Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008026.1 Hibiscus syriacus cultivar Beakdansim tig00110502_pilon, 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: 525378
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 4
Found at i:6167 original size:26 final size:26
Alignment explanation
Indices: 6138--6187 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
6128 ACATGCTTCA
6138 TAAAGTGTTTCAAC-ATTTGCTGTTGT
1 TAAAGTGTTTCAACAATTT-CTGTTGT
6164 TAAAGTGTTTCAACAATTTCTGTT
1 TAAAGTGTTTCAACAATTTCTGTT
6188 TTTACTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (26 bp):
TAAAGTGTTTCAACAATTTCTGTTGT
Found at i:9994 original size:26 final size:27
Alignment explanation
Indices: 9935--10001 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
9925 TAAATATAAA
9935 AGATAA-ATAAATAAATTATTACATAT
1 AGATAATATAAATAAATTATTACATAT
* * *
9961 AGAAAATAT-AATAAA-TATTATATCTT
1 AGATAATATAAATAAATTATTACAT-AT
*
9987 AGATAATAAAAATAA
1 AGATAATATAAATAA
10002 TTTACATCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
25 7 0.21
26 19 0.58
27 7 0.21
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (27 bp):
AGATAATATAAATAAATTATTACATAT
Found at i:10369 original size:16 final size:16
Alignment explanation
Indices: 10348--10379 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10338 ATATACATTT
10348 CAGTAATCTTTTATTC
1 CAGTAATCTTTTATTC
10364 CAGTAATCTTTTATTC
1 CAGTAATCTTTTATTC
10380 ATTCAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (16 bp):
CAGTAATCTTTTATTC
Found at i:10485 original size:20 final size:19
Alignment explanation
Indices: 10454--10537 Score: 116
Period size: 20 Copynumber: 4.3 Consensus size: 19
10444 CTAATAATCC
10454 TATTCC-CTGGTAATCTTT
1 TATTCCACTGGTAATCTTT
10472 TATTTCCACTGGTAATCTTT
1 TA-TTCCACTGGTAATCTTT
*
10492 TATTCCAACTGGTAGTCTTT
1 TATTCC-ACTGGTAATCTTT
*
10512 TATTCCAACTGATAATCTTT
1 TATTCC-ACTGGTAATCTTT
10532 TATTCC
1 TATTCC
10538 CACTAATATC
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
18 2 0.03
19 8 0.13
20 50 0.83
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTT
Found at i:25364 original size:66 final size:66
Alignment explanation
Indices: 25250--25376 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
25240 GTCCATAAGG
* * * * *
25250 AATTACCAGTCGGTGCTGAACCTATATAATGAATTACCAACAGCGACTGAACCTTCCAGAGATAG
1 AATTACCAGTCAGTGCAGAACCTATACAAGGAATTACCAACAGCGACTGAACCTTACAGAGATAG
25315 A
66 A
* * **
25316 AATTACCAGTCAGTGCAGAACCTATACAAGGAATTACTAGCATTGACTGAACCTTACAGAG
1 AATTACCAGTCAGTGCAGAACCTATACAAGGAATTACCAACAGCGACTGAACCTTACAGAG
25377 TTTTTATACA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (66 bp):
AATTACCAGTCAGTGCAGAACCTATACAAGGAATTACCAACAGCGACTGAACCTTACAGAGATAG
A
Found at i:26554 original size:285 final size:285
Alignment explanation
Indices: 26044--26620 Score: 1118
Period size: 285 Copynumber: 2.0 Consensus size: 285
26034 TTCGTTAGCG
26044 ATTATAGGCTTATCCAAGTCACTCACTTAACCCTAGGCCATTGAGGGTACTTAGGTCATATAATA
1 ATTATAGGCTTATCCAAGTCACTCACTTAACCCTAGGCCATTGAGGGTACTTAGGTCATATAATA
26109 TAGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTCATATTTGAGGGTATTAGTTATTCTAGGG
66 TAGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTCATATTTGAGGGTATTAGTTATTCTAGGG
*
26174 CTTGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCAG
131 ATTGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCAG
26239 TGATTCCAAGATTCCAATGGATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCC
196 TGATTCCAAGATTCCAATGGATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCC
26304 ATATTGTTTTTTACTCTTTAAGGGT
261 ATATTGTTTTTTACTCTTTAAGGGT
*
26329 ATTATAGGCTTATCCAAGTCACTCACTTAACCCTATGCCATTGAGGGTACTTAGGTCATATAATA
1 ATTATAGGCTTATCCAAGTCACTCACTTAACCCTAGGCCATTGAGGGTACTTAGGTCATATAATA
*
26394 TAGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTTATATTTGAGGGTATTAGTTATTCTAGGG
66 TAGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTCATATTTGAGGGTATTAGTTATTCTAGGG
*
26459 ATTGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCGG
131 ATTGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCAG
26524 TGATTCCAAGATTCCAATGGATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCC
196 TGATTCCAAGATTCCAATGGATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCC
26589 ATATTGTTTTTTACTCTTTAAGGGT
261 ATATTGTTTTTTACTCTTTAAGGGT
26614 ATTATAG
1 ATTATAG
26621 TCATTTCATT
Statistics
Matches: 288, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
285 288 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (285 bp):
ATTATAGGCTTATCCAAGTCACTCACTTAACCCTAGGCCATTGAGGGTACTTAGGTCATATAATA
TAGTCATTTTGGTATTCGAGGTTGATTTGTTCATTTCATATTTGAGGGTATTAGTTATTCTAGGG
ATTGGATGTGCTTCAAATCATATTGTAATTCAAGGGCATTCCAAATAAATCAGAAGTTTAATCAG
TGATTCCAAGATTCCAATGGATCATGATATAAGTTCTCAGGTCATCTCCATTATTATAGTCATCC
ATATTGTTTTTTACTCTTTAAGGGT
Found at i:37934 original size:24 final size:24
Alignment explanation
Indices: 37907--38017 Score: 152
Period size: 24 Copynumber: 4.6 Consensus size: 24
37897 ATTTGAATTC
37907 TGATCTGATACTTGACATGGATTT
1 TGATCTGATACTTGACATGGATTT
* *
37931 TGATATGATA-TCTGACATGGATTC
1 TGATCTGATACT-TGACATGGATTT
* *
37955 TGATCTGATACTTGACTTGGATTA
1 TGATCTGATACTTGACATGGATTT
*
37979 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACATGGATTT
*
38003 TGATATGATACTTGA
1 TGATCTGATACTTGA
38018 TGTGAATTAC
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 75 0.97
25 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTT
Found at i:42505 original size:24 final size:24
Alignment explanation
Indices: 42478--42592 Score: 169
Period size: 24 Copynumber: 4.8 Consensus size: 24
42468 TTCGATTTGA
42478 ATTCTGATATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
42502 ATTCTGATATGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
* * *
42526 ATTCTGATCTGATACTTAACTTGG
1 ATTCTGATATGATACTTGACATGG
*
42550 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
42574 ATTTTGATATGATACTTGA
1 ATTCTGATATGATACTTGA
42593 TGTGAATTAC
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 80 0.98
25 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:42531 original size:12 final size:12
Alignment explanation
Indices: 42494--42532 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
42484 ATATGATACT
42494 TGACATGGATTC
1 TGACATGGATTC
*
42506 TGATAT-GATATC
1 TGACATGGAT-TC
42518 TGACATGGATTC
1 TGACATGGATTC
42530 TGA
1 TGA
42533 TCTGATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:44391 original size:15 final size:14
Alignment explanation
Indices: 44359--44391 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
44349 AAGGCATTAC
44359 CATTATTTTCTTTT
1 CATTATTTTCTTTT
44373 -ATTATATTTCTTTT
1 CATTAT-TTTCTTTT
44387 CATTA
1 CATTA
44392 AATAAGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.29
14 8 0.47
15 4 0.24
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (14 bp):
CATTATTTTCTTTT
Found at i:45408 original size:21 final size:20
Alignment explanation
Indices: 45384--45429 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
45374 TATAACTCTT
45384 TTAATGGA-TATTTAATTTGAA
1 TTAATGGATTA-TTAATTT-AA
*
45405 TTAATTGATTATTAATTTAA
1 TTAATGGATTATTAATTTAA
45425 TTAAT
1 TTAAT
45430 TCAAAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 14 0.61
22 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (20 bp):
TTAATGGATTATTAATTTAA
Found at i:52383 original size:18 final size:18
Alignment explanation
Indices: 52340--52384 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
52330 TACAACATTC
* * *
52340 CCAATAAACTTATTCCCT
1 CCAATAATCCTATTCCCG
52358 CCAATAATCCTATTCCCG
1 CCAATAATCCTATTCCCG
*
52376 CCAGTAATC
1 CCAATAATC
52385 TTACATTCAC
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:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (18 bp):
CCAATAATCCTATTCCCG
Found at i:52980 original size:45 final size:46
Alignment explanation
Indices: 52890--52996 Score: 207
Period size: 45 Copynumber: 2.3 Consensus size: 46
52880 ATTACATTTG
52890 TACAACAAATAATATATATTTTGCATTCTTGGTACATTTTTCTTTA
1 TACAACAAATAATATATATTTTGCATTCTTGGTACATTTTTCTTTA
52936 TACAACAAATAATATATATTTTGCA-TCTTGGTACATTTTTCTTTA
1 TACAACAAATAATATATATTTTGCATTCTTGGTACATTTTTCTTTA
52981 TACAACAAATAATATA
1 TACAACAAATAATATA
52997 ATATAATTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 36 0.59
46 25 0.41
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (46 bp):
TACAACAAATAATATATATTTTGCATTCTTGGTACATTTTTCTTTA
Found at i:53319 original size:7 final size:7
Alignment explanation
Indices: 53307--53362 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
53297 TTTTTTTTGA
53307 TAATATT
1 TAATATT
53314 TAATATT
1 TAATATT
53321 TAATATT
1 TAATATT
*
53328 TTATATAT
1 TAATAT-T
* *
53336 TATTAATA
1 TAAT-ATT
53344 TAATA-T
1 TAATATT
*
53350 TAATATA
1 TAATATT
53357 TAATAT
1 TAATAT
53363 AAAATATTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
6 5 0.13
7 26 0.67
8 6 0.15
9 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TAATATT
Found at i:53326 original size:14 final size:14
Alignment explanation
Indices: 53306--53362 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 14
53296 ATTTTTTTTG
53306 ATAATATTTAATAT
1 ATAATATTTAATAT
*
53320 TTAATATTT--TAT
1 ATAATATTTAATAT
*
53332 ATATTA-TT-A-AT
1 ATAATATTTAATAT
53343 ATAATA-TTAATAT
1 ATAATATTTAATAT
53356 ATAATAT
1 ATAATAT
53363 AAAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 11 0.31
12 8 0.23
13 8 0.23
14 8 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATAATATTTAATAT
Found at i:53347 original size:23 final size:23
Alignment explanation
Indices: 53321--53394 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
53311 ATTTAATATT
*
53321 TAATATTTTATATATTATTAATA
1 TAATATTTAATATATTATTAATA
* *
53344 TAATA-TTAATATATAATATAAAA
1 TAATATTTAATATATTAT-TAATA
* *
53367 TATTATATTCATATATTTATTAATA
1 TAATAT-TTAATATA-TTATTAATA
53392 TAA
1 TAA
53395 CACGCATAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 10 0.26
23 13 0.33
25 13 0.33
26 3 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATATTTAATATATTATTAATA
Found at i:53360 original size:18 final size:17
Alignment explanation
Indices: 53306--53392 Score: 59
Period size: 18 Copynumber: 4.8 Consensus size: 17
53296 ATTTTTTTTG
53306 ATAATATTTAATATTTAAT
1 ATAATA-TTAATA-TTAAT
** *
53325 ATTTTATATATTATTAAT
1 ATAATAT-TAATATTAAT
53343 ATAATATTAATATATAAT
1 ATAATATTAATAT-TAAT
*
53361 ATAAAATATT-ATATTCAT
1 AT--AATATTAATATTAAT
*
53379 ATATTTATTAATAT
1 ATA-ATATTAATAT
53393 AACACGCATA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
16 1 0.02
17 9 0.17
18 26 0.48
19 12 0.22
20 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (17 bp):
ATAATATTAATATTAAT
Found at i:53387 original size:12 final size:13
Alignment explanation
Indices: 53336--53393 Score: 61
Period size: 12 Copynumber: 4.8 Consensus size: 13
53326 TTTTATATAT
53336 TATTAATATA--A
1 TATTAATATATTA
*
53347 TATTAATATATAA
1 TATTAATATATTA
*
53360 TA-TAAAATATTA
1 TATTAATATATTA
*
53372 TATTCATATATT-
1 TATTAATATATTA
53384 TATTAATATA
1 TATTAATATA
53394 ACACGCATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 10 0.26
12 19 0.49
13 10 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTAATATATTA
Found at i:56148 original size:214 final size:214
Alignment explanation
Indices: 55779--56206 Score: 856
Period size: 214 Copynumber: 2.0 Consensus size: 214
55769 TTCATTGCTC
55779 GATCAGCTAGTTCATGCAAGCTTTGCTCCATGGCAGACAGCACATTTTTTTGCTTCATTGTAAGA
1 GATCAGCTAGTTCATGCAAGCTTTGCTCCATGGCAGACAGCACATTTTTTTGCTTCATTGTAAGA
55844 GTGGTAGAGGAACAATAAAAGCTAGCTAGGATCTTGAATGCCTTCTTATCACGTAGAGATCTCTT
66 GTGGTAGAGGAACAATAAAAGCTAGCTAGGATCTTGAATGCCTTCTTATCACGTAGAGATCTCTT
55909 GGAAAAACAATAAAAATTAACAGGGGTCATATTCAGGGCTTCCTCTACTTTAGCCAGTGCTTCCT
131 GGAAAAACAATAAAAATTAACAGGGGTCATATTCAGGGCTTCCTCTACTTTAGCCAGTGCTTCCT
55974 TTGCTTCTTCTCGAGAAAA
196 TTGCTTCTTCTCGAGAAAA
55993 GATCAGCTAGTTCATGCAAGCTTTGCTCCATGGCAGACAGCACATTTTTTTGCTTCATTGTAAGA
1 GATCAGCTAGTTCATGCAAGCTTTGCTCCATGGCAGACAGCACATTTTTTTGCTTCATTGTAAGA
56058 GTGGTAGAGGAACAATAAAAGCTAGCTAGGATCTTGAATGCCTTCTTATCACGTAGAGATCTCTT
66 GTGGTAGAGGAACAATAAAAGCTAGCTAGGATCTTGAATGCCTTCTTATCACGTAGAGATCTCTT
56123 GGAAAAACAATAAAAATTAACAGGGGTCATATTCAGGGCTTCCTCTACTTTAGCCAGTGCTTCCT
131 GGAAAAACAATAAAAATTAACAGGGGTCATATTCAGGGCTTCCTCTACTTTAGCCAGTGCTTCCT
56188 TTGCTTCTTCTCGAGAAAA
196 TTGCTTCTTCTCGAGAAAA
56207 AACAGTTCTA
Statistics
Matches: 214, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 214 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (214 bp):
GATCAGCTAGTTCATGCAAGCTTTGCTCCATGGCAGACAGCACATTTTTTTGCTTCATTGTAAGA
GTGGTAGAGGAACAATAAAAGCTAGCTAGGATCTTGAATGCCTTCTTATCACGTAGAGATCTCTT
GGAAAAACAATAAAAATTAACAGGGGTCATATTCAGGGCTTCCTCTACTTTAGCCAGTGCTTCCT
TTGCTTCTTCTCGAGAAAA
Found at i:58558 original size:20 final size:20
Alignment explanation
Indices: 58513--58558 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
58503 GACCAACAAA
*
58513 ATCGCAATGCGATCGCTAAT
1 ATCGCAACGCGATCGCTAAT
* *
58533 -TCGCAACGCGATCTCTATT
1 ATCGCAACGCGATCGCTAAT
58552 ATCGCAA
1 ATCGCAA
58559 ATCAGTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATCGCTAAT
Found at i:58636 original size:22 final size:22
Alignment explanation
Indices: 58593--58667 Score: 127
Period size: 21 Copynumber: 3.5 Consensus size: 22
58583 ATTATTACTA
*
58593 TCGCAATGCGATTTT-CCAATT
1 TCGCATTGCGATTTTCCCAATT
58614 TCGCATTGCGATTTTCCCAATT
1 TCGCATTGCGATTTTCCCAATT
58636 TCGCATTGCGATTTTCCCAA-T
1 TCGCATTGCGATTTTCCCAATT
58657 TCGCATTGCGA
1 TCGCATTGCGA
58668 ATAAGTAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
21 26 0.50
22 26 0.50
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (22 bp):
TCGCATTGCGATTTTCCCAATT
Found at i:58768 original size:21 final size:21
Alignment explanation
Indices: 58593--58769 Score: 62
Period size: 21 Copynumber: 8.5 Consensus size: 21
58583 ATTATTACTA
*
58593 TCGCAATGCGATTTTCCA-ATT
1 TCGCAATGCGATTTT-CATAAT
* **
58614 TCGCATTGCGATTTTCCCAATT
1 TCGCAATGCGATTTTCATAA-T
* **
58636 TCGCATTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCATAAT
* * * *
58657 TCGCATTGCGA--ATAAGTAAA
1 TCGCAATGCGATTTTCA-TAAT
** *
58677 TCGCAATGCGATACTGACT-A-
1 TCGCAATGCGATTTTCA-TAAT
* * * *
58697 TCGCAACGCGATAATACA-AAA
1 TCGCAATGCGAT-TTTCATAAT
* *
58718 TCGCAATGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
58738 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
58759 TCGCAATGCGA
1 TCGCAATGCGA
58770 ATACGTAAAT
Statistics
Matches: 120, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
19 1 0.01
20 43 0.36
21 52 0.43
22 24 0.20
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:58780 original size:61 final size:62
Alignment explanation
Indices: 58715--58855 Score: 144
Period size: 61 Copynumber: 2.3 Consensus size: 62
58705 CGATAATACA
* ** ** * * *
58715 AAATCGCAATGCGATTTACGT-ATTCGCGTTGCG-ATTTTCATAATTCGCAATGCGAATACGT
1 AAATCGCAATGCGATTTACGTAAATCGCAATGCGAATTAGCA-AAATCGCAATGCAAATAAGT
* * * *
58776 AAATCGCAACGCG-GTTAAGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCAAATAAGT
1 AAATCGCAATGCGATTTACGTAAATCGCAATGCGAATTAGCAAAATCGCAATGCAAATAAGT
58837 AAATCGCAATGCGATTTAC
1 AAATCGCAATGCGATTTAC
58856 ATAGCGCCAT
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
60 5 0.08
61 50 0.81
62 7 0.11
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (62 bp):
AAATCGCAATGCGATTTACGTAAATCGCAATGCGAATTAGCAAAATCGCAATGCAAATAAGT
Found at i:58784 original size:20 final size:20
Alignment explanation
Indices: 58657--58850 Score: 108
Period size: 20 Copynumber: 9.6 Consensus size: 20
58647 TTTTCCCAAT
* *
58657 TCGCATTGCGAATAAGTAAA
1 TCGCAATGCGAATACGTAAA
*
58677 TCGCAATGCG-ATAC-TGACTA
1 TCGCAATGCGAATACGT-A-AA
* *
58697 TCGCAACGCGATAATAC-AAAA
1 TCGCAATGCG--AATACGTAAA
* *
58718 TCGCAATGCGATTTACGT-AT
1 TCGCAATGCGA-ATACGTAAA
** * * * *
58738 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
58759 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
58779 TCGCAACGCGGTTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
58799 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
58820 TCGCAATGCAAATAAGTAAA
1 TCGCAATGCGAATACGTAAA
58840 TCGCAATGCGA
1 TCGCAATGCGA
58851 TTTACATAGC
Statistics
Matches: 132, Mismatches: 33, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
18 1 0.01
19 5 0.04
20 83 0.63
21 38 0.29
22 1 0.01
23 4 0.03
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:58802 original size:102 final size:102
Alignment explanation
Indices: 58635--58828 Score: 232
Period size: 102 Copynumber: 1.9 Consensus size: 102
58625 TTTTCCCAAT
* * * *
58635 TTCGCATTGCGATTTTCCCAATTCGCATTGCGAATAAGTAAATCGCAATGCGATACTGACTATCG
1 TTCGCATTGCGATTTTCACAATTCGCAATGCGAATAAGTAAATCGCAACGCGATACTGACAATCG
58700 CAACGCGATAATA-CAAAATCGCAATGCGATTTACGTA
66 CAACGCGA-AATAGCAAAATCGCAATGCGATTTACGTA
* * * * *
58737 TTCGCGTTGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAACGCGGTTA-AGTA-AAT
1 TTCGCATTGCGATTTTCACAATTCGCAATGCGAATAAGTAAATCGCAACGC-GATACTG-ACAAT
* * *
58800 CGCAATGCGAATTAGGAAAATCGCAATGC
64 CGCAACGCGAAATAGCAAAATCGCAATGC
58829 AAATAAGTAA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
101 3 0.04
102 70 0.91
103 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (102 bp):
TTCGCATTGCGATTTTCACAATTCGCAATGCGAATAAGTAAATCGCAACGCGATACTGACAATCG
CAACGCGAAATAGCAAAATCGCAATGCGATTTACGTA
Found at i:58836 original size:41 final size:40
Alignment explanation
Indices: 58759--58850 Score: 121
Period size: 41 Copynumber: 2.3 Consensus size: 40
58749 TTTTCATAAT
* ***
58759 TCGCAATGCGAATACGTAAATCGCAACGCGGTTAAGTAAA
1 TCGCAATGCGAATACGAAAATCGCAACGCAAATAAGTAAA
* *
58799 TCGCAATGCGAATTAGGAAAATCGCAATGCAAATAAGTAAA
1 TCGCAATGCGAA-TACGAAAATCGCAACGCAAATAAGTAAA
58840 TCGCAATGCGA
1 TCGCAATGCGA
58851 TTTACATAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
40 12 0.27
41 33 0.73
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (40 bp):
TCGCAATGCGAATACGAAAATCGCAACGCAAATAAGTAAA
Found at i:59407 original size:34 final size:34
Alignment explanation
Indices: 59369--59465 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 34
59359 CGAGAATGAA
** *
59369 AATCGCAACGCGGAAATGACTATCGCAACGAGAT
1 AATCGCAACGCGGAAATGAAAATCGCAACGAGAG
*
59403 AATCGCAACGCGGAAATGAAAATCGCAATGAGAG
1 AATCGCAACGCGGAAATGAAAATCGCAACGAGAG
*
59437 AATCGCAACGC-GAAATGAAAATTGCAACG
1 AATCGCAACGCGGAAATGAAAATCGCAACG
59466 CGAAACCAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 16 0.28
34 41 0.72
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (34 bp):
AATCGCAACGCGGAAATGAAAATCGCAACGAGAG
Found at i:59428 original size:20 final size:19
Alignment explanation
Indices: 59363--59481 Score: 78
Period size: 19 Copynumber: 6.7 Consensus size: 19
59353 TAGTTTCGAG
59363 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGC-GA
**
59383 AATGACTATCGCAA--CG-
1 AATGAAAATCGCAACGCGA
*
59399 -A-GATAATCGCAACGCGGA
1 AATGAAAATCGCAACGC-GA
*
59417 AATGAAAATCGCAA--TG-
1 AATGAAAATCGCAACGCGA
*
59433 -A-GAGAATCGCAACGCGA
1 AATGAAAATCGCAACGCGA
*
59450 AATGAAAATTGCAACGCGA
1 AATGAAAATCGCAACGCGA
**
59469 AACCAAAATCGCA
1 AATGAAAATCGCA
59482 TTGCGATTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 23
0.68 0.12 0.21
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 2 0.03
17 3 0.04
18 2 0.03
19 25 0.33
20 22 0.29
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.13
Consensus pattern (19 bp):
AATGAAAATCGCAACGCGA
Found at i:59515 original size:14 final size:14
Alignment explanation
Indices: 59496--59555 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
59486 GATTTTCATT
59496 TCTCGTTGCGATTC
1 TCTCGTTGCGATTC
59510 TCTCGTTGCGATTTTC
1 TCTCGTTGCGA--TTC
*
59526 ATTTCGCGTTGCGATTC
1 ---TCTCGTTGCGATTC
*
59543 TCTCATTGCGATT
1 TCTCGTTGCGATT
59556 TTCATTTCCG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 22 0.58
16 3 0.08
17 3 0.08
19 10 0.26
ACGTcount: A:0.10, C:0.25, G:0.20, T:0.45
Consensus pattern (14 bp):
TCTCGTTGCGATTC
Found at i:59524 original size:33 final size:33
Alignment explanation
Indices: 59480--59575 Score: 165
Period size: 33 Copynumber: 2.9 Consensus size: 33
59470 ACCAAAATCG
*
59480 CATTGCGATTTTCATTTCTCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
59513 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
59546 CATTGCGATTTTCATTTCCGCGTTGCGATT
1 CATTGCGATTTTCATTT-CGCGTTGCGATT
59576 TTCATTCTCT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 47 0.80
34 12 0.20
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:59573 original size:20 final size:18
Alignment explanation
Indices: 59477--59599 Score: 82
Period size: 20 Copynumber: 6.9 Consensus size: 18
59467 GAAACCAAAA
*
59477 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
*
59496 TCTCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
59510 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
59529 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
* *
59543 TCTCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
59562 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCA-T
*
59582 CTCTCGTTGCGATTTTCA
1 -TCGCGTTGCGATTTTCA
59600 GTTCAACCAA
Statistics
Matches: 84, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
14 20 0.24
16 6 0.07
17 6 0.07
19 20 0.24
20 31 0.37
21 1 0.01
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.46
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:62382 original size:42 final size:42
Alignment explanation
Indices: 62335--62414 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
62325 CAATGACAGT
* *
62335 GGCCTCTTGAACG-GTGGGGGGAGATTCTTGAGGGATGATAGG
1 GGCCTCTTGAACGAGTGGAGGG-GACTCTTGAGGGATGATAGG
*
62377 GGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGATGA
1 GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGGATGA
62415 CAGGTGAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
42 28 0.82
43 6 0.18
ACGTcount: A:0.20, C:0.14, G:0.42, T:0.24
Consensus pattern (42 bp):
GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGGATGATAGG
Found at i:62384 original size:21 final size:21
Alignment explanation
Indices: 62360--62414 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
62350 GGGGGGAGAT
* *
62360 TCTTGAGGGATGATAGGGGCC
1 TCTTGAGGGATGAGAGGGGAC
**
62381 TCTTGAACGATTG-GAGGGGAC
1 TCTTGAGGGA-TGAGAGGGGAC
62402 TCTTGAGGGATGA
1 TCTTGAGGGATGA
62415 CAGGTGAGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.22, C:0.13, G:0.40, T:0.25
Consensus pattern (21 bp):
TCTTGAGGGATGAGAGGGGAC
Found at i:62677 original size:20 final size:19
Alignment explanation
Indices: 62641--62720 Score: 70
Period size: 20 Copynumber: 4.1 Consensus size: 19
62631 AAGAATAGTT
*
62641 TACTTTCGCTACACGAAACA
1 TACTTTCGCAACACGAAA-A
*
62661 TACTTTCGCAACGCGAAAA
1 TACTTTCGCAACACGAAAA
* *
62680 TGACTATCGCAACACGGAAA
1 T-ACTTTCGCAACACGAAAA
* * *
62700 TGGCTATCGCAACGCGAAAA
1 T-ACTTTCGCAACACGAAAA
62720 T
1 T
62721 GGCTATCGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 2 0.04
20 49 0.96
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.20
Consensus pattern (19 bp):
TACTTTCGCAACACGAAAA
Found at i:62721 original size:20 final size:20
Alignment explanation
Indices: 62666--62738 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
62656 AAACATACTT
*
62666 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGGCTA
* *
62686 TCGCAACACGGAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
62706 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
*
62726 TCGCAATGCGAAA
1 TCGCAACGCGAAA
62739 TGAAAATCGC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGGCTA
Found at i:62747 original size:19 final size:19
Alignment explanation
Indices: 62725--62783 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
62715 GAAAATGGCT
62725 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
62744 ATCGCAA--CGACAA-G---
1 ATCGCAATGCGA-AATGAAA
62758 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
62777 ATCGCAA
1 ATCGCAA
62784 CGACAAGATC
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
14 7 0.21
15 2 0.06
16 4 0.12
17 4 0.12
18 2 0.06
19 14 0.42
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:62763 original size:14 final size:14
Alignment explanation
Indices: 62744--62799 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 14
62734 CGAAATGAAA
62744 ATCGCAACGACAAG
1 ATCGCAACGACAAG
62758 ATCGCAATGCGA-AATG
1 ATCGCAA--CGACAA-G
62774 AAAATCGCAACGACAAG
1 ---ATCGCAACGACAAG
62791 ATCGCAACG
1 ATCGCAACG
62800 CGAAACATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
14 16 0.46
15 2 0.06
16 4 0.11
17 4 0.11
18 2 0.06
19 7 0.20
ACGTcount: A:0.43, C:0.25, G:0.21, T:0.11
Consensus pattern (14 bp):
ATCGCAACGACAAG
Found at i:62815 original size:33 final size:33
Alignment explanation
Indices: 62725--62804 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
62715 GAAAATGGCT
62725 ATCGCAATGCGAAATGAAAATCGCAACGACAAG
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAG
62758 ATCGCAATGCGAAATGAAAATCGCAACGACAAG
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAG
*
62791 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
62805 CATAAATCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAG
Found at i:62858 original size:33 final size:33
Alignment explanation
Indices: 62816--62907 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
62806 ATAAATCGCA
**
62816 TTGCGATTTTCATTTCGTGTTGCGATCTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATCTTGTCG
62849 TTGCGATTTTCATTTCGCATTGCGATCTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATCTTGTCG
62882 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
62908 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATCTTGTCG
Found at i:62873 original size:19 final size:19
Alignment explanation
Indices: 62811--62907 Score: 74
Period size: 19 Copynumber: 5.6 Consensus size: 19
62801 GAAACATAAA
62811 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
**
62830 TCGTGTTGCGA---TC-TT
1 TCGCATTGCGATTTTCATT
62845 GTCG--TTGCGATTTTCATT
1 -TCGCATTGCGATTTTCATT
62863 TCGCATTGCGA---TC-TT
1 TCGCATTGCGATTTTCATT
62878 GTCG--TTGCGATTTTCATT
1 -TCGCATTGCGATTTTCATT
62896 TCGCATTGCGAT
1 TCGCATTGCGAT
62908 AGCCATTTCC
Statistics
Matches: 62, Mismatches: 2, Indels: 28
0.67 0.02 0.30
Matches are distributed among these distances:
14 12 0.19
15 4 0.06
16 10 0.16
17 10 0.16
18 4 0.06
19 22 0.35
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:62926 original size:20 final size:19
Alignment explanation
Indices: 62892--62946 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
62882 TTGCGATTTT
*
62892 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
62911 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
62931 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
62947 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:62985 original size:80 final size:80
Alignment explanation
Indices: 62888--63047 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
62878 GTCGTTGCGA
62888 TTTTCATTTCGCATTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCGTGTTGCGAAAGTAA
1 TTTTCATTTCGCATTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCGTGTTGCGAAAGTAA
62953 ACTATTCTTCTTCTG
66 ACTATTCTTCTTCTG
62968 TTTTCATTTCGCATTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCGTGTTGCGAAAGTAA
1 TTTTCATTTCGCATTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCGTGTTGCGAAAGTAA
63033 ACTATTCTTCTTCTG
66 ACTATTCTTCTTCTG
63048 CAAATTGAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (80 bp):
TTTTCATTTCGCATTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTTCGTGTTGCGAAAGTAA
ACTATTCTTCTTCTG
Found at i:63006 original size:20 final size:19
Alignment explanation
Indices: 62972--63026 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
62962 CTTCTGTTTT
*
62972 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
62991 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
63011 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
63027 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:63591 original size:18 final size:18
Alignment explanation
Indices: 63565--63609 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
63555 GTCGATTAGA
*
63565 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGCTGAGG
*
63583 TGATAGCTCTGGCTGAGG
1 TGATGGCTCTGGCTGAGG
63601 TGATGGCTC
1 TGATGGCTC
63610 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.42, T:0.29
Consensus pattern (18 bp):
TGATGGCTCTGGCTGAGG
Found at i:64951 original size:21 final size:21
Alignment explanation
Indices: 64926--64968 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
64916 ATAGTTTCTG
64926 AAAATGAAAATCGCAACACGA
1 AAAATGAAAATCGCAACACGA
* *
64947 AAAATGACAATCGCAACGCGA
1 AAAATGAAAATCGCAACACGA
64968 A
1 A
64969 TTTGATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.09
Consensus pattern (21 bp):
AAAATGAAAATCGCAACACGA
Found at i:65272 original size:22 final size:22
Alignment explanation
Indices: 65246--65289 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
65236 GATGGAGATA
65246 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* *
65268 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
65290 TGAGAGAGTG
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:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:65540 original size:20 final size:21
Alignment explanation
Indices: 65482--65540 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
65472 GTATTATCTC
65482 GTTGCGAAAGTCAGTATC-TA
1 GTTGCGAAAGTCAGTATCGTA
*
65502 GTTGCGAAAGTAAGTATCGT-
1 GTTGCGAAAGTCAGTATCGTA
65522 GTTGCGAAAGTCAGTATCG
1 GTTGCGAAAGTCAGTATCG
65541 CATTGCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (21 bp):
GTTGCGAAAGTCAGTATCGTA
Found at i:65546 original size:20 final size:20
Alignment explanation
Indices: 65483--65589 Score: 85
Period size: 20 Copynumber: 5.3 Consensus size: 20
65473 TATTATCTCG
*
65483 TTGCGAAAGTCAGTATC-TA
1 TTGCGAAAGTCAGTATCGCA
* **
65502 GTTGCGAAAGTAAGTATCGTG
1 -TTGCGAAAGTCAGTATCGCA
65523 TTGCGAAAGTCAGTATCGCA
1 TTGCGAAAGTCAGTATCGCA
* * *
65543 TTGC-AATTTTGT-ATTATCGCG
1 TTGCGAA---AGTCAGTATCGCA
*
65564 TTGCGATAGTCAGTATCGCA
1 TTGCGAAAGTCAGTATCGCA
65584 TTGCGA
1 TTGCGA
65590 TTTTCCAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
19 4 0.06
20 50 0.72
21 12 0.17
22 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (20 bp):
TTGCGAAAGTCAGTATCGCA
Found at i:65575 original size:41 final size:41
Alignment explanation
Indices: 65456--65593 Score: 140
Period size: 41 Copynumber: 3.4 Consensus size: 41
65446 CGCTTTGAAA
* * *
65456 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * * *
65497 ATC-TAGTTGCGAA---AGTAAGTATCGTGTTGCGAAAGTCAGT
1 ATCGCA-TTGC-AATTTTGT-ATTATCGCGTTGCGAAAGTCAGT
*
65537 ATCGCATTGCAATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGT
*
65578 ATCGCATTGCGATTTT
1 ATCGCATTGCAATTTT
65594 CCAAATTCGC
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
39 4 0.05
40 28 0.36
41 43 0.55
42 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCATTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:65590 original size:20 final size:20
Alignment explanation
Indices: 65456--65590 Score: 78
Period size: 20 Copynumber: 6.7 Consensus size: 20
65446 CGCTTTGAAA
*
65456 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
65477 ATCTCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
65497 ATC-TAGTTGCGAAAGTAAGT
1 ATCGCA-TTGCGATAGTCAGT
** *
65517 ATCGTGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
65537 ATCGCATTGCAATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
65558 ATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
65578 ATCGCATTGCGAT
1 ATCGCATTGCGAT
65591 TTTCCAAATT
Statistics
Matches: 88, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
19 5 0.06
20 58 0.66
21 23 0.26
22 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:65609 original size:41 final size:41
Alignment explanation
Indices: 65523--65611 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
65513 AAGTATCGTG
* ** * *
65523 TTGCGAAAGTCAGTATCGCATTGCAATTTTGTATTATCGCG
1 TTGCGATAGTCAGTATCGCATTGCAATTTTCAAATATCGCA
*
65564 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAGTATCGCATTGCAATTTT-CAAATATCGCA
65605 TTGCGAT
1 TTGCGAT
65612 TTACTTAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCATTGCAATTTTCAAATATCGCA
Found at i:65913 original size:21 final size:21
Alignment explanation
Indices: 65888--65936 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
65878 ATATTTGAAT
65888 AAGTTTTTTATTTCTTTATTA
1 AAGTTTTTTATTTCTTTATTA
65909 AAGTTTTTTATTTCTTTATTA
1 AAGTTTTTTATTTCTTTATTA
65930 AAGTTTT
1 AAGTTTT
65937 AAAAGTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.65
Consensus pattern (21 bp):
AAGTTTTTTATTTCTTTATTA
Found at i:75181 original size:188 final size:191
Alignment explanation
Indices: 74857--75259 Score: 546
Period size: 190 Copynumber: 2.1 Consensus size: 191
74847 ACTCATAGTC
*
74857 CTTTTGACTATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGAAAATTACCCTTTT
1 CTTTTGACTATTGCAAATT-AAAGATAATTTTTAATTTGAATATTAGTAGGAAAATTACCCTTTG
* * * * *
74922 AATAAGTCAATTTAAAACAAGTATTTATTATCTTTTTAATTTTGAATATTAAAAGATAATTATAT
65 AATAAGTCAACTTAAAACAAGTATTGATTACCTTTTTAACTTTGAATAATAAAAGATAATTATAT
* *
74987 ACTTTTGTATATTTCAAATTAAAATAATAC-AGTTTAAGTTTGAATAGTAAAAGGAGTTTTA-
130 ACTTTTGTATATTTCAAATTAAAATAATACTA-TTTAAGTTTGAATAGTAAAAAGAGTTTAAT
* * * * * *
75048 CTTTTGACCATTGCAAATTAAATAT-ATTATTTAATTTTAATATTATTAGGATAATTACTCTTTG
1 CTTTTGACTATTGCAAATTAAAGATAATT-TTTAATTTGAATATTAGTAGGAAAATTACCCTTTG
* * * *
75112 AATATGTCAACTTGAAA-AGGTATTGGTTACCTTTTTAACTTTGAATAAT-AAAGATAATTATAT
65 AATAAGTCAACTTAAAACAAGTATTGATTACCTTTTTAACTTTGAATAATAAAAGATAATTATAT
*
75175 ACTTTTGTATATTTCAAATTAAAATAATACTTATTTAAGTTTGAATGGTAAAAAGAGTTTAAT
130 ACTTTTGTATATTTCAAATTAAAATAATAC-TATTTAAGTTTGAATAGTAAAAAGAGTTTAAT
* *
75238 CTTTTGAATATTTCAAATTAAA
1 CTTTTGACTATTGCAAATTAAA
75260 AGCTATTGTT
Statistics
Matches: 186, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
188 44 0.24
189 55 0.30
190 69 0.37
191 18 0.10
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (191 bp):
CTTTTGACTATTGCAAATTAAAGATAATTTTTAATTTGAATATTAGTAGGAAAATTACCCTTTGA
ATAAGTCAACTTAAAACAAGTATTGATTACCTTTTTAACTTTGAATAATAAAAGATAATTATATA
CTTTTGTATATTTCAAATTAAAATAATACTATTTAAGTTTGAATAGTAAAAAGAGTTTAAT
Found at i:76563 original size:29 final size:29
Alignment explanation
Indices: 76530--76595 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
76520 ACAAGCCTCA
* * *
76530 GAAAAATTGGGTAT-CATTTCGTAAGTTTT
1 GAAAAATTGGGGATAAATTT-GTAAATTTT
*
76559 GAAAAGTTGGGGATAAATTTGTAAATTTT
1 GAAAAATTGGGGATAAATTTGTAAATTTT
*
76588 GGAAAATT
1 GAAAAATT
76596 AATAAAGAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (29 bp):
GAAAAATTGGGGATAAATTTGTAAATTTT
Found at i:82808 original size:33 final size:33
Alignment explanation
Indices: 82762--82827 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
82752 ATAGAAAGTT
*
82762 TTAAAATTTGAGGACAAATTTTCTTAAGGAGGA
1 TTAAAATTCGAGGACAAATTTTCTTAAGGAGGA
*
82795 TTAAAATTCGAGGACGAATTTTCTTAAGGAGGA
1 TTAAAATTCGAGGACAAATTTTCTTAAGGAGGA
82828 GAGAATTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (33 bp):
TTAAAATTCGAGGACAAATTTTCTTAAGGAGGA
Found at i:83889 original size:29 final size:29
Alignment explanation
Indices: 83856--83918 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
83846 ACAAGCCTTA
* * *
83856 GAAAAATTGGGTAT-CATTTCGTAAGTTTT
1 GAAAAATTGGGGATAAATTT-GTAAATTTT
*
83885 GAAAAGTTGGGGATAAATTTGTAAATTTT
1 GAAAAATTGGGGATAAATTTGTAAATTTT
83914 GAAAA
1 GAAAA
83919 TTTGATGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (29 bp):
GAAAAATTGGGGATAAATTTGTAAATTTT
Found at i:87994 original size:190 final size:190
Alignment explanation
Indices: 87694--88042 Score: 524
Period size: 190 Copynumber: 1.8 Consensus size: 190
87684 AAAGATAATT
* * *
87694 TTTAATTTTAATATTAGTAGGATAATTACTCTTTTAATAAGTCAATCTAAAAATGTATTTGATAT
1 TTTAATTTGAATATTAGTAGGATAATTACTCTTTGAATAAGTCAATCTAAAAATGTATTTGATAC
* * * *
87759 CTTTTTAATTTTGAATGTTAAAAGATAATTATATATTTCTGTATATTTCAAATTAAAATAATATA
66 CTTTTTAACTTTGAATATTAAAAAATAATTATATATTTCTGTATATTTCAAATTAAAATAATACA
*
87824 TGTTTAAGTTTAAATAGTAAAAGGAGTTTACTTTTTTACCATTGCAAATTAAATATGTTA
131 TATTTAAGTTTAAATAGTAAAAGGAGTTTACTTTTTTACCATTGCAAATTAAATATGTTA
* * *
87884 TTTAATTTGAATATTCGTAGGATAATTACTCTTTGAATATA-TCAA-CTTGAAAATGTATTTGTT
1 TTTAATTTGAATATTAGTAGGATAATTACTCTTTGAATA-AGTCAATC-TAAAAATGTATTTGAT
87947 ACCTTTTTAACTTTGAATATTAAAAAATAATTATATACTTT-TGTATATTTCAAATTAAAATAAT
64 ACCTTTTTAACTTTGAATATTAAAAAATAATTATATA-TTTCTGTATATTTCAAATTAAAATAAT
* * *
88011 ACATATTTATGTTTGAATGGTAAAAGGAGTTT
128 ACATATTTAAGTTTAAATAGTAAAAGGAGTTT
88043 CATCTTTTGA
Statistics
Matches: 142, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
189 1 0.01
190 137 0.96
191 4 0.03
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.45
Consensus pattern (190 bp):
TTTAATTTGAATATTAGTAGGATAATTACTCTTTGAATAAGTCAATCTAAAAATGTATTTGATAC
CTTTTTAACTTTGAATATTAAAAAATAATTATATATTTCTGTATATTTCAAATTAAAATAATACA
TATTTAAGTTTAAATAGTAAAAGGAGTTTACTTTTTTACCATTGCAAATTAAATATGTTA
Found at i:91735 original size:191 final size:191
Alignment explanation
Indices: 91480--91868 Score: 498
Period size: 191 Copynumber: 2.0 Consensus size: 191
91470 AATTCATAGT
* * *
91480 CCTTTTGACTATTGCAAATTAAAAGATAATTTTTAATTTGAACATTTATAGGATAATTACTCTTT
1 CCTTTTGACCATTGCAAATTAAAAGATAATTTTCAATTTGAACATTTATAGGATAAGTACTCTTT
* * * * *
91545 TAATAAGTCAATTTAAAAAAATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAACTATAT
66 GAATAAGTCAACTTAAAAAAATATTGGTTACCTTTTTAACTTTGAATATT-AAAGATAACTATAT
* *
91610 ACTTTTGTATATTTCAAATTAAAATAATATTTATTTTAAATTTGAATAGTAAAAAGAG-TTTA
130 ACTTTTGTATATTTCAAATTAAAATAATACTT-GTTTAAATTTGAATAGTAAAAAGAGTTTTA
* *
91672 CCTTTTGACCATTGCAAATT-AAATAT-ATTATTCAATTTGAATA-TTAGTAGGATAAGTACTCT
1 CCTTTTGACCATTGCAAATTAAAAGATAATT-TTCAATTTGAACATTTA-TAGGATAAGTACTCT
* * ** * *
91734 TTGAATATGTCAACTTGAAAAGGTATTGGTTACCTTTTTAACTTTGAATATTAGAGATAATTATA
64 TTGAATAAGTCAACTTAAAAAAATATTGGTTACCTTTTTAACTTTGAATATTAAAGATAACTATA
* * * * *
91799 TACTTTTGTATATTTTAAATTAAATTAATACTTGTTTAAGTTTGAATGGTAAAAGGAGTTTTA
129 TACTTTTGTATATTTCAAATTAAAATAATACTTGTTTAAATTTGAATAGTAAAAAGAGTTTTA
*
91862 TCTTTTG
1 CCTTTTG
91869 GATATTTCGA
Statistics
Matches: 170, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
189 21 0.12
190 57 0.34
191 73 0.43
192 19 0.11
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (191 bp):
CCTTTTGACCATTGCAAATTAAAAGATAATTTTCAATTTGAACATTTATAGGATAAGTACTCTTT
GAATAAGTCAACTTAAAAAAATATTGGTTACCTTTTTAACTTTGAATATTAAAGATAACTATATA
CTTTTGTATATTTCAAATTAAAATAATACTTGTTTAAATTTGAATAGTAAAAAGAGTTTTA
Found at i:92850 original size:18 final size:21
Alignment explanation
Indices: 92827--92867 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 21
92817 TTATTTTCTT
92827 AAAAAT-AAAAAA-TCC-AAA
1 AAAAATGAAAAAAGTCCTAAA
92845 AAAAATGAAAAAAGTCCTAAA
1 AAAAATGAAAAAAGTCCTAAA
92866 AA
1 AA
92868 GCTATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 6 0.30
20 3 0.15
21 5 0.25
ACGTcount: A:0.73, C:0.10, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAAATGAAAAAAGTCCTAAA
Found at i:92866 original size:20 final size:18
Alignment explanation
Indices: 92827--92867 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
92817 TTATTTTCTT
92827 AAAAATAAAAAATCCAAA
1 AAAAATAAAAAATCCAAA
*
92845 AAAAATGAAAAAAGTCCTAA
1 AAAAAT-AAAAAA-TCCAAA
92865 AAA
1 AAA
92868 GCTATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 6 0.30
20 8 0.40
ACGTcount: A:0.73, C:0.10, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAAATAAAAAATCCAAA
Found at i:94466 original size:35 final size:36
Alignment explanation
Indices: 94420--94500 Score: 130
Period size: 35 Copynumber: 2.3 Consensus size: 36
94410 AACACAATCA
*
94420 TCAATTACATTCTAAACAC-CAAATTTC-AAAATACT
1 TCAATTACATTCTAAAC-CTCAAATTCCAAAAATACT
94455 TCAATTACATTCTAAACCTCAAATTCCAAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAAATACT
94491 TCAATTACAT
1 TCAATTACAT
94501 GCCCAACCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
34 1 0.02
35 24 0.56
36 18 0.42
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.32
Consensus pattern (36 bp):
TCAATTACATTCTAAACCTCAAATTCCAAAAATACT
Found at i:94514 original size:36 final size:35
Alignment explanation
Indices: 94420--94516 Score: 131
Period size: 36 Copynumber: 2.7 Consensus size: 35
94410 AACACAATCA
* *
94420 TCAATTACATTCTAAACACCAAATTTCAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
*
94455 TCAATTACATTCTAAACCTCAAATTCCAAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCC-AAAATACT
* **
94491 TCAATTACATGCCCAACCCCAAATTC
1 TCAATTACATTCTAAACCCCAAATTC
94517 ATAATACATT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 24 0.44
36 30 0.56
ACGTcount: A:0.42, C:0.28, G:0.01, T:0.29
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATACT
Found at i:95185 original size:148 final size:148
Alignment explanation
Indices: 95000--95292 Score: 516
Period size: 148 Copynumber: 2.0 Consensus size: 148
94990 AAACTATTTA
* *
95000 AATTAGAATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
*
95065 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAACA-TTCGAGTAAAC
66 AATTCAATACAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAA-ATTTCGAGTAAAC
95129 TATTTTATAAACTGAACTG
130 TATTTTATAAACTGAACTG
*
95148 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCGAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
*
95213 AATTCAATACAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
66 AATTCAATACAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTAAACT
*
95278 ATTTTATGAACTGAA
131 ATTTTATAAACTGAA
95293 TTGAGTATTT
Statistics
Matches: 138, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
147 1 0.01
148 137 0.99
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (148 bp):
AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAGAAACTCAAA
AATTCAATACAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTAAACT
ATTTTATAAACTGAACTG
Found at i:95509 original size:35 final size:36
Alignment explanation
Indices: 95464--95550 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
95454 GAATTTGGGG
95464 TTGGACATGTAATTGAAGTA-TTTTGGAATTT-GACGT
1 TTGGA-ATGTAATTGAAGTATTTTTGGAATTTAGA-GT
* *
95500 TTGGAATGTAATTGAATTATTTTTGGATTTTAGAGT
1 TTGGAATGTAATTGAAGTATTTTTGGAATTTAGAGT
* *
95536 TTAGAATATAATTGA
1 TTGGAATGTAATTGA
95551 TGACTGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
35 13 0.29
36 30 0.67
37 2 0.04
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (36 bp):
TTGGAATGTAATTGAAGTATTTTTGGAATTTAGAGT
Found at i:95910 original size:37 final size:37
Alignment explanation
Indices: 95859--95955 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
95849 CATTTTCGTC
*
95859 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
* *
95896 TTACTAGGATTCAAACTCCTAAAAATAAGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
** *
95933 CTACTATTATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
95956 GATACGATCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
Found at i:96462 original size:2 final size:2
Alignment explanation
Indices: 96455--96488 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
96445 ATTTTCCTAT
96455 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96489 TATTATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:96492 original size:8 final size:9
Alignment explanation
Indices: 96452--96494 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
96442 ATTATTTTCC
96452 TATTATATA
1 TATTATATA
96461 TATATATATA
1 TAT-TATATA
96471 TATATATATA
1 TAT-TATATA
96481 TATTATAT-
1 TATTATATA
96489 TATTAT
1 TATTAT
96495 TTTTTATCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.18
9 8 0.24
10 19 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATATA
Found at i:96517 original size:21 final size:21
Alignment explanation
Indices: 96491--96540 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
96481 TATTATATTA
*
96491 TTATTTTTTATCTATGTTTAC
1 TTATTTTTTATATATGTTTAC
* * *
96512 TTATTTATTATATTTTTTTAC
1 TTATTTTTTATATATGTTTAC
96533 TATATTTT
1 T-TATTTT
96541 CCTAATGTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTTTTTATATATGTTTAC
Found at i:96705 original size:8 final size:8
Alignment explanation
Indices: 96694--96731 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
96684 TTATACATAC
96694 ATTTTTAT
1 ATTTTTAT
96702 ATTTTTATAT
1 A-TTTT-TAT
96712 ATTTTTAT
1 ATTTTTAT
96720 ATTTTT-T
1 ATTTTTAT
96727 ATTTT
1 ATTTT
96732 ATTTATACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.21
8 10 0.36
9 8 0.29
10 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
ATTTTTAT
Found at i:96714 original size:10 final size:10
Alignment explanation
Indices: 96695--96728 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
96685 TATACATACA
96695 TTTT-TATAT
1 TTTTATATAT
96704 TTTTATATAT
1 TTTTATATAT
96714 TTTTATAT-T
1 TTTTATATAT
96723 TTTTAT
1 TTTTAT
96729 TTTATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 11 0.46
10 13 0.54
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTATATAT
Found at i:96717 original size:18 final size:18
Alignment explanation
Indices: 96694--96753 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
96684 TTATACATAC
96694 ATTTTTATATTTTTATAT
1 ATTTTTATATTTTTATAT
96712 ATTTTTATATTTTT-TAT
1 ATTTTTATATTTTTATAT
* * *
96729 TTTATTTATACTATTTATTT
1 ATT-TTTATA-TTTTTATAT
96749 ATTTT
1 ATTTT
96754 CATTATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 5 0.14
18 20 0.57
19 6 0.17
20 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTATATTTTTATAT
Found at i:96759 original size:22 final size:21
Alignment explanation
Indices: 96703--96753 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
96693 CATTTTTATA
* *
96703 TTTTTA-TATATTTTTA-TAT
1 TTTTTATTTTATTTATACTAT
96722 TTTTTATTTTATTTATACTAT
1 TTTTTATTTTATTTATACTAT
96743 TTATTTATTTT
1 TT-TTTATTTT
96754 CATTATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 6 0.22
20 8 0.30
21 5 0.19
22 8 0.30
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTATTTTATTTATACTAT
Found at i:101470 original size:21 final size:20
Alignment explanation
Indices: 101446--101503 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
101436 AAAGGGCAAA
101446 AAAAACAAAAAAGAAGAAAAC
1 AAAAACAAAAAAGAA-AAAAC
* *
101467 -AAAAGAAAAAAGAAAGAAC
1 AAAAACAAAAAAGAAAAAAC
101486 AAAAATC-AAAAAGAAAAA
1 AAAAA-CAAAAAAGAAAAA
101504 GAAAAAGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.02
Consensus pattern (20 bp):
AAAAACAAAAAAGAAAAAAC
Found at i:101475 original size:27 final size:27
Alignment explanation
Indices: 101445--101503 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
101435 AAAAGGGCAA
*
101445 AAAAAACAAAAAAGAAGAAAAC-AAAAG
1 AAAAAACAAAAAACAA-AAAACAAAAAG
* * *
101472 AAAAAAGAAAGAACAAAAATCAAAAAG
1 AAAAAACAAAAAACAAAAAACAAAAAG
101499 AAAAA
1 AAAAA
101504 GAAAAAGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.02
Consensus pattern (27 bp):
AAAAAACAAAAAACAAAAAACAAAAAG
Found at i:101502 original size:13 final size:13
Alignment explanation
Indices: 101445--101503 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
101435 AAAAGGGCAA
101445 AAAAAACAAAAAAG
1 AAAAAAC-AAAAAG
101459 AAGAAAAC-AAAAG
1 AA-AAAACAAAAAG
* *
101472 AAAAAAGAAAGAAC
1 AAAAAACAAA-AAG
*
101486 AAAAATCAAAAAG
1 AAAAAACAAAAAG
101499 AAAAA
1 AAAAA
101504 GAAAAAGGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 4 0.11
13 16 0.43
14 12 0.32
15 5 0.14
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.02
Consensus pattern (13 bp):
AAAAAACAAAAAG
Found at i:102367 original size:24 final size:24
Alignment explanation
Indices: 102335--102395 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
102325 GGGACAATAT
*
102335 TTTCAAAACTTTTAATTAAACATC
1 TTTCAAAACTCTTAATTAAACATC
*
102359 TTTCAAAACTCTTGATTAAACATC
1 TTTCAAAACTCTTAATTAAACATC
102383 TTTCAAAACTCTT
1 TTTCAAAACTCTT
102396 TTTTTGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTCAAAACTCTTAATTAAACATC
Found at i:103107 original size:36 final size:37
Alignment explanation
Indices: 103059--103134 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
103049 GTGCCCACCA
* *
103059 TTGTCTCTCTTGAGATAGTTTCCCTT-GAAACAAA-CT
1 TTGTCTCCCTTGAGACAGTTTCCCTTAGAAA-AAACCT
103095 TTGTCTCCCTTGAGACAGTTTCCCTTAGAAAAAACCT
1 TTGTCTCCCTTGAGACAGTTTCCCTTAGAAAAAACCT
103132 TTG
1 TTG
103135 AAATCGTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 27 0.75
37 9 0.25
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (37 bp):
TTGTCTCCCTTGAGACAGTTTCCCTTAGAAAAAACCT
Found at i:103151 original size:16 final size:16
Alignment explanation
Indices: 103130--103164 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
103120 TAGAAAAAAC
**
103130 CTTTGAAATCGTTTCT
1 CTTTGAAAAAGTTTCT
103146 CTTTGAAAAAGTTTCT
1 CTTTGAAAAAGTTTCT
103162 CTT
1 CTT
103165 AAAACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (16 bp):
CTTTGAAAAAGTTTCT
Found at i:103373 original size:37 final size:37
Alignment explanation
Indices: 103303--103374 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
103293 TGGAACTAAG
* * *
103303 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAAA
* *
103340 TTTTGTCTCCCTTGAGACCGTTTCTCATGAAACAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAA
103375 CAAATATCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAAA
Found at i:103956 original size:43 final size:43
Alignment explanation
Indices: 103909--104005 Score: 176
Period size: 43 Copynumber: 2.3 Consensus size: 43
103899 CGAAGGGGAT
*
103909 GGAGGATATCGTTCCCACACATCCACGATTTTAACTCCACGAC
1 GGAGGATATCGTTCCCACACATCCACGATTTTAACTCCACAAC
*
103952 GGAGGATATAGTTCCCACACATCCACGATTTTAACTCCACAAC
1 GGAGGATATCGTTCCCACACATCCACGATTTTAACTCCACAAC
103995 GGAGGATATCG
1 GGAGGATATCG
104006 CGCCACCTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
GGAGGATATCGTTCCCACACATCCACGATTTTAACTCCACAAC
Found at i:104180 original size:106 final size:106
Alignment explanation
Indices: 104014--104645 Score: 844
Period size: 106 Copynumber: 6.0 Consensus size: 106
104004 CGCGCCACCT
*
104014 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAGTT
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATT
*
104079 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTC
66 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * * ** * ** *
104120 AAGACAGCACAAGCTCAACTTCACAGTGAAGGGGCGGCTGACTGTCAACAAACAACTTCCCAATT
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATT
* * * *
104185 TCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGGACCC
66 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * * * *
104226 AAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAC-AA-AATTT--C-A-T
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATT
* * * *
104285 TCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTC
66 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * * * *
104326 GAGACAGCACAAGTTCAACTTCACAAACGAATGGACGACTGGTTGTCTACAAACAACTTCCCAAT
1 GAGACAACACAAGTTCAACTTCAC-AACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
104391 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
65 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
104433 GAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAATTTCCCAATT
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATT
* *
104498 TCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * * * **
104539 GAGACAACACAAGTTCAACTTCACAACGAATGGATGACTGGTTGTCAACAAATAATTTCCCGGTT
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATT
* * *
104604 CCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTC
66 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
104645 G
1 G
104646 GAACAATGCT
Statistics
Matches: 462, Mismatches: 57, Indels: 14
0.87 0.11 0.03
Matches are distributed among these distances:
100 57 0.12
101 20 0.04
102 3 0.01
103 4 0.01
104 4 0.01
105 3 0.01
106 310 0.67
107 61 0.13
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATT
TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
Found at i:105479 original size:37 final size:37
Alignment explanation
Indices: 105393--105497 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
105383 CCTTTACGTC
* *
105393 CTACTAGGATTCAAACTCCTAAAAATAGAATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
105430 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
** ** *
105467 CTACTATTATTTAAACTTTTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
105498 CTACAAGCAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:105905 original size:2 final size:2
Alignment explanation
Indices: 105892--105932 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
105882 CCTTATTATT
*
105892 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
105933 TTATTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:106173 original size:15 final size:15
Alignment explanation
Indices: 106155--106184 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
106145 ATTATATGTA
*
106155 TATTTATTTTTTATT
1 TATTTATTTATTATT
106170 TATTTATTTATTATT
1 TATTTATTTATTATT
106185 GTTACTATTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTATTTATTATT
Found at i:106241 original size:9 final size:9
Alignment explanation
Indices: 106229--106270 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
106219 ATTTTTATAT
*
106229 TTTTATATA
1 TTTTATTTA
106238 TTTT-TTTA
1 TTTTATTTA
106246 TTTTATTTA
1 TTTTATTTA
*
106255 TATTATTTA
1 TTTTATTTA
106264 -TTTATTT
1 TTTTATTT
106271 TCATTATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATTTA
Found at i:106242 original size:18 final size:18
Alignment explanation
Indices: 106219--106288 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
106209 TTATACATAC
106219 ATTTTTATATTTTTATAT
1 ATTTTTATATTTTTATAT
* *
106237 ATTTTTTTATTTTATTTAT
1 ATTTTTATATTTT-TATAT
*
106256 ATTATTTATTTATTTTCATTAT
1 ATT-TTTA--TATTTTTA-TAT
106278 ATTTTTA-ATTT
1 ATTTTTATATTT
106289 CTTTGCTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
18 16 0.38
19 7 0.17
20 3 0.07
21 4 0.10
22 12 0.29
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTATATTTTTATAT
Found at i:106384 original size:18 final size:19
Alignment explanation
Indices: 106360--106405 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
106350 TGTATATATA
*
106360 TTTTTTTCTTC-ATTT-AT
1 TTTTTTTATTCAATTTCAT
106377 TTTATTTTATTCAATTTCAT
1 TTT-TTTTATTCAATTTCAT
106397 TTTTTTTAT
1 TTTTTTTAT
106406 ATTTGTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 10 0.40
20 5 0.20
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTATTCAATTTCAT
Found at i:111355 original size:22 final size:22
Alignment explanation
Indices: 111330--111374 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
111320 TTCAACGAAT
111330 TGCGGATGTGACATTGAATATA
1 TGCGGATGTGACATTGAATATA
111352 TGCGGATGTGACATTGAATATA
1 TGCGGATGTGACATTGAATATA
111374 T
1 T
111375 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (22 bp):
TGCGGATGTGACATTGAATATA
Found at i:116290 original size:20 final size:20
Alignment explanation
Indices: 116265--116316 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
116255 AGGTAAGGGA
116265 AGTATCGATACTCACTGGGT
1 AGTATCGATACTCACTGGGT
116285 AGTATCGATACTCACTGGGT
1 AGTATCGATACTCACTGGGT
116305 AGTATCGATACT
1 AGTATCGATACT
116317 ACCAACAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTCACTGGGT
Found at i:130177 original size:3 final size:3
Alignment explanation
Indices: 130169--130193 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
130159 CATGAAAGAT
130169 GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA G
130194 ACGTGGAATT
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:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:135301 original size:20 final size:20
Alignment explanation
Indices: 135275--135329 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
135265 GGCCATCCGA
*
135275 CCGAGGCCATCTGAAAGCAT
1 CCGAGGCCATCCGAAAGCAT
* *
135295 TCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAAAGCAT
135315 CCGAGGCCATCCGAA
1 CCGAGGCCATCCGAA
135330 CGAGCTATGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (20 bp):
CCGAGGCCATCCGAAAGCAT
Found at i:135353 original size:33 final size:33
Alignment explanation
Indices: 135306--135397 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
135296 CGAGGCCATC
* *
135306 CGAGAGCATCCGAGGCCATCCGAACGAGCTATG
1 CGAGGGCATCCGAGGCCAACCGAACGAGCTATG
* *
135339 CGAGGGCATCCGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCATCCGAGGCCAACCGAACGAGCTATG
* *
135372 CGAGGGAATCCGA-G-CAACCGAGCGAG
1 CGAGGGCATCCGAGGCCAACCGAACGAG
135398 GGTAGGTCGC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 12 0.22
32 1 0.02
33 41 0.76
ACGTcount: A:0.27, C:0.28, G:0.36, T:0.09
Consensus pattern (33 bp):
CGAGGGCATCCGAGGCCAACCGAACGAGCTATG
Found at i:135362 original size:43 final size:40
Alignment explanation
Indices: 135274--135362 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 40
135264 AGGCCATCCG
* *
135274 ACCGAGGCCATCTGAAAGCATTCGAGGCCATCCGAGAGCA
1 ACCGAGGCCATCCGAAAGCATGCGAGGCCATCCGAGAGCA
* * *
135314 TCCGAGGCCATCCGAACGAGCTATGCGAGGGCATCCGAGGGCA
1 ACCGAGGCCATCCGAA--AGC-ATGCGAGGCCATCCGAGAGCA
135357 ACCGAG
1 ACCGAG
135363 CGAGCTATGC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 14 0.35
42 3 0.08
43 23 0.57
ACGTcount: A:0.27, C:0.30, G:0.31, T:0.11
Consensus pattern (40 bp):
ACCGAGGCCATCCGAAAGCATGCGAGGCCATCCGAGAGCA
Found at i:135480 original size:33 final size:33
Alignment explanation
Indices: 135434--135498 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
135424 CCTACCCTCG
* *
135434 CTCGGTTGCCCTCGGATTCCCTCGCATAGCTCA
1 CTCGATTGCCCTCGGATGCCCTCGCATAGCTCA
*
135467 CTCGATTGTCCTCGGATGCCCTCGCATAGCTC
1 CTCGATTGCCCTCGGATGCCCTCGCATAGCTC
135499 GTTCGGATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.12, C:0.38, G:0.22, T:0.28
Consensus pattern (33 bp):
CTCGATTGCCCTCGGATGCCCTCGCATAGCTCA
Found at i:135515 original size:14 final size:14
Alignment explanation
Indices: 135496--135569 Score: 121
Period size: 14 Copynumber: 5.3 Consensus size: 14
135486 CCTCGCATAG
135496 CTCGTTCGGATGGC
1 CTCGTTCGGATGGC
135510 CTCGTTCGGATGGC
1 CTCGTTCGGATGGC
*
135524 CTCGTTCGGATGAC
1 CTCGTTCGGATGGC
*
135538 CTCGGTCGGATGGC
1 CTCGTTCGGATGGC
*
135552 CTCGGTCGGATGGC
1 CTCGTTCGGATGGC
135566 CTCG
1 CTCG
135570 GATGCCCAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 57 1.00
ACGTcount: A:0.08, C:0.30, G:0.36, T:0.26
Consensus pattern (14 bp):
CTCGTTCGGATGGC
Found at i:137346 original size:3 final size:3
Alignment explanation
Indices: 137338--137383 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
137328 ACTTTTTTAT
*
137338 ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
137384 ACTTATGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:137416 original size:2 final size:2
Alignment explanation
Indices: 137409--137585 Score: 104
Period size: 2 Copynumber: 89.0 Consensus size: 2
137399 TATAAATGTG
* *
137409 TA TA TA TA TA TA TT TA TA TA TA TA CT- TA TGC T- TA -A GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T-A TA TA TA -TA TA
* * * **
137449 TA AA TT TA TA TA AA GG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
137491 TA TA TA TA TA TA TA TA TA TA CA TT TA TA -A GTA TA AA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
*
137534 -A TA TA TA -A GTA TA TA TA TA -A GTA T- TA -A GTA TA TA CA TA
1 TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA
137572 -A GTA TA TA TA TA TA
1 TA -TA TA TA TA TA TA
137586 ATTAGACATG
Statistics
Matches: 136, Mismatches: 20, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
1 10 0.07
2 117 0.86
3 9 0.07
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:137998 original size:14 final size:14
Alignment explanation
Indices: 137959--138006 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
137949 TGATCTAATC
*
137959 TAATAAAATCATATT
1 TAATAAAAT-TTATT
*
137974 CAATAAAAATTTATT
1 TAAT-AAAATTTATT
137989 TAATAAAATTTATT
1 TAATAAAATTTATT
138003 TAAT
1 TAAT
138007 GATTATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 14 0.48
15 10 0.34
16 5 0.17
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATAAAATTTATT
Found at i:138207 original size:16 final size:16
Alignment explanation
Indices: 138177--138218 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
138167 TTCATTAATT
138177 GTAAATTAT-AAGTCAG
1 GTAAA-TATCAAGTCAG
*
138193 GTGAATATCAAGTCAG
1 GTAAATATCAAGTCAG
138209 GTAAATATCA
1 GTAAATATCA
138219 GATCATGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (16 bp):
GTAAATATCAAGTCAG
Found at i:138850 original size:2 final size:2
Alignment explanation
Indices: 138843--138882 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
138833 TTTAAAATTA
138843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
138883 TTGTTATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141938 original size:17 final size:16
Alignment explanation
Indices: 141912--141943 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
141902 CTTATTGGTG
141912 AAAAATAATAAATTAA
1 AAAAATAATAAATTAA
141928 AAAATATAATAAATTA
1 AAAA-ATAATAAATTA
141944 TAGGATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATAATAAATTAA
Found at i:141965 original size:15 final size:15
Alignment explanation
Indices: 141941--141972 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
141931 ATATAATAAA
*
141941 TTATAGGATTATCAT
1 TTATAAGATTATCAT
141956 TTATAAGATTATCAT
1 TTATAAGATTATCAT
141971 TT
1 TT
141973 TCGTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.50
Consensus pattern (15 bp):
TTATAAGATTATCAT
Found at i:142414 original size:5 final size:5
Alignment explanation
Indices: 142367--142515 Score: 78
Period size: 5 Copynumber: 28.0 Consensus size: 5
142357 TGTGTTGTAG
* *
142367 TATTA TTATTA TA-TA GTATT- TA-TA TAATA TATGTA TGTGTA TATTA
1 TATTA -TATTA TATTA -TATTA TATTA TATTA TAT-TA TAT-TA TATTA
*
142413 TA-TA GTATTATA TATTA TATTA TA-TA GTATATA GTATTA TATTA TAATA
1 TATTA -TA-T-TA TATTA TATTA TATTA -TAT-TA -TATTA TATTA TATTA
142462 TA-TA GTATATA GTATTA TATTA TATTA TA-TA GTATATA GTATTA TATTA
1 TATTA -TAT-TA -TATTA TATTA TATTA TATTA -TAT-TA -TATTA TATTA
142511 TATTA
1 TATTA
142516 CATAGTATGC
Statistics
Matches: 121, Mismatches: 4, Indels: 37
0.75 0.02 0.23
Matches are distributed among these distances:
3 1 0.01
4 14 0.12
5 62 0.51
6 22 0.18
7 20 0.17
8 2 0.02
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (5 bp):
TATTA
Found at i:142416 original size:7 final size:7
Alignment explanation
Indices: 142367--142633 Score: 89
Period size: 7 Copynumber: 38.6 Consensus size: 7
142357 TGTGTTGTAG
142367 TATTAT-
1 TATTATA
142373 TATTATA
1 TATTATA
* *
142380 TAGTATT
1 TATTATA
142387 TA-TATA
1 TATTATA
*
142393 -ATATATG
1 TAT-TATA
*
142400 TATGTGTA
1 TAT-TATA
142408 TATTATA
1 TATTATA
*
142415 TAGTAT-
1 TATTATA
142421 TATATATTA
1 TAT-TA-TA
142430 TATTATA
1 TATTATA
*
142437 TAGTATA
1 TATTATA
*
142444 TAGTATTA
1 TATTA-TA
142452 TATTATA
1 TATTATA
142459 -A-TATA
1 TATTATA
*
142464 TAGTATA
1 TATTATA
*
142471 TAGTAT-
1 TATTATA
142477 TA-TATTA
1 TATTA-TA
142484 TATTATA
1 TATTATA
*
142491 TAGTATA
1 TATTATA
*
142498 TAGTAT-
1 TATTATA
142504 TA-TATTA
1 TATTA-TA
*
142511 TATTACA
1 TATTATA
* *
142518 TAGTATG
1 TATTATA
*
142525 CATTATA
1 TATTATA
**
142532 CT-GCATA
1 -TATTATA
142539 TATTATA
1 TATTATA
*
142546 TAGTTGTCA
1 TA-TTAT-A
*
142555 TAATATA
1 TATTATA
142562 TATTATA
1 TATTATA
*
142569 TAGTATA
1 TATTATA
*
142576 TATTATG
1 TATTATA
*
142583 TGGTTAT-
1 T-ATTATA
*
142590 TA-CACTA
1 TATTA-TA
142597 TA-TATA
1 TATTATA
142603 TATTATA
1 TATTATA
*
142610 TAGTATA
1 TATTATA
142617 T-TTATA
1 TATTATA
142623 TCA-TATA
1 T-ATTATA
142630 TATT
1 TATT
142634 TATTAATATT
Statistics
Matches: 196, Mismatches: 38, Indels: 53
0.68 0.13 0.18
Matches are distributed among these distances:
5 10 0.05
6 31 0.16
7 120 0.61
8 29 0.15
9 6 0.03
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (7 bp):
TATTATA
Found at i:142431 original size:22 final size:21
Alignment explanation
Indices: 142373--142513 Score: 103
Period size: 22 Copynumber: 6.4 Consensus size: 21
142363 GTAGTATTAT
*
142373 TATTATATAGTAT-TTATATAA
1 TATTATATATTATATTATAT-A
* *
142394 TATATGTATGTGTATATTATATA
1 TAT-TATATAT-TATATTATATA
142417 GTATTATATATTATATTATATA
1 -TATTATATATTATATTATATA
142439 GTA-TATAGTATTATATTATA-A
1 -TATTATA-TATTATATTATATA
142460 TA-TATAGTATATAGTATTATATTA
1 TATTATA-TAT-TA-TATTATA-TA
*
142484 TATTATATAGTATA-TAGTATTA
1 TATTATATATTATATTA-TA-TA
142506 TATTATAT
1 TATTATAT
142514 TACATAGTAT
Statistics
Matches: 103, Mismatches: 6, Indels: 21
0.79 0.05 0.16
Matches are distributed among these distances:
20 10 0.10
21 12 0.12
22 52 0.50
23 11 0.11
24 14 0.14
25 4 0.04
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (21 bp):
TATTATATATTATATTATATA
Found at i:142436 original size:27 final size:27
Alignment explanation
Indices: 142370--142523 Score: 163
Period size: 27 Copynumber: 5.6 Consensus size: 27
142360 GTTGTAGTAT
* *
142370 TATTATTATATAGTATTTA-TATAATA
1 TATTATTATATAGTATATAGTATTATA
* *
142396 TATGTATGTGTATATTATATAGTATTATA
1 TAT-TAT-TATATAGTATATAGTATTATA
142425 TATTATATTATATAGTATATAGTATTATA
1 TA-T-TATTATATAGTATATAGTATTATA
*
142454 T-TATAATATATAGTATATAGTATTATA
1 TAT-TATTATATAGTATATAGTATTATA
142481 T-TATATTATATAGTATATAGTATTATA
1 TAT-TATTATATAGTATATAGTATTATA
*
142508 T-TATATTACATAGTAT
1 TAT-TATTATATAGTAT
142524 GCATTATACT
Statistics
Matches: 114, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
26 3 0.03
27 69 0.61
28 10 0.09
29 28 0.25
30 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (27 bp):
TATTATTATATAGTATATAGTATTATA
Found at i:142633 original size:27 final size:28
Alignment explanation
Indices: 142426--142631 Score: 166
Period size: 27 Copynumber: 7.5 Consensus size: 28
142416 AGTATTATAT
142426 ATTATAT-TATATAGTATATAGTATTAT
1 ATTATATATATATAGTATATAGTATTAT
142453 ATTATA-ATATATAGTATATAGTATTAT
1 ATTATATATATATAGTATATAGTATTAT
142480 ATTATAT-TATATAGTATATAGTATTAT
1 ATTATATATATATAGTATATAGTATTAT
* *
142507 ATTATAT-TACATAG--TAT-GCATTAT
1 ATTATATATATATAGTATATAGTATTAT
* * *
142531 ACTGCATATATTATATAGTTGTCATAATA-TAT
1 A-T-TATATA-TATATAG-TAT-ATAGTATTAT
* * * *
142563 ATTATATAGTATATATTATGTGGTTATTAC
1 ATTATATA-TATATAGTATATAG-TATTAT
*
142593 ACTATATATATAT--TATATAGTA-TAT
1 ATTATATATATATAGTATATAGTATTAT
142618 -TTATATCATATATA
1 ATTATAT-ATATATA
142632 TTTATTAATA
Statistics
Matches: 145, Mismatches: 19, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
24 12 0.08
25 12 0.08
26 6 0.04
27 70 0.48
28 7 0.05
29 9 0.06
30 20 0.14
31 2 0.01
32 6 0.04
33 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (28 bp):
ATTATATATATATAGTATATAGTATTAT
Found at i:142705 original size:27 final size:27
Alignment explanation
Indices: 142667--142725 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
142657 TTATTTTTAG
142667 GTCCAAATCCGATTTAAGTCTAGTTAA
1 GTCCAAATCCGATTTAAGTCTAGTTAA
142694 GTCCAAATCCGATTTAAGTCTAGTTAA
1 GTCCAAATCCGATTTAAGTCTAGTTAA
142721 GTCCA
1 GTCCA
142726 TGAAACAGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (27 bp):
GTCCAAATCCGATTTAAGTCTAGTTAA
Found at i:143165 original size:37 final size:36
Alignment explanation
Indices: 143118--143584 Score: 430
Period size: 37 Copynumber: 13.0 Consensus size: 36
143108 GGTTTTTGAA
* *
143118 ATATAT-ATATATAGTTTTTTAAAACATTTTGAAGAT
1 ATATATAATATATAG-TTTTGAAAACATTTTGAAAAT
*
143154 ATATATAATATATAGTTTTTGAAAACATTTTAAAAACT
1 ATATATAATATATAG-TTTTGAAAACATTTTGAAAA-T
*
143192 -TATATAATATATAGTTTTGATAACATTTTGAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTGAAAAT
* * *
143227 TTATATAATATATAGTTTTTTAAAACATTTTAAAAACT
1 ATATATAATATATAG-TTTTGAAAACATTTTGAAAA-T
*
143265 -TATATAATATATAATTTTGAAAACATTTTGAAAACT
1 ATATATAATATATAGTTTTGAAAACATTTTGAAAA-T
*
143301 -TATATAATATATAGTTTTTGAAAACATTTTTAAAA-
1 ATATATAATATATAG-TTTTGAAAACATTTTGAAAAT
*
143336 ACTTATATAATATATAGTTTTGAAAACATTTTTGAAAAC
1 A--TATATAATATATAGTTTTGAAAACA-TTTTGAAAAT
**** *
143375 ATATATAATATATAGTTTTGAATTTTTTTTAAAATAT
1 ATATATAATATATAGTTTTGAAAACATTTTGAAA-AT
*
143412 ATATATAATATATAGTTTT-AAAATATTTTTGAAAA-
1 ATATATAATATATAGTTTTGAAAACA-TTTTGAAAAT
* *
143447 ATATATATTATATAGTTTTGAAAATATTTTTG--AA-
1 ATATATAATATATAGTTTTGAAAACA-TTTTGAAAAT
* *
143481 ATATAT--TATATAGTTTTAAAAACAATTTTTAAAA-
1 ATATATAATATATAGTTTTGAAAAC-ATTTTGAAAAT
* *
143515 ATATAT--TATAT-GTTTTAAAAATAATTTTTG--AAT
1 ATATATAATATATAGTTTTGAAAA-CA-TTTTGAAAAT
* * *
143548 ATATATATTATATAGTTTTAAAAAAATTTTGGAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTT-GAAAAT
143585 GTTTTGAAAA
Statistics
Matches: 375, Mismatches: 30, Indels: 51
0.82 0.07 0.11
Matches are distributed among these distances:
32 21 0.06
33 18 0.05
34 29 0.08
35 27 0.07
36 104 0.28
37 151 0.40
38 24 0.06
39 1 0.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (36 bp):
ATATATAATATATAGTTTTGAAAACATTTTGAAAAT
Found at i:143223 original size:73 final size:73
Alignment explanation
Indices: 143118--143525 Score: 487
Period size: 73 Copynumber: 5.6 Consensus size: 73
143108 GGTTTTTGAA
* *
143118 ATATATATATATAGTTTTTTAAAACATTTTGAAGATATATATAATATATAGTTTTTGAAAACATT
1 ATATA-ATATATAG-TTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACATT
143183 TTAAAAACTT
64 TTAAAAACTT
* * *
143193 ATATAATATATAGTTTTGATAACATTTTGAAAATTTATATAATATATAGTTTTTTAAAACATTTT
1 ATATAATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTT
143258 AAAAACTT
66 AAAAACTT
*
143266 ATATAATATATAATTTTGAAAACATTTTGAAAACT-TATATAATATATAGTTTTTGAAAACATTT
1 ATATAATATATAGTTTTGAAAACATTTTGAAAA-TATATATAATATATAGTTTTTGAAAACA-TT
143330 TTAAAAACTT
64 TTAAAAACTT
* ****
143340 ATATAATATATAGTTTTGAAAACATTTTTGAAAACATATATAATATATAG-TTTTGAATTTTTTT
1 ATATAATATATAGTTTTGAAAACA-TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTT
143404 TAAAATA-TAT
65 TAAAA-ACT-T
* * *
143414 ATATAATATATAGTTTT-AAAATATTTTTGAAAA-ATATATATTATATAG-TTTTGAAAATATTT
1 ATATAATATATAGTTTTGAAAACA-TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTT
**
143476 TTGAAA--T
65 TAAAAACTT
* * *
143483 ATAT--TATATAGTTTTAAAAACAATTTTTAAAA-ATATATTATAT
1 ATATAATATATAGTTTTGAAAAC-ATTTTGAAAATATATATAATAT
143526 GTTTTAAAAA
Statistics
Matches: 300, Mismatches: 25, Indels: 23
0.86 0.07 0.07
Matches are distributed among these distances:
67 11 0.04
68 21 0.07
69 6 0.02
71 1 0.00
72 28 0.09
73 135 0.45
74 70 0.23
75 28 0.09
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (73 bp):
ATATAATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTT
AAAAACTT
Found at i:151650 original size:28 final size:30
Alignment explanation
Indices: 151591--151651 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
151581 AATATATATA
* **
151591 TATATATATATATTGATATAAATGTGTGTG
1 TATATATATATATAGATATAAATGTGCATG
*
151621 TATATATATATA-AG-TATATATGTGCATG
1 TATATATATATATAGATATAAATGTGCATG
151649 TAT
1 TAT
151652 GTACATATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.52
29 1 0.04
30 12 0.44
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (30 bp):
TATATATATATATAGATATAAATGTGCATG
Found at i:151699 original size:15 final size:14
Alignment explanation
Indices: 151619--151709 Score: 57
Period size: 14 Copynumber: 6.8 Consensus size: 14
151609 TAAATGTGTG
**
151619 TGTATATATATATA
1 TGTATATATATGCA
* *
151633 AGTATATATGTGCA
1 TGTATATATATGCA
* *
151647 TGTATGTACAT--A
1 TGTATATATATGCA
*
151659 TGTAT-GATATG--
1 TGTATATATATGCA
151670 TGTATATATATGCA
1 TGTATATATATGCA
*
151684 TGTATGTATGATGCA
1 TGTATATAT-ATGCA
*
151699 TTTATATATAT
1 TGTATATATAT
151710 ATTTATAAAT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
11 8 0.14
12 11 0.19
14 27 0.47
15 12 0.21
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.45
Consensus pattern (14 bp):
TGTATATATATGCA
Found at i:151704 original size:25 final size:25
Alignment explanation
Indices: 151658--151705 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
151648 GTATGTACAT
*
151658 ATGTATGATATGTGTATATATATGC
1 ATGTATGATATGTGCATATATATGC
*
151683 ATGTATG-TATGATGCATTTATAT
1 ATGTATGATATG-TGCATATATAT
151706 ATATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (25 bp):
ATGTATGATATGTGCATATATATGC
Found at i:151832 original size:3 final size:3
Alignment explanation
Indices: 151824--151866 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
151814 TATACTTATT
151824 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
151867 TATGCGTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:152035 original size:2 final size:2
Alignment explanation
Indices: 152028--152066 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
152018 AATTAACCTA
152028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
152067 ATCTCAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:152259 original size:13 final size:14
Alignment explanation
Indices: 152243--152276 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
152233 AATTTAATGA
152243 TTATAAT-TAAAAT
1 TTATAATATAAAAT
152256 TTAT-ATATAAAAT
1 TTATAATATAAAAT
152269 TTATAATA
1 TTATAATA
152277 GAATGGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 14 0.74
14 3 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTATAATATAAAAT
Found at i:153068 original size:19 final size:20
Alignment explanation
Indices: 153023--153068 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
153013 CAACATTGTA
*
153023 AAATAATTAATTTAATAATC
1 AAATAATTAATGTAATAATC
**
153043 TTA-AATTAATGTAA-AATC
1 AAATAATTAATGTAATAATC
153061 AAATAATT
1 AAATAATT
153069 TTACATTGTA
Statistics
Matches: 20, Mismatches: 5, Indels: 3
0.71 0.18 0.11
Matches are distributed among these distances:
18 5 0.25
19 14 0.70
20 1 0.05
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATAATTAATGTAATAATC
Found at i:153099 original size:2 final size:2
Alignment explanation
Indices: 153092--153131 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
153082 GTAAATCGTA
153092 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
153132 TAGACTGTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:159411 original size:92 final size:91
Alignment explanation
Indices: 159296--159464 Score: 221
Period size: 92 Copynumber: 1.8 Consensus size: 91
159286 TATAGCAGTG
* *
159296 TAGGTAGGATAAAGGGGTATGTGAGCTATGAGATGTAGCCCTTCAGATGCACCATGATGCCTACC
1 TAGGTAGGATAAAGGGGTATGTGAGCTACGAGATGTAGCCCATCAGATGCACCATGATGCCTACC
*
159361 TCAGTTTATGTGTGTTGTATAGTACTA
66 TCAG-ATATGTGTGTTGTATAGTACTA
* * * * * ** * *
159388 TAGGTAGGCTAGAGGGGTGTGTGAGCTCCGGGATGTAGCCCATCATCTGCACCATGGTGCTTACC
1 TAGGTAGGATAAAGGGGTATGTGAGCTACGAGATGTAGCCCATCAGATGCACCATGATGCCTACC
159453 TCAGATATGTGT
66 TCAGATATGTGT
159465 ATATGTTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
91 7 0.11
92 58 0.89
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (91 bp):
TAGGTAGGATAAAGGGGTATGTGAGCTACGAGATGTAGCCCATCAGATGCACCATGATGCCTACC
TCAGATATGTGTGTTGTATAGTACTA
Found at i:162588 original size:25 final size:25
Alignment explanation
Indices: 162560--162634 Score: 132
Period size: 25 Copynumber: 3.0 Consensus size: 25
162550 TTGAGTTATT
*
162560 ACCAACATCCAATACTAGTGGGATA
1 ACCAATATCCAATACTAGTGGGATA
162585 ACCAATATCCAATACTAGTGGGATA
1 ACCAATATCCAATACTAGTGGGATA
*
162610 ACCAGTATCCAATACTAGTGGGATA
1 ACCAATATCCAATACTAGTGGGATA
162635 TTGAGTCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (25 bp):
ACCAATATCCAATACTAGTGGGATA
Done.