Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 218 of 320
Found at i:72887125 original size:23 final size:23
Alignment explanation
Indices: 72887085--72887139 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
72887075 CCTTTTATAG
72887085 AATTT-ATAATATTTTTTATGATA
1 AATTTAATAATATTTTTTA-GATA
* *
72887108 AATTTAATAATA-TTTTTAGTTT
1 AATTTAATAATATTTTTTAGATA
72887130 AATTTAATAA
1 AATTTAATAA
72887140 ATTAATACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.41
23 11 0.38
24 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
AATTTAATAATATTTTTTAGATA
Found at i:72887888 original size:76 final size:75
Alignment explanation
Indices: 72887753--72887892 Score: 219
Period size: 76 Copynumber: 1.9 Consensus size: 75
72887743 AGTAATGTTG
*
72887753 TTTTCAAAATTCGAACTTAAGTTTTCTTTTAAAAATGCTATTTAATATTGGTTATTACTGCAATT
1 TTTTCAAAATTCGAACTTAAGTTTTCTTTTAAAAATGCTATTTAATATTGGTTACTACTGCAATT
72887818 TGGATGTGCA
66 TGGATGTGCA
* * *
72887828 TTTTTAAAATTTCGAACTTGAGCTTTTC-TTTAAAAATGTTATTTAATATTGGTTACTACTGCAA
1 TTTTCAAAA-TTCGAACTTAAG-TTTTCTTTTAAAAATGCTATTTAATATTGGTTACTACTGCAA
72887892 T
64 T
72887893 CCTTGGATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
75 8 0.14
76 46 0.78
77 5 0.08
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (75 bp):
TTTTCAAAATTCGAACTTAAGTTTTCTTTTAAAAATGCTATTTAATATTGGTTACTACTGCAATT
TGGATGTGCA
Found at i:72892914 original size:20 final size:22
Alignment explanation
Indices: 72892883--72892929 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
72892873 AACTATATAA
72892883 ATTTTGGAATTTTT-AAAAATT
1 ATTTTGGAATTTTTGAAAAATT
72892904 ATTTT-GAATTTTTGAAAAATT
1 ATTTTGGAATTTTTGAAAAATT
72892925 ATTTT
1 ATTTT
72892930 TTGTAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (22 bp):
ATTTTGGAATTTTTGAAAAATT
Found at i:72893556 original size:25 final size:25
Alignment explanation
Indices: 72893526--72893582 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
72893516 ATAAAAGACT
*
72893526 CTCAATTTGACAATGAAAGACATGA
1 CTCAATATGACAATGAAAGACATGA
*
72893551 CTCAATATGGCAATGAAAGACATGA
1 CTCAATATGACAATGAAAGACATGA
72893576 CTCAATA
1 CTCAATA
72893583 CACGACTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.23
Consensus pattern (25 bp):
CTCAATATGACAATGAAAGACATGA
Found at i:72894997 original size:31 final size:30
Alignment explanation
Indices: 72894950--72895019 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
72894940 GGTTTGAAAT
*
72894950 TTTTAAAAATTTTGAAA-AATCTAATTAAAAA
1 TTTTAAAAACTTTGAAAGAAT-TAATT-AAAA
* *
72894981 TTTTGAAAACTTTGAAAGGATTAATTAAAA
1 TTTTAAAAACTTTGAAAGAATTAATTAAAA
*
72895011 TTTTTAAAA
1 TTTTAAAAA
72895020 TTGAAGGGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.35
31 20 0.59
32 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTAAAAACTTTGAAAGAATTAATTAAAA
Found at i:72895340 original size:18 final size:19
Alignment explanation
Indices: 72895303--72895344 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
72895293 CATAATGTTC
*
72895303 TTAAATTATTACTCAAATT
1 TTAAATTACTACTCAAATT
*
72895322 TTAAATTACTCCT-AAATT
1 TTAAATTACTACTCAAATT
72895340 TTAAA
1 TTAAA
72895345 ATTTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAAATTACTACTCAAATT
Found at i:72897984 original size:3 final size:3
Alignment explanation
Indices: 72897978--72898003 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
72897968 TATAAAAAAA
72897978 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
72898004 ATGATTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:72900054 original size:12 final size:12
Alignment explanation
Indices: 72900037--72900061 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72900027 TAATAAAAAA
72900037 TTATTATTATTT
1 TTATTATTATTT
72900049 TTATTATTATTT
1 TTATTATTATTT
72900061 T
1 T
72900062 CTTTGTCAAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:72900350 original size:26 final size:27
Alignment explanation
Indices: 72900292--72900350 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
72900282 GGTTGGATCG
*
72900292 GTTTATGAAATTTTTTAAAATTTATTGT
1 GTTTATGAAATTTTTT-AAATTTATTAT
*
72900320 TTTTATGAAA-TTTTT-AATTTAATTAT
1 GTTTATGAAATTTTTTAAATTT-ATTAT
72900346 GTTTA
1 GTTTA
72900351 GACTTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 5 0.19
26 8 0.30
27 5 0.19
28 9 0.33
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (27 bp):
GTTTATGAAATTTTTTAAATTTATTAT
Found at i:72906984 original size:11 final size:11
Alignment explanation
Indices: 72906968--72907030 Score: 51
Period size: 12 Copynumber: 5.7 Consensus size: 11
72906958 GCCGTACTTT
72906968 TTTTTTTTTAC
1 TTTTTTTTTAC
72906979 --TTTTTTTAC
1 TTTTTTTTTAC
**
72906988 TTTTGTCCTT-C
1 TTTT-TTTTTAC
*
72906999 TTTTTTTTTTC
1 TTTTTTTTTAC
72907010 TTTTTTTTTATAC
1 -TTTTTTTT-TAC
72907023 TTTTTTTT
1 TTTTTTTT
72907031 AAGTTTTGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
9 9 0.22
10 3 0.07
11 8 0.20
12 19 0.46
13 2 0.05
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTAC
Found at i:72907133 original size:21 final size:23
Alignment explanation
Indices: 72907103--72907148 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 23
72907093 ATTTGAAGTG
72907103 TTTTATAATATATATTTTT-AAA
1 TTTTATAATATATATTTTTGAAA
72907125 TTTTA-AATATATATTTTTGAAA
1 TTTTATAATATATATTTTTGAAA
72907147 TT
1 TT
72907149 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTATAATATATATTTTTGAAA
Found at i:72907142 original size:22 final size:22
Alignment explanation
Indices: 72907103--72907148 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
72907093 ATTTGAAGTG
*
72907103 TTTTATAATATATATTTTTAAA
1 TTTTATAATATATATTTTGAAA
72907125 TTTTA-AATATATATTTTTGAAA
1 TTTTATAATATATA-TTTTGAAA
72907147 TT
1 TT
72907149 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTATAATATATATTTTGAAA
Found at i:72907157 original size:34 final size:33
Alignment explanation
Indices: 72907103--72907180 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 33
72907093 ATTTGAAGTG
72907103 TTTTATAATATATATTTTT-AAATTTTAAATATATAT
1 TTTTA-AAT-TAT-TTTTTAAAATTTTAAATAT-TAT
72907139 TTTTGAAATTATTTTTTAAAATTTTAAATATTAT
1 TTTT-AAATTATTTTTTAAAATTTTAAATATTAT
72907173 TTTTAAAT
1 TTTTAAAT
72907181 ATTAAATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
33 4 0.10
34 12 0.30
35 16 0.40
36 7 0.17
37 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (33 bp):
TTTTAAATTATTTTTTAAAATTTTAAATATTAT
Found at i:72907175 original size:21 final size:21
Alignment explanation
Indices: 72907146--72907205 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 21
72907136 TATTTTTGAA
*
72907146 ATTATTTTTTAAAATTTTAAAT
1 ATTA-TTTTTAAAATATTAAAT
72907168 ATTATTTTT-AAATATTAAAT
1 ATTATTTTTAAAATATTAAAT
72907188 ATATATTTTTAATAATAT
1 AT-TATTTTTAA-AATAT
72907206 AAAACATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 12 0.35
21 12 0.35
22 5 0.15
23 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:72907176 original size:13 final size:13
Alignment explanation
Indices: 72907125--72907184 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
72907115 TATTTTTAAA
72907125 TTTTAAATATATAT
1 TTTTAAATAT-TAT
*
72907139 TTTTGAA-ATTAT
1 TTTTAAATATTAT
*
72907151 TTTTTAA-A--A-
1 TTTTAAATATTAT
72907160 TTTTAAATATTAT
1 TTTTAAATATTAT
72907173 TTTTAAATATTA
1 TTTTAAATATTA
72907185 AATATATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
12 11 0.28
13 14 0.36
14 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:72907325 original size:11 final size:11
Alignment explanation
Indices: 72907293--72907380 Score: 53
Period size: 11 Copynumber: 8.3 Consensus size: 11
72907283 ATATTAAATT
* *
72907293 TTTTAAATTTG
1 TTTTAAATATA
72907304 TTTTATAATAT-
1 TTTTA-AATATA
*
72907315 TTTAAATATATA
1 TTTTAA-ATATA
72907327 TTTTAAATATA
1 TTTTAAATATA
72907338 TTTT---TA-A
1 TTTTAAATATA
72907345 TTTTAAATATAA
1 TTTTAAATAT-A
* *
72907357 TTTT-TATAAA
1 TTTTAAATATA
*
72907367 TTATAAATATA
1 TTTTAAATATA
72907378 TTT
1 TTT
72907381 AATATTTAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
7 5 0.08
8 2 0.03
10 7 0.12
11 31 0.53
12 14 0.24
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (11 bp):
TTTTAAATATA
Found at i:72907329 original size:13 final size:13
Alignment explanation
Indices: 72907265--72907344 Score: 64
Period size: 13 Copynumber: 6.4 Consensus size: 13
72907255 TTTATAATAA
*
72907265 TTTAAATGTATAT
1 TTTAAATATATAT
*
72907278 TTTAAATATTAAATTT
1 TTTAAATA-T--ATAT
*
72907294 TTTAAAT-T-TGT
1 TTTAAATATATAT
72907305 TTT--ATA-ATAT
1 TTTAAATATATAT
72907315 TTTAAATATATAT
1 TTTAAATATATAT
72907328 TTTAAATATAT-T
1 TTTAAATATATAT
72907340 TTTAA
1 TTTAA
72907345 TTTTAAATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
9 2 0.04
10 5 0.09
11 5 0.09
12 9 0.16
13 22 0.40
14 2 0.04
16 10 0.18
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (13 bp):
TTTAAATATATAT
Found at i:72907335 original size:22 final size:20
Alignment explanation
Indices: 72907286--72907336 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
72907276 ATTTTAAATA
* *
72907286 TTAAATTTTTTAAATTTGTT
1 TTAAATATTTTAAATTTATT
72907306 TTATAATATTTTAAATATATATT
1 TTA-AATATTTTAAAT-T-TATT
72907329 TTAAATAT
1 TTAAATAT
72907337 ATTTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 11 0.42
22 6 0.23
23 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTAAATATTTTAAATTTATT
Found at i:72907349 original size:18 final size:19
Alignment explanation
Indices: 72907326--72907362 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
72907316 TTAAATATAT
72907326 ATTTTAAATAT-ATTTTTA
1 ATTTTAAATATAATTTTTA
72907344 ATTTTAAATATAATTTTTA
1 ATTTTAAATATAATTTTTA
72907363 TAAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTAAATATAATTTTTA
Found at i:72907397 original size:40 final size:39
Alignment explanation
Indices: 72907321--72907397 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
72907311 ATATTTTAAA
* * *
72907321 TATATATTTTAAATATATTTTTAATTTTAAATATAATTTT
1 TATAAATTATAAATATA-TTTTAATTTTAAAAATAATTTT
72907361 TATAAATTATAAATATA-TTTAATATTTAAAAAATAAT
1 TATAAATTATAAATATATTTTAAT-TTT-AAAAATAAT
72907398 ATATTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 6 0.19
39 3 0.09
40 23 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (39 bp):
TATAAATTATAAATATATTTTAATTTTAAAAATAATTTT
Found at i:72914427 original size:29 final size:29
Alignment explanation
Indices: 72914394--72914452 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
72914384 ACAAAATTGA
* *
72914394 ATAGTTGAGTG-CCAATATTATAACTTTTC
1 ATAGTTGAATGACCAAT-TTATAACGTTTC
*
72914423 ATAGTTGAATGACCACTTTATAACGTTTC
1 ATAGTTGAATGACCAATTTATAACGTTTC
72914452 A
1 A
72914453 CAACTGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (29 bp):
ATAGTTGAATGACCAATTTATAACGTTTC
Found at i:72914885 original size:19 final size:20
Alignment explanation
Indices: 72914847--72914887 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
72914837 CAGATCTTAT
72914847 TATATTATCAATCTTTAAAA
1 TATATTATCAATCTTTAAAA
72914867 TATATTATCCAA-C-TTAAAA
1 TATATTAT-CAATCTTTAAAA
72914886 TA
1 TA
72914888 AATCTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 9 0.45
21 3 0.15
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATTATCAATCTTTAAAA
Found at i:72917294 original size:80 final size:80
Alignment explanation
Indices: 72917161--72917322 Score: 279
Period size: 80 Copynumber: 2.0 Consensus size: 80
72917151 TTTAACAACA
* * *
72917161 AAAACTAGTGATGTTATCAATTTGGACGAGGTTAATTCCATTCAATTACTTTTTCATCCATTAAT
1 AAAACTAGTGATATTATCAATTTAGACGAGGTTAACTCCATTCAATTACTTTTTCATCCATTAAT
72917226 ACCTAATTCATGTTT
66 ACCTAATTCATGTTT
* *
72917241 AAAACTAGTGATATTATCAATTTAGACGAGGTTAACTCCATTCCATTACTTTTTTATCCATTAAT
1 AAAACTAGTGATATTATCAATTTAGACGAGGTTAACTCCATTCAATTACTTTTTCATCCATTAAT
72917306 ACCTAATTCATGTTT
66 ACCTAATTCATGTTT
72917321 AA
1 AA
72917323 TCACCATGCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (80 bp):
AAAACTAGTGATATTATCAATTTAGACGAGGTTAACTCCATTCAATTACTTTTTCATCCATTAAT
ACCTAATTCATGTTT
Found at i:72922220 original size:8 final size:8
Alignment explanation
Indices: 72922186--72922237 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
72922176 TAGTGATGTG
*
72922186 AATAATAA
1 AATATTAA
*
72922194 AGTATATAA
1 AATAT-TAA
72922203 AATA-TAA
1 AATATTAA
72922210 AATATTAA
1 AATATTAA
*
72922218 AATATCAA
1 AATATTAA
*
72922226 AATATTAG
1 AATATTAA
72922234 AATA
1 AATA
72922238 ATAATTAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:72922227 original size:16 final size:15
Alignment explanation
Indices: 72922190--72922275 Score: 63
Period size: 16 Copynumber: 5.5 Consensus size: 15
72922180 GATGTGAATA
*
72922190 ATAAAGTATATAAAAT
1 ATAAAATAT-TAAAAT
72922206 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
72922221 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
72922237 AATAATTAATATTGACAAAT
1 -ATAA--AATATT-A-AAAT
72922257 A-AAAA-A-TAAAAT
1 ATAAAATATTAAAAT
72922269 A-AAAATA
1 ATAAAATA
72922276 AAAAGTGTAC
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
12 9 0.15
13 2 0.03
14 1 0.02
15 9 0.15
16 24 0.40
17 2 0.03
18 8 0.13
19 2 0.03
20 3 0.05
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:72922426 original size:25 final size:25
Alignment explanation
Indices: 72922385--72922521 Score: 91
Period size: 25 Copynumber: 5.4 Consensus size: 25
72922375 TGATAATATT
* *
72922385 AAAAATATGTACCTAATATAGTGTA
1 AAAAATATATACATAATATAGTGTA
* *
72922410 AAAAATACATACATAATATAAT-T-
1 AAAAATATATACATAATATAGTGTA
* *
72922433 -AAAATATATACATAAGATAACATGTA
1 AAAAATATATACATAATAT-A-GTGTA
* * *
72922459 AAATATATATATAAATAATATAGTATT
1 AAA-A-ATATATACATAATATAGTGTA
* * *
72922486 AAAGATATATACATAAAATAGTATA
1 AAAAATATATACATAATATAGTGTA
* *
72922511 ATATATATATA
1 AAAAATATATA
72922522 TGTACGTAAT
Statistics
Matches: 88, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
22 16 0.18
23 1 0.01
24 3 0.03
25 46 0.52
27 7 0.08
28 2 0.02
29 13 0.15
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (25 bp):
AAAAATATATACATAATATAGTGTA
Found at i:72922443 original size:22 final size:22
Alignment explanation
Indices: 72922411--72922477 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 22
72922401 TATAGTGTAA
*
72922411 AAAATACATACATAATATAAT-T
1 AAAATATATACATAA-ATAATGT
72922433 AAAATATATACATAAGATAACATGT
1 AAAATATATACATAA-AT-A-ATGT
*
72922458 AAAATATATATATAAATAAT
1 AAAATATATACATAAATAAT
72922478 ATAGTATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 18 0.46
23 2 0.05
24 4 0.10
25 15 0.38
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (22 bp):
AAAATATATACATAAATAATGT
Found at i:72922476 original size:29 final size:29
Alignment explanation
Indices: 72922436--72922502 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
72922426 TATAATTAAA
*
72922436 ATATATACATAAGATAACATGTAAA-ATAT
1 ATATATAAATAAGATAACAT-TAAAGATAT
* **
72922465 ATATATAAATAATATAGTATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAGATAT
*
72922494 ATACATAAA
1 ATATATAAA
72922503 ATAGTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAGATAT
Found at i:72922598 original size:23 final size:25
Alignment explanation
Indices: 72922555--72922600 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
72922545 TATACCTAAT
72922555 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
72922580 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
72922601 ACAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:72923085 original size:30 final size:30
Alignment explanation
Indices: 72923049--72923117 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
72923039 TAGGTACAAG
*
72923049 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
72923079 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
72923109 TGGTGGTGG
1 TGGTGGTGG
72923118 CAAAGGCTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.14, C:0.04, G:0.52, T:0.29
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:72923996 original size:14 final size:14
Alignment explanation
Indices: 72923977--72924026 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 14
72923967 GAGTTGATTT
*
72923977 TTGAAAAGCATAAA
1 TTGAAAAGCAGAAA
72923991 TTGAAAAAGCAGAAA
1 TTG-AAAAGCAGAAA
* *
72924006 TTGAAAA-CGGAAT
1 TTGAAAAGCAGAAA
72924019 TTGAAAAG
1 TTGAAAAG
72924027 ACCTCGGCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 11 0.35
14 7 0.23
15 13 0.42
ACGTcount: A:0.54, C:0.06, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:72924042 original size:103 final size:104
Alignment explanation
Indices: 72923839--72924088 Score: 315
Period size: 103 Copynumber: 2.4 Consensus size: 104
72923829 TGAGCCAAGG
* * *
72923839 CTCAACTCATCTCTCGCAATATGAGTTAATTTTTTTTTAAAACACATAAATTAAAAAACAGAAAC
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAACACATAAATTAAAAAACAGAAAC
* *
72923904 TAAAAATAGAATTTGAAAAGACATCGACATGTGGCCCGAGA
64 TAAAAACAGAATTTGAAAAGACATCGACATATGGCCCGAGA
* * *
72923945 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAA-GCATAAATTGAAAAAGCAGAAATT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACACATAAATT-AAAAAACAGAAACT
* * * * *
72924008 GAAAACGGAATTTGAAAAGACCTCGGCGTATGGCCCGAGA
65 AAAAACAGAATTTGAAAAGACATCGACATATGGCCCGAGA
* *
72924048 CTCAACTCACTTCTCGCAATACGAGTTGAATTTTTTGAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTGAAAA
72924089 ATGGCAATTA
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
102 8 0.06
103 80 0.63
104 1 0.01
105 10 0.08
106 27 0.21
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (104 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACACATAAATTAAAAAACAGAAACTA
AAAACAGAATTTGAAAAGACATCGACATATGGCCCGAGA
Found at i:72924176 original size:14 final size:14
Alignment explanation
Indices: 72924157--72924191 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
72924147 GTTGATTCTT
*
72924157 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
72924171 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
72924185 TTGAAAA
1 TTGAAAA
72924192 TACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:72924429 original size:75 final size:76
Alignment explanation
Indices: 72924338--72924513 Score: 266
Period size: 75 Copynumber: 2.3 Consensus size: 76
72924328 TTTTTTGATT
* * * *
72924338 TTTTTTTTAAAGACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
1 TTTTTTTGAAAAACAGAAATTGAAAATTACCTCAACGTGTCCTGAGACTCAACTCACCTCTCGCA
72924402 ATATGAGTTGA
66 ATATGAGTTGA
*
72924413 TTTTTTTGAAAAACAGAAATT-AAAATTACCTCAATGTGTCCTGAGACTCAACTCACCTCTCGCA
1 TTTTTTTGAAAAACAGAAATTGAAAATTACCTCAACGTGTCCTGAGACTCAACTCACCTCTCGCA
72924477 ATATGAGTTGA
66 ATATGAGTTGA
* **
72924488 TTCTTTTGAAAAGTAGAAATTGAAAA
1 TTTTTTTGAAAAACAGAAATTGAAAA
72924514 GCAGAAATTG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
74 4 0.04
75 83 0.91
76 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (76 bp):
TTTTTTTGAAAAACAGAAATTGAAAATTACCTCAACGTGTCCTGAGACTCAACTCACCTCTCGCA
ATATGAGTTGA
Found at i:72924512 original size:14 final size:14
Alignment explanation
Indices: 72924493--72924527 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
72924483 GTTGATTCTT
*
72924493 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
72924507 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
72924521 TTGAAAA
1 TTGAAAA
72924528 TACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:72924661 original size:336 final size:333
Alignment explanation
Indices: 72924048--72925425 Score: 1811
Period size: 336 Copynumber: 4.2 Consensus size: 333
72924038 TGGCCCGAGA
* * * ** * *
72924048 CTCAACTCACTTCTCGCAATACGAGTTGAATTTTTTGAAAAATGGCAATTAAAATTACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAATTACCTCAACG
*
72924113 TGTCCTGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAA
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAA
72924178 GCAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
131 GCAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
* *
72924243 ATTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATA-CTTCAGTGTTTTGAGGCTCAACTCA
196 ATTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCTT-AGCGTCTTGAGGCTCAACTCA
72924307 CCTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTTAAAGACAGAAATTGAAAATACCTCAA
260 CCTCTCGCAATATGAGTTGA--TTTTTGA-TTTTTTTTTAAAGACAGAAATTGAAAATACCTCAA
72924372 CGTGTCTTGAGG
322 CGTGTCTTGAGG
*
72924384 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAATTACCTCAATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAATTACCTCAACG
*
72924449 TGTCCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAA
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAA
*
72924514 GCAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGG
131 GCAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
*
72924579 ATTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCTTAGCGTCTTGAAGCTCAACTCAC
196 ATTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCTTAGCGTCTTGAGGCTCAACTCAC
*
72924644 CTCTCGCAATATGAGTTGATTTTTTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTGAAC
261 CTCTCGCAATATGAGTTGA--TTTTTGATTTTTTTTT-AAAGACAGAAATTGAAAATACCTCAAC
72924709 GTGTCTTGAGG
323 GTGTCTTGAGG
** * *
72924720 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATGGCAATTAAAATTACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAATTACCTCAACG
72924785 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAA
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAA
*
72924850 GCAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGG
131 GCAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
*
72924915 ATTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCAC
196 ATTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCTTAGCGTCTTGAGGCTCAACTCAC
72924980 CTCTCGCAATATGA---G----TTGATTTTTTTTTAAATGACAGAAATTGAAAATACCTCAACGT
261 CTCTCGCAATATGAGTTGATTTTTGATTTTTTTTTAAA-GACAGAAATTGAAAATACCTCAACGT
72925038 GTCTTGAGG
325 GTCTTGAGG
* *
72925047 CTTAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAAATTTGAAAAACAGAATTTGAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTT----------TTTGAAAAACAGAAATT-AA
* * ** * * *
72925112 AA-TGCCTCAATGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGTTGATTTTTTTGAAA
53 AATTACCTCAACGTGT-CCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAA
* * * * * *
72925176 CA-CAGAAATTGAAGAA-CAAAAATGGAAAACACCTCAG--CGT---CTTGAGGTTCAACTCACC
116 -AGTAGAAATTGAA-AAGCAGAAATTGAAAATACCTCAGCACGTGAGC-CGAGGCTCAACTCACC
* *** *
72925234 TCTCGCAATATGAGCT-GATTTTT---TTTTAAA--GAC--A--GAAATTGAAAATACCTCAATG
178 TCTCGCAATATGAGTTGGATTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCT-TA-G
* * *
72925289 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA---------CAA-ACAAAA
241 CGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATTTTTTTTTAAAGACAGAA
* * * *
72925344 ATTGAAATTACCTTAGCGTGTCCTGAGG
306 ATTGAAAATACCTCAACGTGTCTTGAGG
*
72925372 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATAAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAA
72925426 CATCAAAATA
Statistics
Matches: 951, Mismatches: 61, Indels: 84
0.87 0.06 0.08
Matches are distributed among these distances:
312 4 0.00
313 15 0.02
323 4 0.00
325 57 0.06
326 3 0.00
327 93 0.10
328 1 0.00
329 39 0.04
331 3 0.00
332 1 0.00
333 5 0.01
335 9 0.01
336 583 0.61
337 31 0.03
339 26 0.03
340 5 0.01
341 69 0.07
342 3 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (333 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAATTACCTCAACG
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAA
GCAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGG
ATTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCTTAGCGTCTTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTGATTTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTG
TCTTGAGG
Found at i:72924794 original size:75 final size:75
Alignment explanation
Indices: 72924691--72924849 Score: 239
Period size: 75 Copynumber: 2.1 Consensus size: 75
72924681 GAAAGACAGA
* * *
72924691 AATTGAAAATACCTGAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTT
72924756 GAAAAATGGC
66 GAAAAATGGC
*
72924766 AATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTT
1 AATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTT
* * *
72924830 TGAAAAGTAGA
65 TGAAAAATGGC
72924841 AATTGAAAA
1 AATTGAAAA
72924850 GCAGAAATTG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 4 0.05
75 67 0.89
76 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (75 bp):
AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTT
GAAAAATGGC
Found at i:72924848 original size:14 final size:14
Alignment explanation
Indices: 72924829--72924863 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
72924819 GTTGATTCTT
*
72924829 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
72924843 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
72924857 TTGAAAA
1 TTGAAAA
72924864 TACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:72924907 original size:91 final size:84
Alignment explanation
Indices: 72924766--72925257 Score: 389
Period size: 91 Copynumber: 5.7 Consensus size: 84
72924756 GAAAAATGGC
*
72924766 AATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTT
1 AATTGAAAA-TACCTCAGCGTCT-C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTT
72924830 TGAAAAGTAGAAATTGA-AAAGCAGA
62 TGAAAA--AGAAATTGACAAA-CAGA
*
72924855 AATTGAAAATACCTCAGCACGTGAGC-CGAGGCTCAACTCATCTCTCGCAATATGAGTTGGA-TT
1 AATTGAAAATACCTCAG--CGT---CTCGAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTT
* *
72924918 TTTGAAAAATAAATTGACAAACGGA
60 TTTGAAAAAGAAATTGACAAACAGA
* **
72924943 AATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
1 AATTGAAAATACCTCAGCGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA
* * **
72925008 AAATGACA--G--AAATTGA
65 AAAAGAAATTGACAAACAGA
* ** ** * * *
72925024 AAAT--ACCT-CAAC-GTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
1 AATTGAAAATACCTCAGCGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
* *
72925085 AAAAAAATTTGAAAAACAGA
66 AAAGAAA-TTGACAAACAGA
* * * * * *
72925105 ATTTGAAAATGCCTCAATGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTC-A-GCGT--CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
*
72925170 TTGAAACACAGAAATTGA-AGAACAAA
61 TTGAAA-A-AGAAATTGACA-AACAGA
* * * * *
72925196 AATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
72925258 TTTAAAGACA
Statistics
Matches: 324, Mismatches: 51, Indels: 59
0.75 0.12 0.14
Matches are distributed among these distances:
76 11 0.03
77 38 0.12
78 2 0.01
79 3 0.01
81 15 0.05
83 6 0.02
84 32 0.10
85 10 0.03
86 9 0.03
87 34 0.10
88 28 0.09
89 49 0.15
90 25 0.08
91 55 0.17
92 7 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (84 bp):
AATTGAAAATACCTCAGCGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
AAAGAAATTGACAAACAGA
Found at i:72924955 original size:252 final size:242
Alignment explanation
Indices: 72924517--72925350 Score: 921
Period size: 252 Copynumber: 3.3 Consensus size: 242
72924507 TTGAAAAGCA
* * *
72924517 GAAATTGAAAATACCTCAGCACGTGAGC-CGAGGCTTAACTCACCTCTCGCAATATGAGTTGGA-
1 GAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-GAT
* * * * *
72924580 TTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCTTAGCGT---CTTGAAGCTCAACTC
62 TTTTTGAAAAAAAAATTGA-AAACAGAAATTGAAAATACCTCAGCGTGAGC-CGAGGCTCAACTC
*** ***
72924642 ACCTCTCGCAATATGAGTTGATTTTTTTG-ATTTTTTTTTGAAAGACAGAAATTGAAAATACCTG
125 ACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATAAATTGAAA-ACAGAAATTGAAAATACCT-
* *
72924706 AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATG
187 CA-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAAATG
* * *
72924764 GCAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCT
1 GAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-T
*
72924828 TTTGAAAAGTAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACT
64 TTTGAAAA--AAAAATTGAAAA-CAGAAATTGAAAATACCTCAG--CGTGAGCCGAGGCTCAACT
* *
72924893 CATCTCTCGCAATATGAGTTGGA-TTTTTGAAAAATAAATTGACAAACGGAAATTGAAAATACCT
124 CACCTCTCGCAATATGAGTT-GATTTTTTGAAAAATAAATTGA-AAACAGAAATTGAAAATACCT
**
72924957 CAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAATG
187 CAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAATG
*
72925013 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATT
1 ---GAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * * *
72925078 TTTTGAAAAAAAAATTTGAAAAACAGAATTTGAAAATGCCTCAATGTGTGAGTCAAGGCTCAACT
63 TTTTGAAAAAAAAA-TTG-AAAACAGAAATTGAAAATACCTC-A-GCGTGAGCCGAGGCTCAACT
* * * * *
72925143 CACCACTCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTGAAGAACAAAAATGGAAAACAC
124 CACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-A-ATAAATTGAA-AACAGAAATTGAAAATAC
* * * **
72925208 CTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTTAAAGACA
185 CTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTAAAAATG
*
72925268 GAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
1 GAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
72925332 TGACAAACAAAAATTGAAA
66 TGA-AAA-AAAAATTGAAA
72925351 TTACCTTAGC
Statistics
Matches: 507, Mismatches: 48, Indels: 60
0.82 0.08 0.10
Matches are distributed among these distances:
244 3 0.01
245 35 0.07
246 13 0.03
247 15 0.03
248 27 0.05
249 11 0.02
250 103 0.20
251 40 0.08
252 173 0.34
253 78 0.15
255 9 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (242 bp):
GAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TGAAAAAAAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGAGCCGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTGAAAAATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTCTT
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAATG
Found at i:72925097 original size:13 final size:14
Alignment explanation
Indices: 72925079--72925113 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
72925069 GAGTTGATTT
72925079 TTTGAAAAA-AAAA
1 TTTGAAAAACAAAA
*
72925092 TTTGAAAAACAGAA
1 TTTGAAAAACAAAA
72925106 TTTGAAAA
1 TTTGAAAA
72925114 TGCCTCAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.60, C:0.03, G:0.11, T:0.26
Consensus pattern (14 bp):
TTTGAAAAACAAAA
Found at i:72925247 original size:87 final size:88
Alignment explanation
Indices: 72925017--72925278 Score: 255
Period size: 87 Copynumber: 3.0 Consensus size: 88
72925007 TAAATGACAG
* * * *
72925017 AAATTGAAAATACCTCAACGTGTCTTGAGGCTT-AACTCACCTCTCGCAATATGAGTTGA-TTTT
1 AAATGGAAAACACCTCAATGCGTCTTGAGG-TTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
72925080 TTGAAAA-AAAAATTTGAAAAACAG
65 TTGAAAACAGAAA-TTGAAAAACAA
* * ** * * ** * *
72925104 AATTTGAAAATGCCTCAATGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGTTGATTTT
1 AAATGGAAAACACCTCAATGCGT--CTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
72925169 TTTGAAACACAGAAATTGAAGAACAA
64 TTTGAAA-ACAGAAATTGAAAAACAA
*
72925195 AAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AAATGGAAAACACCTCAATGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
72925258 TTTAAAGACAGAAATTGAAAA
65 TTGAAA-ACAGAAATTGAAAA
72925279 TACCTCAATG
Statistics
Matches: 143, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
87 50 0.35
88 24 0.17
89 32 0.22
90 11 0.08
91 22 0.15
92 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (88 bp):
AAATGGAAAACACCTCAATGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAACAGAAATTGAAAAACAA
Found at i:72925329 original size:76 final size:74
Alignment explanation
Indices: 72925184--72925420 Score: 284
Period size: 73 Copynumber: 3.2 Consensus size: 74
72925174 AACACAGAAA
* * * * *
72925184 TTGAAGAACAAAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
72925247 GCTGATTTTTT
65 GTTGA-TTTTT
* *
72925258 TTTAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
72925323 GTTGA--TTT
65 GTTGATTTTT
* * * * *
72925331 TTGACAAACAAAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
72925396 GTTGATTTTT
65 GTTGATTTTT
72925406 TTGAAAAACAGAAAT
1 TTG-AAAACAGAAAT
72925421 AAAAACATCA
Statistics
Matches: 141, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
73 64 0.45
74 23 0.16
75 16 0.11
76 38 0.27
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:72935897 original size:7 final size:7
Alignment explanation
Indices: 72935882--72935929 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
72935872 ATAATAAAGT
*
72935882 ATATAAA
1 ATATTAA
72935889 ATATTAA
1 ATATTAA
72935896 ATATTAA
1 ATATTAA
72935903 ATATTAAA
1 ATATT-AA
*
72935911 ATATCAAA
1 ATAT-TAA
72935919 ATATTAGA
1 ATATTA-A
72935927 ATA
1 ATA
72935930 ATAATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
7 19 0.54
8 16 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (7 bp):
ATATTAA
Found at i:72935899 original size:14 final size:14
Alignment explanation
Indices: 72935882--72935929 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 14
72935872 ATAATAAAGT
72935882 ATATAAAATATTAA
1 ATATAAAATATTAA
*
72935896 ATATTAAATATTAAA
1 ATATAAAATATT-AA
72935911 ATATCAAAATATTAGA
1 ATAT-AAAATATTA-A
72935927 ATA
1 ATA
72935930 ATAATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 11 0.38
15 7 0.24
16 11 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
ATATAAAATATTAA
Found at i:72935912 original size:8 final size:8
Alignment explanation
Indices: 72935871--72935929 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
72935861 TAGTGATGTG
*
72935871 AATAATAA
1 AATATTAA
*
72935879 AGTATATAA
1 AATAT-TAA
72935888 AATATT-A
1 AATATTAA
72935895 AATATT-A
1 AATATTAA
72935902 AATATTAA
1 AATATTAA
*
72935910 AATATCAA
1 AATATTAA
*
72935918 AATATTAG
1 AATATTAA
72935926 AATA
1 AATA
72935930 ATAATTAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
7 14 0.33
8 22 0.51
9 7 0.16
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (8 bp):
AATATTAA
Found at i:72936114 original size:25 final size:24
Alignment explanation
Indices: 72936054--72936138 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
72936044 GTACATATAT
* *
72936054 AAAAATAAATACATGATA-ATATT-
1 AAAAATACATACATAATATA-ATTA
** *
72936077 AAAAATATGTACATAATATAGTGTA
1 AAAAATACATACATAATATAAT-TA
72936102 AAAAATACATACATAATATAATTA
1 AAAAATACATACATAATATAATTA
72936126 AAATATATACATA
1 AAA-A-ATACATA
72936139 AGATAACATG
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
23 16 0.32
24 7 0.14
25 20 0.40
26 7 0.14
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.31
Consensus pattern (24 bp):
AAAAATACATACATAATATAATTA
Found at i:72936167 original size:28 final size:27
Alignment explanation
Indices: 72936128--72936189 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
72936118 TATAATTAAA
* *
72936128 ATATATACATAAGATAACATGTAAATAT
1 ATATATAAATAAGATAACAT-TAAAGAT
* **
72936156 ATATATAAATAATATAGTATTAAAGAT
1 ATATATAAATAAGATAACATTAAAGAT
72936183 ATATATA
1 ATATATA
72936190 TAAAATAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (27 bp):
ATATATAAATAAGATAACATTAAAGAT
Found at i:72936192 original size:25 final size:25
Alignment explanation
Indices: 72936073--72936288 Score: 121
Period size: 25 Copynumber: 8.9 Consensus size: 25
72936063 TACATGATAA
* *
72936073 TATTAAAAATATGTACATAATATAG
1 TATTAAAGATATATACATAATATAG
* * * *
72936098 TGTAAAAAATACATACATAATATA-
1 TATTAAAGATATATACATAATATAG
* *
72936122 -ATTAAA-ATATATACATAAGATAA
1 TATTAAAGATATATACATAATATAG
* * *
72936145 CATGTAAATATATATATAAATAATATAG
1 TAT-T-AA-AGATATATACATAATATAG
* *
72936173 TATTAAAGATATATATATAAAATAG
1 TATTAAAGATATATACATAATATAG
* *
72936198 TA-TAATATATATATACGTAATATAG
1 TATTAA-AGATATATACATAATATAG
* * *
72936223 AATT-TAGA-ATATACCT-A-ATA-
1 TATTAAAGATATATACATAATATAG
* *
72936243 TATTAAAGAATATATATATAATATAA
1 TATTAAAG-ATATATACATAATATAG
*
72936269 TATT-AAGAAATATA-ATAATA
1 TATTAAAGATATATACATAATA
72936289 ACAAAAAAAA
Statistics
Matches: 149, Mismatches: 28, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
20 3 0.02
21 5 0.03
22 16 0.11
23 23 0.15
24 14 0.09
25 61 0.41
26 9 0.06
27 2 0.01
28 16 0.11
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
TATTAAAGATATATACATAATATAG
Found at i:72936288 original size:46 final size:47
Alignment explanation
Indices: 72936069--72936288 Score: 123
Period size: 48 Copynumber: 4.5 Consensus size: 47
72936059 TAAATACATG
* * *
72936069 ATAATATTAA-AAATATGTACATAATATAGTGTAAAAAATACATACATAAT
1 ATAATATTAAGAAATA--TACATAATATA--GTATAAAATATATATATAAT
* * *
72936119 AT-A-ATTAA-AATATATACATAAGATAACATGTAAATATATATATAAATAAT
1 ATAATATTAAGAA-ATATACATAATAT-A-GTATAAA-ATATATAT--ATAAT
* * * * *
72936169 ATAGTATTAAAGATATATATATAAAATAGTATAATATATATATACGTAAT
1 ATAATATT-AAGAAATATACATAATATAGTATAAAATATATATA--TAAT
* * *
72936219 ATAGA-ATTTAG-AATATACCTAATATATTA-AAGAATATATATATAAT
1 ATA-ATATTAAGAAATATACATAATATAGTATAA-AATATATATATAAT
72936265 ATAATATTAAGAAATATA-ATAATA
1 ATAATATTAAGAAATATACATAATA
72936289 ACAAAAAAAA
Statistics
Matches: 131, Mismatches: 24, Indels: 34
0.69 0.13 0.18
Matches are distributed among these distances:
45 1 0.01
46 17 0.13
47 21 0.16
48 37 0.28
49 6 0.05
50 27 0.21
51 4 0.03
52 4 0.03
53 13 0.10
54 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (47 bp):
ATAATATTAAGAAATATACATAATATAGTATAAAATATATATATAAT
Found at i:72936612 original size:16 final size:16
Alignment explanation
Indices: 72936574--72936612 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
72936564 CTCCAAAAAA
*
72936574 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
72936590 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
72936606 AATAACT
1 AAAAACT
72936613 TTCTCTCCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:72936777 original size:30 final size:30
Alignment explanation
Indices: 72936741--72936809 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
72936731 TAGGTACAAG
*
72936741 TGGTGGTGGAGCAAGTGTGGCTATTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
72936771 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
72936801 TGGTGGTGG
1 TGGTGGTGG
72936810 CAAATGCTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.14, C:0.04, G:0.51, T:0.30
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:72937142 original size:39 final size:40
Alignment explanation
Indices: 72937059--72937147 Score: 71
Period size: 39 Copynumber: 2.2 Consensus size: 40
72937049 TTTGATATAA
* *
72937059 AATATATATTATATATTATATTAACTTAATATT-TAAGT-ATT
1 AATATATAATA-ATATAATATT-ACTTAATATTAT-AGTAATT
*
72937100 AATATATAAT-ATATAATATTA-TT-ATATTATATATAATAT
1 AATATATAATAATATAATATTACTTAATATTATA-GTAAT-T
72937139 AATATATAA
1 AATATATAA
72937148 AACATAAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
36 6 0.15
37 4 0.10
38 3 0.07
39 19 0.46
41 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (40 bp):
AATATATAATAATATAATATTACTTAATATTATAGTAATT
Found at i:72937147 original size:7 final size:7
Alignment explanation
Indices: 72937053--72937147 Score: 67
Period size: 7 Copynumber: 14.1 Consensus size: 7
72937043 GATATTTTTG
*
72937053 ATATAAA
1 ATATATA
72937060 ATATATA
1 ATATATA
*
72937067 TTATATA
1 ATATATA
*
72937074 TTATATTA
1 ATATA-TA
*
72937082 A-CT-TA
1 ATATATA
*
72937087 ATATTTA
1 ATATATA
72937094 AGTAT-TA
1 A-TATATA
72937101 ATATATA
1 ATATATA
72937108 ATATATA
1 ATATATA
72937115 ATAT-TA
1 ATATATA
* *
72937121 TTATATT
1 ATATATA
72937128 ATATAT-
1 ATATATA
72937134 A-ATATA
1 ATATATA
72937140 ATATATA
1 ATATATA
72937147 A
1 A
72937148 AACATAAAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 7 0.10
6 11 0.15
7 49 0.68
8 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (7 bp):
ATATATA
Found at i:72938359 original size:22 final size:22
Alignment explanation
Indices: 72938319--72938386 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 22
72938309 CGTTCTATTA
*
72938319 TTAGCACGTTAAGTGCTCTCTGT
1 TTAGCAC-TTTAGTGCTCTCTGT
72938342 TTAGCACATTT-GTGCTCTCTGT
1 TTAGCAC-TTTAGTGCTCTCTGT
*
72938364 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACTTTAGTGCTCTCTGT
72938386 T
1 T
72938387 CTTTTGTGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
21 3 0.08
22 28 0.70
23 9 0.22
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (22 bp):
TTAGCACTTTAGTGCTCTCTGT
Found at i:72941061 original size:23 final size:25
Alignment explanation
Indices: 72941018--72941063 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
72941008 GAATCAAACG
*
72941018 GAAACAAGAGAAAAAACAAGAAAGA
1 GAAACAAGAGAAAAAAAAAGAAAGA
72941043 GAAA-AAGA-AAAAAAAAAGAAA
1 GAAACAAGAGAAAAAAAAAGAAA
72941064 AACCCGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 4 0.20
25 4 0.20
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (25 bp):
GAAACAAGAGAAAAAAAAAGAAAGA
Found at i:72952726 original size:32 final size:31
Alignment explanation
Indices: 72952680--72952747 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
72952670 AATAGTCTAT
* *
72952680 ATTTTTATAATTTTTAAAGAATTAAA-TAAA
1 ATTTTTATAATTTTTAAAAAATCAAAGTAAA
*
72952710 ATTTTTGATCAATTTTTAAAAAATCAAAGTATA
1 ATTTTT-AT-AATTTTTAAAAAATCAAAGTAAA
72952743 ATTTT
1 ATTTT
72952748 ATCATTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.19
31 2 0.06
32 16 0.50
33 8 0.25
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAAAATCAAAGTAAA
Found at i:72954378 original size:16 final size:17
Alignment explanation
Indices: 72954348--72954380 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
72954338 CATATAAATT
*
72954348 TTTTTAAATGTTTTAAC
1 TTTTTAAATGCTTTAAC
72954365 TTTTTAAA-GCTTTAAC
1 TTTTTAAATGCTTTAAC
72954381 CCACAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTTTAAATGCTTTAAC
Found at i:72955207 original size:6 final size:6
Alignment explanation
Indices: 72955196--72955220 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
72955186 TTATGATGAT
72955196 TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA T
72955221 CTGAATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:72956329 original size:23 final size:24
Alignment explanation
Indices: 72956298--72956343 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
72956288 TTGCAGATGT
72956298 CACTCTGCATCGAAGTGCCACTAA
1 CACTCTGCATCGAAGTGCCACTAA
*
72956322 CACT-TGCATCGTAGTGCCACTA
1 CACTCTGCATCGAAGTGCCACTA
72956344 TCATTTGCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (24 bp):
CACTCTGCATCGAAGTGCCACTAA
Found at i:72957367 original size:18 final size:21
Alignment explanation
Indices: 72957325--72957367 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
72957315 CAAACTGAAA
*
72957325 AAATGATATACTTTAAGAGCT
1 AAATGATATACTTTAAGACCT
72957346 AAATGAT-T-CTTTAAG-CCT
1 AAATGATATACTTTAAGACCT
72957364 AAAT
1 AAAT
72957368 AAAGCAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 1 0.05
21 7 0.33
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
AAATGATATACTTTAAGACCT
Found at i:72959526 original size:30 final size:27
Alignment explanation
Indices: 72959492--72959549 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 27
72959482 AAAATTATGG
72959492 AAGTACTATAAAATTAGATATATTTAATTT
1 AAGTACTATAAAATT---TATATTTAATTT
* *
72959522 AAGTAGTTTAAAATTTATATTTAATTT
1 AAGTACTATAAAATTTATATTTAATTT
72959549 A
1 A
72959550 TTTATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 13 0.50
30 13 0.50
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (27 bp):
AAGTACTATAAAATTTATATTTAATTT
Found at i:72965687 original size:16 final size:17
Alignment explanation
Indices: 72965661--72965700 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
72965651 TATTTAGTGT
72965661 ATTATATTTT-AAGAAAA
1 ATTA-ATTTTAAAGAAAA
*
72965678 ATTAATTTTAAATAAAA
1 ATTAATTTTAAAGAAAA
72965695 ATTAAT
1 ATTAAT
72965701 CTAAAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTAATTTTAAAGAAAA
Found at i:72972765 original size:21 final size:21
Alignment explanation
Indices: 72972711--72972765 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
72972701 TTGAAAAACA
72972711 TTTAAAAATA-TTATTATATT
1 TTTAAAAATATTTATTATATT
** * * *
72972731 AATAAGAATTTTTATTTTATT
1 TTTAAAAATATTTATTATATT
72972752 TTTAAAAATATTTA
1 TTTAAAAATATTTA
72972766 AAATTATTAA
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTAAAAATATTTATTATATT
Found at i:72972892 original size:16 final size:16
Alignment explanation
Indices: 72972870--72972906 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
72972860 CAATTTTATT
72972870 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
72972887 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
72972902 TAATA
1 TAATA
72972907 TTCATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:72987582 original size:24 final size:25
Alignment explanation
Indices: 72987555--72987603 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
72987545 CTTTTTTTAT
*
72987555 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
72987579 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
72987604 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:72987596 original size:25 final size:23
Alignment explanation
Indices: 72987567--72987631 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
72987557 AATAAAAAAC
*
72987567 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
72987592 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
72987613 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
72987632 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:72987630 original size:19 final size:20
Alignment explanation
Indices: 72987593--72987631 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
72987583 TCAAATACAT
72987593 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
72987613 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
72987632 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:72987877 original size:5 final size:5
Alignment explanation
Indices: 72987869--72987900 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
72987859 ATATTAAAAT
72987869 CGGGC CGGGC CGGGC CGGGC CGGGCC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGG-C CGGGC C
72987901 AAAAAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.44, G:0.56, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:72996765 original size:42 final size:42
Alignment explanation
Indices: 72996703--72996794 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
72996693 TAGATACCCG
*
72996703 CCACCACCAAATCAAGATCCATATCCACCTACGTCGTATCAA
1 CCACCACCAAATCAACATCCATATCCACCTACGTCGTATCAA
* * * *
72996745 CCGCCACCAAATCAACATCCATATCCATCTATGTTGTATCAA
1 CCACCACCAAATCAACATCCATATCCACCTACGTCGTATCAA
72996787 CCACCACC
1 CCACCACC
72996795 TCAATACGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.39, G:0.07, T:0.21
Consensus pattern (42 bp):
CCACCACCAAATCAACATCCATATCCACCTACGTCGTATCAA
Found at i:73001274 original size:24 final size:24
Alignment explanation
Indices: 73001247--73001308 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
73001237 TAGTTTGTAC
*
73001247 ATTATTCATATATTTTTAAAA-AAT
1 ATTATTCA-AGATTTTTAAAATAAT
*
73001271 ATTATTC-AGGTTTTTAAAATAAT
1 ATTATTCAAGATTTTTAAAATAAT
73001294 ATTATTCAAG-TTTTT
1 ATTATTCAAGATTTTT
73001309 CATTGCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 10 0.29
23 15 0.44
24 9 0.26
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (24 bp):
ATTATTCAAGATTTTTAAAATAAT
Found at i:73001294 original size:23 final size:22
Alignment explanation
Indices: 73001259--73001308 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
73001249 TATTCATATA
*
73001259 TTTTTAAAAAATATTATTCAGG
1 TTTTTAAAAAATATTATTCAAG
73001281 TTTTTAAAATAATATTATTCAAG
1 TTTTTAAAA-AATATTATTCAAG
73001304 TTTTT
1 TTTTT
73001309 CATTGCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (22 bp):
TTTTTAAAAAATATTATTCAAG
Found at i:73004256 original size:28 final size:28
Alignment explanation
Indices: 73004216--73004274 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
73004206 CTATTTCAGA
73004216 CAAATACGTGTAACAATTCATAAATATG
1 CAAATACGTGTAACAATTCATAAATATG
*
73004244 CAAATACTTGTAACAATTCATAAATATG
1 CAAATACGTGTAACAATTCATAAATATG
73004272 CAA
1 CAA
73004275 TTCACTAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.29
Consensus pattern (28 bp):
CAAATACGTGTAACAATTCATAAATATG
Found at i:73004938 original size:31 final size:31
Alignment explanation
Indices: 73004903--73004972 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
73004893 CTTGTCATTT
73004903 GTAGCCGAAGCTACCACTATTCACTAATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * * * *
73004934 GTAGCCGGAGCTACCATTTTTCATTGATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
73004965 GTAGCCGA
1 GTAGCCGA
73004973 TGATCAGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:73004978 original size:15 final size:15
Alignment explanation
Indices: 73004958--73004987 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73004948 CATTTTTCAT
73004958 TGATCAAGTAGCCGA
1 TGATCAAGTAGCCGA
*
73004973 TGATCAGGTAGCCGA
1 TGATCAAGTAGCCGA
73004988 AGCTACCACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (15 bp):
TGATCAAGTAGCCGA
Found at i:73004992 original size:46 final size:46
Alignment explanation
Indices: 73004929--73005018 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
73004919 CTATTCACTA
* * * *
73004929 ATCAAGTAGCCGGAGCTACCATTTTTCATTGATCAAGTAGCCGATG
1 ATCAAGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAACCGATG
*
73004975 ATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAACCGA
1 ATCAAGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAACCGA
73005019 AGCTACCGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (46 bp):
ATCAAGTAGCCGAAGCTACCACTTTTCACTGATCAAGTAACCGATG
Found at i:73005019 original size:31 final size:31
Alignment explanation
Indices: 73004973--73005031 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
73004963 AAGTAGCCGA
* *
73004973 TGATCAGGTAGCCGAAGCTACCACTTTTCAC
1 TGATCAAGTAACCGAAGCTACCACTTTTCAC
*
73005004 TGATCAAGTAACCGAAGCTACCGCTTTT
1 TGATCAAGTAACCGAAGCTACCACTTTT
73005032 TACTTGTCAT
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:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
TGATCAAGTAACCGAAGCTACCACTTTTCAC
Found at i:73005096 original size:50 final size:50
Alignment explanation
Indices: 73005033--73005187 Score: 265
Period size: 50 Copynumber: 3.1 Consensus size: 50
73005023 ACCGCTTTTT
73005033 ACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATC
1 ACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATC
*
73005084 ACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATC
1 ACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATC
* * *
73005134 ACTTTCACTTATCCTTGATCAGATAAGTGTAGCCAAAACTATCACTTATC
1 ACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATC
73005184 ACTT
1 ACTT
73005188 GTTGCCATGG
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 95 0.96
51 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (50 bp):
ACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATC
Found at i:73008414 original size:21 final size:20
Alignment explanation
Indices: 73008385--73008423 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
73008375 CAATATAAAT
*
73008385 AATAATTTTTTTTATTTTAAC
1 AATAA-TTTTTATATTTTAAC
*
73008406 AATACTTTTTATATTTTA
1 AATAATTTTTATATTTTA
73008424 TTAATTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
AATAATTTTTATATTTTAAC
Found at i:73011572 original size:92 final size:92
Alignment explanation
Indices: 73011422--73011601 Score: 263
Period size: 92 Copynumber: 2.0 Consensus size: 92
73011412 AAGTATTTTT
* * * * *
73011422 AAGTTTCATAAGACCTCAAGAATGTACGGGAAAATAGCACCGTGCTAAATGTTTGGGACTTATGA
1 AAGTTGCATAAGACCTCAAGAATGTACGGGAAAATAACACCATACTAAATGTATGGGACTTATGA
73011487 AA-CATTCATTTACAAGCATATATTTGC
66 AATC-TTCATTTACAAGCATATATTTGC
* **
73011514 AAGTTGCATAAGACCTCAAGAATGTATGGGAAAATAACATTATACTAAATGTATGGGACTTATGA
1 AAGTTGCATAAGACCTCAAGAATGTACGGGAAAATAACACCATACTAAATGTATGGGACTTATGA
*
73011579 AATCTTCATTTACACGCATATAT
66 AATCTTCATTTACAAGCATATAT
73011602 AGAAGCAAGC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 77 0.99
93 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (92 bp):
AAGTTGCATAAGACCTCAAGAATGTACGGGAAAATAACACCATACTAAATGTATGGGACTTATGA
AATCTTCATTTACAAGCATATATTTGC
Found at i:73011803 original size:159 final size:159
Alignment explanation
Indices: 73011507--73011810 Score: 416
Period size: 159 Copynumber: 1.9 Consensus size: 159
73011497 TACAAGCATA
*
73011507 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAATAACATTATACTAAATGTATGGGA
1 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATGGGA
* * * * * * * * * *
73011572 CTTATGAAATCTTCATTTACACGCATATATAGAAGCAAGCATGCATGCATGCATGTATACATACA
66 CCTATGAAACCTTCATTTACACACACACACAGAACCAAGCATGCAAGCATGCATGCATACACACA
73011637 TACATACATATGTATTTATGTATGTACAAG
131 TA-ATACATATGTATTTATGTATGTACAAG
*
73011667 TATTTGCAAGTTGCATAAGACCTCAAGAATGTAT-GGAAAACAACATTATACTAAATGTATTGGA
1 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATGGGA
* * *
73011731 CCTATGAAGCCTTCATTTACATACACACACAGACATCCATA-CATGCAAGCATGCATGCATTCAC
66 CCTATGAAACCTTCATTTACACACACACACAGA-A-CCA-AGCATGCAAGCATGCATGCATACAC
73011795 ACAT-ATACATATGTAT
128 ACATAATACATATGTAT
73011811 GTACGTATAT
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
159 65 0.52
160 35 0.28
161 25 0.20
162 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (159 bp):
TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGGAAAACAACATTATACTAAATGTATGGGA
CCTATGAAACCTTCATTTACACACACACACAGAACCAAGCATGCAAGCATGCATGCATACACACA
TAATACATATGTATTTATGTATGTACAAG
Found at i:73011974 original size:94 final size:94
Alignment explanation
Indices: 73011852--73012038 Score: 270
Period size: 94 Copynumber: 2.0 Consensus size: 94
73011842 TATCTAGAAG
* * *
73011852 TATTTGTAAGTTGCATAAGACCTCAAGAATGTATGGGAA-AACAGCATTATACTGAATGTATTG-
1 TATTTGCAAGTTGCATAAGACCTCAAGAATGTAT-GGAACAACAACATTATACTAAATGTA-TGA
*
73011915 GACCTATGAAACCTTCAATTACATACATACA
64 GACCTATGAAACCTGCAATTACATACATACA
*
73011946 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGAACAACAACATTATGCTAAATGTATGAGA
1 TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGAACAACAACATTATACTAAATGTATGAGA
* * *
73012011 TCTATGGAACCTGCATTTACATACATAC
66 CCTATGAAACCTGCAATTACATACATAC
73012039 TTACATATGT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
93 6 0.07
94 77 0.93
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (94 bp):
TATTTGCAAGTTGCATAAGACCTCAAGAATGTATGGAACAACAACATTATACTAAATGTATGAGA
CCTATGAAACCTGCAATTACATACATACA
Found at i:73014604 original size:18 final size:18
Alignment explanation
Indices: 73014581--73014622 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
73014571 AACTCAAAAT
73014581 AAAAAATAAAAAAAAAGA
1 AAAAAATAAAAAAAAAGA
* *
73014599 AAAAAATGAAGAAAAAGA
1 AAAAAATAAAAAAAAAGA
73014617 AAAAAA
1 AAAAAA
73014623 CCTAACCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAAATAAAAAAAAAGA
Found at i:73017475 original size:27 final size:27
Alignment explanation
Indices: 73017445--73017498 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
73017435 AATCAACACA
73017445 ATGTATAAACATTAAAAATTAAAATTG
1 ATGTATAAACATTAAAAATTAAAATTG
73017472 ATGTATAAACATTAAAAATTAAAATTG
1 ATGTATAAACATTAAAAATTAAAATTG
73017499 TTATTATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (27 bp):
ATGTATAAACATTAAAAATTAAAATTG
Found at i:73021739 original size:25 final size:25
Alignment explanation
Indices: 73021692--73021739 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
73021682 TAGTCCCTAA
*
73021692 ACTTGAGAATGATTCCCATATTAAG
1 ACTTGAGAATGATTCCCACATTAAG
* * *
73021717 ACTTGATAATTATTCTCACATTA
1 ACTTGAGAATGATTCCCACATTA
73021740 GAGCTAGATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (25 bp):
ACTTGAGAATGATTCCCACATTAAG
Found at i:73025276 original size:19 final size:19
Alignment explanation
Indices: 73025231--73025282 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
73025221 GCAATCTCCA
*
73025231 TATATATAA-AAGT-GTTT
1 TATATATAATATGTAGTTT
73025248 TATATATAATATGTAGTTT
1 TATATATAATATGTAGTTT
73025267 TATATATAATATGTAG
1 TATATATAATATGTAG
73025283 CTGCAGTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 9 0.28
18 3 0.09
19 20 0.62
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (19 bp):
TATATATAATATGTAGTTT
Found at i:73029477 original size:31 final size:30
Alignment explanation
Indices: 73029415--73029508 Score: 75
Period size: 29 Copynumber: 3.1 Consensus size: 30
73029405 AGTTCTTCTC
* * * * * *
73029415 ATATTATTTTTTAATTTTTTTAAAATATTT
1 ATATCATTTTTTTATATATTTAAATTTTTT
*
73029445 ATATTATTTTATTT-TAATATTTAAATTTTTT
1 ATATCATTTT-TTTAT-ATATTTAAATTTTTT
* *
73029476 ATA-CATTTTTTTATTTATTGAAATTTTTT
1 ATATCATTTTTTTATATATTTAAATTTTTT
73029505 ATAT
1 ATAT
73029509 AGTCATCTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
29 19 0.37
30 17 0.33
31 16 0.31
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (30 bp):
ATATCATTTTTTTATATATTTAAATTTTTT
Found at i:73030286 original size:33 final size:32
Alignment explanation
Indices: 73030243--73030307 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
73030233 ACTAAATATC
* *
73030243 TTCGACTTAAATTGAACTTCAAATTTCAAAATG
1 TTCGAATTAAATTG-ACTTCAAACTTCAAAATG
*
73030276 TTCGAATTAAATTGACTTTAAACTTCAAAATG
1 TTCGAATTAAATTGACTTCAAACTTCAAAATG
73030308 GTTTAATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (32 bp):
TTCGAATTAAATTGACTTCAAACTTCAAAATG
Found at i:73032976 original size:3 final size:3
Alignment explanation
Indices: 73032968--73033341 Score: 193
Period size: 3 Copynumber: 127.7 Consensus size: 3
73032958 TTTTAGCTAC
* * * * *
73032968 ATT ATT ATT A-A ATT AATT AATT -TT ACT ATC ATT ATT ATT CTT ACT
1 ATT ATT ATT ATT ATT -ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * *
73033013 ATT ATT ATT ATT ATT ACA ACT ATT ATT ATT ATG ATT A-T ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
73033059 TTT A-T ACTT ATT -TG CTT ATT ATT ACT ATT A-C ATT ATT A-T ATC
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
73033101 ATT AATT -TT A-T ATT ATT ACT ATT ATT ATT ATT ATT ATA ATT ATT
1 ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
73033145 ACT ATT ATT A-T GTT GTT GTT TTT CTCT GTT -TT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * * * * **
73033189 ATT ACT ATT ATT TTT ATT TTT ATT TTT ATT ACT ATT ACC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
73033237 ATT ACT ACT ATT ATT ATT ATT TTT ACT ATT ATT ATT TTT CCTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
* * * * *
73033283 ATT ATA ATA ATT GTT ATT ACT ATT ATT -TT -TT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
73033329 GTC ATT -TT ATT AT
1 ATT ATT ATT ATT AT
73033342 ATTTTTTATT
Statistics
Matches: 280, Mismatches: 72, Indels: 38
0.72 0.18 0.10
Matches are distributed among these distances:
2 26 0.09
3 238 0.85
4 16 0.06
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:73033320 original size:34 final size:34
Alignment explanation
Indices: 73033282--73033347 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
73033272 TTTTCCTTAT
*
73033282 TATTATAATAATTGTTATTACTATTAT-TTTTTAC
1 TATTATAATAATTGTCATT-CTATTATATTTTTAC
* * *
73033316 TATTATTATTATTGTCATTTTATTATATTTTT
1 TATTATAATAATTGTCATTCTATTATATTTTT
73033348 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 6 0.22
34 21 0.78
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (34 bp):
TATTATAATAATTGTCATTCTATTATATTTTTAC
Found at i:73033400 original size:12 final size:12
Alignment explanation
Indices: 73033334--73033400 Score: 59
Period size: 12 Copynumber: 5.7 Consensus size: 12
73033324 TTATTGTCAT
73033334 TTTATTATATTT-
1 TTTATT-TATTTA
73033346 TTTATTT-TTTA
1 TTTATTTATTTA
*
73033357 TTTACTTATTTA
1 TTTATTTATTTA
**
73033369 TTTGCTTATTTCA
1 TTTATTTATTT-A
73033382 TTT-TTTATTTA
1 TTTATTTATTTA
*
73033393 TTTGTTTA
1 TTTATTTA
73033401 AACTTTTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
10 3 0.06
11 11 0.23
12 30 0.62
13 4 0.08
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTATTTATTTA
Found at i:73035890 original size:52 final size:52
Alignment explanation
Indices: 73035819--73036170 Score: 467
Period size: 52 Copynumber: 7.0 Consensus size: 52
73035809 ATCAAGTGAC
* **
73035819 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
73035871 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
73035923 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* **
73035969 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
73036021 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
73036067 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
** *
73036119 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA-AGTG
73036171 ATAAGTGGCT
Statistics
Matches: 267, Mismatches: 20, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
46 85 0.32
52 178 0.67
53 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:73035941 original size:98 final size:98
Alignment explanation
Indices: 73035871--73036177 Score: 429
Period size: 98 Copynumber: 3.1 Consensus size: 98
73035861 TGACAAGTGG
* *
73035871 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
73035936 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* **
73035969 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
73036034 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* *
73036067 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
73036132 ATAGCTTTA-G-CTACACTTATCTGATCAAGAGAC
66 ATAGC--TACGACTATACTGATCTGATCAAGTGAC
*
73036165 AGAGTGATAAGTG
1 AAAGTGATAAGTG
73036178 GCTACACTTA
Statistics
Matches: 193, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
98 191 0.99
99 1 0.01
100 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:73036025 original size:150 final size:144
Alignment explanation
Indices: 73035805--73036170 Score: 579
Period size: 150 Copynumber: 2.5 Consensus size: 144
73035795 TTTGAGTACT
73035805 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
73035870 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
*
73035935 AATAGCTTCGGCTATACTTA
125 AATAGCTTCGGCTACACTTA
73035955 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
73036020 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
73036085 TTCGGCTACACTTA
131 TTCGGCTACACTTA
* *
73036099 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
73036164 CAGAGTG
60 CA-AGTG
73036171 ATAAGTGGCT
Statistics
Matches: 205, Mismatches: 4, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
144 44 0.21
150 157 0.77
151 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
TTCGGCTACACTTA
Found at i:73036184 original size:37 final size:37
Alignment explanation
Indices: 73036141--73036323 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
73036131 GATAGCTTTA
* *
73036141 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
73036178 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
73036215 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
73036252 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
73036289 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
73036324 ATCATACGTA
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 125 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:73042196 original size:48 final size:48
Alignment explanation
Indices: 73042125--73042230 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
73042115 CAAGATAAAT
* * *
73042125 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
73042173 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
73042221 ATGTGTATAT
1 ATATGTATAT
73042231 ATTGTGGCTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:73042414 original size:37 final size:37
Alignment explanation
Indices: 73042364--73042435 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
73042354 GAAATATATT
*
73042364 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
73042401 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
73042436 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:73046034 original size:54 final size:54
Alignment explanation
Indices: 73045954--73046056 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
73045944 TACTTCACCT
* * *
73045954 AAAAAAGGGAGAGGCCAATGTGAAAACCCACAAAGGACGTTTTGAGACCTTCAA
1 AAAAAAGGGAAAGGCCAATGTAAAAACCCACAAAGGACGCTTTGAGACCTTCAA
* * *
73046008 AAAAAATGGAAAGGCCAA-GTCAAAAACCCGCAAAGGGCGCTTTGAGACC
1 AAAAAAGGGAAAGGCCAATGT-AAAAACCCACAAAGGACGCTTTGAGACC
73046057 AAAGGGGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.05
54 40 0.95
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (54 bp):
AAAAAAGGGAAAGGCCAATGTAAAAACCCACAAAGGACGCTTTGAGACCTTCAA
Found at i:73046859 original size:44 final size:43
Alignment explanation
Indices: 73046810--73047017 Score: 170
Period size: 44 Copynumber: 4.8 Consensus size: 43
73046800 GTAAATTCAC
*
73046810 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGACTGAAAATTGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TGAAAATTGT
* * * *
73046854 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT-GAAAATTGT
* * * ** *
73046898 AAATCTTATCTTCCTAAGCATTAGTGGAGCAGAT-TTAA--GCC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAATTG-T
* * * * * *
73046939 ACCATCCTATCTCCCTAAGCAGTAGTGAAGTAGGCTGAAGATTGT
1 A-GATCTTATCTCCCTAAGCAGTAGTGGAGCA-GATGAAAATTGT
* **
73046984 AGATCTTATCTCCCTGAGCAACAGTGGAGCAGAT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
73047018 CGAAGATGGC
Statistics
Matches: 125, Mismatches: 32, Indels: 15
0.73 0.19 0.09
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 25 0.20
43 5 0.04
44 91 0.73
45 1 0.01
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAATTGT
Found at i:73047080 original size:44 final size:44
Alignment explanation
Indices: 73047032--73047176 Score: 184
Period size: 44 Copynumber: 3.3 Consensus size: 44
73047022 GATGGCGAAT
* * **
73047032 CTTATATCCCT-ATGGTAGCAAGGGAGAAGATTTTAGCCACTAGC
1 CTTATCTCCCTGA-GGTAGCAAGGGAGAAGACTGAAGCCACTAGC
* * *
73047076 CTTATCTCCCTGAGGTAGCAAGGAAGCATACTGAAGCCACTAGC
1 CTTATCTCCCTGAGGTAGCAAGGGAGAAGACTGAAGCCACTAGC
* *
73047120 CTTATCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGCCACTAGC
1 CTTATCTCCCTGAGGTAGCAAGGGAGAAGACTGAAGCCACTAGC
*
73047164 CTTGTCTCCCTGA
1 CTTATCTCCCTGA
73047177 ACAGTAGTGG
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 88 0.99
45 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (44 bp):
CTTATCTCCCTGAGGTAGCAAGGGAGAAGACTGAAGCCACTAGC
Found at i:73048488 original size:18 final size:18
Alignment explanation
Indices: 73048467--73048501 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
73048457 TTAATTAATT
*
73048467 TTGCTATCATTATTATTC
1 TTGCTATCAATATTATTC
*
73048485 TTGCTATTAATATTATT
1 TTGCTATCAATATTATT
73048502 ACTACAACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (18 bp):
TTGCTATCAATATTATTC
Found at i:73048562 original size:3 final size:3
Alignment explanation
Indices: 73048554--73048684 Score: 54
Period size: 3 Copynumber: 43.0 Consensus size: 3
73048544 ACTTATTTGC
* * **
73048554 TTA TTA TTA CTA TTA -CA TTA TTA -TA TCG TTAA TT- TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* * * ** * *
73048596 TTA CTA TTA TAA TAA TTA TTA TTA TTA CAA TTA TTA TTA TGCTG TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA
* * *
73048643 TTC TCTGA TTTA TTA CTA TTA TTA TTA TTA TTA TCA TTA TTA
1 TTA T-T-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
73048685 CTGTAACACC
Statistics
Matches: 94, Mismatches: 24, Indels: 20
0.68 0.17 0.14
Matches are distributed among these distances:
2 7 0.07
3 79 0.84
4 4 0.04
5 3 0.03
6 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:73048635 original size:18 final size:18
Alignment explanation
Indices: 73048591--73048635 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
73048581 GTTAATTTTA
* *
73048591 TATTATTACTATTATAAT
1 TATTATTATTATTACAAT
*
73048609 AATTATTATTATTACAAT
1 TATTATTATTATTACAAT
73048627 TATTATTAT
1 TATTATTAT
73048636 GCTGTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTATTATTATTACAAT
Found at i:73059944 original size:15 final size:16
Alignment explanation
Indices: 73059924--73059963 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
73059914 CTCCTCAGGC
73059924 CAAAAACAAAAC-AAA
1 CAAAAACAAAACTAAA
*
73059939 CAAAAATAAAACTAAA
1 CAAAAACAAAACTAAA
*
73059955 CCAAAACAA
1 CAAAAACAA
73059964 GAGAAAGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.75, C:0.20, G:0.00, T:0.05
Consensus pattern (16 bp):
CAAAAACAAAACTAAA
Found at i:73066106 original size:21 final size:22
Alignment explanation
Indices: 73066072--73066112 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
73066062 CATGTACTTC
73066072 ATTTTGACATAATTTCATCCTT
1 ATTTTGACATAATTTCATCCTT
*
73066094 ATTTTGA-ATAATTTGATCC
1 ATTTTGACATAATTTCATCC
73066113 ATGTCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTTGACATAATTTCATCCTT
Found at i:73068078 original size:33 final size:34
Alignment explanation
Indices: 73068039--73068104 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
73068029 TAAATTTAAT
* *
73068039 TTTTTATGAGAGCTAAAAT-ACAA-TTTATCATTG
1 TTTTTATAAGAACT-AAATCACAATTTTATCATTG
73068072 TTTTTATAAGAACTAAATCACAATTTTATCATT
1 TTTTTATAAGAACTAAATCACAATTTTATCATT
73068105 CTTGAGGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 4 0.14
33 16 0.55
34 9 0.31
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.44
Consensus pattern (34 bp):
TTTTTATAAGAACTAAATCACAATTTTATCATTG
Found at i:73069953 original size:2 final size:2
Alignment explanation
Indices: 73069948--73069984 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
73069938 AACAGAGCAA
*
73069948 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
73069985 AGAAGAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:73071842 original size:16 final size:16
Alignment explanation
Indices: 73071817--73071850 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
73071807 ATAATTCATT
73071817 AATTAAAAAGG-ACAA
1 AATTAAAAAGGTACAA
73071832 AATTGAAAAAGGTACAA
1 AATT-AAAAAGGTACAA
73071849 AA
1 AA
73071851 CTTGCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 7 0.41
17 6 0.35
ACGTcount: A:0.65, C:0.06, G:0.15, T:0.15
Consensus pattern (16 bp):
AATTAAAAAGGTACAA
Found at i:73072468 original size:21 final size:21
Alignment explanation
Indices: 73072442--73072591 Score: 113
Period size: 21 Copynumber: 7.1 Consensus size: 21
73072432 CGTGTTTACT
*
73072442 TTCTGTTTAGCTCTCACGAGC
1 TTCTGTTTAGCTCTTACGAGC
* * * *
73072463 TTCTGTTTAACCCTTATGAGT
1 TTCTGTTTAGCTCTTACGAGC
*
73072484 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
* * * *
73072505 TTCTGTTTAACCCTTATG-GG
1 TTCTGTTTAGCTCTTACGAGC
* *
73072525 TTCCTATTAAGCTCTTACGAGC
1 TT-CTGTTTAGCTCTTACGAGC
* * * * *
73072547 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAGCTCTTACGAGC
* *
73072568 TTCTGTTTAGCTTTTACAAGC
1 TTCTGTTTAGCTCTTACGAGC
73072589 TTC
1 TTC
73072592 CATTCAACCC
Statistics
Matches: 92, Mismatches: 35, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
20 3 0.03
21 86 0.93
22 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTACGAGC
Found at i:73072503 original size:42 final size:42
Alignment explanation
Indices: 73072441--73072618 Score: 257
Period size: 42 Copynumber: 4.2 Consensus size: 42
73072431 TCGTGTTTAC
* *
73072441 TTTCTGTTTAGCTCTCACGAGCTTCTGTTTAACCCTTATGAG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGG
*
73072483 TTTCTGTTCAGCTCTTACGAGCTTCTGTTTAACCCTTATGGG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGG
* * *
73072525 TTCCTATTAAGCTCTTACGAGCTTCTGTTTAACCCTTATGGG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGG
* * ** *
73072567 TTTCTGTTTAGCTTTTACAAGCTTCCATTCAACCCTTATGGG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGG
73072609 TTTCTGTTTA
1 TTTCTGTTTA
73072619 CCATTTATGT
Statistics
Matches: 122, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 122 1.00
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACCCTTATGGG
Found at i:73074247 original size:18 final size:18
Alignment explanation
Indices: 73074215--73074266 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
73074205 CTGAGACGAG
73074215 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
*
73074231 AATAAATTTAATTAATTG
1 AATAAATTTAATTAATTA
*
73074249 AA-AATTTTAAATTAATTA
1 AATAAATTT-AATTAATTA
73074267 CACCTTGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.30
17 5 0.17
18 16 0.53
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:73077739 original size:15 final size:16
Alignment explanation
Indices: 73077714--73077747 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
73077704 GAAATGTAAT
73077714 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
73077730 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
73077745 TTT
1 TTT
73077748 TTTTAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:73077833 original size:16 final size:15
Alignment explanation
Indices: 73077812--73077855 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
73077802 TTCATATACT
73077812 AATTTAAAATTTTATA
1 AATTTAAAATTTTA-A
*
73077828 AATTTAAAAATGTTAA
1 AATTT-AAAATTTTAA
73077844 AATTT-AAATTTT
1 AATTTAAAATTTT
73077856 TTATTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 6 0.24
16 11 0.44
17 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AATTTAAAATTTTAA
Found at i:73078660 original size:3 final size:3
Alignment explanation
Indices: 73078652--73078700 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
73078642 TATGCTGCCA
* * * * *
73078652 ATT ATT ATT ATT ATT ATT ATT ATC ATC ATC ATC ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
73078700 A
1 A
73078701 AATTTTCATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:73078772 original size:6 final size:6
Alignment explanation
Indices: 73078761--73078812 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
73078751 GTGAAAAATT
* *
73078761 GAAACA GAAACA GAAACA GAAACA GAAACA GAAACA GACACA GAAATA
1 GAAACA GAAACA GAAACA GAAACA GAAACA GAAACA GAAACA GAAACA
73078809 GAAA
1 GAAA
73078813 ATGAAACGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.65, C:0.15, G:0.17, T:0.02
Consensus pattern (6 bp):
GAAACA
Found at i:73079243 original size:22 final size:22
Alignment explanation
Indices: 73079204--73079265 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
73079194 AGTAGGCACT
* * *
73079204 GAAGTGCTAAGCAATAGGAAAC
1 GAAGTGCAAATCAGTAGGAAAC
* *
73079226 GAAGTGCAAATCAGTAGGCACC
1 GAAGTGCAAATCAGTAGGAAAC
73079248 GTAA-TGCAAATCAGTAGG
1 G-AAGTGCAAATCAGTAGG
73079266 CATTGTACTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.16
Consensus pattern (22 bp):
GAAGTGCAAATCAGTAGGAAAC
Found at i:73080163 original size:3 final size:3
Alignment explanation
Indices: 73080155--73080182 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
73080145 ATGTTTTAAC
73080155 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
73080183 TTAACATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:73085931 original size:20 final size:20
Alignment explanation
Indices: 73085906--73085961 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
73085896 CTTGAAGAAT
*
73085906 TAAAATGATTAAAATAAAAA
1 TAAAATGAATAAAATAAAAA
* *
73085926 TAAAAT-AATAAACTAAAAC
1 TAAAATGAATAAAATAAAAA
73085945 T-AAATAGAATAAAATAA
1 TAAAAT-GAATAAAATAA
73085962 GTAGAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.13
19 11 0.37
20 15 0.50
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (20 bp):
TAAAATGAATAAAATAAAAA
Found at i:73099026 original size:21 final size:21
Alignment explanation
Indices: 73098993--73099043 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
73098983 TAGGAATGAA
**
73098993 AAATATACGCATAAT-AATACT
1 AAATATATACATAATAAATA-T
*
73099014 AAATATATACATACTAAATAT
1 AAATATATACATAATAAATAT
*
73099035 ATATATATA
1 AAATATATA
73099044 GTATAAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATATATACATAATAAATAT
Found at i:73099029 original size:15 final size:15
Alignment explanation
Indices: 73099009--73099037 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
73098999 ACGCATAATA
73099009 ATACTAAATATATAC
1 ATACTAAATATATAC
73099024 ATACTAAATATATA
1 ATACTAAATATATA
73099038 TATATAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
ATACTAAATATATAC
Done.