Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 13 of 402
Found at i:2907894 original size:6 final size:6
Alignment explanation
Indices: 2907860--2907891 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
2907850 TAACACTGGC
*
2907860 CTTGGT CTTGGT CTTGGT CTTGGT CTAGGT CT
1 CTTGGT CTTGGT CTTGGT CTTGGT CTTGGT CT
2907892 AGGCTGCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.19, G:0.31, T:0.47
Consensus pattern (6 bp):
CTTGGT
Found at i:2917525 original size:22 final size:22
Alignment explanation
Indices: 2917480--2917526 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
2917470 TTTGATTCGA
* *
2917480 TTTAAATTTAATAAAATATCTT
1 TTTAAAATTAATAAAATATATT
2917502 TTTAAAATT-ATAAAATATTATT
1 TTTAAAATTAATAAAATA-TATT
2917524 TTT
1 TTT
2917527 TTAACTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAAAATTAATAAAATATATT
Found at i:2920229 original size:24 final size:25
Alignment explanation
Indices: 2920203--2920248 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2920193 CAAAATGATA
*
2920203 AAAAT-AATTTTTTAT-TTAATACG
1 AAAATAAATTTATTATATTAATACG
2920226 AAAATAAATTTATTATATTAATA
1 AAAATAAATTTATTATATTAATA
2920249 AATTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 9 0.45
25 6 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
AAAATAAATTTATTATATTAATACG
Found at i:2920288 original size:24 final size:25
Alignment explanation
Indices: 2920228--2920294 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
2920218 TTAATACGAA
* *
2920228 AATAAATTTATTATATTAATAAATT
1 AATAAATTTTTTATATTAACAAATT
2920253 AATAAATTTTTT-TATATAACAAA-T
1 AATAAATTTTTTATAT-TAACAAATT
2920277 AATAAATATTTTT-TATTA
1 AATAAAT-TTTTTATATTA
2920295 TTTATTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 13 0.34
25 25 0.66
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
AATAAATTTTTTATATTAACAAATT
Found at i:2920289 original size:25 final size:27
Alignment explanation
Indices: 2920233--2920292 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
2920223 ACGAAAATAA
* *
2920233 ATTTATTATATTAATAAATTAATAAAT
1 ATTTTTTATATTAACAAATTAATAAAT
2920260 -TTTTTTATA-TAACAAA-TAATAAAT
1 ATTTTTTATATTAACAAATTAATAAAT
2920284 ATTTTTTAT
1 ATTTTTTAT
2920293 TATTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 8 0.27
25 14 0.47
26 8 0.27
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTTTTTATATTAACAAATTAATAAAT
Found at i:2920487 original size:23 final size:22
Alignment explanation
Indices: 2920435--2920487 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
2920425 ATATTATTGC
2920435 TATTATTATTTATTTAAATATA
1 TATTATTATTTATTTAAATATA
* *
2920457 TATT-TTATCATTATTTTAATTTA
1 TATTATTAT--TTATTTAAATATA
2920480 -ATTATTAT
1 TATTATTAT
2920488 AATAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 7 0.27
23 15 0.58
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTATTATTTATTTAAATATA
Found at i:2921860 original size:12 final size:12
Alignment explanation
Indices: 2921843--2921868 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2921833 AATAAATATT
2921843 TTTTTAATTTAA
1 TTTTTAATTTAA
2921855 TTTTTAATTTAA
1 TTTTTAATTTAA
2921867 TT
1 TT
2921869 AATTTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTAATTTAA
Found at i:2922264 original size:16 final size:15
Alignment explanation
Indices: 2922243--2922278 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
2922233 CTCTTTTTTT
2922243 TTTTTAATTCAATTTA
1 TTTTTAATT-AATTTA
*
2922259 TTTTTAATTATTTTA
1 TTTTTAATTAATTTA
2922274 TTTTT
1 TTTTT
2922279 TATTTATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTAATTAATTTA
Found at i:2922279 original size:16 final size:16
Alignment explanation
Indices: 2922237--2922291 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
2922227 GATTCTCTCT
*
2922237 TTTTTTTTTTTAATTCA
1 TTTTATTTTTTAATT-A
*
2922254 ATTTA-TTTTTAATTA
1 TTTTATTTTTTAATTA
*
2922269 TTTTATTTTTTATTTA
1 TTTTATTTTTTAATTA
2922285 TCTTTAT
1 T-TTTAT
2922292 AATCTTATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.16
16 19 0.59
17 8 0.25
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTTAATTA
Found at i:2934142 original size:22 final size:21
Alignment explanation
Indices: 2934115--2934170 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2934105 ATCTGATTTA
*
2934115 AAATTAATAAAATATTATTTTT
1 AAATT-ATAAAATATAATTTTT
2934137 AAATTATAAAATATAATTTTT
1 AAATTATAAAATATAATTTTT
2934158 -AA-TAT-AAATATAA
1 AAATTATAAAATATAA
2934171 AATTAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 8 0.24
19 3 0.09
20 2 0.06
21 15 0.45
22 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATTATAAAATATAATTTTT
Found at i:2934145 original size:21 final size:22
Alignment explanation
Indices: 2934115--2934159 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
2934105 ATCTGATTTA
*
2934115 AAATTAATAAAATATTATTTTT
1 AAATTAATAAAATATAATTTTT
2934137 AAATT-ATAAAATATAATTTTT
1 AAATTAATAAAATATAATTTTT
2934158 AA
1 AA
2934160 TATAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTAATAAAATATAATTTTT
Found at i:2934187 original size:22 final size:22
Alignment explanation
Indices: 2934159--2934222 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
2934149 ATAATTTTTA
2934159 ATATAAATATAAAATTAAATAT
1 ATATAAATATAAAATTAAATAT
* *
2934181 ATATAAATA-AAAAATAAATTTT
1 ATATAAATATAAAATTAAA-TAT
* *
2934203 ATATATATATAAGATTAAAT
1 ATATAAATATAAAATTAAAT
2934223 CAGATCAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 8 0.23
22 20 0.57
23 7 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATAAATATAAAATTAAATAT
Found at i:2941095 original size:3 final size:3
Alignment explanation
Indices: 2941087--2941116 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2941077 AAATTTAATA
2941087 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2941117 CTGATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2951890 original size:23 final size:22
Alignment explanation
Indices: 2951864--2951927 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
2951854 GACGTGACGG
2951864 AATAATATTTAATTATTTATTT
1 AATAATATTTAATTATTTATTT
**
2951886 AAATAATATCAAATT-TTTATTT
1 -AATAATATTTAATTATTTATTT
* * *
2951908 AGTATTATTTAATTAATTAT
1 AATAATATTTAATTATTTAT
2951928 AATAAATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 10 0.30
22 11 0.33
23 12 0.36
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
AATAATATTTAATTATTTATTT
Found at i:2951963 original size:11 final size:12
Alignment explanation
Indices: 2951929--2951980 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
2951919 ATTAATTATA
2951929 ATAAATTAAAATT
1 ATAAATT-AAATT
*
2951942 TTAATATTAAATT
1 ATAA-ATTAAATT
2951955 AT-AATTAAATT
1 ATAAATTAAATT
2951966 AATAAATTAAGATT
1 -ATAAATTAA-ATT
2951980 A
1 A
2951981 ATTATTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 8 0.24
12 3 0.09
13 16 0.48
14 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
ATAAATTAAATT
Found at i:2951971 original size:19 final size:19
Alignment explanation
Indices: 2951917--2951974 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
2951907 TAGTATTATT
*
2951917 TAATTAATTATAATAAATTA
1 TAATTAAAT-TAATAAATTA
* * *
2951937 AAATTTTAA-TATTAAATTA
1 TAA-TTAAATTAATAAATTA
2951956 TAATTAAATTAATAAATTA
1 TAATTAAATTAATAAATTA
2951975 AGATTAATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
18 4 0.14
19 20 0.69
20 2 0.07
21 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATTAAATTAATAAATTA
Found at i:2951983 original size:29 final size:28
Alignment explanation
Indices: 2951919--2951985 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 28
2951909 GTATTATTTA
* *
2951919 ATTAATTATAATAAATTAAAATTTTAAT
1 ATTAATTATAATAAATTAAAATATTAAG
2951947 ATTAAATTATAATTAAATTAATAA-ATTAAG
1 ATT-AATTATAA-TAAATTAA-AATATTAAG
2951977 ATTAATTAT
1 ATTAATTAT
2951986 TTTTGTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
29 14 0.41
30 15 0.44
31 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (28 bp):
ATTAATTATAATAAATTAAAATATTAAG
Found at i:2952733 original size:23 final size:23
Alignment explanation
Indices: 2952705--2952752 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2952695 AATATAGTAA
*
2952705 AATTTTA-ATAAATATAATACTTT
1 AATTTTAGATAAAT-TAATAATTT
2952728 AATTTTAGATAAATTAATAATTT
1 AATTTTAGATAAATTAATAATTT
2952751 AA
1 AA
2952753 AATATAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
AATTTTAGATAAATTAATAATTT
Found at i:2952928 original size:23 final size:23
Alignment explanation
Indices: 2952902--2952947 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2952892 CATAATTTTT
2952902 ATATAAAATATGATATAAATATA
1 ATATAAAATATGATATAAATATA
*** *
2952925 ATATTTTATATGATATAATTATA
1 ATATAAAATATGATATAAATATA
2952948 TAAATTATCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
ATATAAAATATGATATAAATATA
Found at i:2961859 original size:74 final size:74
Alignment explanation
Indices: 2961738--2961885 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
2961728 TGGAAACAAC
* *
2961738 CAAACTATAAAATACTCAATACCAATGAATTTTTAAGCATTTAACAATTGTTAGATGAAGCCTAA
1 CAAACTATAAAATACTCAATACCAATGAATTGTTAAGCATTTAACAATTGTTAGATAAAGCCTAA
2961803 AGTGCAATA
66 AGTGCAATA
*
2961812 CAAACTATAAAATTCTCAATACCAATGAATTGTTAAGCATTTAACAATTGTTAGATAAAGCCTAA
1 CAAACTATAAAATACTCAATACCAATGAATTGTTAAGCATTTAACAATTGTTAGATAAAGCCTAA
2961877 AGTGCAATA
66 AGTGCAATA
2961886 AGTTGATAGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.30
Consensus pattern (74 bp):
CAAACTATAAAATACTCAATACCAATGAATTGTTAAGCATTTAACAATTGTTAGATAAAGCCTAA
AGTGCAATA
Found at i:2966285 original size:28 final size:29
Alignment explanation
Indices: 2966216--2966287 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
2966206 TGTGTTTTTA
* * *
2966216 TATATACTAGTATTAGTTATGTCTATTCATG
1 TATATAC-A-TATTAATTATATCTATTCACG
**
2966247 TATATTTATATTAATTATAT-TATTCACG
1 TATATACATATTAATTATATCTATTCACG
2966275 TATATACATATTA
1 TATATACATATTA
2966288 TTCGTGTCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 18 0.53
29 10 0.29
30 1 0.03
31 5 0.15
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (29 bp):
TATATACATATTAATTATATCTATTCACG
Found at i:2967057 original size:16 final size:18
Alignment explanation
Indices: 2967023--2967059 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
2967013 ACATTCTTAA
2967023 AAATTATATCAATAATTT
1 AAATTATATCAATAATTT
2967041 AAATTATA-CAA-AATTT
1 AAATTATATCAATAATTT
2967057 AAA
1 AAA
2967060 AAATATAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTATATCAATAATTT
Found at i:2967066 original size:18 final size:20
Alignment explanation
Indices: 2967019--2967066 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
2967009 TATTACATTC
2967019 TTAAAAATTATATCAATAAT
1 TTAAAAATTATATCAATAAT
2967039 TT--AAATTATA-CAA-AAT
1 TTAAAAATTATATCAATAAT
*
2967055 TTAAAAAATATA
1 TTAAAAATTATA
2967067 AGTTTGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.20
17 3 0.12
18 15 0.60
20 2 0.08
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAATTATATCAATAAT
Found at i:2976772 original size:34 final size:35
Alignment explanation
Indices: 2976707--2976775 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
2976697 CGAAACAATG
*
2976707 TAATTAATTAAAAATTTTAATTTAATTAATTTATA
1 TAATTAATTAAAAATTTTAATTTAATAAATTTATA
*
2976742 TAATTACTTAAAAATTTT-ATTTAATAAATTTATA
1 TAATTAATTAAAAATTTTAATTTAATAAATTTATA
2976776 ATTTAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 15 0.47
35 17 0.53
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (35 bp):
TAATTAATTAAAAATTTTAATTTAATAAATTTATA
Found at i:2978981 original size:13 final size:13
Alignment explanation
Indices: 2978948--2978982 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
2978938 TTTTAATAAT
2978948 AAAATA-ATTATA
1 AAAATATATTATA
2978960 AAAATTATATTATA
1 AAAA-TATATTATA
2978974 AAAATATAT
1 AAAATATAT
2978983 CTTTAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 7 0.33
14 10 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAATATATTATA
Found at i:2985202 original size:20 final size:18
Alignment explanation
Indices: 2985154--2985206 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
2985144 TTGATCTATG
2985154 TCATAATTTAAATATAAT
1 TCATAATTTAAATATAAT
* *
2985172 T-ATTATATTAAGTATGAAAT
1 TCATAAT-TTAAATAT--AAT
2985192 TCATAATTTAAATAT
1 TCATAATTTAAATAT
2985207 TACATTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
17 4 0.15
18 8 0.30
20 11 0.41
21 4 0.15
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (18 bp):
TCATAATTTAAATATAAT
Found at i:2988505 original size:23 final size:23
Alignment explanation
Indices: 2988479--2988524 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2988469 AGTATGTATG
*
2988479 TTTGTATGTTTATGAGTGGACTA
1 TTTGTATGTTTATGACTGGACTA
*
2988502 TTTGTATGTTTGTGACTGGACTA
1 TTTGTATGTTTATGACTGGACTA
2988525 GAAGAAACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.26, T:0.48
Consensus pattern (23 bp):
TTTGTATGTTTATGACTGGACTA
Found at i:2992704 original size:25 final size:25
Alignment explanation
Indices: 2992676--2992725 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2992666 CCTAGGTAAG
*
2992676 TTGGTTTCATATCCAAATGCCAAAC
1 TTGGTTTCATATACAAATGCCAAAC
*
2992701 TTGGTTTCATATACAATTGCCAAAC
1 TTGGTTTCATATACAAATGCCAAAC
2992726 ATCCATCGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (25 bp):
TTGGTTTCATATACAAATGCCAAAC
Found at i:2995165 original size:19 final size:18
Alignment explanation
Indices: 2995141--2995176 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2995131 GTTTTAAACG
2995141 AAAATATGATATGAAAATA
1 AAAATATGATAT-AAAATA
*
2995160 AAAATATTATATAAAAT
1 AAAATATGATATAAAAT
2995177 TATATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAAATATGATATAAAATA
Found at i:2995966 original size:15 final size:15
Alignment explanation
Indices: 2995946--2995976 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2995936 GTGGAATGGG
2995946 GAAAGGAAAGGAAAA
1 GAAAGGAAAGGAAAA
*
2995961 GAAAGGAGAGGAAAA
1 GAAAGGAAAGGAAAA
2995976 G
1 G
2995977 CTGTTCTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
GAAAGGAAAGGAAAA
Found at i:2996617 original size:3 final size:3
Alignment explanation
Indices: 2996609--2996645 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2996599 TGCTAGCATG
2996609 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2996646 AAGAGCTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2997479 original size:16 final size:16
Alignment explanation
Indices: 2997460--2997503 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
2997450 TTAAGAGATT
2997460 ATATTTAGTAATTTTA
1 ATATTTAGTAATTTTA
*
2997476 ATATTTA--AATTTCA
1 ATATTTAGTAATTTTA
2997490 ATATTT-GTAATTTT
1 ATATTTAGTAATTTT
2997504 TTTTTTATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 12 0.50
15 5 0.21
16 7 0.29
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (16 bp):
ATATTTAGTAATTTTA
Found at i:2997843 original size:30 final size:29
Alignment explanation
Indices: 2997786--2997844 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
2997776 ACTGATCAAA
* *
2997786 AATAAAAAATTCAAAACTTGAGAAATTAT
1 AATAAAAAATTAAAAACTTGAAAAATTAT
2997815 AATAAAAATATTAAAAACTT-AAATAATTAT
1 AATAAAAA-ATTAAAAACTTGAAA-AATTAT
2997845 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (29 bp):
AATAAAAAATTAAAAACTTGAAAAATTAT
Found at i:3012180 original size:22 final size:22
Alignment explanation
Indices: 3012152--3012195 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3012142 ACAAAATATA
* *
3012152 ATTTATAATTTTTATTAAATTT
1 ATTTATAATTTATATAAAATTT
3012174 ATTTATAATTTATATAAAATTT
1 ATTTATAATTTATATAAAATTT
3012196 TAAATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTATAATTTATATAAAATTT
Found at i:3012261 original size:22 final size:22
Alignment explanation
Indices: 3012233--3012280 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
3012223 CATATTTTAA
3012233 TTATATTTA-AAATTATTATATT
1 TTATATTTATAAATTATTAT-TT
**
3012255 TTATATTTATATGTTATTATTT
1 TTATATTTATAAATTATTATTT
3012277 TTAT
1 TTAT
3012281 CGTGTTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTATATTTATAAATTATTATTT
Found at i:3012595 original size:19 final size:19
Alignment explanation
Indices: 3012566--3012613 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
3012556 AATATTCAAT
3012566 TAATATAATACGA-TATAATA
1 TAAT-TAATACGATTAT-ATA
3012586 TAATTAATACGATTATATA
1 TAATTAATACGATTATATA
*
3012605 TAAATAATA
1 TAATTAATA
3012614 AATTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
TAATTAATACGATTATATA
Found at i:3012643 original size:73 final size:72
Alignment explanation
Indices: 3012529--3012686 Score: 167
Period size: 73 Copynumber: 2.2 Consensus size: 72
3012519 ACATAAAATC
* * * * * * *
3012529 ATATAATTAATATATTTTAAATTAATTAATATTCAATTAATATAATACGATATAATATAATTA-A
1 ATATAAATAATATAATTAAAATTAATTAATATTCAAATAATATAAAACAATATAATACAATTACA
3012593 TACGATTAT
66 T--GATTAT
* * * * *
3012602 ATATAAATAATA-AATTAAAATTAATTATTTATTTAAATAATATAAAATAATATGATACGATTAC
1 ATATAAATAATATAATTAAAATTAATTA-ATATTCAAATAATATAAAACAATATAATACAATTAC
3012666 ATGATTAT
65 ATGATTAT
3012674 ATATAAATAATAT
1 ATATAAATAATAT
3012687 GATTGATACG
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
72 31 0.44
73 37 0.53
74 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (72 bp):
ATATAAATAATATAATTAAAATTAATTAATATTCAAATAATATAAAACAATATAATACAATTACA
TGATTAT
Found at i:3015928 original size:9 final size:9
Alignment explanation
Indices: 3015887--3015920 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
3015877 GAGATTGATT
3015887 TTAATAAAA
1 TTAATAAAA
3015896 TTAATAAAA
1 TTAATAAAA
3015905 TTAATAATAA
1 TTAATAA-AA
3015915 -TAATAA
1 TTAATAA
3015921 TAAAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 22 0.92
10 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TTAATAAAA
Found at i:3017279 original size:19 final size:20
Alignment explanation
Indices: 3017247--3017286 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
3017237 ATTAATTTAA
3017247 TTTTATACAAATTTATATTT
1 TTTTATACAAATTTATATTT
*
3017267 TTTTAT-CAGATTTATATTT
1 TTTTATACAAATTTATATTT
3017286 T
1 T
3017287 ATTAATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTATACAAATTTATATTT
Found at i:3025545 original size:22 final size:22
Alignment explanation
Indices: 3025520--3025561 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3025510 TTGTCTATCC
* *
3025520 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
3025542 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
3025562 TAAATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:3026603 original size:110 final size:110
Alignment explanation
Indices: 3026410--3026630 Score: 442
Period size: 110 Copynumber: 2.0 Consensus size: 110
3026400 ATCCATCACA
3026410 TATTTCTGTTGTGAGATGAAAATACTATACCGTGAGTGAGCTACTTCAATTCCTAGGAAGTACTT
1 TATTTCTGTTGTGAGATGAAAATACTATACCGTGAGTGAGCTACTTCAATTCCTAGGAAGTACTT
3026475 CAATCTCCCTAGCTCTTTTATCTCAAATTCTCTAGCCAAACACTG
66 CAATCTCCCTAGCTCTTTTATCTCAAATTCTCTAGCCAAACACTG
3026520 TATTTCTGTTGTGAGATGAAAATACTATACCGTGAGTGAGCTACTTCAATTCCTAGGAAGTACTT
1 TATTTCTGTTGTGAGATGAAAATACTATACCGTGAGTGAGCTACTTCAATTCCTAGGAAGTACTT
3026585 CAATCTCCCTAGCTCTTTTATCTCAAATTCTCTAGCCAAACACTG
66 CAATCTCCCTAGCTCTTTTATCTCAAATTCTCTAGCCAAACACTG
3026630 T
1 T
3026631 TTTAGAGATT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 111 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (110 bp):
TATTTCTGTTGTGAGATGAAAATACTATACCGTGAGTGAGCTACTTCAATTCCTAGGAAGTACTT
CAATCTCCCTAGCTCTTTTATCTCAAATTCTCTAGCCAAACACTG
Found at i:3029123 original size:23 final size:25
Alignment explanation
Indices: 3029068--3029126 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
3029058 AAAGGGTTCG
* * *
3029068 GCAATGAAGGCCTAAACAGGATTCG
1 GCAATGAAGGCCTAAACAGAAGTCA
3029093 GCAATGAAGGCCTAAA-A-AAGTCA
1 GCAATGAAGGCCTAAACAGAAGTCA
3029116 GCAATGAAGGC
1 GCAATGAAGGC
3029127 TGAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 14 0.45
24 1 0.03
25 16 0.52
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAGAAGTCA
Found at i:3036822 original size:22 final size:22
Alignment explanation
Indices: 3036794--3036837 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3036784 ACAAAATATA
* * *
3036794 ATTTATAATTTTTATTAAATTT
1 ATTTATAACTTATATAAAATTT
3036816 ATTTATAACTTATATAAAATTT
1 ATTTATAACTTATATAAAATTT
3036838 TAAATTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTATAACTTATATAAAATTT
Found at i:3036901 original size:22 final size:22
Alignment explanation
Indices: 3036873--3036920 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
3036863 CATATTTTAA
3036873 TTATATTTA-AAATTATTATATT
1 TTATATTTATAAATTATTAT-TT
**
3036895 TTATATTTATATGTTATTATTT
1 TTATATTTATAAATTATTATTT
3036917 TTAT
1 TTAT
3036921 CATGTTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTATATTTATAAATTATTATTT
Found at i:3037257 original size:28 final size:30
Alignment explanation
Indices: 3037226--3037289 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
3037216 ATAACACGAT
*
3037226 ATAATACAATT-AATATAATT-A-TATATAA
1 ATAATA-AATTAAAAATAATTAATTATATAA
*
3037254 ATAATAAATTAAAAATAATTAATTATTTAA
1 ATAATAAATTAAAAATAATTAATTATATAA
3037284 ATAATA
1 ATAATA
3037290 TAATATAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.13
28 14 0.45
29 1 0.03
30 12 0.39
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
ATAATAAATTAAAAATAATTAATTATATAA
Found at i:3037271 original size:18 final size:19
Alignment explanation
Indices: 3037236--3037297 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 19
3037226 ATAATACAAT
* *
3037236 TAATATAATTATATATAAA
1 TAATATAATTAAAAATAAA
*
3037255 TAATA-AATTAAAAATAAT
1 TAATATAATTAAAAATAAA
*
3037273 TAAT-T-ATT-TAAATAATA
1 TAATATAATTAAAAATAA-A
3037290 TAATATAA
1 TAATATAA
3037298 CATGATACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 6 0.18
17 7 0.21
18 15 0.44
19 6 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATATAATTAAAAATAAA
Found at i:3037397 original size:28 final size:30
Alignment explanation
Indices: 3037359--3037425 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
3037349 TTTTATTTAT
*
3037359 TTTAAA-AAAAA-TATTATTAAAATT-AATA
1 TTTAAATAAAAATTATT-TAAAAATTAAATA
3037387 TTTAAATAAAAATTATTTAAAAATTAAATA
1 TTTAAATAAAAATTATTTAAAAATTAAATA
3037417 TTTATAATA
1 TTTA-AATA
3037426 TATTTAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 6 0.18
29 12 0.35
30 12 0.35
31 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
TTTAAATAAAAATTATTTAAAAATTAAATA
Found at i:3037420 original size:15 final size:13
Alignment explanation
Indices: 3037359--3037420 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 13
3037349 TTTTATTTAT
3037359 TTTAAAAAAAATA
1 TTTAAAAAAAATA
**
3037372 TTATTAAAATTAATA
1 -T-TTAAAAAAAATA
3037387 TTTAAATAAAAATTA
1 TTTAAA-AAAAA-TA
3037402 TTTAAAAATTAAATA
1 TTTAAAAA--AAATA
3037417 TTTA
1 TTTA
3037421 TAATATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 5 0.13
14 7 0.18
15 24 0.62
16 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTAAAAAAAATA
Found at i:3041841 original size:20 final size:20
Alignment explanation
Indices: 3041805--3041857 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
3041795 AAAATTAATT
**
3041805 TAATTTTATATAATTTTATA
1 TAATTTTATATTTTTTTATA
3041825 TAATTTTATATTTTTTTATA
1 TAATTTTATATTTTTTTATA
3041845 -AGA-TTTATATTTT
1 TA-ATTTTATATTTT
3041858 ATTAATTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TAATTTTATATTTTTTTATA
Found at i:3041844 original size:10 final size:10
Alignment explanation
Indices: 3041805--3041835 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
3041795 AAAATTAATT
3041805 TAATTTTATA
1 TAATTTTATA
3041815 TAATTTTATA
1 TAATTTTATA
3041825 TAATTTTATA
1 TAATTTTATA
3041835 T
1 T
3041836 TTTTTTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TAATTTTATA
Found at i:3051225 original size:11 final size:12
Alignment explanation
Indices: 3051198--3051226 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3051188 ATTATTATAA
3051198 AATTTAAATATT
1 AATTTAAATATT
3051210 AATTTAAATA-T
1 AATTTAAATATT
3051221 AATTTA
1 AATTTA
3051227 TTATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTTAAATATT
Found at i:3055566 original size:23 final size:23
Alignment explanation
Indices: 3055531--3055574 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
3055521 GTTACAGAAA
3055531 TATTGAAATTTAACTTT-TAAATT
1 TATTGAAATTTAA-TTTGTAAATT
3055554 TATTG-AATGTTAATTTGTAAA
1 TATTGAAAT-TTAATTTGTAAA
3055575 GATAAGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (23 bp):
TATTGAAATTTAATTTGTAAATT
Found at i:3056725 original size:13 final size:14
Alignment explanation
Indices: 3056707--3056735 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3056697 CTAGTTTGAA
3056707 TAAAATA-TATAAT
1 TAAAATATTATAAT
3056720 TAAAATATTATAAT
1 TAAAATATTATAAT
3056734 TA
1 TA
3056736 TATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:3060296 original size:20 final size:20
Alignment explanation
Indices: 3060271--3060312 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3060261 TTATTTTATT
* *
3060271 TATTGATAATATATAAAATA
1 TATTGACAATACATAAAATA
*
3060291 TATTGACAATACATTAAATA
1 TATTGACAATACATAAAATA
3060311 TA
1 TA
3060313 AATTTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
TATTGACAATACATAAAATA
Found at i:3068686 original size:42 final size:42
Alignment explanation
Indices: 3068622--3068884 Score: 172
Period size: 42 Copynumber: 6.0 Consensus size: 42
3068612 AATATGCCTA
*
3068622 AATAGCAAAAAACCTTAACTATAAATTTAAGTAATTAAGAAT
1 AATAGCAAAAAACCTTAACTATAAATTTAAGCAATTAAGAAT
* * *
3068664 AATAACAAAAAATCC-TGACTAT-AATTTCAAGCAATTAAGAAC
1 AATAGCAAAAAA-CCTTAACTATAAATTT-AAGCAATTAAGAAT
* * *
3068706 AATAGCAAAAAACCTTAAATATAAATTTGAGCAATTAATAAT
1 AATAGCAAAAAACCTTAACTATAAATTTAAGCAATTAAGAAT
** * **
3068748 AATAGTTTAAAATCC-TAACTATAAATTCGAGCAATTTAAGTAATT
1 AATAG-CAAAAAACCTTAACTATAAATTTAAGCAA-TTAAG-AA-T
* * * * ** *
3068793 AAGAACAACAATAGAAAATCTTAAATATAAATTTAAATAATTAAAAAT
1 ---AATAGC-A-A-AAAACCTTAACTATAAATTTAAGCAATTAAGAAT
* ** * * *
3068841 AACAATAAAAAACTTTAATTATAAATTTGAGCAATTAAGAAT
1 AATAGCAAAAAACCTTAACTATAAATTTAAGCAATTAAGAAT
3068883 AA
1 AA
3068885 CAAAAGAAAA
Statistics
Matches: 170, Mismatches: 36, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
41 7 0.04
42 107 0.63
43 18 0.11
44 3 0.02
45 6 0.04
48 4 0.02
49 3 0.02
50 8 0.05
51 14 0.08
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (42 bp):
AATAGCAAAAAACCTTAACTATAAATTTAAGCAATTAAGAAT
Found at i:3068749 original size:84 final size:84
Alignment explanation
Indices: 3068622--3068783 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 84
3068612 AATATGCCTA
* * *
3068622 AATAGCAAAAAACCTTAACTATAAATTTAAGTAATTAAGAATAATAACAAAAAATCCTGACTATA
1 AATAGCAAAAAACCTTAAATATAAATTTAAGCAATTAAGAATAATAACAAAAAATCCTAACTATA
*
3068687 ATTTCAAGCAATTAAGAAC
66 AATTCAAGCAATTAAGAAC
* * ****
3068706 AATAGCAAAAAACCTTAAATATAAATTTGAGCAATTAATAATAATAGTTTAAAATCCTAACTATA
1 AATAGCAAAAAACCTTAAATATAAATTTAAGCAATTAAGAATAATAACAAAAAATCCTAACTATA
*
3068771 AATTCGAGCAATT
66 AATTCAAGCAATT
3068784 TAAGTAATTA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.28
Consensus pattern (84 bp):
AATAGCAAAAAACCTTAAATATAAATTTAAGCAATTAAGAATAATAACAAAAAATCCTAACTATA
AATTCAAGCAATTAAGAAC
Found at i:3073479 original size:30 final size:29
Alignment explanation
Indices: 3073453--3073552 Score: 94
Period size: 30 Copynumber: 3.4 Consensus size: 29
3073443 AAGGTTTTAG
*
3073453 TTTTAAGGTTTTGATGGTTTGGGGTTTCAA
1 TTTTAAGGTTTTGA-GGTTTAGGGTTTCAA
** * *
3073483 TTTTGGGGTTTAGAGGTTTTAGGGTTT-AG
1 TTTTAAGGTTTTGAGG-TTTAGGGTTTCAA
* *
3073512 TTTTAGGGTTTTGACGATTTAGGGTTTCAA
1 TTTTAAGGTTTTGA-GGTTTAGGGTTTCAA
*
3073542 TTTCAAGGTTT
1 TTTTAAGGTTT
3073553 AAGGATTTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
29 25 0.45
30 31 0.55
ACGTcount: A:0.17, C:0.04, G:0.30, T:0.49
Consensus pattern (29 bp):
TTTTAAGGTTTTGAGGTTTAGGGTTTCAA
Found at i:3073507 original size:16 final size:15
Alignment explanation
Indices: 3073483--3073584 Score: 61
Period size: 16 Copynumber: 6.7 Consensus size: 15
3073473 GGGGTTTCAA
*
3073483 TTTTGGGGTTTAGAGG
1 TTTTAGGGTTTA-AGG
3073499 TTTTAGGGTTT-A-G
1 TTTTAGGGTTTAAGG
* *
3073512 TTTTAGGGTTTTGACG
1 TTTTAGGG-TTTAAGG
*
3073528 ATTTAGGGTTTCAA--
1 TTTTAGGGTTT-AAGG
* *
3073542 TTTCAAGGTTTAAGG
1 TTTTAGGGTTTAAGG
3073557 ATTTTAGGGTTTGAAAGG
1 -TTTTAGGGTTT--AAGG
3073575 -TTTAGGGTTT
1 TTTTAGGGTTT
3073585 CAATTTCGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
13 11 0.16
14 12 0.17
15 4 0.06
16 38 0.55
18 4 0.06
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (15 bp):
TTTTAGGGTTTAAGG
Found at i:3073515 original size:29 final size:28
Alignment explanation
Indices: 3073448--3073538 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
3073438 GGTTCAAGGT
* *
3073448 TTTAGTTTTAAGGTTTTGATGGTTTGGGG
1 TTTAGTTTTAGGGTTTTGA-GGTTTAGGG
* * *
3073477 TTTCAATTTTGGGGTTTAGAGGTTTTAGGG
1 TTT-AGTTTTAGGGTTTTGAGG-TTTAGGG
*
3073507 TTTAGTTTTAGGGTTTTGACGATTTAGGG
1 TTTAGTTTTAGGGTTTTGA-GGTTTAGGG
3073536 TTT
1 TTT
3073539 CAATTTCAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 28 0.56
30 22 0.44
ACGTcount: A:0.15, C:0.02, G:0.32, T:0.51
Consensus pattern (28 bp):
TTTAGTTTTAGGGTTTTGAGGTTTAGGG
Found at i:3073516 original size:13 final size:13
Alignment explanation
Indices: 3073498--3073522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3073488 GGGTTTAGAG
3073498 GTTTTAGGGTTTA
1 GTTTTAGGGTTTA
3073511 GTTTTAGGGTTT
1 GTTTTAGGGTTT
3073523 TGACGATTTA
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:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (13 bp):
GTTTTAGGGTTTA
Found at i:3073516 original size:59 final size:59
Alignment explanation
Indices: 3073448--3073568 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 59
3073438 GGTTCAAGGT
* * * ***
3073448 TTTAGTTTTAAGGTTTTGATGGTTTGGGGTTTCAATTTTGGGGTTTAGAGG-TTTTAGGG
1 TTTAGTTTTAAGGTTTTGACGATTTAGGGTTTCAATTTCAAGGTTTA-AGGATTTTAGGG
*
3073507 TTTAGTTTTAGGGTTTTGACGATTTAGGGTTTCAATTTCAAGGTTTAAGGATTTTAGGG
1 TTTAGTTTTAAGGTTTTGACGATTTAGGGTTTCAATTTCAAGGTTTAAGGATTTTAGGG
3073566 TTT
1 TTT
3073569 GAAAGGTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 3 0.06
59 51 0.94
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.49
Consensus pattern (59 bp):
TTTAGTTTTAAGGTTTTGACGATTTAGGGTTTCAATTTCAAGGTTTAAGGATTTTAGGG
Found at i:3073559 original size:29 final size:29
Alignment explanation
Indices: 3073474--3073568 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
3073464 TGATGGTTTG
* *
3073474 GGGTTTCAATTTTGGGGTTTAGAGGTTTTA
1 GGGTTTCAATTTTAGGGTTTA-AGGATTTA
* * *
3073504 GGGTTT-AGTTTTAGGGTTTTGACGATTTA
1 GGGTTTCAATTTTAGGG-TTTAAGGATTTA
* *
3073533 GGGTTTCAATTTCAAGGTTTAAGGATTTTA
1 GGGTTTCAATTTTAGGGTTTAAGGA-TTTA
3073563 GGGTTT
1 GGGTTT
3073569 GAAAGGTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
29 26 0.50
30 26 0.50
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (29 bp):
GGGTTTCAATTTTAGGGTTTAAGGATTTA
Found at i:3073565 original size:46 final size:46
Alignment explanation
Indices: 3073512--3073599 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
3073502 TAGGGTTTAG
*
3073512 TTTTAGGGTTTTG-ACGATTTAGGGTTTCAATTTCAAGGTTTAAGGA
1 TTTTAGGG-TTTGAAAGATTTAGGGTTTCAATTTCAAGGTTTAAGGA
* *
3073558 TTTTAGGGTTTGAAAGGTTTAGGGTTTCAATTTCGAGGTTTA
1 TTTTAGGGTTTGAAAGATTTAGGGTTTCAATTTCAAGGTTTA
3073600 GAGTGTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 4 0.11
46 34 0.89
ACGTcount: A:0.23, C:0.06, G:0.27, T:0.44
Consensus pattern (46 bp):
TTTTAGGGTTTGAAAGATTTAGGGTTTCAATTTCAAGGTTTAAGGA
Found at i:3073637 original size:60 final size:59
Alignment explanation
Indices: 3073573--3073697 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 59
3073563 GGGTTTGAAA
* * * * *
3073573 GGTTTAGGGTTTCAATTTCGAGG-TTTAGAGTGTTTTAGGATTTAGTTTTAAAGTTTTGAG
1 GGTTTAGGGTTTCAATTTCG-GGATTTA-AATGTTTTAAGACTTAGTTTTAAAATTTAGAG
*
3073633 GGTTTAGGGTTTCAATTTTGGGATTTTAAATGTTTTAAGACTTAGTTTTAAAATTTAGAG
1 GGTTTAGGGTTTCAATTTCGGGA-TTTAAATGTTTTAAGACTTAGTTTTAAAATTTAGAG
3073693 GGTTT
1 GGTTT
3073698 TGGTTTTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 2 0.04
60 51 0.89
61 4 0.07
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (59 bp):
GGTTTAGGGTTTCAATTTCGGGATTTAAATGTTTTAAGACTTAGTTTTAAAATTTAGAG
Found at i:3075785 original size:22 final size:22
Alignment explanation
Indices: 3075755--3075819 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
3075745 TCGCGAGTCA
*
3075755 AAATTATGCTCGAAGGTCTTA-
1 AAATTATGCCCGAAGGTCTTAG
* *
3075776 AAGATTATGCCCGGAGATCTTAG
1 AA-ATTATGCCCGAAGGTCTTAG
*
3075799 AAATCATGCCCGAAGGTCTTA
1 AAATTATGCCCGAAGGTCTTA
3075820 CAGAATTAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (22 bp):
AAATTATGCCCGAAGGTCTTAG
Found at i:3075910 original size:22 final size:22
Alignment explanation
Indices: 3075885--3075927 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3075875 TCGCGAATCA
* *
3075885 AAATTATACCCGGAGGTCTTAG
1 AAATCATACCCAGAGGTCTTAG
*
3075907 AAATCATGCCCAGAGGTCTTA
1 AAATCATACCCAGAGGTCTTA
3075928 TAGAATCGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (22 bp):
AAATCATACCCAGAGGTCTTAG
Found at i:3075992 original size:108 final size:108
Alignment explanation
Indices: 3075779--3076013 Score: 251
Period size: 108 Copynumber: 2.2 Consensus size: 108
3075769 GGTCTTAAAG
* * * * *
3075779 ATTATGCCCGGAGATCTTAGAAATCATGCCCGAAGGTCTTACAGAATTAACTGAGATAACATCGT
1 ATTATGCCCGGAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCAACCGAGACAACATCAT
* * * * *
3075844 AAGTCAAATTAAAGAATCAATTGGAATAATATCGCGAATCAAA
66 AAGTCAAATTAAAAAATCAATCGGAATAACACCGCAAATCAAA
* * * *
3075887 ATTATACCCGGAGGTCTTAGAAATCATGCCC-AGAGGTCTTATAGAATCGACCGGGACAACATCA
1 ATTATGCCCGGAGGTCTTAGAAATCATGCCCGA-AGGTCTTACAGAATCAACCGAGACAACATCA
* * *
3075951 TAAGTTGAAA-TAAAAAATCGATC-GAGATAACACCGTAAATCAAA
65 TAAG-TCAAATTAAAAAATCAATCGGA-ATAACACCGCAAATCAAA
**
3075995 ATTATGTTCGGAGGTCTTA
1 ATTATGCCCGGAGGTCTTA
3076014 CAGAATCGAC
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
107 3 0.03
108 97 0.93
109 4 0.04
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (108 bp):
ATTATGCCCGGAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCAACCGAGACAACATCAT
AAGTCAAATTAAAAAATCAATCGGAATAACACCGCAAATCAAA
Found at i:3076085 original size:87 final size:85
Alignment explanation
Indices: 3075919--3076087 Score: 196
Period size: 86 Copynumber: 2.0 Consensus size: 85
3075909 ATCATGCCCA
* * *
3075919 GAGGTCTTATAGAATCGACCGGGACAACATCATAAGTTGAAATAAAAAATCGATCGAGATAACAC
1 GAGGTCTTACAGAATCGACCAGGACAACATCA-AAGTTAAAATAAAAAATCGATCGAGATAACAC
**
3075984 CGTAAATCAAAATTATGTTCG
65 CACAAATCAAAATTATGTTCG
* * *
3076005 GAGGTCTTACAGAATCGACCAGGATAACACTGC-AAGTTAAAATTAAAGAATCGATTGAGATAAC
1 GAGGTCTTACAGAATCGACCAGGACAACA-T-CAAAGTTAAAA-TAAAAAATCGATCGAGATAAC
* **
3076069 ACCACGAATTGAAATTATG
63 ACCACAAATCAAAATTATG
3076088 CCTATAGGTT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
86 34 0.49
87 34 0.49
88 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (85 bp):
GAGGTCTTACAGAATCGACCAGGACAACATCAAAGTTAAAATAAAAAATCGATCGAGATAACACC
ACAAATCAAAATTATGTTCG
Found at i:3076233 original size:131 final size:129
Alignment explanation
Indices: 3076017--3076255 Score: 309
Period size: 131 Copynumber: 1.8 Consensus size: 129
3076007 GGTCTTACAG
* * * * * * * *
3076017 AATCGACCAGGATAACACTGCAAGTTAAAATTAAAGAATCGATTGAGATAACACCACGAATTGAA
1 AATCGACCAAGACAACACCGCAAGTCAAAATTAAAAAATCAATTGAGATAACACAACGAATCGAA
* * * *
3076082 ATTATGCCTATAGGTTTTAAAGATTATATCCAGAGGTCTTAGAAATTATGGCCGAAAGTTTTATA
66 ATTATCCCGATAAGTCTTAAAGATTATAT-CAGAGGTCTT-GAAATTATGGCCGAAAGTTTTATA
3076147 A
129 A
* *
3076148 AATCGACCAAGACAACACCGCAAGTCAAAATTAAAAAATCAATTGGGATAACATAACGAATCGAA
1 AATCGACCAAGACAACACCGCAAGTCAAAATTAAAAAATCAATTGAGATAACACAACGAATCGAA
*
3076213 ATTATACCCGA-AAGTCTTAAAGATTATGTCAGAGGTCTTGAAA
66 ATTAT-CCCGATAAGTCTTAAAGATTATATCAGAGGTCTTGAAA
3076256 ATCATACTCG
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
129 4 0.04
130 10 0.11
131 75 0.82
132 3 0.03
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (129 bp):
AATCGACCAAGACAACACCGCAAGTCAAAATTAAAAAATCAATTGAGATAACACAACGAATCGAA
ATTATCCCGATAAGTCTTAAAGATTATATCAGAGGTCTTGAAATTATGGCCGAAAGTTTTATAA
Found at i:3076392 original size:22 final size:22
Alignment explanation
Indices: 3076353--3076433 Score: 101
Period size: 22 Copynumber: 3.6 Consensus size: 22
3076343 TTATGCCTGG
* *
3076353 AGGTCTTA-AAGATTATGCTTGA
1 AGGTCTTATAA-ATCATGCTCGA
3076375 AGGTCTTATAAATCATGCTCGA
1 AGGTCTTATAAATCATGCTCGA
3076397 AGGTCTTATAAATCATGCTCGA
1 AGGTCTTATAAATCATGCTCGA
* *
3076419 AAGTTTTATAGAATC
1 AGGTCTTATA-AATC
3076434 GATCGGGAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
22 47 0.89
23 6 0.11
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (22 bp):
AGGTCTTATAAATCATGCTCGA
Found at i:3076784 original size:22 final size:22
Alignment explanation
Indices: 3076743--3076785 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3076733 AATTATGTTC
*
3076743 GAAGGTCTTAAAGATTATGTCT
1 GAAGGTCTTAAAGATCATGTCT
3076765 GAAGGTCTTATAA-ATCATGTC
1 GAAGGTCTTA-AAGATCATGTC
3076786 CAGAAGTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (22 bp):
GAAGGTCTTAAAGATCATGTCT
Found at i:3076822 original size:130 final size:129
Alignment explanation
Indices: 3076531--3076839 Score: 320
Period size: 130 Copynumber: 2.3 Consensus size: 129
3076521 TACCCGTAGA
* * * * * *
3076531 TCTTACAAAATTAATCGGGACAACACCGTAACTAAAAATTAAAGGATCGATCGGGGATAACACAG
1 TCTTACAGAATTGA-CGAGACAACACCGTAAGTAAAAA-TAAAGAATCGATCGGAGATAACACAG
** *
3076596 TAAATCAAAATTATGCCCGAGGTCTTAAAAGTTATGTTCGAAGGTCTTAGAAATCATACTTGGAG
64 TAAATCAAAATTATGCCCGAGGTCTTAAAAGTTATGTTCGAAGGTCTTAGAAATCATACTCAGAA
3076661 G
129 G
* * * * * *
3076662 TCTTATAGAATCGACTAGGATAACACCGTAAGTCAAAATAAAGAATCGATC-GAGATAACACCGT
1 TCTTACAGAATTGACGA-GACAACACCGTAAGTAAAAATAAAGAATCGATCGGAGATAACACAGT
** * *
3076726 AAATCAAAATTATGTTCGAAGGTCTT-AAAGATTATG-TCTGAAGGTCTTATAAATCAT-GTCCA
65 AAATCAAAATTATGCCCG-AGGTCTTAAAAG-TTATGTTC-GAAGGTCTTAGAAATCATACT-CA
3076788 GAAG
126 GAAG
*
3076792 TCTTACAGAATTGACCGAGACAACATCGTAAGTTAAAAAATAAAGAAT
1 TCTTACAGAATTGA-CGAGACAACACCGTAAG-T-AAAAATAAAGAAT
3076840 TAATTGAGAT
Statistics
Matches: 145, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
129 34 0.23
130 69 0.48
131 30 0.21
132 12 0.08
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (129 bp):
TCTTACAGAATTGACGAGACAACACCGTAAGTAAAAATAAAGAATCGATCGGAGATAACACAGTA
AATCAAAATTATGCCCGAGGTCTTAAAAGTTATGTTCGAAGGTCTTAGAAATCATACTCAGAAG
Found at i:3077271 original size:42 final size:40
Alignment explanation
Indices: 3077212--3077332 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 40
3077202 TCTATACAAG
*
3077212 TGCAAATGCAAGTGATGCAAATATGGAATGTCTTTCTTATGA
1 TGCAAATGCAAGTGATGCAAATA-CGAATGTCTTT-TTATGA
* * *
3077254 TGCAAATGCAAGTGATGCTAATACAAATGTCTCTTTTAGGA
1 TGCAAATGCAAGTGATGCAAATACGAATGTCT-TTTTATGA
*
3077295 TGCACAA-GCAAGTGATGCAACTACGAATGTCTTTTTAT
1 TGCA-AATGCAAGTGATGCAAATACGAATGTCTTTTTAT
3077333 TTTTTTTTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
40 5 0.07
41 38 0.55
42 26 0.38
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (40 bp):
TGCAAATGCAAGTGATGCAAATACGAATGTCTTTTTATGA
Found at i:3078277 original size:11 final size:10
Alignment explanation
Indices: 3078246--3078292 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
3078236 CTTTATTCAC
*
3078246 TTTTTTTCTT
1 TTTTTTTATT
3078256 TTTTTATT-TT
1 TTTTT-TTATT
*
3078266 TTATTTTATT
1 TTTTTTTATT
3078276 TTTTTATTATT
1 TTTTT-TTATT
3078287 TTTTTT
1 TTTTTT
3078293 AAGCTTTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 18 0.56
11 12 0.38
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:3078277 original size:20 final size:20
Alignment explanation
Indices: 3078246--3078293 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
3078236 CTTTATTCAC
*
3078246 TTTTTTTCTTTTTTTATT-T
1 TTTTTTTATTTTTTTATTAT
3078265 TTTATTTTATTTTTTTATTAT
1 TTT-TTTTATTTTTTTATTAT
3078286 TTTTTTTA
1 TTTTTTTA
3078294 AGCTTTAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 19 0.73
21 4 0.15
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTTATTTTTTTATTAT
Found at i:3078280 original size:8 final size:8
Alignment explanation
Indices: 3078246--3078291 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
3078236 CTTTATTCAC
*
3078246 TTTTTTTC
1 TTTTTTTA
3078254 TTTTTTTA
1 TTTTTTTA
3078262 -TTTTTTA
1 TTTTTTTA
3078269 TTTTATTT-
1 TTTT-TTTA
*
3078277 TTTTATTA
1 TTTTTTTA
3078285 TTTTTTT
1 TTTTTTT
3078292 TAAGCTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
7 9 0.28
8 20 0.62
9 3 0.09
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:3078280 original size:23 final size:23
Alignment explanation
Indices: 3078246--3078290 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3078236 CTTTATTCAC
*
3078246 TTTTTTTCTTTTTTTATTTTTTA
1 TTTTTTTCTTTTATTATTTTTTA
3078269 TTTTATTT-TTTTATTATTTTTT
1 TTTT-TTTCTTTTATTATTTTTT
3078291 TTAAGCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.87
Consensus pattern (23 bp):
TTTTTTTCTTTTATTATTTTTTA
Found at i:3078293 original size:12 final size:11
Alignment explanation
Indices: 3078254--3078292 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
3078244 ACTTTTTTTC
3078254 TTTTTTTATTT
1 TTTTTTTATTT
3078265 TTTATTTTATTT
1 TTT-TTTTATTT
*
3078277 TTTTATTATTT
1 TTTTTTTATTT
3078288 TTTTT
1 TTTTT
3078293 AAGCTTTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:3078701 original size:12 final size:11
Alignment explanation
Indices: 3078680--3078706 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3078670 TGAAGATGTC
3078680 TTTTTATTTTT
1 TTTTTATTTTT
3078691 TTTTTATTTTT
1 TTTTTATTTTT
3078702 TTTTT
1 TTTTT
3078707 GTGATGTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:3085336 original size:22 final size:21
Alignment explanation
Indices: 3085311--3085355 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
3085301 ATTTGAGGTT
3085311 TTCAAAATTTTAGATTTTAGGG
1 TTCAAAATTTTAG-TTTTAGGG
**
3085333 TTCAAGGTTTTAGTTTTAGGG
1 TTCAAAATTTTAGTTTTAGGG
3085354 TT
1 TT
3085356 TTGAGGGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.49
Consensus pattern (21 bp):
TTCAAAATTTTAGTTTTAGGG
Found at i:3085401 original size:30 final size:29
Alignment explanation
Indices: 3085367--3085556 Score: 77
Period size: 30 Copynumber: 6.4 Consensus size: 29
3085357 TGAGGGTTCG
3085367 GGGTTTCAATTTCAGAGTTTAGAGGTTTTA
1 GGGTTT-AATTTCAGAGTTTAGAGGTTTTA
* * * *
3085397 GGGTTTAGTTT-AGGGTTTGGATGG-GTTA
1 GGGTTTAATTTCAGAGTTTAGA-GGTTTTA
*
3085425 GGGTTTAAATTTTA-AGGTTTA-AGGCTTTTA
1 GGGTTT-AATTTCAGA-GTTTAGAGG-TTTTA
* * * * * *
3085455 GGGTTTAGTTTTAGGGTTTGGTGGGTTTA
1 GGGTTTAATTTCAGAGTTTAGAGGTTTTA
* *
3085484 TGGTTTCAATTTC-GAGGTTTAGAGTATTTTA
1 GGGTTT-AATTTCAGA-GTTTAGAG-GTTTTA
* * * * * *
3085515 AGATTTAGTTTTAAAG-TTATGAGGGTTTA
1 GGGTTTAATTTCAGAGTTTA-GAGGTTTTA
3085544 GGGTTTCAATTTC
1 GGGTTT-AATTTC
3085557 GGGATTTATA
Statistics
Matches: 114, Mismatches: 32, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
28 19 0.17
29 42 0.37
30 44 0.39
31 9 0.08
ACGTcount: A:0.21, C:0.04, G:0.29, T:0.46
Consensus pattern (29 bp):
GGGTTTAATTTCAGAGTTTAGAGGTTTTA
Found at i:3085402 original size:60 final size:60
Alignment explanation
Indices: 3085341--3085595 Score: 272
Period size: 60 Copynumber: 4.3 Consensus size: 60
3085331 GGTTCAAGGT
**
3085341 TTTAGTTTTAGGGTTTTGAGGGTTCGGGGTTTCAATTTC-AGAGTTTAGAG-GTTTTAGGG
1 TTTAGTTTTAGGGTTTTGAGGGTTTAGGGTTTCAATTTCGAG-GTTTAGAGTGTTTTAGGG
* * **
3085400 TTTAG-TTTAGGGTTTGGATGGG-TTAGGGTTTAAATTTTAAGGTTTA-AG-GCTTTTAGGG
1 TTTAGTTTTAGGGTTTTGA-GGGTTTAGGGTTTCAATTTCGAGGTTTAGAGTG-TTTTAGGG
* * * * * *
3085458 TTTAGTTTTAGGGTTTGGTGGGTTTATGGTTTCAATTTCGAGGTTTAGAGTATTTTAAGA
1 TTTAGTTTTAGGGTTTTGAGGGTTTAGGGTTTCAATTTCGAGGTTTAGAGTGTTTTAGGG
** * *
3085518 TTTAGTTTTAAAGTTATGAGGGTTTAGGGTTTCAATTTCG-GGATTTATAGTGTTTTAGGG
1 TTTAGTTTTAGGGTTTTGAGGGTTTAGGGTTTCAATTTCGAGG-TTTAGAGTGTTTTAGGG
*
3085578 CTTAGTTTTAGGGTTTTG
1 TTTAGTTTTAGGGTTTTG
3085596 GTTTTAATTT
Statistics
Matches: 161, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
57 3 0.02
58 45 0.28
59 44 0.27
60 69 0.43
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.47
Consensus pattern (60 bp):
TTTAGTTTTAGGGTTTTGAGGGTTTAGGGTTTCAATTTCGAGGTTTAGAGTGTTTTAGGG
Found at i:3087190 original size:22 final size:23
Alignment explanation
Indices: 3087162--3087217 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
3087152 CCACCTCAAT
3087162 TTTTTGTTTTTTTTG-GTTTTTG
1 TTTTTGTTTTTTTTGCGTTTTTG
* * *
3087184 TTTTTGTTTGTTTTGCTTTTTTT
1 TTTTTGTTTTTTTTGCGTTTTTG
3087207 TTTTTGTTTTT
1 TTTTTGTTTTT
3087218 ATTAATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (23 bp):
TTTTTGTTTTTTTTGCGTTTTTG
Found at i:3087252 original size:3 final size:3
Alignment explanation
Indices: 3087240--3087285 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
3087230 CCAATGTTAA
* *
3087240 TAT T-T TAT TAT TAA TAT T-T TTT CTAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
3087284 TA
1 TA
3087286 GTTTAATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.84
4 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3087266 original size:15 final size:14
Alignment explanation
Indices: 3087236--3087299 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
3087226 TAAACCAATG
3087236 TTAATATTTTATTA
1 TTAATATTTTATTA
*
3087250 TTAATATTTTTTCTA
1 TTAATATTTTAT-TA
*
3087265 TTATTATTATTATTA
1 TTAATATT-TTATTA
* * *
3087280 TTATTAGTTTAATA
1 TTAATATTTTATTA
3087294 TTAATA
1 TTAATA
3087300 AACAAAAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
14 21 0.50
15 18 0.43
16 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
TTAATATTTTATTA
Found at i:3100376 original size:16 final size:18
Alignment explanation
Indices: 3100350--3100383 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3100340 AATATTATTT
3100350 TTAATATAAATA-TAAAA
1 TTAATATAAATATTAAAA
3100367 TTAA-ATAAATATTAAAA
1 TTAATATAAATATTAAAA
3100384 AAATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAATATAAATATTAAAA
Found at i:3107791 original size:49 final size:47
Alignment explanation
Indices: 3107701--3107800 Score: 112
Period size: 49 Copynumber: 2.1 Consensus size: 47
3107691 TGAACATCTT
* *
3107701 TTATAGTAAGTATATATTTTATAAATTAAGTTAATATTAAAATCATC-
1 TTATACTAAGTATATATTTTATAAATTAAGTTAATAATAAAAT-ATCA
* * * *
3107748 TTATACTAAGTATAATTTTTTGTACACTTAATTTAATAATAAAATATCA
1 TTATACTAAGTAT-ATATTTTATA-AATTAAGTTAATAATAAAATATCA
3107797 TTAT
1 TTAT
3107801 CATACTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
47 12 0.27
48 11 0.25
49 21 0.48
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (47 bp):
TTATACTAAGTATATATTTTATAAATTAAGTTAATAATAAAATATCA
Found at i:3110810 original size:11 final size:12
Alignment explanation
Indices: 3110772--3110812 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
3110762 ATGTTATTTT
3110772 TAATATAAATATAA
1 TAAT-TAAATA-AA
3110786 -AATTAAATAAA
1 TAATTAAATAAA
3110797 TAATTAAA-AAA
1 TAATTAAATAAA
3110808 TAATT
1 TAATT
3110813 TTATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.38
12 13 0.50
13 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATTAAATAAA
Found at i:3111626 original size:16 final size:16
Alignment explanation
Indices: 3111600--3111680 Score: 67
Period size: 15 Copynumber: 4.8 Consensus size: 16
3111590 ATTATTAAAA
3111600 TATTAAAAATTATTTAT
1 TATT-AAAATTATTTAT
*
3111617 TATTAAAATTA-TTAA
1 TATTAAAATTATTTAT
*
3111632 TATTAAAAATAGTTATAT
1 TATTAAAATTA-TT-TAT
3111650 T-TTAATAATAATATTTAT
1 TATTAA-AAT--TATTTAT
3111668 TATTAAATATTAT
1 TATTAAA-ATTAT
3111681 GTTAATATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
15 13 0.25
16 7 0.13
17 12 0.23
18 10 0.19
19 8 0.15
20 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:3111763 original size:26 final size:27
Alignment explanation
Indices: 3111734--3111797 Score: 89
Period size: 26 Copynumber: 2.4 Consensus size: 27
3111724 ATATTATTTT
3111734 TAATATATTA-TAATAT-TATTTATTAA
1 TAATATATTATTAATATGT-TTTATTAA
3111760 TAATAT-TTATTAATATGTTTTATTAA
1 TAATATATTATTAATATGTTTTATTAA
*
3111786 TAATATACTATT
1 TAATATATTATT
3111798 TATTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
25 3 0.09
26 26 0.76
27 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
TAATATATTATTAATATGTTTTATTAA
Found at i:3111766 original size:13 final size:13
Alignment explanation
Indices: 3111734--3111791 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
3111724 ATATTATTTT
3111734 TAATATATTA-TAA
1 TAATAT-TTATTAA
*
3111747 TATTATTTATTAA
1 TAATATTTATTAA
3111760 TAATATTTATTAA
1 TAATATTTATTAA
*
3111773 T-ATGTTTTATTAA
1 TAAT-ATTTATTAA
3111786 TAATAT
1 TAATAT
3111792 ACTATTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
12 5 0.13
13 31 0.82
14 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TAATATTTATTAA
Found at i:3111801 original size:18 final size:18
Alignment explanation
Indices: 3111778--3111880 Score: 102
Period size: 18 Copynumber: 5.6 Consensus size: 18
3111768 ATTAATATGT
*
3111778 TTTATTAATAATATACTA
1 TTTATTAATAATATATTA
3111796 TTTATTAATAATATATTA
1 TTTATTAATAATATATTA
* *
3111814 TTTGTTTAT-ATATTATTA
1 TTTATTAATAATA-TATTA
* *
3111832 TAATATTTATAATATTATTA
1 T-TTATTAATAATA-TATTA
3111852 TTTATTAAT-ATAATATTA
1 TTTATTAATAAT-ATATTA
*
3111870 TTTATAAATAA
1 TTTATTAATAA
3111881 AATTATATTT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
17 3 0.04
18 45 0.62
19 14 0.19
20 10 0.14
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (18 bp):
TTTATTAATAATATATTA
Found at i:3111805 original size:41 final size:40
Alignment explanation
Indices: 3111754--3111851 Score: 94
Period size: 41 Copynumber: 2.5 Consensus size: 40
3111744 TAATATTATT
* *
3111754 TATTAATAATATTTATTAATATGTTT-TATTAATAATATAC
1 TATTTATAATATTTATTAATATGTTTATA-TAATAATATAA
* * * *
3111794 TATTTATTAATAATATATT-ATTTGTTTATATATTATTATAA
1 TATTTA-TAAT-ATTTATTAATATGTTTATATAATAATATAA
3111835 TATTTATAATA-TTATTA
1 TATTTATAATATTTATTA
3111852 TTTATTAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
38 4 0.09
39 1 0.02
40 9 0.19
41 25 0.53
42 8 0.17
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (40 bp):
TATTTATAATATTTATTAATATGTTTATATAATAATATAA
Found at i:3111889 original size:18 final size:19
Alignment explanation
Indices: 3111840--3111897 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 19
3111830 TATAATATTT
* *
3111840 ATAATATTATTATTTATTA
1 ATAAAATTATTATTTATAA
*
3111859 ATATAA-TATTATTTATAA
1 ATAAAATTATTATTTATAA
*
3111877 ATAAAATTA-TATTTACAA
1 ATAAAATTATTATTTATAA
3111895 ATA
1 ATA
3111898 TTAATAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 27 0.82
19 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAAAATTATTATTTATAA
Found at i:3115704 original size:18 final size:18
Alignment explanation
Indices: 3115681--3115718 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
3115671 ACCCTTTTTT
3115681 AGGCTAGGAATACTGAAA
1 AGGCTAGGAATACTGAAA
3115699 AGGCTAGGAATACTGAAA
1 AGGCTAGGAATACTGAAA
3115717 AG
1 AG
3115719 AATGTATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.29, T:0.16
Consensus pattern (18 bp):
AGGCTAGGAATACTGAAA
Found at i:3118059 original size:45 final size:44
Alignment explanation
Indices: 3117945--3118067 Score: 144
Period size: 45 Copynumber: 2.8 Consensus size: 44
3117935 CAATATAAAA
3117945 TTTAATT-TAATTAATTTATACAATTATTTTTTATTATTTTATAT
1 TTTAATTCT-ATTAATTTATACAATTATTTTTTATTATTTTATAT
* * * *
3117989 TTCAATTCAATTGATTTACT-TAATTATTTTTTTATCT-TTTTATAT
1 TTTAATTCTATTAATTTA-TACAATTA-TTTTTTAT-TATTTTATAT
*
3118034 TTTAATTCTATTAATTTATACAATTAATTTTTAT
1 TTTAATTCTATTAATTTATACAATTATTTTTTAT
3118068 AGTTTCCTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
44 27 0.42
45 37 0.57
46 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.62
Consensus pattern (44 bp):
TTTAATTCTATTAATTTATACAATTATTTTTTATTATTTTATAT
Found at i:3121280 original size:2 final size:2
Alignment explanation
Indices: 3121273--3121302 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3121263 TCTACGACTG
*
3121273 CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3121303 TTGCTATGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:3121588 original size:32 final size:30
Alignment explanation
Indices: 3121533--3121605 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 30
3121523 AATTTGAATC
* * * *
3121533 AAATTTAGATATTAAATATATATATTAAATTT
1 AAATTTA-ATTTTAAATAAATATA-AAAAATT
3121565 AAATTTAATTTTAAATAAAATATAAAAAATT
1 AAATTTAATTTTAAAT-AAATATAAAAAATT
*
3121596 AAATTGAATT
1 AAATTTAATT
3121606 GAATTATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (30 bp):
AAATTTAATTTTAAATAAATATAAAAAATT
Found at i:3121763 original size:13 final size:13
Alignment explanation
Indices: 3121744--3121783 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
3121734 AATTTATTTA
3121744 ATATATTAAAATT
1 ATATATTAAAATT
* *
3121757 TTATATTAAAATA
1 ATATATTAAAATT
*
3121770 ATATATAAAAATT
1 ATATATTAAAATT
3121783 A
1 A
3121784 ATAAATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:3121784 original size:32 final size:32
Alignment explanation
Indices: 3121721--3121784 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
3121711 AATAAAAAAT
* * *
3121721 AATTTTATATCAAAATTTATTTAATATATTAA
1 AATTTTATATCAAAATATATATAATAAATTAA
*
3121753 AATTTTATATTAAAATAATATATAA-AAATTAA
1 AATTTTATATCAAAAT-ATATATAATAAATTAA
3121785 TAAATTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (32 bp):
AATTTTATATCAAAATATATATAATAAATTAA
Found at i:3121803 original size:13 final size:13
Alignment explanation
Indices: 3121785--3121809 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3121775 TAAAAATTAA
3121785 TAAATTAATAAAT
1 TAAATTAATAAAT
3121798 TAAATTAATAAA
1 TAAATTAATAAA
3121810 ATTTTATTCT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATTAATAAAT
Found at i:3124922 original size:2 final size:2
Alignment explanation
Indices: 3124915--3124940 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3124905 CTTGTTGATA
3124915 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3124941 GTTTCCCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3126325 original size:15 final size:15
Alignment explanation
Indices: 3126305--3126335 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3126295 CAAGTGAAGG
3126305 ATATTATATATATAT
1 ATATTATATATATAT
*
3126320 ATATTATATTTATAT
1 ATATTATATATATAT
3126335 A
1 A
3126336 ACGATAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATATATATAT
Found at i:3128173 original size:3 final size:3
Alignment explanation
Indices: 3128165--3128189 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3128155 CACAAAAAGC
3128165 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
3128190 AAAAAGTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:3130525 original size:29 final size:28
Alignment explanation
Indices: 3130479--3130535 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
3130469 TCTGATAAAT
*
3130479 ATTAAAGATAATTATATGAAATAATTAA
1 ATTAAAGATAACTATATGAAATAATTAA
* *
3130507 ATTAAGAGATAACTGTATGAATTAATTAA
1 ATTAA-AGATAACTATATGAAATAATTAA
3130536 GTGAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.35
Consensus pattern (28 bp):
ATTAAAGATAACTATATGAAATAATTAA
Found at i:3140005 original size:21 final size:21
Alignment explanation
Indices: 3139975--3140054 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
3139965 AAATAATAAT
3139975 TTTATTAATAAATATTTAAAAA
1 TTTA-TAATAAATATTTAAAAA
3139997 TTTATAAT-AAT-TTATAATAAA
1 TTTATAATAAATATT-TAA-AAA
*
3140018 TTT-TAA-AATATTTTTTAAAAA
1 TTTATAATAA-A-TATTTAAAAA
* *
3140039 TTGATAATAATTATTT
1 TTTATAATAAATATTT
3140055 TTATATTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
19 2 0.04
20 10 0.21
21 20 0.43
22 11 0.23
23 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (21 bp):
TTTATAATAAATATTTAAAAA
Found at i:3140087 original size:22 final size:23
Alignment explanation
Indices: 3140046--3140089 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3140036 AAATTGATAA
*
3140046 TAATTATTTTTATATTAAAATAT
1 TAATTATTTTTATATCAAAATAT
3140069 TAATTATTTTTAT-TCAAAATA
1 TAATTATTTTTATATCAAAATA
3140090 GAATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATTATTTTTATATCAAAATAT
Found at i:3140094 original size:21 final size:23
Alignment explanation
Indices: 3140047--3140094 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
3140037 AATTGATAAT
* *
3140047 AATTATTTTTATATTAAAATATT
1 AATTATTTTTATATCAAAATATG
3140070 AATTATTTTTAT-TCAAAATA-G
1 AATTATTTTTATATCAAAATATG
3140091 AATT
1 AATT
3140095 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 12 0.52
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
AATTATTTTTATATCAAAATATG
Found at i:3140154 original size:17 final size:16
Alignment explanation
Indices: 3140121--3140151 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3140111 AAAGAAATGA
3140121 AAAAAAACTTTAAAAT
1 AAAAAAACTTTAAAAT
*
3140137 AAAAAAATTTTAAAA
1 AAAAAAACTTTAAAA
3140152 ATAGACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAAACTTTAAAAT
Found at i:3140757 original size:12 final size:12
Alignment explanation
Indices: 3140742--3140766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3140732 ATTTTATTTT
3140742 TAATAATAATTA
1 TAATAATAATTA
3140754 TAATAATAATTA
1 TAATAATAATTA
3140766 T
1 T
3140767 TATTATTTTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:3140805 original size:21 final size:21
Alignment explanation
Indices: 3140773--3140820 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
3140763 TTATTATTAT
3140773 TTTTAATCTCAA-TAAAATCAA
1 TTTT-ATCTCAATTAAAATCAA
* *
3140794 TTTTATCATCAATTCAAATGAA
1 TTTTATC-TCAATTAAAATCAA
3140816 TTTTA
1 TTTTA
3140821 AAAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 8 0.35
22 12 0.52
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTTATCTCAATTAAAATCAA
Found at i:3141429 original size:12 final size:12
Alignment explanation
Indices: 3141396--3141454 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
3141386 AAGTTAAAGT
*
3141396 ATTTTATCTTTA
1 ATTTTATATTTA
* *
3141408 AATGTATATTTA
1 ATTTTATATTTA
3141420 ATTATT-TATTTA
1 ATT-TTATATTTA
3141432 ATTTTATATTTA
1 ATTTTATATTTA
*
3141444 TATATTATATT
1 -ATTTTATATT
3141455 AATAAAATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 2 0.05
12 26 0.68
13 10 0.26
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (12 bp):
ATTTTATATTTA
Found at i:3142046 original size:32 final size:32
Alignment explanation
Indices: 3142005--3142119 Score: 92
Period size: 32 Copynumber: 3.5 Consensus size: 32
3141995 GTAATGTGTA
3142005 AAATATTAAATTTTATATATTTATAAAAAATT
1 AAATATTAAATTTTATATATTTATAAAAAATT
* * *
3142037 AAATATTAAATTTTGTAT-TGATATAAAAATATA
1 AAATATTAAATTTTATATAT-TTATAAAAA-ATT
* *
3142070 AAATATTTTTAAA-TTTATTAAATTTATATAAAATT
1 AAATA---TTAAATTTTA-TATATTTATAAAAAATT
*
3142105 -ATTATTAAAATTTTA
1 AAATATT-AAATTTTA
3142120 AATTATATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
31 3 0.05
32 28 0.43
33 11 0.17
34 3 0.05
35 5 0.08
36 14 0.22
37 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
AAATATTAAATTTTATATATTTATAAAAAATT
Found at i:3142101 original size:30 final size:29
Alignment explanation
Indices: 3142065--3142127 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
3142055 TGATATAAAA
* *
3142065 ATATAAAA-TATTTTTAAATTTATTAAATTT
1 ATATAAAATTATTATTAAAATT-TTAAA-TT
3142095 ATATAAAATTATTATTAAAATTTTAAATT
1 ATATAAAATTATTATTAAAATTTTAAATT
3142124 ATAT
1 ATAT
3142128 TATTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 6 0.20
30 13 0.43
31 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
ATATAAAATTATTATTAAAATTTTAAATT
Found at i:3142443 original size:24 final size:25
Alignment explanation
Indices: 3142415--3142483 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 25
3142405 TATTTAATGA
*
3142415 ATTATTAATAAATAAAATTTATAT-
1 ATTATTAATAAATAAAATTAATATC
* * *
3142439 ATTATCATTTAATAAAA-TAATATC
1 ATTATTAATAAATAAAATTAATATC
3142463 ATCTCATTAATAAAATAAAAT
1 AT-T-ATTAAT-AAATAAAAT
3142484 AAAATAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
23 5 0.15
24 16 0.48
25 1 0.03
26 4 0.12
27 7 0.21
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTATTAATAAATAAAATTAATATC
Found at i:3142506 original size:31 final size:31
Alignment explanation
Indices: 3142449--3142513 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
3142439 ATTATCATTT
3142449 AATAAAATAATATCATCTCATTAATAAAATAA
1 AATAAAATAATATCATCTCATTAAT-AAATAA
* * *
3142481 AATAAAATAA-ATTATTTTATTAATAAATAA
1 AATAAAATAATATCATCTCATTAATAAATAA
3142511 AAT
1 AAT
3142514 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 9 0.30
31 11 0.37
32 10 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (31 bp):
AATAAAATAATATCATCTCATTAATAAATAA
Found at i:3142532 original size:16 final size:17
Alignment explanation
Indices: 3142486--3142534 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
3142476 AATAAAATAA
*
3142486 AATAAATT-ATTTTATT
1 AATAAATTAATTTTTTT
*
3142502 AATAAATAAAATTTTTTT
1 AATAAAT-TAATTTTTTT
3142520 AA-AAATTAATTTTTT
1 AATAAATTAATTTTTT
3142535 ATATTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 15 0.54
17 4 0.14
18 9 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAAATTAATTTTTTT
Found at i:3142560 original size:25 final size:25
Alignment explanation
Indices: 3142512--3142561 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
3142502 AATAAATAAA
*
3142512 ATTTTTTTAAAAATTAATTTTTTAT
1 ATTTTTTTAAAAATTAATTGTTTAT
3142537 ATTTATTTTAAAAATTAA-TGTTTAT
1 ATTT-TTTTAAAAATTAATTGTTTAT
3142562 TTATTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
ATTTTTTTAAAAATTAATTGTTTAT
Found at i:3142783 original size:23 final size:22
Alignment explanation
Indices: 3142707--3142772 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
3142697 TGAGATTAAA
**
3142707 AATAATAA-TAATTATTATTAT
1 AATAATAATTAAAAATTATTAT
* *
3142728 AATTATGATTAAAAAATTATTAT
1 AATAATAATT-AAAAATTATTAT
3142751 AATAATAATTAAAAATT-TTAT
1 AATAATAATTAAAAATTATTAT
3142772 A
1 A
3142773 TTAAATAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 11 0.30
22 8 0.22
23 18 0.49
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AATAATAATTAAAAATTATTAT
Found at i:3144594 original size:224 final size:224
Alignment explanation
Indices: 3144204--3144650 Score: 777
Period size: 224 Copynumber: 2.0 Consensus size: 224
3144194 ATGCGAGTAA
*
3144204 GTCCTATTAACACTTCTTTTGGGTCAGGCAACCTCACATCTCTAGTGGGCTTTCGGGGCAGGCCA
1 GTCCTATTAACACTTCTTTTGGGTCAAGCAACCTCACATCTCTAGTGGGCTTTCGGGGCAGGCCA
* * * * * *
3144269 TAGCACTTAATCTTGCCACCTAGGTTGTTTTAGTGCTCTTTCAAGCTTACACTCTAGGTTGAATT
66 TAACACTTAATCTTGCCACCTAGGTTATCTCAGTGCTCCTTCAAGCTTACACTCTAGATTGAATT
* *
3144334 AACACATCACCTACTTGGATGTTTCGTTTCTATCATATACTTGTTGCATCCAAGTTGAACCTTTA
131 AACACATCACCTACTTGGATGTTTCATTTCTATCATATACTTGTTGCATCCAAGTTGAACATTTA
*
3144399 ATACCGACATTAGAGAACATGGATGAACT
196 ATACCGACATTAGAAAACATGGATGAACT
3144428 GTCCTATTAACACTTCTTTTGGGTCAAGCAACCTCACATCTCTAGTGGGCTTTCGGGGCAGGCCA
1 GTCCTATTAACACTTCTTTTGGGTCAAGCAACCTCACATCTCTAGTGGGCTTTCGGGGCAGGCCA
* * *
3144493 TAACACTTAATCTTGCCACTTAGGTTATCTCAGTGTTCCTTCAAGCTTACACTCTAGATTGACTT
66 TAACACTTAATCTTGCCACCTAGGTTATCTCAGTGCTCCTTCAAGCTTACACTCTAGATTGAATT
3144558 AACACATCACCTACTTGGATGTTTCATTTCTATCATATACTTGTTGCATCCAAGTTGAACATTTA
131 AACACATCACCTACTTGGATGTTTCATTTCTATCATATACTTGTTGCATCCAAGTTGAACATTTA
3144623 ATACCGACATTAGAAAACATGGATGAAC
196 ATACCGACATTAGAAAACATGGATGAAC
3144651 CTTTAATGCT
Statistics
Matches: 210, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
224 210 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (224 bp):
GTCCTATTAACACTTCTTTTGGGTCAAGCAACCTCACATCTCTAGTGGGCTTTCGGGGCAGGCCA
TAACACTTAATCTTGCCACCTAGGTTATCTCAGTGCTCCTTCAAGCTTACACTCTAGATTGAATT
AACACATCACCTACTTGGATGTTTCATTTCTATCATATACTTGTTGCATCCAAGTTGAACATTTA
ATACCGACATTAGAAAACATGGATGAACT
Done.