Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 38 of 172
Found at i:9589755 original size:18 final size:17
Alignment explanation
Indices: 9589734--9589768 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9589724 TTATTATTAA
*
9589734 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9589752 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9589769 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9589791 original size:119 final size:120
Alignment explanation
Indices: 9589593--9589882 Score: 519
Period size: 119 Copynumber: 2.4 Consensus size: 120
9589583 ATTTAATCAT
*
9589593 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
9589658 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATAATAT-AAAGATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATAATATAAAAGATA
9589713 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
9589778 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATAATATAAAAGATA
* *
9589833 AATTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA
9589883 AATTTAAAAT
Statistics
Matches: 164, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
119 106 0.65
120 58 0.35
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATAATATAAAAGATA
Found at i:9590009 original size:40 final size:40
Alignment explanation
Indices: 9589965--9590044 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
9589955 ATATAATTTA
9589965 ATAATAATATATAATTTCATAAAATTCTTGATAATAAATT
1 ATAATAATATATAATTTCATAAAATTCTTGATAATAAATT
9590005 ATAATAATATATAATTTCATAAAATTCTTGATAATAAATT
1 ATAATAATATATAATTTCATAAAATTCTTGATAATAAATT
9590045 TTCTTATATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (40 bp):
ATAATAATATATAATTTCATAAAATTCTTGATAATAAATT
Found at i:9590038 original size:20 final size:20
Alignment explanation
Indices: 9589975--9590039 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
9589965 ATAATAATAT
9589975 ATAATTTCATAAAATTCTTG
1 ATAATTTCATAAAATTCTTG
*
9589995 ATAATAAATT-ATAATAA-T-AT-
1 ATAAT---TTCATAA-AATTCTTG
9590015 ATAATTTCATAAAATTCTTG
1 ATAATTTCATAAAATTCTTG
9590035 ATAAT
1 ATAAT
9590040 AAATTTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 16
0.66 0.04 0.30
Matches are distributed among these distances:
17 4 0.11
18 5 0.14
19 1 0.03
20 15 0.43
21 1 0.03
22 5 0.14
23 4 0.11
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (20 bp):
ATAATTTCATAAAATTCTTG
Found at i:9590404 original size:13 final size:13
Alignment explanation
Indices: 9590386--9590410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9590376 ATCAAATTTG
9590386 TATGTACTCTTTA
1 TATGTACTCTTTA
9590399 TATGTACTCTTT
1 TATGTACTCTTT
9590411 CACTAATAAA
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:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:9590931 original size:29 final size:28
Alignment explanation
Indices: 9590891--9590965 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 28
9590881 AACCCTAAAC
9590891 AAATGCA-ACAATTTCCAGTTTCATTGA
1 AAATGCAGACAATTTCCAGTTTCATTGA
*
9590918 AAATAGCAGACAATTTCTAGTTTCATTGA
1 AAAT-GCAGACAATTTCCAGTTTCATTGA
9590947 AAACTGCAGACAATTTCCA
1 AAA-TGCAGACAATTTCCA
9590966 TTGCAACAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 4 0.09
28 3 0.07
29 35 0.81
30 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (28 bp):
AAATGCAGACAATTTCCAGTTTCATTGA
Found at i:9594510 original size:23 final size:24
Alignment explanation
Indices: 9594479--9594523 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9594469 AATTTTAAAT
9594479 TTAATAATAGAAAAATTAAAATGG
1 TTAATAATAGAAAAATTAAAATGG
*
9594503 TTAA-AATATAAAAATTAAAAT
1 TTAATAATAGAAAAATTAAAAT
9594524 TAGTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (24 bp):
TTAATAATAGAAAAATTAAAATGG
Found at i:9594541 original size:25 final size:23
Alignment explanation
Indices: 9594479--9594543 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 23
9594469 AATTTTAAAT
*
9594479 TTAATAATAGAAAAATTAAAATGG
1 TTAA-AATATAAAAATTAAAATGG
*
9594503 TTAAAATATAAAAATTAAAATTAGT
1 TTAAAATATAAAAATTAAAA-T-GG
*
9594528 TTAAAATATCAAAATT
1 TTAAAATATAAAAATT
9594544 TTGTACCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.42
24 5 0.14
25 16 0.44
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (23 bp):
TTAAAATATAAAAATTAAAATGG
Found at i:9595021 original size:21 final size:21
Alignment explanation
Indices: 9594982--9595051 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
9594972 TTAGCTAATC
* *
9594982 TCTAAAA-AAATTACAAAAAA
1 TCTAAAATAATTTTCAAAAAA
*
9595002 TCTAAAATAATTTTCAAAAAT
1 TCTAAAATAATTTTCAAAAAA
* *
9595023 TCAAAAATTATATTTTAAAAAAA
1 TCTAAAA-TA-ATTTTCAAAAAA
9595046 T-TAAAA
1 TCTAAAA
9595052 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 7 0.17
21 16 0.40
22 6 0.15
23 11 0.28
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (21 bp):
TCTAAAATAATTTTCAAAAAA
Found at i:9595043 original size:23 final size:23
Alignment explanation
Indices: 9594996--9595054 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
9594986 AAAAAATTAC
*
9594996 AAAAAA-TCTAAAA-TAATTTT-
1 AAAAAATTCAAAAATTAATTTTA
*
9595016 CAAAAATTCAAAAATTATATTTTA
1 AAAAAATTCAAAAATTA-ATTTTA
9595040 AAAAAATT-AAAAATT
1 AAAAAATTCAAAAATT
9595055 TTAAAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 5 0.16
21 6 0.19
22 2 0.06
23 12 0.38
24 7 0.22
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAAATTCAAAAATTAATTTTA
Found at i:9595051 original size:22 final size:19
Alignment explanation
Indices: 9594996--9595060 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 19
9594986 AAAAAATTAC
9594996 AAAAAATCTAAAATAATTTT
1 AAAAAAT-TAAAATAATTTT
*
9595016 CAAAAATTCAAAAATTATATTTT
1 AAAAAATT--AAAA-TA-ATTTT
9595039 AAAAAAATT-AAA-AATTTT
1 -AAAAAATTAAAATAATTTT
9595057 AAAA
1 AAAA
9595061 TATAATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
17 4 0.11
18 5 0.13
19 2 0.05
20 6 0.16
21 7 0.18
22 2 0.05
23 5 0.13
24 7 0.18
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAAATTAAAATAATTTT
Found at i:9595075 original size:21 final size:18
Alignment explanation
Indices: 9595034--9595082 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 18
9595024 CAAAAATTAT
9595034 ATTTTAAAAAAATTAAAA
1 ATTTTAAAAAAATTAAAA
*
9595052 ATTTTAAAATATAATTTTAAA
1 ATTTTAAAA-A-AA-TTAAAA
9595073 ATTTTAAAAA
1 ATTTTAAAAA
9595083 TTTTCTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 9 0.33
19 1 0.04
20 3 0.11
21 14 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTTAAAAAAATTAAAA
Found at i:9595082 original size:30 final size:31
Alignment explanation
Indices: 9595010--9595102 Score: 91
Period size: 31 Copynumber: 2.9 Consensus size: 31
9595000 AATCTAAAAT
**
9595010 AATTTTCAAAAATTCAAAAAT-TATATTTTAAA
1 AATTTT-AAAAATTTTAAAATATA-ATTTTAAA
**
9595042 AAAATTAAAAATTTTAAAATATAATTTT-AA
1 AATTTTAAAAATTTTAAAATATAATTTTAAA
9595072 AATTTTAAAAATTTTCTAAAATAATAATTTT
1 AATTTTAAAAA-TTT-TAAAAT-ATAATTTT
9595103 GGAACTAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
30 11 0.22
31 20 0.39
32 12 0.24
33 8 0.16
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (31 bp):
AATTTTAAAAATTTTAAAATATAATTTTAAA
Found at i:9601448 original size:109 final size:112
Alignment explanation
Indices: 9601319--9601522 Score: 261
Period size: 109 Copynumber: 1.8 Consensus size: 112
9601309 CACTTTTTAA
* * ** *
9601319 TATTAAAAAATAATTGTTTTTTGGTGTTAACACACTAATAGTCGATATTCATTTTATCAGAT-AA
1 TATTAAAAAATAATTGTTTTTTGGTGCTAACACACTAATAGTCGACACCCACTTTATCAGATAAA
* *
9601383 AAAAATTTTGGGTTGGGGGAACTAGATGGCCAACATTACCTTTTTCT
66 AAAAAATTTGGGTTGAGGGAACTAGATGGCCAACATTACCTTTTTCT
* ** * * *
9601430 TATTAAAAGAT-ATT-TTTTTTGGTGCTGGCACACTAATGGTTGACACCCACTTTATTAGATAAA
1 TATTAAAAAATAATTGTTTTTTGGTGCTAACACACTAATAGTCGACACCCACTTTATCAGATAAA
*
9601493 AAAAAATTTGGGTTTAGGGAACTAGATGGC
66 AAAAAATTTGGGTTGAGGGAACTAGATGGC
9601523 TGACACCAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
109 36 0.46
110 32 0.41
111 10 0.13
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (112 bp):
TATTAAAAAATAATTGTTTTTTGGTGCTAACACACTAATAGTCGACACCCACTTTATCAGATAAA
AAAAAATTTGGGTTGAGGGAACTAGATGGCCAACATTACCTTTTTCT
Found at i:9607687 original size:90 final size:89
Alignment explanation
Indices: 9607525--9607792 Score: 252
Period size: 90 Copynumber: 3.0 Consensus size: 89
9607515 AGCATTCTAT
* * * * ** * * *
9607525 AAAACTAATATACGAAAATATATAATTTGACCAACAAATAGCACATACTAAATTTTATTTACAAA
1 AAAATTAATATAAGAAAATATAAAATTCGACCAACAAATAATACAGACTAAAATTT-TTTACAGA
* *
9607590 TAAAAAAATAATATGAACATTTTAG
65 TACAAAAATAATATGAACATTTTAC
* *
9607615 AAAATTGATATAAGAAAATATAAAATTCGACCGACAAATAATACAGACTAAAATATTTTTACAGA
1 AAAATTAATATAAGAAAATATAAAATTCGACCAACAAATAATACAGACTAAAAT-TTTTTACAGA
* * * *
9607680 TCCAAAAATGAT-TCAAATATTTTAC
65 TACAAAAATAATAT-GAACATTTTAC
* * ** * * *
9607705 AAAATTAATATACA-AAAATATGAAATTCAAAAAACAAATAATATAGACTAAAATTGATTTACGG
1 AAAATTAATATA-AGAAAATATAAAATTCGACCAACAAATAATACAGACTAAAATT-TTTTACAG
*
9607769 ATACAAAAATAATATGAAGATTTT
64 ATACAAAAATAATATGAACATTTT
9607793 GAATAATAGT
Statistics
Matches: 143, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
89 2 0.01
90 137 0.96
91 4 0.03
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (89 bp):
AAAATTAATATAAGAAAATATAAAATTCGACCAACAAATAATACAGACTAAAATTTTTTACAGAT
ACAAAAATAATATGAACATTTTAC
Found at i:9608213 original size:12 final size:11
Alignment explanation
Indices: 9608185--9608214 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
9608175 TTTATTTTTT
9608185 TATTTTTAAAA
1 TATTTTTAAAA
9608196 TATTTTTAAAA
1 TATTTTTAAAA
9608207 TACTTTTT
1 TA-TTTTT
9608215 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:9608218 original size:15 final size:15
Alignment explanation
Indices: 9608198--9608247 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
9608188 TTTTAAAATA
*
9608198 TTTTTAAAATACTTT
1 TTTTTAAAATAATTT
* **
9608213 TTTTTAAATTTTTTT
1 TTTTTAAAATAATTT
9608228 ATTTTTAAAATAATTT
1 -TTTTTAAAATAATTT
9608244 TTTT
1 TTTT
9608248 GTGTTTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTAAAATAATTT
Found at i:9609249 original size:20 final size:20
Alignment explanation
Indices: 9609203--9609249 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 20
9609193 TTAAACATTT
9609203 AATAGTTTTAAACTAAATTATA
1 AATA-TTTTAAAC-AAATTATA
9609225 AATATTTTAAA-AAATTATGA
1 AATATTTTAAACAAATTAT-A
9609245 AATAT
1 AATAT
9609250 GGATTAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 7 0.29
22 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (20 bp):
AATATTTTAAACAAATTATA
Found at i:9614588 original size:47 final size:47
Alignment explanation
Indices: 9614527--9615158 Score: 1057
Period size: 47 Copynumber: 13.4 Consensus size: 47
9614517 CAGCCAAGAC
*
9614527 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
9614574 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
9614621 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
9614668 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
9614715 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
9614762 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
9614809 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
9614858 AGTGTATATGTATGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
9614905 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
9614952 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
9614999 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
9615046 AGTGTATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
9615093 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
9615140 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
9615159 TCCCGAAGGG
Statistics
Matches: 558, Mismatches: 25, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 511 0.92
49 47 0.08
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:9615346 original size:37 final size:37
Alignment explanation
Indices: 9615277--9615355 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
9615267 CCGAGCTCTA
* *
9615277 AAGACCCGATGACTACGTATGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTATGGGAATTATGTCCGGGT
* *
9615314 AAGACCCGATAACTTCGTGT-GGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTATGGGA-ATTATGTCCGGGT
9615351 AAGAC
1 AAGAC
9615356 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTATGGGAATTATGTCCGGGT
Found at i:9623932 original size:19 final size:19
Alignment explanation
Indices: 9623908--9623946 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9623898 TTGACTCCAT
*
9623908 TTCAAATTCATGTATTTCG
1 TTCAAAGTCATGTATTTCG
9623927 TTCAAAGTCATGTATTTCG
1 TTCAAAGTCATGTATTTCG
9623946 T
1 T
9623947 AGTCAACACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (19 bp):
TTCAAAGTCATGTATTTCG
Found at i:9625047 original size:30 final size:30
Alignment explanation
Indices: 9625011--9625124 Score: 104
Period size: 31 Copynumber: 3.7 Consensus size: 30
9625001 TATTTAGATA
9625011 AATATTAAATTAAATTTAATATATCATATT
1 AATATTAAATTAAATTTAATATATCATATT
** * * *
9625041 AATATTAAATT-AATAAAATGCTATCTAGATA
1 AATATTAAATTAAATTTAAT-ATATC-ATATT
* * * *
9625072 AATATTTAATTTAATTTAATATCTTATATT
1 AATATTAAATTAAATTTAATATATCATATT
*
9625102 AATATTTAGATTAAATTTAATAT
1 AATA-TTAAATTAAATTTAATAT
9625125 TAAATTCATT
Statistics
Matches: 64, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
29 6 0.09
30 22 0.34
31 30 0.47
32 6 0.09
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (30 bp):
AATATTAAATTAAATTTAATATATCATATT
Found at i:9625048 original size:61 final size:61
Alignment explanation
Indices: 9624977--9625107 Score: 190
Period size: 61 Copynumber: 2.1 Consensus size: 61
9624967 AATTAACCAC
* *
9624977 ATTAATATTAAACTAATAAAATATTATTTAGATAAATATTAAATTAAATTTAATATATCAT
1 ATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATATATCAT
* * * * * *
9625038 ATTAATATTAAATTAATAAAATGCTATCTAGATAAATATTTAATTTAATTTAATATCTTAT
1 ATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATATATCAT
9625099 ATTAATATT
1 ATTAATATT
9625108 TAGATTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (61 bp):
ATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATATATCAT
Found at i:9625126 original size:12 final size:12
Alignment explanation
Indices: 9625072--9625130 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
9625062 TATCTAGATA
*
9625072 AATATTTAATTT
1 AATATTAAATTT
9625084 AAT-TTAATATCTT
1 AATATTAA-AT-TT
9625097 -ATATTAATATTT
1 AATATTAA-ATTT
*
9625109 -AGATTAAATTT
1 AATATTAAATTT
9625120 AATATTAAATT
1 AATATTAAATT
9625131 CATTAAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.17
12 24 0.60
13 9 0.22
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (12 bp):
AATATTAAATTT
Found at i:9627395 original size:10 final size:10
Alignment explanation
Indices: 9627367--9627400 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
9627357 TCGAAAAGTG
9627367 AAAATTCTCTT
1 AAAATTCTC-T
9627378 AGAAATTCTCT
1 A-AAATTCTCT
9627389 AAAATTCTCT
1 AAAATTCTCT
9627399 AA
1 AA
9627401 GGCATCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.50
11 3 0.14
12 8 0.36
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (10 bp):
AAAATTCTCT
Found at i:9632307 original size:24 final size:24
Alignment explanation
Indices: 9632280--9632331 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9632270 TTAGTAAGTC
*
9632280 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
9632304 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
9632328 AAAT
1 AAAT
9632332 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:9633496 original size:20 final size:20
Alignment explanation
Indices: 9633471--9633511 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9633461 CGGGACTAAA
* *
9633471 TCAGAAATTTAGAGAATTTT
1 TCAGAAACTTAGAAAATTTT
*
9633491 TCAGAAACTTATAAAATTTT
1 TCAGAAACTTAGAAAATTTT
9633511 T
1 T
9633512 AAAATTGAGG
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:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (20 bp):
TCAGAAACTTAGAAAATTTT
Found at i:9634998 original size:25 final size:25
Alignment explanation
Indices: 9634937--9635023 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
9634927 GTACATGTAT
* *
9634937 GCTCATACGAGCTGTA-AATGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * *
9634961 GCTCCTCCAAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * * *
9634986 GCTCATGCGAGCTGAGTATCGGTAC
1 GCTCATACGAGCTGAATAACGGTAA
*
9635011 GCTCATAAGAGCT
1 GCTCATACGAGCT
9635024 AAAATTAGTA
Statistics
Matches: 49, Mismatches: 13, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
24 12 0.24
25 37 0.76
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:9637290 original size:3 final size:3
Alignment explanation
Indices: 9637282--9637319 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
9637272 AAAATGAATA
*
9637282 AAT AAT AAT AAT AGT AAT AAT AAT CAAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
9637320 CAAGATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9644546 original size:3 final size:3
Alignment explanation
Indices: 9644538--9644575 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
9644528 AAAATGAATA
*
9644538 AAT AAT AAT AAT AGT AAT AAT AAT CAAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
9644576 CAAGATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9650157 original size:30 final size:28
Alignment explanation
Indices: 9650123--9650178 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
9650113 TACAAATAAT
9650123 AATTATAATTATATTACATAATTATTTTAA
1 AATTATAATTATATTA-ATAA-TATTTTAA
* *
9650153 AATTATTATTTTATTAATAATATTTT
1 AATTATAATTATATTAATAATATTTT
9650179 TATTATCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 4 0.17
30 14 0.58
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
AATTATAATTATATTAATAATATTTTAA
Found at i:9650255 original size:24 final size:28
Alignment explanation
Indices: 9650227--9650281 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 28
9650217 TTGGACTCAT
9650227 ATTAAAGTA-CACTT-ATTATT-TTA-G
1 ATTAAAGTATCACTTAATTATTGTTACG
*
9650251 ATT-AATTATCACTTAATTATTGTTACG
1 ATTAAAGTATCACTTAATTATTGTTACG
9650278 ATTA
1 ATTA
9650282 TATACCGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.16
24 8 0.32
25 6 0.24
26 3 0.12
27 4 0.16
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.47
Consensus pattern (28 bp):
ATTAAAGTATCACTTAATTATTGTTACG
Found at i:9650742 original size:21 final size:19
Alignment explanation
Indices: 9650714--9650760 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
9650704 TTCACATTTT
*
9650714 TTTTTTATTACTTTAAAATG
1 TTTTTTATTA-TTTAAAATA
*
9650734 TTATTTTATTATTTCAAATA
1 TT-TTTTATTATTTAAAATA
9650754 TTTTTTA
1 TTTTTTA
9650761 AAATTAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 11 0.46
21 8 0.33
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTTATTATTTAAAATA
Found at i:9651391 original size:24 final size:23
Alignment explanation
Indices: 9651338--9651393 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
9651328 TTACTTTAAT
* *
9651338 AATAACATGTAAAATATGTACAA
1 AATAAAATGTAAAATATATACAA
9651361 AATTAAAATGT-AAATATTATACTAA
1 AA-TAAAATGTAAAATA-TATAC-AA
9651386 AATAAAAT
1 AATAAAAT
9651394 ATGTATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 7 0.25
24 17 0.61
25 4 0.14
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (23 bp):
AATAAAATGTAAAATATATACAA
Found at i:9652596 original size:2 final size:2
Alignment explanation
Indices: 9652589--9652618 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9652579 AAAATTAGGA
9652589 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9652619 GAATAGACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9664620 original size:302 final size:302
Alignment explanation
Indices: 9664074--9665561 Score: 2805
Period size: 302 Copynumber: 4.9 Consensus size: 302
9664064 ATTCTCCACC
9664074 ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
*
9664139 CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAGTCAAGCAGTTTTCTT
66 CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
9664204 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
131 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
9664269 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
196 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
*
9664334 ACATGGTAGAGCTCTTCTCCATGTTTATGCTGTGCAGTCTAT
261 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
*
9664376 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
*
9664441 CTAAAGGTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
66 CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
*
9664506 TCTCTTTGTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
131 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
9664571 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
196 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
*
9664636 ACATGGTAGAGCTCTTCTCCATGTTTATGCGGTGCAGTCTAT
261 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
* *
9664678 ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACGATACCTGTGACACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
*
9664743 CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAATTTTCTT
66 CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
*
9664808 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATGTAGACTGCACTGCATAAAAGATCTCATTC
131 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
9664873 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
196 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
9664938 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
261 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
*
9664980 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
*
9665045 CTAAAGGTCTGTTGGTCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
66 CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
9665110 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
131 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
9665175 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
196 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
9665240 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
261 ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
* *
9665282 ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACGATACCTGTGACACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
*
9665347 CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAATTTTCTT
66 CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
* *
9665412 TCTCTTTTTACTTCTATTTCTTTACTATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
131 TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
* *
9665477 AAGCGCACAACAAATTTACCTCAAGTTGTATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
196 AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
9665542 ACATGGTAGAGCTCTTCTCC
261 ACATGGTAGAGCTCTTCTCC
9665562 GAGTATCAAT
Statistics
Matches: 1158, Mismatches: 28, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
302 1158 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (302 bp):
ATGCTGAAACTAATTATCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
CTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTT
TCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTC
AAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCG
ACATGGTAGAGCTCTTCTCCATGTTTATGCAGTGCAGTCTAT
Found at i:9676759 original size:6 final size:6
Alignment explanation
Indices: 9676748--9676807 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
9676738 GAAATAAAAT
**
9676748 ATATAA ATATAA ATATAA ATATAA ATAT-A A-ATAA ATATTT ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
*
9676794 CTA-AA ATATAA ATA
1 ATATAA ATATAA ATA
9676808 GAATAATTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
4 2 0.04
5 8 0.18
6 35 0.78
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:9676771 original size:18 final size:18
Alignment explanation
Indices: 9676748--9676807 Score: 72
Period size: 16 Copynumber: 3.5 Consensus size: 18
9676738 GAAATAAAAT
9676748 ATATAAATATAAATATAA
1 ATATAAATATAAATATAA
9676766 ATATAAATAT-AA-ATAA
1 ATATAAATATAAATATAA
** *
9676782 ATATTTATATAACTA-AA
1 ATATAAATATAAATATAA
9676799 ATATAAATA
1 ATATAAATA
9676808 GAATAATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 12 0.34
17 12 0.34
18 11 0.31
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATAAATATAAATATAA
Found at i:9676819 original size:27 final size:27
Alignment explanation
Indices: 9676739--9676825 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
9676729 CACGTTAGTG
*
9676739 AAATAAAATAT--ATAAAT-ATAAATAT
1 AAATAAAATATAAATAAATAAT-TATAT
*
9676764 AAATATAAATATAAATAAATATTTATAT
1 AAATA-AAATATAAATAAATAATTATAT
*
9676792 AACTAAAATATAAATAGAATAATT-TAT
1 AAATAAAATATAAATA-AATAATTATAT
*
9676819 AATTAAA
1 AAATAAA
9676826 TTTTGAAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
25 5 0.10
26 6 0.12
27 20 0.38
28 20 0.38
29 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (27 bp):
AAATAAAATATAAATAAATAATTATAT
Found at i:9680884 original size:84 final size:84
Alignment explanation
Indices: 9680579--9680970 Score: 305
Period size: 84 Copynumber: 4.6 Consensus size: 84
9680569 AAAATTATAT
* * * ** * *
9680579 TAAAATAAAATATGTTAAACGGTGGGAATAAATCCCGAAACA-AAATTATTTGATTACATAATT-
1 TAAAATAAAATTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATT--TTAATTC
* * *
9680642 TG-TTTAGAAACAAAAGAATA
64 TGATTTGGAAACAAAATAAAA
** * *** *
9680662 TTGAATAAAATCTTGTTAGACAATGGGAATAAAT-CCAGAAACAAATTTTATTTAATTTTAATTC
1 TAAAATAAAAT-TTGTTAAACGGCGGGAATAAATCCCA-AAACAGATTTTATTTAATTTTAATTC
* *
9680726 TAATTTGGAAAAAAAATAAAA
64 TGATTTGGAAACAAAATAAAA
* ** * * **
9680747 TCAAATAATTTTTTTTTAAACGGCGGGAATAAAT-CCTAAA-ATTTTGTTAATTTAA-TTTAATT
1 TAAAATAA-AATTTGTTAAACGGCGGGAATAAATCCCAAAACAGATT-TT-ATTTAATTTTAATT
*
9680809 CTGATTTGGAAATAAAATAAAA
63 CTGATTTGGAAACAAAATAAAA
9680831 TAAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAATTTC
1 TAAAATAAAAT-TTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAA-TTC
*
9680896 TTGTTTTTGGAAACAAAATAAAA
64 -TG-ATTTGGAAACAAAATAAAA
** * * * * *
9680919 TTGTAAT-AAATTCGTTGAACGACGAGAATAAATCCCGAAACAGATTTTATTT
1 -TAAAATAAAATTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTT
9680971 TACCCGTTTT
Statistics
Matches: 247, Mismatches: 46, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
83 20 0.08
84 90 0.36
85 67 0.27
86 7 0.03
87 38 0.15
88 21 0.09
89 4 0.02
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (84 bp):
TAAAATAAAATTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTTATTTAATTTTAATTCTG
ATTTGGAAACAAAATAAAA
Found at i:9681014 original size:79 final size:79
Alignment explanation
Indices: 9680898--9681132 Score: 301
Period size: 79 Copynumber: 3.0 Consensus size: 79
9680888 TTAATTTCTT
* * * * * * *
9680898 GTTTTTGGAAACAAAA-TAAAATTGTAATAAATTCGTTGAACGACGAGAATAAATCCCGAAACAG
1 GTTTTTGGAAATAAAACAAAAATTGGAATAAAATCGTTGAACGACGGGAATCAATCCCGAAATAG
9680962 ATTTTATTTTACCC
66 ATTTTATTTTACCC
* * * *
9680976 GTTTTTAGAAATAAAACAAAAATTGGAATAAAATCGTTGCACGACGGGAATCAATCCCAAAATGG
1 GTTTTTGGAAATAAAACAAAAATTGGAATAAAATCGTTGAACGACGGGAATCAATCCCGAAATAG
**
9681041 ATTTTATTTTACTT
66 ATTTTATTTTACCC
* * * * *
9681055 GTTTTTGGAAATAAAACAAAATTTGGAATAAAATCTTTGAACGGCGGGAATCAATCTCGAAATAA
1 GTTTTTGGAAATAAAACAAAAATTGGAATAAAATCGTTGAACGACGGGAATCAATCCCGAAATAG
9681120 ATTTTATTTTACC
66 ATTTTATTTTACC
9681133 TGTAATATCC
Statistics
Matches: 133, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
78 14 0.11
79 119 0.89
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (79 bp):
GTTTTTGGAAATAAAACAAAAATTGGAATAAAATCGTTGAACGACGGGAATCAATCCCGAAATAG
ATTTTATTTTACCC
Found at i:9681236 original size:88 final size:87
Alignment explanation
Indices: 9681058--9681316 Score: 283
Period size: 88 Copynumber: 3.0 Consensus size: 87
9681048 TTTACTTGTT
* * * * * *
9681058 TTTGGAAATAAAACAAAATTTGGAATAAAA-TCTTTGAACGGCGGGAATCAATCTCGAAATAAAT
1 TTTGGAAATAAAACAAAATTTGGAATAAAATTCATTGAACGGCAGGAATAAATCCCGAAACAGAT
* * *
9681122 TTTATTTTACCTGTAATATCCTG
66 TTTA-TTTACCTTTAATTTCCCG
* * *
9681145 TTTGGAAATAAAATCAAAATAATT-GAATAAAATTCGTCGAACGGCAGGAATTAATCCCGAAACA
1 TTTGGAAATAAAA-CAAAAT--TTGGAATAAAATTCATTGAACGGCAGGAATAAATCCCGAAACA
9681209 GA-TTTATTTACCTTTAATTTCCCG
63 GATTTTATTTACCTTTAATTTCCCG
* * * *
9681233 TTTGGACATAAAACCAAAATTTGGAATAAAATCCATTGAACGG-TGGAAATAAATCCCGAAACGG
1 TTTGGAAATAAAA-CAAAATTTGGAATAAAATTCATTGAACGGCAGG-AATAAATCCCGAAACAG
*
9681297 ATTTTATTTACTTTTAATTT
64 ATTTTATTTACCTTTAATTT
9681317 GGAAACAAAA
Statistics
Matches: 146, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
86 4 0.03
87 46 0.32
88 56 0.38
89 12 0.08
90 28 0.19
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (87 bp):
TTTGGAAATAAAACAAAATTTGGAATAAAATTCATTGAACGGCAGGAATAAATCCCGAAACAGAT
TTTATTTACCTTTAATTTCCCG
Found at i:9681562 original size:27 final size:28
Alignment explanation
Indices: 9681513--9681586 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
9681503 CAAAATAGAT
* *
9681513 AAATATAAATA-AATATTTATATAAATA
1 AAATATAAATAGAAAAATTATATAAATA
*
9681540 AAATATAAATAGAAAAATT-TATAATTA
1 AAATATAAATAGAAAAATTATATAAATA
*
9681567 AATTATGAAATACGAAAAAT
1 AAATAT-AAATA-GAAAAAT
9681587 CAAACAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 23 0.57
28 10 0.25
29 7 0.17
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (28 bp):
AAATATAAATAGAAAAATTATATAAATA
Found at i:9706762 original size:9 final size:9
Alignment explanation
Indices: 9706750--9706775 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9706740 CTTTTTCCTT
9706750 AATGTTTCA
1 AATGTTTCA
9706759 AATGTTTCA
1 AATGTTTCA
9706768 AATGTTTC
1 AATGTTTC
9706776 TAAAGCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (9 bp):
AATGTTTCA
Found at i:9711892 original size:15 final size:16
Alignment explanation
Indices: 9711866--9711895 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9711856 AGGAAAGTTG
9711866 TTTCCAAACAAAAATT
1 TTTCCAAACAAAAATT
9711882 TTTCC-AACAAAAAT
1 TTTCCAAACAAAAAT
9711896 AACCTAAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTTCCAAACAAAAATT
Found at i:9716279 original size:13 final size:13
Alignment explanation
Indices: 9716261--9716287 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9716251 GCCTTGTTAT
9716261 AATTAAAAAATTC
1 AATTAAAAAATTC
9716274 AATTAAAAAATTC
1 AATTAAAAAATTC
9716287 A
1 A
9716288 CTTTTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAAAAATTC
Found at i:9723022 original size:126 final size:123
Alignment explanation
Indices: 9722810--9723145 Score: 478
Period size: 123 Copynumber: 2.7 Consensus size: 123
9722800 ATTTCTGATA
* * *
9722810 AAATAATATAAAATCGCTTCTAGTAGGATGGTATTTGAGAAGAATTTGTAAAATTGCGCCCTCGT
1 AAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTGCGCCCTCGT
* *
9722875 GGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTTTTGACGTTTCTAAGC
66 AGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAAT-A--ATTTTTTTGACGTTTCTAAGC
* *
9722936 AAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTGCAG-CCTCG
1 AAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTGC-GCCCTCG
* * *
9723000 TCAG-CGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTGACGTTTCTGAGC
65 T-AGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTTTTTTGACGTTTCTAAGC
* *
9723059 AAATAATATAAAATCGCTTCTAGCATGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGT
1 AAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTGCGCCCTCGT
* * *
9723124 GGACGTGCTTTTTCTACAGTAG
66 AGACGCGCTTTTGCTACAGTAG
9723146 CATGTTTGGG
Statistics
Matches: 189, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
122 2 0.01
123 96 0.51
125 1 0.01
126 88 0.47
127 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (123 bp):
AAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATTGCGCCCTCGT
AGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTTTTTTGACGTTTCTAAGC
Found at i:9723105 original size:123 final size:125
Alignment explanation
Indices: 9722795--9723145 Score: 485
Period size: 126 Copynumber: 2.8 Consensus size: 125
9722785 TAATTTCGAG
* ** * * *
9722795 TTGACATTTCTGATAAAATAATATAAAATCGCTTCTAGTAGGATGGTATTTGAGAAGAATTTGTA
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
9722860 AAATTGCGCCCTCGTGGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATTGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAA-TATTTTT
* * *
9722921 TTGACGTTTCTAAGCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
9722986 AAATTGCAG-CCTCGTCAG-CGCGCTTTTGCTACAGTAGGTCATGTAAGAAAT-A-ATTTTT
66 AAATTGC-GCCCTCGT-AGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATATTTTT
*
9723044 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCATGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
9723109 AAATCGCGCCCTCGTGGACGTGCTTTTTCTACAGTAG
66 AAATTGCGCCCTCGTAGACGCGCTTTTGCTACAGTAG
9723146 CATGTTTGGG
Statistics
Matches: 200, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
122 2 0.01
123 96 0.48
125 1 0.00
126 99 0.50
127 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATTGCGCCCTCGTAGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATATTTTT
Found at i:9726352 original size:116 final size:116
Alignment explanation
Indices: 9726144--9726361 Score: 382
Period size: 116 Copynumber: 1.9 Consensus size: 116
9726134 TGATAAATTG
*
9726144 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
9726209 TAGTACCAGTCAAAACATTTTTCCAAATCTAATATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* *
9726260 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
* *
9726325 TAGTACTAGTCAAAACATTTTTTCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
9726362 CGTTAAGGTT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 96 1.00
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:9726548 original size:118 final size:117
Alignment explanation
Indices: 9726417--9727102 Score: 690
Period size: 118 Copynumber: 5.8 Consensus size: 117
9726407 TAAATTAGGC
9726417 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGAG-TTTTAATTAAATT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG-GTTTTTAATTAAATT
9726481 AGGCTAGGGTTTTTAATTAAATTAGGTTATGGTTAGGGTTTTTAATTAAGGGTT
65 AGGCTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTAAGGGTT
9726535 TAGGGTTTTTAATTAAATTAGGTTA--GTATTTTAATTAAATTAGGTTAGGGTTTTTAATTAAAT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGT-TTTTAATTAAATTAGGTTA-GGTTTTTAATTAAAT
* * * *
9726598 TAGGTTAGAG-TTTTAATT-AA--A--TTAGGCTAGGGTTTTTAATTAAATTAGGTTATGGT
64 TAGGCTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATT--A--AGG----GTT
* *
9726654 TAGGGTTTTTAATT-AA--GGGTTTAGGGTTTTTAATTAAATTAGGTTAGGATTTTAATTAAATT
1 TAGGGTTTTTAATTAAATTAGG-TTAGGGTTTTTAATTAAATTAGGTTAGGTTTTTAATTAAATT
* *
9726716 AGGCTAGGATTTTTAATT-AA--A--TTAGGTTAGGGTTTTTAATTAAATTAGG-T
65 AGGCTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATT-AA--GGGTT
* *
9726766 TAGGGTTTTTAATTAAATTAAGTTAGGGTTTTTAATTAAATTAGGCTAGGGTTTTTAATTAAATT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTTTTAATTAAATT
*
9726831 AGGCTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAAGGTT
65 AGGCTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTAAGGGTT
* * *
9726885 TAGAGTTTTTAATTGAATTAGGTTAGGGTTATGGTT--TTTAATTAAGGGTTTAGGTTTTTTAAT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTT-T--TTAATTAAATT-A-GG-TTAGG-TTTTTAAT
*
9726948 TAAATTAGGTTAGGGTTTTTAATT-AA--A--TTAGGTTAGGGTTTTTAAGTTAAGGGTT
59 TAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAA-TTAAGGGTT
* *
9727003 TAGGGTTTTTAATTGAATTAGGTTAGGGTTAGGGTTTTTAATT-AA--GGGTTTATGATTTTTAA
1 TAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTAAATTAGG-TTA-GGTTTTTAA
* * *
9727065 TTAAATTAGGTTAGAGTTTTTAATTAAATTAGGCTAGG
58 TTAAATTAGGCTAGGGTTTTTAATTAAATTAGGTTAGG
9727103 GTTTTTAATT
Statistics
Matches: 489, Mismatches: 29, Indels: 95
0.80 0.05 0.15
Matches are distributed among these distances:
111 16 0.03
112 18 0.04
113 4 0.01
114 26 0.05
115 37 0.08
116 8 0.02
117 70 0.14
118 162 0.33
119 50 0.10
120 13 0.03
121 22 0.04
122 10 0.02
123 43 0.09
124 10 0.02
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.47
Consensus pattern (117 bp):
TAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTTTTAATTAAATTA
GGCTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAGGGTT
Found at i:9726592 original size:140 final size:140
Alignment explanation
Indices: 9726358--9726864 Score: 769
Period size: 140 Copynumber: 3.6 Consensus size: 140
9726348 CAAATCTAAC
* * *
9726358 ATTACGTTAAGGTTAGGGTTTTTAAAGTTAAGGGTTTAAGGTTTTTAATTAAATTAGGCTAGGGT
1 ATTAGGTTATGGTTAGGGTTTTT-AA-TTAAGGGTTTAGGGTTTTTAATTAAATTAGGCTA-GGT
9726423 TTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTAATTAAATTAGGCTAG
63 TTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTAATTAAATTAGGCTAG
9726488 GGTTTTTAATTAA
128 GGTTTTTAATTAA
*
9726501 ATTAGGTTATGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTA-GTATT
1 ATTAGGTTATGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGCTAGGT-TT
9726565 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTAATTAAATTAGGCTAGGG
65 TTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTAATTAAATTAGGCTAGGG
9726630 TTTTTAATTAA
130 TTTTTAATTAA
* *
9726641 ATTAGGTTATGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGATTT
1 ATTAGGTTATGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGCTAGGTTTT
* * * *
9726706 TAATTAAATTAGGCTAGGATTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
66 TAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGAG-TTTTAATTAAATTAGGCTAGGG
9726771 TTTTTAATTAA
130 TTTTTAATTAA
* *
9726782 ATTA----A--GTTAGGGTTTTTAATTAAATTAGG-CTAGGGTTTTTAATTAAATTAGGCTAGGG
1 ATTAGGTTATGGTTAGGGTTTTTAATT-AA--GGGTTTAGGGTTTTTAATTAAATTAGGCTA-GG
9726840 TTTTTAATTAAATTAGGTTAGGGTT
62 TTTTTAATTAAATTAGGTTAGGGTT
9726865 AGGGTTTTTA
Statistics
Matches: 342, Mismatches: 15, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
135 16 0.05
136 2 0.01
137 25 0.07
138 26 0.08
139 2 0.01
140 179 0.52
141 69 0.20
142 2 0.01
143 21 0.06
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (140 bp):
ATTAGGTTATGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAAATTAGGCTAGGTTTT
TAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGAGTTTTAATTAAATTAGGCTAGGGT
TTTTAATTAA
Found at i:9726997 original size:28 final size:23
Alignment explanation
Indices: 9726397--9727130 Score: 765
Period size: 23 Copynumber: 31.3 Consensus size: 23
9726387 AAGGGTTTAA
*
9726397 GGTTTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
9726420 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
9726443 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
* *
9726466 AG-TTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
9726488 GGTTTTTAATTAAATTAGGTTATGGTTAG
1 GGTTTTTAATT-AA--A--TTA-GGTTAG
*
9726517 GGTTTTTAATT-AA--GGGTTTAG
1 GGTTTTTAATTAAATTAGG-TTAG
9726538 GGTTTTTAATTAAATTAGGTTA-
1 GGTTTTTAATTAAATTAGGTTAG
9726560 -GTATTTTAATTAAATTAGGTTAG
1 GGT-TTTTAATTAAATTAGGTTAG
9726583 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
* *
9726606 AG-TTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
9726628 GGTTTTTAATTAAATTAGGTTATGGTTAG
1 GGTTTTTAATT-AA--A--TTA-GGTTAG
*
9726657 GGTTTTTAATT-AA--GGGTTTAG
1 GGTTTTTAATTAAATTAGG-TTAG
9726678 GGTTTTTAATTAAATTAGGTTA-
1 GGTTTTTAATTAAATTAGGTTAG
* *
9726700 GGATTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
9726723 GATTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
9726746 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
9726769 GGTTTTTAATTAAATTAAGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
9726792 GGTTTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
9726815 GGTTTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
9726838 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
9726861 GGTTAGGGTTT--TT-AATTAAAGGTTTAG
1 GGTT----TTTAATTAAATT--AGG-TTAG
* *
9726888 AGTTTTTAATTGAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
9726911 GGTTATGGTT--TTTAATTAAGGGTTTAG
1 GGTT-T--TTAATTAAATT-A-GG-TTAG
*
9726938 GTTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
9726961 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
9726984 GGTTTTTAAGTT-AA--GGGTTTAG
1 GGTTTTTAA-TTAAATTAGG-TTAG
9727006 GGTTTTTAATTGAATTAGGTTAGGGTTAG
1 GGTTTTTAATT-AA--A--TTA-GGTTAG
* *
9727035 GGTTTTTAATT-AA--GGGTTTAT
1 GGTTTTTAATTAAATTAGG-TTAG
*
9727056 GATTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
* *
9727079 AGTTTTTAATTAAATTAGGCTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
9727102 GGTTTTTAATTAAATTAGGTTAT
1 GGTTTTTAATTAAATTAGGTTAG
9727125 GGTTTT
1 GGTTTT
9727131 GGGTTTTTAT
Statistics
Matches: 610, Mismatches: 42, Indels: 118
0.79 0.05 0.15
Matches are distributed among these distances:
20 6 0.01
21 49 0.08
22 98 0.16
23 320 0.52
24 32 0.05
25 10 0.02
26 20 0.03
27 20 0.03
28 6 0.01
29 47 0.08
30 2 0.00
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (23 bp):
GGTTTTTAATTAAATTAGGTTAG
Found at i:9727148 original size:29 final size:30
Alignment explanation
Indices: 9727099--9727164 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
9727089 TAAATTAGGC
*
9727099 TAGGGTTTTTAATTAAATTAGGTTATGGTT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTT
* **
9727129 TTGGGTTTTT-ATTATTTTAGGTTAGGGTT
1 TAGGGTTTTTAATTAAATTAGGTTAGGGTT
9727158 TAGGGTT
1 TAGGGTT
9727165 AAATTAGGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (30 bp):
TAGGGTTTTTAATTAAATTAGGTTAGGGTT
Found at i:9727258 original size:44 final size:45
Alignment explanation
Indices: 9727190--9727276 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
9727180 TTTTATTACA
*
9727190 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
* *
9727235 TCAAA-AAATTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
9727277 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:9727722 original size:18 final size:18
Alignment explanation
Indices: 9727699--9727733 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9727689 TGGAAAAGGA
*
9727699 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
9727717 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
9727734 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:9728396 original size:7 final size:7
Alignment explanation
Indices: 9728386--9728411 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9728376 ATACATACAT
9728386 AATACTA
1 AATACTA
9728393 AATACTA
1 AATACTA
9728400 AATACTA
1 AATACTA
9728407 AATAC
1 AATAC
9728412 CAATCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:9729668 original size:51 final size:51
Alignment explanation
Indices: 9729555--9729668 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
9729545 TTTTAAAAAG
* * *
9729555 GGAAATTGAGAAGAAATTGAAATTAAATATGGATTTGAAAGAATTTTTGAA
1 GGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAAAGAATTTTGGAA
9729606 GGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAAAGAATTTTGGAA
1 GGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAAAGAATTTTGGAA
9729657 GGAAATTGAGAG
1 GGAAATTGAGAG
9729669 AATTTTGGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (51 bp):
GGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAAAGAATTTTGGAA
Found at i:9729688 original size:22 final size:22
Alignment explanation
Indices: 9729638--9729695 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
9729628 TTAAATATAG
*
9729638 ATTTGAAAGAATTTTGGAAGGA
1 ATTTGAGAGAATTTTGGAAGGA
*
9729660 AATTGAGAGAATTTTGGAAGGA
1 ATTTGAGAGAATTTTGGAAGGA
9729682 ATTTGAGAGGAATT
1 ATTTGAGA-GAATT
9729696 GAGAGGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (22 bp):
ATTTGAGAGAATTTTGGAAGGA
Found at i:9740235 original size:12 final size:12
Alignment explanation
Indices: 9740218--9740242 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9740208 AAATAATTTG
9740218 AGCTTACAAATA
1 AGCTTACAAATA
9740230 AGCTTACAAATA
1 AGCTTACAAATA
9740242 A
1 A
9740243 TTTACTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AGCTTACAAATA
Found at i:9746187 original size:27 final size:27
Alignment explanation
Indices: 9746148--9746247 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
9746138 TCTTGGAGTC
*
9746148 AGTAAACACGGGATGGTCCTTCGAGAT
1 AGTAAACACGGGATAGTCCTTCGAGAT
* *
9746175 AGTAAACATGGGATAGT-CTGCTGAGAT
1 AGTAAACACGGGATAGTCCTTC-GAGAT
* * *
9746202 AGCAAACACGGGATAGTCCATCGGGAT
1 AGTAAACACGGGATAGTCCTTCGAGAT
* *
9746229 AGTAAACACGAGAGAGTCC
1 AGTAAACACGGGATAGTCC
9746248 ACCAAGATAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.05
27 55 0.92
28 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (27 bp):
AGTAAACACGGGATAGTCCTTCGAGAT
Found at i:9746256 original size:27 final size:27
Alignment explanation
Indices: 9746198--9746263 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
9746188 TAGTCTGCTG
* * * * *
9746198 AGATAGCAAACACGGGATAGTCCATCG
1 AGATAGTAAACACGAGAGAGTCCACCA
*
9746225 GGATAGTAAACACGAGAGAGTCCACCA
1 AGATAGTAAACACGAGAGAGTCCACCA
*
9746252 AGATAATAAACA
1 AGATAGTAAACA
9746264 TCGCTTCACT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.14
Consensus pattern (27 bp):
AGATAGTAAACACGAGAGAGTCCACCA
Found at i:9746263 original size:54 final size:54
Alignment explanation
Indices: 9746150--9746263 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
9746140 TTGGAGTCAG
* * * * * ** ** *
9746150 TAAACACGGGATGGTCCTTCGAGATAGTAAACATGGGATAGTCTGCTGAGATAG
1 TAAACACGGGATAGTCCATCGAGATAGTAAACACGAGAGAGTCCACCAAGATAA
* *
9746204 CAAACACGGGATAGTCCATCGGGATAGTAAACACGAGAGAGTCCACCAAGATAA
1 TAAACACGGGATAGTCCATCGAGATAGTAAACACGAGAGAGTCCACCAAGATAA
9746258 TAAACA
1 TAAACA
9746264 TCGCTTCACT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (54 bp):
TAAACACGGGATAGTCCATCGAGATAGTAAACACGAGAGAGTCCACCAAGATAA
Found at i:9747496 original size:23 final size:23
Alignment explanation
Indices: 9747460--9747615 Score: 242
Period size: 23 Copynumber: 6.8 Consensus size: 23
9747450 CTACCCTGTT
*
9747460 TTGGACAGCTTTTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
* *
9747483 TTGGACAACATTTATACACCAAA
1 TTGGACAGCATTTATACATCAAA
*
9747506 TTGGATAGCATTTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
*
9747529 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACATCAAA
*
9747552 TTGGACAGTATTTATACA-CTAAA
1 TTGGACAGCATTTATACATC-AAA
9747575 TTGGACAGCATTTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
9747598 TTGGACAGCATTTATACA
1 TTGGACAGCATTTATACA
9747616 CATTTATACA
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
22 1 0.01
23 119 0.98
24 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (23 bp):
TTGGACAGCATTTATACATCAAA
Found at i:9747527 original size:46 final size:46
Alignment explanation
Indices: 9747460--9747688 Score: 271
Period size: 46 Copynumber: 4.8 Consensus size: 46
9747450 CTACCCTGTT
* *
9747460 TTGGACAGCTTTTATACATCAAATTGGACAACATTTATACACCAAA
1 TTGGACAGCATTTATACATCAAATTGGACAGCATTTATACACCAAA
*
9747506 TTGGATAGCATTTATACATCAAATTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACATCAAATTGGACAGCATTTATACACCAAA
* *
9747552 TTGGACAGTATTTATACA-CTAAATTGGACAGCATTTATACATCAAA
1 TTGGACAGCATTTATACATC-AAATTGGACAGCATTTATACACCAAA
*
9747598 TTGGACAGCATTTATACACATTTATACACCAAATTGGACAGCATTTATACATCAAA
1 TTGGACAGCATTTAT--AC----AT----CAAATTGGACAGCATTTATACACCAAA
* * *
9747654 TTGGACAGCATTTATAAACCAAATTGGATAGCATT
1 TTGGACAGCATTTATACATCAAATTGGACAGCATT
9747689 ATAACATGTA
Statistics
Matches: 161, Mismatches: 10, Indels: 24
0.83 0.05 0.12
Matches are distributed among these distances:
45 1 0.01
46 113 0.70
48 2 0.01
50 1 0.01
52 1 0.01
54 1 0.01
56 41 0.25
57 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (46 bp):
TTGGACAGCATTTATACATCAAATTGGACAGCATTTATACACCAAA
Found at i:9747543 original size:69 final size:69
Alignment explanation
Indices: 9747460--9747688 Score: 278
Period size: 69 Copynumber: 3.2 Consensus size: 69
9747450 CTACCCTGTT
* * *
9747460 TTGGACAGCTTTTATACATCAAATTGGACAACATTTATACACCAAATTGGATAGCATTTATACAT
1 TTGGACAGCATTTATACATCAAATTGGACAGCATTTATACACCAAATTGGACAGCATTTATACAT
9747525 CAAA
66 CAAA
* * *
9747529 TTGGACAGCATTTATACACCAAATTGGACAGTATTTATACACTAAATTGGACAGCATTTATACAT
1 TTGGACAGCATTTATACATCAAATTGGACAGCATTTATACACCAAATTGGACAGCATTTATACAT
9747594 CAAA
66 CAAA
*
9747598 TTGGACAGCATTTATACACATTTATACACCAAATTGGACAGCATTTATACATCAAATTGGACAGC
1 TTGGACAGCATTTAT--AC----AT----CAAATTGGACAGCATTTATACACCAAATTGGACAGC
* *
9747663 ATTTATAAACCAAA
56 ATTTATACATCAAA
*
9747677 TTGGATAGCATT
1 TTGGACAGCATT
9747689 ATAACATGTA
Statistics
Matches: 137, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
69 78 0.57
71 2 0.01
75 1 0.01
79 56 0.41
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (69 bp):
TTGGACAGCATTTATACATCAAATTGGACAGCATTTATACACCAAATTGGACAGCATTTATACAT
CAAA
Found at i:9747625 original size:33 final size:33
Alignment explanation
Indices: 9747583--9747648 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
9747573 AATTGGACAG
*
9747583 CATTTATACATCAAATTGGACAGCATTTATACA
1 CATTTATACACCAAATTGGACAGCATTTATACA
9747616 CATTTATACACCAAATTGGACAGCATTTATACA
1 CATTTATACACCAAATTGGACAGCATTTATACA
9747649 TCAAATTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (33 bp):
CATTTATACACCAAATTGGACAGCATTTATACA
Found at i:9747642 original size:23 final size:23
Alignment explanation
Indices: 9747616--9747688 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
9747606 CATTTATACA
9747616 CATTTATACACCAAATTGGACAG
1 CATTTATACACCAAATTGGACAG
*
9747639 CATTTATACATCAAATTGGACAG
1 CATTTATACACCAAATTGGACAG
* *
9747662 CATTTATAAACCAAATTGGATAG
1 CATTTATACACCAAATTGGACAG
9747685 CATT
1 CATT
9747689 ATAACATGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (23 bp):
CATTTATACACCAAATTGGACAG
Found at i:9747647 original size:56 final size:56
Alignment explanation
Indices: 9747561--9747669 Score: 209
Period size: 56 Copynumber: 1.9 Consensus size: 56
9747551 ATTGGACAGT
*
9747561 ATTTATACACTAAATTGGACAGCATTTATACATCAAATTGGACAGCATTTATACAC
1 ATTTATACACCAAATTGGACAGCATTTATACATCAAATTGGACAGCATTTATACAC
9747617 ATTTATACACCAAATTGGACAGCATTTATACATCAAATTGGACAGCATTTATA
1 ATTTATACACCAAATTGGACAGCATTTATACATCAAATTGGACAGCATTTATA
9747670 AACCAAATTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (56 bp):
ATTTATACACCAAATTGGACAGCATTTATACATCAAATTGGACAGCATTTATACAC
Found at i:9747668 original size:79 final size:77
Alignment explanation
Indices: 9747537--9747695 Score: 248
Period size: 79 Copynumber: 2.0 Consensus size: 77
9747527 AATTGGACAG
* * *
9747537 CATTTATACACCAAATTGGACAGTATTTATACACTAAATTGGACAGCATTTATACATCAAATTGG
1 CATTTATACACCAAATTGGACAGCATTTATACACTAAATTGGACAGCATTTATAAACCAAATTGG
9747602 ACAGCATTTATACA
66 ACAGCA-TTATA-A
9747616 CATTTATACACCAAATTGGACAGCATTTATACA-TCAAATTGGACAGCATTTATAAACCAAATTG
1 CATTTATACACCAAATTGGACAGCATTTATACACT-AAATTGGACAGCATTTATAAACCAAATTG
*
9747680 GATAGCATTATAA
65 GACAGCATTATAA
9747693 CAT
1 CAT
9747696 GTAAAAACAA
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
77 4 0.05
78 6 0.08
79 65 0.87
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (77 bp):
CATTTATACACCAAATTGGACAGCATTTATACACTAAATTGGACAGCATTTATAAACCAAATTGG
ACAGCATTATAA
Found at i:9748570 original size:40 final size:40
Alignment explanation
Indices: 9748483--9748570 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
9748473 CTCAGTTTCG
* * *
9748483 CACACTAAGTGCCATATATAGCCGAAGCTATTCCCAATCG
1 CACACTAAATGCCATAAATAGCCGAAGCTATTCCCAATCA
*
9748523 CACACTAAATGCCATAAATAGCCGAAGCTA-TCTCGAATCA
1 CACACTAAATGCCATAAATAGCCGAAGCTATTC-CCAATCA
*
9748563 CATACTAA
1 CACACTAA
9748571 GTGCTAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.05
40 40 0.95
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.22
Consensus pattern (40 bp):
CACACTAAATGCCATAAATAGCCGAAGCTATTCCCAATCA
Found at i:9754959 original size:23 final size:23
Alignment explanation
Indices: 9754923--9755025 Score: 170
Period size: 23 Copynumber: 4.5 Consensus size: 23
9754913 CTACCCTGTT
* *
9754923 TTGGACAGCTTTTATACATCAAA
1 TTGGACAGCATTTATACACCAAA
*
9754946 TTGGACAACATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
*
9754969 TTGGACAGCATTTATACATCAAA
1 TTGGACAGCATTTATACACCAAA
9754992 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
9755015 TTGGACAGCAT
1 TTGGACAGCAT
9755026 CATAACATGT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 74 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:9754990 original size:46 final size:46
Alignment explanation
Indices: 9754923--9755025 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
9754913 CTACCCTGTT
*
9754923 TTGGACAGCTTTTATACATCAAATTGGACAACATTTATACACCAAA
1 TTGGACAGCATTTATACATCAAATTGGACAACATTTATACACCAAA
*
9754969 TTGGACAGCATTTATACATCAAATTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACATCAAATTGGACAACATTTATACACCAAA
9755015 TTGGACAGCAT
1 TTGGACAGCAT
9755026 CATAACATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (46 bp):
TTGGACAGCATTTATACATCAAATTGGACAACATTTATACACCAAA
Found at i:9761662 original size:27 final size:27
Alignment explanation
Indices: 9761478--9761682 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
9761468 TAAATTGTAC
9761478 AGCACTAAGTGTGCG-ATTCGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
* * *
9761505 TGCACTAAGTGTGCGAAATGAATATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
9761532 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
9761558 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
9761586 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAAT-TGACTATGT
* * *
9761614 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* ** * *
9761641 GGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
9761668 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9761683 GGCTCAATAT
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
27 127 0.84
28 25 0.16
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:9761673 original size:109 final size:108
Alignment explanation
Indices: 9761479--9761682 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 108
9761469 AAATTGTACA
* * * *
9761479 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
9761544 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
** *
9761587 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
** * *
9761652 TGCGAGCTGATTAT-ATAGCACTGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACTAAGTGTGCG
9761683 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 19 0.23
109 64 0.77
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (108 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:9769571 original size:27 final size:26
Alignment explanation
Indices: 9769541--9769745 Score: 185
Period size: 27 Copynumber: 7.5 Consensus size: 26
9769531 AAATTGTACA
9769541 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* *
9769568 GCACTAAGTGTGCGAAATGAGATATGTT
1 GCACTAAGTGTGCG-ATTGA-CTATGTT
* * *
9769596 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
9769623 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
*
9769650 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
* * *
9769678 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
9769705 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
9769732 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
9769746 GGCTCATATA
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 102 0.66
28 51 0.33
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:9769602 original size:55 final size:53
Alignment explanation
Indices: 9769541--9769745 Score: 214
Period size: 55 Copynumber: 3.8 Consensus size: 53
9769531 AAATTGTACA
* * *
9769541 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAGATATGTT
1 GCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAATTGA-ATATGTG
* * ** *
9769596 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTA-GCACTAAGTGTGCGAATTGAATATGTG
* * *
9769650 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-T-TGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
* * *
9769705 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
9769746 GGCTCATATA
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 38 0.30
55 85 0.67
56 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (53 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
Found at i:9769736 original size:82 final size:81
Alignment explanation
Indices: 9769541--9769745 Score: 216
Period size: 82 Copynumber: 2.5 Consensus size: 81
9769531 AAATTGTACA
* *
9769541 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAGATATGTTGCACTAAGTG
1 GCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAAATGAGATATGTAGCACTAAGTG
*
9769606 TGCGAAATGAATATGAT
65 TGCGAAATGAATACGAT
* ** ** *
9769623 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTGA-CTATGTAGCACTAAGT
1 GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGA-AATGAGATATGTAGCACTAAGT
** *
9769687 GTGCGATTTGATTACG-T
64 GTGCGAAATGAATACGAT
* * *
9769704 GGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
9769746 GGCTCATATA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
81 2 0.02
82 94 0.92
83 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGAGATATGTAGCACTAAGTGT
GCGAAATGAATACGAT
Found at i:9776755 original size:11 final size:11
Alignment explanation
Indices: 9776735--9776802 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
9776725 TAAAAATTAA
9776735 AAAAAGTATTTT
1 AAAAA-TATTTT
9776747 AAAAATATTTT
1 AAAAATATTTT
*
9776758 --AAA-A-TTA
1 AAAAATATTTT
* **
9776765 AAAAATAATAA
1 AAAAATATTTT
9776776 AAAAAGTATTTT
1 AAAAA-TATTTT
9776788 AAAAATATTTT
1 AAAAATATTTT
9776799 AAAA
1 AAAA
9776803 TTAAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.13
10 1 0.02
11 23 0.50
12 13 0.28
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:9776783 original size:41 final size:40
Alignment explanation
Indices: 9776726--9776819 Score: 163
Period size: 41 Copynumber: 2.4 Consensus size: 40
9776716 AATTTATTTT
9776726 AAAAAT-TAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATATAAAAAAAGTATTTTAAAAATATTTTAAAATTA
9776765 AAAAATAATAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAAT-ATAAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
9776806 AAAAATTTAAAAAA
1 AAAAATATAAAAAA
9776820 TAAATATATT
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
39 6 0.12
40 7 0.13
41 39 0.75
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (40 bp):
AAAAATATAAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:9776813 original size:16 final size:17
Alignment explanation
Indices: 9776786--9776831 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
9776776 AAAAAGTATT
*
9776786 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
9776803 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
* *
9776819 ATAAATATATTTA
1 TTAAAAATATTTA
9776832 TTATATCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:9781332 original size:18 final size:18
Alignment explanation
Indices: 9781309--9781386 Score: 56
Period size: 18 Copynumber: 4.3 Consensus size: 18
9781299 GTTGAATCGG
9781309 ATTTAAGTTAGTTTAAAT
1 ATTTAAGTTAGTTTAAAT
* *
9781327 ATTTAATTTTATTTTTATAAT
1 ATTTAA-GTTA-GTTTA-AAT
*
9781348 -TTTTAGTTAAG--TAAA-
1 ATTTAAGTT-AGTTTAAAT
*
9781363 ATTTAAGTTAGCTTAAAT
1 ATTTAAGTTAGTTTAAAT
9781381 ATTTAA
1 ATTTAA
9781387 TTTTTTATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
15 2 0.04
16 9 0.20
17 6 0.13
18 12 0.26
19 5 0.11
20 9 0.20
21 3 0.07
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (18 bp):
ATTTAAGTTAGTTTAAAT
Found at i:9781368 original size:54 final size:53
Alignment explanation
Indices: 9781309--9781452 Score: 179
Period size: 50 Copynumber: 2.8 Consensus size: 53
9781299 GTTGAATCGG
* * *
9781309 ATTTAAGTTAGTTTAAATATTTAATTTTATTTTTATAATTTTTAGTTAAGTAAA
1 ATTTAAGTTAG-TTAAATATTTAATTTTATTTTTATAATTTATAATTAAATAAA
**
9781363 ATTTAAGTTAGCTTAAATATTTAA---T-TTTTTATAATTTATAATTAAATCGA
1 ATTTAAGTTAG-TTAAATATTTAATTTTATTTTTATAATTTATAATTAAATAAA
* *
9781413 ATTTAAATTAGTTAAATATTTAATTTTATTTTTATCATTT
1 ATTTAAGTTAGTTAAATATTTAATTTTATTTTTATAATTT
9781453 GTATAAAAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
49 12 0.15
50 30 0.38
51 1 0.01
52 1 0.01
53 11 0.14
54 23 0.29
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (53 bp):
ATTTAAGTTAGTTAAATATTTAATTTTATTTTTATAATTTATAATTAAATAAA
Found at i:9781416 original size:50 final size:49
Alignment explanation
Indices: 9781292--9781439 Score: 170
Period size: 54 Copynumber: 2.9 Consensus size: 49
9781282 ATTCATCCAC
* *
9781292 ATTTATAGTTGAATCGGATTTAAGTTAGTTTAAATATTTAATTTTATTTTTATA
1 ATTTATAGTTAAATCGAATTTAAGTTAG-TTAAATATTTAA---T-TTTTTATA
* * **
9781346 ATTTTTAGTTAAGTAAAATTTAAGTTAGCTTAAATATTTAATTTTTTATA
1 ATTTATAGTTAAATCGAATTTAAGTTAG-TTAAATATTTAATTTTTTATA
* *
9781396 ATTTATAATTAAATCGAATTTAAATTAGTTAAATATTTAATTTT
1 ATTTATAGTTAAATCGAATTTAAGTTAGTTAAATATTTAATTTT
9781440 ATTTTTATCA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
49 16 0.20
50 30 0.37
51 1 0.01
54 34 0.42
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (49 bp):
ATTTATAGTTAAATCGAATTTAAGTTAGTTAAATATTTAATTTTTTATA
Found at i:9787918 original size:39 final size:41
Alignment explanation
Indices: 9787856--9787933 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 41
9787846 ATGTTGTATG
9787856 GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
1 GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
*
9787897 GATAGTTGG-TT-ATGAAAATGCATGATTGAATATTTGG
1 GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGG
9787934 CTGACATATG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 25 0.69
40 2 0.06
41 9 0.25
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (41 bp):
GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
Found at i:9794156 original size:22 final size:23
Alignment explanation
Indices: 9794131--9794178 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
9794121 ACGTAATGAA
*
9794131 ATTGTATATTTTAAAATTAA-AT
1 ATTGTATATTATAAAATTAATAT
* *
9794153 ATTGTATGTTATAAATTTAATAT
1 ATTGTATATTATAAAATTAATAT
9794176 ATT
1 ATT
9794179 CATACTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (23 bp):
ATTGTATATTATAAAATTAATAT
Found at i:9797575 original size:29 final size:29
Alignment explanation
Indices: 9797543--9797615 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 29
9797533 GATACCTCAT
9797543 TTTCTAAAACCACTTGACTATTTGTTCAA
1 TTTCTAAAACCACTTGACTATTTGTTCAA
*
9797572 TTTCCAAAACCACTTGACTATTTGTTCAA
1 TTTCTAAAACCACTTGACTATTTGTTCAA
9797601 TTT-TCAAAACCACTT
1 TTTCT-AAAACCACTT
9797616 ATAATTAACT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (29 bp):
TTTCTAAAACCACTTGACTATTTGTTCAA
Found at i:9803832 original size:282 final size:284
Alignment explanation
Indices: 9803328--9803899 Score: 1042
Period size: 282 Copynumber: 2.0 Consensus size: 284
9803318 CCACAGACGA
9803328 AAGTAGATTCCAACAGCAGGAACTTGTTGTATGTTCACAGCCAAATGGCAGTTATTATTTGCAAA
1 AAGTAGATTCCAACAGCAGGAACTTGTTGTATGTTCACAGCCAAATGGCAGTTATTATTTGCAAA
* * *
9803393 CCCGTAGTGGTAAATTCACATCTTGGTGTATTAAAGAAGGGAGTTCTGAAGAACTCCTATTATGG
66 CCCGTAGTGGTAAATTCACATCCTGGTGTATTAAAAAAGGGAGGTCTGAAGAACTCCTATTATGG
* *
9803458 TGTGTAGCGGTGGGGTAGGATTTATTTTGTTTGAACTAGAAAATGTATGGTATCACTTAAACTAT
131 TGTGTAGCGGTGGGGTAGGATTTACTTTGTTTGAACTAGAAAATGTATGGCATCACTTAAACTAT
9803523 GTGCATACAAAGCGAGAAAATTATGTTATGATACATATGCGTG-A-ATATATATATGAAAACATG
196 GTGCATACAAAGCGAGAAAATTATGTTATGATACATATGCGTGAATATATATATATGAAAACATG
9803586 TGCATGAACATGATTATTGTGGCC
261 TGCATGAACATGATTATTGTGGCC
9803610 AAGTAGATTCCAA-ATGCAGGAACTTGTTGTATGTTCACAGCCAAATGGCAGTTATTATTTGCAA
1 AAGTAGATTCCAACA-GCAGGAACTTGTTGTATGTTCACAGCCAAATGGCAGTTATTATTTGCAA
*
9803674 ACCCGTAGTGGTAAATTCACATCCTGGTGTGTTAAAAAAGGGAGGTCTGAAGAACTCCTATTATG
65 ACCCGTAGTGGTAAATTCACATCCTGGTGTATTAAAAAAGGGAGGTCTGAAGAACTCCTATTATG
9803739 GTGTGTAGCGGTGGGGTAGGATTTACTTTGTTTGAACTAGAAAATGTATGGCATCACTTAAACTA
130 GTGTGTAGCGGTGGGGTAGGATTTACTTTGTTTGAACTAGAAAATGTATGGCATCACTTAAACTA
9803804 TGTGCATACAAAGCGAGAAAATTATGTTATGATACATATGCGTGAATATATATATATATGAAAAC
195 TGTGCATACAAAGCGAGAAAATTATGTTATGATACATATGCGTG-A-ATATATATATATGAAAAC
9803869 ATGTGCATGAACATGATTATTGTGGCC
258 ATGTGCATGAACATGATTATTGTGGCC
9803896 AAGT
1 AAGT
9803900 CTGAGAATAT
Statistics
Matches: 279, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
281 1 0.00
282 230 0.82
285 1 0.00
286 47 0.17
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (284 bp):
AAGTAGATTCCAACAGCAGGAACTTGTTGTATGTTCACAGCCAAATGGCAGTTATTATTTGCAAA
CCCGTAGTGGTAAATTCACATCCTGGTGTATTAAAAAAGGGAGGTCTGAAGAACTCCTATTATGG
TGTGTAGCGGTGGGGTAGGATTTACTTTGTTTGAACTAGAAAATGTATGGCATCACTTAAACTAT
GTGCATACAAAGCGAGAAAATTATGTTATGATACATATGCGTGAATATATATATATGAAAACATG
TGCATGAACATGATTATTGTGGCC
Found at i:9808436 original size:40 final size:40
Alignment explanation
Indices: 9808377--9808453 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
9808367 TTCATAGCTT
*
9808377 ACCCCCTTATTTTTACTTCTTTTGAGATAACTCACAACTC
1 ACCCCCTTATTTTTACTTCTTTTGAGACAACTCACAACTC
* * * *
9808417 ACCCCTTTATTTTTCCTTCTTTTTAGACAACTTACAA
1 ACCCCCTTATTTTTACTTCTTTTGAGACAACTCACAA
9808454 GGTTAGGACG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.25, C:0.29, G:0.04, T:0.43
Consensus pattern (40 bp):
ACCCCCTTATTTTTACTTCTTTTGAGACAACTCACAACTC
Found at i:9809175 original size:19 final size:19
Alignment explanation
Indices: 9809151--9809187 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9809141 TTTTTCAATT
9809151 TTTTATACTTTATATAATG
1 TTTTATACTTTATATAATG
*
9809170 TTTTATATTTTATATAAT
1 TTTTATACTTTATATAAT
9809188 TGATATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATACTTTATATAATG
Found at i:9809278 original size:16 final size:15
Alignment explanation
Indices: 9809226--9809283 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 15
9809216 TAAATTTAAA
9809226 TATATTTTTTTGAGTTTT
1 TATA-TTTTTT-A-TTTT
*
9809244 TAATACTTTTTATTTT
1 T-ATATTTTTTATTTT
9809260 TATATTTTTTCATTTT
1 TATATTTTTT-ATTTT
9809276 TATATTTT
1 TATATTTT
9809284 ATATAACGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.22
16 18 0.50
17 1 0.03
18 6 0.17
19 3 0.08
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (15 bp):
TATATTTTTTATTTT
Found at i:9809344 original size:122 final size:124
Alignment explanation
Indices: 9809120--9809357 Score: 292
Period size: 122 Copynumber: 1.9 Consensus size: 124
9809110 AAATTTTCAT
* *
9809120 ATACTTTTTGAATTGTTATATTTTTTCAATTTTTTATACTTTATATAATGTTTTATATTTTATAT
1 ATACTTTTT-AATTGTTATATTTTTTCAATTTTTTATACTTTATATAACGTTTTATATTTCATAT
**
9809185 AATTGATATATTATGAGAACTATTTAATTTTTAAATTTAAATATATTTTTTTGAGTTTTTA
65 AATTGATATATTATGAGAAAAATTTAATTTTTAAATTT-AATATATTTTTTTGAGTTTTTA
* * *
9809246 ATACTTTTT-ATTTTTATATTTTTTC-A-TTTTTATATTTTATATAACGTTAATCTTTATTTCAT
1 ATACTTTTTAATTGTTATATTTTTTCAATTTTTTATACTTTATATAACGTT--T-TATATTTCAT
* *
9809308 ATAATT-ATATATTAT-A-AAAAATTTGAA-TTTTGAATTTAATATTTTTTTTT
63 ATAATTGATATATTATGAGAAAAATTT-AATTTTTAAATTTAATATATTTTTTT
9809358 CAAATCTTTA
Statistics
Matches: 99, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
121 12 0.12
122 35 0.35
123 4 0.04
124 25 0.25
125 14 0.14
126 9 0.09
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (124 bp):
ATACTTTTTAATTGTTATATTTTTTCAATTTTTTATACTTTATATAACGTTTTATATTTCATATA
ATTGATATATTATGAGAAAAATTTAATTTTTAAATTTAATATATTTTTTTGAGTTTTTA
Found at i:9812845 original size:6 final size:6
Alignment explanation
Indices: 9812836--9812862 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9812826 TTATTATTAT
9812836 ATATAG ATATAG ATATAG ATATAG ATA
1 ATATAG ATATAG ATATAG ATATAG ATA
9812863 GATAAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
ATATAG
Found at i:9812863 original size:16 final size:16
Alignment explanation
Indices: 9812844--9812883 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9812834 ATATATAGAT
* *
9812844 ATAGATATAGATATAG
1 ATAGATAAAGAGATAG
*
9812860 ATAGATAAATAGATAG
1 ATAGATAAAGAGATAG
9812876 ATAGATAA
1 ATAGATAA
9812884 CATGAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (16 bp):
ATAGATAAAGAGATAG
Found at i:9814861 original size:31 final size:31
Alignment explanation
Indices: 9814824--9814882 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
9814814 TGATAAACCC
9814824 TTATTTGACCACTTATAAAAATGTTTGATAT
1 TTATTTGACCACTTATAAAAATGTTTGATAT
* * *
9814855 TTATTTGATCACTTTTGAAAATGTTTGA
1 TTATTTGACCACTTATAAAAATGTTTGA
9814883 GCATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.47
Consensus pattern (31 bp):
TTATTTGACCACTTATAAAAATGTTTGATAT
Found at i:9821961 original size:13 final size:13
Alignment explanation
Indices: 9821945--9821969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9821935 CTAAAAAAAA
9821945 AAATTACCCAACT
1 AAATTACCCAACT
9821958 AAATTACCCAAC
1 AAATTACCCAAC
9821970 CCAAAATATA
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:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATTACCCAACT
Found at i:9832385 original size:21 final size:19
Alignment explanation
Indices: 9832344--9832392 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
9832334 TATGTTTTGG
* *
9832344 TAATTAAGTAAAATATGAT
1 TAATTAAGTAAAACATAAT
9832363 TAATTAAGATAAAAACATAAT
1 TAATTAAG-T-AAAACATAAT
9832384 TAATTAAGT
1 TAATTAAGT
9832393 TATAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 2 0.08
21 16 0.62
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (19 bp):
TAATTAAGTAAAACATAAT
Found at i:9832660 original size:20 final size:21
Alignment explanation
Indices: 9832635--9832673 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
9832625 TTTCCATGAT
9832635 TGTGAAATTGAT-GAAATTGG
1 TGTGAAATTGATAGAAATTGG
9832655 TGTGAAATTGATAGAAATT
1 TGTGAAATTGATAGAAATT
9832674 AAGCTTGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTGAAATTGATAGAAATTGG
Found at i:9835038 original size:22 final size:22
Alignment explanation
Indices: 9835010--9835051 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
9835000 CTAAGGTATG
9835010 CCAAATTATGAGCGTCACAATT
1 CCAAATTATGAGCGTCACAATT
9835032 CCAAATTATGAGCGTCACAA
1 CCAAATTATGAGCGTCACAA
9835052 GTGAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (22 bp):
CCAAATTATGAGCGTCACAATT
Found at i:9837871 original size:18 final size:18
Alignment explanation
Indices: 9837850--9837890 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
9837840 AATCTAGTCC
*
9837850 CTTCTTTAAATCAACATT
1 CTTCTTTAAATCAAAATT
*
9837868 CTTC-TTAATTCAAAATT
1 CTTCTTTAAATCAAAATT
9837885 -TTCTTT
1 CTTCTTT
9837891 GGCCCTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 13 0.65
18 4 0.20
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (18 bp):
CTTCTTTAAATCAAAATT
Found at i:9868863 original size:105 final size:106
Alignment explanation
Indices: 9868600--9869084 Score: 560
Period size: 105 Copynumber: 4.5 Consensus size: 106
9868590 ATAATACTGA
* * * *
9868600 TATACGAAAAAGGAAAAAAACAAAATTTTTGGGTGCTGGCCTGTCAATGACCGGCACCTAGTACA
1 TATACGAAAAAAG-TAAAAA-AAAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
** **
9868665 ATTTTAAAAAAA-------AATTTCATGTCAGAATCAGATATCAG
63 A-TTTAAAAAAATTTCTTTTTTTTTGTGTCAGAATCAGATATCAG
*
9868703 TATACGAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATT
1 TATACGAAAAAAGTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATT
*
9868768 TAAAAAAATTTTCTTTTTTTTTGTGTCAAAATCAGATATCAG
66 TAAAAAAA-TTTCTTTTTTTTTGTGTCAGAATCAGATATCAG
9868810 TATACGAAAAAAGT-AAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATT
1 TATACGAAAAAAGTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATT
* * *
9868873 TAAAAAAA-AT-TTTTTTTTTGTGTCAGAATCAGATATGAA
66 TAAAAAAATTTCTTTTTTTTTGTGTCAGAATCAGATATCAG
**
9868912 TATACGAAAAAAACAAAAATAAAATTTATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA
1 TATACG-AAAAAAGTAAAA-AAAA---A---TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCA
* * *
9868977 GTACAATTTTAAAAAAAATTTCTTTTTTTTCGCGTCAGACTCAGATATCAG
58 GTACAA-TTT-AAAAAAATTTCTTTTTTTTTGTGTCAGAATCAGATATCAG
* *
9869028 TATACGAAAAAAGTAAAAAAAATAATTTTGGGTGTTGGCCTGTCAATGGCTGGCACC
1 TATACGAAAAAAGT-AAAAAAA-AATTTTGGGTGCTGGCCTGTCAATGGCCGGCACC
9869085 AAATTTATCA
Statistics
Matches: 332, Mismatches: 26, Indels: 41
0.83 0.07 0.10
Matches are distributed among these distances:
99 10 0.03
100 37 0.11
101 4 0.01
102 37 0.11
103 19 0.06
104 3 0.01
105 53 0.16
106 8 0.02
107 35 0.11
108 1 0.00
110 30 0.09
112 39 0.12
113 4 0.01
114 7 0.02
115 10 0.03
116 35 0.11
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (106 bp):
TATACGAAAAAAGTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATT
TAAAAAAATTTCTTTTTTTTTGTGTCAGAATCAGATATCAG
Found at i:9868978 original size:217 final size:209
Alignment explanation
Indices: 9868600--9869084 Score: 620
Period size: 218 Copynumber: 2.3 Consensus size: 209
9868590 ATAATACTGA
* * * * *
9868600 TATACGAAAAAGGAAAAAAACAAAATTTTTGGGTGCTGGCCTGTCAATGACCGGCACCTAGTACA
1 TATACGAAAAAAGTAAAAAA-ATAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
* **
9868665 ATTTTAAAAAAAAATTTCATGTCAGAATCAGATATCAGTATACGAAAAAAGTAAAAAAAAAATTT
64 ATTTTAAAAAAAAATTTCATGTCAGAATCAGATATCAATATACGAAAAAAACAAAAAAAAAATTT
* * *
9868730 GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-TTTAAAAAAATTTTCTTTTTTTTTGTGT
129 GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAATTTCTTTTTTTTCGCGT
9868794 CAAAATCAGATATCAG
194 CAAAATCAGATATCAG
9868810 TATACGAAAAAAGT-AAAAAA-AA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-
1 TATACGAAAAAAGTAAAAAAATAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAT
* ** *
9868871 TTTAAAAAAAATTTTTTTTTTGTGTCAGAATCAGATATGAATATACGAAAAAAACAAAAATAAAA
66 TTTAAAAAAAA-----ATTTCATGTCAGAATCAGATATCAATATACGAAAAAAACAAAAA-AAAA
9868936 TTTATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAATTTCTT
125 ---A----TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAATTTCTT
* *
9869001 TTTTTTCGCGTCAGACTCAGATATCAG
183 TTTTTTCGCGTCAAAATCAGATATCAG
* *
9869028 TATACGAAAAAAGTAAAAAAAATAATTTTGGGTGTTGGCCTGTCAATGGCTGGCACC
1 TATACGAAAAAAGT-AAAAAAATAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACC
9869085 AAATTTATCA
Statistics
Matches: 239, Mismatches: 18, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
204 11 0.05
205 37 0.15
207 2 0.01
208 1 0.00
209 42 0.18
210 16 0.07
213 1 0.00
217 39 0.16
218 53 0.22
220 6 0.03
221 2 0.01
222 29 0.12
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (209 bp):
TATACGAAAAAAGTAAAAAAATAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAT
TTTAAAAAAAAATTTCATGTCAGAATCAGATATCAATATACGAAAAAAACAAAAAAAAAATTTGG
GTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAATTTCTTTTTTTTCGCGTCA
AAATCAGATATCAG
Found at i:9872064 original size:51 final size:52
Alignment explanation
Indices: 9871970--9872095 Score: 218
Period size: 52 Copynumber: 2.4 Consensus size: 52
9871960 CTTGTAAAAT
9871970 TAAATGAGATTTAATG-AAAAAAAGGTGTTAGATGTAGGAAAAAATTTGAAA
1 TAAATGAGATTTAATGAAAAAAAAGGTGTTAGATGTAGGAAAAAATTTGAAA
9872021 TAAATGAGATTTAATGAAAAAAAAGGTGTTAGATGTAGGAAAAAATTTGAAA
1 TAAATGAGATTTAATGAAAAAAAAGGTGTTAGATGTAGGAAAAAATTTGAAA
* * *
9872073 TTAATGAGACTGAATGAAAAAAA
1 TAAATGAGATTTAATGAAAAAAA
9872096 GAGTGTCAGA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 16 0.23
52 55 0.77
ACGTcount: A:0.52, C:0.01, G:0.21, T:0.26
Consensus pattern (52 bp):
TAAATGAGATTTAATGAAAAAAAAGGTGTTAGATGTAGGAAAAAATTTGAAA
Found at i:9872107 original size:52 final size:52
Alignment explanation
Indices: 9871966--9872107 Score: 216
Period size: 52 Copynumber: 2.7 Consensus size: 52
9871956 TATTCTTGTA
9871966 AAATTAAATGAGATTTAATGAAAAAAAG-GTGTTAGATGTAGGAAAAAATTTG
1 AAATT-AATGAGATTTAATGAAAAAAAGAGTGTTAGATGTAGGAAAAAATTTG
*
9872018 AAATAAATGAGATTTAATGAAAAAAA-AGGTGTTAGATGTAGGAAAAAATTTG
1 AAATTAATGAGATTTAATGAAAAAAAGA-GTGTTAGATGTAGGAAAAAATTTG
* * *
9872070 AAATTAATGAGACTGAATGAAAAAAAGAGTGTCAGATG
1 AAATTAATGAGATTTAATGAAAAAAAGAGTGTTAGATG
9872108 GATTTGTCAA
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
51 21 0.26
52 60 0.73
53 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.22, T:0.26
Consensus pattern (52 bp):
AAATTAATGAGATTTAATGAAAAAAAGAGTGTTAGATGTAGGAAAAAATTTG
Found at i:9872252 original size:43 final size:44
Alignment explanation
Indices: 9872187--9872292 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
9872177 GAATTAAATT
9872187 AAATGAAATTCTGAAAAGTGAGTCAAA-ATAAAT-TAGATAAAAAC
1 AAATGAAATT-TGAAAAGTGAGTCAAAGATAAATGT-GATAAAAAC
** * *
9872231 AAATGAAATTTGAAAAGTGAGTCAAAGATGGATGTGATAGAAAT
1 AAATGAAATTTGAAAAGTGAGTCAAAGATAAATGTGATAAAAAC
9872275 AAATGAAATTTGAAAAGT
1 AAATGAAATTTGAAAAGT
9872293 TAGTTAGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 16 0.29
44 39 0.70
45 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.19, T:0.25
Consensus pattern (44 bp):
AAATGAAATTTGAAAAGTGAGTCAAAGATAAATGTGATAAAAAC
Found at i:9872716 original size:44 final size:43
Alignment explanation
Indices: 9872662--9872806 Score: 182
Period size: 44 Copynumber: 3.3 Consensus size: 43
9872652 ATAATTGTTC
* *
9872662 TGACTAACTTTTCAAATTTCATTTATTTCTATCCCATCCATCTT
1 TGACTCACTTTTCAAATTTCATTTATTTCTATCCAATCCAT-TT
* *
9872706 TGACTCACTTTTCAAATTTCATTTGTTTCTATCCAATTCATTT
1 TGACTCACTTTTCAAATTTCATTTATTTCTATCCAATCCATTT
* * *
9872749 TGACTCACTTTTCAGAATTTCATTTAATTCAATTCAATCTCATTTAT
1 TGACTCACTTTTCA-AATTTCATTTATTTCTATCCAATC-CA-TT-T
9872796 TGACTCACTTT
1 TGACTCACTTT
9872807 CTTTTTCCTA
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
43 16 0.18
44 56 0.64
45 2 0.02
46 2 0.02
47 12 0.14
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.48
Consensus pattern (43 bp):
TGACTCACTTTTCAAATTTCATTTATTTCTATCCAATCCATTT
Found at i:9872989 original size:55 final size:54
Alignment explanation
Indices: 9872865--9872997 Score: 203
Period size: 54 Copynumber: 2.4 Consensus size: 54
9872855 TTTGACACTC
* * * *
9872865 TTTTTTTTCATTCAGTCTCATTAATTTCAAATTTTTTTTCTACATCCAACACCT
1 TTTTTTTTCATTAAATCTCATTTATTTCAAATTTTTTTCCTACATCCAACACCT
* *
9872919 TTTTCTTTCATTAAATCTCATTTATTTCAAATTTTTTTCCTACATCTAACACCT
1 TTTTTTTTCATTAAATCTCATTTATTTCAAATTTTTTTCCTACATCCAACACCT
9872973 TTCTTTTTTCATTAAATCTCATTTA
1 TT-TTTTTTCATTAAATCTCATTTA
9872998 ATTTTACAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 50 0.70
55 21 0.30
ACGTcount: A:0.25, C:0.21, G:0.01, T:0.53
Consensus pattern (54 bp):
TTTTTTTTCATTAAATCTCATTTATTTCAAATTTTTTTCCTACATCCAACACCT
Found at i:9894846 original size:17 final size:17
Alignment explanation
Indices: 9894805--9894846 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
9894795 ACAGTTACAT
*
9894805 AATTTA-TATTTTAAAA
1 AATTTATTATTATAAAA
* *
9894821 TATTAATTATTATAAAA
1 AATTTATTATTATAAAA
9894838 AATTTATTA
1 AATTTATTA
9894847 GTATGATAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTATTATTATAAAA
Found at i:9895514 original size:24 final size:24
Alignment explanation
Indices: 9895499--9895550 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9895489 AATCAAAGTC
9895499 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
9895523 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
9895547 AAAT
1 AAAT
9895551 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:9903041 original size:24 final size:24
Alignment explanation
Indices: 9903014--9903061 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9903004 AAAGTCACAA
* *
9903014 ATATTATGCTAATAAATGCTAAAT
1 ATATTATACTAATAAATACTAAAT
*
9903038 ATATTATACTCATAAATACTAAAT
1 ATATTATACTAATAAATACTAAAT
9903062 CTTCTAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATTATACTAATAAATACTAAAT
Found at i:9905525 original size:92 final size:90
Alignment explanation
Indices: 9905350--9905575 Score: 283
Period size: 92 Copynumber: 2.5 Consensus size: 90
9905340 CTATTGTTTT
* * * * *
9905350 AGGTTAATACGCTGCCAATAGTTGTGAATACACAATGGGTTTGTAGATAATAGTTGCCAGTATAA
1 AGGTTAATACACTGCCAATAGTTGTGAATACACAA-CGATTTTTAGATAATAGTTGCCAATATAA
*
9905415 GTTGTGGATAAACCACGAGTGCTTTC
65 GTTGTGGATAAACCACGAGTGCTTGC
* ** *
9905441 AGGTTAATACACAGCCCGTAGTTGTGAATACACAACGATTTTTACAGATGAA-AGTTGTCAATAT
1 AGGTTAATACACTGCCAATAGTTGTGAATACACAACGATTTTT--AGAT-AATAGTTGCCAATAT
* *
9905505 AAGTTGTGGCTAAACGACGAGTGCTTGC
63 AAGTTGTGGATAAACCACGAGTGCTTGC
* *
9905533 AGGTTAATACACTGCCAATAGTTGTAAATACACAACAATTTTT
1 AGGTTAATACACTGCCAATAGTTGTGAATACACAACGATTTTT
9905576 GCAGCTAAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
90 5 0.04
91 31 0.27
92 77 0.67
93 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (90 bp):
AGGTTAATACACTGCCAATAGTTGTGAATACACAACGATTTTTAGATAATAGTTGCCAATATAAG
TTGTGGATAAACCACGAGTGCTTGC
Found at i:9905883 original size:92 final size:92
Alignment explanation
Indices: 9905723--9905939 Score: 285
Period size: 92 Copynumber: 2.4 Consensus size: 92
9905713 TACAAATAAT
* * * * *
9905723 AGCTACCAGTATAAGTTGTGTATAAACCATGAGTGCTTGCAGGTTAATACGTTGTCATTAGTTGT
1 AGCTACCAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAGGTTAATACGTTGCCAGTAGTTAT
9905788 GAATACACAACGATTTTTGCAGATGAA
66 GAATACACAACGATTTTTGCAGATGAA
* * *
9905815 AGCTACTAGTATAAGTTGTGGATAAACCACGCGTGCTTGTAGGTTAATACGTTGCCAGTAGTTAT
1 AGCTACCAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAGGTTAATACGTTGCCAGTAGTTAT
* *
9905880 GAATACACAACGATTTTTGTAGATGGA
66 GAATACACAACGATTTTTGCAGATGAA
* * * * *
9905907 AGTTGCCA--ATAATTTATGGATAAACCACCAGTG
1 AGCTACCAGTATAAGTTGTGGATAAACCACGAGTG
9905940 TTTGTAGTTA
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 21 0.19
92 87 0.81
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (92 bp):
AGCTACCAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAGGTTAATACGTTGCCAGTAGTTAT
GAATACACAACGATTTTTGCAGATGAA
Found at i:9906006 original size:322 final size:322
Alignment explanation
Indices: 9905396--9906028 Score: 784
Period size: 322 Copynumber: 2.0 Consensus size: 322
9905386 GGGTTTGTAG
* * * *
9905396 ATAATAGTTGCCAGTATAAGTTGTGGATAAACCACGAGTGCTTTCAGGTTAATACACAGCCCGTA
1 ATAATAGCTACCAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAGGTTAATACACAGCCAGTA
** * *
9905461 GTTGTGAATACACAACGATTTTTACAGATGAAAGTTGTCAATATAAGTTGTGGCTAAACGACGAG
66 GTTGTGAATACACAACGATTTTTACAGATGAAAGTACTCAATATAAGTTGTGGATAAACCACGAG
* * *
9905526 TGCTTGCAGGTTAATACACTGCCAATAGTTGTAAATACACAACAATTTTTGCAGCTAAAAGCTAT
131 TGCTTGCAGGTTAATACACTGCCAATAGTTATAAATACACAACAATTTTTGCAGATAAAAGCTAC
* * * * * ** *
9905591 TAGTAATTTGTGGATAAACCACCAGTGCTTGTAGTTAAAACTGTCAGTACTTTTTCCTTTCAATA
196 CAATAATTTATGGATAAACCACCAGTGCTTGTAGTTAAAACTGCCAATACTTCCTCCTTTCAACA
* *
9905656 CGTCCCACCCCATACAATGCAATATGACATGCAG-GCATCAATATAATACAACCAGTTTACAA
261 CGTCCCACCCCATACAACGCAATATGACATG-AGAGCATCAATACAATACAACCAGTTTACAA
* * *** * *
9905718 ATAATAGCTACCAGTATAAGTTGTGTATAAACCATGAGTGCTTGCAGGTTAATACGTTGTCATTA
1 ATAATAGCTACCAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAGGTTAATACACAGCCAGTA
* * *
9905783 GTTGTGAATACACAACGATTTTTGCAGATGAAAGCTACT-AGTATAAGTTGTGGATAAACCACGC
66 GTTGTGAATACACAACGATTTTTACAGATGAAAG-TACTCAATATAAGTTGTGGATAAACCACGA
* ** * * * * ** * *
9905847 GTGCTTGTAGGTTAATACGTTGCCAGTAGTTATGAATACACAACGATTTTTGTAGATGGAAGTTG
130 GTGCTTGCAGGTTAATACACTGCCAATAGTTATAAATACACAACAATTTTTGCAGATAAAAGCTA
* *
9905912 CCAATAATTTATGGATAAACCACCAGTGTTTGTAGTTAAAACTGCCAATGCTTCCTCCTTTCAAC
195 CCAATAATTTATGGATAAACCACCAGTGCTTGTAGTTAAAACTGCCAATACTTCCTCCTTTCAAC
* * * * * *
9905977 GCGTCCCGCCCCATGCAACGTAGTATGACATGTGAGCATCAATACAATACAA
260 ACGTCCCACCCCATACAACGCAATATGACATGAGAGCATCAATACAATACAA
9906029 AAATAGTAAA
Statistics
Matches: 259, Mismatches: 50, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
321 1 0.00
322 256 0.99
323 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (322 bp):
ATAATAGCTACCAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAGGTTAATACACAGCCAGTA
GTTGTGAATACACAACGATTTTTACAGATGAAAGTACTCAATATAAGTTGTGGATAAACCACGAG
TGCTTGCAGGTTAATACACTGCCAATAGTTATAAATACACAACAATTTTTGCAGATAAAAGCTAC
CAATAATTTATGGATAAACCACCAGTGCTTGTAGTTAAAACTGCCAATACTTCCTCCTTTCAACA
CGTCCCACCCCATACAACGCAATATGACATGAGAGCATCAATACAATACAACCAGTTTACAA
Found at i:9924307 original size:31 final size:31
Alignment explanation
Indices: 9924272--9924340 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
9924262 AAAATAATCC
*
9924272 TTGAACTATTTGAGAGGTTTCATTTAAGTTA
1 TTGAACTATTTGAAAGGTTTCATTTAAGTTA
* *
9924303 TTGAACTATTTGAAAGTTTTTATTTAAGTTA
1 TTGAACTATTTGAAAGGTTTCATTTAAGTTA
*
9924334 TCGAACT
1 TTGAACT
9924341 GTTAAGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.46
Consensus pattern (31 bp):
TTGAACTATTTGAAAGGTTTCATTTAAGTTA
Found at i:9938722 original size:20 final size:20
Alignment explanation
Indices: 9938693--9938772 Score: 58
Period size: 20 Copynumber: 4.0 Consensus size: 20
9938683 TTCTTTTAAA
9938693 ATTTT-AAAAATATAAAAATT
1 ATTTTAAAAAAT-TAAAAATT
*
9938713 ATTTTTAAAAATTAAAAATT
1 ATTTTAAAAAATTAAAAATT
* **
9938733 A--ATAAAAAATATAAATGTT
1 ATTTTAAAAAAT-TAAAAATT
*
9938752 ATTTTCTAAAAAATTTAAAAT
1 A-TTT-TAAAAAATTAAAAAT
9938773 ATCATCTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
18 7 0.15
19 7 0.15
20 14 0.30
21 6 0.13
22 4 0.09
23 8 0.17
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (20 bp):
ATTTTAAAAAATTAAAAATT
Found at i:9939764 original size:7 final size:7
Alignment explanation
Indices: 9939752--9939779 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9939742 AGTTACTATA
9939752 CTAAATT
1 CTAAATT
9939759 CTAAATT
1 CTAAATT
9939766 CTAAATT
1 CTAAATT
9939773 CTAAATT
1 CTAAATT
9939780 TGTGTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (7 bp):
CTAAATT
Found at i:9948143 original size:101 final size:99
Alignment explanation
Indices: 9947954--9948178 Score: 263
Period size: 101 Copynumber: 2.2 Consensus size: 99
9947944 TTGGTGGTAT
*
9947954 CGCCACATTTGGTGTTGGCACCAAAGGAATTTTTTTATTAGATTTTGGTGCCTCAACATGAAGAG
1 CGCCACATTTGGAGTTGGCACC--AGGAATTTTTTTATTAGATTTTGGTGCCTCAACATGAAGAG
* *
9948019 ACGACATCGAAAAATTC-AAAAAAAATTACTGGTGT
64 ACGACATCGAAAAATTCAAAAAAAAAATACTGGTGC
* * *
9948054 TGCCACATTTGGAGTTGGCACCAGGAAATTTTTTTTTTATAGATTTTGGTGCCTCCACATGAAGA
1 CGCCACATTTGGAGTTGGCACCAGG-AA-TTTTTTTAT-TAGATTTTGGTGCCTCAACATGAAGA
* ** ***
9948119 GACGATATCGAAATTTTTTTAAAAAAAATACTGGTGC
63 GACGACATCGAAAAATTCAAAAAAAAAATACTGGTGC
* * *
9948156 CACCACATCTAGAGTTGGCACCA
1 CGCCACATTTGGAGTTGGCACCA
9948179 AGGGAAACTT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
98 3 0.03
99 2 0.02
100 28 0.26
101 39 0.37
102 34 0.32
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (99 bp):
CGCCACATTTGGAGTTGGCACCAGGAATTTTTTTATTAGATTTTGGTGCCTCAACATGAAGAGAC
GACATCGAAAAATTCAAAAAAAAAATACTGGTGC
Found at i:9948176 original size:102 final size:102
Alignment explanation
Indices: 9947983--9948178 Score: 270
Period size: 101 Copynumber: 1.9 Consensus size: 102
9947973 ACCAAAGGAA
9947983 TTTTTTTATTAGATTTTGGTGCCTCAACATGAAGAGACGACATCGAAAAATTCAAAAAAAATTAC
1 TTTTTTTATTAGATTTTGGTGCCTCAACATGAAGAGACGACATCGAAAAATTCAAAAAAAATTAC
*** * *
9948048 TGGTGTTGCCACATTTGGAGTTGGCACCAGGAAATTT
66 TGGTGCCACCACATCTAGAGTTGGCACCAGGAAATTT
* * ** *
9948085 TTTTTTTA-TAGATTTTGGTGCCTCCACATGAAGAGACGATATCGAAATTTTTTTAAAAAAAA-T
1 TTTTTTTATTAGATTTTGGTGCCTCAACATGAAGAGACGACATCGAAA--AATTCAAAAAAAATT
9948148 ACTGGTGCCACCACATCTAGAGTTGGCACCA
64 ACTGGTGCCACCACATCTAGAGTTGGCACCA
9948179 AGGGAAACTT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
101 37 0.45
102 35 0.43
103 10 0.12
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (102 bp):
TTTTTTTATTAGATTTTGGTGCCTCAACATGAAGAGACGACATCGAAAAATTCAAAAAAAATTAC
TGGTGCCACCACATCTAGAGTTGGCACCAGGAAATTT
Found at i:9948753 original size:61 final size:61
Alignment explanation
Indices: 9948603--9948755 Score: 154
Period size: 61 Copynumber: 2.5 Consensus size: 61
9948593 AAGTTGGGTC
9948603 ATTTAAAAAATAAATA-TT-AAAAAAAAGCCACTTCCCAAGTATTTTATAGGGATATAGTAAAAT
1 ATTTAAAAAATAAATACTTAAAAAAAAAGCCA----CCAAGTATTTTATAGGGATATAGTAAAAT
* ** * * *
9948666 ATTTATAGGAT--TTCACTTTTATAAAAAAAGCCA-CAAGTGTTTTATAGGGATATAGTAAAAT
1 ATTTAAAAAATAAAT-AC--TTAAAAAAAAAGCCACCAAGTATTTTATAGGGATATAGTAAAAT
9948727 ATTTAAAAAATAAATACTTAAAAAAAAAG
1 ATTTAAAAAATAAATACTTAAAAAAAAAG
9948756 AGACACATGA
Statistics
Matches: 72, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
60 11 0.15
61 36 0.50
62 3 0.04
63 9 0.12
65 2 0.03
66 11 0.15
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (61 bp):
ATTTAAAAAATAAATACTTAAAAAAAAAGCCACCAAGTATTTTATAGGGATATAGTAAAAT
Found at i:9956033 original size:15 final size:16
Alignment explanation
Indices: 9956005--9956040 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
9955995 AATTACCTTT
9956005 TTTTTACTTCATTTCC
1 TTTTTACTTCATTTCC
*
9956021 TTTTTCCTT-ATTTCC
1 TTTTTACTTCATTTCC
9956036 TTTTT
1 TTTTT
9956041 TTCCCGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTACTTCATTTCC
Found at i:9956041 original size:16 final size:17
Alignment explanation
Indices: 9956004--9956041 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9955994 AAATTACCTT
9956004 TTTTTTACTTCATTTCC
1 TTTTTTACTTCATTTCC
*
9956021 -TTTTTCCTT-ATTTCC
1 TTTTTTACTTCATTTCC
9956036 TTTTTT
1 TTTTTT
9956042 TCCCGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTACTTCATTTCC
Done.