Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 432 of 444
Found at i:125038381 original size:6 final size:5
Alignment explanation
Indices: 125038354--125038384 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
125038344 AAACTAAAAC
125038354 CTTTT CTTTT CTTTT CTTTT CTTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT C-TTTT CTTTT
125038385 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
CTTTT
Found at i:125040268 original size:167 final size:166
Alignment explanation
Indices: 125039971--125040414 Score: 755
Period size: 167 Copynumber: 2.7 Consensus size: 166
125039961 AGAATCTATC
*
125039971 AAAAAAAAAATGTAAAACAGAAATTACAAAACACGACGCCGTCTGTGGGAATCGAACCCACGACC
1 AAAAAAAAAATGTAAAACAGAAATTACAAAACACAACGCCGTCTGTGGGAATCGAACCCACGACC
*
125040036 ACGTGGTTAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTACTGGTATACAGTAACATAG
66 ACGTGGTTAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTACTGGCATACAGTAACATAG
125040101 TGGTGAATCATCGGTATTCTCCCTCTTCTCTTTGGT
131 TGGTGAATCATCGGTATTCTCCCTCTTCTCTTTGGT
* * * *
125040137 AAAAAACAAAATATGAAACAGAAATTTCAAAACCCAACGCCGTCTGTGGGAATCGAACCCACGAC
1 AAAAAA-AAAATGTAAAACAGAAATTACAAAACACAACGCCGTCTGTGGGAATCGAACCCACGAC
* *
125040202 CACGTGGTTAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTACTGGCATTCAGTGACATA
65 CACGTGGTTAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTACTGGCATACAGTAACATA
**
125040267 GTGGTGGGTCATCGGTATTCTCCCTCTTCTCTTTGGT
130 GTGGTGAATCATCGGTATTCTCCCTCTTCTCTTTGGT
* * *
125040304 -AAACAAAAATGTAAAACAGAAATTACAAAACTCAACGCCGTCTGTGGGAATCGAATCCACGACC
1 AAAAAAAAAATGTAAAACAGAAATTACAAAACACAACGCCGTCTGTGGGAATCGAACCCACGACC
125040368 ACGTGGTTAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTAC
66 ACGTGGTTAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTAC
125040415 CAATGGCCAA
Statistics
Matches: 261, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
165 101 0.39
166 10 0.04
167 150 0.57
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (166 bp):
AAAAAAAAAATGTAAAACAGAAATTACAAAACACAACGCCGTCTGTGGGAATCGAACCCACGACC
ACGTGGTTAAAAGCCACGCGCTCTACCGGCTGAGCTAAGACGGCTACTGGCATACAGTAACATAG
TGGTGAATCATCGGTATTCTCCCTCTTCTCTTTGGT
Found at i:125040622 original size:29 final size:30
Alignment explanation
Indices: 125040558--125040622 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
125040548 CACAAAATAA
* **
125040558 TTATATATGAATTTTAATTTTGTATAA-TT
1 TTATATATAAATTTTAATTTAATATAATTT
*
125040587 TTATATATAAAATTTTAATTTAATTTAATTT
1 TTATATAT-AAATTTTAATTTAATATAATTT
125040618 TTATA
1 TTATA
125040623 AATTATTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.27
30 15 0.50
31 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TTATATATAAATTTTAATTTAATATAATTT
Found at i:125040837 original size:29 final size:30
Alignment explanation
Indices: 125040799--125040862 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 30
125040789 AAATTTCACG
125040799 TATATAATTACAC-TAAATTAAAATTA-ATA
1 TATATAATTACACATAAATTAAAA-TACATA
125040828 TATATAATTACACATTAAATTAAAATACATA
1 TATATAATTACACA-TAAATTAAAATACATA
125040859 TATA
1 TATA
125040863 ATTTTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 13 0.41
30 2 0.06
31 17 0.53
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (30 bp):
TATATAATTACACATAAATTAAAATACATA
Found at i:125040863 original size:29 final size:29
Alignment explanation
Indices: 125040779--125040865 Score: 97
Period size: 29 Copynumber: 2.9 Consensus size: 29
125040769 ATATTTTTGA
* *
125040779 ACTATAATTAAAATTTCACGTATATAATTAC
1 ACTA-AATTAAAA-TTAACATATATAATTAC
*
125040810 ACTAAATTAAAATTAATATATATAATTAC
1 ACTAAATTAAAATTAACATATATAATTAC
125040839 ACATTAAATTAAAA-T-ACATATATAATT
1 AC--TAAATTAAAATTAACATATATAATT
125040866 TTAAAATTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
29 27 0.54
30 9 0.18
31 14 0.28
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (29 bp):
ACTAAATTAAAATTAACATATATAATTAC
Found at i:125047053 original size:15 final size:17
Alignment explanation
Indices: 125047033--125047064 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
125047023 TAAATATCAC
125047033 TTTTAAA-AT-TTTTTA
1 TTTTAAATATATTTTTA
125047048 TTTTAAATATATTTTTA
1 TTTTAAATATATTTTTA
125047065 ATGGAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAAATATATTTTTA
Found at i:125049310 original size:16 final size:17
Alignment explanation
Indices: 125049289--125049320 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
125049279 TAAAAAATTA
125049289 AATAAAATTAA-ATTTT
1 AATAAAATTAACATTTT
125049305 AATAAAATTAACATTT
1 AATAAAATTAACATTT
125049321 ATCATTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAAATTAACATTTT
Found at i:125053901 original size:19 final size:20
Alignment explanation
Indices: 125053858--125053903 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
125053848 ATCTCTCAAC
125053858 AAAAATTACAAAATAAATTTT
1 AAAAATTACAAAAT-AATTTT
125053879 -AAAATT-CAAAAT-ATTTAT
1 AAAAATTACAAAATAATTT-T
125053897 AAAAATT
1 AAAAATT
125053904 TCTTAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.17
18 1 0.04
19 12 0.52
20 6 0.26
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTACAAAATAATTTT
Found at i:125055582 original size:2 final size:2
Alignment explanation
Indices: 125055575--125055605 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
125055565 TCATATGGGC
125055575 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
125055606 TTCTCTTTTT
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:125058784 original size:14 final size:14
Alignment explanation
Indices: 125058765--125058793 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
125058755 ACCTCGCCCT
125058765 TAATTTTACTTTAC
1 TAATTTTACTTTAC
125058779 TAATTTTACTTTAC
1 TAATTTTACTTTAC
125058793 T
1 T
125058794 TTTAAGGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTTTACTTTAC
Found at i:125059045 original size:20 final size:19
Alignment explanation
Indices: 125058999--125059047 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
125058989 TTTATTTTCA
125058999 TAAATTTTTCTAATTTTTTT
1 TAAA-TTTTCTAATTTTTTT
* *
125059019 TCCAATTTTCTGATTTCTTTT
1 T-AAATTTTCTAATTT-TTTT
125059040 TAAATTTT
1 TAAATTTT
125059048 GAACCGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.65
Consensus pattern (19 bp):
TAAATTTTCTAATTTTTTT
Found at i:125059232 original size:15 final size:15
Alignment explanation
Indices: 125059212--125059242 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
125059202 AATGAAACAT
125059212 ATGGATGATTCATTA
1 ATGGATGATTCATTA
125059227 ATGGATGATTCATTA
1 ATGGATGATTCATTA
125059242 A
1 A
125059243 CCATCCTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (15 bp):
ATGGATGATTCATTA
Found at i:125060762 original size:90 final size:90
Alignment explanation
Indices: 125060609--125060881 Score: 465
Period size: 90 Copynumber: 3.0 Consensus size: 90
125060599 TCTCCAGGTC
* *
125060609 TTTGGCTGCTATTCCCCCTGCTGAATGATGTAGACTTCACATTTATCTCCTTTGAGTTCATAGCT
1 TTTGGCTGCTATTCCCCTTGCTGAATGATGTAGACTTCACATTTATCTCCTTTGAGATCATAGCT
125060674 GAGCCCTCTTTCCTGGTGACCTGTT
66 GAGCCCTCTTTCCTGGTGACCTGTT
* *
125060699 TTTGGCTGCTATTCCCCTTGCTGGATGATGTAGACTTCACATTTGTCTCCTTTGAGATCATAGCT
1 TTTGGCTGCTATTCCCCTTGCTGAATGATGTAGACTTCACATTTATCTCCTTTGAGATCATAGCT
125060764 GAGCCCTCTTTCCTGGTGACCTGTT
66 GAGCCCTCTTTCCTGGTGACCTGTT
* ** * *
125060789 TTTGGTTGCTATTTTCCTTGCTGAATGATGTAGACTTCACATTCATCTCCTTTGACATCATAGCT
1 TTTGGCTGCTATTCCCCTTGCTGAATGATGTAGACTTCACATTTATCTCCTTTGAGATCATAGCT
125060854 GAGCCCTCTTTCCTGGTGACCTGTT
66 GAGCCCTCTTTCCTGGTGACCTGTT
125060879 TTT
1 TTT
125060882 TATCCCTAAA
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 172 1.00
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.40
Consensus pattern (90 bp):
TTTGGCTGCTATTCCCCTTGCTGAATGATGTAGACTTCACATTTATCTCCTTTGAGATCATAGCT
GAGCCCTCTTTCCTGGTGACCTGTT
Found at i:125076043 original size:25 final size:28
Alignment explanation
Indices: 125076013--125076066 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
125076003 AACTTAAAGG
125076013 ATTAATT-T-TTATT-AATTTGTTGAAT
1 ATTAATTATATTATTGAATTTGTTGAAT
125076038 ATTAATTATCATTATTGAATTTGTTGAAT
1 ATTAATTAT-ATTATTGAATTTGTTGAAT
125076067 TATTTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.28
26 1 0.04
28 5 0.20
29 12 0.48
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (28 bp):
ATTAATTATATTATTGAATTTGTTGAAT
Found at i:125080408 original size:21 final size:21
Alignment explanation
Indices: 125080382--125080426 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
125080372 AAATTGAATA
125080382 AAAAAACTCAAATATC-AAATT
1 AAAAAACTCAAAT-TCTAAATT
*
125080403 AAAAAATTCAAATTCTAAATT
1 AAAAAACTCAAATTCTAAATT
125080424 AAA
1 AAA
125080427 CATTAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAACTCAAATTCTAAATT
Found at i:125080745 original size:4 final size:4
Alignment explanation
Indices: 125080736--125080778 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
125080726 TATAAACTGT
125080736 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
125080779 TAGATATTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:125087937 original size:31 final size:33
Alignment explanation
Indices: 125087883--125087943 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
125087873 ATTTATTAAA
125087883 TTTTAAACATTAAAATAACATAATATAAATATT
1 TTTTAAACATTAAAATAACATAATATAAATATT
*
125087916 TTTTAAA-ATTTAAATAA-ATAATATAAAT
1 TTTTAAACATTAAAATAACATAATATAAAT
125087944 TGACCTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 11 0.41
32 9 0.33
33 7 0.26
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (33 bp):
TTTTAAACATTAAAATAACATAATATAAATATT
Found at i:125096309 original size:2 final size:2
Alignment explanation
Indices: 125096302--125096335 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
125096292 TTACATAAGC
* *
125096302 AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125096336 TCATGGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125098637 original size:31 final size:31
Alignment explanation
Indices: 125098584--125098646 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
125098574 ATCTTAAGAT
* * *
125098584 TCAAAATATACAAGGACGAAAATTGATCAAA
1 TCAAAAAATACAAGAACGAAAATTAATCAAA
* *
125098615 TCAAAAAATATAAGAACTAAAATTAATCAAA
1 TCAAAAAATACAAGAACGAAAATTAATCAAA
125098646 T
1 T
125098647 TAAAGTATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (31 bp):
TCAAAAAATACAAGAACGAAAATTAATCAAA
Found at i:125099928 original size:40 final size:44
Alignment explanation
Indices: 125099846--125099928 Score: 102
Period size: 46 Copynumber: 1.9 Consensus size: 44
125099836 AACAATATTT
* *
125099846 ATAAATTTATGGTTATTTTATTTCCATAATTATTTTATAAATTCCG
1 ATAAATTTATGGTTA-TTTAATT-CATAATTATTTTAAAAATTCCG
125099892 ATAAATTTATGGTTA-TTAATT-AT-ATT-TTTTAAAAATT
1 ATAAATTTATGGTTATTTAATTCATAATTATTTTAAAAATT
125099929 AATAGTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 10 0.29
41 3 0.09
42 2 0.06
44 5 0.14
46 15 0.43
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (44 bp):
ATAAATTTATGGTTATTTAATTCATAATTATTTTAAAAATTCCG
Found at i:125101192 original size:14 final size:14
Alignment explanation
Indices: 125101154--125101195 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
125101144 AAATTAATAA
125101154 ATTTTTAATA-TAT
1 ATTTTTAATATTAT
* *
125101167 AGTTTAATATATTAT
1 ATTTTTA-ATATTAT
125101182 ATTTTTAATATTAT
1 ATTTTTAATATTAT
125101196 TTTATATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 5 0.22
14 10 0.43
15 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
ATTTTTAATATTAT
Found at i:125101202 original size:26 final size:28
Alignment explanation
Indices: 125101134--125101210 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
125101124 GACAATTTAT
* *
125101134 TATAGTTTAAAAATTAATAAATTTTTAATA
1 TATAGTTT-AATA-TAATATATTTTTAATA
*
125101164 TATAGTTTAATATATTATATTTTTAATA
1 TATAGTTTAATATAATATATTTTTAATA
*
125101192 T-TA-TTTTATATAATATATT
1 TATAGTTTAATATAATATATT
125101211 GTAATTTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 14 0.33
27 2 0.05
28 15 0.36
29 3 0.07
30 8 0.19
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
TATAGTTTAATATAATATATTTTTAATA
Found at i:125103721 original size:46 final size:47
Alignment explanation
Indices: 125103659--125103791 Score: 146
Period size: 46 Copynumber: 2.9 Consensus size: 47
125103649 TTTGACATGA
* * ** * * *
125103659 TGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATAACGT
* **
125103705 TGCCATGGTATTTTTCAACCATGGTCTTGTTCA-TTTCATATAACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATAACGT
*
125103751 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
125103792 CAGAGAGCAC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
45 4 0.06
46 68 0.94
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATAACGT
Found at i:125105980 original size:20 final size:21
Alignment explanation
Indices: 125105938--125105986 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
125105928 TAATTAATAA
*
125105938 TAAAATAATAAATTATCTCAT
1 TAAAATAATAAATTATCTAAT
*
125105959 TAAAATAATATA-TATCTAAT
1 TAAAATAATAAATTATCTAAT
125105979 T-AAATAAT
1 TAAAATAAT
125105987 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 8 0.31
21 11 0.42
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAATAATAAATTATCTAAT
Found at i:125110756 original size:44 final size:45
Alignment explanation
Indices: 125110666--125110794 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
125110656 GACAGAACAA
*
125110666 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
125110712 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
125110756 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
125110795 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:125113961 original size:19 final size:21
Alignment explanation
Indices: 125113931--125113974 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
125113921 AAGTTAAAAT
125113931 ATTTTAATATTATA-ATTATA
1 ATTTTAATATTATATATTATA
*
125113951 ATTTT-ATATTATATGTTATA
1 ATTTTAATATTATATATTATA
125113971 ATTT
1 ATTT
125113975 AAGCAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTTAATATTATATATTATA
Found at i:125115187 original size:29 final size:29
Alignment explanation
Indices: 125115155--125115235 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
125115145 CGTGAACATA
* *
125115155 TTATCAGGTACTTTGTACCGGTGTTATAT
1 TTATCAGGTACTATGTACCGATGTTATAT
* * **
125115184 TTATCAGGCACCATGTGTCGATGTTATAT
1 TTATCAGGTACTATGTACCGATGTTATAT
**
125115213 TTATCAACTACTATGTACCGATG
1 TTATCAGGTACTATGTACCGATG
125115236 GTGGATAAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (29 bp):
TTATCAGGTACTATGTACCGATGTTATAT
Found at i:125117302 original size:47 final size:47
Alignment explanation
Indices: 125117238--125117365 Score: 184
Period size: 47 Copynumber: 2.7 Consensus size: 47
125117228 GTGCGAACAA
* * * *
125117238 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTTAGAGTAGC
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGGAAC
* *
125117285 TACCTTGATTTGGCTACGGGCCATGGTATACGTATTTTGAGAGGAAT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGGAAC
* *
125117332 TACCTTGATTTGGCTAAGGGTCATGGTATAGGTA
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
125117366 CTCCAGGATA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGGAAC
Found at i:125117346 original size:94 final size:94
Alignment explanation
Indices: 125117238--125117408 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 94
125117228 GTGCGAACAA
* * **
125117238 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTTA-GAGT-AGCTACCTTGATTTGGCTA
1 TACCTTGATTTGGCTAAGGGCCATGATATAGGTA-CTCCAGGA-TAAGCTACCTTGATTTGGCTA
125117301 CGGGCCATGGTATACGTATTTTGAGAGGAAT
64 CGGGCCATGGTATACGTATTTTGAGAGGAAT
* * *
125117332 TACCTTGATTTGGCTAAGGGTCATGGTATAGGTACTCCAGGATAAGTTACCTTGATTTGGCTACG
1 TACCTTGATTTGGCTAAGGGCCATGATATAGGTACTCCAGGATAAGCTACCTTGATTTGGCTACG
**
125117397 GGTTATGGTATA
66 GGCCATGGTATA
125117409 GGTACTTATC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
93 3 0.05
94 63 0.95
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (94 bp):
TACCTTGATTTGGCTAAGGGCCATGATATAGGTACTCCAGGATAAGCTACCTTGATTTGGCTACG
GGCCATGGTATACGTATTTTGAGAGGAAT
Found at i:125118955 original size:46 final size:46
Alignment explanation
Indices: 125118899--125119125 Score: 328
Period size: 46 Copynumber: 4.9 Consensus size: 46
125118889 TTTGACATGA
** * *
125118899 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* **
125118945 TTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
*
125118991 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* * * *
125119037 TGTCATGGTATCTTTCAACCATAGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* *
125119083 TGCCATGTTATCTTTCAACCATGGTTTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
125119126 GAGAGCACAC
Statistics
Matches: 166, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 166 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:125121297 original size:2 final size:2
Alignment explanation
Indices: 125121290--125121337 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
125121280 TGTTTTACTT
125121290 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
125121332 TA TA TA
1 TA TA TA
125121338 ATAATAATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:125124915 original size:7 final size:7
Alignment explanation
Indices: 125124905--125124949 Score: 54
Period size: 7 Copynumber: 6.0 Consensus size: 7
125124895 ATAAAAATTC
125124905 AAAATAT
1 AAAATAT
125124912 AAAATAT
1 AAAATAT
*
125124919 AAAACAT
1 AAAATAT
125124926 AAAATAAT
1 AAAAT-AT
125124934 ATAAATAT
1 A-AAATAT
125124942 AAGAATAT
1 AA-AATAT
125124950 TATATTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
7 18 0.55
8 11 0.33
9 4 0.12
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (7 bp):
AAAATAT
Found at i:125125199 original size:22 final size:20
Alignment explanation
Indices: 125125165--125125213 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 20
125125155 TTTTACTATT
125125165 TAAAATTATTTAA-ATATAATTA
1 TAAAA-TATTTAATAT-TAA-TA
125125187 TAAAATATGTTAATATTAATA
1 TAAAATAT-TTAATATTAATA
125125208 TAAAAT
1 TAAAAT
125125214 TAATTTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 11 0.44
22 12 0.48
23 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAAAATATTTAATATTAATA
Found at i:125126582 original size:20 final size:20
Alignment explanation
Indices: 125126557--125126596 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
125126547 GCATGTGTAA
125126557 TTTTTATATATTTAT-AATTT
1 TTTTTAT-TATTTATGAATTT
*
125126577 TTTTTATTTTTTATGAATTT
1 TTTTTATTATTTATGAATTT
125126597 AGTTTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTATTATTTATGAATTT
Found at i:125126610 original size:23 final size:24
Alignment explanation
Indices: 125126575--125126620 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
125126565 TATTTATAAT
*
125126575 TTTTTTTATTTTTTATGAATTTAG
1 TTTTTCTATTTTTTATGAATTTAG
*
125126599 TTTTTCTATTTTTT-TTAATTTA
1 TTTTTCTATTTTTTATGAATTTA
125126621 AAAATTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTTCTATTTTTTATGAATTTAG
Found at i:125136579 original size:18 final size:17
Alignment explanation
Indices: 125136554--125136601 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
125136544 ATATTGAGTA
125136554 TTTT-TATATTATTTAT
1 TTTTATATATTATTTAT
125136570 TTTTAATATAATTA-TTAT
1 TTTT-ATAT-ATTATTTAT
125136588 TTTTATA-ATTATTT
1 TTTTATATATTATTT
125136602 TTAACCGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.14
16 6 0.21
17 3 0.11
18 11 0.39
19 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTATATATTATTTAT
Found at i:125152063 original size:16 final size:15
Alignment explanation
Indices: 125152032--125152070 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
125152022 ATATAGGACT
125152032 TTTTTATATAAATTAA
1 TTTTTA-ATAAATTAA
*
125152048 TATTTTAATAATTTAA
1 T-TTTTAATAAATTAA
125152064 TTTTTAA
1 TTTTTAA
125152071 ATTTATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTAATAAATTAA
Found at i:125166785 original size:23 final size:25
Alignment explanation
Indices: 125166759--125166805 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
125166749 TATCATTCAT
*
125166759 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
125166782 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
125166806 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:125167126 original size:46 final size:46
Alignment explanation
Indices: 125167066--125167376 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
125167056 TTTGATGTGA
* * * * * *
125167066 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
125167112 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
125167158 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
125167204 TGACATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
125167250 TGCCATGGTATCTTTCAACCCTGGTCTT--A-A---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
125167287 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
125167333 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
125167377 AGAGCACACT
Statistics
Matches: 238, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
37 32 0.13
38 1 0.00
39 1 0.00
40 2 0.01
43 2 0.01
44 1 0.00
45 5 0.02
46 194 0.82
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:125167295 original size:37 final size:37
Alignment explanation
Indices: 125167245--125167365 Score: 145
Period size: 37 Copynumber: 3.1 Consensus size: 37
125167235 CATTTCATAT
*
125167245 CAGGTTGCCATGGTATCTTTCAACCCTGGTCTTAACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTAACA
125167282 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--A-A---C--A
125167327 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTT-ACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTAACA
125167364 CA
1 CA
125167366 TTTCATATCA
Statistics
Matches: 74, Mismatches: 1, Indels: 19
0.79 0.01 0.20
Matches are distributed among these distances:
36 2 0.03
37 33 0.45
39 2 0.03
40 1 0.01
42 1 0.01
43 1 0.01
45 1 0.01
46 33 0.45
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (37 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTAACA
Found at i:125167338 original size:83 final size:82
Alignment explanation
Indices: 125167199--125167365 Score: 307
Period size: 83 Copynumber: 2.0 Consensus size: 82
125167189 CATCTCATAT
125167199 CAGGTTGACATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGACATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
*
125167264 TCAACCCTGGTCTTAACA
66 TCAACCATGGTCTT-ACA
*
125167282 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGACATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
125167347 TCAACCATGGTCTTACA
66 TCAACCATGGTCTTACA
125167364 CA
1 CA
125167366 TTTCATATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
82 5 0.06
83 77 0.94
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (82 bp):
CAGGTTGACATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTACA
Found at i:125169569 original size:27 final size:27
Alignment explanation
Indices: 125169497--125169579 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
125169487 TTTCTTTCTT
*
125169497 TATTTA-CTAATAAAATAATAATAAAA
1 TATTTATCTAATTAAATAATAATAAAA
* *
125169523 TATCTTAT-TAAAGT-ATTAATAA-AATAA
1 TAT-TTATCT-AATTAAATAATAATAA-AA
*
125169550 TATTTATCTAATTAAATAATTATAAAA
1 TATTTATCTAATTAAATAATAATAAAA
125169577 TAT
1 TAT
125169580 CAAAATATCT
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
26 12 0.27
27 28 0.64
28 4 0.09
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (27 bp):
TATTTATCTAATTAAATAATAATAAAA
Found at i:125173062 original size:76 final size:76
Alignment explanation
Indices: 125172974--125173114 Score: 221
Period size: 76 Copynumber: 1.9 Consensus size: 76
125172964 TTTATGTTTC
* * * *
125172974 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGAGACGTTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTT-AATTT
125173038 CTAACTTTCAAA
65 CTAACTTTCAAA
*
125173050 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTAAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTTAATTTC
125173115 CGGTTTTCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
76 54 0.92
77 5 0.08
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTTAATTTC
TAACTTTCAAA
Found at i:125173155 original size:86 final size:85
Alignment explanation
Indices: 125173050--125173432 Score: 477
Period size: 85 Copynumber: 4.4 Consensus size: 85
125173040 AACTTTCAAA
* *
125173050 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTAAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGT-ATTTTCAATTT
*
125173114 CCGGTTTTCAATTTATTTTTC
65 CCGTTTTTCAATTTATTTTTC
* * ** *
125173135 AAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACATACTGAGGTAATTTT-AATT
1 AAAA-ATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGT-ATTTTCAATT
*
125173199 TTCGTTTTTCAATTTATTTTTC
64 TCCGTTTTTCAATTTATTTTTC
* *
125173221 AAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCACAGGACACGCTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTC
*
125173286 CATTTTTCAATTTATGTTTT-
66 CGTTTTTCAATTTAT-TTTTC
* * * *
125173306 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAGTTTT
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTC
* *
125173371 TGTTTTTCAAATTCTGTTTTT-
66 CGTTTTTC-AATT-TATTTTTC
* *
125173392 ATTAAAAGTGAGCTCATATTGTGAGAGGTGAGTTGAGCCTC
1 A--AAAA-TCAACTCATATTGTGAGAGGTGAGTTGAGCCTC
125173433 GGGTCACAGG
Statistics
Matches: 263, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
84 5 0.02
85 130 0.49
86 91 0.35
87 2 0.01
88 4 0.02
89 31 0.12
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (85 bp):
AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTC
CGTTTTTCAATTTATTTTTC
Found at i:125173266 original size:171 final size:171
Alignment explanation
Indices: 125173050--125173430 Score: 511
Period size: 171 Copynumber: 2.2 Consensus size: 171
125173040 AACTTTCAAA
* * *
125173050 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTAAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCACAGGACACGCTAAGGT-ATTTTCAATTT
* *
125173114 CCGGTTTTCAATTTAT-TTTTCAAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGA
65 CCAGTTTTCAATTTATGTTTT-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
125173178 CATACTGAGGTAATTTT-AATTTTCGTTTTTC-AATT-TATTTTT
128 CACACTGAGGT-ATTTTCAATTTTCGTTTTTCAAATTCTATTTTT
*
125173220 CAAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCACAGGACACGCTAAGGTATTTTCAATTT
1 -AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCACAGGACACGCTAAGGTATTTTCAATTT
* * *
125173285 CCATTTTTCAATTTATGTTTTAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACA
65 CCAGTTTTCAATTTATGTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * * *
125173350 CGCTGAGGTATTTTCAGTTTTTGTTTTTCAAATTCTGTTTTT
130 CACTGAGGTATTTTCAATTTTCGTTTTTCAAATTCTATTTTT
* *
125173392 ATTAAAAGTGAGCTCATATTGTGAGAGGTGAGTTGAGCC
1 A--AAAA-TCAACTCATATTGTGAGAGGTGAGTTGAGCC
125173431 TCGGGTCACA
Statistics
Matches: 185, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
169 5 0.03
170 61 0.33
171 77 0.42
172 10 0.05
173 4 0.02
174 28 0.15
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (171 bp):
AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCACAGGACACGCTAAGGTATTTTCAATTTC
CAGTTTTCAATTTATGTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
ACTGAGGTATTTTCAATTTTCGTTTTTCAAATTCTATTTTT
Found at i:125175136 original size:24 final size:24
Alignment explanation
Indices: 125175094--125175155 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
125175084 TTCATTTCTT
* *
125175094 TATTATTAAATTAATTACT-TTTAA
1 TATTATTATATTAACTACTATTT-A
*
125175118 TATTATTATATTTACTACTATTTA
1 TATTATTATATTAACTACTATTTA
125175142 TATTATTATTATTA
1 TATTATTA-TATTA
125175156 TTATTAATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTATTATATTAACTACTATTTA
Found at i:125175297 original size:23 final size:24
Alignment explanation
Indices: 125175269--125175322 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
125175259 TTCTAATATG
125175269 TATATATTATGTA-A-ATATTTTT
1 TATATATTATGTATACATATTTTT
*
125175291 TACTATATTATGTATACATTTTTTT
1 TA-TATATTATGTATACATATTTTT
125175316 TATATAT
1 TATATAT
125175323 ATTACATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 11 0.39
24 6 0.21
25 9 0.32
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (24 bp):
TATATATTATGTATACATATTTTT
Found at i:125175373 original size:40 final size:37
Alignment explanation
Indices: 125175312--125175390 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 37
125175302 GTATACATTT
*
125175312 TTTTTATATATATTACATATATGTATCTTTTAATATTATA
1 TTTTTATATATATTACATATA--TATC-TTTAATACTATA
* **
125175352 TTTTTATATATGTTATGTATATATCTTTAATACTATA
1 TTTTTATATATATTACATATATATCTTTAATACTATA
125175389 TT
1 TT
125175391 ATTTGTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 13 0.37
38 4 0.11
40 18 0.51
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (37 bp):
TTTTTATATATATTACATATATATCTTTAATACTATA
Found at i:125175394 original size:40 final size:39
Alignment explanation
Indices: 125175312--125175390 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 39
125175302 GTATACATTT
*
125175312 TTTTTATATATATTACATATATGTATCTTTTAATATTATA
1 TTTTTATATATATTA-ATATATATATCTTTTAATATTATA
* * *
125175352 TTTTTATATATGTT-ATGTATATATC-TTTAATACTATA
1 TTTTTATATATATTAATATATATATCTTTTAATATTATA
125175389 TT
1 TT
125175391 ATTTGTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 13 0.37
38 9 0.26
40 13 0.37
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (39 bp):
TTTTTATATATATTAATATATATATCTTTTAATATTATA
Found at i:125175436 original size:48 final size:46
Alignment explanation
Indices: 125175350--125175440 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 46
125175340 TTTAATATTA
* *
125175350 TATTTTTATATATGTTATGTATATATCTTTAATACTATATTATTTG
1 TATTTTTATATATCTTACGTATATATCTTTAATACTATATTATTTG
125175396 TATTTTTCATATTATCTTACGTATAT-TCTTTAATAACTATATTAT
1 TATTTTT-ATA-TATCTTACGTATATATCTTTAAT-ACTATATTAT
125175441 GTATATACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
46 7 0.17
47 11 0.28
48 22 0.55
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (46 bp):
TATTTTTATATATCTTACGTATATATCTTTAATACTATATTATTTG
Found at i:125175444 original size:25 final size:24
Alignment explanation
Indices: 125175348--125175446 Score: 89
Period size: 25 Copynumber: 4.2 Consensus size: 24
125175338 CTTTTAATAT
*
125175348 TATATT-TTT-ATA-TATGTTATG
1 TATATTCTTTAATACTATATTATG
*
125175369 TATATATCTTTAATACTATATTATT
1 TATAT-TCTTTAATACTATATTATG
* * * * *
125175394 TGTATT-TTTCATATTATCTTACG
1 TATATTCTTTAATACTATATTATG
125175417 TATATTCTTTAATAACTATATTATG
1 TATATTCTTTAAT-ACTATATTATG
125175442 TATAT
1 TATAT
125175447 ACTATTACTA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
21 5 0.08
22 1 0.02
23 20 0.34
24 9 0.15
25 24 0.41
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (24 bp):
TATATTCTTTAATACTATATTATG
Found at i:125175547 original size:22 final size:23
Alignment explanation
Indices: 125175519--125175567 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
125175509 CCTAATATAT
125175519 ATACTAT-GTATACATTTTTTAA
1 ATACTATAGTATACATTTTTTAA
* * *
125175541 ATACTATATTATATATTTTTTTA
1 ATACTATAGTATACATTTTTTAA
125175564 ATAC
1 ATAC
125175568 CGTATTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (23 bp):
ATACTATAGTATACATTTTTTAA
Found at i:125175573 original size:23 final size:23
Alignment explanation
Indices: 125175527--125175575 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
125175517 ATATACTATG
*
125175527 TATACATTTTTTAAATACTATAT
1 TATACATTTTTTAAATACCATAT
* * *
125175550 TATATATTTTTTTAATACCGTAT
1 TATACATTTTTTAAATACCATAT
125175573 TAT
1 TAT
125175576 GTATATGTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (23 bp):
TATACATTTTTTAAATACCATAT
Found at i:125175820 original size:3 final size:3
Alignment explanation
Indices: 125175770--125175805 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
125175760 TACATACATC
*
125175770 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
125175806 GTATATGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:125175833 original size:23 final size:23
Alignment explanation
Indices: 125175791--125175863 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
125175781 ATTATTATAA
125175791 TTATTAT-TAT-TATTAGTATATGT
1 TTATTATATATATA-TA-TATATGT
*
125175814 TTATTATATATATATATATATCT
1 TTATTATATATATATATATATGT
* *
125175837 TTAATATATATATATGTATATGT
1 TTATTATATATATATATATATGT
125175860 TTAT
1 TTAT
125175864 GCAGTATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 36 0.84
24 5 0.12
25 2 0.05
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (23 bp):
TTATTATATATATATATATATGT
Found at i:125175953 original size:25 final size:25
Alignment explanation
Indices: 125175892--125176007 Score: 84
Period size: 25 Copynumber: 4.8 Consensus size: 25
125175882 GTTTTGTGAC
**
125175892 ATTAT-TAT-TATTTCTAATATGTAT
1 ATTATGTATATATTT-TAATAACTAT
*
125175916 A-TATATATATATTTTAATAACTAT
1 ATTATGTATATATTTTAATAACTAT
* * *
125175940 ATTATGTATGTATTTTTAA-CACCAT
1 ATTATGTATATA-TTTTAATAACTAT
*
125175965 TTTATGTATATACTTTTAAT-A-T-T
1 ATTATGTATATA-TTTTAATAACTAT
*
125175988 ATTATGTATTTATTTTAATA
1 ATTATGTATATATTTTAATA
125176008 TATATGTACA
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
22 7 0.09
23 14 0.19
24 13 0.18
25 34 0.46
26 6 0.08
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTATGTATATATTTTAATAACTAT
Found at i:125176021 original size:20 final size:22
Alignment explanation
Indices: 125175966--125176022 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 22
125175956 TAACACCATT
125175966 TTATGTATATACTTTTAATATTA
1 TTATGTATATA-TTTTAATATTA
*
125175989 TTATGTATTTATTTTAATA-TA
1 TTATGTATATATTTTAATATTA
*
125176010 -TATGTACATATTT
1 TTATGTATATATTT
125176023 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.35
21 2 0.06
22 8 0.26
23 10 0.32
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (22 bp):
TTATGTATATATTTTAATATTA
Found at i:125176021 original size:24 final size:22
Alignment explanation
Indices: 125175978--125176047 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
125175968 ATGTATATAC
**
125175978 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
125176000 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
* * *
125176024 -TGTAGTATTATTA-ATATATA
1 TTTTAATATTATTACATATTTA
125176044 TTTT
1 TTTT
125176048 TTTGTTATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
20 6 0.15
21 4 0.10
22 12 0.31
23 9 0.23
24 8 0.21
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:125183799 original size:133 final size:133
Alignment explanation
Indices: 125183561--125183968 Score: 611
Period size: 133 Copynumber: 3.1 Consensus size: 133
125183551 CCAATTCTAC
* * * *
125183561 AGATCTTGTTTGCCTAAAGTTAC-GATGGAGCAGATCGAGGACGGCAAATCTTGTCTTTCTAAAG
1 AGATCTTGTTTCCCTAAAGTTACAG-TGGAGCAGATCGAGGACGGCGAATCTTGTCTTCCTGAAG
**
125183625 TTGCAGTGAAGCAGATTTAAGCCACCATATTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
125183690 TTGT
130 TTGT
* *
125183694 AGATCTTATTTCCCTAAAGTTACAGTGGAGCAGGTCGAGGACGGCGAATCTTGTCTTCCTGAAGT
1 AGATCTTGTTTCCCTAAAGTTACAGTGGAGCAGATCGAGGACGGCGAATCTTGTCTTCCTGAAGT
* * *
125183759 TACAATAAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
125183824 TGT
131 TGT
* * * * ** *
125183827 AGATCTTGTCTCTCTGAAGTTACAGTGGAGCAGATCGAAGACGATGAATCTTATCTTCCTGAAGT
1 AGATCTTGTTTCCCTAAAGTTACAGTGGAGCAGATCGAGGACGGCGAATCTTGTCTTCCTGAAGT
* *
125183892 TGCAGTGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCCGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
*
125183957 TGC
131 TGT
125183960 AGATCTTGT
1 AGATCTTGT
125183969 CTTTCCGAAG
Statistics
Matches: 248, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
133 247 1.00
134 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (133 bp):
AGATCTTGTTTCCCTAAAGTTACAGTGGAGCAGATCGAGGACGGCGAATCTTGTCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
TGT
Found at i:125186869 original size:133 final size:129
Alignment explanation
Indices: 125186647--125187032 Score: 443
Period size: 133 Copynumber: 2.9 Consensus size: 129
125186637 ATTATTCATC
** * * ** * *
125186647 TAAAAATTCTTTAAAACGGAGGCAATACTCTGTGTTTGGCAATTCGAAAATCGTGCCTTATCTGC
1 TAAAAATTCTACAAAACGAAGGCAATACTCGGTGTTTGGCAATTCGGGAATCGTGCCCTATGTGC
* * **
125186712 TGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGGATTTCACTCATG-CTTT
66 TGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGAAATTTCACTCATGTC-TT
*
125186776 TAAAAAAAAATTCTACAAAA-TAAGGCAATACTCGGTGTTTGGCAATTCGGGAATCGTGCCCTAT
1 T----AAAAATTCTACAAAACGAAGGCAATACTCGGTGTTTGGCAATTCGGGAATCGTGCCCTAT
* *
125186840 AGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTCGAAATTTCACTCATG
62 -GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGAAATTTCACTCATG
125186905 TCTT
126 TCTT
* * * * ** * *
125186909 TAAAGATTTTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGAGGAATAGTGCCCTATCGT
1 TAAAAATTCTACAAAACGAAGGCAATACTCGGTGTTTGGCAATTCG-GGAATCGTGCCCTAT-GT
* * **
125186974 GTTGGGTTTCGATTTCCCGTTTGTTCAAAATAATTAAATATTCCTTTGAAATTTCACTC
64 GCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGAAATTTCACTC
125187033 GTGTTTTCTA
Statistics
Matches: 218, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
129 13 0.06
130 24 0.11
131 69 0.32
132 38 0.17
133 73 0.33
134 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (129 bp):
TAAAAATTCTACAAAACGAAGGCAATACTCGGTGTTTGGCAATTCGGGAATCGTGCCCTATGTGC
TGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGAAATTTCACTCATGTCTT
Found at i:125190329 original size:11 final size:11
Alignment explanation
Indices: 125190313--125190337 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
125190303 ACTATTCTAC
125190313 TAACTACTTAT
1 TAACTACTTAT
125190324 TAACTACTTAT
1 TAACTACTTAT
125190335 TAA
1 TAA
125190338 GCAAACTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (11 bp):
TAACTACTTAT
Found at i:125195114 original size:85 final size:85
Alignment explanation
Indices: 125194967--125195137 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
125194957 AAAAGTAGAC
125194967 ATTTATTGTAATTGTATAAGAATGTCAAATTTGAAGAGTAAGGTGATTGTTTACATGAGAAATTC
1 ATTTATTGTAATTGTATAAGAATGTCAAATTTGAAGAGTAAGGTGATTGTTTACATGAGAAATTC
*
125195032 TTACAGCAGGTTTGTTAGGG
66 CTACAGCAGGTTTGTTAGGG
* * *
125195052 ATTTATTGTATTTGTATAATAATGTCAAATTTGAAGAGTAAGGTGATTGTTTACATGCGAAATTC
1 ATTTATTGTAATTGTATAAGAATGTCAAATTTGAAGAGTAAGGTGATTGTTTACATGAGAAATTC
125195117 CTACAGCAGGTTTGTTAGGG
66 CTACAGCAGGTTTGTTAGGG
125195137 A
1 A
125195138 ACTATGATTG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (85 bp):
ATTTATTGTAATTGTATAAGAATGTCAAATTTGAAGAGTAAGGTGATTGTTTACATGAGAAATTC
CTACAGCAGGTTTGTTAGGG
Found at i:125212055 original size:20 final size:21
Alignment explanation
Indices: 125212032--125212085 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
125212022 ATAATTACAT
125212032 TTATTTT-TTTAAATTAAGAA
1 TTATTTTATTTAAATTAAGAA
*
125212052 TTATTTTGTTTAAATTAAGAA
1 TTATTTTATTTAAATTAAGAA
125212073 TTATTTTATTTAA
1 TTATTTTATTTAA
125212086 CTTCGTGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.22
21 25 0.78
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
TTATTTTATTTAAATTAAGAA
Found at i:125224214 original size:30 final size:30
Alignment explanation
Indices: 125224180--125224240 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
125224170 TCCTTAACTC
125224180 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
125224210 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
125224240 A
1 A
125224241 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:125233931 original size:21 final size:22
Alignment explanation
Indices: 125233892--125233947 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
125233882 AATATTTGTT
* *
125233892 AAAATTTTAAAATTTATATTTAA
1 AAAATTTTAAAA-TAATATATAA
125233915 AAAATTTTAAAA-AATATATAA
1 AAAATTTTAAAATAATATATAA
* *
125233936 AGAATGTTAAAA
1 AAAATTTTAAAA
125233948 CTTTTCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 17 0.59
23 12 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATTTTAAAATAATATATAA
Found at i:125236166 original size:21 final size:22
Alignment explanation
Indices: 125236125--125236168 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
125236115 AAAAAGTCAT
*
125236125 AAAAATTATAAATAAGGTTTAA
1 AAAAATTATAAATAAGATTTAA
125236147 AAAAAGTTATAAA-AA-ATTTAA
1 AAAAA-TTATAAATAAGATTTAA
125236168 A
1 A
125236169 TTTATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAAATTATAAATAAGATTTAA
Found at i:125237309 original size:12 final size:12
Alignment explanation
Indices: 125237292--125237325 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
125237282 CGGCCCGCCC
125237292 ATATTAATTTTT
1 ATATTAATTTTT
*
125237304 ATATTATTTTTT
1 ATATTAATTTTT
125237316 ATA-TAATTTT
1 ATATTAATTTT
125237326 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:125237475 original size:30 final size:30
Alignment explanation
Indices: 125237439--125237499 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
125237429 CAATTTAACA
*
125237439 AGCAAATGCCACTAAAATAATAACAAAATT
1 AGCAAATGCCACTAAAATAATAAAAAAATT
* **
125237469 AGCAAATGTCTTTAAAATAATAAAAAAATT
1 AGCAAATGCCACTAAAATAATAAAAAAATT
125237499 A
1 A
125237500 ACAATAAAAT
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:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (30 bp):
AGCAAATGCCACTAAAATAATAAAAAAATT
Found at i:125237558 original size:22 final size:22
Alignment explanation
Indices: 125237533--125237575 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
125237523 TATCCAAACA
*
125237533 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAACAGTAGCAAC
**
125237555 ATAATAGTAAAACAGTAGCAA
1 ATAATAACAAAACAGTAGCAA
125237576 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAATAACAAAACAGTAGCAAC
Found at i:125239962 original size:13 final size:13
Alignment explanation
Indices: 125239944--125239989 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
125239934 CGACACGAGT
125239944 TAAAAAAATTATG
1 TAAAAAAATTATG
*
125239957 TAAAAAAA-TATC
1 TAAAAAAATTATG
*
125239969 TATAAAAAATCATG
1 TA-AAAAAATTATG
125239983 TAAAAAA
1 TAAAAAA
125239990 TAAAATGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 5 0.18
13 19 0.68
14 4 0.14
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (13 bp):
TAAAAAAATTATG
Found at i:125246635 original size:29 final size:28
Alignment explanation
Indices: 125246595--125246661 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
125246585 TGATATATAT
125246595 TTTTATATTTTTAGAATGATTAAA-TAAAA
1 TTTTATATTTTTAGAA-G-TTAAACTAAAA
*
125246624 TTTTATTATTTTT-GAAGTTAAACTATAA
1 TTTTA-TATTTTTAGAAGTTAAACTAAAA
125246652 TTTTA-ATTTT
1 TTTTATATTTT
125246662 ATTAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
26 5 0.14
27 5 0.14
28 10 0.29
29 8 0.23
30 7 0.20
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (28 bp):
TTTTATATTTTTAGAAGTTAAACTAAAA
Found at i:125249772 original size:10 final size:10
Alignment explanation
Indices: 125249757--125249797 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
125249747 ATAGAATTAA
125249757 TTAAAAAAAT
1 TTAAAAAAAT
125249767 TTAAAAAAAT
1 TTAAAAAAAT
*
125249777 TAATTAAAAAAT
1 T--TAAAAAAAT
125249789 TTAAAAAAA
1 TTAAAAAAA
125249798 AATTAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 18 0.67
12 9 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
TTAAAAAAAT
Found at i:125249781 original size:23 final size:24
Alignment explanation
Indices: 125249751--125249807 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
125249741 GTATAGATAG
125249751 AATTAATTAAAAAAATTT-AAAAA
1 AATTAATTAAAAAAATTTAAAAAA
125249774 AATTAATT-AAAAAATTTAAAAAAA
1 AATTAATTAAAAAAATTT-AAAAAA
125249798 AATTAATTAA
1 AATTAATTAA
125249808 TTTGATCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 9 0.29
23 8 0.26
24 13 0.42
25 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTAATTAAAAAAATTTAAAAAA
Found at i:125249810 original size:20 final size:21
Alignment explanation
Indices: 125249754--125249803 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
125249744 TAGATAGAAT
125249754 TAATTAAAAAAATTTAAAAAAA
1 TAATT-AAAAAATTTAAAAAAA
125249776 TTAATTAAAAAATTTAAAAAAA
1 -TAATTAAAAAATTTAAAAAAA
125249798 -AATTAA
1 TAATTAA
125249804 TTAATTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.22
22 16 0.59
23 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
TAATTAAAAAATTTAAAAAAA
Found at i:125254768 original size:2 final size:2
Alignment explanation
Indices: 125254761--125254795 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
125254751 CAAGTACGGA
125254761 TC TC TC TC 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 TC TC TC TC T
125254796 ATGCATCTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:125268453 original size:31 final size:31
Alignment explanation
Indices: 125268388--125268488 Score: 152
Period size: 31 Copynumber: 3.3 Consensus size: 31
125268378 CTCAAATTAT
* * *
125268388 ATTTTAGTCACTTATATT-TGA-AATGTTAC
1 ATTTTAGTCACTTATATTATCATATTGTAAC
125268417 ATTTTAGTCACTTATATTATCATATTGTAAC
1 ATTTTAGTCACTTATATTATCATATTGTAAC
*
125268448 ATTTTAGTCACTTATATTATCATGTTGTAAC
1 ATTTTAGTCACTTATATTATCATATTGTAAC
125268479 ATTTTAGTCA
1 ATTTTAGTCA
125268489 TTGAACCTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
29 18 0.27
30 2 0.03
31 46 0.70
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.49
Consensus pattern (31 bp):
ATTTTAGTCACTTATATTATCATATTGTAAC
Found at i:125275596 original size:22 final size:23
Alignment explanation
Indices: 125275569--125275621 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
125275559 TTTAATAATA
125275569 AATATTTTATAGT-AA-AAATATG
1 AATATTTTA-AGTAAATAAATATG
*
125275591 AATATTTTAATTAAATAAATATG
1 AATATTTTAAGTAAATAAATATG
*
125275614 AGTATTTT
1 AATATTTT
125275622 TAAAGTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 11 0.41
23 14 0.52
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (23 bp):
AATATTTTAAGTAAATAAATATG
Found at i:125275969 original size:16 final size:18
Alignment explanation
Indices: 125275937--125275970 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
125275927 TTCAACGACA
125275937 AAAAAACATTAACTTTAT
1 AAAAAACATTAACTTTAT
125275955 AAAAAA-ATTAA-TTTAT
1 AAAAAACATTAACTTTAT
125275971 TTCCTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAAACATTAACTTTAT
Found at i:125278935 original size:32 final size:31
Alignment explanation
Indices: 125278869--125278937 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
125278859 AAACAATTAC
* **
125278869 AAAAATATTTTTAAAATAAAAATAAAAATGT
1 AAAAATATTTTTAAAATAAAAAGAAAAAAAT
*
125278900 AAAAATATTTGTTATAAA-AAAACGAAAAAAAT
1 AAAAATATTT-TTA-AAATAAAAAGAAAAAAAT
125278932 AAAAAT
1 AAAAAT
125278938 TTCCTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 10 0.31
32 19 0.59
33 3 0.09
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (31 bp):
AAAAATATTTTTAAAATAAAAAGAAAAAAAT
Found at i:125289472 original size:7 final size:7
Alignment explanation
Indices: 125289455--125289493 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
125289445 TGGTAATTTT
125289455 TTGAA-C
1 TTGAATC
125289461 TTGAATC
1 TTGAATC
125289468 TTGAATC
1 TTGAATC
125289475 TTGAATC
1 TTGAATC
125289482 TTGAATC
1 TTGAATC
125289489 TTGAA
1 TTGAA
125289494 CTTCGAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (7 bp):
TTGAATC
Found at i:125289501 original size:21 final size:21
Alignment explanation
Indices: 125289455--125289501 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
125289445 TGGTAATTTT
125289455 TTGAA-CTTGAATCTTGAATC
1 TTGAATCTTGAATCTTGAATC
125289475 TTGAATCTTGAATCTTGAA-C
1 TTGAATCTTGAATCTTGAATC
125289495 TTCGAAT
1 TT-GAAT
125289502 TTCGAACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
TTGAATCTTGAATCTTGAATC
Found at i:125295907 original size:3 final size:3
Alignment explanation
Indices: 125295899--125295935 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
125295889 AGAGATTGAT
125295899 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
125295936 GGGTCCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:125306370 original size:2 final size:2
Alignment explanation
Indices: 125306363--125306406 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
125306353 TACTTAAATA
125306363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125306405 AT
1 AT
125306407 GACATAAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125307426 original size:20 final size:20
Alignment explanation
Indices: 125307401--125307450 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
125307391 TTATTTTTTC
125307401 TAAAAAATATGCAAAAAATT
1 TAAAAAATATGCAAAAAATT
* ***
125307421 TAAAAATTATTTTAAAAATT
1 TAAAAAATATGCAAAAAATT
*
125307441 TAAAGAATAT
1 TAAAAAATAT
125307451 AATATAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAAAAATATGCAAAAAATT
Found at i:125311178 original size:20 final size:20
Alignment explanation
Indices: 125311132--125311172 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
125311122 GGACTTTCTA
* *
125311132 AACTTTTTTATAATTTTTTT
1 AACTTTTTTAAAATATTTTT
125311152 AACTTTTTTAAAATATTTTT
1 AACTTTTTTAAAATATTTTT
125311172 A
1 A
125311173 CATTTTGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
AACTTTTTTAAAATATTTTT
Found at i:125314356 original size:19 final size:19
Alignment explanation
Indices: 125314334--125314370 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
125314324 AAACAAGTCA
125314334 GAAAA-TTTTAGAAAAATAT
1 GAAAATTTTTA-AAAAATAT
125314353 GAAAATTTTTAAAAAATA
1 GAAAATTTTTAAAAAATA
125314371 GGGGACACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (19 bp):
GAAAATTTTTAAAAAATAT
Found at i:125314621 original size:24 final size:26
Alignment explanation
Indices: 125314581--125314639 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 26
125314571 TTGCTCACAC
*
125314581 GAGCTGTG-AATATTATTACTAACAT
1 GAGCTATGAAATATTATTACTAACAT
* *
125314606 GAGCT-TGAAATA-TATTGCTCACAT
1 GAGCTATGAAATATTATTACTAACAT
125314630 GAGCTATGAA
1 GAGCTATGAA
125314640 TCAGGACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (26 bp):
GAGCTATGAAATATTATTACTAACAT
Found at i:125343734 original size:16 final size:15
Alignment explanation
Indices: 125343713--125343744 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
125343703 ATATGACAAC
125343713 TTTTTAAAATTGTAAT
1 TTTTTAAAATT-TAAT
125343729 TTTTTAAAATTTAAT
1 TTTTTAAAATTTAAT
125343744 T
1 T
125343745 GCGTATCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTTAAAATTTAAT
Found at i:125348047 original size:47 final size:47
Alignment explanation
Indices: 125347984--125348561 Score: 877
Period size: 47 Copynumber: 12.3 Consensus size: 47
125347974 CCCTTCGGGA
* * * *
125347984 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
125348031 CTTATCACATTTATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
125348078 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
125348125 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
125348172 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
125348219 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
125348266 CTTATCACACATATATGCACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
125348315 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
125348362 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
125348409 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
125348456 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
125348503 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
125348550 CTTATCACATAT
1 CTTATCACATAT
125348562 GCACACCTTG
Statistics
Matches: 490, Mismatches: 39, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 446 0.91
49 44 0.09
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:125348418 original size:22 final size:22
Alignment explanation
Indices: 125348390--125348512 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
125348380 TTTCACATTC
125348390 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
125348412 ATCACATATATGCACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
* *
125348436 CATCACATCGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
125348459 ATCACATAT-ACACACTTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
125348483 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
125348506 ATCACAT
1 ATCACAT
125348513 ATATGCACTT
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 28 0.39
23 11 0.15
24 11 0.15
25 21 0.30
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:125352558 original size:40 final size:40
Alignment explanation
Indices: 125352503--125352774 Score: 465
Period size: 40 Copynumber: 6.8 Consensus size: 40
125352493 ATTTTGTCCA
*
125352503 AGCACGAATGC-CTTCGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
125352542 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
125352582 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
125352622 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
* * * *
125352662 AGCACGAATGCTCTTCGGAACCTAGTCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
*
125352702 AGCACGAATGCTCTTCGGGACTTAGCCCAGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
125352742 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATA
125352775 TAACATACTG
Statistics
Matches: 219, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 11 0.05
40 208 0.95
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
Found at i:125354699 original size:47 final size:47
Alignment explanation
Indices: 125354629--125355164 Score: 822
Period size: 47 Copynumber: 11.4 Consensus size: 47
125354619 TGCCCTTGGA
* * *
125354629 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
125354676 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
125354723 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
125354770 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
125354817 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
125354864 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
125354911 CTTATCACACATATATGCACTTTCACATT-ATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
125354959 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
125355006 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
125355053 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
125355100 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
125355147 CTTATCACATATACACAC
1 CTTATCACATATATACAC
125355165 CTTGTACATC
Statistics
Matches: 447, Mismatches: 39, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
46 20 0.04
47 385 0.86
48 22 0.05
49 20 0.04
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:125355015 original size:22 final size:22
Alignment explanation
Indices: 125354987--125355109 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
125354977 TTTCACATTC
125354987 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
125355009 ATCACATATATGCACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
* *
125355033 CATCACATCGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
125355056 ATCACATAT-ACACACTTTC-ACATT
1 ATCACAT-TGGC-CA--TTCGGCCTT
125355080 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
125355103 ATCACAT
1 ATCACAT
125355110 ATATGCACTT
Statistics
Matches: 71, Mismatches: 18, Indels: 24
0.63 0.16 0.21
Matches are distributed among these distances:
22 28 0.39
23 11 0.15
24 11 0.15
25 21 0.30
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:125355164 original size:283 final size:284
Alignment explanation
Indices: 125354634--125355164 Score: 893
Period size: 283 Copynumber: 1.9 Consensus size: 284
125354624 TTGGACTTAT
* * * *
125354634 CACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTCA
1 CACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCA
* * *
125354699 CATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCA
66 CATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
* * *
125354764 TTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
131 TTAGGCCTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
125354829 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCAT
196 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCAT
125354894 CACATTGGCCATTCGGCCTTATCA
261 CACATTGGCCATTCGGCCTTATCA
* * *
125354918 CACATATATGCACTTTCACAT-TATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCA
1 CACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCA
* * * *
125354982 CATTCATCACATTGGCCATTCGGCCTTATCACATATATGCACTTTCACATTCATCACATCGGCCA
66 CATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
125355047 TTAGGCCTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
131 TTAGGCCTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
*
125355112 ATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
196 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
125355165 CTTGTACATC
Statistics
Matches: 229, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
283 210 0.92
284 19 0.08
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (284 bp):
CACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCA
CATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCA
Found at i:125359528 original size:2 final size:2
Alignment explanation
Indices: 125359517--125359545 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
125359507 ATGTAAGCCC
125359517 AT AT -T 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
125359546 GGCATTGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:125371250 original size:13 final size:12
Alignment explanation
Indices: 125371228--125371283 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
125371218 AAAATTTTCA
*
125371228 AAAAGTACTTCTT
1 AAAAGCACTT-TT
125371241 AAAAGCACTTGTT
1 AAAAGCACTT-TT
*
125371254 TAAAGCACATTTT
1 AAAAGCAC-TTTT
125371267 AAAAGCA-TTTT
1 AAAAGCACTTTT
125371278 CAAAAG
1 -AAAAG
125371284 TATTGTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 4 0.11
12 5 0.14
13 26 0.70
14 2 0.05
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (12 bp):
AAAAGCACTTTT
Found at i:125378098 original size:22 final size:22
Alignment explanation
Indices: 125378070--125378114 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
125378060 AAGTTTTAAC
125378070 TGAATTGGTATAGATATTATTA
1 TGAATTGGTATAGATATTATTA
125378092 TGAATTGGTATAGATATTATTA
1 TGAATTGGTATAGATATTATTA
125378114 T
1 T
125378115 CAATATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.47
Consensus pattern (22 bp):
TGAATTGGTATAGATATTATTA
Found at i:125386363 original size:71 final size:68
Alignment explanation
Indices: 125386236--125386369 Score: 160
Period size: 71 Copynumber: 1.9 Consensus size: 68
125386226 ATAAACAATA
* ** ** *
125386236 TAATGGTTTTGCCTTTTAACTTAATTAGTAAACATTTATCAAAACAACATGGTTTTACCTTTTTA
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATCCATCAAAACAACATAGTTTTACCTTTTTA
125386301 ACT
66 ACT
** *
125386304 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATCCATCAAAATGACGTAGTTTTACCTTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAACATCCATCAAAACAACATAGTTTTACCTTT
125386369 T
63 T
125386370 CTTATTCTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
68 19 0.35
69 3 0.06
70 2 0.04
71 30 0.56
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (68 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATCCATCAAAACAACATAGTTTTACCTTTTTA
ACT
Found at i:125388001 original size:3 final size:3
Alignment explanation
Indices: 125387993--125388432 Score: 169
Period size: 3 Copynumber: 142.0 Consensus size: 3
125387983 ATTTAATCTG
* * *
125387993 TTA TTA TTA CTTA TTA TT- TTA CTA TTA TTA TCTA ATA -TA TTA TCA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * * *
125388038 TTA TCA CTA TTA TTA CT- TTA CTA TTG TAA CTTAA TGTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TT-A T-TA TTA TTA TTA
*
125388085 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
125388133 CTA CTA TCT- TCTA GTAA CTTA TTA CTA TTC TTG TTA GCGTA TCA TTA
1 TTA TTA T-TA T-TA -TTA -TTA TTA TTA TTA TTA TTA --TTA TTA TTA
* * * ** ** **
125388180 TT- TCT- TTT TTT TTT TTA -TA TTA TCG TCG TTA TTA ACA TATA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * * *
125388224 TTA TCA TTAA TGTA TTA TTG TTA TCA TTA TTA CTA TTA CTA TTA CTA
1 TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
125388271 TTA TTA TTT TTAA TGTA TATA TTA GTA TT- TACA TTA TCG TTA TTA TTA
1 TTA TTA TTA TT-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * * * * * * *
125388319 CTA TTG TTA ATA CTC TTA TTA TTA CTA TTA TTT TTA TTCC TT- CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
*
125388364 TTA TTTA TTA TCGA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA -TTA TTA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
125388412 TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
125388433 ACATTTTTAA
Statistics
Matches: 326, Mismatches: 84, Indels: 54
0.70 0.18 0.12
Matches are distributed among these distances:
2 11 0.03
3 273 0.84
4 35 0.11
5 7 0.02
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:125388583 original size:17 final size:17
Alignment explanation
Indices: 125388558--125388596 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
125388548 TTGATTTTCT
*
125388558 TATTACTTATTTATTTA
1 TATTTCTTATTTATTTA
125388575 TATTTCTTATTTATTTA
1 TATTTCTTATTTATTTA
125388592 TATTT
1 TATTT
125388597 TCGATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTCTTATTTATTTA
Found at i:125388663 original size:17 final size:19
Alignment explanation
Indices: 125388632--125388686 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
125388622 ATATCTATAT
*
125388632 TATTATTTCACTATTGTTA
1 TATTATTTCACTATTATTA
125388651 TATT-TTTCA-TATTATTA
1 TATTATTTCACTATTATTA
*
125388668 TCATCA--TCACTATTATTA
1 T-ATTATTTCACTATTATTA
125388686 T
1 T
125388687 CTTTTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 11 0.35
18 16 0.52
19 4 0.13
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTATTTCACTATTATTA
Found at i:125391622 original size:46 final size:46
Alignment explanation
Indices: 125391552--125391766 Score: 279
Period size: 46 Copynumber: 4.7 Consensus size: 46
125391542 GCAACCTGTA
* *
125391552 TGTAAGACCATGGTTGAAAGATACCATCGCAACCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATG
* * * *
125391598 TGTAAGACCATGTTTGAAATATACCATGGCAACCTGATATGAGATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATG
* *
125391644 TGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATG
** *
125391690 AATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATG
* * * *
125391736 AGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTAAGACCATGGTTGAAAGATACCATGGCA
125391767 TCACGTCAAA
Statistics
Matches: 150, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 149 0.99
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.22
Consensus pattern (46 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATG
Found at i:125392071 original size:23 final size:25
Alignment explanation
Indices: 125392026--125392072 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
125392016 AATAAATATA
*
125392026 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
125392051 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
125392073 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:125397104 original size:131 final size:130
Alignment explanation
Indices: 125396603--125397114 Score: 451
Period size: 131 Copynumber: 3.9 Consensus size: 130
125396593 ATGCGTGTGG
* ** * *
125396603 AATTCTGAA-GAGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACAATAGGGTA
1 AATTCTGAAGGA-ATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCA
* * * * * * *
125396667 CTATTCCCCGAATTGCCAAGCATCGAATATTGCCTTCATTTTAAAGGGTTTTTTAGAAAACGTGA
65 CGATT-CCCGAATTACCAAACACCGAGTATTGCCTTCA-TTTAAA-GGATTTTTAGAAAACATGA
125396732 GTGA
127 GTGA
* * * * * *
125396736 AATT-TCGAAGGAATCTTCGATTGTTTTGAAAAAACAAGAAATCACAACCCAACACGTTAGGGCA
1 AATTCT-GAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCA
* * * ** * *
125396800 TGATTCCCGAATTATCAAACACCGAGTATTGTCTTTGTTTTGGAAGG-TTTTT-GATAAACACGA
65 CGATTCCCGAATTACCAAACACCGAGTATTG-CCTTCATTT-AAAGGATTTTTAGA-AAACATGA
125396863 GTGA
127 GTGA
** * * * *
125396867 AAACCTAAAGGAATATTCGGTTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAT
1 AATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAC
* * * *
125396932 GATTCTCGAATTATCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAGTG
66 GATTCCCGAATTACCAAACACCGAGTATTGCCTTC-ATTTAAAGGATTTTTAGAAAACATGAGTG
125396997 A
130 A
* * * * ** * *
125396998 AATTTTGAAGGGATATTTGATTATTTT-AAGCAAACGGGAAATTGCAACCCAGCACGTTAGGGTA
1 AATTCTGAAGGAATATTCGATTATTTTGAA-CAAACGAGAAATCACAACCCAGCACGATAGGGCA
* * * *
125397062 CGATTCCGCGAATTACCAAATATCGCA-TATCGCCTTCATTTAAGGGATTTTTA
65 CGATTCC-CGAATTACCAAACACCG-AGTATTGCCTTCATTTAAAGGATTTTTA
125397115 ATAATTGTGA
Statistics
Matches: 307, Mismatches: 60, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
130 11 0.04
131 184 0.60
132 53 0.17
133 57 0.19
134 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (130 bp):
AATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAC
GATTCCCGAATTACCAAACACCGAGTATTGCCTTCATTTAAAGGATTTTTAGAAAACATGAGTGA
Found at i:125399993 original size:133 final size:133
Alignment explanation
Indices: 125399755--125400243 Score: 685
Period size: 133 Copynumber: 3.7 Consensus size: 133
125399745 GATTCTCTGC
* ** * * *
125399755 AAATCTGATTCACCGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCCCCACTGCAATC
1 AAATCTGCTTCATTGCAATATCAGGAAGCCTAGATCCGCCGTCTTCGATCTGCTCCACTGCAATC
* * * * *
125399820 TCAAGAAAATAAGATCTACAATATTCAGCCTACTCCACTACAACCTT-AGGAAGCTAGGATGGTG
66 TCAAGGAAACAAGATCTACAATCTTCAACCTACTCCACTACAACTTTAAGG-AGCTAGGATGGTG
125399884 GCTT
130 GCTT
** * * *
125399888 AAATCTGCTTCGCTGCAACT-TTAGGAAACCTAGATCCGCCGTCTTTGATCTGCTCCACTGCAAT
1 AAATCTGCTTCATTGCAA-TATCAGGAAGCCTAGATCCGCCGTCTTCGATCTGCTCCACTGCAAT
* * *
125399952 ATCAGGGAAACAAGATCTACAATCTTTAACCTACTCCACTACAACTTTAAGGAGCTAGGATGGTG
65 CTCAAGGAAACAAGATCTACAATCTTCAACCTACTCCACTACAACTTTAAGGAGCTAGGATGGTG
125400017 GCTT
130 GCTT
*
125400021 AAATCTGCTTCATTGCAATATCAGGAAGCCTAGATCCGTCGTCTTCGATCTGCTCCACTGCAATC
1 AAATCTGCTTCATTGCAATATCAGGAAGCCTAGATCCGCCGTCTTCGATCTGCTCCACTGCAATC
* *
125400086 TCAAGGAAACAAGATCTACGATCTTCAACCTACTCCACTACAACTTTAAGGAGTTAGGATGGTGG
66 TCAAGGAAACAAGATCTACAATCTTCAACCTACTCCACTACAACTTTAAGGAGCTAGGATGGTGG
125400151 CTT
131 CTT
** * * *
125400154 AAATCCACTTCATTGCAATATCAGGAAGCCTAGATCCGCCGTCTTTGATCTGCTCCACTACAATT
1 AAATCTGCTTCATTGCAATATCAGGAAGCCTAGATCCGCCGTCTTCGATCTGCTCCACTGCAATC
* *
125400219 TCAGGGGAACAAGATCTACAATCTT
66 TCAAGGAAACAAGATCTACAATCTT
125400244 AAACTTGTTG
Statistics
Matches: 316, Mismatches: 37, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
132 1 0.00
133 312 0.99
134 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (133 bp):
AAATCTGCTTCATTGCAATATCAGGAAGCCTAGATCCGCCGTCTTCGATCTGCTCCACTGCAATC
TCAAGGAAACAAGATCTACAATCTTCAACCTACTCCACTACAACTTTAAGGAGCTAGGATGGTGG
CTT
Found at i:125400463 original size:65 final size:64
Alignment explanation
Indices: 125400348--125400475 Score: 202
Period size: 65 Copynumber: 2.0 Consensus size: 64
125400338 TCATGTATCT
*
125400348 ATGCTTATGCCAAATAATTAGGATGTTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTA
1 ATGCTTATGCCAAATAATTAGGATGTTATGATCGAAATAAATCAAATGCTCCTAACTAAATGTA
* * * *
125400412 ATGCTTTATGTCAAATAATTAGGATGTTATGATCGAAATAAATTAATTGCTCCTAACTAGATGT
1 ATGC-TTATGCCAAATAATTAGGATGTTATGATCGAAATAAATCAAATGCTCCTAACTAAATGT
125400476 GTCATTATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
64 4 0.07
65 54 0.93
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGTTATGATCGAAATAAATCAAATGCTCCTAACTAAATGTA
Found at i:125414612 original size:131 final size:131
Alignment explanation
Indices: 125414110--125414621 Score: 482
Period size: 131 Copynumber: 3.9 Consensus size: 131
125414100 ATACGTGTGG
* ** *
125414110 AATTCTGAA-GAGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGTA
1 AATTCTGAAGGA-ATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCA
* * * * * * *
125414174 CTATTCCCCGAATTGCCAAGCATCGAAG-ATTGCCTTCATTTTAAAGGGTTTTTTAGAAAACGTG
65 CGATT-CCCGAATTACCAAACACCG-AGTATTGCCTTCGTTTTAAA-GGATTTTTAGAAAACATG
125414238 AGTGA
127 AGTGA
* * * * * *
125414243 AATT-TCGAAGGAATCTTCGATTGTTTTGAAAAAACAAGAAATCACAACCCAACACGTTAGGGCA
1 AATTCT-GAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCA
* * * * * *
125414307 TGATTCCCGAATTATCAAACACCGAGTATTGTCTTTGTTTTGGAAGG-TTTTT-GATAAACACGA
65 CGATTCCCGAATTACCAAACACCGAGTATTGCCTTCGTTTT-AAAGGATTTTTAGA-AAACATGA
125414370 GTGA
128 GTGA
** * * *
125414374 AAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAT
1 AATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAC
* * * *
125414439 GATTCTCGAATTATCAAACACCGAGTATTGCCTTTGTTTTAAAGGATTTTTAGAAGACATGAGTG
66 GATTCCCGAATTACCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAAACATGAGTG
125414504 A
131 A
* * * * ** * *
125414505 AATTTTGAAGGGATATTTGATTATTTT-AAGCAAACGGGAAATTGCAACCCAGCACGTTAGGGTA
1 AATTCTGAAGGAATATTCGATTATTTTGAA-CAAACGAGAAATCACAACCCAGCACGATAGGGCA
* * * *
125414569 CGATTCCGCGAATTACCAAATATCGCA-TATCGCCTTCG-GTTAAAGGATTTTTA
65 CGATTCC-CGAATTACCAAACACCG-AGTATTGCCTTCGTTTTAAAGGATTTTTA
125414622 ATAATTGCAA
Statistics
Matches: 313, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
130 8 0.03
131 193 0.62
132 55 0.18
133 55 0.18
134 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (131 bp):
AATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAC
GATTCCCGAATTACCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAAACATGAGTG
A
Found at i:125416637 original size:20 final size:20
Alignment explanation
Indices: 125416612--125416661 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
125416602 AGATATTGTA
125416612 TGCGTAGAGTATATTCTGTG
1 TGCGTAGAGTATATTCTGTG
125416632 TGCGTAGAGTATATTCTGTG
1 TGCGTAGAGTATATTCTGTG
125416652 TGCGTAGAGT
1 TGCGTAGAGT
125416662 GTGTAATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.10, G:0.32, T:0.38
Consensus pattern (20 bp):
TGCGTAGAGTATATTCTGTG
Found at i:125418054 original size:11 final size:11
Alignment explanation
Indices: 125418013--125418059 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
125418003 TTAGTTTAGG
125418013 TTTA-GTTTTC
1 TTTAGGTTTTC
* *
125418023 TCTAAGTTTTC
1 TTTAGGTTTTC
*
125418034 TATAGGTTTTC
1 TTTAGGTTTTC
*
125418045 TTTAGTTTTTC
1 TTTAGGTTTTC
125418056 TTTA
1 TTTA
125418060 CACTTTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
10 3 0.10
11 28 0.90
ACGTcount: A:0.15, C:0.11, G:0.11, T:0.64
Consensus pattern (11 bp):
TTTAGGTTTTC
Found at i:125429166 original size:21 final size:20
Alignment explanation
Indices: 125429113--125429166 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
125429103 TTTTTAAAAA
125429113 AAAATGAAATTAATTTATAAG
1 AAAAT-AAATTAATTTATAAG
* * *
125429134 AGAAACACATTAATTTATTAG
1 A-AAATAAATTAATTTATAAG
125429155 TAAAATAAATTA
1 -AAAATAAATTA
125429167 GTATTAAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAATAAATTAATTTATAAG
Found at i:125434593 original size:21 final size:20
Alignment explanation
Indices: 125434560--125434598 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
125434550 GATTATTTTG
*
125434560 ATGTTTAATGATAGATTATGA
1 ATGTTTAACGATAG-TTATGA
*
125434581 ATGTTTGACGATAGTTAT
1 ATGTTTAACGATAGTTAT
125434599 ACAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.44
Consensus pattern (20 bp):
ATGTTTAACGATAGTTATGA
Found at i:125440638 original size:43 final size:43
Alignment explanation
Indices: 125440591--125440683 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 43
125440581 ATGGCCTGTG
* * *
125440591 ACACGGGCGTATCTATTGGCCATGTGAGACACACGGTCGGGCC
1 ACACGGGCGTATCTATTGGCCATATGAGACACACGGCCAGGCC
* * *
125440634 ACACGGGCGTGTCTGTTGGCCGTATGAGACACACGGCCAGGCC
1 ACACGGGCGTATCTATTGGCCATATGAGACACACGGCCAGGCC
125440677 ACACGGG
1 ACACGGG
125440684 TGTGTGTCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.16
Consensus pattern (43 bp):
ACACGGGCGTATCTATTGGCCATATGAGACACACGGCCAGGCC
Found at i:125444726 original size:26 final size:26
Alignment explanation
Indices: 125444696--125444747 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
125444686 GTATTTTTCG
*
125444696 AAATACCCGTTAAAAATATATATTCA
1 AAATACCCATTAAAAATATATATTCA
125444722 AAATACCCATTAAAAATATATATTCA
1 AAATACCCATTAAAAATATATATTCA
125444748 GAGAGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (26 bp):
AAATACCCATTAAAAATATATATTCA
Found at i:125444911 original size:17 final size:17
Alignment explanation
Indices: 125444889--125444921 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
125444879 TAAGAATTAA
125444889 AAAAAAACAAG-TGAAAC
1 AAAAAAA-AAGTTGAAAC
125444906 AAAAAAAAAGTTGAAA
1 AAAAAAAAAGTTGAAA
125444922 AGAAACAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAAAAAAAGTTGAAAC
Found at i:125445253 original size:84 final size:84
Alignment explanation
Indices: 125445159--125445330 Score: 245
Period size: 84 Copynumber: 2.0 Consensus size: 84
125445149 AGAGAATAAC
* * * *
125445159 AATAGAGATATGAAAGAGAATTGAATATTTTGTTGAAAATAGAGAATCAAATATAGGAAAGAAAA
1 AATAGAGATATGAAAGAGAATTGAATATTTTATGGAAAATAAAGAATCAAATATAGAAAAGAAAA
** *
125445224 TCGAATAACAAATATGGAA
66 GAGAATAACAAATATGAAA
* * *
125445243 AATAGAGATATGAAAGGGAATTTAATATTTTATGGAAAATAAAGAATCAAATATAGAAAAGGAAA
1 AATAGAGATATGAAAGAGAATTGAATATTTTATGGAAAATAAAGAATCAAATATAGAAAAGAAAA
*
125445308 GAGAATAACATATATGAAA
66 GAGAATAACAAATATGAAA
125445327 AATA
1 AATA
125445331 CAGAATTAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (84 bp):
AATAGAGATATGAAAGAGAATTGAATATTTTATGGAAAATAAAGAATCAAATATAGAAAAGAAAA
GAGAATAACAAATATGAAA
Found at i:125445320 original size:24 final size:23
Alignment explanation
Indices: 125445283--125445368 Score: 61
Period size: 24 Copynumber: 3.6 Consensus size: 23
125445273 TATGGAAAAT
125445283 AAAGAATCAAATATAGAAAAGGAA
1 AAAGAAT-AAATATAGAAAAGGAA
* *
125445307 AGAGAATAACATATATGAAAA--AT
1 AAAGAATAA-ATATA-GAAAAGGAA
*
125445330 ACAGAATTAAATAT-GAGAAAGGAA
1 AAAGAA-TAAATATAGA-AAAGGAA
*
125445354 AAAAAATAACATATA
1 AAAGAATAA-ATATA
125445369 TGGAAAATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
21 2 0.04
22 3 0.06
23 15 0.31
24 23 0.48
25 5 0.10
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.17
Consensus pattern (23 bp):
AAAGAATAAATATAGAAAAGGAA
Found at i:125445329 original size:47 final size:47
Alignment explanation
Indices: 125445273--125445377 Score: 149
Period size: 47 Copynumber: 2.2 Consensus size: 47
125445263 TTTAATATTT
* *
125445273 TATGGAAAATAAAGAATCAAATAT-AGAAAAGGAAAGAGAATAACATA
1 TATGGAAAATAAAGAATCAAATATGAG-AAAGGAAAAAAAATAACATA
* * *
125445320 TATGAAAAATACAGAATTAAATATGAGAAAGGAAAAAAAATAACATA
1 TATGGAAAATAAAGAATCAAATATGAGAAAGGAAAAAAAATAACATA
125445367 TATGGAAAATA
1 TATGGAAAATA
125445378 GATAATAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
47 49 0.96
48 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (47 bp):
TATGGAAAATAAAGAATCAAATATGAGAAAGGAAAAAAAATAACATA
Found at i:125445389 original size:47 final size:47
Alignment explanation
Indices: 125445273--125445390 Score: 148
Period size: 47 Copynumber: 2.5 Consensus size: 47
125445263 TTTAATATTT
* * *
125445273 TATGGAAAATAAAGAATCAAATATAGAAAAGGAAAGAGAATAACATA
1 TATGGAAAATAAAGAATAAAATATAGAAAAGGAAAAAAAATAACATA
* * *
125445320 TATGAAAAATACAGAATTAAATAT-GAGAAAGGAAAAAAAATAACATA
1 TATGGAAAATAAAGAATAAAATATAGA-AAAGGAAAAAAAATAACATA
* *
125445367 TATGGAAAATAGATAATAAAATAT
1 TATGGAAAATAAAGAATAAAATAT
125445391 TAAATTCCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 2 0.03
47 59 0.97
ACGTcount: A:0.62, C:0.03, G:0.14, T:0.20
Consensus pattern (47 bp):
TATGGAAAATAAAGAATAAAATATAGAAAAGGAAAAAAAATAACATA
Found at i:125445999 original size:46 final size:46
Alignment explanation
Indices: 125445947--125446040 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
125445937 TTTTTTTAAA
125445947 TTTCTCCGGTGCCACCTGAAAGATTGGCAGTACACATTAATTTTTT
1 TTTCTCCGGTGCCACCTGAAAGATTGGCAGTACACATTAATTTTTT
125445993 TTTCTCCGGTGCCACCTGAAAGATTGGCAGTACACATTAATTTTTT
1 TTTCTCCGGTGCCACCTGAAAGATTGGCAGTACACATTAATTTTTT
125446039 TT
1 TT
125446041 CTTTTTTTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (46 bp):
TTTCTCCGGTGCCACCTGAAAGATTGGCAGTACACATTAATTTTTT
Found at i:125448014 original size:14 final size:15
Alignment explanation
Indices: 125447977--125448020 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
125447967 TCATTCTATT
125447977 TATAT-TTTATTTTA
1 TATATATTTATTTTA
*
125447991 TATATGTTTATTTT-
1 TATATATTTATTTTA
*
125448005 TATTTATTTATTTTA
1 TATATATTTATTTTA
125448020 T
1 T
125448021 TCTCTAACGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TATATATTTATTTTA
Done.