Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 324 of 344
Found at i:105981225 original size:16 final size:16
Alignment explanation
Indices: 105981201--105981235 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
105981191 TTACTATAAA
*
105981201 AGGCGCTTTACCTTTT
1 AGGCACTTTACCTTTT
105981217 AGGCACTTTACCTTTT
1 AGGCACTTTACCTTTT
105981233 AGG
1 AGG
105981236 TTTAGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (16 bp):
AGGCACTTTACCTTTT
Found at i:105981761 original size:21 final size:20
Alignment explanation
Indices: 105981731--105981773 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
105981721 TAAATAAATT
*
105981731 TCAAATATA-AAAATATTAA
1 TCAATTATATAAAATATTAA
*
105981750 TCAATTATATAAAATATTTA
1 TCAATTATATAAAATATTAA
105981770 TCAA
1 TCAA
105981774 CAAACTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
TCAATTATATAAAATATTAA
Found at i:105983585 original size:23 final size:25
Alignment explanation
Indices: 105983559--105983605 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
105983549 TATCATTCAT
*
105983559 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
105983582 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
105983606 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:105983926 original size:46 final size:46
Alignment explanation
Indices: 105983866--105984173 Score: 382
Period size: 46 Copynumber: 6.9 Consensus size: 46
105983856 TTTGACGTGA
* * * * * *
105983866 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
105983912 TGCCATGATATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
105983958 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
105984004 TGCCATGGTATCTTCCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
105984050 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
105984096 TGCCATGGTATCTTTCAACTATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
***
105984134 TGCCATGGTATCTTTCAATGTTGGTCTTACACATTTCATA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
105984174 AGTCCAGGCT
Statistics
Matches: 233, Mismatches: 21, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
38 30 0.13
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 189 0.81
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:105984142 original size:38 final size:38
Alignment explanation
Indices: 105984091--105984166 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
105984081 CATTTCATAT
105984091 CAGGTTGCCATGGTATCTTTCAACT-ATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAA-TGATGGTCTTACACA
*
105984129 CAGGTTGCCATGGTATCTTTCAATGTTGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAATGATGGTCTTACACA
105984167 TTTCATAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAATGATGGTCTTACACA
Found at i:106007150 original size:21 final size:22
Alignment explanation
Indices: 106007118--106007165 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
106007108 CCTTATTCTA
*
106007118 TTTTAAATTTTTTTATCTATTT
1 TTTTAAATTTTTCTATCTATTT
* *
106007140 TTTTAAA-TTTTCTATGTTTTT
1 TTTTAAATTTTTCTATCTATTT
106007161 TTTTA
1 TTTTA
106007166 TGATTTAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTAAATTTTTCTATCTATTT
Found at i:106020958 original size:13 final size:13
Alignment explanation
Indices: 106020940--106020964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106020930 TGCCCGATGC
106020940 AACAGATATGAGT
1 AACAGATATGAGT
106020953 AACAGATATGAG
1 AACAGATATGAG
106020965 CCAAAATAAT
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:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (13 bp):
AACAGATATGAGT
Found at i:106021309 original size:20 final size:19
Alignment explanation
Indices: 106021284--106021340 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
106021274 AAAATTACAA
*
106021284 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAAT-ATTTAT
106021304 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
106021323 -AAAATTTAAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
106021340 A
1 A
106021341 TATATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.18
18 10 0.29
19 5 0.15
20 13 0.38
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:106021334 original size:19 final size:20
Alignment explanation
Indices: 106021284--106021335 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
106021274 AAAATTACAA
* *
106021284 AAAAATTCAAAATAATTTTT
1 AAAAATTAAAAATAATTTAT
*
106021304 AAAAATTCAAAAT-ATTTAT
1 AAAAATTAAAAATAATTTAT
*
106021323 AAAATTTAAAAAT
1 AAAAATTAAAAAT
106021336 TTATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTAAAAATAATTTAT
Found at i:106021342 original size:19 final size:18
Alignment explanation
Indices: 106021305--106021374 Score: 50
Period size: 19 Copynumber: 3.7 Consensus size: 18
106021295 ATAATTTTTA
* * *
106021305 AAAATTCAAAATATTTAT
1 AAAATTTAAAAAATATAT
*
106021323 AAAATTTAAAAATTTATAT
1 AAAATTTAAAAA-ATATAT
** *
106021342 ATATTTTTAAAAAATATAA
1 A-AAATTTAAAAAATATAT
106021361 AAAATTTTAAAAAA
1 AAAA-TTTAAAAAA
106021375 ATTCTAAAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
18 11 0.28
19 19 0.49
20 9 0.23
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTTAAAAAATATAT
Found at i:106022737 original size:11 final size:11
Alignment explanation
Indices: 106022721--106022756 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
106022711 TATTATTTAT
*
106022721 TATTTTGCTAC
1 TATTTTACTAC
106022732 TATTTTACTAC
1 TATTTTACTAC
*
106022743 TATGTTACTAC
1 TATTTTACTAC
106022754 TAT
1 TAT
106022757 ATTGTTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.53
Consensus pattern (11 bp):
TATTTTACTAC
Found at i:106024070 original size:47 final size:47
Alignment explanation
Indices: 106023961--106024072 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
106023951 CCGGGATAAG
*
106023961 CACATAGTGCTTCATCGAAACAAATCCAGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGAAACAAATCCAGAACTTTAACAGTATAGTA
* * * * *
106024008 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGAAACAAATCCAGAACTTTAACAGTA-TAGTA
106024055 CACATAGTG-TCTCATCGA
1 CACATAGTGCT-TCATCGA
106024073 CTCAATGTCG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGAAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:106024842 original size:4 final size:4
Alignment explanation
Indices: 106024833--106024861 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
106024823 TCCTTTTCTA
106024833 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
106024862 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:106027906 original size:20 final size:20
Alignment explanation
Indices: 106027881--106027919 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
106027871 AGCAGAATAC
106027881 AAAAGAAAACCAAAAAACAG
1 AAAAGAAAACCAAAAAACAG
* *
106027901 AAAAGAAAAGCAGAAAACA
1 AAAAGAAAACCAAAAAACA
106027920 AGCAGCTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.13, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAGAAAACCAAAAAACAG
Found at i:106030788 original size:3 final size:3
Alignment explanation
Indices: 106030780--106030927 Score: 71
Period size: 3 Copynumber: 49.3 Consensus size: 3
106030770 TTAATTGATC
* *
106030780 ATT ATT ATT ATT AAT ATT AGTGT ATA ATT -TT ATT ATAT ATGT ATGT
1 ATT ATT ATT ATT ATT ATT A-T-T ATT ATT ATT ATT AT-T AT-T AT-T
* * *
106030826 AGT ATT ATT -TT TTT ATT ATT -TT ATT -TT AGT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
106030870 A-T ATTT ACTT ATT -TGT GTT -TC ATT ATT ATT -TCT AGT ATT ATT ATT
1 ATT A-TT A-TT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
*
106030915 ATT ATT AAT ATT A
1 ATT ATT ATT ATT A
106030928 GTGTATGTTT
Statistics
Matches: 113, Mismatches: 17, Indels: 30
0.71 0.11 0.19
Matches are distributed among these distances:
2 15 0.13
3 79 0.70
4 17 0.15
5 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:106031004 original size:143 final size:143
Alignment explanation
Indices: 106030813--106031158 Score: 437
Period size: 143 Copynumber: 2.4 Consensus size: 143
106030803 ATAATTTTAT
* * * *
106030813 TATATATGTATGTAGTATTATTTTTTTATTATTTTATTTTAGTATTATTATTATATTATATTTAC
1 TATATATTTATATAGTATTA-TTTTTAATTATTTTATTTTAATATTATTATTATATTATATTTAC
* * * * **
106030878 TTATTTGTGTTTCATTATTATTTCTAGTATTATTATTATTATTAATATTAGTGTATG-TTTTA-T
65 TTATTTGTATTTCAATATTATTACTAGTATTATTATCATTATTAATA-TAGTAAATGTTTTTATT
* *
106030941 -TATATGTATATATG
129 ATATATGCATATATA
* *
106030955 TATATATTTACATATAGTATTATTTCTAATTATTTTATTTTAATATTATTATTATGTTATATTTA
1 TATATATTT--ATATAGTATTATTTTTAATTATTTTATTTTAATATTATTATTATATTATATTTA
* * * *
106031020 CTTTTTTGTATTTTAATATTATTACTATTATTATTATCATTGTTAATATAGTAAATGTTTTTATT
64 CTTATTTGTATTTCAATATTATTACTAGTATTATTATCATTATTAATATAGTAAATGTTTTTATT
106031085 ATATATGCATATATA
129 ATATATGCATATATA
* * **
106031100 TATGTATTTATATAGTAGTATTTTTAATTACCTTATTTTAATATTATTATTATATTATA
1 TATATATTTATATAGTATTATTTTTAATTATTTTATTTTAATATTATTATTATATTATA
106031159 CACTTTCCTT
Statistics
Matches: 175, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
142 15 0.09
143 129 0.74
144 11 0.06
145 20 0.11
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (143 bp):
TATATATTTATATAGTATTATTTTTAATTATTTTATTTTAATATTATTATTATATTATATTTACT
TATTTGTATTTCAATATTATTACTAGTATTATTATCATTATTAATATAGTAAATGTTTTTATTAT
ATATGCATATATA
Found at i:106031006 original size:14 final size:16
Alignment explanation
Indices: 106030972--106031007 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
106030962 TTACATATAG
106030972 TATTATTTCTAATTAT
1 TATTATTTCTAATTAT
106030988 T-TTATTT-TAA-TAT
1 TATTATTTCTAATTAT
106031001 TATTATT
1 TATTATT
106031008 ATGTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.21
14 8 0.42
15 6 0.32
16 1 0.05
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTATTTCTAATTAT
Found at i:106031226 original size:3 final size:3
Alignment explanation
Indices: 106031212--106031282 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
106031202 TTAATTTAAC
* * * *
106031212 TTA TTAA TTA TTA TTA TCA TTA TCA CTA TTG TTA -TA TTTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
106031258 TTA CTT- TTA TTA TAA TTA TTA TTA T
1 TTA -TTA TTA TTA TTA TTA TTA TTA T
106031283 AGCTTTTCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
2 4 0.08
3 42 0.79
4 7 0.13
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:106031289 original size:24 final size:24
Alignment explanation
Indices: 106031184--106031282 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 24
106031174 GTTTATTTAT
106031184 TTATTAC-TTTATTACTAATTA--A
1 TTATTACTTTTATTA-TAATTATTA
* * *
106031206 TT-TAACTTATTAATTATTATTATCA
1 TTATTACTT-TT-ATTATAATTATTA
* * * *
106031231 TTATCACTATTGTTATATTTATTA
1 TTATTACTTTTATTATAATTATTA
106031255 TTATTACTTTTATTATAATTATTA
1 TTATTACTTTTATTATAATTATTA
106031279 TTAT
1 TTAT
106031283 AGCTTTTCTT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.05
22 3 0.05
23 7 0.12
24 37 0.63
25 5 0.08
26 4 0.07
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (24 bp):
TTATTACTTTTATTATAATTATTA
Found at i:106032209 original size:8 final size:8
Alignment explanation
Indices: 106032196--106032221 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
106032186 CTGAAATTCT
106032196 ATTTTCAA
1 ATTTTCAA
106032204 ATTTTCAA
1 ATTTTCAA
106032212 ATTTTCAA
1 ATTTTCAA
106032220 AT
1 AT
106032222 AATTACCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTCAA
Found at i:106033513 original size:109 final size:109
Alignment explanation
Indices: 106033322--106033654 Score: 657
Period size: 109 Copynumber: 3.1 Consensus size: 109
106033312 CTCTGATAAG
*
106033322 GAGAGTTCATCAGCTTTTGCTTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
1 GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
106033387 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
66 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
106033431 GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
1 GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
106033496 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
66 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
106033540 GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
1 GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
106033605 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
66 ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
106033649 GAGAGT
1 GAGAGT
106033655 CTACAATTGT
Statistics
Matches: 223, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 223 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (109 bp):
GAGAGTTCATCAGCTTTTGCCTAAGGATAGACAATGAATCTTACAACACTTCCCTAGAGAGACTA
ATAATTATGCTGATTACCTAACTAAAGTGGCCTTTGAAAGGGAA
Found at i:106035832 original size:7 final size:8
Alignment explanation
Indices: 106035815--106035848 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
106035805 AAACATTCGG
*
106035815 AAAAAGTA
1 AAAAAGAA
106035823 AAAAAG-A
1 AAAAAGAA
106035830 AAAAAGAA
1 AAAAAGAA
106035838 AAAAAGAA
1 AAAAAGAA
106035846 AAA
1 AAA
106035849 GAGAGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:106035833 original size:15 final size:15
Alignment explanation
Indices: 106035815--106035848 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
106035805 AAACATTCGG
*
106035815 AAAAAGTAAAAAAGA
1 AAAAAGAAAAAAAGA
106035830 AAAAAGAAAAAAAGA
1 AAAAAGAAAAAAAGA
106035845 AAAA
1 AAAA
106035849 GAGAGCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAAAAAGA
Found at i:106036736 original size:21 final size:19
Alignment explanation
Indices: 106036711--106036793 Score: 50
Period size: 21 Copynumber: 4.4 Consensus size: 19
106036701 AGAAAATTTT
106036711 ATTATTTGATATATTAGGTTG
1 ATTATTT-ATATATT-GGTTG
* *
106036732 ATTATTTAAATATT--TTCA
1 ATTATTTATATATTGGTT-G
*
106036750 ACTA-TT-TAT-TTGGTTG
1 ATTATTTATATATTGGTTG
*
106036766 ATTATTTAATTTATTAGGTTG
1 ATTATTT-ATATATT-GGTTG
106036787 ATTATTT
1 ATTATTT
106036794 GATTATTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
15 2 0.04
16 5 0.11
17 8 0.17
18 3 0.06
19 2 0.04
20 8 0.17
21 19 0.40
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (19 bp):
ATTATTTATATATTGGTTG
Found at i:106036815 original size:55 final size:55
Alignment explanation
Indices: 106036711--106036851 Score: 135
Period size: 55 Copynumber: 2.6 Consensus size: 55
106036701 AGAAAATTTT
* * * * * **
106036711 ATTATTTGATATATTAGGTTGATTATTTAAATATTTTCAACTATTTATTTGGTTG
1 ATTATTTAATTTATTAGGTTGATTATTTGATTATTTTCAACAAAATATTTGGTTG
* *
106036766 ATTATTTAATTTATTAGGTTGATTATTTGATTATTTTTAGA-AAAATATTTTGTTG
1 ATTATTTAATTTATTAGGTTGATTATTTGATTATTTTCA-ACAAAATATTTGGTTG
* * *
106036821 ATT-GTTCATTTATTAGG-TGATTTAGTTGATT
1 ATTATTTAATTTATTAGGTTGA-TTATTTGATT
106036852 GTAATTATAT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
53 3 0.04
54 21 0.29
55 47 0.65
56 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.55
Consensus pattern (55 bp):
ATTATTTAATTTATTAGGTTGATTATTTGATTATTTTCAACAAAATATTTGGTTG
Found at i:106040995 original size:25 final size:25
Alignment explanation
Indices: 106040966--106041018 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
106040956 TAGACTTTCA
106040966 TTTAATGTCTTTTTTACTTTAGGTG
1 TTTAATGTCTTTTTTACTTTAGGTG
106040991 TTTAATGTCTTTTTTACTTTAGGTG
1 TTTAATGTCTTTTTTACTTTAGGTG
106041016 TTT
1 TTT
106041019 TCTATGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (25 bp):
TTTAATGTCTTTTTTACTTTAGGTG
Found at i:106041222 original size:18 final size:19
Alignment explanation
Indices: 106041182--106041223 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
106041172 TTAAACTCAA
**
106041182 AAATTAACTTAAACCGATT
1 AAATTAACTTAAACCGAAC
*
106041201 AAATTAA-TTAAATCGAAC
1 AAATTAACTTAAACCGAAC
106041219 AAATT
1 AAATT
106041224 GTACAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (19 bp):
AAATTAACTTAAACCGAAC
Found at i:106041403 original size:14 final size:15
Alignment explanation
Indices: 106041384--106041418 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
106041374 TTTAATTTTC
*
106041384 AAAATTTCAAAAA-A
1 AAAATTTAAAAAATA
106041398 AAAATTTAAAAAATA
1 AAAATTTAAAAAATA
106041413 AAAATT
1 AAAATT
106041419 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTAAAAAATA
Found at i:106041477 original size:30 final size:30
Alignment explanation
Indices: 106041414--106041515 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
106041404 TAAAAAATAA
* *
106041414 AAATTGCATTTTGA-CCTCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCT-TAAACTTTCT-TT
106041444 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
* * * *
106041474 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
106041504 AAATTTCATTTT
1 AAATTTCATTTT
106041516 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 58 0.94
31 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCTTT
Found at i:106041938 original size:54 final size:55
Alignment explanation
Indices: 106041854--106042071 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
106041844 TCAATTTCTA
*
106041854 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
106041909 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
106041963 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * *
106042014 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAAC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
106042069 CTT
1 CTT
106042072 GGCTCACGTG
Statistics
Matches: 149, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 12 0.08
51 35 0.23
52 2 0.01
53 2 0.01
54 48 0.32
55 41 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:106042376 original size:30 final size:31
Alignment explanation
Indices: 106042342--106042443 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
106042332 TAAAAAATAA
*
106042342 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
106042372 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
106042402 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
106042432 AAATTTCATTTT
1 AAATTTCATTTT
106042444 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:106042820 original size:3 final size:3
Alignment explanation
Indices: 106042814--106042885 Score: 53
Period size: 3 Copynumber: 24.0 Consensus size: 3
106042804 GCTAGACTTT
* *
106042814 GAA GAA GAA GAA GGAA GAA GAA GGAA AAA GAA -AA GAG GAA GAA GAAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA G-AA
*
106042861 GAAA GAA -AA -AA GAA AAA GAA -AA GAA
1 G-AA GAA GAA GAA GAA GAA GAA GAA GAA
106042886 ATAATAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
2 8 0.14
3 36 0.63
4 13 0.23
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:106042853 original size:24 final size:25
Alignment explanation
Indices: 106042814--106042873 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
106042804 GCTAGACTTT
*
106042814 GAAGAAGAAGAAGGAAGAAGAAGGAAA
1 GAAGAA-AAG-AGGAAGAAGAAAGAAA
106042841 -AAGAAAAGAGGAAGAAGAAAGAAA
1 GAAGAAAAGAGGAAGAAGAAAGAAA
106042865 GAA-AAAAGA
1 GAAGAAAAGA
106042874 AAAAGAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 21 0.68
25 5 0.16
26 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (25 bp):
GAAGAAAAGAGGAAGAAGAAAGAAA
Found at i:106042854 original size:18 final size:17
Alignment explanation
Indices: 106042814--106042885 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
106042804 GCTAGACTTT
* *
106042814 GAAGAAGAAGAAG-GAA
1 GAAGAAGAAAAAGAAAA
106042830 GAAGAAGGAAAAAGAAAA
1 GAAGAA-GAAAAAGAAAA
*
106042848 GAGGAAGAAGAAAG-AAA
1 GAAGAAGAA-AAAGAAAA
*
106042865 GAAAAAAGAAAAAGAAAA
1 G-AAGAAGAAAAAGAAAA
106042883 GAA
1 GAA
106042886 ATAATAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 6 0.13
17 19 0.41
18 21 0.46
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
GAAGAAGAAAAAGAAAA
Found at i:106042854 original size:28 final size:29
Alignment explanation
Indices: 106042815--106042885 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
106042805 CTAGACTTTG
* *
106042815 AAGAAGAAGAAGGAAGAAGAAGGAAAAAGAA
1 AAGAAGAAGAAGAAAG-A-AAGAAAAAAGAA
*
106042846 AAGAGGAAGAAGAAAGAAAGAAAAAAGAAA
1 AAGAAGAAGAAGAAAGAAAGAAAAAAG-AA
106042876 AAGAA-AAGAA
1 AAGAAGAAGAA
106042886 ATAATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 14 0.40
30 7 0.20
31 14 0.40
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (29 bp):
AAGAAGAAGAAGAAAGAAAGAAAAAAGAA
Found at i:106042876 original size:35 final size:34
Alignment explanation
Indices: 106042817--106042884 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
106042807 AGACTTTGAA
* * *
106042817 GAAGAAGAAGGAAGAAGAAGGAAAAAGAAAAGAG
1 GAAGAAGAAGAAAGAAAAAAGAAAAAGAAAAGAG
106042851 GAAGAAGAAAGAAAGAAAAAAGAAAAAGAAAAGA
1 GAAGAAG-AAGAAAGAAAAAAGAAAAAGAAAAGA
106042885 AATAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 7 0.23
35 23 0.77
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (34 bp):
GAAGAAGAAGAAAGAAAAAAGAAAAAGAAAAGAG
Found at i:106042879 original size:24 final size:24
Alignment explanation
Indices: 106042828--106042880 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
106042818 AAGAAGAAGG
* **
106042828 AAGAAGAAGGAAAAAGAAAAGAGG
1 AAGAAGAAAGAAAAAGAAAAGAAA
106042852 AAGAAGAAAGAAAGAA-AAAAGAAA
1 AAGAAGAAAGAAA-AAGAAAAGAAA
106042876 AAGAA
1 AAGAA
106042881 AAGAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (24 bp):
AAGAAGAAAGAAAAAGAAAAGAAA
Found at i:106042992 original size:20 final size:20
Alignment explanation
Indices: 106042969--106043009 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
106042959 AAGAAAAAAC
106042969 AACAAAAACAAAAAAAAAGA
1 AACAAAAACAAAAAAAAAGA
***
106042989 AACAAGCCCAAAAAAAAAGA
1 AACAAAAACAAAAAAAAAGA
106043009 A
1 A
106043010 GAGCAGGCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.15, G:0.07, T:0.00
Consensus pattern (20 bp):
AACAAAAACAAAAAAAAAGA
Found at i:106043164 original size:11 final size:11
Alignment explanation
Indices: 106043142--106043197 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 11
106043132 GGCCCAGCAG
106043142 AGAAAA-AAAA
1 AGAAAAGAAAA
106043152 AGAAAAGAAAA
1 AGAAAAGAAAA
106043163 AG--AAGAAAA
1 AGAAAAGAAAA
*
106043172 AGAGAAGGAAAAA
1 AGA-AAAG-AAAA
106043185 AGAAAA-AAAA
1 AGAAAAGAAAA
106043195 AGA
1 AGA
106043198 GGTTCAATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 9 0.23
10 13 0.33
11 6 0.15
12 4 0.10
13 7 0.18
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:106043177 original size:22 final size:21
Alignment explanation
Indices: 106043142--106043197 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
106043132 GGCCCAGCAG
106043142 AGAAAAAAAAAGAAA-AGAAAA
1 AGAAAAAAAAAGAAAGA-AAAA
* *
106043163 AGAAGAAAAAGAGAAGGAAAAA
1 AGAA-AAAAAAAGAAAGAAAAA
106043185 AGAAAAAAAAAGA
1 AGAAAAAAAAAGA
106043198 GGTTCAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 12 0.40
22 17 0.57
23 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAGAAAGAAAAA
Found at i:106043363 original size:16 final size:17
Alignment explanation
Indices: 106043337--106043374 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
106043327 TTATATTTAT
106043337 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
* *
106043354 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTAATTTG
106043370 ATTTT
1 ATTTT
106043375 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:106043601 original size:16 final size:16
Alignment explanation
Indices: 106043514--106043592 Score: 68
Period size: 16 Copynumber: 4.6 Consensus size: 16
106043504 AAAATTGTAA
*
106043514 TTTCAATAATCCTCGTG
1 TTTCAA-AATTCTCGTG
* *
106043531 CTTTTAAAAATTCTCATG
1 --TTTCAAAATTCTCGTG
*
106043549 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TCGTG
*
106043566 TTTTCAAAATTCTAGTG
1 -TTTCAAAATTCTCGTG
106043583 TTTCAAAATT
1 TTTCAAAATT
106043593 TTCTTGTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
16 19 0.38
17 8 0.16
18 18 0.36
19 5 0.10
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (16 bp):
TTTCAAAATTCTCGTG
Found at i:106044036 original size:17 final size:17
Alignment explanation
Indices: 106043526--106044036 Score: 228
Period size: 17 Copynumber: 29.8 Consensus size: 17
106043516 TCAATAATCC
*
106043526 TCGTGCTTTTAAAAATTC
1 TCGTG-TTTTAAAAATTT
* * *
106043544 TCATGTTTCAAAAATCT
1 TCGTGTTTTAAAAATTT
* *
106043561 TCGTGTTTTCAAAATTC
1 TCGTGTTTTAAAAATTT
* *
106043578 TAGTG-TTTCAAAATTT
1 TCGTGTTTTAAAAATTT
* *
106043594 TCTTGTTTTAGAAAAAATT
1 TCGTGTTTT--AAAAATTT
*
106043613 TCGTG-TTT-ATAATTT
1 TCGTGTTTTAAAAATTT
* * *
106043628 CCGTATTTTCAAAAA--A
1 TCGTGTTTT-AAAAATTT
* *
106043644 TCATGTCTTTCAAAATTT
1 TCGTGT-TTTAAAAATTT
**
106043662 TCGTGTTTTCAAAAAAATGA
1 TCGTGTTTT---AAAAATTT
* *
106043682 CCGTGTTTCAAAAATTT
1 TCGTGTTTTAAAAATTT
* ** *
106043699 CCGTGTTAAAAAAAATCT
1 TCGTGTT-TTAAAAATTT
*
106043717 TCGTATTTTCAAAAAATTT
1 TCGTGTTTT--AAAAATTT
* *
106043736 TCGTG-TTTCAAAATCT
1 TCGTGTTTTAAAAATTT
*
106043752 TCGTGTTTTCAAAA-TT
1 TCGTGTTTTAAAAATTT
* *
106043768 TCGGTGTTTCAAAGATTT
1 TC-GTGTTTTAAAAATTT
*
106043786 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTT-AAAAATTT
* ***
106043803 CCGGTGATTTTTAAAAAAAAA
1 TC-GTG--TTTT-AAAAATTT
106043824 TCGT-TTTCTAAAAAATTT
1 TCGTGTTT-T-AAAAATTT
* *
106043842 CCGTGTTTCAAAAATTT
1 TCGTGTTTTAAAAATTT
106043859 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
* *
106043876 TCCTGTTTTAAAAATTC
1 TCGTGTTTTAAAAATTT
*
106043893 TCGTATTTT--AAATTT
1 TCGTGTTTTAAAAATTT
** **
106043908 T--T-TTAAGAAAAAAAT
1 TCGTGTT-TTAAAAATTT
* * *
106043923 T-GTGTTTCAAAAAATG
1 TCGTGTTTTAAAAATTT
* *
106043939 TCTTGTTTTAAAAATTC
1 TCGTGTTTTAAAAATTT
* * *
106043956 TCGTGTTTCAAAAAATG
1 TCGTGTTTTAAAAATTT
106043973 TCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAATTT
*
106043990 TCGTGTTTCT-GAAATTT
1 TCGTGTTT-TAAAAATTT
*
106044007 CCGTG-TTTAAAAATTT
1 TCGTGTTTTAAAAATTT
106044023 TCGTGTTTTAAAAA
1 TCGTGTTTTAAAAA
106044037 AAAAACTTTC
Statistics
Matches: 366, Mismatches: 93, Indels: 69
0.69 0.18 0.13
Matches are distributed among these distances:
12 2 0.01
13 1 0.00
15 20 0.05
16 57 0.16
17 186 0.51
18 52 0.14
19 24 0.07
20 23 0.06
21 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (17 bp):
TCGTGTTTTAAAAATTT
Found at i:106044040 original size:21 final size:22
Alignment explanation
Indices: 106044015--106044069 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 22
106044005 TTCCGTGTTT
106044015 AAAAATTTTCGTGTTTTAAAAA
1 AAAAATTTTCGTGTTTTAAAAA
* *
106044037 AAAAACTTTCAT-TTTT-AAAA
1 AAAAATTTTCGTGTTTTAAAAA
106044057 AAAAATTTTCGTG
1 AAAAATTTTCGTG
106044070 CTTCAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 14 0.50
21 4 0.14
22 10 0.36
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
AAAAATTTTCGTGTTTTAAAAA
Found at i:106044077 original size:17 final size:17
Alignment explanation
Indices: 106044057--106044094 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
106044047 ATTTTTAAAA
*
106044057 AAAAATTTTCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
106044073 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
106044090 AAAAA
1 AAAAA
106044095 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:106050649 original size:30 final size:30
Alignment explanation
Indices: 106050606--106050664 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
106050596 GGACGTGGGA
106050606 TGGGAAGGAAGTAAAAATTTTAGGAGGAAAG
1 TGGGAAGGAAGTAAAAATTTTAGG-GGAAAG
* *
106050637 TGGG-AGGGAGTAAAAGTTTTAGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTAGGGGAAA
106050665 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 17 0.65
31 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTAGGGGAAAG
Found at i:106063305 original size:11 final size:11
Alignment explanation
Indices: 106063289--106063341 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
106063279 GGCCCAGCAG
106063289 AGAAAAAAAAA
1 AGAAAAAAAAA
*
106063300 AGAAAAGAAAA
1 AGAAAAAAAAA
* *
106063311 AGAAGAAAAAG
1 AGAAAAAAAAA
**
106063322 AG-AAGGAAAA
1 AGAAAAAAAAA
106063332 AGAAAAAAAA
1 AGAAAAAAAA
106063342 GAGGTTCAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
10 6 0.19
11 25 0.81
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:106063319 original size:21 final size:21
Alignment explanation
Indices: 106063293--106063344 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
106063283 CAGCAGAGAA
106063293 AAAAAAAAGA-AAAGAAAAAG
1 AAAAAAAAGAGAAAGAAAAAG
* *
106063313 AAGAAAAAGAGAAGGAAAAAG
1 AAAAAAAAGAGAAAGAAAAAG
106063334 AAAAAAAAGAG
1 AAAAAAAAGAG
106063345 GTTCAATTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGAGAAAGAAAAAG
Found at i:106063330 original size:12 final size:11
Alignment explanation
Indices: 106063296--106063344 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 11
106063286 CAGAGAAAAA
*
106063296 AAAAAGAAAAG
1 AAAAAGAGAAG
106063307 -AAAA-AGAAG
1 AAAAAGAGAAG
106063316 AAAAAGAGAAGG
1 AAAAAGAGAA-G
106063328 AAAAAGA-AA-
1 AAAAAGAGAAG
106063337 AAAAAGAG
1 AAAAAGAG
106063345 GTTCAATTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
9 11 0.33
10 8 0.24
11 6 0.18
12 8 0.24
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAAGAGAAG
Found at i:106063477 original size:6 final size:6
Alignment explanation
Indices: 106063466--106063527 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
106063456 CATTTTATGC
106063466 ATATTT ATATTT ATATTT ATATTT -TAATTT A-ATTT A-ATTT GAT-TTT
1 ATATTT ATATTT ATATTT ATATTT AT-ATTT ATATTT ATATTT -ATATTT
106063512 -TATTT -TATTT -TATTT A
1 ATATTT ATATTT ATATTT A
106063528 AATAATTTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
4 1 0.02
5 23 0.46
6 26 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (6 bp):
ATATTT
Found at i:106063483 original size:12 final size:11
Alignment explanation
Indices: 106063467--106063527 Score: 65
Period size: 12 Copynumber: 5.5 Consensus size: 11
106063457 ATTTTATGCA
106063467 TATTTATATTT
1 TATTTATATTT
106063478 ATATTTATATTT
1 -TATTTATATTT
106063490 TAATTTA-ATTT
1 T-ATTTATATTT
*
106063501 AATTTGAT-TTT
1 TATTT-ATATTT
106063512 TATTT-TATTT
1 TATTTATATTT
106063522 TATTTA
1 TATTTA
106063528 AATAATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
9 1 0.02
10 12 0.29
11 13 0.31
12 16 0.38
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TATTTATATTT
Found at i:106063738 original size:16 final size:16
Alignment explanation
Indices: 106063687--106063740 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
106063677 CGTGCTTTTA
106063687 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
106063703 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
106063721 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
106063737 AAAA
1 AAAA
106063741 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:106063751 original size:17 final size:17
Alignment explanation
Indices: 106063676--106064142 Score: 213
Period size: 17 Copynumber: 26.8 Consensus size: 17
106063666 TCAATAATCC
* *
106063676 TCGTGCTTTTAAAAATTC
1 TCGTG-TTTCAAAAATTT
* *
106063694 TCATGTTTCAAAAATCT
1 TCGTGTTTCAAAAATTT
*
106063711 TCGTGTTTTC-AAAATTC
1 TCGTG-TTTCAAAAATTT
*
106063728 TAGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
106063745 TCTTGTTTTCAGAAAAATT
1 TCGTG-TTTCA-AAAATTT
**
106063764 TCGTGTTTTCAAAAAAAAATGA
1 TCGTG-TTTC----AAAAATTT
*
106063786 CCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
* ** *
106063803 CCGTGTTAAAAAAAAATCT
1 TCGTGTT--TCAAAAATTT
*
106063822 TCGTATTTTCAAAAATTT
1 TCGT-GTTTCAAAAATTT
*
106063840 TCGTGTTTCAAAAATCT
1 TCGTGTTTCAAAAATTT
106063857 TCGTGTTTTCAAAAA-TT
1 TCGTG-TTTCAAAAATTT
*
106063874 TCGGTGTTTCAAAGATTT
1 TC-GTGTTTCAAAAATTT
*
106063892 TCGTGTTTCCAAAAA-CT
1 TCGTGTTT-CAAAAATTT
* * **
106063909 CCGGTGATTTTTTTTAAAAA-AA
1 TC-GTG-----TTTCAAAAATTT
106063931 TCGT-TTTCTAAAAAATTT
1 TCGTGTTTC--AAAAATTT
* *
106063949 CCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
*
106063966 TCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
106063983 TCGTGTTTTAAAAATTC
1 TCGTGTTTCAAAAATTT
* *
106064000 TCGTATTT--TAAATTT
1 TCGTGTTTCAAAAATTT
** **
106064015 T--T-TTAAGAAAAAAAT
1 TCGTGTT-TCAAAAATTT
* *
106064030 T-GTGTTTCAAAAAATG
1 TCGTGTTTCAAAAATTT
* * *
106064046 TCTTGTTTTAAAAATTC
1 TCGTGTTTCAAAAATTT
* *
106064063 TCGTGTTTCAAAAAATG
1 TCGTGTTTCAAAAATTT
*
106064080 TCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
**
106064097 TCGTGTTTCTGAAATTT
1 TCGTGTTTCAAAAATTT
* *
106064114 CCGTGTTT-AAAAATTC
1 TCGTGTTTCAAAAATTT
106064130 TCGTGTTT-AAAAA
1 TCGTGTTTCAAAAA
106064143 AAAAACTTTC
Statistics
Matches: 343, Mismatches: 75, Indels: 64
0.71 0.16 0.13
Matches are distributed among these distances:
12 2 0.01
13 1 0.00
15 14 0.04
16 29 0.08
17 192 0.56
18 51 0.15
19 28 0.08
20 2 0.01
21 6 0.02
22 14 0.04
23 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:106064056 original size:97 final size:98
Alignment explanation
Indices: 106063924--106064100 Score: 259
Period size: 97 Copynumber: 1.8 Consensus size: 98
106063914 GATTTTTTTT
* * * * *
106063924 AAAAAAATCGTTTTCTAAAAAATTTCCGTGTTTTAAAAATTTTCGTGTTTTAAAAATTTTCGTGT
1 AAAAAAATCGTTTTCTAAAAAATGTCCGTGTTTTAAAAATTCTCGTGTTTCAAAAAATGTCGTGT
106063989 TTTAAAAATTCTCGTATTTTAAATTTTTTTAAG
66 TTTAAAAATTCTCGTATTTTAAATTTTTTTAAG
* *
106064022 AAAAAAATTGTGTTTC-AAAAAATGT-CTTGTTTTAAAAATTCTCGTGTTTCAAAAAATGTCGTG
1 AAAAAAATCGT-TTTCTAAAAAATGTCCGTGTTTTAAAAATTCTCGTGTTTCAAAAAATGTCGTG
*
106064085 TTTTAAAAATTTTCGT
65 TTTTAAAAATTCTCGT
106064101 GTTTCTGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
97 48 0.69
98 18 0.26
99 4 0.06
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (98 bp):
AAAAAAATCGTTTTCTAAAAAATGTCCGTGTTTTAAAAATTCTCGTGTTTCAAAAAATGTCGTGT
TTTAAAAATTCTCGTATTTTAAATTTTTTTAAG
Found at i:106064127 original size:16 final size:16
Alignment explanation
Indices: 106064052--106064142 Score: 71
Period size: 16 Copynumber: 5.5 Consensus size: 16
106064042 AATGTCTTGT
106064052 TTTAAAAA-TTCTCGTG
1 TTTAAAAATTTC-CGTG
*
106064068 TTTCAAAAAATGT-CGTG
1 TTT--AAAAATTTCCGTG
*
106064085 TTTTAAAAATTTTCGTG
1 -TTTAAAAATTTCCGTG
**
106064102 TTTCTGAAATTTCCGTG
1 TTT-AAAAATTTCCGTG
106064119 TTTAAAAA-TTCTCGTG
1 TTTAAAAATTTC-CGTG
106064135 TTTAAAAA
1 TTTAAAAA
106064143 AAAAACTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
15 3 0.05
16 28 0.46
17 21 0.34
18 8 0.13
19 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (16 bp):
TTTAAAAATTTCCGTG
Found at i:106064147 original size:21 final size:20
Alignment explanation
Indices: 106064122--106064176 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
106064112 TTCCGTGTTT
106064122 AAAAATTCTCGTGTTTAAAAA
1 AAAAATT-TCGTGTTTAAAAA
* *
106064143 AAAAACTTTCATTTTTTAAAAA
1 AAAAA-TTTC-GTGTTTAAAAA
*
106064165 AAAATTTTCGTG
1 AAAAATTTCGTG
106064177 CTTCAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
22 15 0.56
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.38
Consensus pattern (20 bp):
AAAAATTTCGTGTTTAAAAA
Found at i:106064184 original size:21 final size:21
Alignment explanation
Indices: 106064122--106064176 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
106064112 TTCCGTGTTT
*
106064122 AAAAATTCTCGTGTTTAAAAA
1 AAAAATTTTCGTGTTTAAAAA
* * * *
106064143 AAAAACTTTCATTTTTTAAAA
1 AAAAATTTTCGTGTTTAAAAA
106064164 AAAAATTTTCGTG
1 AAAAATTTTCGTG
106064177 CTTCAAAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.38
Consensus pattern (21 bp):
AAAAATTTTCGTGTTTAAAAA
Found at i:106068723 original size:51 final size:51
Alignment explanation
Indices: 106068616--106068728 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
106068606 CATCTGTAGG
* * * *
106068616 TTATCCTCAACCCCCGGTAGTGTCACCCGTGGTGGCATATCCGGATCCGCA
1 TTATCCACAAGCCCCGGTACTGTCACCCGTGGTGGCATATCCGGATCCACA
* * * *
106068667 CTATCCCCAAGCCCCGGTAACT-TCACCTGTGGTGGCATATCCGGATCCATA
1 TTATCCACAAGCCCCGGT-ACTGTCACCCGTGGTGGCATATCCGGATCCACA
106068718 TTATCCACAAG
1 TTATCCACAAG
106068729 TAAGCACCTT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 50 0.96
52 2 0.04
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (51 bp):
TTATCCACAAGCCCCGGTACTGTCACCCGTGGTGGCATATCCGGATCCACA
Found at i:106070791 original size:30 final size:30
Alignment explanation
Indices: 106070748--106070806 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
106070738 GGACGTGGGA
106070748 TGGGAAGGAAGTAAAAATTTTAGGAGGAAAG
1 TGGGAAGGAAGTAAAAATTTTAGG-GGAAAG
* *
106070779 TGGG-AGGGAGTAAAAGTTTTAGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTAGGGGAAA
106070807 TAAAAGTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 17 0.65
31 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTAGGGGAAAG
Found at i:106075496 original size:14 final size:15
Alignment explanation
Indices: 106075479--106075523 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
106075469 ATATAAATCG
106075479 TATAGTAATAAAA-A
1 TATAGTAATAAAATA
106075493 TATATGTAATAAAATA
1 TATA-GTAATAAAATA
*
106075509 TATA-TAATAATATA
1 TATAGTAATAAAATA
106075523 T
1 T
106075524 GAGGAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 14 0.50
15 9 0.32
16 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (15 bp):
TATAGTAATAAAATA
Found at i:106075791 original size:15 final size:15
Alignment explanation
Indices: 106075752--106075793 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
106075742 AATAATAGAT
106075752 AAAATATAGTAAAATG
1 AAAATATA-TAAAATG
*
106075768 AATAATATATACAATG
1 AA-AATATATAAAATG
106075784 AAAATATATA
1 AAAATATATA
106075794 TGCAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 10 0.42
17 6 0.25
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (15 bp):
AAAATATATAAAATG
Found at i:106077544 original size:2 final size:2
Alignment explanation
Indices: 106077539--106077564 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
106077529 GTTTGATTCA
106077539 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
106077565 GAGAAGGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106082730 original size:21 final size:21
Alignment explanation
Indices: 106082704--106082745 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
106082694 ATCTGCTCAA
* *
106082704 ACTCCACCTGTTTTGGAGTAT
1 ACTCCACCTGCTGTGGAGTAT
106082725 ACTCCACCTGCTGTGGAGTAT
1 ACTCCACCTGCTGTGGAGTAT
106082746 TGCTCGTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAT
Found at i:106090552 original size:17 final size:20
Alignment explanation
Indices: 106090512--106090551 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
106090502 ATTTTATATG
106090512 AAATAACTATATTTAAATAA
1 AAATAACTATATTTAAATAA
106090532 AAATAA-TATATTTAAA-AA
1 AAATAACTATATTTAAATAA
106090550 AA
1 AA
106090552 TTCAGTGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAACTATATTTAAATAA
Found at i:106093630 original size:48 final size:49
Alignment explanation
Indices: 106093576--106093677 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 49
106093566 ATTTATGTTT
*
106093576 ATGAATACAAACTATATCTGAATCTTACT-AAAAATTAGTAAACTGAAA
1 ATGAATACAAACTATATCTGAATCTTACTAAAAAATTAGTAAAATGAAA
106093624 ATGAATACAAACTATATCTGAATCTTACTAAAAAATTAGTAAAATGAAA
1 ATGAATACAAACTATATCTGAATCTTACTAAAAAATTAGTAAAATGAAA
106093673 ATGAA
1 ATGAA
106093678 AAATTTCTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 29 0.56
49 23 0.44
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (49 bp):
ATGAATACAAACTATATCTGAATCTTACTAAAAAATTAGTAAAATGAAA
Found at i:106094540 original size:51 final size:51
Alignment explanation
Indices: 106094485--106095108 Score: 483
Period size: 51 Copynumber: 12.4 Consensus size: 51
106094475 TCTGTTGATC
* * *
106094485 TTCAACAATAGCATCGGCCTCCTCGGGAAACTTCTAAGAGTTCCGATCATA
1 TTCAACAACAGCATCAGCCTCCTCGGGAAACTTATAAGAGTTCCGATCATA
** * * *
106094536 TTCAACAACAGCATCCA-CCTCCTCTAGATATTTATCAA-AGTTCCGATCATC
1 TTCAACAACAGCAT-CAGCCTCCTCGGGAAACTTAT-AAGAGTTCCGATCATA
* * *
106094587 TTCAACAACAGCATCGGCCTCCTCGGGAAACTTATAAGAGCTCAGATCATA
1 TTCAACAACAGCATCAGCCTCCTCGGGAAACTTATAAGAGTTCCGATCATA
* * * *
106094638 TTCAACAACAGCATCCA-CCTCCTCGAGATATTTATCAA-AGTTCCGATCATC
1 TTCAACAACAGCAT-CAGCCTCCTCGGGAAACTTAT-AAGAGTTCCGATCATA
* * * * **
106094689 TTCAACAACAGTATCTG---CCTCGAGAAACTTATAAGAGCTCAAATCATA
1 TTCAACAACAGCATCAGCCTCCTCGGGAAACTTATAAGAGTTCCGATCATA
* * * * * *
106094737 TTCAACAAGAGCTTC-GTCCTCCTCGAGAAAGTTATCAGAG-TCCAAATCATA
1 TTCAACAACAGCATCAG-CCTCCTCGGGAAACTTATAAGAGTTCC-GATCATA
* * * *
106094788 TTAAACAACAGCATCAG---CCTCGGGAAACTTCTAAGAGCTCAGATCATA
1 TTCAACAACAGCATCAGCCTCCTCGGGAAACTTATAAGAGTTCCGATCATA
* *
106094836 TTCAACAACAGCATCAG---CCTCGGGAAACTTATAAGAGCTCAGATCATA
1 TTCAACAACAGCATCAGCCTCCTCGGGAAACTTATAAGAGTTCCGATCATA
* * * * *
106094884 TTCAACAACAGCATCAGCCTCATCGGGAGAGTTATCAGAGTTCCGATCATCT
1 TTCAACAACAGCATCAGCCTCCTCGGGAAACTTATAAGAGTTCCGATCAT-A
* * * *
106094936 TCATCAACAACAGCGTCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATT
1 T--TCAACAACAGCATCAGCCTCCTCGGGAAACTTATAAGAGTTCCGATCATA
* ** ** * * * *
106094989 TTCAACAACAGCAAT-ATCAGCCTCAAGAAAGTTATCAGGAG-TCGGGA-CATC
1 TTCAACAACAGC-ATCAGCCTCCTCGGGAAACTTAT-AAGAGTTC-CGATCATA
* * * * * * *
106095040 TTCAACAACTGCATCGGCCTCCTCTGGAAAGTTATCAGAGTTCCAATCATG
1 TTCAACAACAGCATCAGCCTCCTCGGGAAACTTATAAGAGTTCCGATCATA
*
106095091 TTCAACAACAGCAACAGC
1 TTCAACAACAGCATCAGC
106095109 TTTCGGAAAG
Statistics
Matches: 463, Mismatches: 83, Indels: 54
0.77 0.14 0.09
Matches are distributed among these distances:
47 3 0.01
48 119 0.26
49 2 0.00
50 12 0.03
51 265 0.57
52 14 0.03
53 2 0.00
54 46 0.10
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (51 bp):
TTCAACAACAGCATCAGCCTCCTCGGGAAACTTATAAGAGTTCCGATCATA
Found at i:106094618 original size:102 final size:102
Alignment explanation
Indices: 106094442--106095108 Score: 565
Period size: 102 Copynumber: 6.6 Consensus size: 102
106094432 GAGCCAGCAG
* * * * * * * *
106094442 CAGCATCGACCTCCTCGAGAAAGTTATCAGAGCTCTGTTGATCTTCAACAATAGCATCGGCCTCC
1 CAGCATCCACCTCCTCGAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGCATCAGCCTCC
* * *
106094507 TCGGGAAACTTCTAAGAGTTCCGATCATATTCAACAA
66 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
* * * *
106094544 CAGCATCCACCTCCTCTAGATATTTATCAAAGTTCCGATCATCTTCAACAACAGCATCGGCCTCC
1 CAGCATCCACCTCCTCGAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGCATCAGCCTCC
106094609 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
66 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
* * * *
106094646 CAGCATCCACCTCCTCGAGATATTTATCAAAGTTCCGATCATCTTCAACAACAGTATCTG---CC
1 CAGCATCCACCTCCTCGAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGCATCAGCCTCC
* *
106094708 TCGAGAAACTTATAAGAGCTCAAATCATATTCAACAA
66 TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
* * ** * * * *
106094745 GAGCTTCGTCCTCCTCGAGAAAGTTATCAGAG-TCCAAATCATATTAAACAACAGCATCAG---C
1 CAGCATCCACCTCCTCGAGAAAGTTATCAAAGTTCC-GATCATCTTCAACAACAGCATCAGCCTC
*
106094806 CTCGGGAAACTTCTAAGAGCTCAGATCATATTCAACAA
65 CTCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
* * * * * *
106094844 CAGCAT-CA--GCCTCGGGAAACTTAT-AAGAGCTCAGATCATATTCAACAACAGCATCAGCCTC
1 CAGCATCCACCTCCTCGAGAAAGTTATCAA-AGTTCCGATCATCTTCAACAACAGCATCAGCCTC
* * * * * * *
106094905 ATCGGGAGAGTTATCAGAGTTCCGATCATCTTCATCAACAA
65 CTCGGGAAACTTATAAGAGCTCAGATCAT-AT--TCAACAA
* * * * * **
106094946 CAGCGT-CAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAACAGCAAT-ATCAG
1 CAGCATCCA-CCTCCTCGAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGC-ATCAGCCT
** * * * *
106095009 CCTCAAGAAAGTTATCAGGAG-TCGGGA-CATCTTCAACAA
64 CCTCGGGAAACTTAT-AAGAGCTC-AGATCATATTCAACAA
* ** * * * *
106095048 CTGCATCGGCCTCCTCTG-GAAAGTTATCAGAGTTCCAATCATGTTCAACAACAGCAACAGC
1 CAGCATCCACCTCCTC-GAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGCATCAGC
106095109 TTTCGGAAAG
Statistics
Matches: 468, Mismatches: 78, Indels: 38
0.80 0.13 0.07
Matches are distributed among these distances:
95 1 0.00
96 37 0.08
97 2 0.00
98 3 0.01
99 144 0.31
100 1 0.00
101 1 0.00
102 215 0.46
103 1 0.00
104 1 0.00
105 54 0.12
106 8 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (102 bp):
CAGCATCCACCTCCTCGAGAAAGTTATCAAAGTTCCGATCATCTTCAACAACAGCATCAGCCTCC
TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
Found at i:106094956 original size:54 final size:51
Alignment explanation
Indices: 106094442--106095191 Score: 434
Period size: 51 Copynumber: 14.8 Consensus size: 51
106094432 GAGCCAGCAG
* * * * * * *
106094442 CAGCATC-GACCTCCTCGAGAAAGTTATCAGAGCTCTGTTGATCTTCAACAA
1 CAGCATCAG-CCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * * *
106094493 TAGCATCGGCCTCCTCGGGAAACTTCTAAGAGTTCCGATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* ** * * * *
106094544 CAGCATCCA-CCTCCTCTAGATATTTATCAAAGTTCCGATCATCTTCAACAA
1 CAGCAT-CAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * * *
106094595 CAGCATCGGCCTCCTCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * *
106094646 CAGCATCCA-CCTCCTCGAGATATTTATCAAAGTTCCGATCATCTTCAACAA
1 CAGCAT-CAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * * ** *
106094697 CAGTATCTG-C-C-TCGAGAAACTTATAAGAGCTCAAATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * * * *
106094745 GAGCTTC-GTCCTCCTCGAGAAAGTTATCAGAG-TCCAAATCATATTAAACAA
1 CAGCATCAG-CCTCATCGGGAAAGTTATCAGAGTTCC-GATCATTTTCAACAA
* * * * * *
106094796 CAGCATCAG-C-C-TCGGGAAACTTCTAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * *
106094844 CAGCATCAG-C-C-TCGGGAAACTTATAAGAGCTCAGATCATATTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
*
106094892 CAGCATCAGCCTCATCGGGAGAGTTATCAGAGTTCCGATCATCTTCATCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCAT-TT--TCAACAA
* *
106094946 CAGCGTCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * *
106094997 CAGCAATATCAGCCTCA---AGAAAGTTATCAGGAG-TCGGGA-CATCTTCAACAA
1 CAGC---ATCAGCCTCATCGGGAAAGTTATCA-GAGTTC-CGATCATTTTCAACAA
* * * * * *
106095048 CTGCATCGGCCTCCTCTGGAAAGTTATCAGAGTTCCAATCATGTTCAACAA
1 CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
* * * * *
106095099 CAGCAACAG-CT-TTC-GGAAAGTTATCATCAGAGTTTCAATCATCTTCAACAGCA
1 CAGCATCAGCCTCATCGGGAAAG-T-T-ATCAGAGTTCCGATCATTTTCAACA--A
* *
106095152 GCAGCATGAG-C-C-TCGGGAAAGTTATCAGAGCTCCGATCAT
1 -CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCAT
106095192 CTTCCTCCTC
Statistics
Matches: 565, Mismatches: 98, Indels: 72
0.77 0.13 0.10
Matches are distributed among these distances:
47 1 0.00
48 130 0.23
49 9 0.02
50 15 0.03
51 325 0.58
52 11 0.02
53 6 0.01
54 68 0.12
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
CAGCATCAGCCTCATCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAA
Found at i:106095142 original size:102 final size:102
Alignment explanation
Indices: 106094638--106095191 Score: 298
Period size: 99 Copynumber: 5.5 Consensus size: 102
106094628 TCAGATCATA
* * * * * *
106094638 TTCAACAACAGCATCCA-CCTCCTCGAGATATTTATCAAAGTTCCGATCATCTTCAACAACAG--
1 TTCAACAACAGCAT-CAGCCTCCTCGGGAAAGTTATCAGAGTTCCAATCATGTTCAACAACAGCA
* * * * *
106094700 -TATCTGCCTCGAGAAACTTAT-AAGAGCTC-AAATCATA
65 ATATCAGCCTCAAGAAAGTTATCAAGAG-TCGCAA-CATC
* * * * *
106094737 TTCAACAAGAGCTTC-GTCCTCCTCGAGAAAGTTATCAGAG-TCCAAATCATATTAAACAACAGC
1 TTCAACAACAGCATCAG-CCTCCTCGGGAAAGTTATCAGAGTTCC-AATCATGTTCAACAACAGC
** * * * *
106094800 ---ATCAGCCTCGGGAAACTTCT-AAGAGCTCAG-ATCATA
64 AATATCAGCCTCAAGAAAGTTATCAAGAG-TC-GCAACATC
* * * *
106094836 TTCAACAACAGCATCAG---CCTCGGGAAACTTATAAGAGCT-CAGATCATATTCAACAACAGC-
1 TTCAACAACAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCA-ATCATGTTCAACAACAGCA
* * *
106094896 --ATCAGCCTCATCGGGAGAGTTATC-AGAGTTC-CGATCATC
65 ATATCAGCCTCA---AGAAAGTTATCAAGAG-TCGC-AACATC
* * *
106094935 TTCATCAACAACAGCGTCAGCCTCCTCGGGAAAGTTATCAGAGTTCCGATCATTTTCAACAACAG
1 -T--TCAACAACAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCAATCATGTTCAACAACAG
* **
106095000 CAATATCAGCCTCAAGAAAGTTATCAGGAGTCGGGACATC
63 CAATATCAGCCTCAAGAAAGTTATCAAGAGTCGCAACATC
* * *
106095040 TTCAACAACTGCATCGGCCTCCTCTGGAAAGTTATCAGAGTTCCAATCATGTTCAACAACAGC-A
1 TTCAACAACAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCAATCATGTTCAACAACAGCAA
* * **
106095104 -A-CAGCTTTC-GGAAAGTTATCATCAGAGTTTCAATCATC
66 TATCAGC-CTCAAGAAAGTTATCA--AGAGTCGCAA-CATC
* * ** * *
106095142 TTCAACAGCAGCAGCATG-AGCCTCGGGAAAGTTATCAGAGCTCCGATCAT
1 TTCAACAACAGCATCA-GCCTCCTCGGGAAAGTTATCAGAGTTCCAATCAT
106095192 CTTCCTCCTC
Statistics
Matches: 365, Mismatches: 58, Indels: 61
0.75 0.12 0.13
Matches are distributed among these distances:
95 1 0.00
96 44 0.12
97 1 0.00
98 4 0.01
99 122 0.33
100 6 0.02
101 6 0.02
102 114 0.31
103 1 0.00
104 1 0.00
105 51 0.14
106 4 0.01
108 10 0.03
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (102 bp):
TTCAACAACAGCATCAGCCTCCTCGGGAAAGTTATCAGAGTTCCAATCATGTTCAACAACAGCAA
TATCAGCCTCAAGAAAGTTATCAAGAGTCGCAACATC
Found at i:106095209 original size:36 final size:36
Alignment explanation
Indices: 106095162--106095231 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
106095152 GCAGCATGAG
* * *
106095162 CCTCGGGAAAGTTATCAGAGCTCCGATCATCTTCCT
1 CCTCGAGAAAGTTATCAAAACTCCGATCATCTTCCT
*
106095198 CCTCGAGAAAGTTATCAAAATTCCGATCATCTTC
1 CCTCGAGAAAGTTATCAAAACTCCGATCATCTTC
106095232 AGCAACAGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (36 bp):
CCTCGAGAAAGTTATCAAAACTCCGATCATCTTCCT
Found at i:106096178 original size:32 final size:32
Alignment explanation
Indices: 106096137--106096202 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
106096127 TCAAAATTAA
106096137 AATTTAACTTTATTTGAATAAGTGTGAAATAT
1 AATTTAACTTTATTTGAATAAGTGTGAAATAT
106096169 AATTTAACTTTATTTGAATAAGTGTGAAATAT
1 AATTTAACTTTATTTGAATAAGTGTGAAATAT
106096201 AA
1 AA
106096203 GCTTCTCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (32 bp):
AATTTAACTTTATTTGAATAAGTGTGAAATAT
Found at i:106098149 original size:31 final size:31
Alignment explanation
Indices: 106098095--106098168 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
106098085 AATATAAATA
* **
106098095 AGGG-TATTTTA-GAAGTATAAAAAATTAAT
1 AGGGATATTTTAGGAAGAATAAAAAAGCAAT
*
106098124 AGGGATATTTTAGGTAGAATAAAAAAGCAAT
1 AGGGATATTTTAGGAAGAATAAAAAAGCAAT
* *
106098155 AGGAATAATTTAGG
1 AGGGATATTTTAGG
106098169 CATTAGAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 4 0.11
30 7 0.19
31 26 0.70
ACGTcount: A:0.47, C:0.01, G:0.22, T:0.30
Consensus pattern (31 bp):
AGGGATATTTTAGGAAGAATAAAAAAGCAAT
Found at i:106098286 original size:14 final size:14
Alignment explanation
Indices: 106098263--106098303 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
106098253 TTTTATTTAA
*
106098263 TATATATATATCTG
1 TATATCTATATCTG
*
106098277 TATATCTATATTTG
1 TATATCTATATCTG
*
106098291 TCTATCTATATCT
1 TATATCTATATCT
106098304 ATATGTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.54
Consensus pattern (14 bp):
TATATCTATATCTG
Found at i:106098778 original size:28 final size:27
Alignment explanation
Indices: 106098742--106098798 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
106098732 GAGAAATATT
* **
106098742 TATTTTAATATTTTTAGTATTTTTGATA
1 TATTATAATATTTTTAAAATTTTT-ATA
*
106098770 TATTATAATTTTTTTAAAATTTTTATA
1 TATTATAATATTTTTAAAATTTTTATA
106098797 TA
1 TA
106098799 AAAAATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
TATTATAATATTTTTAAAATTTTTATA
Found at i:106100266 original size:15 final size:16
Alignment explanation
Indices: 106100246--106100279 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
106100236 AAACTGTATA
106100246 AAATTA-TTAATATTT
1 AAATTATTTAATATTT
106100261 AAATTATTTTAATATTT
1 AAATTA-TTTAATATTT
106100278 AA
1 AA
106100280 TAACTATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTATTTAATATTT
Found at i:106118079 original size:6 final size:6
Alignment explanation
Indices: 106118068--106118119 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
106118058 TACCACTTTA
106118068 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
106118116 TATA
1 TATA
106118120 GTAACATCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:106123805 original size:18 final size:18
Alignment explanation
Indices: 106123784--106123821 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
106123774 ACGACAACCT
* *
106123784 CGACAGCCTCCACCGTTG
1 CGACAGCCACCACCGCTG
106123802 CGACAGCCACCACCGCTG
1 CGACAGCCACCACCGCTG
106123820 CG
1 CG
106123822 GTAATCGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (18 bp):
CGACAGCCACCACCGCTG
Found at i:106124480 original size:30 final size:30
Alignment explanation
Indices: 106124444--106124566 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
106124434 TTTTATTATG
106124444 CCAATATCTTGATA-CCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
106124474 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
106124504 CTAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
106124534 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
106124564 CCA
1 CCA
106124567 TAAATATGGA
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 6 0.07
30 82 0.93
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.46
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:106124498 original size:15 final size:15
Alignment explanation
Indices: 106124447--106124560 Score: 67
Period size: 15 Copynumber: 7.7 Consensus size: 15
106124437 TATTATGCCA
106124447 ATATC-TTGATA-CC
1 ATATCTTTGATACCC
**
106124460 ATATCTTTGACTTTCC
1 ATATCTTTGA-TACCC
*
106124476 A-ATATTTGATACCC
1 ATATCTTTGATACCC
** *
106124490 ATATCTTTGACTTTCT
1 ATATCTTTGA-TACCC
*
106124506 A-ATATTTGATACCC
1 ATATCTTTGATACCC
** *
106124520 ATATCTTTGACTTTCT
1 ATATCTTTGA-TACCC
*
106124536 AT-TATTTGATACCC
1 ATATCTTTGATACCC
106124550 ATATCTTTGAT
1 ATATCTTTGAT
106124561 TTTCCATAAA
Statistics
Matches: 72, Mismatches: 21, Indels: 14
0.67 0.20 0.13
Matches are distributed among these distances:
13 5 0.07
14 15 0.21
15 42 0.58
16 10 0.14
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.46
Consensus pattern (15 bp):
ATATCTTTGATACCC
Found at i:106129179 original size:30 final size:30
Alignment explanation
Indices: 106129133--106129226 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
106129123 TTTTATTATG
*
106129133 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
106129164 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
106129194 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
106129224 CCA
1 CCA
106129227 TAAATATGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:106129188 original size:15 final size:15
Alignment explanation
Indices: 106129143--106129220 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
106129133 CCAATATCTC
106129143 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
106129158 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
106129173 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
106129188 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
106129203 GATACCCATATCTTT
1 GATACCCATATCTTT
106129218 GAT
1 GAT
106129221 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:106129840 original size:6 final size:6
Alignment explanation
Indices: 106129829--106129863 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
106129819 ACATGTCACA
*
106129829 GTATAT GTATAT TTATAT GTATAT GTATAT GTATA
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATA
106129864 GTAACATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (6 bp):
GTATAT
Found at i:106135477 original size:21 final size:19
Alignment explanation
Indices: 106135453--106135515 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 19
106135443 AAAATATACG
106135453 CATAATAATACTAAATATATA
1 CATAATAA-A-TAAATATATA
* *
106135474 CATACTAAATATATATATA
1 CATAATAAATAAATATATA
* *
106135493 CATAGTATAAATGAACATATA
1 CATA--ATAAATAAATATATA
106135514 CA
1 CA
106135516 ATATATATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 1 0.03
21 20 0.59
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32
Consensus pattern (19 bp):
CATAATAAATAAATATATA
Found at i:106135480 original size:15 final size:15
Alignment explanation
Indices: 106135460--106135493 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
106135450 ACGCATAATA
106135460 ATACTAAATATATAC
1 ATACTAAATATATAC
*
106135475 ATACTAAATATATAT
1 ATACTAAATATATAC
106135490 ATAC
1 ATAC
106135494 ATAGTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (15 bp):
ATACTAAATATATAC
Found at i:106136305 original size:17 final size:17
Alignment explanation
Indices: 106136240--106136306 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
106136230 AGTAATAAAG
*
106136240 AATAATAATACA-TCAAT
1 AATAATAATATAGT-AAT
*
106136257 AATAATAATATTTGT--T
1 AATAATAATA-TAGTAAT
* *
106136273 AATGACAATAATAGTAAT
1 AATAATAAT-ATAGTAAT
106136291 AATAATAATATAGTAA
1 AATAATAATATAGTAA
106136307 AAGTCAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
16 11 0.29
17 18 0.47
18 8 0.21
19 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (17 bp):
AATAATAATATAGTAAT
Found at i:106136698 original size:134 final size:131
Alignment explanation
Indices: 106136466--106136710 Score: 309
Period size: 134 Copynumber: 1.8 Consensus size: 131
106136456 CATAATAATA
*
106136466 ATAATAATAATATTAAAGTAAAGTAAAAAAATAACACTATATATAAACATATATATATACATATA
1 ATAATAATAATATTAAAATAAAGTAAAAAAATAACACTATATATAAACATATATATATACATATA
* * *
106136531 GAATATAAATACACACTAATGTATGATAATAATAATAGTAATAATATTGAAATACAAAAAATATA
66 GAATATAAAAACACACTAATATATGATAATAATAATAATAATAATATTGAAATACAAAAAATATA
106136596 T
131 T
* *
106136597 ATAATAA-AATATTAAAA-ATAAGTAATGAAAAATAATACTATATATAAATATATATACATATAC
1 ATAATAATAATATTAAAATA-AAGTAA--AAAAATAACACTATATATAAACATATAT--ATATAC
* * * *
106136660 CTATACG-ATA-AAGAAATACACTATTATATGGTAATAATAATAATAATAATA
61 ATATA-GAATATAA-AAACACACTAATATATGATAATAATAATAATAATAATA
106136711 ATAATAATAA
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
129 1 0.01
130 15 0.15
131 7 0.07
132 26 0.27
133 2 0.02
134 45 0.46
135 1 0.01
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (131 bp):
ATAATAATAATATTAAAATAAAGTAAAAAAATAACACTATATATAAACATATATATATACATATA
GAATATAAAAACACACTAATATATGATAATAATAATAATAATAATATTGAAATACAAAAAATATA
T
Found at i:106136699 original size:3 final size:3
Alignment explanation
Indices: 106136691--106136827 Score: 102
Period size: 3 Copynumber: 45.7 Consensus size: 3
106136681 TATTATATGG
106136691 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * ** *
106136740 -AGA TAA -AA -AGA TAA TAA TAA T-A TAG TAG TAG TAA TAA CCA TAG
1 TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*** * * *
106136783 TAA TAA TAA CGG TAA TAA TGA TAAA TAG TAA TAA TAA CAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TA
106136828 TAAATGATAA
Statistics
Matches: 108, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
2 5 0.05
3 98 0.91
4 5 0.05
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:106136855 original size:18 final size:18
Alignment explanation
Indices: 106136812--106136863 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
106136802 GATAAATAGT
106136812 AATAATAACAATAATATA
1 AATAATAACAATAATATA
* * *
106136830 AATGATAAC-ATACATGTG
1 AATAATAACAATA-ATATA
*
106136848 AATAATAATAATAATA
1 AATAATAACAATAATA
106136864 GCAATAATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
AATAATAACAATAATATA
Found at i:106138182 original size:137 final size:137
Alignment explanation
Indices: 106137936--106138222 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
106137926 CATTGGGCCT
* * *
106137936 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAGATTACAATAAACTAGGCCTT
106138001 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
106138066 CATATGC
131 CATATAC
* *
106138073 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAGATTACAATAAACTAGGCCTT
* *
106138138 AGCCCCTTATTCAGATAATAGTATGGTCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
106138203 CATATAC
131 CATATAC
106138210 AAGCCCATTTAGG
1 AAGCCCATTTAGG
106138223 GAGACTACTC
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 141 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTAGGTAACAGTGGTACTGGGCCAAAACCCTTTTCAGATTACAATAAACTAGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATAC
Found at i:106138507 original size:25 final size:27
Alignment explanation
Indices: 106138470--106138522 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
106138460 TCAAACATGC
106138470 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
106138496 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
106138522 A
1 A
106138523 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:106140039 original size:26 final size:26
Alignment explanation
Indices: 106140008--106140167 Score: 214
Period size: 26 Copynumber: 6.2 Consensus size: 26
106139998 TGAAATGCCC
106140008 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
106140034 ATCATGGAACATTTACCTAACCCACT
1 ATCATGGAACATTTACCTAAACCATT
* * *
106140060 ATTATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
106140086 ATCATAGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* **
106140112 ATCATGGAATATTTACCTAATTCATT
1 ATCATGGAACATTTACCTAAACCATT
*
106140138 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
106140164 ATCA
1 ATCA
106140168 ATTTGTACCA
Statistics
Matches: 115, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
25 3 0.03
26 110 0.96
27 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:106140089 original size:52 final size:52
Alignment explanation
Indices: 106140008--106140167 Score: 248
Period size: 52 Copynumber: 3.1 Consensus size: 52
106139998 TGAAATGCCC
* *
106140008 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCACT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCACT
* * * *
106140060 ATTATGGAATATTTACCTAATCCATTATCATAGAACATTTACCTAACCTATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCACT
* *
106140112 ATCATGGAATATTTACCTAATTCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCACT
106140164 ATCA
1 ATCA
106140168 ATTTGTACCA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 98 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCACT
Found at i:106141204 original size:20 final size:20
Alignment explanation
Indices: 106141179--106141217 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
106141169 AAAATTTTGG
*
106141179 GTTTAATTTGTTGGGTTTTA
1 GTTTAATGTGTTGGGTTTTA
106141199 GTTTAATGTGTTGGGTTTT
1 GTTTAATGTGTTGGGTTTT
106141218 GGGGTTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.28, T:0.59
Consensus pattern (20 bp):
GTTTAATGTGTTGGGTTTTA
Found at i:106146711 original size:17 final size:17
Alignment explanation
Indices: 106146677--106146725 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
106146667 ATCTAAAAAA
*
106146677 ATTTATATACATTGATTTT
1 ATTTATAT-CATTTA-TTT
106146696 ATTT-TATCATTTATTT
1 ATTTATATCATTTATTT
*
106146712 ATTTATATCCTTTA
1 ATTTATATCATTTA
106146726 ATATAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 7 0.26
17 13 0.48
18 3 0.11
19 4 0.15
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTATATCATTTATTT
Found at i:106151555 original size:18 final size:18
Alignment explanation
Indices: 106151534--106151673 Score: 78
Period size: 18 Copynumber: 8.1 Consensus size: 18
106151524 GGCCCCCATT
*
106151534 GCGACAACCTCCACCGGC
1 GCGACAACCTCCACCGCC
106151552 GCGACAACCTCCACCGCC
1 GCGACAACCTCCACCGCC
* * *
106151570 GCGA-AAGCCTCTACTGCG
1 GCGACAA-CCTCCACCGCC
*
106151588 GCGAC-A-----GCCGCC
1 GCGACAACCTCCACCGCC
* * *
106151600 ACGACAACCTCCACTGCA
1 GCGACAACCTCCACCGCC
* * *
106151618 ACGACAACCTCGACCGCA
1 GCGACAACCTCCACCGCC
* * *
106151636 GCGACAGCCTCGACCGTC
1 GCGACAACCTCCACCGCC
* *
106151654 GCGACAGCCGCCACCGCC
1 GCGACAACCTCCACCGCC
106151672 GC
1 GC
106151674 CTCAACAGCC
Statistics
Matches: 94, Mismatches: 20, Indels: 16
0.72 0.15 0.12
Matches are distributed among these distances:
12 7 0.07
13 1 0.01
17 2 0.02
18 84 0.89
ACGTcount: A:0.23, C:0.47, G:0.23, T:0.07
Consensus pattern (18 bp):
GCGACAACCTCCACCGCC
Found at i:106151640 original size:48 final size:48
Alignment explanation
Indices: 106151553--106151644 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
106151543 TCCACCGGCG
** * * *
106151553 CGACAACCTCCACCGCCGCGAAAGCCTCTACTGCGGCGACAGCCGCCA
1 CGACAACCTCCACCGCAACGAAAGCCTCGACCGCAGCGACAGCCGCCA
*
106151601 CGACAACCTCCACTGCAACGACAA-CCTCGACCGCAGCGACAGCC
1 CGACAACCTCCACCGCAACGA-AAGCCTCGACCGCAGCGACAGCC
106151645 TCGACCGTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
48 35 0.95
49 2 0.05
ACGTcount: A:0.26, C:0.46, G:0.21, T:0.08
Consensus pattern (48 bp):
CGACAACCTCCACCGCAACGAAAGCCTCGACCGCAGCGACAGCCGCCA
Found at i:106151645 original size:66 final size:66
Alignment explanation
Indices: 106151535--106151667 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 66
106151525 GCCCCCATTG
* * * *
106151535 CGACAACCTCCACCGGCGCGACAACCTCCACCGCCGCGAAAGCCTCTACTG-CGGCGACAGCCGC
1 CGACAACCTCCACCGGCACGACAACCTCCACCGCAGCGAAAGCCTCGACCGTC-GCGACAGCCGC
106151599 CA
65 CA
* * *
106151601 CGACAACCTCCA-CTGCAACGACAACCTCGACCGCAGCGACAGCCTCGACCGTCGCGACAGCCGC
1 CGACAACCTCCACCGGC-ACGACAACCTCCACCGCAGCGAAAGCCTCGACCGTCGCGACAGCCGC
106151665 CA
65 CA
106151667 C
1 C
106151668 CGCCGCCTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 3 0.05
66 54 0.93
67 1 0.02
ACGTcount: A:0.24, C:0.47, G:0.22, T:0.08
Consensus pattern (66 bp):
CGACAACCTCCACCGGCACGACAACCTCCACCGCAGCGAAAGCCTCGACCGTCGCGACAGCCGCC
A
Found at i:106151711 original size:18 final size:18
Alignment explanation
Indices: 106151619--106151806 Score: 92
Period size: 18 Copynumber: 10.2 Consensus size: 18
106151609 TCCACTGCAA
* *
106151619 CGACAACCTCGACCGCAG
1 CGACAGCCTCAACCGCAG
*
106151637 CGACAGCCTCGACCGTC-G
1 CGACAGCCTCAACCG-CAG
* * *
106151655 CGACAGCCGCCACCGCCG
1 CGACAGCCTCAACCGCAG
* * *
106151673 CCTCAACAGCCTCTACTGCAG
1 ---CGACAGCCTCAACCGCAG
*
106151694 CGACAACCTCAACCGCAG
1 CGACAGCCTCAACCGCAG
* * *
106151712 CAACAGCCTCGACCGCTG
1 CGACAGCCTCAACCGCAG
* * * *
106151730 CGACA-ACTGAACTGCCGG
1 CGACAGCCTCAACCG-CAG
* *
106151748 CTCGACAGCCTCCACTGCAG
1 --CGACAGCCTCAACCGCAG
*
106151768 CGACAACCTCAACCGCAG
1 CGACAGCCTCAACCGCAG
** *
106151786 TAACAGCCTCAACCGCCG
1 CGACAGCCTCAACCGCAG
106151804 CGA
1 CGA
106151807 AAGCTTCCAC
Statistics
Matches: 126, Mismatches: 35, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
17 6 0.05
18 93 0.74
19 1 0.01
20 7 0.06
21 19 0.15
ACGTcount: A:0.25, C:0.44, G:0.21, T:0.10
Consensus pattern (18 bp):
CGACAGCCTCAACCGCAG
Found at i:106151779 original size:74 final size:75
Alignment explanation
Indices: 106151594--106151806 Score: 268
Period size: 74 Copynumber: 2.9 Consensus size: 75
106151584 TGCGGCGACA
* * * * *
106151594 GCCGCCACGACAACCTCCACTGCAACGACAACCTCGACCGCAGCGACAGCCTCGACCG-TCGCGA
1 GCCGCCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCT-GCGA
* *
106151658 CAGCCGCCACC
65 CAACCGCAACC
* *
106151669 GCCGCCTCAACAGCCTCTACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCTGCGAC
1 GCCGCCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCTGCGAC
* *
106151734 AACTG-AACT
66 AACCGCAACC
* * * *
106151743 GCCGGCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGTAACAGCCTCAACCGCCGCGA
1 GCCGCCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCTGCGA
106151807 AAGCTTCCAC
Statistics
Matches: 120, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
74 60 0.50
75 59 0.49
76 1 0.01
ACGTcount: A:0.25, C:0.45, G:0.21, T:0.09
Consensus pattern (75 bp):
GCCGCCTCGACAGCCTCCACTGCAGCGACAACCTCAACCGCAGCAACAGCCTCGACCGCTGCGAC
AACCGCAACC
Found at i:106152709 original size:14 final size:15
Alignment explanation
Indices: 106152677--106152708 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
106152667 TTTTGAGCAA
*
106152677 TTTAATTTTTTTTCT
1 TTTAACTTTTTTTCT
106152692 TTTAACTTTTTTTCT
1 TTTAACTTTTTTTCT
106152707 TT
1 TT
106152709 ATTTTCCATT
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:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTAACTTTTTTTCT
Found at i:106153742 original size:24 final size:24
Alignment explanation
Indices: 106153698--106153743 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
106153688 AGTCCCTTAC
*
106153698 AAGCCCAAAAACAACAAAAAACAG
1 AAGCCCAAAAACAAAAAAAAACAG
*
106153722 AAGCCC-AAATCAAAAATAAAAC
1 AAGCCCAAAAACAAAAA-AAAAC
106153744 CCTAAGACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.65, C:0.24, G:0.07, T:0.04
Consensus pattern (24 bp):
AAGCCCAAAAACAAAAAAAAACAG
Found at i:106154043 original size:24 final size:24
Alignment explanation
Indices: 106154006--106154053 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
106153996 ACAAACACAG
*
106154006 AAAATTGAATAAAAAAACAGAGAA
1 AAAATTGAAAAAAAAAACAGAGAA
* * *
106154030 AAAATTTAAAAAAAACATAGAGAA
1 AAAATTGAAAAAAAAAACAGAGAA
106154054 TCAATCAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.71, C:0.04, G:0.10, T:0.15
Consensus pattern (24 bp):
AAAATTGAAAAAAAAAACAGAGAA
Found at i:106154942 original size:18 final size:18
Alignment explanation
Indices: 106154915--106154953 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
106154905 TCTGTTATAT
106154915 TTTATCATTTTATT-TTA
1 TTTATCATTTTATTATTA
106154932 TTTATCTATTTTATTATTA
1 TTTATC-ATTTTATTATTA
106154951 TTT
1 TTT
106154954 CCTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 8 0.40
19 6 0.30
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATCATTTTATTATTA
Found at i:106157799 original size:25 final size:25
Alignment explanation
Indices: 106157769--106157824 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
106157759 AGAGTAACAG
*
106157769 ATAAAAAT-AATAAAGATGATGAA-A
1 ATAAAAATAAATAAAGATAAT-AAGA
*
106157793 ATAAAAATAAATAAGGATAATAAGA
1 ATAAAAATAAATAAAGATAATAAGA
106157818 ATAAAAA
1 ATAAAAA
106157825 AAGAAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.20
Consensus pattern (25 bp):
ATAAAAATAAATAAAGATAATAAGA
Found at i:106157868 original size:15 final size:15
Alignment explanation
Indices: 106157850--106157887 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
106157840 AAACCGATAA
106157850 ATAAATAAGTAAAAT
1 ATAAATAAGTAAAAT
106157865 ATAAA-ATAGTAAAAT
1 ATAAATA-AGTAAAAT
*
106157880 AAAAATAA
1 ATAAATAA
106157888 TAATGTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.05
15 18 0.90
16 1 0.05
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (15 bp):
ATAAATAAGTAAAAT
Found at i:106158406 original size:15 final size:17
Alignment explanation
Indices: 106158364--106158406 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
106158354 TACAAGTAGG
106158364 TAAGAAAAATAAATATA
1 TAAGAAAAATAAATATA
106158381 TAAATGAAAAATAAATA-A
1 T-AA-GAAAAATAAATATA
106158399 TAAGAAAA
1 TAAGAAAA
106158407 CAAATATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 3 0.12
18 4 0.17
19 12 0.50
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (17 bp):
TAAGAAAAATAAATATA
Found at i:106158525 original size:3 final size:3
Alignment explanation
Indices: 106158517--106158552 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
106158507 CAGTAATTAA
106158517 AAT AAT AAT AAT AAT AGAT AAT AGAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT A
106158553 TATTAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:106158564 original size:26 final size:23
Alignment explanation
Indices: 106158511--106158569 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
106158501 TAGTAACAGT
106158511 AATTAA-AATAATAATAATAATA
1 AATTAATAATAATAATAATAATA
*
106158533 GA-TAATAGATAATAATAATATATTA
1 AATTAATA-ATAATAATAATA-A-TA
106158558 AATTAATCAATA
1 AATTAAT-AATA
106158570 TAAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 3 0.10
22 2 0.07
23 12 0.41
24 1 0.03
25 3 0.10
26 7 0.24
27 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (23 bp):
AATTAATAATAATAATAATAATA
Found at i:106158569 original size:23 final size:21
Alignment explanation
Indices: 106158516--106158569 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 21
106158506 ACAGTAATTA
106158516 AAATAATAATAATAATAGA-T
1 AAATAATAATAATAATAGATT
*
106158536 -AATAGATAATAATAATATATT
1 AAATA-ATAATAATAATAGATT
106158557 AAATTAATCAATA
1 AAA-TAAT-AATA
106158570 TAAAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 1 0.04
22 4 0.14
23 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (21 bp):
AAATAATAATAATAATAGATT
Found at i:106158743 original size:3 final size:3
Alignment explanation
Indices: 106158724--106158845 Score: 63
Period size: 3 Copynumber: 40.0 Consensus size: 3
106158714 AATAAAACAT
* * *
106158724 ATA A-A ATA ATG ATA ATA ATA ATTA CA-A ATA GTA AAA CATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA -ATA ATA ATA ATA -ATA ATA ATA
* ** * * * *
106158770 ATA ATA ATA ATA ATA ACA GCA AGA ATA AAA ATA GTA ATG ATA ATA GA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
*
106158818 GATA ATA ATA ATA CT- ATA ATAA ATA ATA
1 -ATA ATA ATA ATA ATA ATA AT-A ATA ATA
106158846 GATTAAATTA
Statistics
Matches: 91, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
2 4 0.04
3 77 0.85
4 9 0.10
5 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:106162233 original size:3 final size:3
Alignment explanation
Indices: 106162212--106162326 Score: 135
Period size: 3 Copynumber: 38.7 Consensus size: 3
106162202 AAAAGAAAAT
* *
106162212 ATA ATT ATA ATA GTA ATA ATA ATA ATA ATA ATA GA-A ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * *
106162256 GTA ATA ATA ATA ATA ATG ATA ATA GTA ATA ATA ATA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
106162304 GTA ATA ATA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
106162327 TATATTATTA
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
2 3 0.03
3 89 0.96
4 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:106162251 original size:71 final size:71
Alignment explanation
Indices: 106162110--106162243 Score: 182
Period size: 71 Copynumber: 1.9 Consensus size: 71
106162100 TTTAAAGAAT
* * * *
106162110 AATAATAAGTAAATAAATACAAAAAAGAAATATGATAGTAATAGTAATAATATTAAATTAATTAA
1 AATAATAAGTAAATAAACACAAAAAAGAAATATAATAGTAATAGTAATAATAATAAAATAATTAA
106162175 TAATAA
66 TAATAA
*
106162181 AATAATATGTAAATAAACAC-AAAAAGAAAATATAATTA-TAATAGTAATAATAATAATAATAAT
1 AATAATAAGTAAATAAACACAAAAAAG-AAATATAA-TAGTAATAGTAATAATAATAA-AATAAT
106162244 AGAAATAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
70 6 0.11
71 42 0.76
72 7 0.13
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (71 bp):
AATAATAAGTAAATAAACACAAAAAAGAAATATAATAGTAATAGTAATAATAATAAAATAATTAA
TAATAA
Found at i:106166862 original size:25 final size:26
Alignment explanation
Indices: 106166834--106166882 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
106166824 AAAAATAATA
* *
106166834 ATTTATTTAGGTTGTGG-ATTTTTCT
1 ATTTATTTAAGTGGTGGAATTTTTCT
*
106166859 ATTTTTTTAAGTGGTGGAATTTTT
1 ATTTATTTAAGTGGTGGAATTTTT
106166883 TTTGCCCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.18, C:0.02, G:0.20, T:0.59
Consensus pattern (26 bp):
ATTTATTTAAGTGGTGGAATTTTTCT
Found at i:106172633 original size:60 final size:59
Alignment explanation
Indices: 106172500--106172643 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 59
106172490 TATGGATTTT
* * * *
106172500 TTTTCTTTTTTGGTCACCTAACTATGAAAAGTTATAAAATGGTCACCCAACTATTAGTA
1 TTTTCTTTTTTGGTCACCGAACTATGAAAAGTTACAAAATGATCACCCAACTATTAATA
* * * ** *
106172559 TCTTT-TTCTCTTGGTCACCGAATTATGAAAAGTTACAAAATGATTACTTAATTATTCAATA
1 T-TTTCTT-TTTTGGTCACCGAACTATGAAAAGTTACAAAATGATCACCCAACTATT-AATA
*
106172620 TTTTCTTTTTTGGTCACCCAACTA
1 TTTTCTTTTTTGGTCACCGAACTA
106172644 ACTAGGATTT
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
59 3 0.04
60 59 0.87
61 6 0.09
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (59 bp):
TTTTCTTTTTTGGTCACCGAACTATGAAAAGTTACAAAATGATCACCCAACTATTAATA
Found at i:106172706 original size:10 final size:9
Alignment explanation
Indices: 106172688--106172712 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
106172678 GCCAGCTAGT
106172688 AACAAAAAA
1 AACAAAAAA
106172697 AACAAAAAA
1 AACAAAAAA
106172706 AACAAAA
1 AACAAAA
106172713 TTAAATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AACAAAAAA
Found at i:106175540 original size:93 final size:93
Alignment explanation
Indices: 106175381--106175551 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
106175371 GCTCATAAGT
* * *
106175381 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
106175446 CGAGTTCGGATGCCTAGTTACATCTCTC
66 CGAGTTCGGATGCCTAGTTACATCTCTC
* *
106175474 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
106175539 CGAGTTCGGATGC
66 CGAGTTCGGATGC
106175552 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:106175548 original size:46 final size:46
Alignment explanation
Indices: 106175374--106175548 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
106175364 GTAACCCGCT
* * * *
106175374 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATC
* * *
106175420 CATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATC
*
106175470 TC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATC
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATC
106175513 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
106175549 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 62 0.57
47 29 0.27
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATC
Found at i:106180731 original size:23 final size:22
Alignment explanation
Indices: 106180678--106180750 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
106180668 ATTATAAAAA
* *
106180678 ATAATTTTAA-ATTCATTTTTT
1 ATAATTTAAATATTAATTTTTT
* *
106180699 ATACTATAAATATTAATTTTATT
1 ATAATTTAAATATTAATTTT-TT
106180722 ATAATTTAAATTTATTTAATTTTTT
1 ATAATTTAAA--TA-TTAATTTTTT
106180747 -TAAT
1 ATAAT
106180751 AATATAAAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
21 7 0.17
22 8 0.20
23 10 0.24
24 4 0.10
25 4 0.10
26 8 0.20
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (22 bp):
ATAATTTAAATATTAATTTTTT
Found at i:106185810 original size:38 final size:38
Alignment explanation
Indices: 106185767--106185846 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
106185757 ATTATGGATA
*
106185767 GCTAAGATTATAAGATACCGTTAGGGTTTAGATCTAGG
1 GCTAAGATTATAAGATACCGTTAGGGTTTAAATCTAGG
* * * *
106185805 GCTAAGATTATTAGTTATCTTTAGGGTTTAAATCTAGG
1 GCTAAGATTATAAGATACCGTTAGGGTTTAAATCTAGG
106185843 GCTA
1 GCTA
106185847 TTAGAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.36
Consensus pattern (38 bp):
GCTAAGATTATAAGATACCGTTAGGGTTTAAATCTAGG
Found at i:106186769 original size:146 final size:146
Alignment explanation
Indices: 106186505--106186800 Score: 583
Period size: 146 Copynumber: 2.0 Consensus size: 146
106186495 ATATCTAATT
106186505 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
1 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
*
106186570 AAAAAGTCCTGATTTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
66 AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
106186635 GTGATCTTTACTGTGG
131 GTGATCTTTACTGTGG
106186651 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
1 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
106186716 AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
66 AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
106186781 GTGATCTTTACTGTGG
131 GTGATCTTTACTGTGG
106186797 CTAC
1 CTAC
106186801 GTTTCCACTT
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 149 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (146 bp):
CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
GTGATCTTTACTGTGG
Done.