Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 149 of 195
Found at i:25002465 original size:3 final size:3
Alignment explanation
Indices: 25002459--25002540 Score: 82
Period size: 3 Copynumber: 27.3 Consensus size: 3
25002449 AGAAGAAAGG
25002459 AAT AAT AAT AAT AAT AAT AAT AACT -AT AAT AAT AACT -AT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AA-T AAT AAT AAT
* *
25002503 ATAT CAT AAT AAT AAT AAT ATAT AAT -AT AAC AAT AAT A
1 A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A
25002541 CTATAATATA
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
2 5 0.07
3 57 0.85
4 5 0.07
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25002489 original size:21 final size:20
Alignment explanation
Indices: 25002463--25002548 Score: 97
Period size: 21 Copynumber: 4.3 Consensus size: 20
25002453 GAAAGGAATA
25002463 ATAATAATAATAATAATAACT
1 ATAATAATAATAATAAT-ACT
*
25002484 ATAATAATAACT-ATAATAAAT
1 ATAATAATAA-TAATAAT-ACT
*
25002505 ATCATAATAATAATAATA-T
1 ATAATAATAATAATAATACT
*
25002524 ATAAT-ATAACAATAATACT
1 ATAATAATAATAATAATACT
25002543 ATAATA
1 ATAATA
25002549 TAGTGCCATA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.19
19 11 0.19
20 2 0.04
21 32 0.56
22 1 0.02
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATAATAATAATAATACT
Found at i:25002492 original size:24 final size:23
Alignment explanation
Indices: 25002460--25002548 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 23
25002450 GAAGAAAGGA
25002460 ATAATAATAATAATAATAATAACT
1 ATAATAATAATAATAATAATAA-T
25002484 ATAATAATAACT-ATAAT-A-AAT
1 ATAATAATAA-TAATAATAATAAT
*
25002505 ATCATAATAATAATAATATATAAT
1 ATAATAATAATAATAATA-ATAAT
* *
25002529 ATAACAATAATACT-ATAATA
1 ATAATAATAATAATAATAATA
25002549 TAGTGCCATA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 15 0.27
22 5 0.09
23 5 0.09
24 29 0.52
25 1 0.02
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATAATAATAATAATAATAAT
Found at i:25004394 original size:16 final size:17
Alignment explanation
Indices: 25004373--25004405 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
25004363 CTTTAAAAAA
25004373 TAAAAATAAT-ATTATT
1 TAAAAATAATAATTATT
25004389 TAAAAATAATAATTATT
1 TAAAAATAATAATTATT
25004406 GGTGACCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAAATAATAATTATT
Found at i:25004964 original size:18 final size:18
Alignment explanation
Indices: 25004930--25004965 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25004920 GGGTTTCAAG
*
25004930 GTTTCACCTAAGCTTTTA
1 GTTTCACCTAAGATTTTA
*
25004948 GTTTCACCTAGGATTTTA
1 GTTTCACCTAAGATTTTA
25004966 TTTTAAGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (18 bp):
GTTTCACCTAAGATTTTA
Found at i:25013657 original size:3 final size:3
Alignment explanation
Indices: 25013651--25013695 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
25013641 GAAAAAAATA
* * *
25013651 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT GAT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25013696 TTATAATAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25015039 original size:51 final size:52
Alignment explanation
Indices: 25014955--25015067 Score: 151
Period size: 51 Copynumber: 2.2 Consensus size: 52
25014945 CAACTTGAAC
* * *
25014955 TTTTTCTTTGGGTCGAAGCCACCTTTTTGGGTTTTCAACTTGAACTCTTT-TT
1 TTTTTTTTTGGGTCGAAGCCACCTTTTTAGGTTTTCAACTTCAACT-TTTCTT
25015007 TTTTTTTTTGGGTTC-AAGCCA-CTTTTTAGGTTTTCAACTTCAACTTTTCTT
1 TTTTTTTTTGGG-TCGAAGCCACCTTTTTAGGTTTTCAACTTCAACTTTTCTT
25015058 TGTTTTTTTT
1 T-TTTTTTTT
25015068 ATTTTTGTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
50 3 0.05
51 25 0.45
52 25 0.45
53 2 0.04
ACGTcount: A:0.13, C:0.17, G:0.14, T:0.56
Consensus pattern (52 bp):
TTTTTTTTTGGGTCGAAGCCACCTTTTTAGGTTTTCAACTTCAACTTTTCTT
Found at i:25015076 original size:15 final size:16
Alignment explanation
Indices: 25015056--25015089 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25015046 TCAACTTTTC
25015056 TTTGTTTT-TTTTATT
1 TTTGTTTTGTTTTATT
*
25015071 TTTGTTTTGTTTTGTT
1 TTTGTTTTGTTTTATT
25015087 TTT
1 TTT
25015090 TTTAGGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (16 bp):
TTTGTTTTGTTTTATT
Found at i:25026405 original size:22 final size:23
Alignment explanation
Indices: 25026374--25026423 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
25026364 GGATTGGAGC
*
25026374 CAAAAGGAAAAAACAAAA-AAAA
1 CAAAAAGAAAAAACAAAATAAAA
*
25026396 CAAAAAGAAAAAATAAAATAAAA
1 CAAAAAGAAAAAACAAAATAAAA
*
25026419 TAAAA
1 CAAAA
25026424 TATTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (23 bp):
CAAAAAGAAAAAACAAAATAAAA
Found at i:25026454 original size:14 final size:14
Alignment explanation
Indices: 25026437--25026463 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25026427 TAAAAAAATA
25026437 ATATAATAATAATG
1 ATATAATAATAATG
25026451 ATATAATAATAAT
1 ATATAATAATAAT
25026464 TTACAATAGT
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:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
ATATAATAATAATG
Found at i:25027095 original size:17 final size:19
Alignment explanation
Indices: 25027073--25027107 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
25027063 TGGCATCATT
25027073 AAATAAAA-AAA-TTAAAG
1 AAATAAAACAAACTTAAAG
25027090 AAATAAAACAAACTTAAA
1 AAATAAAACAAACTTAAA
25027108 TTCATAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (19 bp):
AAATAAAACAAACTTAAAG
Found at i:25028194 original size:60 final size:60
Alignment explanation
Indices: 25027996--25028256 Score: 190
Period size: 60 Copynumber: 4.3 Consensus size: 60
25027986 GGGAATGTGT
* * * * * * * *
25027996 GATTATTGAAGGCGTTTTTGGCTAAAATTGCCTTCAATAAT-CCTCTTCAATTTTTTT-GG
1 GATTATTCAAGGTGTTTTTAGCCAAAAATACCTTCAATAATCCCTTTTC-ATTTTTTTAGA
* * * ** *** **
25028055 GATTATTCAAGGTGTTTTTAGCCAGAAAACACTTTGAATAATCCCTTATAAAAAATTGAATGA
1 GATTATTCAAGGTGTTTTTAGCCA-AAAATACCTTCAATAATCCCTT-TTCATTTTTTTA-GA
* ** * *
25028118 GGTTATTCAAAATGTTTTTAGCCAAAAATATCTTCAATAAT-CC-TTTCTATTTTTTTTTTG-
1 GATTATTCAAGGTGTTTTTAGCCAAAAATACCTTCAATAATCCCTTTTC-A--TTTTTTTAGA
* * *
25028178 GATTATTCAAGGTGTTTCTAGCCAAAAATGCCTTGAATAATCCCTTTTCATTTTTTTAGA
1 GATTATTCAAGGTGTTTTTAGCCAAAAATACCTTCAATAATCCCTTTTCATTTTTTTAGA
25028238 GATTATTCAAGGTGTTTTT
1 GATTATTCAAGGTGTTTTT
25028257 TATCAATTAA
Statistics
Matches: 149, Mismatches: 42, Indels: 21
0.70 0.20 0.10
Matches are distributed among these distances:
59 29 0.19
60 66 0.44
61 12 0.08
62 20 0.13
63 22 0.15
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (60 bp):
GATTATTCAAGGTGTTTTTAGCCAAAAATACCTTCAATAATCCCTTTTCATTTTTTTAGA
Found at i:25030119 original size:12 final size:12
Alignment explanation
Indices: 25030102--25030156 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
25030092 GATTTAGAAT
*
25030102 TTTAAGATTTTA
1 TTTAAGGTTTTA
25030114 TTTAAGGTTTTAA
1 TTTAAGGTTTT-A
25030127 TTTTAAGGTTTTA
1 -TTTAAGGTTTTA
* *
25030140 TTTTAGGGTTTCA
1 -TTTAAGGTTTTA
25030153 TTTA
1 TTTA
25030157 GTGTTTTAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 14 0.37
13 13 0.34
14 11 0.29
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (12 bp):
TTTAAGGTTTTA
Found at i:25030129 original size:13 final size:13
Alignment explanation
Indices: 25030102--25030150 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 13
25030092 GATTTAGAAT
*
25030102 TTTAAGATTTT-A
1 TTTAAGGTTTTAA
25030114 TTTAAGGTTTTAA
1 TTTAAGGTTTTAA
*
25030127 TTTTAAGGTTTTAT
1 -TTTAAGGTTTTAA
*
25030141 TTTAGGGTTT
1 TTTAAGGTTT
25030151 CATTTAGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.31
13 10 0.31
14 12 0.38
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.59
Consensus pattern (13 bp):
TTTAAGGTTTTAA
Found at i:25030155 original size:13 final size:13
Alignment explanation
Indices: 25030100--25030155 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
25030090 AAGATTTAGA
* *
25030100 ATTTTAAGATTTT
1 ATTTTAAGGTTTC
*
25030113 A-TTTAAGGTTTTA
1 ATTTTAAGG-TTTC
*
25030126 ATTTTAAGGTTTT
1 ATTTTAAGGTTTC
*
25030139 ATTTTAGGGTTTC
1 ATTTTAAGGTTTC
25030152 ATTT
1 ATTT
25030156 AGTGTTTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 6 0.17
13 23 0.64
14 7 0.19
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (13 bp):
ATTTTAAGGTTTC
Found at i:25030155 original size:26 final size:26
Alignment explanation
Indices: 25030099--25030155 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
25030089 TAAGATTTAG
*
25030099 AATTTTAAGATTTTATTTAAGGTTTT
1 AATTTTAAGATTTTATTTAAGGGTTT
* *
25030125 AATTTTAAGGTTTTATTTTAGGGTTT
1 AATTTTAAGATTTTATTTAAGGGTTT
*
25030151 CATTT
1 AATTT
25030156 AGTGTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (26 bp):
AATTTTAAGATTTTATTTAAGGGTTT
Found at i:25030314 original size:3 final size:3
Alignment explanation
Indices: 25030306--25030361 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
25030296 TATTAAAATT
* *
25030306 TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA ATA TT- TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
25030350 TTA GTT- TTA TTA
1 TTA -TTA TTA TTA
25030362 ATTAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:25032553 original size:14 final size:13
Alignment explanation
Indices: 25032536--25032579 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
25032526 AAGATTTAAG
25032536 ATTTTAAGGTTTT
1 ATTTTAAGGTTTT
*
25032549 AATTTTAGGGTTTT
1 -ATTTTAAGGTTTT
*
25032563 ATTTTAAGGTTTC
1 ATTTTAAGGTTTT
25032576 ATTT
1 ATTT
25032580 AGAGGTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.59
Consensus pattern (13 bp):
ATTTTAAGGTTTT
Found at i:25032568 original size:13 final size:13
Alignment explanation
Indices: 25032536--25032596 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
25032526 AAGATTTAAG
*
25032536 ATTTTAAGGTTTT
1 ATTTTAGGGTTTT
25032549 AATTTTAGGGTTTT
1 -ATTTTAGGGTTTT
* *
25032563 ATTTTAAGGTTTC
1 ATTTTAGGGTTTT
25032576 A-TTTAGAGG-TTT
1 ATTTTAG-GGTTTT
25032588 AGTTTTAGG
1 A-TTTTAGG
25032597 ACTTAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 7 0.18
13 15 0.38
14 17 0.44
ACGTcount: A:0.23, C:0.02, G:0.21, T:0.54
Consensus pattern (13 bp):
ATTTTAGGGTTTT
Found at i:25032735 original size:24 final size:23
Alignment explanation
Indices: 25032704--25032771 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
25032694 TAGATTTTCA
25032704 TTTA-TATTTTCTTTTATTAAAAT
1 TTTATTATTTT-TTTTATTAAAAT
* **
25032727 TTTATTATTATTATTTATTAATCT
1 TTTATTATT-TTTTTTATTAAAAT
25032751 TTTATTAATTTATTTTTATTA
1 TTTATT-ATTT-TTTTTATTA
25032772 TTTAATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
23 4 0.11
24 20 0.54
25 13 0.35
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTATTATTTTTTTTATTAAAAT
Found at i:25032770 original size:32 final size:34
Alignment explanation
Indices: 25032713--25032780 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 34
25032703 ATTTATATTT
*
25032713 TCTTTTATTAAAATTTTATTATTATTATTTATTAA
1 TCTTTTATT-AAATTTTATTATTATTATTTAATAA
*
25032748 TCTTTTATT-AA-TTTATTTTTATTATTTAATAA
1 TCTTTTATTAAATTTTATTATTATTATTTAATAA
25032780 T
1 T
25032781 TCCTCAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 20 0.65
33 2 0.06
35 9 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (34 bp):
TCTTTTATTAAATTTTATTATTATTATTTAATAA
Found at i:25032981 original size:30 final size:30
Alignment explanation
Indices: 25032945--25033006 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
25032935 AATGCTTGAA
25032945 TATAATCAATGATAAGATAAGCATGTCAGT
1 TATAATCAATGATAAGATAAGCATGTCAGT
25032975 TATAATCAATGATAAGATAAGCATGTCAGT
1 TATAATCAATGATAAGATAAGCATGTCAGT
25033005 TA
1 TA
25033007 GTAACATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.31
Consensus pattern (30 bp):
TATAATCAATGATAAGATAAGCATGTCAGT
Found at i:25038007 original size:22 final size:22
Alignment explanation
Indices: 25037979--25038020 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25037969 ATCTGTATAT
25037979 ATTTGTATCCCTAAAATTAATA
1 ATTTGTATCCCTAAAATTAATA
* *
25038001 ATTTGTATCTCTAGAATTAA
1 ATTTGTATCCCTAAAATTAA
25038021 GGATAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (22 bp):
ATTTGTATCCCTAAAATTAATA
Found at i:25048410 original size:20 final size:20
Alignment explanation
Indices: 25048372--25048410 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25048362 CTTGATTAAT
* **
25048372 AAAGTTAAAATTAGTCAAAC
1 AAAGTCAAAATTACACAAAC
25048392 AAAGTCAAAATTACACAAA
1 AAAGTCAAAATTACACAAA
25048411 ACTTAATCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAGTCAAAATTACACAAAC
Found at i:25049131 original size:14 final size:15
Alignment explanation
Indices: 25049103--25049131 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25049093 AAAAAAAGGG
25049103 AGGCTTTTAAAAAAA
1 AGGCTTTTAAAAAAA
25049118 AGGCTTTTAAAAAA
1 AGGCTTTTAAAAAA
25049132 GTAAAAAGAA
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:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (15 bp):
AGGCTTTTAAAAAAA
Found at i:25050907 original size:3 final size:3
Alignment explanation
Indices: 25050899--25050923 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25050889 CTCCAAAAAC
25050899 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
25050924 AATTTATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25051622 original size:24 final size:25
Alignment explanation
Indices: 25051590--25051637 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
25051580 GTCATTAAGA
25051590 TTATTA-TTTACAAAGAATGTTATT
1 TTATTATTTTACAAAGAATGTTATT
*
25051614 TTATTATTTTAGAAAGAATGTTAT
1 TTATTATTTTACAAAGAATGTTAT
25051638 GAAAATCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (25 bp):
TTATTATTTTACAAAGAATGTTATT
Found at i:25051726 original size:17 final size:19
Alignment explanation
Indices: 25051690--25051726 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25051680 TATCGGAGAT
*
25051690 TTTGAAGATATTTCTTTAA
1 TTTGAAGATATTTCTATAA
25051709 TTTGAAGAT-TTTC-ATAA
1 TTTGAAGATATTTCTATAA
25051726 T
1 T
25051727 ATTCCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (19 bp):
TTTGAAGATATTTCTATAA
Found at i:25052698 original size:4 final size:4
Alignment explanation
Indices: 25052689--25052722 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
25052679 CTACACTTGA
*
25052689 TTAT TTAT TTAT TTAT GTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
25052723 TATTAACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:25055042 original size:3 final size:3
Alignment explanation
Indices: 25055034--25055083 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
25055024 GAAAAGATTG
*
25055034 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25055082 AT
1 AT
25055084 GATATTATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:25060181 original size:19 final size:18
Alignment explanation
Indices: 25060159--25060199 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
25060149 AAAAAAGTTT
25060159 AAAACAAAAAAAAATAAA
1 AAAACAAAAAAAAATAAA
* *
25060177 GAAAATAAAGAAAAATAAA
1 -AAAACAAAAAAAAATAAA
25060196 AAAA
1 AAAA
25060200 AGTGACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.85, C:0.02, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAATAAA
Found at i:25061346 original size:35 final size:35
Alignment explanation
Indices: 25061307--25061425 Score: 125
Period size: 35 Copynumber: 3.4 Consensus size: 35
25061297 TCCCAGCTAT
*
25061307 TTTATTCTTCAACTTGTAGTTTGATCCTAGTCTTA
1 TTTATTCTTCGACTTGTAGTTTGATCCTAGTCTTA
* * * *
25061342 TTTATTCTTCGACTTG-CGATTCGATCCCAATCATT-
1 TTTATTCTTCGACTTGTAG-TTTGATCCTAGTC-TTA
* * * *
25061377 TTTATTCTTTGACTTGTAGTTTAATCTTAGTCCTA
1 TTTATTCTTCGACTTGTAGTTTGATCCTAGTCTTA
25061412 TTTATTCTTCGACT
1 TTTATTCTTCGACT
25061426 CATAGTTCAA
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
34 2 0.03
35 61 0.92
36 3 0.05
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.50
Consensus pattern (35 bp):
TTTATTCTTCGACTTGTAGTTTGATCCTAGTCTTA
Found at i:25064698 original size:16 final size:16
Alignment explanation
Indices: 25064677--25064719 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
25064667 GTTGAAAAGA
25064677 TTTTTTATTTTTTATT
1 TTTTTTATTTTTTATT
**
25064693 TTTTTTCCTTTTTATT
1 TTTTTTATTTTTTATT
25064709 TCTTATTTATT
1 T-TT-TTTATT
25064720 AATATAGGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 15 0.71
17 2 0.10
18 4 0.19
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTATTTTTTATT
Found at i:25067089 original size:26 final size:26
Alignment explanation
Indices: 25067060--25067112 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
25067050 GAAATCGCAA
25067060 TCACTTCTTTTATCTTACAAATTAAC
1 TCACTTCTTTTATCTTACAAATTAAC
*
25067086 TCACTTTTTTTATCTTACAAATTAAC
1 TCACTTCTTTTATCTTACAAATTAAC
25067112 T
1 T
25067113 ATCACTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (26 bp):
TCACTTCTTTTATCTTACAAATTAAC
Found at i:25068786 original size:18 final size:18
Alignment explanation
Indices: 25068748--25068787 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
25068738 CTTAGGATAG
*
25068748 TTTTATCTTTTTCTTTTA
1 TTTTATCTTTTTCTTTAA
25068766 TTTTATCTTTTT-TTGTAA
1 TTTTATCTTTTTCTT-TAA
25068784 TTTT
1 TTTT
25068788 TGAATTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTATCTTTTTCTTTAA
Found at i:25074387 original size:17 final size:18
Alignment explanation
Indices: 25074365--25074399 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25074355 ATAATTTTTT
25074365 AATATTAAC-AAATAATA
1 AATATTAACAAAATAATA
*
25074382 AATATTTACAAAATAATA
1 AATATTAACAAAATAATA
25074400 TCTAATGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AATATTAACAAAATAATA
Found at i:25077297 original size:9 final size:9
Alignment explanation
Indices: 25077283--25077308 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25077273 AAAAGCCCTT
25077283 TTCATTTTC
1 TTCATTTTC
25077292 TTCATTTTC
1 TTCATTTTC
25077301 TTCATTTT
1 TTCATTTT
25077309 TCTAATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (9 bp):
TTCATTTTC
Found at i:25077691 original size:16 final size:17
Alignment explanation
Indices: 25077662--25077695 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
25077652 AACCCATTTA
*
25077662 AAGAGAAAAGAGAAAGG
1 AAGAGAAAAAAGAAAGG
25077679 AAGA-AAAAAAGAAAGG
1 AAGAGAAAAAAGAAAGG
25077695 A
1 A
25077696 TCAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AAGAGAAAAAAGAAAGG
Found at i:25081310 original size:20 final size:20
Alignment explanation
Indices: 25081285--25081322 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25081275 ATTATTCAAC
25081285 TTCTACTTGCAAAATAATCG
1 TTCTACTTGCAAAATAATCG
*
25081305 TTCTACTTGTAAAATAAT
1 TTCTACTTGCAAAATAAT
25081323 TACAGCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (20 bp):
TTCTACTTGCAAAATAATCG
Found at i:25082083 original size:14 final size:15
Alignment explanation
Indices: 25082051--25082082 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25082041 ACTTTTAACC
*
25082051 AAACAAAAATAATAA
1 AAACAAAAAAAATAA
25082066 AAACAAAAAAAATAA
1 AAACAAAAAAAATAA
25082081 AA
1 AA
25082083 CCCAACAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.09
Consensus pattern (15 bp):
AAACAAAAAAAATAA
Found at i:25090876 original size:23 final size:24
Alignment explanation
Indices: 25090824--25090882 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
25090814 TTTTTGGAGG
*
25090824 AGAAGACAAAAAAAGTAAAAAGAA
1 AGAAGAGAAAAAAAGTAAAAAGAA
* * *
25090848 A-TAGAGAAAAAATG-AAAACGAA
1 AGAAGAGAAAAAAAGTAAAAAGAA
*
25090870 AGAAGAGGAAAAA
1 AGAAGAGAAAAAA
25090883 CCAGGATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 8 0.29
23 19 0.68
24 1 0.04
ACGTcount: A:0.71, C:0.03, G:0.20, T:0.05
Consensus pattern (24 bp):
AGAAGAGAAAAAAAGTAAAAAGAA
Found at i:25094497 original size:2 final size:2
Alignment explanation
Indices: 25094490--25094514 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25094480 TTCCGATGAC
25094490 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
25094515 CAACAGAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25098011 original size:21 final size:21
Alignment explanation
Indices: 25097973--25098012 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25097963 TTTGAAAAAT
* *
25097973 AAAATAAAAGATTTAAAATGA
1 AAAATAAAAGACTAAAAATGA
*
25097994 AAAATAAAATACTAAAAAT
1 AAAATAAAAGACTAAAAAT
25098013 ATCTCTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATAAAAGACTAAAAATGA
Found at i:25101947 original size:54 final size:54
Alignment explanation
Indices: 25101883--25101991 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
25101873 ATGAAAATGT
*
25101883 TATAATGCAGTTTCATGTAAGAGCAGAGGTGTAAATCTTGTTTACAGGTAAAGG
1 TATAATGCAGTTTCATGTAAGAGCAAAGGTGTAAATCTTGTTTACAGGTAAAGG
*
25101937 TATAATGCAGTTTCATGTAAGAGTAAAGGTGTAAATCTTGTTTACAGGTAAAGG
1 TATAATGCAGTTTCATGTAAGAGCAAAGGTGTAAATCTTGTTTACAGGTAAAGG
25101991 T
1 T
25101992 GTGTTCTTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (54 bp):
TATAATGCAGTTTCATGTAAGAGCAAAGGTGTAAATCTTGTTTACAGGTAAAGG
Found at i:25101993 original size:25 final size:25
Alignment explanation
Indices: 25101909--25101993 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
25101899 GTAAGAGCAG
25101909 AGGTGTAAATCTTGTTTACAGGTAA
1 AGGTGTAAATCTTGTTTACAGGTAA
*
25101934 AGGTAT-AATGCAGTT-TCATGTA-AGAGTAA
1 AGGTGTAAAT-C--TTGT--T-TACAG-GTAA
25101963 AGGTGTAAATCTTGTTTACAGGTAA
1 AGGTGTAAATCTTGTTTACAGGTAA
25101988 AGGTGT
1 AGGTGT
25101994 GTTCTTTGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 20
0.69 0.03 0.29
Matches are distributed among these distances:
24 3 0.06
25 18 0.38
26 4 0.08
27 4 0.08
28 4 0.08
29 12 0.25
30 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (25 bp):
AGGTGTAAATCTTGTTTACAGGTAA
Found at i:25104423 original size:18 final size:18
Alignment explanation
Indices: 25104400--25104434 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25104390 CTAGTAACAT
*
25104400 AGAGGTCAACTCTAGAAG
1 AGAGGTAAACTCTAGAAG
*
25104418 AGAGGTAAACTTTAGAA
1 AGAGGTAAACTCTAGAA
25104435 TGGAATAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (18 bp):
AGAGGTAAACTCTAGAAG
Found at i:25108510 original size:38 final size:39
Alignment explanation
Indices: 25108429--25108513 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 39
25108419 TTGTTCTTAT
* * * *
25108429 GTTCATTTGGTTATGATGTTACTTGTTCATTTGCCTATT
1 GTTCATTAGGTTATGATGTTACTTGTACATTTGCATATA
*
25108468 GTTCATTAGGTTATGAT-TTTCTTGTACATATTG-ATATA
1 GTTCATTAGGTTATGATGTTACTTGTACAT-TTGCATATA
25108506 GTTCATTA
1 GTTCATTA
25108514 TATAGTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
38 21 0.52
39 19 0.47
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.52
Consensus pattern (39 bp):
GTTCATTAGGTTATGATGTTACTTGTACATTTGCATATA
Found at i:25109104 original size:3 final size:3
Alignment explanation
Indices: 25109098--25109135 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
25109088 GTTGTTGTTG
25109098 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25109136 TATTTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25109153 original size:12 final size:11
Alignment explanation
Indices: 25109138--25109193 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
25109128 TTATTATTTA
25109138 TTTTTCTTCTAT
1 TTTTTCTTCT-T
*
25109150 TTTTTTTTCTT
1 TTTTTCTTCTT
25109161 TTTTTCCTT-TT
1 TTTTT-CTTCTT
25109172 TTTTTCCTTCTT
1 TTTTT-CTTCTT
25109184 CTTCTTTCTT
1 -TT-TTTCTT
25109194 ATCCAGTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 17 0.45
12 13 0.34
13 5 0.13
14 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:25109190 original size:20 final size:19
Alignment explanation
Indices: 25109139--25109190 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
25109129 TATTATTTAT
*
25109139 TTTTCTTCTATTTTTTTTTC
1 TTTTCTTCT-TTTTTTTTCC
*
25109159 TTTTTTTCCTTTTTTTTTCC
1 TTTTCTT-CTTTTTTTTTCC
25109179 TTCTTCTTCTTT
1 TT-TTCTTCTTT
25109191 CTTATCCAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCTTCTTTTTTTTTCC
Found at i:25123045 original size:99 final size:99
Alignment explanation
Indices: 25122936--25123275 Score: 441
Period size: 99 Copynumber: 3.4 Consensus size: 99
25122926 TCAAATGAGA
*
25122936 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAACTTTTTCAAGATGCA-ATTTTAAAGTTATTGA
1 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAACTTTTTCAAGATG-AGATTTTAAAGTTGTTGA
* *
25123000 GCCTTTGCTGAGAGGAGCTTTTTCAAGATAAGATT
65 GCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGATT
* * *
25123035 TTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGA
1 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAACTTTTTCAAGATGAGA-TTTTAAAGTTGTTGA
* * * *
25123100 GCCTCTGCTGAAAGAAGCTTTTCCAAGATGAGA-A
65 GCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGATT
* ** *
25123134 TTTTTAAAGTTGTTGAGCTTCTATTGAGAGAAATTTTTTCAAGATGAGATTCTTAAAGTTGTTGA
1 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAACTTTTTCAAGATGAGATT-TTAAAGTTGTTGA
* *
25123199 GCCTCTACTGAGAGGAGCTTTTCCAAGATAAAATT
65 GCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGATT
* * * * * *
25123234 TTTTTTAAGCTGTTAAGCCTCTGCTAAGAGGAGCTTTTTCAA
1 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAACTTTTTCAA
25123276 AAGCTTTTCC
Statistics
Matches: 204, Mismatches: 33, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
98 3 0.01
99 127 0.62
100 74 0.36
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.38
Consensus pattern (99 bp):
TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAACTTTTTCAAGATGAGATTTTAAAGTTGTTGAG
CCTCTGCTGAGAGGAGCTTTTCCAAGATAAGATT
Found at i:25123061 original size:51 final size:49
Alignment explanation
Indices: 25122922--25123275 Score: 417
Period size: 49 Copynumber: 7.2 Consensus size: 49
25122912 ATTTGAAGCT
* *
25122922 TTTTTCAA-ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAAC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* *
25122970 TTTTTCAAGATGCA-A-TTTTAAAGTTATTGAGCCTTTGCTGAGAGGAGC
1 TTTTTCAAGATG-AGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* *
25123018 TTTTTCAAGATAAGATTTTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGC
1 TTTTTCAAGATGAGA--TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* *
25123069 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAGC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* * ** * **
25123118 TTTTCCAAGATGAGAATTTTTAAAGTTGTTGAGCTTCTATTGAGAGAAAT
1 TTTTTCAAGATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* *
25123168 TTTTTCAAGATGAGATTCTTAAAGTTGTTGAGCCTCTACTGAGAGGAGC
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
* * * * * * *
25123217 TTTTCCAAGATAAAATTTTTTTTAAGCTGTTAAGCCTCTGCTAAGAGGAGC
1 TTTTTCAAGATGAGA--TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
25123268 TTTTTCAA
1 TTTTTCAA
25123276 AAGCTTTTCC
Statistics
Matches: 263, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.00
48 49 0.19
49 89 0.34
50 43 0.16
51 81 0.31
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.38
Consensus pattern (49 bp):
TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC
Found at i:25123190 original size:148 final size:147
Alignment explanation
Indices: 25122922--25123271 Score: 420
Period size: 148 Copynumber: 2.4 Consensus size: 147
25122912 ATTTGAAGCT
* * *
25122922 TTTTTCAA-ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAACTTTTTCAAGATGCAAT
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAGCTTTTCCAAGATGCAAT
* * * *
25122986 TTTAAAGTTATTGAGCCTTTGCTGAGAGGAGCTTTTTCAAGATAAGATTTTTTTAAAGTTGTTGA
66 TTTAAAGTTATTGAGCCTTTACTGAGAGAAACTTTTTCAAGATAAGA-TTTCTTAAAGTTGTTGA
* *
25123051 GCCTTTGCTGAGAGGAGC
130 GCCTCTACTGAGAGGAGC
*
25123069 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAGCTTTTCCAAGATGAGAA
1 TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAGCTTTTCCAAGATG-CAA
* * * *
25123134 TTTTTAAAGTTGTTGAG-CTTCTATTGAGAGAAATTTTTTCAAGATGAGA-TTCTTAAAGTTGTT
65 -TTTTAAAGTTATTGAGCCTT-TACTGAGAGAAACTTTTTCAAGATAAGATTTCTTAAAGTTGTT
25123197 GAGCCTCTACTGAGAGGAGC
128 GAGCCTCTACTGAGAGGAGC
* * * * * * *
25123217 TTTTCCAAGATAAAATTTTTTTTAAGCTGTTAAGCCTCTGCT-AAGAGGAGCTTTT
1 TTTTTCAAGATGAGA--TTTTTAAAGTTGTTGAGCCTCTGCTGAA-AGAAGCTTTT
25123272 TCAAAAGCTT
Statistics
Matches: 175, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
147 8 0.05
148 92 0.53
149 7 0.04
150 68 0.39
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (147 bp):
TTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAAAGAAGCTTTTCCAAGATGCAAT
TTTAAAGTTATTGAGCCTTTACTGAGAGAAACTTTTTCAAGATAAGATTTCTTAAAGTTGTTGAG
CCTCTACTGAGAGGAGC
Found at i:25123357 original size:45 final size:47
Alignment explanation
Indices: 25123291--25123379 Score: 137
Period size: 46 Copynumber: 1.9 Consensus size: 47
25123281 TTTCCAATAT
* * *
25123291 GAGAATTTTAAAAGTTGTTGAGCCTC-GCTGAGATGAGCTTTTTCAA
1 GAGAATTTTAAAAGTTGTTGAGCCTCTGCTCAGAGGAGCCTTTTCAA
25123337 GAGAATTTT-AAAGTTGTTGAGCCTCTGCTCAGAGGAGCCTTTT
1 GAGAATTTTAAAAGTTGTTGAGCCTCTGCTCAGAGGAGCCTTTT
25123380 AAAATTTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 16 0.41
46 23 0.59
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (47 bp):
GAGAATTTTAAAAGTTGTTGAGCCTCTGCTCAGAGGAGCCTTTTCAA
Found at i:25123890 original size:13 final size:13
Alignment explanation
Indices: 25123872--25123905 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
25123862 GAAGAAACTG
25123872 AAAAAAAATTGTA-
1 AAAAAAAATT-TAC
25123885 AAAAAAAATTTAC
1 AAAAAAAATTTAC
25123898 AAAAAAAA
1 AAAAAAAA
25123906 ATAGAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAAAAAATTTAC
Found at i:25126703 original size:21 final size:21
Alignment explanation
Indices: 25126677--25126721 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
25126667 TGGATTTTGG
*
25126677 AAAGTT-TGAGAAATAAAAAAA
1 AAAGTTGTGA-AAACAAAAAAA
*
25126698 AAAGTTGTGAAAACAAAAGAA
1 AAAGTTGTGAAAACAAAAAAA
25126719 AAA
1 AAA
25126722 CAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAGTTGTGAAAACAAAAAAA
Found at i:25130799 original size:244 final size:244
Alignment explanation
Indices: 25130370--25130858 Score: 978
Period size: 244 Copynumber: 2.0 Consensus size: 244
25130360 CCTCAAGATG
25130370 CTTGGCGTGGATCAAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGC
1 CTTGGCGTGGATCAAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGC
25130435 TCCGAACCCACGCGGCTCCGAGACCCGAGATTCACCCTTCCAACGTCCCGAATCAGCCTCACGGT
66 TCCGAACCCACGCGGCTCCGAGACCCGAGATTCACCCTTCCAACGTCCCGAATCAGCCTCACGGT
25130500 CACACTCTTGTGAGGTATTATCCGCTCTGGCTCCCCTGACCTCACGGTTTTATCTTACAAAATGT
131 CACACTCTTGTGAGGTATTATCCGCTCTGGCTCCCCTGACCTCACGGTTTTATCTTACAAAATGT
25130565 GTCTCACAAGACAGAGATGATGTGAACCCTTTTATATCTCATAGATCTT
196 GTCTCACAAGACAGAGATGATGTGAACCCTTTTATATCTCATAGATCTT
25130614 CTTGGCGTGGATCAAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGC
1 CTTGGCGTGGATCAAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGC
25130679 TCCGAACCCACGCGGCTCCGAGACCCGAGATTCACCCTTCCAACGTCCCGAATCAGCCTCACGGT
66 TCCGAACCCACGCGGCTCCGAGACCCGAGATTCACCCTTCCAACGTCCCGAATCAGCCTCACGGT
25130744 CACACTCTTGTGAGGTATTATCCGCTCTGGCTCCCCTGACCTCACGGTTTTATCTTACAAAATGT
131 CACACTCTTGTGAGGTATTATCCGCTCTGGCTCCCCTGACCTCACGGTTTTATCTTACAAAATGT
25130809 GTCTCACAAGACAGAGATGATGTGAACCCTTTTATATCTCATAGATCTT
196 GTCTCACAAGACAGAGATGATGTGAACCCTTTTATATCTCATAGATCTT
25130858 C
1 C
25130859 CTATTATATT
Statistics
Matches: 245, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
244 245 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (244 bp):
CTTGGCGTGGATCAAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGC
TCCGAACCCACGCGGCTCCGAGACCCGAGATTCACCCTTCCAACGTCCCGAATCAGCCTCACGGT
CACACTCTTGTGAGGTATTATCCGCTCTGGCTCCCCTGACCTCACGGTTTTATCTTACAAAATGT
GTCTCACAAGACAGAGATGATGTGAACCCTTTTATATCTCATAGATCTT
Found at i:25139865 original size:19 final size:18
Alignment explanation
Indices: 25139843--25139891 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
25139833 CTCAACATTA
25139843 AAATCAATAAAATTAGGT
1 AAATCAATAAAATTAGGT
*
25139861 GAAAT-AA-CAAATT-GGT
1 -AAATCAATAAAATTAGGT
25139877 AAATCAATAAAATTA
1 AAATCAATAAAATTA
25139892 TCATAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 4 0.16
16 5 0.20
17 10 0.40
18 2 0.08
19 4 0.16
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (18 bp):
AAATCAATAAAATTAGGT
Found at i:25140792 original size:11 final size:12
Alignment explanation
Indices: 25140775--25140805 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
25140765 TTTTTTATAT
25140775 TATTAATATAAA
1 TATTAATATAAA
25140787 TA-TAATATAAA
1 TATTAATATAAA
25140798 TATTAATA
1 TATTAATA
25140806 CTAGTTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTAATATAAA
Found at i:25141068 original size:9 final size:10
Alignment explanation
Indices: 25141050--25141105 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
25141040 ATAATTTTTG
25141050 TATATATTCA
1 TATATATTCA
*
25141060 TGT-TATTCA
1 TATATATTCA
* * *
25141069 TGTCTATTCG
1 TATATATTCA
25141079 TATATATTCA
1 TATATATTCA
25141089 TAT-TATTCA
1 TATATATTCA
*
25141098 TATTTATT
1 TATATATT
25141106 TGTATTATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
9 18 0.46
10 21 0.54
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (10 bp):
TATATATTCA
Found at i:25141086 original size:10 final size:9
Alignment explanation
Indices: 25141054--25141101 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
25141044 TTTTTGTATA
*
25141054 TATTCATGT
1 TATTCATAT
*
25141063 TATTCATGT
1 TATTCATAT
*
25141072 CTATTCGTAT
1 -TATTCATAT
25141082 ATATTCATAT
1 -TATTCATAT
25141092 TATTCATAT
1 TATTCATAT
25141101 T
1 T
25141102 TATTTGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.54
Consensus pattern (9 bp):
TATTCATAT
Found at i:25141105 original size:29 final size:29
Alignment explanation
Indices: 25141049--25141110 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
25141039 AATAATTTTT
* *
25141049 GTATATATTCATGTTATTCATGTCTATTC
1 GTATATATTCATATTATTCATATCTATTC
* *
25141078 GTATATATTCATATTATTCATATTTATTT
1 GTATATATTCATATTATTCATATCTATTC
25141107 GTAT
1 GTAT
25141111 TATGCTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (29 bp):
GTATATATTCATATTATTCATATCTATTC
Found at i:25159806 original size:2 final size:2
Alignment explanation
Indices: 25159799--25159828 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25159789 TGCTTTTCTT
25159799 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
25159829 GACAAGTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25160508 original size:31 final size:30
Alignment explanation
Indices: 25160451--25160507 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
25160441 AATTTTTTCT
* *
25160451 TTTTTCTTTTGAAAGCAAATCATTTTTAAA
1 TTTTTCTTTCGAAAGCAAAACATTTTTAAA
* *
25160481 TTTTTGTTTCGAAAGCAAAACTTTTTT
1 TTTTTCTTTCGAAAGCAAAACATTTTT
25160508 TTTGAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (30 bp):
TTTTTCTTTCGAAAGCAAAACATTTTTAAA
Found at i:25160957 original size:26 final size:27
Alignment explanation
Indices: 25160902--25160957 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
25160892 GAAATGTTGG
* *
25160902 TTTTAAGGTTTGAGGGTTGGTTCAGTT
1 TTTTAAGGTTTGAGGGTAGGTTAAGTT
*
25160929 TTTTAGGGTTT-AGGGTAGGTTTAAGTT
1 TTTTAAGGTTTGAGGGTAGG-TTAAGTT
25160956 TT
1 TT
25160958 AGGTTAGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.16, C:0.02, G:0.32, T:0.50
Consensus pattern (27 bp):
TTTTAAGGTTTGAGGGTAGGTTAAGTT
Found at i:25160995 original size:24 final size:24
Alignment explanation
Indices: 25160930--25161006 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
25160920 GGTTCAGTTT
* * *
25160930 TTTAGGGTTTAGGGTAGGTTTAAGT
1 TTTA-GGTTTAGGATTGGTTTAAGG
* *
25160955 TTTAGG-TTAGGGTTTGGTTTATGG
1 TTTAGGTTTA-GGATTGGTTTAAGG
*
25160979 TTTAGGTTTAGGATTGGATTTGAGG
1 TTTAGGTTTAGGATTGG-TTTAAGG
25161004 TTT
1 TTT
25161007 GTATTTGGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.07
24 24 0.57
25 15 0.36
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (24 bp):
TTTAGGTTTAGGATTGGTTTAAGG
Found at i:25161078 original size:13 final size:13
Alignment explanation
Indices: 25160930--25161175 Score: 87
Period size: 13 Copynumber: 18.2 Consensus size: 13
25160920 GGTTCAGTTT
25160930 TTTAGGGTTTAGGG
1 TTTA-GGTTTAGGG
* *
25160944 --TAGGTTTAAGT
1 TTTAGGTTTAGGG
25160955 TTTAGG-TTAGGG
1 TTTAGGTTTAGGG
*
25160967 TTT-GGTTTATGG
1 TTTAGGTTTAGGG
25160979 TTTAGGTTTAGGATTGG
1 TTTAGGTTTA-G---GG
**
25160996 ATTTGAGGTTT-GTA
1 -TTT-AGGTTTAGGG
* *
25161010 TTTGGAGTTTGGGG
1 TTTAG-GTTTAGGG
25161024 TTTGAGGTTTAGGG
1 TTT-AGGTTTAGGG
*
25161038 TTT-GAGTTTTGGAG
1 TTTAG-GTTTAGG-G
25161052 TTTAGAGTTTTA-GG
1 TTTAG-G-TTTAGGG
25161066 TTTAGGGTTTAGGG
1 TTTA-GGTTTAGGG
* ** *
25161080 TTCAAATTTGGGG
1 TTTAGGTTTAGGG
*
25161093 TTTAGGGTTTAAGG
1 TTTA-GGTTTAGGG
*
25161107 -TTAGATTTAGGG
1 TTTAGGTTTAGGG
* *
25161119 TTTAGATTTGGGGG
1 TTTAGGTTT-AGGG
* *
25161133 TTTAGATTTGGGG
1 TTTAGGTTTAGGG
*
25161146 TTTGGGGTTTAGGG
1 TTT-AGGTTTAGGG
*
25161160 TTT-GGATTTGGGG
1 TTTAGG-TTTAGGG
25161173 TTT
1 TTT
25161176 TGGGTTTATA
Statistics
Matches: 177, Mismatches: 31, Indels: 49
0.69 0.12 0.19
Matches are distributed among these distances:
11 9 0.05
12 28 0.16
13 63 0.36
14 56 0.32
15 6 0.03
16 3 0.02
17 3 0.02
18 3 0.02
19 6 0.03
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
TTTAGGTTTAGGG
Found at i:25161079 original size:7 final size:7
Alignment explanation
Indices: 25161016--25161183 Score: 75
Period size: 7 Copynumber: 24.7 Consensus size: 7
25161006 TGTATTTGGA
*
25161016 GTTTGGG
1 GTTTAGG
25161023 GTTT-GAG
1 GTTTAG-G
25161030 GTTTAGG
1 GTTTAGG
*
25161037 GTTT-GA
1 GTTTAGG
*
25161043 GTTTTGG
1 GTTTAGG
25161050 AGTTTAGAG
1 -GTTTAG-G
*
25161059 TTTTA-G
1 GTTTAGG
25161065 GTTTAGG
1 GTTTAGG
25161072 GTTTAGG
1 GTTTAGG
* *
25161079 GTTCA-A
1 GTTTAGG
* *
25161085 ATTTGGG
1 GTTTAGG
25161092 GTTTAGG
1 GTTTAGG
*
25161099 GTTTAAG
1 GTTTAGG
25161106 G-TTA-G
1 GTTTAGG
*
25161111 ATTTAGG
1 GTTTAGG
25161118 GTTTA-G
1 GTTTAGG
* *
25161124 ATTTGGGG
1 GTTT-AGG
25161132 GTTTA-G
1 GTTTAGG
* *
25161138 ATTTGGG
1 GTTTAGG
*
25161145 GTTTGGG
1 GTTTAGG
25161152 GTTTAGG
1 GTTTAGG
25161159 GTTT-GG
1 GTTTAGG
* *
25161165 ATTTGGG
1 GTTTAGG
*
25161172 GTTTTGG
1 GTTTAGG
25161179 GTTTA
1 GTTTA
25161184 TAGTTTGTAA
Statistics
Matches: 120, Mismatches: 28, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
5 1 0.01
6 32 0.27
7 72 0.60
8 14 0.12
9 1 0.01
ACGTcount: A:0.15, C:0.01, G:0.39, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:25161095 original size:27 final size:27
Alignment explanation
Indices: 25161064--25161183 Score: 136
Period size: 27 Copynumber: 4.5 Consensus size: 27
25161054 TAGAGTTTTA
* *
25161064 GGTTTAGGGTTTAGGGTTCAAATTTGG
1 GGTTTAGGGTTTAGGGTTTAGATTTGG
* *
25161091 GGTTTAGGGTTTAAGG-TTAGATTTAG
1 GGTTTAGGGTTTAGGGTTTAGATTTGG
* *
25161117 GGTTTA-GATTTGGGGGTTTAGATTTGG
1 GGTTTAGGGTTT-AGGGTTTAGATTTGG
* *
25161144 GGTTTGGGGTTTAGGGTTTGGATTTGG
1 GGTTTAGGGTTTAGGGTTTAGATTTGG
*
25161171 GGTTTTGGGTTTA
1 GGTTTAGGGTTTA
25161184 TAGTTTGTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
25 4 0.05
26 15 0.19
27 54 0.70
28 4 0.05
ACGTcount: A:0.15, C:0.01, G:0.40, T:0.44
Consensus pattern (27 bp):
GGTTTAGGGTTTAGGGTTTAGATTTGG
Found at i:25161189 original size:27 final size:27
Alignment explanation
Indices: 25161132--25161190 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
25161122 AGATTTGGGG
* *
25161132 GTTTAGATTTGGGGTTTGGGGTTTAGG
1 GTTTGGATTTGGGGTTTGGGGTTTAGA
* *
25161159 GTTTGGATTTGGGGTTTTGGGTTTATA
1 GTTTGGATTTGGGGTTTGGGGTTTAGA
25161186 GTTTG
1 GTTTG
25161191 TAAGTAGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.10, C:0.00, G:0.41, T:0.49
Consensus pattern (27 bp):
GTTTGGATTTGGGGTTTGGGGTTTAGA
Found at i:25161290 original size:15 final size:13
Alignment explanation
Indices: 25161198--25161284 Score: 61
Period size: 13 Copynumber: 6.5 Consensus size: 13
25161188 TTGTAAGTAG
25161198 GGTTTGGATTTGA
1 GGTTTGGATTTGA
* *
25161211 GATTT-GATGCTGA
1 GGTTTGGAT-TTGA
*
25161224 GGGTTTGAATTTGA
1 -GGTTTGGATTTGA
* *
25161238 AGTTTAAGATTT-A
1 GGTTT-GGATTTGA
* *
25161251 GGGTTTGTAATTGA
1 -GGTTTGGATTTGA
25161265 GGTTTGGATTTGA
1 GGTTTGGATTTGA
25161278 GGTTTGG
1 GGTTTGG
25161285 GGATTTATGG
Statistics
Matches: 54, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
12 3 0.06
13 33 0.61
14 16 0.30
15 2 0.04
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (13 bp):
GGTTTGGATTTGA
Found at i:25163132 original size:13 final size:13
Alignment explanation
Indices: 25163114--25163139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25163104 AAAATAAATA
25163114 AATGACTACATTT
1 AATGACTACATTT
25163127 AATGACTACATTT
1 AATGACTACATTT
25163140 TAAAAGTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AATGACTACATTT
Found at i:25163246 original size:67 final size:67
Alignment explanation
Indices: 25163100--25163249 Score: 158
Period size: 67 Copynumber: 2.2 Consensus size: 67
25163090 CTAAAACCAG
* * * * *
25163100 AAAAA-AAATAAATAAATGACTACATTTAATGACTACATTTTAAAAGTCAAAATATAACCTTTGC
1 AAAAACAAA-AAAAAAATGACTACATTTAATGACAACATTCTAAAACTCAAAACATAACCTTTGC
*
25163164 TTT
65 TCT
* * * * * **
25163167 AAAAATAGAAAAAAAATGACTATATTTAATGACAACATTCTGAAACTCAAAACGTAGTCTTTGCT
1 AAAAACAAAAAAAAAATGACTACATTTAATGACAACATTCTAAAACTCAAAACATAACCTTTGCT
25163232 CT
66 CT
*
25163234 AAAACCAAAAAAAAAA
1 AAAAACAAAAAAAAAA
25163250 ATAAATGATT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
67 65 0.97
68 2 0.03
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.27
Consensus pattern (67 bp):
AAAAACAAAAAAAAAATGACTACATTTAATGACAACATTCTAAAACTCAAAACATAACCTTTGCT
CT
Found at i:25166018 original size:21 final size:21
Alignment explanation
Indices: 25165994--25166035 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25165984 TAACTCACCA
25165994 ACCTTGATAATCATTAAAGGT
1 ACCTTGATAATCATTAAAGGT
25166015 ACCTTGATAATCATTAAAGGT
1 ACCTTGATAATCATTAAAGGT
25166036 TCCTAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
ACCTTGATAATCATTAAAGGT
Found at i:25171320 original size:112 final size:112
Alignment explanation
Indices: 25171123--25171456 Score: 605
Period size: 112 Copynumber: 3.0 Consensus size: 112
25171113 CTCTAGGCTA
25171123 AAGGTTAGTTTCAAACTAGTTTCGTCTAGATATTTGTTCATACAAATTTTTCTACTCTTAATATT
1 AAGGTTAGTTTCAAACTAGTTTCGTCTAGATATTTGTTCATACAAATTTTTCTACTCTTAATATT
25171188 CTTGAAGTTGGCTGGTTGAAAGTTTTATTTCACTATCAACTTTTTAC
66 CTTGAAGTTGGCTGGTTGAAAGTTTTATTTCACTATCAACTTTTTAC
25171235 AAGGTTAGTTTCAAACTAGTTTCGTCTAGATATTTGTTCATACAAATTTTTCTACTCTTAATATT
1 AAGGTTAGTTTCAAACTAGTTTCGTCTAGATATTTGTTCATACAAATTTTTCTACTCTTAATATT
25171300 CTTGAAGTTGGCTGGTTGAAAGTTTTATTTCACTATCAACTTTTTAC
66 CTTGAAGTTGGCTGGTTGAAAGTTTTATTTCACTATCAACTTTTTAC
* *
25171347 AAGGTTAGTTTCAAACTAGTTTCGTCTAGATATTTGTTCATACAAATTCTTCTACTCTTAATATA
1 AAGGTTAGTTTCAAACTAGTTTCGTCTAGATATTTGTTCATACAAATTTTTCTACTCTTAATATT
* * ** *
25171412 CTTGAAATTGGTTCATTGAAAGATTTATTTCACTATCAACTTTTT
66 CTTGAAGTTGGCTGGTTGAAAGTTTTATTTCACTATCAACTTTTT
25171457 GCACGTCTAT
Statistics
Matches: 215, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 215 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (112 bp):
AAGGTTAGTTTCAAACTAGTTTCGTCTAGATATTTGTTCATACAAATTTTTCTACTCTTAATATT
CTTGAAGTTGGCTGGTTGAAAGTTTTATTTCACTATCAACTTTTTAC
Found at i:25173775 original size:19 final size:18
Alignment explanation
Indices: 25173748--25173786 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 18
25173738 ATTTATAGTA
25173748 AAATATTTAATATGATATTT
1 AAATATTTAATA-G-TATTT
25173768 AAAT-TTTAATAGTATTT
1 AAATATTTAATAGTATTT
25173785 AA
1 AA
25173787 TGTGATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 7 0.37
20 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
AAATATTTAATAGTATTT
Found at i:25176543 original size:275 final size:275
Alignment explanation
Indices: 25176046--25176594 Score: 1080
Period size: 275 Copynumber: 2.0 Consensus size: 275
25176036 TAATTATGCT
25176046 ATATTTTTGGGTGAGTGGGAATCTAATAGTAACATTTTTTAGCTTATTTTTACATTGAATTGACA
1 ATATTTTTGGGTGAGTGGGAATCTAATAGTAACATTTTTTAGCTTATTTTTACATTGAATTGACA
*
25176111 ACTTATGAAAAGCAATATTTTAATTTTTTTGGTGATGTTGAATTTGATGATGATAAATGGTAGTT
66 ACTTATGAAAAGCAATATTTTAATTTTTTTGGTGATGTTGAATTTGATGATGATAAATGATAGTT
25176176 GATAAAGTTTTATCTTGCTTTAATTTGATATATAATCCTTGGAATTGATTCATTTTTTCAGGGAG
131 GATAAAGTTTTATCTTGCTTTAATTTGATATATAATCCTTGGAATTGATTCATTTTTTCAGGGAG
*
25176241 AAAGTAATTGTCCCAAGTTTTAAGCCATATTTGATTTAACCCTTCTAGGTAATTTTCATGTGCAT
196 AAAGTAATTGTCCCAAGTTTCAAGCCATATTTGATTTAACCCTTCTAGGTAATTTTCATGTGCAT
25176306 ATAACCTTTTAGAAC
261 ATAACCTTTTAGAAC
25176321 ATATTTTTGGGTGAGTGGGAATCTAATAGTAACATTTTTTAGCTTATTTTTACATTGAATTGACA
1 ATATTTTTGGGTGAGTGGGAATCTAATAGTAACATTTTTTAGCTTATTTTTACATTGAATTGACA
25176386 ACTTATGAAAAGCAATATTTTAATTTTTTTGGTGATGTTGAATTTGATGATGATAAATGATAGTT
66 ACTTATGAAAAGCAATATTTTAATTTTTTTGGTGATGTTGAATTTGATGATGATAAATGATAGTT
25176451 GATAAAGTTTTATCTTGCTTTAATTTGATATATAATCCTTGGAATTGATTCATTTTTTCAGGGAG
131 GATAAAGTTTTATCTTGCTTTAATTTGATATATAATCCTTGGAATTGATTCATTTTTTCAGGGAG
25176516 AAAGTAATTGTCCCAAGTTTCAAGCCATATTTGATTTAACCCTTCTAGGTAATTTTCATGTGCAT
196 AAAGTAATTGTCCCAAGTTTCAAGCCATATTTGATTTAACCCTTCTAGGTAATTTTCATGTGCAT
25176581 ATAACCTTTTAGAA
261 ATAACCTTTTAGAA
25176595 TAAATTTGAT
Statistics
Matches: 272, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
275 272 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (275 bp):
ATATTTTTGGGTGAGTGGGAATCTAATAGTAACATTTTTTAGCTTATTTTTACATTGAATTGACA
ACTTATGAAAAGCAATATTTTAATTTTTTTGGTGATGTTGAATTTGATGATGATAAATGATAGTT
GATAAAGTTTTATCTTGCTTTAATTTGATATATAATCCTTGGAATTGATTCATTTTTTCAGGGAG
AAAGTAATTGTCCCAAGTTTCAAGCCATATTTGATTTAACCCTTCTAGGTAATTTTCATGTGCAT
ATAACCTTTTAGAAC
Found at i:25186109 original size:118 final size:119
Alignment explanation
Indices: 25185748--25186423 Score: 492
Period size: 123 Copynumber: 5.7 Consensus size: 119
25185738 AAATTATTTT
* * * * * *
25185748 TTATGATTCATGGTTCTATTTTGATCATTTATTTTTTACCTTGACTCTATCCTGGT--CTTCTCA
1 TTATGATTCATGGTTCCATCTCGATCATTTATTTTTGACCTTGACTCGATCTTGGTCACTT-TCA
* * * * * * *
25185811 TTT-AATCGTGGTTTCGTCCCGATCGTTTGATCTTGGCTAAGTCTAGATCATTAC
65 TTTGACTCGTGGTTTCATCTCGGTCGCTTGATCTTGGCCAAGTCTAGATCATTGC
* * * * * *
25185865 TTATGATTCGTGGTTTCATC-CTAGTCATTCATTTTAGACCTTGACTCGATCTTGGTTGCTTCAT
1 TTATGATTCATGGTTCCATCTCGA-TCATTTATTTTTGACCTTGACTCGATCTTGG-T-C-AC-T
* * *** ** * *
25185929 TTCATATGACTTGTGGTTTCATCTTAATCATTTGATCTTGGCTC-AGTCCAGATCATTTC
61 TTCATTTGACTCGTGGTTTCATCTCGGTCGCTTGATCTTGGC-CAAGTCTAGATCATTGC
* * *
25185988 TTATGATTCATGATTCCATCTCGATCATTTATTTTTGACTTTGACTCGATCCTGGTCACTTT-AT
1 TTATGATTCATGGTTCCATCTCGATCATTTATTTTTGACCTTGACTCGATCTTGGTCACTTTCAT
* *
25186052 TTGACTCGTGGTTTCATCTCGGTTGCTCGATCTTGGCCAAGTCTAGATCATTGC
66 TTGACTCGTGGTTTCATCTCGGTCGCTTGATCTTGGCCAAGTCTAGATCATTGC
* * * * * * * * *
25186106 TTATGATTCATGGTTTCATC-CTGGTCATTCATTTTAGACCTTAACTTGGTCATGGTTGCTTCAT
1 TTATGATTCATGGTTCCATCTC-GATCATTTATTTTTGACCTTGACTCGATCTTGG-T-C-AC-T
* ** * * * * * ** * *
25186170 TTCATATGACTTATAGTTTTATCCCGGTTGCTTAATCTTGGCTTAGTCCAGATCATTTC
61 TTCATTTGACTCGTGGTTTCATCTCGGTCGCTTGATCTTGGCCAAGTCTAGATCATTGC
* ** * * *
25186229 TTATGATTCCTGGTTCTGTCTCAATCATTTATTTTTGACCTTGACTCGGTCTTGGT-AGCCTT-A
1 TTATGATTCATGGTTCCATCTCGATCATTTATTTTTGACCTTGACTCGATCTTGGTCA-CTTTCA
* * * *
25186292 TTTGACTCATAGTTTCATCTCAGTCGCTCGATCTTGGCCAAGTCTAGATCATTGC
65 TTTGACTCGTGGTTTCATCTCGGTCGCTTGATCTTGGCCAAGTCTAGATCATTGC
* * * * * * * * **
25186347 TTATGATTTATGGTTTCATCCCAATCA-TTATTTTTTACTTTGACTTGGTCTTAATCA-TTTCAT
1 TTATGATTCATGGTTCCATCTCGATCATTTATTTTTGACCTTGACTCGATCTTGGTCACTTTCAT
25186410 TTGACTCGTGGTTT
66 TTGACTCGTGGTTT
25186424 AATCCCGAAT
Statistics
Matches: 434, Mismatches: 104, Indels: 42
0.75 0.18 0.07
Matches are distributed among these distances:
116 3 0.01
117 81 0.19
118 153 0.35
119 6 0.01
120 3 0.01
121 2 0.00
122 11 0.03
123 172 0.40
124 3 0.01
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (119 bp):
TTATGATTCATGGTTCCATCTCGATCATTTATTTTTGACCTTGACTCGATCTTGGTCACTTTCAT
TTGACTCGTGGTTTCATCTCGGTCGCTTGATCTTGGCCAAGTCTAGATCATTGC
Found at i:25186170 original size:241 final size:240
Alignment explanation
Indices: 25185743--25186380 Score: 796
Period size: 241 Copynumber: 2.7 Consensus size: 240
25185733 AGTTTAAATT
* * * * *
25185743 ATTTTTTATGATTCATGGTTCTATTTTGATCATTTATTTTTTACCTTGACTCTATCCTGGT-CTT
1 ATTTCTTATGATTCATGGTTCTATCTCGATCATTTATTTTTGACCTTGACTCGATCCTGGTACTT
* * * * * * * *
25185807 CTCATTT-AATCGTGGTTTCGTCCCGATCGTTTGATCTTGGCTAAGTCTAGATCATTACTTATGA
66 -T-ATTTGACTCGTGGTTTCATCTCGGTCGCTCGATCTTGGCCAAGTCTAGATCATTGCTTATGA
* * *
25185871 TTCGTGGTTTCATCCTAGTCATTCATTTTAGACCTTGACTCGATCTTGGTTGCTTCATTTCATAT
129 TTCATGGTTTCATCCTAGTCATTCATTTTAGACCTTAACTCGATCATGGTTGCTTCATTTCATAT
* * ** * *
25185936 GACTTGTGGTTTCATCTTAATCATTTGATCTTGGCTCAGTCCAGATC
194 GACTTATAGTTTCATCCCAATCACTTAATCTTGGCTCAGTCCAGATC
* * *
25185983 ATTTCTTATGATTCATGATTCCATCTCGATCATTTATTTTTGACTTTGACTCGATCCTGGTCACT
1 ATTTCTTATGATTCATGGTTCTATCTCGATCATTTATTTTTGACCTTGACTCGATCCTGGT-ACT
*
25186048 TTATTTGACTCGTGGTTTCATCTCGGTTGCTCGATCTTGGCCAAGTCTAGATCATTGCTTATGAT
65 TTATTTGACTCGTGGTTTCATCTCGGTCGCTCGATCTTGGCCAAGTCTAGATCATTGCTTATGAT
* * *
25186113 TCATGGTTTCATCCTGGTCATTCATTTTAGACCTTAACTTGGTCATGGTTGCTTCATTTCATATG
130 TCATGGTTTCATCCTAGTCATTCATTTTAGACCTTAACTCGATCATGGTTGCTTCATTTCATATG
* ** ** *
25186178 ACTTATAGTTTTATCCCGGTTGCTTAATCTTGGCTTAGTCCAGATC
195 ACTTATAGTTTCATCCCAATCACTTAATCTTGGCTCAGTCCAGATC
* * * * * *
25186224 ATTTCTTATGATTCCTGGTTCTGTCTCAATCATTTATTTTTGACCTTGACTCGGTCTTGGTAGCC
1 ATTTCTTATGATTCATGGTTCTATCTCGATCATTTATTTTTGACCTTGACTCGATCCTGGTA-CT
* * *
25186289 TTATTTGACTCATAGTTTCATCTCAGTCGCTCGATCTTGGCCAAGTCTAGATCATTGCTTATGAT
65 TTATTTGACTCGTGGTTTCATCTCGGTCGCTCGATCTTGGCCAAGTCTAGATCATTGCTTATGAT
* * *
25186354 TTATGGTTTCATCCCAATCATT-ATTTT
130 TCATGGTTTCATCCTAGTCATTCATTTT
25186381 TTACTTTGAC
Statistics
Matches: 342, Mismatches: 52, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
240 63 0.18
241 276 0.81
242 3 0.01
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (240 bp):
ATTTCTTATGATTCATGGTTCTATCTCGATCATTTATTTTTGACCTTGACTCGATCCTGGTACTT
TATTTGACTCGTGGTTTCATCTCGGTCGCTCGATCTTGGCCAAGTCTAGATCATTGCTTATGATT
CATGGTTTCATCCTAGTCATTCATTTTAGACCTTAACTCGATCATGGTTGCTTCATTTCATATGA
CTTATAGTTTCATCCCAATCACTTAATCTTGGCTCAGTCCAGATC
Found at i:25186767 original size:3 final size:3
Alignment explanation
Indices: 25186753--25186874 Score: 154
Period size: 3 Copynumber: 40.7 Consensus size: 3
25186743 TTAGATTCTG
*
25186753 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
25186801 TTA TTA TTA TTA TTA TTA TTA TCA TCA TCA TTA TTA CTA TTA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
25186849 TCA TCA TTA TTA TTG TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
25186875 TTTTTTTCAT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 109 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:25187303 original size:9 final size:10
Alignment explanation
Indices: 25187288--25187314 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
25187278 ATCTAGGAAT
25187288 TTTTTTTAGA
1 TTTTTTTAGA
25187298 TTTTTTTAGA
1 TTTTTTTAGA
25187308 TTTTTTT
1 TTTTTTT
25187315 TGGGTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTAGA
Found at i:25188731 original size:3 final size:3
Alignment explanation
Indices: 25188717--25188947 Score: 88
Period size: 3 Copynumber: 75.7 Consensus size: 3
25188707 ATTTTTACTT
*
25188717 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * *
25188762 TT- TTA -AA TATA TTTA TTA TTTC TCTA CTA ATA -TA TTTA TTT TTA
1 TTA TTA TTA T-TA -TTA TTA -TTA T-TA TTA TTA TTA -TTA TTA TTA
** * * *
25188806 TCTA TTA ACA -TA TT- TTT TTA TTTA TCAA TTA ATA TATA TT- TT- TTA
1 T-TA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA T-TA TTA TTA TTA
* *
25188851 TTA TAA TTTA TCTA TTA TTA TTA TTA TT- TAA TTA TTA TTA TTA TT-
1 TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
25188896 TTC TT- TTA GTTA TCTA TTAA TTA TTA TTT TTA TTT TTA TTT TTA TTT
1 TTA TTA TTA -TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
25188943 TTA TT
1 TTA TT
25188948 TTTTTCTTTC
Statistics
Matches: 174, Mismatches: 30, Indels: 48
0.69 0.12 0.19
Matches are distributed among these distances:
2 19 0.11
3 118 0.68
4 36 0.21
5 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:25188793 original size:23 final size:22
Alignment explanation
Indices: 25188767--25188851 Score: 73
Period size: 23 Copynumber: 3.8 Consensus size: 22
25188757 TTATTTTTTA
*
25188767 AATATATTTATTATTTCTCTACT
1 AATATATTTATT-TTTATCTACT
*
25188790 AATATATTTATTTTTATCTATT
1 AATATATTTATTTTTATCTACT
* * * *
25188812 AACATATTTTTTTATTTATCAATT
1 AATATA-TTTATT-TTTATCTACT
*
25188836 AATATATAT-TTTTTAT
1 AATATATTTATTTTTAT
25188852 TATAATTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 5 0.09
22 15 0.28
23 19 0.36
24 14 0.26
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
AATATATTTATTTTTATCTACT
Found at i:25188818 original size:22 final size:23
Alignment explanation
Indices: 25188729--25188889 Score: 101
Period size: 24 Copynumber: 7.3 Consensus size: 23
25188719 ATTTTTATTA
*
25188729 TTATTA-TTAT-TATTATTAT-T
1 TTATTATTTATCTATTAATATAT
* *
25188749 ATTATTATTTATTTTTTAAATATAT
1 -TTATTATTTATCTATT-AATATAT
* *
25188774 TTATTATTTCTCTACTAATATAT
1 TTATTATTTATCTATTAATATAT
*
25188797 TTATT-TTTATCTATTAACATATT
1 TTATTATTTATCTATTAATATA-T
* *
25188820 TTTTTATTTATCAATTAATATA-
1 TTATTATTTATCTATTAATATAT
* *
25188842 -TATTTTTTAT-TA-TAATTTAT
1 TTATTATTTATCTATTAATATAT
* * *
25188862 CTATTA-TTAT-TATT-ATTTAA
1 TTATTATTTATCTATTAATATAT
25188882 TTATTATT
1 TTATTATT
25188890 ATTATTTTCT
Statistics
Matches: 111, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
19 6 0.05
20 17 0.15
21 20 0.18
22 17 0.15
23 20 0.18
24 30 0.27
25 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATTATTTATCTATTAATATAT
Found at i:25188827 original size:46 final size:46
Alignment explanation
Indices: 25188750--25188851 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
25188740 ATTATTATTA
* * * *
25188750 TTATTATTTATTTTTTAAATATATTTATTATTTCTCTACTAATATAT
1 TTATT-TTTATCTATTAAATATATTTATTATTTATCAACTAATATAT
* *
25188797 TTATTTTTATCTATTAACATAT-TTTTTTATTTATCAATTAATATAT
1 TTATTTTTATCTATTAA-ATATATTTATTATTTATCAACTAATATAT
*
25188843 AT-TTTTTAT
1 TTATTTTTAT
25188852 TATAATTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
45 7 0.15
46 31 0.66
47 9 0.19
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (46 bp):
TTATTTTTATCTATTAAATATATTTATTATTTATCAACTAATATAT
Found at i:25188873 original size:20 final size:20
Alignment explanation
Indices: 25188848--25188894 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
25188838 TATATATTTT
25188848 TTATTATAATTT-ATCTATTA
1 TTATTATAATTTAAT-TATTA
*
25188868 TTATTATTATTTAATTATTA
1 TTATTATAATTTAATTATTA
25188888 TTATTAT
1 TTATTAT
25188895 TTTCTTTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATTATAATTTAATTATTA
Found at i:25188885 original size:31 final size:31
Alignment explanation
Indices: 25188825--25188885 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
25188815 ATATTTTTTT
*
25188825 ATTTATCAATTAATATATATTTTTTATTATA
1 ATTTATCAATTAATATATATTTTTAATTATA
* *
25188856 ATTTATCTATTATTAT-TATTATTTAATTAT
1 ATTTATCAATTAATATATATT-TTTAATTAT
25188886 TATTATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (31 bp):
ATTTATCAATTAATATATATTTTTAATTATA
Found at i:25188895 original size:20 final size:20
Alignment explanation
Indices: 25188724--25188936 Score: 96
Period size: 17 Copynumber: 10.8 Consensus size: 20
25188714 CTTTTATTTT
25188724 TATTATTATTATTA-TTAT-
1 TATTATTATTATTATTTATC
*
25188742 TATTATTATTATTATTTATT
1 TATTATTATTATTATTTATC
* *
25188762 TTTTAAATATATTTATTATTTCTC
1 TATT--AT-TA-TTATTATTTATC
*
25188786 TACTAATATATTTATT-TTTATC
1 TA-TTAT-TA-TTATTATTTATC
**
25188808 TATTAACA-TATT-TTT-T-
1 TATTATTATTATTATTTATC
* * *
25188824 TATTTATCAATTAATATATAT-
1 TA-TTAT-TATTATTATTTATC
*
25188845 T-TT-TTATTATAATTTATC
1 TATTATTATTATTATTTATC
25188863 TATTATTATTATTATTTA--
1 TATTATTATTATTATTTATC
25188881 -ATTATTATTATTATTT-TC
1 TATTATTATTATTATTTATC
* *
25188899 TTTTAGTTATCTATTAATTAT-
1 TATTA-TTAT-TATTATTTATC
* *
25188920 TATTTTTATTTTTATTT
1 TATTATTATTATTATTT
25188937 TTATTTTTAT
Statistics
Matches: 150, Mismatches: 24, Indels: 41
0.70 0.11 0.19
Matches are distributed among these distances:
16 2 0.01
17 29 0.19
18 24 0.16
19 20 0.13
20 26 0.17
21 14 0.09
22 10 0.07
23 13 0.09
24 11 0.07
25 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTATTATTATTATTTATC
Found at i:25189759 original size:5 final size:5
Alignment explanation
Indices: 25189749--25189816 Score: 75
Period size: 5 Copynumber: 12.8 Consensus size: 5
25189739 TGTTAGTATT
*
25189749 TTTTA TTTTA TTTTA TTTTTA TTTTA TTCTA TTTT- TCTTTCA TTTTTA
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA T-TTT-A -TTTTA
25189797 TCTTTA TTTTA TTTTA TTTT
1 T-TTTA TTTTA TTTTA TTTT
25189817 TTGATTTTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
4 1 0.02
5 39 0.71
6 11 0.20
7 3 0.05
8 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:25189768 original size:11 final size:11
Alignment explanation
Indices: 25189748--25189817 Score: 74
Period size: 11 Copynumber: 6.5 Consensus size: 11
25189738 TTGTTAGTAT
25189748 TTTTTATTTTA
1 TTTTTATTTTA
25189759 -TTTTATTTT-
1 TTTTTATTTTA
*
25189768 TATTTTATTCTA
1 T-TTTTATTTTA
* *
25189780 TTTTTCTTTCA
1 TTTTTATTTTA
25189791 TTTTTATCTTTA
1 TTTTTAT-TTTA
25189803 -TTTTATTTTA
1 TTTTTATTTTA
25189813 TTTTT
1 TTTTT
25189818 TGATTTTCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
10 13 0.27
11 31 0.65
12 4 0.08
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:25189769 original size:16 final size:16
Alignment explanation
Indices: 25189748--25189817 Score: 95
Period size: 16 Copynumber: 4.3 Consensus size: 16
25189738 TTGTTAGTAT
25189748 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
*
25189764 TTTTTATTTTATTCTA
1 TTTTTATTTTATTTTA
* *
25189780 TTTTTCTTTCATTTTTA
1 TTTTTATTTTA-TTTTA
*
25189797 TCTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
25189813 TTTTT
1 TTTTT
25189818 TGATTTTCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
16 33 0.73
17 12 0.27
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:25189783 original size:33 final size:34
Alignment explanation
Indices: 25189745--25189824 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 34
25189735 AATTTGTTAG
*
25189745 TATTTTTTATTTTA-TTTTATTTTTATTTTATTC
1 TATTTTTTATTTTATTTTTATCTTTATTTTATTC
* * *
25189778 TA-TTTTTCTTTCATTTTTATCTTTATTTTATTT
1 TATTTTTTATTTTATTTTTATCTTTATTTTATTC
25189811 TATTTTTTGATTTT
1 TATTTTTT-ATTTT
25189825 CTTTAAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
32 9 0.24
33 21 0.55
34 5 0.13
35 3 0.08
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (34 bp):
TATTTTTTATTTTATTTTTATCTTTATTTTATTC
Found at i:25189888 original size:57 final size:56
Alignment explanation
Indices: 25189820--25190115 Score: 237
Period size: 58 Copynumber: 5.1 Consensus size: 56
25189810 TTATTTTTTG
* *
25189820 ATTTTCTTTAAATAAAAATTCTAAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTT-TTTAAATAAAATTTCTAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCA
* *
25189878 ATTTTTTTAAA-AATAAGTTTTCT-AAAAAATATTTTTGAGGAAAAGTTAAAAGTATTA
1 ATTTTTTTAAATAA-AA--TTTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
** * * *
25189935 ATTTTTTTGAAAATAAGTTTTCTAAAAAATTATTTTCGAGGAAAAGTTAAAAGTATCA
1 ATTTTTTT--AAATAAAATTTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * *
25189993 ATTTTCTTTGGAAAT-AATTTTC-AAAAAAAGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCA
1 ATTTT-TTT--AAATAAAATTTCTAAAAAAA----TATTTTTGAGGAAAAGTTGAAAGTATCA
* * * * *
25190054 ATTTTTCTCAAAATTAAAGTTTC--AAAAAACA-TTTTGGGGAAAAGTTGAAATTATCA
1 ATTTTT-T-TAAA-TAAAATTTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
25190110 ATTTTT
1 ATTTTT
25190116 CTTGTACAAA
Statistics
Matches: 199, Mismatches: 23, Indels: 34
0.78 0.09 0.13
Matches are distributed among these distances:
56 30 0.15
57 51 0.26
58 54 0.27
59 15 0.08
60 6 0.03
61 37 0.19
62 6 0.03
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (56 bp):
ATTTTTTTAAATAAAATTTCTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:25189912 original size:58 final size:58
Alignment explanation
Indices: 25189838--25190115 Score: 291
Period size: 57 Copynumber: 4.8 Consensus size: 58
25189828 TAAATAAAAA
*
25189838 TTCTAAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAATAAGTT
1 TTCT-AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAATAAGTT
* * *
25189897 TTCTAAAAAATA-TTTTTGAGGAAAAGTTAAAAGTATTAATTTTTTTGAAAATAAGTT
1 TTCTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAATAAGTT
* * **
25189954 TTCTAAAAAAT-TATTTTCGAGGAAAAGTTAAAAGTATCAATTTTCTTTGGAAATAA-TT
1 TTCTAAAAAATAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTT-TTTAAAAATAAGTT
* * * * *
25190012 TTCAAAAAAAGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAG-T
1 TTCTAAAAAA---TATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAAT-AAGTT
* * *
25190074 TTC-AAAAAACA--TTTTGGGGAAAAGTTGAAATTATCAATTTTT
1 TTCTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
25190116 CTTGTACAAA
Statistics
Matches: 189, Mismatches: 20, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
56 28 0.15
57 53 0.28
58 47 0.25
59 14 0.07
60 1 0.01
61 39 0.21
62 7 0.04
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (58 bp):
TTCTAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAATAAGTT
Found at i:25200586 original size:15 final size:14
Alignment explanation
Indices: 25200566--25200624 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
25200556 AAAAAAGGAG
25200566 AAAAAATGAAATGAA
1 AAAAAATG-AATGAA
25200581 AAAAAATG-A--AA
1 AAAAAATGAATGAA
* *
25200592 AAAAAAGGAAAAGAA
1 AAAAAATG-AATGAA
25200607 AAAAAAGTGAATGAA
1 AAAAAA-TGAATGAA
25200622 AAA
1 AAA
25200625 GGAGGACTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
11 9 0.25
13 2 0.06
15 24 0.67
16 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.08
Consensus pattern (14 bp):
AAAAAATGAATGAA
Found at i:25200595 original size:26 final size:27
Alignment explanation
Indices: 25200566--25200627 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
25200556 AAAAAAGGAG
* *
25200566 AAAAAATGAAATGAAAAAAAA-TGAAA
1 AAAAAAGGAAAAGAAAAAAAAGTGAAA
*
25200592 AAAAAAGGAAAAGAAAAAAAAGTGAAT
1 AAAAAAGGAAAAGAAAAAAAAGTGAAA
*
25200619 GAAAAAGGA
1 AAAAAAGGA
25200628 GGACTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (27 bp):
AAAAAAGGAAAAGAAAAAAAAGTGAAA
Found at i:25201698 original size:41 final size:41
Alignment explanation
Indices: 25201636--25201926 Score: 309
Period size: 41 Copynumber: 7.0 Consensus size: 41
25201626 CAATGAGCAA
*
25201636 TTTAC-TTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCT
1 TTTACTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCT
*
25201677 TTTACTTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCCT
1 TTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCT
* * * *
25201718 TTTACTTTTCAAAAGTCATTGAGCCTCTGTTTAGAAGAGCTTT
1 TTTACTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGC-CT
* * *
25201761 ATTTATTTTTCAAAGTCGTTGAGCCTCT-ATTCAGAGGAACCA
1 -TTTACTTTTCAAAGTCGTTGAGCCTCTGATT-AGAGGAGCCT
* * * *
25201803 TTTATTTTTCAAAATCGTTGAGCCTCTGATTAGATGAGCCA
1 TTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCT
* * *
25201844 TTTA-TTTTCAAAGTCGTTAAGCCTCTAATTAGAGGAGCTTT
1 TTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC-CT
* **
25201885 GTTTATGTTTTTCAAAGTCGTTGAGCCTCTGCCTAGAGGAGC
1 -TTTA--CTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
25201927 TTTGATCAAA
Statistics
Matches: 212, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
40 30 0.14
41 82 0.39
42 38 0.18
43 23 0.11
44 9 0.04
45 30 0.14
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (41 bp):
TTTACTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCT
Found at i:25201896 original size:126 final size:126
Alignment explanation
Indices: 25201641--25201924 Score: 367
Period size: 126 Copynumber: 2.2 Consensus size: 126
25201631 AGCAATTTAC
* * * * *
25201641 TTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCTTTTACTTTTCAAAGTCGTTGAGCCTTTGA
1 TTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAACCATTTACTTTTCAAAATCGTTGAGCCTCTGA
* * **
25201706 TTAGAGGAGCCTTTTACTTTTCAAAAGTCATTGAGCCTCTGTTTAGAAGAGCTTTATTTATT
65 TTAGAGGAGCCATTTACTTTTCAAAAGTCATTAAGCCTCTAATTAGAAGAGCTTTATTTATT
*
25201768 TTTCAAAGTCGTTGAGCCTCT-ATTCAGAGGAACCATTTATTTTTCAAAATCGTTGAGCCTCTGA
1 TTTCAAAGTCGTTGAGCCTCTGATT-AGAGGAACCATTTACTTTTCAAAATCGTTGAGCCTCTGA
* * * *
25201832 TTAGATGAGCCATTTA-TTTTC-AAAGTCGTTAAGCCTCTAATTAGAGGAGCTTTGTTTATGTT
65 TTAGAGGAGCCATTTACTTTTCAAAAGTCATTAAGCCTCTAATTAGAAGAGCTTTATTTA--TT
**
25201894 TTTCAAAGTCGTTGAGCCTCTGCCTAGAGGA
1 TTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
25201925 GCTTTGATCA
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
124 31 0.23
125 8 0.06
126 93 0.68
127 5 0.04
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (126 bp):
TTTCAAAGTCGTTGAGCCTCTGATTAGAGGAACCATTTACTTTTCAAAATCGTTGAGCCTCTGAT
TAGAGGAGCCATTTACTTTTCAAAAGTCATTAAGCCTCTAATTAGAAGAGCTTTATTTATT
Found at i:25202134 original size:6 final size:6
Alignment explanation
Indices: 25202125--25202165 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
25202115 CCATTTTTGC
25202125 TTTTAT TTTTAT TTTTAT TATTT-T TTATTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT T-TTTAT TT-TTAT TTTTAT TTTT
25202166 TAAATATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 1 0.03
6 25 0.78
7 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:25202147 original size:9 final size:9
Alignment explanation
Indices: 25202133--25202183 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
25202123 GCTTTTATTT
25202133 TTATTTTTA
1 TTATTTTTA
25202142 TTATTTTTTA
1 TTA-TTTTTA
25202152 TTATTTTTA
1 TTATTTTTA
*
25202161 TT-TTTTAA
1 TTATTTTTA
* *
25202169 ATATATTTA
1 TTATTTTTA
25202178 TTATTT
1 TTATTT
25202184 ATCTACTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 6 0.18
9 19 0.56
10 9 0.26
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTATTTTTA
Found at i:25202151 original size:16 final size:16
Alignment explanation
Indices: 25202125--25202167 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
25202115 CCATTTTTGC
25202125 TTTTA-TTTTTATT-T
1 TTTTATTTTTTATTAT
25202139 TTATTATTTTTTATTAT
1 TT-TTATTTTTTATTAT
25202156 TTTTATTTTTTA
1 TTTTATTTTTTA
25202168 AATATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.08
15 3 0.12
16 18 0.69
17 3 0.12
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTTATTAT
Found at i:25202175 original size:19 final size:18
Alignment explanation
Indices: 25202133--25202183 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
25202123 GCTTTTATTT
**
25202133 TTATTTTTATTATTTTTTA
1 TTATTTTTATT-TTTTAAA
25202152 TTATTTTTATTTTTTAAA
1 TTATTTTTATTTTTTAAA
25202170 TATATTTATTATTT
1 T-TATTT-TTATTT
25202184 ATCTACTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 16 0.57
20 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TTATTTTTATTTTTTAAA
Found at i:25202177 original size:17 final size:17
Alignment explanation
Indices: 25202142--25202184 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
25202132 TTTATTTTTA
* *
25202142 TTATTTTTT-ATTATTT
1 TTATTTTTTAAATATAT
25202158 TTATTTTTTAAATATAT
1 TTATTTTTTAAATATAT
*
25202175 TTATTATTTA
1 TTATTTTTTA
25202185 TCTACTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTAAATATAT
Found at i:25202177 original size:26 final size:25
Alignment explanation
Indices: 25202127--25202183 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
25202117 ATTTTTGCTT
* *
25202127 TTATTTTTATTTTTATTATTTTTTA
1 TTATTTTTATTTTTAATATTATTTA
25202152 TTATTTTTATTTTTTAA-ATATATTTA
1 TTATTTTTA-TTTTTAATAT-TATTTA
25202178 TTATTT
1 TTATTT
25202184 ATCTACTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (25 bp):
TTATTTTTATTTTTAATATTATTTA
Found at i:25202228 original size:46 final size:46
Alignment explanation
Indices: 25202156--25202244 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 46
25202146 TTTTTATTAT
*
25202156 TTTTATTTTTTAAATATATTTATTATTTATCTACTAATATATTTAC
1 TTTTATTTATTAAATATATTTATTATTTATCTACTAATATATTTAC
* *
25202202 TTTTATTTATTAACATAT-TGTT-TTATTTATCTATTACTATATT
1 TTTTATTTATTAA-ATATAT-TTATTATTTATCTACTAATATATT
25202245 ATATATGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 32 0.84
47 6 0.16
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (46 bp):
TTTTATTTATTAAATATATTTATTATTTATCTACTAATATATTTAC
Found at i:25202243 original size:24 final size:22
Alignment explanation
Indices: 25202170--25202244 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 22
25202160 ATTTTTTAAA
* *
25202170 TATATTTATTATTTATCTACTAA
1 TATATTTTTTATTTATCTA-TAC
25202193 TATATTTACTTTTATTTAT-TA-AC
1 TATA-TT--TTTTATTTATCTATAC
25202216 -ATATTGTTTTATTTATCTATTAC
1 TATATT-TTTTATTTATCTA-TAC
25202239 TATATT
1 TATATT
25202245 ATATATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
20 10 0.24
21 4 0.10
22 3 0.07
23 7 0.17
24 7 0.17
25 2 0.05
26 9 0.21
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (22 bp):
TATATTTTTTATTTATCTATAC
Found at i:25203014 original size:10 final size:10
Alignment explanation
Indices: 25202995--25203140 Score: 70
Period size: 10 Copynumber: 13.5 Consensus size: 10
25202985 AAAAGGTTTT
25202995 TTTTTCATTTA
1 TTTTT-ATTTA
25203006 TTTTTATTTA
1 TTTTTATTTA
25203016 --TTTATTTA
1 TTTTTATTTA
25203024 TTTTAGTATATTA
1 TTTT--TAT-TTA
25203037 TTTTT-TTTA
1 TTTTTATTTA
* *
25203046 TTATTAGATTAGAA
1 TT-TT-TATT--TA
*
25203060 TTTTT-TAGTA
1 TTTTTAT-TTA
25203070 TTTTTTATTT-
1 -TTTTTATTTA
25203080 TATTTTACTTTA
1 T-TTTTA-TTTA
25203092 -TTTTATTCTA
1 TTTTTATT-TA
25203102 TTTTTATCTTTA
1 TTTTTA--TTTA
25203114 TTTTTATTTTTA
1 TTTTTA--TTTA
25203126 TTTTTATTTA
1 TTTTTATTTA
25203136 TTTTT
1 TTTTT
25203141 TGATTTTCTT
Statistics
Matches: 108, Mismatches: 7, Indels: 41
0.69 0.04 0.26
Matches are distributed among these distances:
8 8 0.07
9 8 0.07
10 32 0.30
11 21 0.19
12 25 0.23
13 11 0.10
14 3 0.03
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:25203082 original size:5 final size:5
Alignment explanation
Indices: 25203072--25203139 Score: 66
Period size: 5 Copynumber: 12.8 Consensus size: 5
25203062 TTTTAGTATT
* *
25203072 TTTTA TTTTA TTTTA CTTTA TTTTA TTCTA TTTTTA TCTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA -TTTTA
25203120 TTTTTA TTTT- TATTTA TTTT
1 -TTTTA TTTTA T-TTTA TTTT
25203140 TTGATTTTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
4 1 0.02
5 33 0.61
6 19 0.35
7 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:25203083 original size:12 final size:11
Alignment explanation
Indices: 25203071--25203140 Score: 83
Period size: 10 Copynumber: 6.5 Consensus size: 11
25203061 TTTTTAGTAT
25203071 TTTTTATTTTA
1 TTTTTATTTTA
*
25203082 -TTTTACTTTA
1 TTTTTATTTTA
*
25203092 -TTTTATTCTA
1 TTTTTATTTTA
25203102 TTTTTATCTTTA
1 TTTTTAT-TTTA
25203114 TTTTTATTTTTA
1 TTTTTA-TTTTA
25203126 TTTTTA-TTTA
1 TTTTTATTTTA
25203136 TTTTT
1 TTTTT
25203141 TGATTTTCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
10 26 0.50
11 6 0.12
12 19 0.37
13 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:25203119 original size:6 final size:6
Alignment explanation
Indices: 25203071--25203147 Score: 67
Period size: 6 Copynumber: 13.7 Consensus size: 6
25203061 TTTTTAGTAT
* * *
25203071 TTTTTA -TTTTA -TTTTA -CTTTA -TTTTA -TTCTA TTTTTA TCTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
25203114 TTTTTA TTTTTA TTTTTA TTTATT- TTTTGA TTTT
1 TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTT
25203148 CTTTAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
5 23 0.38
6 36 0.59
7 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:25203141 original size:12 final size:12
Alignment explanation
Indices: 25202993--25203146 Score: 57
Period size: 14 Copynumber: 11.9 Consensus size: 12
25202983 TCAAAAGGTT
25202993 TTTTTTTCATTTA
1 TTTTTTT-ATTTA
25203006 TTTTTATTTATTTA
1 -TTTT-TTTATTTA
*
25203020 TTTATTTTAGTATA
1 TTT-TTTTA-TTTA
25203034 TTATTTTT-TTTA
1 TT-TTTTTATTTA
* ** *
25203046 TTATTAGATTAGAA
1 TTTTTTTATT--TA
25203060 TTTTTTAGTATTT-
1 TTTTTT--TATTTA
25203073 TTTATTTTATTTTA
1 TTT-TTTTA-TTTA
25203087 CTTTATTTTATTCTA
1 -TTT-TTTTATT-TA
* *
25203102 TTTTTATCTTTA
1 TTTTTTTATTTA
25203114 --TTTTTATTT-
1 TTTTTTTATTTA
25203123 TTATTTTTATTTA
1 TT-TTTTTATTTA
*
25203136 TTTTTTGATTT
1 TTTTTTTATTT
25203147 TCTTTAAATA
Statistics
Matches: 107, Mismatches: 15, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
10 7 0.07
11 2 0.02
12 28 0.26
13 20 0.19
14 32 0.30
15 15 0.14
16 3 0.03
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:25203141 original size:18 final size:18
Alignment explanation
Indices: 25203002--25203147 Score: 75
Period size: 18 Copynumber: 7.4 Consensus size: 18
25202992 TTTTTTTTCA
*
25203002 TTTATTTTTATTTATTTA
1 TTTATTTTTATTTATTTT
25203020 TTTATTTTAGTATATTATTTTT
1 TTTATTTT--TAT-TTA-TTTT
* *
25203042 TTTATTATTAGATTAGAATTTT
1 TTTATT-TT-TATT--TATTTT
25203064 TTAGTATTTTTTATTTTATTTT
1 TT--TA-TTTTTA-TTTATTTT
25203086 ACTTTA-TTTTATTCTA--TT
1 --TTTATTTTTATT-TATTTT
*
25203104 TTTATCTTTATTT-TTATT
1 TTTATTTTTATTTATT-TT
25203122 TTTATTTTTATTTATTTT
1 TTTATTTTTATTTATTTT
*
25203140 TTGATTTT
1 TTTATTTT
25203148 CTTTAAATAA
Statistics
Matches: 100, Mismatches: 9, Indels: 38
0.68 0.06 0.26
Matches are distributed among these distances:
16 5 0.05
17 6 0.06
18 33 0.33
19 4 0.04
20 10 0.10
21 4 0.04
22 24 0.24
23 4 0.04
24 8 0.08
25 2 0.02
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTATTTTTATTTATTTT
Found at i:25203235 original size:58 final size:56
Alignment explanation
Indices: 25203171--25203329 Score: 183
Period size: 58 Copynumber: 2.7 Consensus size: 56
25203161 TTATAAAAAG
* *
25203171 AAATATTTTTGATGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTACA
1 AAATATTTTTGA-GAAAAGTTGAAAATATCAATTTTCCTTGAAAATAA-TTTTCTAAA
* *
25203229 AAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTCTTTGGAAATAATTTTCTAAA
1 AAATATTTTTGAG-AAAAGTTGAAAATATCAATTTTCCTTGAAAATAATTTTCTAAA
* * * *
25203286 AAAGGTTTTTTTTTAGGAAAAGTTGAAATTATCAATTTTTCTTG
1 AAA---TATTTTTGA-GAAAAGTTGAAAATATCAATTTTCCTTG
25203330 TACAAAAGCA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
57 12 0.14
58 43 0.49
60 31 0.36
61 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (56 bp):
AAATATTTTTGAGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAATTTTCTAAA
Found at i:25214814 original size:19 final size:19
Alignment explanation
Indices: 25214772--25214815 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
25214762 ATGATAAATG
*
25214772 AATGATAATAATGATTTAT
1 AATGATAATAATGATTTAC
* * *
25214791 GATGATGATGATGATTTAC
1 AATGATAATAATGATTTAC
25214810 AATGAT
1 AATGAT
25214816 TTTTAATGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (19 bp):
AATGATAATAATGATTTAC
Found at i:25215118 original size:23 final size:23
Alignment explanation
Indices: 25215088--25215132 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
25215078 ACTTTTTATT
25215088 TACAGATGAGTAAGTGATAAGTG
1 TACAGATGAGTAAGTGATAAGTG
25215111 TACAGATGAGTAAGTGATAAGT
1 TACAGATGAGTAAGTGATAAGT
25215133 TTACTTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.04, G:0.29, T:0.27
Consensus pattern (23 bp):
TACAGATGAGTAAGTGATAAGTG
Found at i:25217552 original size:20 final size:20
Alignment explanation
Indices: 25217527--25217594 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
25217517 ATATTCTAGA
25217527 CTGATTTGATATTAATTTAG
1 CTGATTTGATATTAATTTAG
*
25217547 CTGATTTGATATTGATTTAG
1 CTGATTTGATATTAATTTAG
* *
25217567 -AGAATATTAAATATTAATTTAG
1 CTG-AT-TT-GATATTAATTTAG
25217589 CTGATT
1 CTGATT
25217595 ATAAGAATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.03
20 21 0.54
21 3 0.08
22 13 0.33
23 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (20 bp):
CTGATTTGATATTAATTTAG
Found at i:25219189 original size:3 final size:3
Alignment explanation
Indices: 25219181--25219211 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25219171 AAAAGCATGT
25219181 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
25219212 ATATAGGCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:25220714 original size:2 final size:2
Alignment explanation
Indices: 25220703--25220761 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
25220693 GACCCACATA
25220703 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
25220744 CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT
25220762 GTGTGTGCTA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:25222254 original size:17 final size:18
Alignment explanation
Indices: 25222234--25222271 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
25222224 ACAATAAATT
25222234 ATTATG-TAATATAATAA
1 ATTATGTTAATATAATAA
* *
25222251 ATTATGTTAATGTTATAA
1 ATTATGTTAATATAATAA
25222269 ATT
1 ATT
25222272 TTAATACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTATGTTAATATAATAA
Found at i:25228480 original size:16 final size:17
Alignment explanation
Indices: 25228459--25228493 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
25228449 CCAGACAAAT
25228459 CTGG-TTAGAAAAGAGC
1 CTGGTTTAGAAAAGAGC
25228475 CTGGTTTAGAAAAGAGC
1 CTGGTTTAGAAAAGAGC
25228492 CT
1 CT
25228494 CTATGCGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (17 bp):
CTGGTTTAGAAAAGAGC
Done.