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:100521954 original size:27 final size:27
Alignment explanation
Indices: 100521919--100521984 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
100521909 ATAGCCCTTG
*
100521919 TGGCAAACTCTGAAAGAATGGCCTTTA
1 TGGCGAACTCTGAAAGAATGGCCTTTA
* *
100521946 TGGCGAACTCTGAAAGGATGGTCTTTA
1 TGGCGAACTCTGAAAGAATGGCCTTTA
*
100521973 TGGTGAACTCTG
1 TGGCGAACTCTG
100521985 TGTTAACTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (27 bp):
TGGCGAACTCTGAAAGAATGGCCTTTA
Found at i:100523607 original size:42 final size:42
Alignment explanation
Indices: 100523544--100523658 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
100523534 CTTCGTTTTC
** * *
100523544 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCA-CATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATC-T-A
*
100523587 T-GATGCCATAGCCCTGCTATGGTCTTACACATATTCATCTA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATCTA
*
100523628 TCGATGCCATAGCCCAGTTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
100523659 GAATCACATA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.03
42 59 0.94
43 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATCTA
Found at i:100523732 original size:47 final size:46
Alignment explanation
Indices: 100523629--100523752 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
100523619 ATTCATCTAT
* * * * *
100523629 CGATGCCATAGCCCAGTTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
100523675 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
100523722 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
100523753 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:100523812 original size:31 final size:31
Alignment explanation
Indices: 100523777--100523961 Score: 255
Period size: 31 Copynumber: 6.0 Consensus size: 31
100523767 CTTGTCACTT
*
100523777 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
100523808 GTAGCCGGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
100523839 GTAGTCGGAGCTACCACCTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
100523870 GTAGCCGGAA-CTACCACTTTTCACTAATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
100523901 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
100523932 GTAGCTGAAGCTACCACTTTTCACTTATCA
1 GTAGCCGAAGCTACCACTTTTCACTGATCA
100523962 TTTGTCATTG
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 3 0.02
31 131 0.96
32 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:100524038 original size:50 final size:51
Alignment explanation
Indices: 100523932--100524058 Score: 170
Period size: 50 Copynumber: 2.5 Consensus size: 51
100523922 CACTGATCAG
* * *
100523932 GTAGCTGAAGCTACCACTTTTCACTTATCATTTGTCATTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTTATCATTTGTCATTGATCAGATAAAT
*
100523983 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGA-
1 GTAGCCGAAGCTATCACTTATCACTTATCA-TTTGTCATTGATCAGATAA-AT
*
100524033 GTAGCCAAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
100524059 GTTTCCATGG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
50 42 0.61
51 27 0.39
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTATCATTTGTCATTGATCAGATAAAT
Found at i:100529727 original size:14 final size:14
Alignment explanation
Indices: 100529708--100529737 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
100529698 TATCTTATAA
100529708 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
100529722 ATATGCGTTAATCT
1 ATATGCGTGAATCT
100529736 AT
1 AT
100529738 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:100541143 original size:17 final size:17
Alignment explanation
Indices: 100541101--100541143 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
100541091 ATTCCAATTC
*
100541101 TCAATTCAATTTCACTT
1 TCAATTCAAATTCACTT
100541118 TC-ATATCAAATTCACTT
1 TCAAT-TCAAATTCACTT
100541135 TCAATTCAA
1 TCAATTCAA
100541144 TATACAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (17 bp):
TCAATTCAAATTCACTT
Found at i:100541146 original size:23 final size:23
Alignment explanation
Indices: 100541102--100541155 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
100541092 TTCCAATTCT
*
100541102 CAATTCAATTTCACTTTCATAT-
1 CAATTCAATTTCACATTCATATA
*
100541124 CAAATTCACTTTCA-ATTCAATATA
1 C-AATTCAATTTCACATTC-ATATA
100541148 CAATTCAA
1 CAATTCAA
100541156 CTCAATACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 4 0.15
23 21 0.81
24 1 0.04
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (23 bp):
CAATTCAATTTCACATTCATATA
Found at i:100541945 original size:16 final size:15
Alignment explanation
Indices: 100541926--100541981 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
100541916 GAATAGTCTC
100541926 TGTTTCTTTTCTTCTT
1 TGTTTCTTTT-TTCTT
100541942 TGTTTCTTTGTTTCTT
1 TGTTTCTTT-TTTCTT
*
100541958 T-TATTC-TTTTACTT
1 TGT-TTCTTTTTTCTT
*
100541972 TATTTCTTTT
1 TGTTTCTTTT
100541982 ATGTATTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.26
15 7 0.20
16 18 0.51
17 1 0.03
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.75
Consensus pattern (15 bp):
TGTTTCTTTTTTCTT
Found at i:100545267 original size:26 final size:26
Alignment explanation
Indices: 100545236--100545395 Score: 241
Period size: 26 Copynumber: 6.2 Consensus size: 26
100545226 ATGAATGCCC
100545236 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
100545262 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
100545288 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
100545314 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
100545340 ATCATTGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
100545366 ATCATGGAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
100545392 ATCA
1 ATCA
100545396 ATTTGTACCA
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
25 2 0.02
26 120 0.98
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:100545302 original size:52 final size:52
Alignment explanation
Indices: 100545236--100545395 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
100545226 ATGAATGCCC
* *
100545236 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
100545288 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
* *
100545340 ATCATTGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACACATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
100545392 ATCA
1 ATCA
100545396 ATTTGTACCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:100552351 original size:26 final size:26
Alignment explanation
Indices: 100552320--100552479 Score: 232
Period size: 26 Copynumber: 6.2 Consensus size: 26
100552310 TGAAATGCCC
100552320 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
100552346 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
100552372 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
100552398 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
100552424 ATCATTGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
100552450 ATCATGGAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
100552476 ATCA
1 ATCA
100552480 ATTTGTACCA
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
25 2 0.02
26 120 0.98
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:100552397 original size:52 final size:52
Alignment explanation
Indices: 100552320--100552479 Score: 275
Period size: 52 Copynumber: 3.1 Consensus size: 52
100552310 TGAAATGCCC
* * *
100552320 ATCATGGAACATTTACCTAAACCATTATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
100552372 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
* *
100552424 ATCATTGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACACATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
100552476 ATCA
1 ATCA
100552480 ATTTGTACCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:100552414 original size:78 final size:78
Alignment explanation
Indices: 100552320--100552479 Score: 268
Period size: 78 Copynumber: 2.1 Consensus size: 78
100552310 TGAAATGCCC
*
100552320 ATCATGGAACATTTACCTAAACCATTATCATGGAATATTTACCTAACCCATTATCATGGAATATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAATATTTACCTAACCCATTATCATGGAACATT
100552385 TACCTAATC-CATT
66 TACCTAA-CACATT
* * *
100552398 ATCATGGAACATTTACCTAACCCATTATCATTGAATATTTACCTAATCCATTATCATGGAACATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAATATTTACCTAACCCATTATCATGGAACATT
100552463 TACCTAACACATT
66 TACCTAACACATT
100552476 ATCA
1 ATCA
100552480 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 1 0.01
78 76 0.99
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (78 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAATATTTACCTAACCCATTATCATGGAACATT
TACCTAACACATT
Found at i:100555924 original size:17 final size:18
Alignment explanation
Indices: 100555904--100555942 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
100555894 TCATTTCTTT
*
100555904 TTTATTCTTTTA-GTTTC
1 TTTATTCTTTTATGTTTA
100555921 TTTATTCTTTTATGTTTA
1 TTTATTCTTTTATGTTTA
100555939 TTTA
1 TTTA
100555943 CTTTATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTATTCTTTTATGTTTA
Found at i:100555955 original size:23 final size:23
Alignment explanation
Indices: 100555912--100555955 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
100555902 TTTTTATTCT
**
100555912 TTTAGTTTCTTTATTCTTTTATG
1 TTTAGTTTCTTTATTAATTTATG
100555935 TTTA-TTTACTTTATTAATTTA
1 TTTAGTTT-CTTTATTAATTTA
100555956 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTAGTTTCTTTATTAATTTATG
Found at i:100555992 original size:18 final size:17
Alignment explanation
Indices: 100555946--100556000 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
100555936 TTATTTACTT
100555946 TATTAATTTAATAAT-AA
1 TATT-ATTTAATAATAAA
100555963 TAATT-TTT-ATAATAAA
1 T-ATTATTTAATAATAAA
*
100555979 TATCTATTTAATAACAAA
1 TAT-TATTTAATAATAAA
100555997 TATT
1 TATT
100556001 TATATTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
15 7 0.22
16 7 0.22
17 5 0.16
18 13 0.41
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTATTTAATAATAAA
Found at i:100567483 original size:13 final size:14
Alignment explanation
Indices: 100567467--100567496 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
100567457 GTAAAATATT
100567467 TTTC-GAAAAATAA
1 TTTCTGAAAAATAA
100567480 TTTCTGAAAAATAA
1 TTTCTGAAAAATAA
100567494 TTT
1 TTT
100567497 ATTTTTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (14 bp):
TTTCTGAAAAATAA
Found at i:100567606 original size:28 final size:28
Alignment explanation
Indices: 100567574--100567643 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
100567564 TCGGAAAAGC
*
100567574 TGTTTTTACATATATTTATATTTTAAAT
1 TGTTTTTACATATATTTATACTTTAAAT
*
100567602 TGTTTTTTA-ATAAATTTATACTTTAAAT
1 TG-TTTTTACATATATTTATACTTTAAAT
100567630 TGTTTTTACATATA
1 TGTTTTTACATATA
100567644 CTGCAATGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 6 0.16
28 25 0.68
29 6 0.16
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
TGTTTTTACATATATTTATACTTTAAAT
Found at i:100568925 original size:21 final size:21
Alignment explanation
Indices: 100568901--100568942 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
100568891 TCAATATCAT
100568901 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CATAATAAATTCAA
*
100568922 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
100568943 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:100568976 original size:21 final size:21
Alignment explanation
Indices: 100568911--100568976 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
100568901 TATCCAACCA
100568911 AATAAATTCAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
100568932 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
*
100568957 AATAAATTTAATATCTAACA
1 AATAAATTCAATATCTAACA
100568977 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.42
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:100569848 original size:20 final size:20
Alignment explanation
Indices: 100569823--100569872 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
100569813 GCACTCGCCT
100569823 GTACGCCAGCTCTCGTACCC
1 GTACGCCAGCTCTCGTACCC
100569843 GTACGCCAGCTCTCGTACCC
1 GTACGCCAGCTCTCGTACCC
*
100569863 GAACGCCAGC
1 GTACGCCAGC
100569873 ACGTCTCGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.44, G:0.22, T:0.16
Consensus pattern (20 bp):
GTACGCCAGCTCTCGTACCC
Found at i:100571057 original size:18 final size:16
Alignment explanation
Indices: 100571034--100571077 Score: 63
Period size: 15 Copynumber: 2.7 Consensus size: 16
100571024 GTATTTTGGC
100571034 ATATATTTTGCTATGAT
1 ATATATTTTGCTAT-AT
100571051 AATATATTTTG-TATAT
1 -ATATATTTTGCTATAT
100571067 ATATATTTTGC
1 ATATATTTTGC
100571078 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.40
16 2 0.08
17 3 0.12
18 10 0.40
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (16 bp):
ATATATTTTGCTATAT
Found at i:100571614 original size:15 final size:17
Alignment explanation
Indices: 100571583--100571623 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
100571573 GGTCATGTAG
100571583 TTTTTT-TTATATCATA
1 TTTTTTGTTATATCATA
100571599 TTTTTTGTTAT-T-ATA
1 TTTTTTGTTATATCATA
*
100571614 TGTTTTGTTA
1 TTTTTTGTTA
100571624 ACTTCTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 12 0.52
16 7 0.30
17 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (17 bp):
TTTTTTGTTATATCATA
Found at i:100572310 original size:130 final size:131
Alignment explanation
Indices: 100572152--100572484 Score: 420
Period size: 130 Copynumber: 2.5 Consensus size: 131
100572142 AGATTTGATA
* * *
100572152 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATAAT
1 TTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAAT
* * *
100572217 CGAATATCACTTCAAAATTTCACTCATATCTT-TTAAAATCCCTT-AAACGAAGGCGATA-TGCG
65 CGAATATCACTTCAAAATTTCACTCAGATCTTCTAAAAATCCCTTAAAACGAAGGCAATACT-CG
*
100572279 ATT
129 ATG
* *
100572282 TTTGGCAATTCGTGGAATCGTGCTCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTTAAAATAAT
1 TTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAAT
* * * * * *
100572347 CAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGTAATACTCGG
65 CGAATATCACTTCAAAATTTCACTCAGATCTTCTAAAAATCCCTTAAAACGAAGGCAATACTCGA
100572412 TG
130 TG
* * * * ** *
100572414 TTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATC
1 TTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATC
100572479 GAATAT
66 GAATAT
100572485 TCCTTTAGGT
Statistics
Matches: 174, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
130 87 0.50
131 60 0.34
132 26 0.15
133 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATC
GAATATCACTTCAAAATTTCACTCAGATCTTCTAAAAATCCCTTAAAACGAAGGCAATACTCGAT
G
Found at i:100572499 original size:131 final size:130
Alignment explanation
Indices: 100572152--100572633 Score: 407
Period size: 131 Copynumber: 3.7 Consensus size: 130
100572142 AGATTTGATA
* * * *
100572152 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAAATAAT
1 TTTGGCAATTCGCGGAATCATGCCCTAACGTGCTGGGTTGCAATTTCTCATTTGCTCAAAACAAT
* * * *
100572217 CGAATA-TCACTTCAAAATTTCACTCATATCTTTTAAAATCCCTT-AAACGAAGGCGATATGCGA
66 CGAATATTC-CTTCAAAATTTCACTCATGTCTTTAAAAATCCTTTAAAACGAAGGTGATAT-CGA
*
100572280 TT
129 TG
* * * * * * * *
100572282 TTTGGCAATTCGTGGAATCGTGCTCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTTAAAATAAT
1 TTTGGCAATTCGCGGAATCATGCCCTAACGTGCTGGGTTGCAATTTCTCATTTGCTCAAAACAAT
* * * * *
100572347 CAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGTAATACTCGG
66 CGAATATTCCTTCAAAATTTCACTCATGTCTT-TAAAAATCCTTTAAAACGAAGGTGATA-TCGA
100572412 TG
129 TG
* * ** * *
100572414 TTTGACAATTCG-GGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAAT
1 TTTGGCAATTCGCGGAATCATGCCCTAACGTGCTGGGTTGCAATTTCTCATTTGCTCAAAACAAT
* *** * * *
100572478 CGAATATTCCTTTAGGTTTTCATTCATGTTTATTAAAAA-CCTTTTAAAACGAAGGTGATGTTCG
66 CGAATATTCCTTCAAAATTTCACTCATGTCT-TTAAAAATCC-TTTAAAACGAAGGTGAT-ATCG
100572542 ATG
128 ATG
* *** * * * * *** * *
100572545 TTTGGCGATT-TAAGAATCAAGCCTTATCGTGCTGGATTGTGCTTTTTCATTCGCTCAAAACAAT
1 TTTGGCAATTCGCGGAATCATGCCCTAACGTGCTGGGTTGCAATTTCTCATTTGCTCAAAACAAT
* * *
100572609 CGAAGATCCCTTCAGAATTTCACTC
66 CGAATATTCCTTCAAAATTTCACTC
100572634 GTATTTTCTA
Statistics
Matches: 289, Mismatches: 55, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
130 87 0.30
131 174 0.60
132 27 0.09
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (130 bp):
TTTGGCAATTCGCGGAATCATGCCCTAACGTGCTGGGTTGCAATTTCTCATTTGCTCAAAACAAT
CGAATATTCCTTCAAAATTTCACTCATGTCTTTAAAAATCCTTTAAAACGAAGGTGATATCGATG
Found at i:100583624 original size:132 final size:132
Alignment explanation
Indices: 100583410--100583794 Score: 657
Period size: 132 Copynumber: 2.9 Consensus size: 132
100583400 GAATCCTATC
100583410 GATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGATT
1 GATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGATT
100583475 GCAGTGAAGCAGATTTGAGCCATCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTT
66 GCAGTGAAGCAGATTTGAGCCATCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTT
100583540 TA
131 TA
* *
100583542 GATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCTTGAGATT
1 GATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGATT
* *
100583607 GCAGTGAAGCAGATTTGAGACATCACCTTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTT
66 GCAGTGAAGCAGATTTGAGCCATCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTT
100583672 TA
131 TA
*
100583674 GATCTCGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGATG-T
1 GATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGA-GAT
* * * *
100583738 TGTAGTGAAGCAGATTTAAGCCATCACACTAGCTCCCTAATA-TTGTAATGGAGTAGG
65 TGCAGTGAAGCAGATTTGAGCCATCACCCTAGCTCCCTAA-AGTTGTAGTGGAGTAGG
100583795 CCGAAGATTG
Statistics
Matches: 238, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
132 236 0.99
133 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (132 bp):
GATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGGCTTCCTGAGATT
GCAGTGAAGCAGATTTGAGCCATCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTT
TA
Found at i:100584247 original size:20 final size:20
Alignment explanation
Indices: 100584219--100584268 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
100584209 GCGCGCGCTT
* *
100584219 GTACACCAGCTTTCGTACCC
1 GTACGCCAGCTCTCGTACCC
100584239 GTACGCCAGCTCTCGTACCC
1 GTACGCCAGCTCTCGTACCC
*
100584259 GAACGCCAGC
1 GTACGCCAGC
100584269 ACGTCTCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.42, G:0.20, T:0.18
Consensus pattern (20 bp):
GTACGCCAGCTCTCGTACCC
Found at i:100585757 original size:17 final size:17
Alignment explanation
Indices: 100585718--100585766 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
100585708 ACATATCAAT
* *
100585718 ATACTTATTACTTTAAT
1 ATACTTTTTACTTTAAA
* *
100585735 AGACTTTTTATTTTAAA
1 ATACTTTTTACTTTAAA
*
100585752 ATACTTTTTGCTTTA
1 ATACTTTTTACTTTA
100585767 TGATTTTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.55
Consensus pattern (17 bp):
ATACTTTTTACTTTAAA
Found at i:100586004 original size:15 final size:15
Alignment explanation
Indices: 100585992--100586023 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100585982 GTTTTTTTTA
100585992 TATCATATTTTTTGT
1 TATCATATTTTTTGT
*
100586007 TATCATATGTTTTGT
1 TATCATATTTTTTGT
100586022 TA
1 TA
100586024 ACTTCTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.09, T:0.62
Consensus pattern (15 bp):
TATCATATTTTTTGT
Found at i:100586009 original size:17 final size:17
Alignment explanation
Indices: 100585983--100586023 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
100585973 GGTCATGTAG
100585983 TTTTTT-TTATATCATA
1 TTTTTTGTTATATCATA
100585999 TTTTTTG-T-TATCATA
1 TTTTTTGTTATATCATA
*
100586014 TGTTTTGTTA
1 TTTTTTGTTA
100586024 ACTTCTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (17 bp):
TTTTTTGTTATATCATA
Found at i:100586898 original size:19 final size:19
Alignment explanation
Indices: 100586852--100586889 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
100586842 ATAGAGCACG
*
100586852 CGCCCGTGTGCTAGGGATA
1 CGCCCGTGTGCTAGGGACA
100586871 CGCCCGTGTGCTAGGGACA
1 CGCCCGTGTGCTAGGGACA
100586890 TGTCCGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.29, G:0.37, T:0.18
Consensus pattern (19 bp):
CGCCCGTGTGCTAGGGACA
Found at i:100588781 original size:46 final size:46
Alignment explanation
Indices: 100588729--100588903 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
100588719 TGTAACCCGC
*
100588729 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
100588775 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
100588825 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
100588868 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
100588904 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:100588849 original size:93 final size:93
Alignment explanation
Indices: 100588737--100588908 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
100588727 GCCCATAAGT
** *
100588737 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100588802 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
100588830 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCTGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
100588895 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
100588909 CAAATATTCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:100590544 original size:131 final size:132
Alignment explanation
Indices: 100590199--100590630 Score: 378
Period size: 131 Copynumber: 3.3 Consensus size: 132
100590189 CAATTTCGCA
* * * * ** * *
100590199 TTTGCTCAAAATAATCGAATA-TCACTTCAAAATTTCACTCATATCTT-TTAAAATCCCTT-AAA
1 TTTGCTCAAAACAATCAAATATTCCCTCCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAA
* * * * *
100590261 CGAAGGCGATATGCGATTTTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTC
66 CGAAGGCGATATTCGATGTTTGGCAATTCG-GGAATCATGCCCTATCGTGTTGGGTTGCGATTTC
100590326 TCG
130 TCG
* * *
100590329 TTTGTTTAAAATAATCAAATA-TCCCTCCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAA
1 TTTGCTCAAAACAATCAAATATTCCCTCCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAA
** * * * * * *
100590393 CGAAGGTAATACTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGATTGTGATTTCT
66 CGAAGGCGATATTCGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGTTGGGTTGCGATTTCT
100590458 CG
131 CG
* *** * * *
100590460 TTTGCTCAAAACAATCAAATATTCCCT-TAGGTTTTCATTCATGT-TTATTAAAAA-CCTTTTAA
1 TTTGCTCAAAACAATCAAATATTCCCTCCAAAATTTCACTCAGGTCTT-CTAAAAATCC-TTTAA
* * * * *
100590522 AACGAAGGCGATGTTCGATGTTTGGCGATTTGAGAATCGA-GCCCTATCGTGTTGGGTTGCGCTT
64 AACGAAGGCGATATTCGATGTTTGGCAATTCGGGAATC-ATGCCCTATCGTGTTGGGTTGCGATT
* *
100590586 TTTCA
128 TCTCG
* * * * *
100590591 TTCGCTCAAAACAATCGAAGATT-CCTTCAGAATTTCACTC
1 TTTGCTCAAAACAATCAAATATTCCCTCCAAAATTTCACTC
100590631 GTATTTTCTA
Statistics
Matches: 241, Mismatches: 54, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
130 47 0.20
131 162 0.67
132 32 0.13
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (132 bp):
TTTGCTCAAAACAATCAAATATTCCCTCCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAA
CGAAGGCGATATTCGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGTTGGGTTGCGATTTCT
CG
Found at i:100595205 original size:20 final size:20
Alignment explanation
Indices: 100595180--100595217 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
100595170 TTATTAGTAG
100595180 AATTGCAGCAAACAACAACA
1 AATTGCAGCAAACAACAACA
100595200 AATTGCAGCAAACAACAA
1 AATTGCAGCAAACAACAA
100595218 ACAGAGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.24, G:0.11, T:0.11
Consensus pattern (20 bp):
AATTGCAGCAAACAACAACA
Found at i:100595883 original size:28 final size:28
Alignment explanation
Indices: 100595852--100595906 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
100595842 CATTACGATA
100595852 TATATAAATTA-TATTTT-TATTATATAAT
1 TATAT-AATTATTATTTTAT-TTATATAAT
100595880 TATATAATTATTATTTTATTTATATAA
1 TATATAATTATTATTTTATTTATATAA
100595907 ATAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.20
28 19 0.76
29 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TATATAATTATTATTTTATTTATATAAT
Found at i:100595890 original size:19 final size:20
Alignment explanation
Indices: 100595852--100595893 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
100595842 CATTACGATA
**
100595852 TATATAAATTATATTTTTAT
1 TATATAAATTATATAATTAT
100595872 TATAT-AATTATATAATTAT
1 TATATAAATTATATAATTAT
100595891 TAT
1 TAT
100595894 TTTATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATATAAATTATATAATTAT
Found at i:100595916 original size:28 final size:28
Alignment explanation
Indices: 100595857--100595921 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
100595847 CGATATATAT
* *
100595857 AAATTA-TATTTTTATTATATAATTATA
1 AAATTATTATTTTTATTATATAAATAAA
*
100595884 TAATTATTA-TTTTATTTATATAAATAAA
1 AAATTATTATTTTTA-TTATATAAATAAA
100595912 AAATTTATTA
1 AAA-TTATTA
100595922 ATTAAAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 10 0.32
28 15 0.48
29 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AAATTATTATTTTTATTATATAAATAAA
Done.