Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008755.1 Hibiscus syriacus cultivar Beakdansim tig00111847_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: 3030620
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 14
Found at i:2434265 original size:11 final size:11
Alignment explanation
Indices: 2434251--2434343 Score: 62
Period size: 11 Copynumber: 7.8 Consensus size: 11
2434241 TATTATATAG
2434251 TTTTGAAAATA
1 TTTTGAAAATA
2434262 TTTTGAAAATA
1 TTTTGAAAATA
* *
2434273 TATAT-AATATTA
1 T-TTTGAA-AATA
*
2434285 GTTTTGAAAACA
1 -TTTTGAAAATA
2434297 TTTTGAAAATA
1 TTTTGAAAATA
* *
2434308 TATATGTTATATATA
1 T-T-T-TGA-AAATA
2434323 GTTTTGAAAATA
1 -TTTTGAAAATA
2434335 TTTTGAAAA
1 TTTTGAAAA
2434344 AAATATATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
11 34 0.54
12 14 0.22
13 6 0.10
14 3 0.05
15 5 0.08
16 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.45
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:2434372 original size:23 final size:21
Alignment explanation
Indices: 2434342--2434384 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
2434332 ATATTTTGAA
2434342 AAAAATATATATATATAGTTTTG
1 AAAAATATATAT-TAT-GTTTTG
2434365 AAAAATATATATTATGTTTT
1 AAAAATATATATTATGTTTT
2434385 TGATAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 3 0.15
23 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (21 bp):
AAAAATATATATTATGTTTTG
Found at i:2434374 original size:21 final size:22
Alignment explanation
Indices: 2434343--2434393 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
2434333 TATTTTGAAA
2434343 AAAATATATATA-TATAGTTTTG
1 AAAATATATATATTAT-GTTTTG
2434365 AAAA-ATATATATTATGTTTTTG
1 AAAATATATATATTATG-TTTTG
*
2434387 ATAATAT
1 AAAATAT
2434394 TTTTGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 8 0.32
22 15 0.60
23 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (22 bp):
AAAATATATATATTATGTTTTG
Found at i:2434535 original size:20 final size:20
Alignment explanation
Indices: 2434512--2434554 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2434502 TATATATATA
2434512 TTTTTTATTATTT-TATTAAT
1 TTTTTTATTATTTAT-TTAAT
*
2434532 TTTTTTCTTATTTATTTAAT
1 TTTTTTATTATTTATTTAAT
2434552 TTT
1 TTT
2434555 ATTTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTATTATTTATTTAAT
Found at i:2435792 original size:5 final size:5
Alignment explanation
Indices: 2435752--2435805 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
2435742 ACATTTATAC
* *
2435752 ATTTT -TTTT ATTTT -TTTAT ATTATT -TTTC ATCTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTT-T ATT-TT ATTTT ATTTT ATTTT ATTTT ATTTT
2435801 ATTTT
1 ATTTT
2435806 TCTCTTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
4 8 0.20
5 28 0.70
6 3 0.08
7 1 0.03
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:2437034 original size:140 final size:141
Alignment explanation
Indices: 2436855--2437115 Score: 425
Period size: 141 Copynumber: 1.9 Consensus size: 141
2436845 ATCGTTATGT
*
2436855 GATCGTTATGTATCAGAGCTTTTGGTTGTGAATTTTGTCAA-TTTTTTTGCGAGATTACTATTCA
1 GATCGTTATGTATCAGAGCTTTTGATTGTGAATTTTGTCAATTTTTTTTGCGAGATTACTATTCA
* * * *
2436919 TTACTATTCACGTGAGTAGTTAATTTCTTGAATTGTAAAATTGTGTCGGCGATACATAACTAATT
66 TTACTATTCACATGAATAATTAATTTCGTGAATTGTAAAATTGTGTCGGCGATACATAACTAATT
2436984 TAGGATGTTTG
131 TAGGATGTTTG
* * *
2436995 GATCGTTATGTATTAGAGCTTTTGATTGTGAATTTTGTCAATTTTTTTTGTGAGATTACTATTTA
1 GATCGTTATGTATCAGAGCTTTTGATTGTGAATTTTGTCAATTTTTTTTGCGAGATTACTATTCA
* *
2437060 TTACTATTCATATGAATAATTAATTTCGTGAATTGTATAATTGTGTCGGCGATACA
66 TTACTATTCACATGAATAATTAATTTCGTGAATTGTAAAATTGTGTCGGCGATACA
2437116 AATTTGTCGA
Statistics
Matches: 110, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
140 39 0.35
141 71 0.65
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (141 bp):
GATCGTTATGTATCAGAGCTTTTGATTGTGAATTTTGTCAATTTTTTTTGCGAGATTACTATTCA
TTACTATTCACATGAATAATTAATTTCGTGAATTGTAAAATTGTGTCGGCGATACATAACTAATT
TAGGATGTTTG
Found at i:2441193 original size:30 final size:31
Alignment explanation
Indices: 2441133--2441199 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
2441123 TGAACGTCAA
* *
2441133 GGTTGGCACCGAATGGTGCTTAATTTCAATG
1 GGTTGGCACCGAATGATGCATAATTTCAATG
2441164 GGTTGGCACCGAATGATGCATAA-TTCAATG
1 GGTTGGCACCGAATGATGCATAATTTCAATG
*
2441194 TGTTGG
1 GGTTGG
2441200 TAATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 12 0.36
31 21 0.64
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (31 bp):
GGTTGGCACCGAATGATGCATAATTTCAATG
Found at i:2444462 original size:20 final size:20
Alignment explanation
Indices: 2444434--2444485 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2444424 GTTTTGCCAA
*
2444434 TATCTGTACTACCTCAGCAG
1 TATCGGTACTACCTCAGCAG
2444454 TATCGGTACTACCTCAGCAG
1 TATCGGTACTACCTCAGCAG
2444474 TATCGGTACTAC
1 TATCGGTACTAC
2444486 TTCAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (20 bp):
TATCGGTACTACCTCAGCAG
Found at i:2444531 original size:50 final size:50
Alignment explanation
Indices: 2444473--2444631 Score: 137
Period size: 50 Copynumber: 3.1 Consensus size: 50
2444463 TACCTCAGCA
*
2444473 GTATCGGTACTACTTCAATATTTTGGGTTTTAGTATCAATATCATATATG
1 GTATCGGTACTACTTCAATATTTTGGGTTTTAGTATCGATATCATATATG
* * * * * * *
2444523 GTATCGGTACCATTTTAGTATTCT--GTTTTGACAGTATCGGTATTGCCTCAGTA--
1 GTATCGGTACTACTTCAATATTTTGGGTTTT---AGTATCGATA-T-CAT-A-TATG
*
2444576 GTATCGGTACTACTTCATTATTTTGGGTTTTAGTATCGATATCATATATG
1 GTATCGGTACTACTTCAATATTTTGGGTTTTAGTATCGATATCATATATG
*
2444626 TTATCG
1 GTATCG
2444632 ATACCATTTT
Statistics
Matches: 82, Mismatches: 16, Indels: 22
0.68 0.13 0.18
Matches are distributed among these distances:
48 7 0.09
49 1 0.01
50 26 0.32
51 9 0.11
52 10 0.12
53 21 0.26
54 1 0.01
55 7 0.09
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (50 bp):
GTATCGGTACTACTTCAATATTTTGGGTTTTAGTATCGATATCATATATG
Found at i:2444580 original size:103 final size:103
Alignment explanation
Indices: 2444451--2444720 Score: 398
Period size: 103 Copynumber: 2.6 Consensus size: 103
2444441 ACTACCTCAG
* * * *
2444451 CAGTATCGGTACTACCTCAGCAGTATCGGTACTACTTCAATATTTTGGGTTTTAGTATCAATATC
1 CAGTATCGGTACTGCCTCAGAAGTATCGGTACTACTTCATTATTTTGGGTTTTAGTATCGATATC
* *
2444516 ATATATGGTATCGGTACCATTTTAGT-ATTCTGTTTTGA
66 ATATATGGTATCGATACCATTTTA-TCATTATGTTTTGA
* *
2444554 CAGTATCGGTATTGCCTCAGTAGTATCGGTACTACTTCATTATTTTGGGTTTTAGTATCGATATC
1 CAGTATCGGTACTGCCTCAGAAGTATCGGTACTACTTCATTATTTTGGGTTTTAGTATCGATATC
*
2444619 ATATATGTTATCGATACCATTTTATCATTATGTTTTGA
66 ATATATGGTATCGATACCATTTTATCATTATGTTTTGA
* * * * *
2444657 CAGTATCGTTACTGTCTCAGAAGTATCAGTACTACTTCATTATTTTGGATTTCAGTATCGATAT
1 CAGTATCGGTACTGCCTCAGAAGTATCGGTACTACTTCATTATTTTGGGTTTTAGTATCGATAT
2444721 ATGTATCGAT
Statistics
Matches: 151, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
102 1 0.01
103 150 0.99
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (103 bp):
CAGTATCGGTACTGCCTCAGAAGTATCGGTACTACTTCATTATTTTGGGTTTTAGTATCGATATC
ATATATGGTATCGATACCATTTTATCATTATGTTTTGA
Found at i:2446515 original size:2 final size:2
Alignment explanation
Indices: 2446508--2446574 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
2446498 TATGTATACC
2446508 TA TA TA TA TA TA TA TA 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
2446550 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 T
2446575 TTTTAATGAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2451019 original size:11 final size:11
Alignment explanation
Indices: 2451003--2451028 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2450993 GTGGGGGCAG
2451003 GCGGATGCGGT
1 GCGGATGCGGT
2451014 GCGGATGCGGT
1 GCGGATGCGGT
2451025 GCGG
1 GCGG
2451029 GTAAGGTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.19, G:0.58, T:0.15
Consensus pattern (11 bp):
GCGGATGCGGT
Found at i:2452408 original size:26 final size:26
Alignment explanation
Indices: 2452379--2452445 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
2452369 GTTCAAGCCT
*
2452379 TTTCGAGTTCAAGTTTTAATATTATA
1 TTTCGAGTTCGAGTTTTAATATTATA
2452405 TTTCGAGTTCGAGTTTTAATATTATA
1 TTTCGAGTTCGAGTTTTAATATTATA
2452431 TTTCGAGTTCGAGTT
1 TTTCGAGTTCGAGTT
2452446 GAACTTAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.49
Consensus pattern (26 bp):
TTTCGAGTTCGAGTTTTAATATTATA
Found at i:2452619 original size:11 final size:10
Alignment explanation
Indices: 2452595--2452628 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2452585 AAATTGACGG
2452595 TTTTTTCCGA
1 TTTTTTCCGA
*
2452605 TTTTTTCTGA
1 TTTTTTCCGA
*
2452615 TTTTTTCCGG
1 TTTTTTCCGA
2452625 TTTT
1 TTTT
2452629 CAACCGGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.06, C:0.15, G:0.12, T:0.68
Consensus pattern (10 bp):
TTTTTTCCGA
Found at i:2453127 original size:30 final size:30
Alignment explanation
Indices: 2453052--2453143 Score: 139
Period size: 30 Copynumber: 3.1 Consensus size: 30
2453042 CAGTGTGATA
*
2453052 GGAGGTCGCCAAGTGCTCCGAACGACTTAT
1 GGAGGTCGCCAAGTGTTCCGAACGACTTAT
2453082 GGAGGTCGCCAAGTGTTCCGAACGACTTAT
1 GGAGGTCGCCAAGTGTTCCGAACGACTTAT
* ** *
2453112 GGAGGTCGTCAAGTGTTCTAAACGACCTAT
1 GGAGGTCGCCAAGTGTTCCGAACGACTTAT
2453142 GG
1 GG
2453144 TCGCTGTTGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (30 bp):
GGAGGTCGCCAAGTGTTCCGAACGACTTAT
Found at i:2453260 original size:28 final size:29
Alignment explanation
Indices: 2453226--2453288 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
2453216 CCATGCACGG
*
2453226 TAGGTCG-CTTGTGCTCCATGCAATCATA
1 TAGGTCGCCTTGTGCTCCATGCAACCATA
* *
2453254 TAGGTCGCCTTGTGCTTCATGCGACCATA
1 TAGGTCGCCTTGTGCTCCATGCAACCATA
2453283 TAGGTC
1 TAGGTC
2453289 ATCGTGTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (29 bp):
TAGGTCGCCTTGTGCTCCATGCAACCATA
Found at i:2453296 original size:29 final size:29
Alignment explanation
Indices: 2453235--2453310 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
2453225 GTAGGTCGCT
* * * * *
2453235 TGTGCTCCATGCAATCATATAGGTCGCCT
1 TGTGCTTCATGCGACCATATAGGTCACCG
*
2453264 TGTGCTTCATGCGACCATATAGGTCATCG
1 TGTGCTTCATGCGACCATATAGGTCACCG
*
2453293 TGTGCTTTATGCGACCAT
1 TGTGCTTCATGCGACCAT
2453311 GCGACCATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (29 bp):
TGTGCTTCATGCGACCATATAGGTCACCG
Found at i:2453321 original size:37 final size:37
Alignment explanation
Indices: 2453271--2453354 Score: 159
Period size: 37 Copynumber: 2.3 Consensus size: 37
2453261 CCTTGTGCTT
2453271 CATGCGACCATATAGGTCATCGTGTGCTTTATGCGAC
1 CATGCGACCATATAGGTCATCGTGTGCTTTATGCGAC
*
2453308 CATGCGACCATATAGGTCGTCGTGTGCTTTATGCGAC
1 CATGCGACCATATAGGTCATCGTGTGCTTTATGCGAC
2453345 CATGCGACCA
1 CATGCGACCA
2453355 AGCAACGGCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.27
Consensus pattern (37 bp):
CATGCGACCATATAGGTCATCGTGTGCTTTATGCGAC
Found at i:2453712 original size:46 final size:43
Alignment explanation
Indices: 2453654--2453805 Score: 198
Period size: 46 Copynumber: 3.3 Consensus size: 43
2453644 AGTTTAAATT
2453654 ATTAGTTTGTTAGTTTAAGTTATATTATATA-ACCAAAATATAGTTA
1 ATTAGTTTGTTAGTTTAAGTTATATTATATATA--AAAAT-TA-TTA
*
2453700 ATTAATTTGTTAGTTTAAGTTATATTATATATAAAAATTTACTTA
1 ATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAA-TTA-TTA
*
2453745 ATTAGTTTGTTTGTTATAAGTTATATTATATATATAAAATTATTCA
1 ATTAGTTTGTTAGTT-TAAGTTATATTATATATA-AAAATTATT-A
2453791 ATTAGTTTGTTAGTT
1 ATTAGTTTGTTAGTT
2453806 ACGTAGTTTA
Statistics
Matches: 96, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
45 24 0.25
46 67 0.70
47 5 0.05
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.51
Consensus pattern (43 bp):
ATTAGTTTGTTAGTTTAAGTTATATTATATATAAAAATTATTA
Found at i:2453936 original size:33 final size:32
Alignment explanation
Indices: 2453860--2454053 Score: 172
Period size: 33 Copynumber: 5.6 Consensus size: 32
2453850 ATACAAAATT
*
2453860 TAGTTAATTAGTTTAAGTTATATTATAATAAAAA
1 TAGTTTATTAGTTTAAGTTATA-TATAA-AAAAA
*
2453894 TAGTTTATTAGCTTAAGTTATATCATAAAAAAA
1 TAGTTTATTAGTTTAAGTTATAT-ATAAAAAAA
* *
2453927 TAGTGTATTAGTTTAAGTTATATTTAAAAAAAA
1 TAGTTTATTAGTTTAAGTTATATAT-AAAAAAA
2453960 TAGTTTCTTAGTTTAAGTTTAAGTTATATTATATTAAAAAAA
1 TAG--T-TTA--TT-AGTTTAAG-T-TA-TATA-TAAAAAAA
* * **
2454002 TAATTTATTAATTTAAGTTATATTATAAAAACG
1 TAGTTTATTAGTTTAAGTTATA-TATAAAAAAA
*
2454035 TAGTTTATTAGTTGAAGTT
1 TAGTTTATTAGTTTAAGTT
2454054 GAAGTTATAT
Statistics
Matches: 133, Mismatches: 14, Indels: 27
0.76 0.08 0.16
Matches are distributed among these distances:
32 1 0.01
33 61 0.46
34 28 0.21
35 2 0.02
36 9 0.07
37 2 0.02
38 2 0.02
39 11 0.08
40 2 0.02
41 2 0.02
42 12 0.09
43 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (32 bp):
TAGTTTATTAGTTTAAGTTATATATAAAAAAA
Found at i:2453981 original size:39 final size:39
Alignment explanation
Indices: 2453906--2454088 Score: 151
Period size: 39 Copynumber: 4.9 Consensus size: 39
2453896 GTTTATTAGC
* *
2453906 TTAAGTTATA-TCATAAAAAAATAG--TGTA--TT-AGT
1 TTAAGTTATATTTATAAAAAAATAGTTTTTAGTTTAAGT
2453939 TTAAGTTATATTTA-AAAAAAATAGTTTCTTAGTTTAAGT
1 TTAAGTTATATTTATAAAAAAATAGTTT-TTAGTTTAAGT
*
2453978 TTAAGTTATATTATATTAAAAAAATA--ATTTA--TTAA-T
1 TTAAGTTATATT-TA-TAAAAAAATAGTTTTTAGTTTAAGT
** *
2454014 TTAAGTTATA-TTATAAAAACGTAGTTTATTAGTTGAAGT
1 TTAAGTTATATTTATAAAAAAATAGTTT-TTAGTTTAAGT
*
2454053 TGAAGTTATATTTA-AAAAAAATTAGTTTGTTAGTTT
1 TTAAGTTATATTTATAAAAAAA-TAGTTT-TTAGTTT
2454089 GATAATTTTT
Statistics
Matches: 120, Mismatches: 12, Indels: 29
0.75 0.07 0.18
Matches are distributed among these distances:
33 28 0.23
34 4 0.03
35 3 0.03
36 16 0.13
37 4 0.03
38 5 0.04
39 33 0.28
40 18 0.15
42 9 0.08
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (39 bp):
TTAAGTTATATTTATAAAAAAATAGTTTTTAGTTTAAGT
Found at i:2453998 original size:75 final size:73
Alignment explanation
Indices: 2453908--2454088 Score: 215
Period size: 75 Copynumber: 2.5 Consensus size: 73
2453898 TTATTAGCTT
* * *
2453908 AAGTTATA-TCATAAAAAAATAGTGTATTAGTTTAAGTTATATT-TAAAAAAAATAGTTTCTTAG
1 AAGTTATATTTATAAAAAAATAGTTTATTAGTTTAAGTTATATTAT-AAAAAAATAGTTTATTAG
* *
2453971 TTTAAGTTT
65 TTGAAGTTG
* * **
2453980 AAGTTATATTATATTAAAAAAATAATTTATTAATTTAAGTTATATTATAAAAACGTAGTTTATTA
1 AAGTTATATT-TA-TAAAAAAATAGTTTATTAGTTTAAGTTATATTATAAAAAAATAGTTTATTA
2454045 GTTGAAGTTG
64 GTTGAAGTTG
*
2454055 AAGTTATATTTA-AAAAAAATTAGTTTGTTAGTTT
1 AAGTTATATTTATAAAAAAA-TAGTTTATTAGTTT
2454089 GATAATTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
72 15 0.16
73 12 0.13
74 3 0.03
75 61 0.66
76 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (73 bp):
AAGTTATATTTATAAAAAAATAGTTTATTAGTTTAAGTTATATTATAAAAAAATAGTTTATTAGT
TGAAGTTG
Found at i:2454018 original size:108 final size:110
Alignment explanation
Indices: 2453869--2454088 Score: 286
Period size: 108 Copynumber: 2.0 Consensus size: 110
2453859 TTAGTTAATT
* * *
2453869 AGTTTAAGTTATATTATAATAAAAATAGTTTATTAGCTTAAGTTATATCATAAAAAAATAGTGTA
1 AGTTTAAGTTATATTATAAAAAAAATAATTTATTAACTTAAGTTATATCATAAAAAAATAGTGTA
2453934 TTAG-T-TT-AAGTTATATTTAAAAAAAA-TAGTTTCTTAGTTTA
66 TTAGTTATTGAAGTTATATTTAAAAAAAATTAGTTTCTTAGTTTA
* * ** *
2453975 AGTTTAAGTTATATTATATTAAAAAAATAATTTATTAATTTAAGTTATATTATAAAAACGTAGTT
1 AGTTTAAGTTATATTATA--AAAAAAATAATTTATTAACTTAAGTTATATCATAAAAAAATAGTG
*
2454040 TATTAGTTGAAGTTGAAGTTATATTTAAAAAAAATTAGTTTGTTAGTTT
64 TATTAGTT--A-TTGAAGTTATATTTAAAAAAAATTAGTTTCTTAGTTT
2454089 GATAATTTTT
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
106 18 0.19
108 43 0.45
109 1 0.01
113 2 0.02
114 19 0.20
115 13 0.14
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (110 bp):
AGTTTAAGTTATATTATAAAAAAAATAATTTATTAACTTAAGTTATATCATAAAAAAATAGTGTA
TTAGTTATTGAAGTTATATTTAAAAAAAATTAGTTTCTTAGTTTA
Found at i:2456305 original size:21 final size:22
Alignment explanation
Indices: 2456267--2456311 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
2456257 TCCAAAGGGG
2456267 ATGAAAGAGCAAAATGG-TGGA
1 ATGAAAGAGCAAAATGGTTGGA
* * *
2456288 ATGACAGAGCATAGTGGTTGGA
1 ATGAAAGAGCAAAATGGTTGGA
2456310 AT
1 AT
2456312 ATATTTACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (22 bp):
ATGAAAGAGCAAAATGGTTGGA
Found at i:2456960 original size:16 final size:17
Alignment explanation
Indices: 2456938--2456978 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
2456928 TTCGATTATT
*
2456938 TATAAATAATAATAAGA
1 TATAAATAATAATAAAA
2456955 TA-AAATAATAATAAAA
1 TATAAATAATAATAAAA
2456971 TATAAATA
1 TATAAATA
2456979 TTTCAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
TATAAATAATAATAAAA
Found at i:2458442 original size:19 final size:19
Alignment explanation
Indices: 2458418--2458455 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2458408 ATTAGTGAGG
2458418 CCAGGTGAGTACATGATAT
1 CCAGGTGAGTACATGATAT
2458437 CCAGGTGAGTACATGATAT
1 CCAGGTGAGTACATGATAT
2458456 TAAGTGTACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
CCAGGTGAGTACATGATAT
Found at i:2459064 original size:18 final size:18
Alignment explanation
Indices: 2459041--2459075 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2459031 AGGGATTATC
2459041 AGTGGTCCTT-CGGGACAT
1 AGTGGT-CTTACGGGACAT
2459059 AGTGGTCTTACGGGACA
1 AGTGGTCTTACGGGACA
2459076 AATTTCTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCTTACGGGACAT
Found at i:2463104 original size:29 final size:29
Alignment explanation
Indices: 2463058--2463125 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
2463048 CGCATGGAGA
*
2463058 ACACGACGCCCTTCATGGTCACATAGAGC
1 ACACGACGACCTTCATGGTCACATAGAGC
** *
2463087 ACACGACGACCTAT-ATGGTTGCATGGAGC
1 ACACGACGACCT-TCATGGTCACATAGAGC
*
2463116 ACAAGACGAC
1 ACACGACGAC
2463126 GCTGCAACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 32 0.97
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (29 bp):
ACACGACGACCTTCATGGTCACATAGAGC
Found at i:2463212 original size:30 final size:30
Alignment explanation
Indices: 2463178--2463239 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
2463168 GCAACAGTGA
* *
2463178 CCATAGGTCGTTCGGAGCACTTGGGGACCT
1 CCATAGGTCGTTCGGAGCACTTAGCGACCT
*
2463208 CCATAGGTCGTTCGGAGTACTTAGCGACCT
1 CCATAGGTCGTTCGGAGCACTTAGCGACCT
2463238 CC
1 CC
2463240 TATCACACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.24
Consensus pattern (30 bp):
CCATAGGTCGTTCGGAGCACTTAGCGACCT
Found at i:2463795 original size:31 final size:31
Alignment explanation
Indices: 2463760--2463838 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
2463750 AGTTTCAAAA
*
2463760 GTAATAAATTGTTCACTAACATTATCGA-TTT
1 GTAATAAAATGTTCACTAACATTATC-ATTTT
* *
2463791 GTAATAAAATGATT-ACTGACGTTATCATTTT
1 GTAATAAAATG-TTCACTAACATTATCATTTT
*
2463822 GTAATAAAATATTCACT
1 GTAATAAAATGTTCACT
2463839 TTACTGACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.07
31 36 0.88
32 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (31 bp):
GTAATAAAATGTTCACTAACATTATCATTTT
Found at i:2464103 original size:20 final size:19
Alignment explanation
Indices: 2464037--2464107 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
2464027 ATTTTTTTAA
2464037 AAAAAT-TAAAA-ATCTAT
1 AAAAATATAAAATATCTAT
* *
2464054 GAAAAT-TAAAATATGTA-
1 AAAAATATAAAATATCTAT
*
2464071 AACAAAAATTAAAATATCTAT
1 AA-AAATA-TAAAATATCTAT
2464092 AAAAATACTAAAATAT
1 AAAAATA-TAAAATAT
2464108 GACGAGTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
17 11 0.26
18 7 0.17
20 22 0.52
21 2 0.05
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAATATAAAATATCTAT
Found at i:2465485 original size:8 final size:8
Alignment explanation
Indices: 2465472--2465499 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
2465462 GGTATCGGGC
2465472 CGGGTAAT
1 CGGGTAAT
2465480 CGGGTAAT
1 CGGGTAAT
2465488 CGGGTAAT
1 CGGGTAAT
2465496 CGGG
1 CGGG
2465500 GCGGGGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.43, T:0.21
Consensus pattern (8 bp):
CGGGTAAT
Found at i:2467148 original size:65 final size:65
Alignment explanation
Indices: 2467079--2467200 Score: 201
Period size: 65 Copynumber: 1.9 Consensus size: 65
2467069 TACACTAGGG
*
2467079 GTGCATCAGTACACAAAATGCATTCGATGTTTCAAA-ATATTCAAGAGTGCATCGATGCATTGCT
1 GTGCATCAGTACACAAAATGCATTCGAAGTTTCAAATA-ATTCAAGAGTGCATCGATGCATTGCT
2467143 T
65 T
* *
2467144 GTGCATCAGTACACAAAATGCATTCGAAGTTTCAATTAATTCAAGGGTGCATCGATG
1 GTGCATCAGTACACAAAATGCATTCGAAGTTTCAAATAATTCAAGAGTGCATCGATG
2467201 TATTAAATGG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
65 52 0.98
66 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (65 bp):
GTGCATCAGTACACAAAATGCATTCGAAGTTTCAAATAATTCAAGAGTGCATCGATGCATTGCTT
Found at i:2469642 original size:23 final size:22
Alignment explanation
Indices: 2469608--2469687 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
2469598 CACAGGAGAG
2469608 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCAAGG-A
* * * *
2469631 TGCATCGGTGCACCTTTATGG-
1 TGCATCGATGCACATTCAAGGA
*
2469652 TGTATCGATGCACATTCAAGGGA
1 TGCATCGATGCACATTCAA-GGA
2469675 TGCATCGATGCAC
1 TGCATCGATGCAC
2469688 TGTCTAGTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 14 0.31
22 2 0.04
23 29 0.64
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:2469661 original size:44 final size:43
Alignment explanation
Indices: 2469591--2469706 Score: 142
Period size: 44 Copynumber: 2.7 Consensus size: 43
2469581 CAATGGGTGT
* * * *
2469591 ATCGATGCACAGGAGAGTGCATCGATGCACATTCAAGGAATGC
1 ATCGATGCACTGTATAGTGTATCGATGCACATTCAAGGAATGC
* * * *
2469634 ATCGGTGCACCTTTATGGTGTATCGATGCACATTCAAGGGATGC
1 ATCGATGCA-CTGTATAGTGTATCGATGCACATTCAAGGAATGC
*
2469678 ATCGATGCACTGTCTAGTGTATCGATGCA
1 ATCGATGCACTGTATAGTGTATCGATGCA
2469707 TAGTGCACAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 25 0.42
44 35 0.58
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (43 bp):
ATCGATGCACTGTATAGTGTATCGATGCACATTCAAGGAATGC
Found at i:2475721 original size:3 final size:3
Alignment explanation
Indices: 2475715--2475787 Score: 114
Period size: 3 Copynumber: 24.7 Consensus size: 3
2475705 ATTTATTATT
*
2475715 TAA TAA TAA TAA T-A TAA -CA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2475761 TAA TAA TAA TAA TAA TAA TAA TTAA TA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TA
2475788 TAAGCAAATG
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 3 0.05
3 59 0.91
4 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2476580 original size:113 final size:113
Alignment explanation
Indices: 2476113--2476869 Score: 1126
Period size: 113 Copynumber: 6.8 Consensus size: 113
2476103 AGCATCAAAC
* * *
2476113 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTT-C--CTTCAGATGAGTTCTTCTTATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
2476175 ATGAACT-TTCTCTAGAAAAGTTAATCCATTAAGTGATGAATTC-AGGCA
66 ATGAACTCTAC-CTGGAAATGTTGATCCATCAAGTGATGAATTCGA-ACA
* * * * *
2476223 AAAGGTTGATCAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
2476287 ATGAACT-TTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCGAGCA
66 ATGAACTCTAC-CTGGAAATGTTGATCCATCAAGTGATGAATTCGAACA
2476335 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTT-C--CTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
2476397 ATGAACTCT-TCTGGAAATGCTGATCCATCGAA-TGATGAATTC-AAGCA
66 ATGAACTCTACCTGGAAATGTTGATCCATC-AAGTGATGAATTCGAA-CA
* * *
2476444 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
2476509 ATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGGATTCGAACA
66 ATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGAATTCGAACA
* *
2476557 AAAGATTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
2476622 ATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGGATTCGAACA
66 ATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGAATTCGAACA
*
2476670 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
2476735 ATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGAATTTGAACA
66 ATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGAATTCGAACA
*
2476783 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
2476848 ATGAACTCTACCTGGAAATGTT
66 ATGAACTCTACCTGGAAATGTT
2476870 TTAAGAAAGA
Statistics
Matches: 603, Mismatches: 32, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
108 1 0.00
109 66 0.11
110 66 0.11
111 3 0.00
112 130 0.22
113 335 0.56
114 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTACCTGGAAATGTTGATCCATCAAGTGATGAATTCGAACA
Found at i:2480509 original size:114 final size:114
Alignment explanation
Indices: 2480309--2480533 Score: 387
Period size: 114 Copynumber: 2.0 Consensus size: 114
2480299 AGAATATCAT
* *
2480309 CAAATTCATCTTTTAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCA
1 CAAATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCA
* * *
2480374 AAGAACACTTCCATAAGATGCTATTGGATTTTCTTATTTCTACTATAAG
66 AAGAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTATAAG
2480423 CAAATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCA
1 CAAATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCA
* *
2480488 AAGAATACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTAT
66 AAGAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTAT
2480534 GAGAACGTGA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (114 bp):
CAAATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCA
AAGAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTATAAG
Found at i:2484609 original size:12 final size:12
Alignment explanation
Indices: 2484594--2484621 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2484584 ACAAACATAA
2484594 AAATGCAAATGT
1 AAATGCAAATGT
2484606 AAATGCAAATGT
1 AAATGCAAATGT
2484618 AAAT
1 AAAT
2484622 ATGTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (12 bp):
AAATGCAAATGT
Found at i:2484620 original size:26 final size:26
Alignment explanation
Indices: 2484562--2484620 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
2484552 AAATGTAATT
2484562 ATGTAAAAATGAAAATGTAAATACAA
1 ATGTAAAAATGAAAATGTAAATACAA
** * *
2484588 ACATAAAAATGCAAATGTAAATGCAA
1 ATGTAAAAATGAAAATGTAAATACAA
2484614 ATGTAAA
1 ATGTAAA
2484621 TATGTGAATG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.22
Consensus pattern (26 bp):
ATGTAAAAATGAAAATGTAAATACAA
Found at i:2484714 original size:7 final size:7
Alignment explanation
Indices: 2484680--2484721 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
2484670 ATAAAAGTAT
2484680 AAATGCA
1 AAATGCA
* *
2484687 CAATGAA
1 AAATGCA
2484694 AAATGCA
1 AAATGCA
2484701 AAGATGCA
1 AA-ATGCA
2484709 AAATGC-
1 AAATGCA
2484715 AAATGCA
1 AAATGCA
2484722 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:2488584 original size:3 final size:3
Alignment explanation
Indices: 2488578--2488636 Score: 102
Period size: 3 Copynumber: 19.7 Consensus size: 3
2488568 ATTTATTATT
2488578 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2488625 TAA TAA TTAA TA
1 TAA TAA -TAA TA
2488637 TAAGCAAATG
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2489467 original size:11 final size:11
Alignment explanation
Indices: 2489451--2489485 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
2489441 TTACATTGAG
2489451 AAAATAACAAA
1 AAAATAACAAA
*
2489462 AAAATAA-ATA
1 AAAATAACAAA
2489472 AAAATAACAAA
1 AAAATAACAAA
2489483 AAA
1 AAA
2489486 TATTAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAATAACAAA
Found at i:2489624 original size:16 final size:15
Alignment explanation
Indices: 2489591--2489632 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
2489581 TGTTAAATTT
2489591 TAAAAGAAATAAAAAA
1 TAAAAGAAA-AAAAAA
*
2489607 TAAAAGAAAAAAGTAA
1 TAAAAGAAAAAA-AAA
2489623 TAAAA-AAAAA
1 TAAAAGAAAAA
2489633 TTAAAGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (15 bp):
TAAAAGAAAAAAAAA
Found at i:2493035 original size:44 final size:45
Alignment explanation
Indices: 2492938--2493048 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 45
2492928 ATTCATGTTT
* * * * *
2492938 AATAATACA-CCATTATGCATTTTCAAGTGTGGTATACATTTATGCC
1 AATAATGCACCCA-TATGCA-TTTCAACTATGGCATACATTCATGCC
* *
2492984 AATAATGCATCTATATGCATTTCAACTATGGCATA-ATTCATGCC
1 AATAATGCACCCATATGCATTTCAACTATGGCATACATTCATGCC
2493028 AATAATGCACCCATATGCATT
1 AATAATGCACCCATATGCATT
2493049 ATTCTTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 27 0.48
45 13 0.23
46 14 0.25
47 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (45 bp):
AATAATGCACCCATATGCATTTCAACTATGGCATACATTCATGCC
Found at i:2493067 original size:34 final size:34
Alignment explanation
Indices: 2493023--2493116 Score: 170
Period size: 34 Copynumber: 2.8 Consensus size: 34
2493013 GGCATAATTC
*
2493023 ATGCCAATAATGCACCCATATGCATTATTCTTTT
1 ATGCCGATAATGCACCCATATGCATTATTCTTTT
*
2493057 ATGCTGATAATGCACCCATATGCATTATTCTTTT
1 ATGCCGATAATGCACCCATATGCATTATTCTTTT
2493091 ATGCCGATAATGCACCCATATGCATT
1 ATGCCGATAATGCACCCATATGCATT
2493117 TCAGCTAGGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (34 bp):
ATGCCGATAATGCACCCATATGCATTATTCTTTT
Found at i:2493220 original size:42 final size:46
Alignment explanation
Indices: 2493169--2493265 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 46
2493159 ATTATTATTT
*
2493169 TATTCATTCATTTTAGAGTAGTTCATACTCTAAAACTCATTCATAA
1 TATTCATTCATTTTAGAGTAGTTCATACTCTAAAACCCATTCATAA
*
2493215 TATTCATTCATTTTAGAGTAGTTCATACTCTAAAACCCATTTATAA
1 TATTCATTCATTTTAGAGTAGTTCATACTCTAAAACCCATTCATAA
2493261 TATTC
1 TATTC
2493266 TTTCCATACA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (46 bp):
TATTCATTCATTTTAGAGTAGTTCATACTCTAAAACCCATTCATAA
Found at i:2493692 original size:95 final size:96
Alignment explanation
Indices: 2493588--2493788 Score: 239
Period size: 95 Copynumber: 2.1 Consensus size: 96
2493578 TCTATACTAC
* * * *** *
2493588 TATCCTGGTACCGATACTTCAATACTATGGTATCGATACTTTC-TACGAGTATCAATTCCAAAAT
1 TATCATGGTACCGATACTACAATACTATGGTACCGATACCCCCTTACG-GTATCAATACCAAAAT
*
2493652 TATG-TTTGATG-TTGCCTGGTATCGATACCCT
65 TA-GATTCGATGTTTGCCTGGTATCGATACCCT
* * *
2493683 TATCATGGTATCGATACTACAATACTATGGTACCGATACCCCCTTATGGTATCGATACCAAAATT
1 TATCATGGTACCGATACTACAATACTATGGTACCGATACCCCCTTACGGTATCAATACCAAAATT
*
2493748 AGATTCGATGTTTGCTTGGTATCGATACCCT
66 AGATTCGATGTTTGCCTGGTATCGATACCCT
2493779 TA-CAATGGTA
1 TATC-ATGGTA
2493789 TTGATACTGC
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
94 1 0.01
95 59 0.66
96 30 0.33
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (96 bp):
TATCATGGTACCGATACTACAATACTATGGTACCGATACCCCCTTACGGTATCAATACCAAAATT
AGATTCGATGTTTGCCTGGTATCGATACCCT
Found at i:2496052 original size:17 final size:18
Alignment explanation
Indices: 2496030--2496066 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
2496020 ATGCAAATGA
2496030 AAAAAATGAAA-GAAAAC
1 AAAAAATGAAAGGAAAAC
2496047 AAAAAATGAAAGGAAAAC
1 AAAAAATGAAAGGAAAAC
2496065 AA
1 AA
2496067 GTTAGTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.76, C:0.05, G:0.14, T:0.05
Consensus pattern (18 bp):
AAAAAATGAAAGGAAAAC
Found at i:2497953 original size:15 final size:14
Alignment explanation
Indices: 2497935--2497981 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
2497925 ATCATATGAA
*
2497935 ATGTGATAGAGAGCT
1 ATGTGATA-AGAACT
2497950 ATGTGA-AAGAACT
1 ATGTGATAAGAACT
*
2497963 ATGTGATATGAA-T
1 ATGTGATAAGAACT
2497976 ATGTGA
1 ATGTGA
2497982 ATGTATAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 18 0.62
14 5 0.17
15 6 0.21
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (14 bp):
ATGTGATAAGAACT
Found at i:2503909 original size:28 final size:28
Alignment explanation
Indices: 2503851--2503909 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
2503841 ATCAAAGAGG
* **
2503851 GAAAAGAAAAAAAATAAAACTACATTGA
1 GAAAAGAAAAAAAATAAAAATACATAAA
*
2503879 GAAAATAACAAAAAATAAAAATA-ATAAA
1 GAAAAGAA-AAAAAATAAAAATACATAAA
2503907 GAA
1 GAA
2503910 GGTTAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (28 bp):
GAAAAGAAAAAAAATAAAAATACATAAA
Found at i:2503977 original size:5 final size:5
Alignment explanation
Indices: 2503967--2503994 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2503957 GGAAAATATT
2503967 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
2503995 AATGAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:2504053 original size:17 final size:18
Alignment explanation
Indices: 2504015--2504054 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2504005 ATGTTAAATT
**
2504015 TTAAAAGAAAAAAATATG
1 TTAAAAGAAAAAAATAAA
2504033 TTAAAAGAAAAAAA-AAA
1 TTAAAAGAAAAAAATAAA
2504050 TTAAA
1 TTAAA
2504055 GACGCCTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
TTAAAAGAAAAAAATAAA
Found at i:2504590 original size:5 final size:5
Alignment explanation
Indices: 2504580--2505247 Score: 990
Period size: 5 Copynumber: 135.0 Consensus size: 5
2504570 TGTTAATAAC
2504580 AATAT AATAT AATAT AA-AT AATAT AATAAT AATAT AATAT -ATA- AATAT
1 AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT AATAT AATAT AATAT
2504628 AATAT AATAT AATAT AATAT AATAT -ATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
2504677 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
2504727 AATAT AATAT AATAT AATAT AATAT -ATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
2504776 AATAT AATAT AATATAT AATAT AATAT AATAT -ATA- ATATAT AAATAT
1 AATAT AATAT -A-ATAT AATAT AATAT AATAT AATAT A-ATAT -AATAT
*
2504823 AATAT AATAT AATAT AATAT AAAAT -ATA- AATAT -ATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
2504870 AATAT AATA- AATAT -ATAT AATAT -ATAT -ATAAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT AATAT AATAT
2504917 AATAT AATA- ATATAAT AATAT AATAT AATAT AATA- AATAT AATAT AATAT
1 AATAT AATAT A-AT-AT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
2504967 AATAT AATAT AATAT AATAT AATAT -ATAT AA-AT AAATAT AATATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT -AATAT -A-ATAT
2505013 AATAT AATAT -ATAAT ATATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AAT-AT A-ATAT AATAT AATAT AATAT AATAT AATAT AATAT
2505064 AATAAT AATAT AATAT AATAT AATAT AATAT AATAT -ATAT -ATAT AATAT
1 AAT-AT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
2505113 AATAT AATAT AATAT AATAT AA-AT AAT-T AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
2505161 AATAT -ATAT AATAT AATAT AATAT AATAT AATAT AAT-T AATAT ATATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT
2505210 AATAT AATAT AATATAT AATAT AATAT AATAAT AATAT
1 AATAT AATAT -A-ATAT AATAT AATAT AAT-AT AATAT
2505248 GTATACTGTA
Statistics
Matches: 621, Mismatches: 2, Indels: 80
0.88 0.00 0.11
Matches are distributed among these distances:
4 81 0.13
5 483 0.78
6 41 0.07
7 16 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:2505331 original size:36 final size:36
Alignment explanation
Indices: 2505290--2505438 Score: 107
Period size: 36 Copynumber: 4.2 Consensus size: 36
2505280 ATACATTATA
*
2505290 TTTTCAAAAACCATTT-AAAAAACTATATGCTATATG
1 TTTTCAAAAA-CATTTAAAAAAACTATATACTATATG
* * *
2505326 TTTTCAAAAATATTTAAAAAAATTATATATTATATG
1 TTTTCAAAAACATTTAAAAAAACTATATACTATATG
* * ** *
2505362 TTTTTAAAAATACGTTTTCAAAAA-TATTATA-TATACG
1 -TTTTCAAAA-ACATTTAAAAAAACTA-TATACTATATG
* *
2505399 TTTTC-AAAATATTT-TAAAAAC--TATA-TATATG
1 TTTTCAAAAACATTTAAAAAAACTATATACTATATG
2505430 TTTTCAAAA
1 TTTTCAAAA
2505439 CTATATATTA
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
31 14 0.15
32 3 0.03
33 5 0.05
34 4 0.04
35 7 0.08
36 31 0.34
37 15 0.16
38 13 0.14
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (36 bp):
TTTTCAAAAACATTTAAAAAAACTATATACTATATG
Found at i:2505451 original size:25 final size:25
Alignment explanation
Indices: 2505420--2505469 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
2505410 TTTTAAAAAC
2505420 TATA-TATATGTTTT-CAAAACT-A
1 TATATTATATGTTTTCCAAAACTGA
2505442 TATATTATATGTTTTCCAAAACTGA
1 TATATTATATGTTTTCCAAAACTGA
2505467 TAT
1 TAT
2505470 TTAAAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 4 0.16
23 10 0.40
24 7 0.28
25 4 0.16
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (25 bp):
TATATTATATGTTTTCCAAAACTGA
Found at i:2505456 original size:54 final size:59
Alignment explanation
Indices: 2505375--2505505 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 59
2505365 TTAAAAATAC
2505375 GTTTTCAAAAATATTATATATACGTTTT-CAAAA-T-AT-TTT-AAAAACTATATATAT
1 GTTTTCAAAAATATTATATATACGTTTTCCAAAACTGATATTTAAAAAACTATATATAT
* *
2505429 GTTTTCAAAACTA-TATATTATATGTTTTCCAAAACTGATATTTAAAAAACTATATATATATAT
1 GTTTTCAAAAATATTATA-TATACGTTTTCCAAAACTGATATTTAAAAAAC----TATATATAT
2505492 GTTTTCAAAAATAT
1 GTTTTCAAAAATAT
2505506 GTTTTTAAAC
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
53 4 0.06
54 21 0.33
55 5 0.08
56 1 0.02
57 2 0.03
58 3 0.05
59 6 0.10
63 21 0.33
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (59 bp):
GTTTTCAAAAATATTATATATACGTTTTCCAAAACTGATATTTAAAAAACTATATATAT
Found at i:2505470 original size:23 final size:21
Alignment explanation
Indices: 2505410--2505470 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
2505400 TTTCAAAATA
*
2505410 TTTTAAAAACTATA-TATATG
1 TTTTCAAAACTATATTATATG
2505430 TTTTCAAAACTATATATTATATG
1 TTTTCAAAAC--TATATTATATG
2505453 TTTTCCAAAACTGATATT
1 TTTT-CAAAACT-ATATT
2505471 TAAAAAACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 9 0.26
22 5 0.14
23 15 0.43
24 6 0.17
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (21 bp):
TTTTCAAAACTATATTATATG
Found at i:2505478 original size:39 final size:36
Alignment explanation
Indices: 2505435--2505587 Score: 153
Period size: 37 Copynumber: 3.9 Consensus size: 36
2505425 ATATGTTTTC
2505435 AAAACTATATATTATATGTTTTCCAAAACTGATATTTAA
1 AAAACTATATATTATATGTTTT-CAAAACT-ATATTT-A
* * *
2505474 AAAACTATATATATATATGTTTTCAAAAATATGTTTT
1 AAAACTATATAT-TATATGTTTTCAAAACTATATTTA
* * *
2505511 TAAACTATATTATTATATGTTTTCCAAAACCGTTTTTTTTTTA
1 AAAACTATA-TATTATATGTTTT-CAAAA-C----TATATTTA
2505554 AAAACTATATATTATATGTTTTCAAAACTATATT
1 AAAACTATATATTATATGTTTTCAAAACTATATT
2505588 ATACGTTTTC
Statistics
Matches: 95, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
36 4 0.04
37 18 0.19
38 13 0.14
39 18 0.19
40 11 0.12
41 5 0.05
42 13 0.14
43 13 0.14
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (36 bp):
AAAACTATATATTATATGTTTTCAAAACTATATTTA
Found at i:2505525 original size:77 final size:78
Alignment explanation
Indices: 2505425--2505580 Score: 219
Period size: 77 Copynumber: 2.0 Consensus size: 78
2505415 AAAACTATAT
2505425 ATATGTTTTCAAAACTATATATTATATGTTTTCCAAAA-C-TGATATTTAAAAAACTATATATAT
1 ATATGTTTTCAAAACTATATATTATATGTTTTCCAAAACCGTGATATTTAAAAAACTATATAT-T
2505488 ATATGTTTTCAAAA
65 ATATGTTTTCAAAA
* ** * *
2505502 ATATGTTTT-TAAACTATATTATTATATGTTTTCCAAAACCGTTTTTTTTTTAAAAACTATATAT
1 ATATGTTTTCAAAACTATA-TATTATATGTTTTCCAAAACCG-TGATATTTAAAAAACTATATAT
2505566 TATATGTTTTCAAAA
64 TATATGTTTTCAAAA
2505581 CTATATTATA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
76 8 0.11
77 28 0.40
78 1 0.01
79 15 0.21
80 18 0.26
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (78 bp):
ATATGTTTTCAAAACTATATATTATATGTTTTCCAAAACCGTGATATTTAAAAAACTATATATTA
TATGTTTTCAAAA
Found at i:2505580 original size:23 final size:23
Alignment explanation
Indices: 2505502--2505602 Score: 74
Period size: 23 Copynumber: 4.6 Consensus size: 23
2505492 GTTTTCAAAA
*
2505502 ATATGTTTT-TAAACTATATTATT
1 ATATGTTTTCAAAACTATA-TATT
**
2505525 ATATGTTTTCCAAAACCGT-T-TT
1 ATATGTTTT-CAAAACTATATATT
*
2505547 -T-T-TTTTAAAAACTATATATT
1 ATATGTTTTCAAAACTATATATT
2505567 ATATGTTTTCAAAAC--TATATT
1 ATATGTTTTCAAAACTATATATT
*
2505588 ATACGTTTTCTAAAA
1 ATATGTTTTC-AAAA
2505603 ATATTTTCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
18 6 0.10
19 5 0.08
20 3 0.05
21 17 0.27
22 7 0.11
23 19 0.31
25 5 0.08
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (23 bp):
ATATGTTTTCAAAACTATATATT
Found at i:2505587 original size:21 final size:22
Alignment explanation
Indices: 2505561--2505602 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2505551 TTAAAAACTA
*
2505561 TATATTATATGTTTTC-AAAAC
1 TATATTATACGTTTTCTAAAAC
2505582 TATATTATACGTTTTCTAAAA
1 TATATTATACGTTTTCTAAAA
2505603 ATATTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (22 bp):
TATATTATACGTTTTCTAAAAC
Found at i:2505603 original size:23 final size:24
Alignment explanation
Indices: 2505547--2505603 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 24
2505537 AAACCGTTTT
* *
2505547 TTTTTTAAAAACTATATATTATATG
1 TTTTCTAAAAAC-ATATATTATACG
2505572 TTTTC--AAAAC-TATATTATACG
1 TTTTCTAAAAACATATATTATACG
2505593 TTTTCTAAAAA
1 TTTTCTAAAAA
2505604 TATTTTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 15 0.54
23 9 0.32
25 4 0.14
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (24 bp):
TTTTCTAAAAACATATATTATACG
Found at i:2508727 original size:18 final size:18
Alignment explanation
Indices: 2508704--2508743 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2508694 TTTTAATGAT
2508704 GGTGATAGTCATTGGTTA
1 GGTGATAGTCATTGGTTA
* **
2508722 GGTGATGGTTGTTGGTTA
1 GGTGATAGTCATTGGTTA
2508740 GGTG
1 GGTG
2508744 GTCATGAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (18 bp):
GGTGATAGTCATTGGTTA
Found at i:2509229 original size:13 final size:13
Alignment explanation
Indices: 2509211--2509235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2509201 GCCTACAAAA
2509211 TGTATTAATAATT
1 TGTATTAATAATT
2509224 TGTATTAATAAT
1 TGTATTAATAAT
2509236 GATAATATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TGTATTAATAATT
Found at i:2509235 original size:3 final size:3
Alignment explanation
Indices: 2509229--2509261 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2509219 TAATTTGTAT
*
2509229 TAA TAA TGA TAA T-A TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2509262 TTTTAAGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2509523 original size:40 final size:39
Alignment explanation
Indices: 2509449--2509524 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
2509439 GTCATTTTTA
* *
2509449 GGATGACGCTGCTCTACGTGATGATGAGATCTGGTTGGT
1 GGATGACACTGCTCTACGTGATGAGGAGATCTGGTTGGT
*
2509488 GGATGACACTGTTCCTACGTGATGAGGACGA-CTGGTT
1 GGATGACACTGCT-CTACGTGATGAGGA-GATCTGGTT
2509525 ATCTAAGGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 11 0.34
40 19 0.59
41 2 0.06
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (39 bp):
GGATGACACTGCTCTACGTGATGAGGAGATCTGGTTGGT
Found at i:2509906 original size:66 final size:67
Alignment explanation
Indices: 2509754--2510096 Score: 411
Period size: 67 Copynumber: 5.2 Consensus size: 67
2509744 AGGGATAATG
* * *
2509754 GTTTCAAGAGAAACTGTCTGAAGAGAGA-AAAAC-TTG-TTCAAGGGAAAC-ATAATCAAAGATT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAAT-CTCAAAGA-T
**
2509815 TTAT
64 TGGT
* * * * *
2509819 GTTTCAAGAGAAATTGTCTCAAGGGATATAAAA-TTTATTTCAAGGGAAACAATCTCAAAGGTTG
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAATCTCAAAGATTG
2509883 GT
66 GT
* *
2509885 GTTTCAAGAGAAACTGACTCAAGGGAGACAAAACTTTTTTTCAAGGGAAAC-ATACTCAAAGATT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAAT-CTCAAAGATT
*
2509949 GGC
65 GGT
*
2509952 GTTTCAAGAGAAACTGTCTCAAAGGAGACAAAA--TTGTTTCAAGGGAAACAATCTCAAA-AGTT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAATCTCAAAGA-TT
2510014 GGT
65 GGT
*
2510017 GTTTCAAGAGAAATTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAGA-CTCAAAGATT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACA-ATCTCAAAGATT
**
2510081 TTT
65 GGT
2510084 GTTTCAA-AGAAAC
1 GTTTCAAGAGAAAC
2510097 ATACTCAAAG
Statistics
Matches: 241, Mismatches: 25, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
64 1 0.00
65 80 0.33
66 47 0.20
67 109 0.45
68 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (67 bp):
GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAATCTCAAAGATTG
GT
Found at i:2510088 original size:132 final size:133
Alignment explanation
Indices: 2509754--2510096 Score: 498
Period size: 132 Copynumber: 2.6 Consensus size: 133
2509744 AGGGATAATG
* * *
2509754 GTTTCAAGAGAAACTGTCTGAAGAGAGA-AAAAC-TTG-TTCAAGGGAAACATAATCAAAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTT
* * * * *
2509816 TATGTTTCAAGAGAAATTGTCTCAAGGGATATAAAATTTATTTCAAGGGAAACAATCTCAAAGGT
66 T-TGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTATTTCAAGGGAAACAATCTCAAAAGT
2509881 TGGT
130 TGGT
* * *
2509885 GTTTCAAGAGAAACTGACTCAAGGGAGACAAAACTTTTTTTCAAGGGAAACATACTCAAAGATTG
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTT
** *
2509950 GCGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAA-TTGTTTCAAGGGAAACAATCTCAAAAGTT
66 TTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTATTTCAAGGGAAACAATCTCAAAAGTT
2510014 GGT
131 GGT
* *
2510017 GTTTCAAGAGAAATTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACAGACTCAAAGATTT
1 GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTT
2510082 TTGTTTCAA-AGAAAC
66 TTGTTTCAAGAGAAAC
2510097 ATACTCAAAG
Statistics
Matches: 188, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
131 31 0.16
132 102 0.54
133 31 0.16
134 24 0.13
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (133 bp):
GTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTT
TTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTATTTCAAGGGAAACAATCTCAAAAGTT
GGT
Found at i:2510584 original size:32 final size:32
Alignment explanation
Indices: 2510543--2510606 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
2510533 TTCACTTCAG
*
2510543 GATGTTGAATCTCCAAATATGCCCCAACATTC
1 GATGTTGAATCTCCAAAGATGCCCCAACATTC
2510575 GATGTTGAATCTCCAAAGATGCCCCAACATTC
1 GATGTTGAATCTCCAAAGATGCCCCAACATTC
2510607 ATCATTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATTC
Found at i:2517188 original size:13 final size:13
Alignment explanation
Indices: 2517170--2517194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2517160 GCCTACAAAA
2517170 TGTATTAATAATT
1 TGTATTAATAATT
2517183 TGTATTAATAAT
1 TGTATTAATAAT
2517195 AAATAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TGTATTAATAATT
Found at i:2517211 original size:11 final size:11
Alignment explanation
Indices: 2517188--2517217 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2517178 TAATTTGTAT
2517188 TAATAAT-AAA
1 TAATAATAAAA
2517198 TAATAATAAAA
1 TAATAATAAAA
2517209 TAATAATAA
1 TAATAATAA
2517218 TTTTTAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:2518417 original size:23 final size:22
Alignment explanation
Indices: 2518367--2518434 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
2518357 ATTATATCTT
* *
2518367 AATTAAAAAT-TAAAATATTAA
1 AATTAAAAATGAAAAAAATTAA
*
2518388 AAGTAAAAATGAAAAAAATTAA
1 AATTAAAAATGAAAAAAATTAA
2518410 AGATT-AAAATGTAAAAAAATTAA
1 A-ATTAAAAATG-AAAAAAATTAA
2518433 AA
1 AA
2518435 CCACACTAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 9 0.22
22 17 0.43
23 14 0.35
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (22 bp):
AATTAAAAATGAAAAAAATTAA
Found at i:2531834 original size:4 final size:4
Alignment explanation
Indices: 2531825--2531859 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
2531815 CCTGTTACTT
2531825 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
2531860 TCAAAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:2538437 original size:34 final size:32
Alignment explanation
Indices: 2538398--2538472 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 32
2538388 ATGTTAATTT
2538398 CAAAATACAATAAATAAAAAAAAG-AATTATGGAC
1 CAAAATA-AATAAA-AAAAAAAAGCAATTAT-GAC
*
2538432 CAAAATGAAATAAAAAAAACAAGCTAATTATGAC
1 CAAAAT-AAATAAAAAAAAAAAGC-AATTATGAC
*
2538466 TAAAATA
1 CAAAATA
2538473 GTGACCTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
33 9 0.25
34 20 0.56
35 7 0.19
ACGTcount: A:0.64, C:0.09, G:0.08, T:0.19
Consensus pattern (32 bp):
CAAAATAAATAAAAAAAAAAAGCAATTATGAC
Found at i:2540255 original size:68 final size:68
Alignment explanation
Indices: 2540072--2540552 Score: 583
Period size: 67 Copynumber: 6.9 Consensus size: 68
2540062 AACTTGCTTT
* * * * * * *
2540072 AAGATAAATTGTCTCAAGCGATACAAAACTTTGTTTCAAGGGAAACAATCTCAATGTTTTTATGT
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTTATGT
2540137 TTC
66 TTC
* * *
2540140 AAGAGAAACTGCCTCAAGATAGAAAAAAC-TTGTTTCAAGAGAAACAATCTCAAAGGTTTTATGT
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTTATGT
2540204 TTC
66 TTC
* *
2540207 AAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTTTTTTT
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGG----TTTT
2540272 ATGTTTC
62 ATGTTTC
* * *
2540279 AAGAGAAACTGTCTCAAGCA-AGACACAAC-TTGTTTCAAGAGAAACAATCTCAACGATTTATCA
1 AAGAGAAACTGTCTCAAG-AGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTT-T--
2540342 ATTTTGTTTC
62 A---TGTTTC
**
2540352 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTGAGAGAAACAATCTCAAAGGTTTTTTTA
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGG---TTTTA
2540417 TGTTTC
63 TGTTTC
* * * * * *
2540423 AAGAGAAACTGTCTCAAGCGAAACACAACTTTGTTTCAAGGGAAACAATCTCAATGTTTTTATGT
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTTATGT
2540488 TTC
66 TTC
* *
2540491 AAGAGAAACTGTCTCAAGAGAGACAAAAC-TTGTTTCAAGAGAAAAAATCTTAAAGGTTTTAT
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTTAT
2540553 CAATTTTGTT
Statistics
Matches: 355, Mismatches: 41, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
67 91 0.26
68 86 0.24
70 1 0.00
71 79 0.22
72 37 0.10
73 33 0.09
74 24 0.07
76 1 0.00
77 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (68 bp):
AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTTATGT
TTC
Found at i:2540259 original size:37 final size:37
Alignment explanation
Indices: 2540134--2540540 Score: 148
Period size: 37 Copynumber: 11.5 Consensus size: 37
2540124 AATGTTTTTA
*** * *
2540134 TGTTTCAAGAGAAACTGCCTCAAGATAGAAAAAAC-T
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
**
2540170 TGTTTCAAGAGAAACAATCTCAA-AG-G-----TTTT
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
***
2540200 ATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTT
1 -TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
* ******
2540238 TGTTTCGAGAGAAACAATCTCAA-AG-G-TTTTTTTT
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
** *
2540272 ATGTTTCAAGAGAAACTGTCTCAAGCA-AGACACAAC-T
1 -TGTTTCAAGAGAAACAATCTCAAG-AGAGACAAAACTT
*** *
2540309 TGTTTCAAGAGAAACAATCTCAACGATTTATC--AATTT
1 TGTTTCAAGAGAAACAATCTCAA-GAGAGA-CAAAACTT
**
2540346 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
** *****
2540383 TGTTTTGAGAGAAACAATCTCAA-AG-G--TTTTTTT
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
** * * *
2540416 ATGTTTCAAGAGAAACTGTCTCAAGCGAAACACAACTT
1 -TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
* * ***
2540454 TGTTTCAAGGGAAACAATCTC-A-A-TG----TTTTT
1 TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
**
2540484 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC-T
1 -TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
*
2540521 TGTTTCAAGAGAAAAAATCT
1 TGTTTCAAGAGAAACAATCT
2540541 TAAAGGTTTT
Statistics
Matches: 258, Mismatches: 80, Indels: 66
0.64 0.20 0.16
Matches are distributed among these distances:
30 3 0.01
31 38 0.15
32 3 0.01
33 4 0.02
34 23 0.09
35 25 0.10
36 69 0.27
37 88 0.34
38 5 0.02
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (37 bp):
TGTTTCAAGAGAAACAATCTCAAGAGAGACAAAACTT
Found at i:2540323 original size:139 final size:138
Alignment explanation
Indices: 2540072--2540550 Score: 646
Period size: 139 Copynumber: 3.4 Consensus size: 138
2540062 AACTTGCTTT
* * * * * *
2540072 AAGATAAATTGTCTCAAGCGATACAAAACTTTGTTTCAAGGGAAACAATCTC-AA--TGTTTTTA
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTTTTTA
* * * *
2540134 TGTTTCAAGAGAAACTGCCTCAAG-ATAGAAAAAACTTGTTTCAAGAGAAACAATCTCAAAGGTT
66 TGTTTCAAGAGAAACTGTCTCAAGCA-AGACACAACTTGTTTCAAGAGAAACAATCTCAAAGATT
2540198 TTATGTTTC
130 TTATGTTTC
* *
2540207 AAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTTTTTTT
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGG-TTTTTTT
*
2540272 ATGTTTCAAGAGAAACTGTCTCAAGCAAGACACAACTTGTTTCAAGAGAAACAATCTCAACGATT
65 ATGTTTCAAGAGAAACTGTCTCAAGCAAGACACAACTTGTTTCAAGAGAAACAATCTCAAAGATT
2540337 TATCAATTTTGTTTC
130 T-T--A---TGTTTC
**
2540352 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTGAGAGAAACAATCTCAAAGGTTTTTTTA
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTTTTTA
* * *
2540417 TGTTTCAAGAGAAACTGTCTCAAGCGAA-ACACAACTTTGTTTCAAGGGAAACAATCTCAATGTT
66 TGTTTCAAGAGAAACTGTCTCAAGC-AAGACACAAC-TTGTTTCAAGAGAAACAATCTCAAAGAT
2540481 TTTATGTTTC
129 TTTATGTTTC
* *
2540491 AAGAGAAACTGTCTCAAGAGAGACAAAAC-TTGTTTCAAGAGAAAAAATCTTAAAGGTTTT
1 AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTT
2540551 ATCAATTTTG
Statistics
Matches: 311, Mismatches: 20, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
135 47 0.15
136 2 0.01
138 27 0.09
139 100 0.32
140 2 0.01
142 2 0.01
144 41 0.13
145 90 0.29
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (138 bp):
AAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTTTTTTA
TGTTTCAAGAGAAACTGTCTCAAGCAAGACACAACTTGTTTCAAGAGAAACAATCTCAAAGATTT
TATGTTTC
Found at i:2540499 original size:212 final size:209
Alignment explanation
Indices: 2540072--2540573 Score: 633
Period size: 212 Copynumber: 2.4 Consensus size: 209
2540062 AACTTGCTTT
* * * * * *
2540072 AAGATAAATTGTCTCAAGCGATACAAAACTTTGTTTCAAGGGAAACAATCTCAATG-TT-T---T
1 AAGAGAAACTGTCTCAAGCAAGACAAAAC-TTGTTTCAAGAGAAACAATCTCAACGTTTATCAAT
* *
2540132 TATGTTTCAAGAGAAACTGCCTCAAGATAGAAAAAACTTGTTTCAAGAGAAACAATCTCAAAGGT
65 TTTGTTTCAAGAGAAACTGCCTCAAGAGAGAAAAAACTTGTTTCAAGAGAAACAATCTCAAAGGT
* * *
2540197 TTTATGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAA
130 TTTATGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAACTTTGTTTCAAGAGAAACAATCTCAAA
*
2540262 GGTTTTTTTTATGTTTC
195 -G-TGTTTTTATGTTTC
*
2540279 AAGAGAAACTGTCTCAAGCAAGACACAACTTGTTTCAAGAGAAACAATCTCAACGATTTATCAAT
1 AAGAGAAACTGTCTCAAGCAAGACAAAACTTGTTTCAAGAGAAACAATCTCAACG-TTTATCAAT
* * **
2540344 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTGAGAGAAACAATCTCAAAGG
65 TTTGTTTCAAGAGAAACTGCCTCAAGAGAGAAAAAAC-TTGTTTCAAGAGAAACAATCTCAAAGG
* * *
2540409 TTTTTTTATGTTTCAAGAGAAACTGTCTCAAGCGAAACACAACTTTGTTTCAAGGGAAACAATCT
129 ---TTTTATGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAACTTTGTTTCAAGAGAAACAATCT
2540474 C-AA-TGTTTTTATGTTTC
191 CAAAGTGTTTTTATGTTTC
* * *
2540491 AAGAGAAACTGTCTCAAG-AGAGACAAAACTTGTTTCAAGAGAAAAAATCTTAAAGGTTTTATCA
1 AAGAGAAACTGTCTCAAGCA-AGACAAAACTTGTTTCAAGAGAAACAATC-TCAACG-TTTATCA
*
2540555 ATTTTGTTTCAAGTGAAAC
63 ATTTTGTTTCAAGAGAAAC
2540574 AATTTCCAAA
Statistics
Matches: 257, Mismatches: 26, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
206 24 0.09
207 24 0.09
208 2 0.01
209 1 0.00
211 1 0.00
212 92 0.36
213 54 0.21
215 2 0.01
216 57 0.22
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (209 bp):
AAGAGAAACTGTCTCAAGCAAGACAAAACTTGTTTCAAGAGAAACAATCTCAACGTTTATCAATT
TTGTTTCAAGAGAAACTGCCTCAAGAGAGAAAAAACTTGTTTCAAGAGAAACAATCTCAAAGGTT
TTATGTTTCAAGAGAAACTGTCTCAAGAGAAACAAAACTTTGTTTCAAGAGAAACAATCTCAAAG
TGTTTTTATGTTTC
Found at i:2540613 original size:105 final size:101
Alignment explanation
Indices: 2540452--2540690 Score: 225
Period size: 105 Copynumber: 2.3 Consensus size: 101
2540442 GAAACACAAC
* * * *
2540452 TTTGTTTCAAGGGAAACAATCT-C-AATGTTTTTATGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTTGTTTCAAGTGAAACAATTTCCAAAT-TTTGTATGTTTCAAGAAAAACTGTCTCAAGAGAGAC
*** *
2540515 AAAACTTGTTTCAAGAGAAAAAATCTTAAAGGTTTTATCAAT
65 AAAACTTGTTT-AA-A-AAAAAATC-TAAA-GTGAGATAAAT
* * * * * *
2540557 TTTGTTTCAAGTGAAACAATTTCCAAATTTTGTGT-TTTGAAGAAAAATTGTTTCAAGTGAGACG
1 TTTGTTTCAAGTGAAACAATTTCCAAATTTTGTATGTTTCAAGAAAAACTGTCTCAAGAGAGACA
* * * *
2540621 AAATTTGTTTTAAAAACAATCTCAAGTGAGATAAAT
66 AAACTTGTTTAAAAAAAAATCTAAAGTGAGATAAAT
*
2540657 TTTGTTTCAAGTGAAACAATTT-CAAAATTTGTAT
1 TTTGTTTCAAGTGAAACAATTTCCAAATTTTGTAT
2540691 TTTTAGGGGA
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
99 10 0.09
100 29 0.26
101 3 0.03
102 7 0.06
103 1 0.01
104 1 0.01
105 52 0.46
106 6 0.05
107 3 0.03
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (101 bp):
TTTGTTTCAAGTGAAACAATTTCCAAATTTTGTATGTTTCAAGAAAAACTGTCTCAAGAGAGACA
AAACTTGTTTAAAAAAAAATCTAAAGTGAGATAAAT
Found at i:2540729 original size:99 final size:100
Alignment explanation
Indices: 2540554--2540733 Score: 274
Period size: 99 Copynumber: 1.8 Consensus size: 100
2540544 AGGTTTTATC
* * *
2540554 AATTTTGTTTCAAGTGAAACAATTTCCAAATTTTGTGTTTTGAAGAAAAATTGTTTCAAGTGAGA
1 AATTTTGTTTCAAGTGAAACAATTTCCAAAATTTGTATTTTGAAGAAAAATTGTCTCAAGTGAGA
2540619 CGAAATTTGTTTTAAAAACAATCTCAAGTGAGATA
66 CGAAATTTGTTTTAAAAACAATCTCAAGTGAGATA
* * **
2540654 AATTTTGTTTCAAGTGAAACAATTT-CAAAATTTGTATTTTTAGGGGAAATTGTCTCAAGTGAGA
1 AATTTTGTTTCAAGTGAAACAATTTCCAAAATTTGTATTTTGAAGAAAAATTGTCTCAAGTGAGA
2540718 TC-AAATTTGTTTTAAA
66 -CGAAATTTGTTTTAAA
2540734 GAAAAACAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
99 46 0.64
100 26 0.36
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (100 bp):
AATTTTGTTTCAAGTGAAACAATTTCCAAAATTTGTATTTTGAAGAAAAATTGTCTCAAGTGAGA
CGAAATTTGTTTTAAAAACAATCTCAAGTGAGATA
Found at i:2540775 original size:67 final size:67
Alignment explanation
Indices: 2540640--2540817 Score: 202
Period size: 67 Copynumber: 2.7 Consensus size: 67
2540630 TTAAAAACAA
* ** * * * *
2540640 TCTCAAGTGAGATAAATTT-TGTTTCAAGTGAAACAATTTCAAA-ATTTGTATTTTTAGGGGAAA
1 TCTCAAGTGAGATAAATTTGT-TTTAAAGAAAAACAATCTCAAATATTTGTAGTCTTAGAGGAAA
*
2540703 TTG
65 CTG
2540706 TCTCAAGTGAGATCAAATTTGTTTTAAAGAAAAACAATCTCAAATATTTGT-GTCTTA-AGGAAG
1 TCTCAAGTGAGAT-AAATTTGTTTTAAAGAAAAACAATCTCAAATATTTGTAGTCTTAGAGGAA-
2540769 ACTG
64 ACTG
* *
2540773 TCTCAAGTGAGTTGAAATTTGTTTTTAAGAAAAACAATCTCAAAT
1 TCTCAAGTGAGAT-AAATTTGTTTTAAAGAAAAACAATCTCAAAT
2540818 GTTATCAATT
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
66 17 0.18
67 73 0.75
68 7 0.07
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (67 bp):
TCTCAAGTGAGATAAATTTGTTTTAAAGAAAAACAATCTCAAATATTTGTAGTCTTAGAGGAAAC
TG
Found at i:2543373 original size:14 final size:14
Alignment explanation
Indices: 2543354--2543380 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2543344 TAAAAATGAA
2543354 ATGCAGATGCAAAG
1 ATGCAGATGCAAAG
2543368 ATGCAGATGCAAA
1 ATGCAGATGCAAA
2543381 TGTAAAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (14 bp):
ATGCAGATGCAAAG
Found at i:2545645 original size:4 final size:4
Alignment explanation
Indices: 2545636--2545660 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2545626 ATTAACATTA
2545636 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
2545661 CTCAATCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2548343 original size:33 final size:33
Alignment explanation
Indices: 2548306--2548527 Score: 114
Period size: 33 Copynumber: 6.8 Consensus size: 33
2548296 TATATATATA
*
2548306 TAATATAAGA-TATATATAAGA-TATATATTTTAT
1 TAATATAA-ACTATATATAA-ATTATATAGTTTAT
2548339 TAATATAAACTATATATAAATTATATAGTTTATATT
1 TAATATAAACTATATATAAATTATATAG-TT-TA-T
* *
2548375 TATATTATTATATACTATATATAAACTATATA-TATAT
1 TA-A-TA-TA-A-ACTATATATAAATTATATAGTTTAT
* ** *
2548412 TATGTATAAACTATATAGT---TTATATA-TGAAC
1 TA-ATATAAACTATATA-TAAATTATATAGTTTAT
* * * *
2548443 T-AT-TGAACTATATATAAACTACATAATTTAT
1 TAATATAAACTATATATAAATTATATAGTTTAT
*
2548474 TAATATAAA-T-TATATAAATTATATAATTTA-
1 TAATATAAACTATATATAAATTATATAGTTTAT
*
2548504 T-ATATAAA-T-TATATAATTTATATA
1 TAATATAAACTATATATAAATTATATA
2548528 TAAATTATAT
Statistics
Matches: 153, Mismatches: 19, Indels: 38
0.73 0.09 0.18
Matches are distributed among these distances:
27 1 0.01
28 10 0.07
29 23 0.15
30 6 0.04
31 30 0.20
32 5 0.03
33 34 0.22
34 4 0.03
35 4 0.03
36 5 0.03
37 5 0.03
38 4 0.03
39 3 0.02
40 1 0.01
41 18 0.12
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (33 bp):
TAATATAAACTATATATAAATTATATAGTTTAT
Found at i:2548458 original size:2 final size:2
Alignment explanation
Indices: 2548291--2548438 Score: 66
Period size: 2 Copynumber: 76.5 Consensus size: 2
2548281 TTGAAACAAT
* *
2548291 TA TA -A TA TA TA TA TA TA -A TA TA -A GA TA TA TA TA -A GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2548329 TA TA T- TT TA T- TA -A TA TA AA CTA TA TA TA AA T- TA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA
* *
2548369 TA TA TT TA TA T- TA T- TA TA TA CTA TA TA TA AA CTA 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
* * *
2548411 T- TA TG TA TA AA CTA TA TA GTT TA TA TA T
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA T
2548439 GAACTATTGA
Statistics
Matches: 110, Mismatches: 19, Indels: 34
0.67 0.12 0.21
Matches are distributed among these distances:
1 11 0.10
2 92 0.84
3 7 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2548463 original size:61 final size:64
Alignment explanation
Indices: 2548352--2548498 Score: 169
Period size: 61 Copynumber: 2.4 Consensus size: 64
2548342 TATAAACTAT
* * * *
2548352 ATATAAATTATATAGTTTATAT-TTATATTATTATATACTATATATAAACTATAT-ATATATTA
1 ATATAAATTATATAGTTTATATATGATACTATTAGATACTATATATAAACTACATAATATATTA
* * *
2548414 TGTATAAACTATATAGTTTATATATGA-ACTATT-GA-ACTATATATAAACTACATAATTTATTA
1 -ATATAAATTATATAGTTTATATATGATACTATTAGATACTATATATAAACTACATAATATATTA
**
2548476 ATATAAATTATATAAATTATATA
1 ATATAAATTATATAGTTTATATA
2548499 ATTTATATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
61 36 0.51
62 8 0.11
63 25 0.35
64 2 0.03
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (64 bp):
ATATAAATTATATAGTTTATATATGATACTATTAGATACTATATATAAACTACATAATATATTA
Found at i:2548488 original size:31 final size:29
Alignment explanation
Indices: 2548453--2548519 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 29
2548443 TATTGAACTA
2548453 TATATAAACTACATAATTTATTAATATAAAT
1 TATATAAACTACATAATTTA-T-ATATAAAT
* *
2548484 TATATAAATTATATAATTTATATATAAAT
1 TATATAAACTACATAATTTATATATAAAT
2548513 TATATAA
1 TATATAA
2548520 TTTATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 15 0.44
30 1 0.03
31 18 0.53
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
TATATAAACTACATAATTTATATATAAAT
Found at i:2548490 original size:9 final size:9
Alignment explanation
Indices: 2548476--2548556 Score: 74
Period size: 9 Copynumber: 8.3 Consensus size: 9
2548466 TAATTTATTA
2548476 ATATAAATT
1 ATATAAATT
2548485 ATATAAATT
1 ATATAAATT
*
2548494 ATATAATTTAT
1 ATATAA-AT-T
2548505 ATATAAATT
1 ATATAAATT
*
2548514 ATATAATTTAT
1 ATATAA-AT-T
2548525 ATATAAATT
1 ATATAAATT
2548534 ATATATGAATT
1 ATATA--AATT
2548545 ATA-AAACTT
1 ATATAAA-TT
2548554 ATA
1 ATA
2548557 CTTATATATT
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
8 2 0.03
9 33 0.54
10 5 0.08
11 21 0.34
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (9 bp):
ATATAAATT
Found at i:2548539 original size:11 final size:11
Alignment explanation
Indices: 2548288--2548547 Score: 92
Period size: 11 Copynumber: 24.6 Consensus size: 11
2548278 AAATTGAAAC
2548288 AATTATAATATA
1 AATTAT-ATATA
*
2548300 TATATATAATATA
1 AAT-TAT-ATATA
2548313 AGA-TATATATA
1 A-ATTATATATA
*
2548324 AGA-TATATATTT
1 A-ATTATATA-TA
*
2548336 TATTA-ATATA
1 AATTATATATA
*
2548346 AACTATATATA
1 AATTATATATA
2548357 AATTATATAGT-
1 AATTATATA-TA
*
2548368 --TTATATTTA
1 AATTATATATA
*
2548377 TATTAT-TATA
1 AATTATATATA
* *
2548387 TACTATATATA
1 AATTATATATA
*
2548398 AACTATATATA
1 AATTATATATA
* *
2548409 TATTATGTATA
1 AATTATATATA
*
2548420 AACTATATAGT-
1 AATTATATA-TA
*
2548431 --TTATATATG
1 AATTATATATA
* *
2548440 AA--CTAT-TG
1 AATTATATATA
*
2548448 AACTATATATA
1 AATTATATATA
* * *
2548459 AACTACATAATT
1 AATTATAT-ATA
*
2548471 TATTA-ATATA
1 AATTATATATA
2548481 AA-T-TATATA
1 AATTATATATA
2548490 AA-T-TATATA
1 AATTATATATA
*
2548499 ATTTATATATA
1 AATTATATATA
2548510 AA-T-TATATA
1 AATTATATATA
*
2548519 ATTTATATATA
1 AATTATATATA
*
2548530 AATTATATATG
1 AATTATATATA
2548541 AATTATA
1 AATTATA
2548548 AAACTTATAC
Statistics
Matches: 192, Mismatches: 33, Indels: 47
0.71 0.12 0.17
Matches are distributed among these distances:
8 6 0.03
9 38 0.20
10 21 0.11
11 102 0.53
12 15 0.08
13 9 0.05
14 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (11 bp):
AATTATATATA
Found at i:2548547 original size:20 final size:20
Alignment explanation
Indices: 2548341--2548538 Score: 119
Period size: 20 Copynumber: 10.2 Consensus size: 20
2548331 TATTTTATTA
*
2548341 ATATAAACTATATATAAATT
1 ATATAAATTATATATAAATT
** * *
2548361 ATATAGTTTATATTTATATT
1 ATATAAATTATATATAAATT
* *
2548381 ATTATATACTATATATAAACTAT
1 A-TATAAATTATATATAAA-T-T
* * *
2548404 ATATATATTATGTATAAACT
1 ATATAAATTATATATAAATT
** * *
2548424 ATATAGTTTATATATGAACT
1 ATATAAATTATATATAAATT
* * *
2548444 AT-TGAACTATATATAAACT
1 ATATAAATTATATATAAATT
*
2548463 ACAT-AATT-TAT-T--A--
1 ATATAAATTATATATAAATT
2548476 ATATAAA-T-TATATAAATT
1 ATATAAATTATATATAAATT
*
2548494 ATATAATTTATATATAAATT
1 ATATAAATTATATATAAATT
*
2548514 ATATAATTTATATATAAATT
1 ATATAAATTATATATAAATT
2548534 ATATA
1 ATATA
2548539 TGAATTATAA
Statistics
Matches: 140, Mismatches: 26, Indels: 24
0.74 0.14 0.13
Matches are distributed among these distances:
13 7 0.05
14 3 0.02
15 1 0.01
16 1 0.01
17 1 0.01
18 9 0.06
19 17 0.12
20 71 0.51
21 12 0.09
22 16 0.11
23 2 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (20 bp):
ATATAAATTATATATAAATT
Found at i:2548556 original size:31 final size:30
Alignment explanation
Indices: 2548493--2548581 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 30
2548483 TTATATAAAT
* * *
2548493 TATATAATTTATATATAAATTATATAATTTA
1 TATATAAATTATATAT-AATTATAAAACTTA
2548524 TATATAAATTATATATGAATTATAAAACTTA
1 TATATAAATTATATAT-AATTATAAAACTTA
* *
2548555 TACTTATATATTATGTATAATTATAAA
1 TA--TATAAATTATATATAATTATAAA
2548582 TAATATATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
31 29 0.58
32 9 0.18
33 12 0.24
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
TATATAAATTATATATAATTATAAAACTTA
Found at i:2548644 original size:3 final size:3
Alignment explanation
Indices: 2548636--2548700 Score: 80
Period size: 3 Copynumber: 21.7 Consensus size: 3
2548626 CTGTTTTAAT
* *
2548636 TTA TTA TTA TTA TTA TCA TTT TTA -TA TTA TT- TATA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA
2548681 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
2548701 TAATATGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 3 0.06
3 48 0.89
4 2 0.04
5 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2552158 original size:32 final size:32
Alignment explanation
Indices: 2552122--2552183 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
2552112 TATTTACCAG
*
2552122 ACTAA-TTAATTTATTTTCTTTTGTTTGTGTAC
1 ACTAACTT-ATTTATTTTCATTTGTTTGTGTAC
* *
2552154 ACTAACTTGTTTCTTTTCATTTGTTTGTGT
1 ACTAACTTATTTATTTTCATTTGTTTGTGT
2552184 CATTTTGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.60
Consensus pattern (32 bp):
ACTAACTTATTTATTTTCATTTGTTTGTGTAC
Found at i:2555858 original size:2 final size:2
Alignment explanation
Indices: 2555853--2555925 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
2555843 ACATAAACAT
2555853 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
2555895 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2555926 TGATACATAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2556664 original size:36 final size:36
Alignment explanation
Indices: 2556623--2556760 Score: 172
Period size: 36 Copynumber: 3.8 Consensus size: 36
2556613 TTTTCACATT
**
2556623 AAAC-AATGTTGATCTCACTTGAGATCGTTTTCTC-AA
1 AAACAAATGTTG-TCTCACTTGAGA-CAATTTCTCTAA
* *
2556659 AAACAAACGTTGTCTCGCTTGAGACAATTTCTCTAA
1 AAACAAATGTTGTCTCACTTGAGACAATTTCTCTAA
* * **
2556695 AAACAATTTTTGTCTCGTTTGAGACAATTTCTCTAA
1 AAACAAATGTTGTCTCACTTGAGACAATTTCTCTAA
2556731 AAACAAATGTTGTCTCACTTGAGACAATTT
1 AAACAAATGTTGTCTCACTTGAGACAATTT
2556761 TCCAAATTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
35 7 0.08
36 75 0.85
37 6 0.07
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (36 bp):
AAACAAATGTTGTCTCACTTGAGACAATTTCTCTAA
Found at i:2556975 original size:29 final size:29
Alignment explanation
Indices: 2556881--2557043 Score: 138
Period size: 33 Copynumber: 5.6 Consensus size: 29
2556871 TTTGAGACAA
*
2556881 TTTCTCTT-AAAGCAAACATCTTTGAGATTG
1 TTTCTCTTGAAA-CAAAAATCTTTGAG-TTG
*
2556911 TTTCCCTTGAAACAAAACCTATCTTTGAGTTTG
1 TTTCTCTTGAAACAAAA---ATCTTTGAG-TTG
* *
2556944 TTTCTCTTGAAACAAAAGTCTGTGAGTTG
1 TTTCTCTTGAAACAAAAATCTTTGAGTTG
* *
2556973 TTTCTTTTGAAATAAAAATC--TGAGTTG
1 TTTCTCTTGAAACAAAAATCTTTGAGTTG
* *
2557000 TTTCTTTTG-AA-AAAATTCTTTGAGTCTG
1 TTTCTCTTGAAACAAAAATCTTTGAGT-TG
* *
2557028 TTTCTTTTGAACCAAA
1 TTTCTCTTGAAACAAA
2557044 GTTTTGTCTC
Statistics
Matches: 113, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
25 6 0.05
26 2 0.02
27 21 0.19
28 11 0.10
29 21 0.19
30 21 0.19
31 3 0.03
33 28 0.25
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (29 bp):
TTTCTCTTGAAACAAAAATCTTTGAGTTG
Found at i:2557049 original size:28 final size:28
Alignment explanation
Indices: 2556932--2557049 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 28
2556922 ACAAAACCTA
*
2556932 TCTTTGAGTTTGTTTCTCTTGAAACAAAAG
1 TCTTTGAG-TTGTTTCTTTTG-AACAAAAG
* * *
2556962 TCTGTGAGTTGTTTCTTTTGAAATAAAAA
1 TCTTTGAGTTGTTTCTTTTG-AACAAAAG
*
2556991 TC--TGAGTTGTTTCTTTTGAA-AAAAT
1 TCTTTGAGTTGTTTCTTTTGAACAAAAG
*
2557016 TCTTTGAGTCTGTTTCTTTTGAACCAAAG
1 TCTTTGAGT-TGTTTCTTTTGAACAAAAG
2557045 T-TTTG
1 TCTTTG
2557050 TCTCTCTTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
25 6 0.08
26 2 0.03
27 21 0.27
28 17 0.22
29 24 0.31
30 7 0.09
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (28 bp):
TCTTTGAGTTGTTTCTTTTGAACAAAAG
Found at i:2557109 original size:29 final size:30
Alignment explanation
Indices: 2557074--2557130 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2557064 ATTTCATGAA
2557074 AAAATCTTTGAG-TCATTTCTTTTGAAACC
1 AAAATCTTTGAGTTCATTTCTTTTGAAACC
**
2557103 AAAATCTTTGAGTTTGTTTCTTTTGAAA
1 AAAATCTTTGAGTTCATTTCTTTTGAAA
2557131 AAAGGTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (30 bp):
AAAATCTTTGAGTTCATTTCTTTTGAAACC
Found at i:2557146 original size:91 final size:90
Alignment explanation
Indices: 2556986--2557203 Score: 261
Period size: 91 Copynumber: 2.4 Consensus size: 90
2556976 CTTTTGAAAT
* * *
2556986 AAAAATCTGAGT-TGTTTCTTTTGAAAAAATTCTTTGAGTCTGTTTCTTTTGAACCAAAGTTTTG
1 AAAAATCTGAGTCTATTTCTTTTGAAAAAAATCTTTGAGTCTGTTTCTTTTGAACAAAAGTTTTG
2557050 TCTCTCTTAAGACA-ATTTCATGA-
66 TCTCTCTTAAGACAGATTTCATGAG
*
2557073 AAAAATCTTTGAGTC-ATTTCTTTTGAAACCAAAATCTTTGAGTTTGTTTCTTTTGAA-AAAAGG
1 AAAAATC--TGAGTCTATTTCTTTTGAAA--AAAATCTTTGAGTCTGTTTCTTTTGAACAAAA-G
* * *
2557136 TTTTGTCTCTCTTGAGACAGTTTTTCTTGAG
61 TTTTGTCTCTCTTAAGACAG-ATTTCATGAG
*
2557167 AAAAATCTGAGTCTGTTTCTTTTG--AAAAATCTTTGAG
1 AAAAATCTGAGTCTATTTCTTTTGAAAAAAATCTTTGAG
2557204 ATTGTCTCTT
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
87 7 0.06
89 29 0.26
90 3 0.03
91 45 0.40
92 6 0.05
93 16 0.14
94 7 0.06
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (90 bp):
AAAAATCTGAGTCTATTTCTTTTGAAAAAAATCTTTGAGTCTGTTTCTTTTGAACAAAAGTTTTG
TCTCTCTTAAGACAGATTTCATGAG
Found at i:2557496 original size:40 final size:39
Alignment explanation
Indices: 2557425--2557501 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 39
2557415 CTAAAGATGG
* * * *
2557425 CCAGAGCTCTTCATCATGTATGAGTCGTGTCATCTCCTGA
1 CCAGAGCTCTTCATAACGTAGGAGACGTGTCA-CTCCTGA
* *
2557465 CCAGATCTCTTCATAACGTAGGAGACTTGTCACTCCT
1 CCAGAGCTCTTCATAACGTAGGAGACGTGTCACTCCT
2557502 AGATAACCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
39 5 0.16
40 26 0.84
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (39 bp):
CCAGAGCTCTTCATAACGTAGGAGACGTGTCACTCCTGA
Found at i:2557691 original size:131 final size:133
Alignment explanation
Indices: 2557414--2557841 Score: 494
Period size: 135 Copynumber: 3.2 Consensus size: 133
2557404 AATCATTATC
*
2557414 CCTAAAGATGGCC-AGAGCTCTTCATCATGTATGAGTCGTGTCATCTCCT-GACCAGATCTCTTC
1 CCTAAAGATGGCCAAGAACTCTTCATCATGTATGAGTCGTGTCATC-CCTCGACCAGA-CTC-TC
* * * * ** *
2557477 ATAACGTAGGAGACTTGTCACTCCTAGATAACCAGACGTCCTCATCATATAGGAACCGTGTTATC
63 ATCACGTAGGAGCCATGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATC
*
2557542 -TCCCGT
128 AT-CCTT
2557548 CCTAAAGATGGCC-AGAACTCTTCATCATGTATGAGTCGTGTCATCCCTCGACCAGA-TCTCATC
1 CCTAAAGATGGCCAAGAACTCTTCATCATGTATGAGTCGTGTCATCCCTCGACCAGACTCTCATC
* * * * * * *
2557611 GCGTAGGAGCCGTGTTACCCCTAGATAACCAGCCTTCCTCATCGCGTAGGAATCGAGTTATCATC
66 ACGTAGGAGCCATGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCATC
2557676 CTT
131 CTT
**
2557679 CCTAAAGATGGCCAAGAACTCTTCATCCCGTATGAG-CAGTGTCAT-CCTCCGACCAGACCTCCT
1 CCTAAAGATGGCCAAGAACTCTTCATCATGTATGAGTC-GTGTCATCCCT-CGACCAGA-CT-CT
* * * * *
2557742 CATCACGTAGGAGCCATGTCACGCTTAGATAACCAGTCGTCCTCATTACGTAGGAACCAAGTTAT
62 CATCACGTAGGAGCCATGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTAT
2557807 CA-CCATT
127 CATCC-TT
* *
2557814 CCTAAAGATAGCCAAGAACTCCTCATCA
1 CCTAAAGATGGCCAAGAACTCTTCATCA
2557842 CATAGGAGCT
Statistics
Matches: 254, Mismatches: 31, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
131 74 0.29
132 38 0.15
133 3 0.01
134 54 0.21
135 85 0.33
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (133 bp):
CCTAAAGATGGCCAAGAACTCTTCATCATGTATGAGTCGTGTCATCCCTCGACCAGACTCTCATC
ACGTAGGAGCCATGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCATC
CTT
Found at i:2558069 original size:3 final size:3
Alignment explanation
Indices: 2558061--2558120 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
2558051 CTATTTTAAT
* *
2558061 TTA TTA TTA TTA TTA TCA TTT TTA -TA TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2558107 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
2558121 TAATATGTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 4 0.08
3 47 0.92
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2558090 original size:17 final size:17
Alignment explanation
Indices: 2558061--2558120 Score: 86
Period size: 17 Copynumber: 3.5 Consensus size: 17
2558051 CTATTTTAAT
2558061 TTATTATTATTATTATCA
1 TTATTATTATTATTAT-A
*
2558079 TTTTTA-TATTATTATA
1 TTATTATTATTATTATA
2558095 TTATTATTATTATTATTA
1 TTATTATTATTATTA-TA
2558113 TTATTATT
1 TTATTATT
2558121 TAATATGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.16
17 17 0.45
18 15 0.39
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:2560730 original size:33 final size:33
Alignment explanation
Indices: 2560672--2560741 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
2560662 TGACACTATG
* * *
2560672 TATAAATTATATAGTTTATTAATATAAATTATA
1 TATAAACTATATAGTTTATCAATATAAAGTATA
*
2560705 TATAAACTATATAGTTTA-CACATATATAGTATA
1 TATAAACTATATAGTTTATCA-ATATAAAGTATA
2560738 TATA
1 TATA
2560742 GTTTAGGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (33 bp):
TATAAACTATATAGTTTATCAATATAAAGTATA
Found at i:2560904 original size:27 final size:27
Alignment explanation
Indices: 2560841--2560904 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 27
2560831 ACTATATGTA
2560841 AACTATATATACTATAGCTTACATATG
1 AACTATATATACTATAGCTTACATATG
* * *
2560868 AACTACATATACTATATAGTTTATATATG
1 AACTATATATAC--TATAGCTTACATATG
2560897 AACTATAT
1 AACTATAT
2560905 GTATAAACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 11 0.35
29 20 0.65
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (27 bp):
AACTATATATACTATAGCTTACATATG
Found at i:2560990 original size:75 final size:76
Alignment explanation
Indices: 2560901--2561043 Score: 191
Period size: 77 Copynumber: 1.9 Consensus size: 76
2560891 TATATGAACT
* * *
2560901 ATATGTATAAACTATATAATA-TATAGTTTAGTAGT-TTACGTATGAACTATATATATAAACTAT
1 ATATGTATAAACTATATAATAGTACAGTTTA-CAGTATTACATATGAACTATATATATAAACTAT
2560964 ATACTATAGTTG
65 ATACTATAGTTG
* * * *
2560976 ATATGTATATACTATATAATATGTACAGTTTACATTATTACATGTGAACTATATATATAAACTGT
1 ATATGTATAAACTATATAATA-GTACAGTTTACAGTATTACATATGAACTATATATATAAACTAT
2561041 ATA
65 ATA
2561044 AACTATATAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 20 0.34
76 2 0.03
77 36 0.62
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (76 bp):
ATATGTATAAACTATATAATAGTACAGTTTACAGTATTACATATGAACTATATATATAAACTATA
TACTATAGTTG
Found at i:2560997 original size:18 final size:19
Alignment explanation
Indices: 2560961--2561000 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
2560951 ATATATAAAC
*
2560961 TATATACTATAGTTGATATG
1 TATATACTATAG-TAATATG
2560981 TATATACTATA-TAATATG
1 TATATACTATAGTAATATG
2560999 TA
1 TA
2561001 CAGTTTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (19 bp):
TATATACTATAGTAATATG
Found at i:2561052 original size:20 final size:19
Alignment explanation
Indices: 2561027--2561074 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
2561017 ATGTGAACTA
*
2561027 TATATATAAACTGTATAAAC
1 TATATATAAAC-ATATAAAC
**
2561047 TATATAGTTTACATATAAAC
1 TATATA-TAAACATATAAAC
2561067 TATATATA
1 TATATATA
2561075 TATATATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (19 bp):
TATATATAAACATATAAAC
Found at i:2561074 original size:2 final size:2
Alignment explanation
Indices: 2561067--2561223 Score: 51
Period size: 2 Copynumber: 75.0 Consensus size: 2
2561057 ACATATAAAC
* *
2561067 TA TA TA TA TA TA TA TA GTT TA T- TA -A TGA -A CTA TA TA AA CTA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A TA -TA TA TA TA -TA
* * * * *
2561108 TT TA TA TA GTA TA TA CTA TA TA TA AA AA CTA TA GTT TA TA TT TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA -TA TA TA TA TA
2561152 TA TA CTA TA TA -A TA TA GT- TA -A TA T- TCA TA TA CTA TA TA T-
1 TA TA -TA TA TA TA TA TA -TA TA TA TA TA T-A TA TA -TA TA TA TA
*
2561191 TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTA TA
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
2561224 GTTTACATAT
Statistics
Matches: 118, Mismatches: 14, Indels: 46
0.66 0.08 0.26
Matches are distributed among these distances:
1 8 0.07
2 89 0.75
3 21 0.18
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:2561122 original size:9 final size:9
Alignment explanation
Indices: 2561095--2561218 Score: 50
Period size: 9 Copynumber: 13.9 Consensus size: 9
2561085 TTATTAATGA
*
2561095 ACTATATAA
1 ACTATATAT
*
2561104 ACTATTTAT
1 ACTATATAT
2561113 A-TAGTATAT
1 ACTA-TATAT
2561122 ACTATATAT
1 ACTATATAT
* *
2561131 A-AAAACTAT
1 ACTATA-TAT
*
2561140 AGT-T-TAT
1 ACTATATAT
*
2561147 A-TTTATAT
1 ACTATATAT
2561155 ACTATATA-
1 ACTATATAT
2561163 A-TATAGT-T
1 ACTATA-TAT
*
2561171 AATATTCATAT
1 ACTA-T-ATAT
2561182 ACTATATATT
1 ACTATATA-T
2561192 A-TATATAT
1 ACTATATAT
2561200 AAACTATATAT
1 --ACTATATAT
2561211 ACTATATA
1 ACTATATA
2561219 GTATAGTTTA
Statistics
Matches: 89, Mismatches: 9, Indels: 34
0.67 0.07 0.26
Matches are distributed among these distances:
6 1 0.01
7 9 0.10
8 12 0.13
9 47 0.53
10 8 0.09
11 12 0.13
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (9 bp):
ACTATATAT
Found at i:2561138 original size:40 final size:39
Alignment explanation
Indices: 2561059--2561174 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 39
2561049 TATAGTTTAC
* * * *
2561059 ATATAAACTATATATATATATATAGTTTATTAATGAACT
1 ATATAAACTATTTATATATATATAATATATTAATAAACT
*
2561098 ATATAAACTATTTATATAGTATATACTATATATAA-AAACT
1 ATATAAACTATTTATATA-TATATAATATAT-TAATAAACT
**
2561138 ATAGTTTA-TATTTATATACTATATAATATAGTTAATA
1 ATA-TAAACTATTTATATA-TATATAATATA-TTAATA
2561175 TTCATATACT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
39 17 0.27
40 40 0.62
41 7 0.11
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (39 bp):
ATATAAACTATTTATATATATATAATATATTAATAAACT
Found at i:2561167 original size:20 final size:20
Alignment explanation
Indices: 2561095--2561228 Score: 68
Period size: 20 Copynumber: 6.8 Consensus size: 20
2561085 TTATTAATGA
2561095 ACTATATAA-ACTATTTATAT
1 ACTATATAATA-TATTTATAT
* * * * *
2561115 AGTATATACTATATATAAAA
1 ACTATATAATATATTTATAT
*
2561135 ACTATAGT-TTATATTTATAT
1 ACTATA-TAATATATTTATAT
*
2561155 ACTATATAATATAGTTA-AT
1 ACTATATAATATATTTATAT
* *
2561174 ATTCATATACTATATATTATAT
1 ACT-ATATAATATAT-TTATAT
*
2561196 A-TATA-AA-CTA--TATAT
1 ACTATATAATATATTTATAT
*
2561211 ACTATATAGTATAGTTTA
1 ACTATATAATATA-TTTA
2561229 CATATGAACT
Statistics
Matches: 83, Mismatches: 19, Indels: 23
0.66 0.15 0.18
Matches are distributed among these distances:
15 6 0.07
16 4 0.05
17 1 0.01
18 4 0.05
19 6 0.07
20 51 0.61
21 8 0.10
22 3 0.04
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (20 bp):
ACTATATAATATATTTATAT
Found at i:2561167 original size:27 final size:27
Alignment explanation
Indices: 2561137--2561228 Score: 96
Period size: 27 Copynumber: 3.3 Consensus size: 27
2561127 ATATAAAAAC
2561137 TATAGTTTATATTTATATACTATATAA
1 TATAGTTTATATTTATATACTATATAA
* *
2561164 TATAGTTAATATTCATATACTATATATTA
1 TATAGTTTATATTTATATACTATATA--A
* * * *
2561193 TATA-TATAAACTATATATACTATATAG
1 TATAGTTTATA-TTTATATACTATATAA
2561220 TATAGTTTA
1 TATAGTTTA
2561229 CATATGAACT
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
27 28 0.54
28 6 0.12
29 18 0.35
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (27 bp):
TATAGTTTATATTTATATACTATATAA
Found at i:2561277 original size:38 final size:36
Alignment explanation
Indices: 2561178--2561277 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 36
2561168 GTTAATATTC
*
2561178 ATATACTATATATTATATATATAAACTATATAT--ACT
1 ATATACTATA-ATT-TACATATAAACTATATATAAACT
* * *
2561214 ATATAGTATAGTTTACATATGAACTATATATAAACT
1 ATATACTATAATTTACATATAAACTATATATAAACT
2561250 ATATAAACTATAATTTACATATAAACTA
1 ATAT--ACTATAATTTACATATAAACTA
2561278 CATACTATAG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
34 16 0.30
35 2 0.04
36 16 0.30
38 19 0.36
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (36 bp):
ATATACTATAATTTACATATAAACTATATATAAACT
Found at i:2561334 original size:15 final size:15
Alignment explanation
Indices: 2561314--2561342 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2561304 ATATAATATA
2561314 ATATAATTTATACTT
1 ATATAATTTATACTT
2561329 ATATAATTTATACT
1 ATATAATTTATACT
2561343 ATAAGTATGA
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:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATAATTTATACTT
Found at i:2561412 original size:2 final size:2
Alignment explanation
Indices: 2561392--2561525 Score: 69
Period size: 2 Copynumber: 63.5 Consensus size: 2
2561382 AAACTATTTC
* *
2561392 TA TA GTA TA TA T- TA CA TA TA TA GTG TA TA TA TA TA CTA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
* * *
2561434 GTT TA TA TA TGA -A CTA TA TA TA TA AA CTA TA TA TA TA TA AA GTA
1 -TA TA TA TA T-A TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * *
2561478 TA TGG TA TA TA TA AA CTA TA TA GTA TA TA TA -A AA TA TA TA T-
1 TA T-A TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
2561519 TA TA TA T
1 TA TA TA T
2561526 TAATTTATTA
Statistics
Matches: 102, Mismatches: 15, Indels: 30
0.69 0.10 0.20
Matches are distributed among these distances:
1 4 0.04
2 84 0.82
3 14 0.14
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (2 bp):
TA
Found at i:2561431 original size:9 final size:8
Alignment explanation
Indices: 2561392--2561525 Score: 69
Period size: 9 Copynumber: 15.9 Consensus size: 8
2561382 AAACTATTTC
2561392 TATAGTATA
1 TATA-TATA
*
2561401 TAT-TACA
1 TATATATA
*
2561408 TATATAGTG
1 TATATA-TA
2561417 TATATATA
1 TATATATA
2561425 TACTATATA
1 TA-TATATA
*
2561434 GTTTATATA
1 -TATATATA
2561443 TGA-ACTATA
1 T-ATA-TATA
*
2561452 TATATAAA
1 TATATATA
2561460 CTATATATA
1 -TATATATA
*
2561469 TATAAAGTA
1 TATATA-TA
*
2561478 TATGGTATA
1 TAT-ATATA
*
2561487 TATAAACTA
1 TATATA-TA
2561496 TATAGTATA
1 TATA-TATA
*
2561505 TATA-AAA
1 TATATATA
2561512 TATATAT-
1 TATATATA
2561519 TATATAT
1 TATATAT
2561526 TAATTTATTA
Statistics
Matches: 96, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
7 19 0.20
8 18 0.19
9 56 0.58
10 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (8 bp):
TATATATA
Found at i:2561431 original size:11 final size:11
Alignment explanation
Indices: 2561392--2561508 Score: 54
Period size: 11 Copynumber: 10.8 Consensus size: 11
2561382 AAACTATTTC
*
2561392 TATAGTATATA
1 TATACTATATA
2561403 T-TAC-ATATA
1 TATACTATATA
*
2561412 TAGT-GTATATA
1 TA-TACTATATA
2561423 TATACTATATA
1 TATACTATATA
2561434 GT-T--TATATA
1 -TATACTATATA
2561443 TGA-ACTATATA
1 T-ATACTATATA
2561454 TATAAACTATATA
1 TAT--ACTATATA
*
2561467 TATA-TAAAGTA
1 TATACTATA-TA
**
2561478 TATGGTATATA
1 TATACTATATA
*
2561489 TAAACTATATA
1 TATACTATATA
2561500 GTATA-TATA
1 -TATACTATA
2561509 AAATATATAT
Statistics
Matches: 81, Mismatches: 10, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
8 1 0.01
9 12 0.15
10 7 0.09
11 43 0.53
12 7 0.09
13 11 0.14
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (11 bp):
TATACTATATA
Found at i:2561433 original size:13 final size:13
Alignment explanation
Indices: 2561397--2561472 Score: 59
Period size: 13 Copynumber: 5.8 Consensus size: 13
2561387 ATTTCTATAG
2561397 TATATAT-TACATA
1 TATATATATAC-TA
*
2561410 TATAGTGTATA-TA
1 TATA-TATATACTA
* *
2561423 TATACTATATAGTT
1 TATA-TATATACTA
2561437 TATATATGA-ACTA
1 TATATAT-ATACTA
*
2561450 TATATATAAACTA
1 TATATATATACTA
2561463 TATATATATA
1 TATATATATA
2561473 AAGTATATGG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
12 1 0.02
13 40 0.78
14 8 0.16
15 2 0.04
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (13 bp):
TATATATATACTA
Done.