Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 55 of 182
Found at i:17066385 original size:15 final size:15
Alignment explanation
Indices: 17066349--17066387 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
17066339 TTTTCTTACA
* *
17066349 ACCACCACAGTATGT
1 ACCACCGCAGTATGC
17066364 ACCACCGCAGTATGC
1 ACCACCGCAGTATGC
17066379 ACCACCGCA
1 ACCACCGCA
17066388 CGTCCCTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.41, G:0.15, T:0.13
Consensus pattern (15 bp):
ACCACCGCAGTATGC
Found at i:17075163 original size:21 final size:20
Alignment explanation
Indices: 17075126--17075165 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17075116 GAATTTAACT
17075126 TATTTTAAATATATAAATTA
1 TATTTTAAATATATAAATTA
* *
17075146 TATTATTATATATTTAAATT
1 TATT-TTAAATATATAAATT
17075166 GTATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTTAAATATATAAATTA
Found at i:17075435 original size:14 final size:16
Alignment explanation
Indices: 17075406--17075437 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
17075396 ATAGAATTCA
17075406 TATAGTGAATTTCTAT
1 TATAGTGAATTTCTAT
17075422 TATA-TGAA-TTCTAT
1 TATAGTGAATTTCTAT
17075436 TA
1 TA
17075438 AATAAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.50
Consensus pattern (16 bp):
TATAGTGAATTTCTAT
Found at i:17075836 original size:16 final size:17
Alignment explanation
Indices: 17075815--17075847 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17075805 AAATTTAAAC
17075815 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
17075831 ATTTTAATTAAGATAAT
1 ATTTTAATTAAAATAAT
17075848 TTTATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:17076178 original size:21 final size:20
Alignment explanation
Indices: 17076160--17076200 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17076150 GCTTTTATGG
17076160 CTTTTTAAAGTTTTTTTATA
1 CTTTTTAAAGTTTTTTTATA
* *
17076180 TTTTTTTAAGTTTTTTATATA
1 CTTTTTAAAGTTTTTT-TATA
17076201 TATTTTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (20 bp):
CTTTTTAAAGTTTTTTTATA
Found at i:17076201 original size:21 final size:21
Alignment explanation
Indices: 17076161--17076227 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
17076151 CTTTTATGGC
*
17076161 TTTTTAAAGTTTTTT-TATAT
1 TTTTTTAAGTTTTTTATATAT
17076181 TTTTTTAAGTTTTTTATATAT
1 TTTTTTAAGTTTTTTATATAT
* * *
17076202 ATTTTTAGAATTTTTTAGA-AT
1 TTTTTTA-AGTTTTTTATATAT
17076223 TTTTT
1 TTTTT
17076228 ATATTTTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
20 14 0.35
21 17 0.43
22 9 0.22
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTTTAAGTTTTTTATATAT
Found at i:17076218 original size:10 final size:10
Alignment explanation
Indices: 17076171--17076228 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
17076161 TTTTTAAAGT
* *
17076171 TTTTTTATAT
1 TTTTTTAGAA
*
17076181 TTTTTTA-AG
1 TTTTTTAGAA
*
17076190 TTTTTTATATA
1 TTTTTTAGA-A
17076201 TATTTTTAGAA
1 T-TTTTTAGAA
17076212 TTTTTTAGAA
1 TTTTTTAGAA
17076222 TTTTTTA
1 TTTTTTA
17076229 TATTTTCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.19
10 24 0.57
11 3 0.07
12 7 0.17
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:17078559 original size:27 final size:27
Alignment explanation
Indices: 17078520--17078620 Score: 193
Period size: 27 Copynumber: 3.7 Consensus size: 27
17078510 AAAGTAGTCC
*
17078520 ACGACCCTTTGGGAATTGGGACTACCA
1 ACGACCCTCTGGGAATTGGGACTACCA
17078547 ACGACCCTCTGGGAATTGGGACTACCA
1 ACGACCCTCTGGGAATTGGGACTACCA
17078574 ACGACCCTCTGGGAATTGGGACTACCA
1 ACGACCCTCTGGGAATTGGGACTACCA
17078601 ACGACCCTCTGGGAATTGGG
1 ACGACCCTCTGGGAATTGGG
17078621 GCTAACAATA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (27 bp):
ACGACCCTCTGGGAATTGGGACTACCA
Found at i:17079596 original size:9 final size:9
Alignment explanation
Indices: 17079582--17079612 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17079572 GTTAAACGAA
17079582 TCGAGTTAT
1 TCGAGTTAT
*
17079591 TCGAGTTAA
1 TCGAGTTAT
17079600 TCGAGTTAT
1 TCGAGTTAT
17079609 TCGA
1 TCGA
17079613 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:17079689 original size:9 final size:9
Alignment explanation
Indices: 17079665--17079701 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
17079655 TGAGTTTTCG
17079665 AATTCGAAT
1 AATTCGAAT
* *
17079674 AACTCGAAC
1 AATTCGAAT
17079683 AATTCGAAT
1 AATTCGAAT
17079692 AATTCGAAT
1 AATTCGAAT
17079701 A
1 A
17079702 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17080090 original size:17 final size:18
Alignment explanation
Indices: 17080064--17080106 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
17080054 ACTTTCCTTC
17080064 AAAC-TTTTA-TTCCCCA
1 AAACTTTTTATTTCCCCA
*
17080080 AAACTTTTTATTTTCCCCT
1 AAACTTTTTA-TTTCCCCA
17080099 AAACTTTT
1 AAACTTTT
17080107 ACTTCTCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
19 14 0.61
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (18 bp):
AAACTTTTTATTTCCCCA
Found at i:17080330 original size:10 final size:10
Alignment explanation
Indices: 17080315--17080340 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
17080305 GAACAAATAT
17080315 ATTCGATTTG
1 ATTCGATTTG
17080325 ATTCGATTTG
1 ATTCGATTTG
17080335 ATTCGA
1 ATTCGA
17080341 ATTCCATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (10 bp):
ATTCGATTTG
Found at i:17087190 original size:19 final size:19
Alignment explanation
Indices: 17087166--17087204 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17087156 ATTAACTGAT
17087166 AAAGGTTTTGTAAGGCCTA
1 AAAGGTTTTGTAAGGCCTA
17087185 AAAGGTTTTGTAAGGCCTA
1 AAAGGTTTTGTAAGGCCTA
17087204 A
1 A
17087205 TTGTTCTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (19 bp):
AAAGGTTTTGTAAGGCCTA
Found at i:17090785 original size:50 final size:50
Alignment explanation
Indices: 17090681--17090920 Score: 207
Period size: 50 Copynumber: 4.7 Consensus size: 50
17090671 TAAAAAGATT
* *
17090681 CCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTC
* *
17090737 CCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * **
17090787 TCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 -CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * * * * * **
17090837 CCATGTAAGACCATATCTAGGATATGACATTGGCA--GTACAAGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTC
* *
17090886 CCATGTAAGTCCATGTCTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17090921 TGTTATTATC
Statistics
Matches: 153, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 76 0.50
51 2 0.01
53 3 0.02
55 1 0.01
56 32 0.21
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
Found at i:17092362 original size:37 final size:37
Alignment explanation
Indices: 17092321--17092395 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
17092311 AAAGGAAAGG
*
17092321 TTATGCTTATATGTAAAGACATACTTTGTGTAAGCTT
1 TTATGCTTATATGTAAAGACACACTTTGTGTAAGCTT
* *
17092358 TTATGGTTATATGTAAAGGCACACTTTGTGTAAGCTT
1 TTATGCTTATATGTAAAGACACACTTTGTGTAAGCTT
17092395 T
1 T
17092396 CTCGTGTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.43
Consensus pattern (37 bp):
TTATGCTTATATGTAAAGACACACTTTGTGTAAGCTT
Found at i:17113346 original size:21 final size:21
Alignment explanation
Indices: 17113311--17113352 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17113301 GATACATAGT
**
17113311 AAAAGGTATGTATACTGTTTG
1 AAAAGGTATCAATACTGTTTG
*
17113332 AAAAGGTATCAATACTTTTTG
1 AAAAGGTATCAATACTGTTTG
17113353 TCATTGATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (21 bp):
AAAAGGTATCAATACTGTTTG
Found at i:17113502 original size:20 final size:19
Alignment explanation
Indices: 17113479--17113536 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
17113469 ATTTGTTTTA
17113479 AAAATTTTTTAACTTGATTG
1 AAAA-TTTTTAACTTGATTG
* **
17113499 AAAATGTTTAACTCAATTG
1 AAAATTTTTAACTTGATTG
17113518 AAACCA-TTTTAACTTGATT
1 AAA--ATTTTTAACTTGATT
17113537 TTATCATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 15 0.50
20 14 0.47
21 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (19 bp):
AAAATTTTTAACTTGATTG
Found at i:17113510 original size:19 final size:19
Alignment explanation
Indices: 17113485--17113536 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
17113475 TTTAAAAATT
17113485 TTTTAACTTGATTGAAA-A
1 TTTTAACTTGATTGAAACA
**
17113503 TGTTTAACTCAATTGAAACCA
1 T-TTTAACTTGATTGAAA-CA
17113524 TTTTAACTTGATT
1 TTTTAACTTGATT
17113537 TTATCATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 10 0.37
21 2 0.07
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (19 bp):
TTTTAACTTGATTGAAACA
Found at i:17113589 original size:22 final size:25
Alignment explanation
Indices: 17113561--17113610 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 25
17113551 ATTTTGTTCA
17113561 ATTTTAACTT-TTAT-TCAAAA-AT
1 ATTTTAACTTGTTATATCAAAACAT
*
17113583 ATTTTAATTTGTTATATCAAAACAT
1 ATTTTAACTTGTTATATCAAAACAT
17113608 ATT
1 ATT
17113611 ATCAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 4 0.17
24 6 0.25
25 5 0.21
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTTTAACTTGTTATATCAAAACAT
Found at i:17120102 original size:25 final size:25
Alignment explanation
Indices: 17120073--17120155 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 25
17120063 AGCACCAATT
17120073 TGGACAGCATTAATATGCTCAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
* * * **
17120098 TGGACAGCATT--TAAGCACTAATT
1 TGGACAGCATTAATATGCTCAAAAA
* * *
17120121 TGGACAACATTAATATACTAAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
17120146 TGGACAGCAT
1 TGGACAGCAT
17120156 CTTATCATCA
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
23 17 0.40
25 25 0.60
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (25 bp):
TGGACAGCATTAATATGCTCAAAAA
Found at i:17120152 original size:48 final size:48
Alignment explanation
Indices: 17120045--17120155 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
17120035 TGATTTGTAC
** * * * *
17120045 AAAAATGGACAATAATTAAGCACCAATTTGGACAGCATTAATATGCTC
1 AAAAATGGACAGCATTTAAGCACCAATTTGGACAACATTAATATACTA
*
17120093 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATACTA
1 AAAAATGGACAGCATTTAAGCACCAATTTGGACAACATTAATATACTA
17120141 AAAAATGGACAGCAT
1 AAAAATGGACAGCAT
17120156 CTTATCATCA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.24
Consensus pattern (48 bp):
AAAAATGGACAGCATTTAAGCACCAATTTGGACAACATTAATATACTA
Found at i:17125025 original size:40 final size:40
Alignment explanation
Indices: 17124981--17125105 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 40
17124971 TTATTGTACG
* *
17124981 AATGCATATACATGCCCCTGTTTGTACTTCGATACCCCTA
1 AATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTA
* * * *
17125021 AATGCACATACGTCCCCCTATTT-TGACTTCGGTACCCCAA
1 AATGCACATACATGCCCCTGTTTGT-ACTTCGGTACCCCTA
* * *
17125061 AATACACATACATGCCCCTGTTTGTACTTCGGTGCCCCTG
1 AATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTA
17125101 AATGC
1 AATGC
17125106 GCTTTCGTGC
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 67 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (40 bp):
AATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:17125117 original size:40 final size:40
Alignment explanation
Indices: 17124981--17125122 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
17124971 TTATTGTACG
* * *
17124981 AATGCATATACATGCCCCTGTTTGTACTTCGATACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
17125021 AATGCACATACGTCCCCCTATTT-TGACTTCGGTACCCCAA
1 AATGCACATACGTGCCCCTGTTTGT-ACTTCGGTACCCCTA
* * * *
17125061 AATACACATACATGCCCCTGTTTGTACTTCGGTGCCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
17125101 AATGCGCTTTCGTGCCCCTGTT
1 AATGCACATACGTGCCCCTGTT
17125123 AAAAATCTGG
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 80 0.98
41 1 0.01
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.31
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:17125779 original size:17 final size:16
Alignment explanation
Indices: 17125757--17125813 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
17125747 GTGTAACTCA
17125757 GCCGTGTGAGACACACG
1 GCCGTGTGAGACACA-G
*
17125774 GCCGTGTGTA-ACTCA-
1 GCCGTGTG-AGACACAG
*
17125789 GCCGTGTTAGACACATG
1 GCCGTGTGAGACACA-G
17125806 GCCGTGTG
1 GCCGTGTG
17125814 CCATCTTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.03
15 11 0.34
17 19 0.59
18 1 0.03
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.21
Consensus pattern (16 bp):
GCCGTGTGAGACACAG
Found at i:17125786 original size:32 final size:32
Alignment explanation
Indices: 17125745--17125813 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
17125735 TGATACATGG
17125745 GTGTGTAACTCAGCCGTGTGAGACACACGGCC
1 GTGTGTAACTCAGCCGTGTGAGACACACGGCC
* *
17125777 GTGTGTAACTCAGCCGTGTTAGACACATGGCC
1 GTGTGTAACTCAGCCGTGTGAGACACACGGCC
17125809 GTGTG
1 GTGTG
17125814 CCATCTTAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (32 bp):
GTGTGTAACTCAGCCGTGTGAGACACACGGCC
Found at i:17125794 original size:15 final size:15
Alignment explanation
Indices: 17125745--17125795 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
17125735 TGATACATGG
17125745 GTGTGTAACTCAGCC
1 GTGTGTAACTCAGCC
*
17125760 GTGTG-AGACACACGGCC
1 GTGTGTA-ACTCA--GCC
17125777 GTGTGTAACTCAGCC
1 GTGTGTAACTCAGCC
17125792 GTGT
1 GTGT
17125796 TAGACACATG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (15 bp):
GTGTGTAACTCAGCC
Found at i:17130820 original size:37 final size:38
Alignment explanation
Indices: 17130757--17130869 Score: 94
Period size: 37 Copynumber: 3.1 Consensus size: 38
17130747 ATTCCAAAAA
*
17130757 TAATA-TTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTTATCTTAATAGTTTAATATTAAATTAATATT
* *
17130793 TAATATTTATCTTAATAGTATT-TTATTAAGTTAATATT
1 TAATATTTATCTTAATAGT-TTAATATTAAATTAATATT
* * * *
17130831 AAAT-TGATTATCTTAATA-TTAAAT-TTAATTTAATGTT
1 TAATAT--TTATCTTAATAGTTTAATATTAAATTAATATT
17130868 TA
1 TA
17130870 TCTTGTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
36 5 0.08
37 36 0.58
38 10 0.16
39 11 0.18
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (38 bp):
TAATATTTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:17134877 original size:22 final size:21
Alignment explanation
Indices: 17134848--17134891 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
17134838 CGTTTTATTC
*
17134848 AATTTAAACTAAAAACTAAAT
1 AATTTAAAATAAAAACTAAAT
* *
17134869 AATTCTAAAATAAACATTAAAT
1 AATT-TAAAATAAAAACTAAAT
17134891 A
1 A
17134892 CGTAAAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTTAAAATAAAAACTAAAT
Found at i:17135854 original size:10 final size:10
Alignment explanation
Indices: 17135841--17135885 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
17135831 CATTCAACTG
*
17135841 AAAATTTTTA
1 AAAATTTTAA
17135851 AAAATTTT-A
1 AAAATTTTAA
17135860 AAAATTTTAA
1 AAAATTTTAA
17135870 AAAATTTTAA
1 AAAATTTTAA
17135880 AAAATT
1 AAAATT
17135886 GATTTTATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 9 0.26
10 25 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:17135858 original size:9 final size:9
Alignment explanation
Indices: 17135841--17135882 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
17135831 CATTCAACTG
*
17135841 AAAATTTTT
1 AAAAATTTT
17135850 AAAAATTTT
1 AAAAATTTT
17135859 AAAAATTTT
1 AAAAATTTT
17135868 AAAAAATTTT
1 -AAAAATTTT
17135878 AAAAA
1 AAAAA
17135883 ATTGATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 22 0.71
10 9 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:17135865 original size:19 final size:19
Alignment explanation
Indices: 17135841--17135882 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
17135831 CATTCAACTG
*
17135841 AAAATTTTTAAAAATTTTA
1 AAAATTTTAAAAAATTTTA
17135860 AAAATTTTAAAAAATTTTA
1 AAAATTTTAAAAAATTTTA
17135879 AAAA
1 AAAA
17135883 ATTGATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTTTAAAAAATTTTA
Found at i:17139221 original size:14 final size:14
Alignment explanation
Indices: 17139202--17139229 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17139192 CGGGTTTTAC
17139202 TTTGAGATAAGTGA
1 TTTGAGATAAGTGA
17139216 TTTGAGATAAGTGA
1 TTTGAGATAAGTGA
17139230 ACCGTAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
TTTGAGATAAGTGA
Found at i:17144322 original size:16 final size:17
Alignment explanation
Indices: 17144285--17144326 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
17144275 TTTAAAAATC
17144285 TTTTTTCTGAAATGCTT
1 TTTTTTCTGAAATGCTT
* *
17144302 CTTTTTCTGAAATGTTT
1 TTTTTTCTGAAATGCTT
17144319 TTTTTTCT
1 TTTTTTCT
17144327 AGTGGGGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.14, C:0.12, G:0.10, T:0.64
Consensus pattern (17 bp):
TTTTTTCTGAAATGCTT
Found at i:17148473 original size:17 final size:17
Alignment explanation
Indices: 17148451--17148509 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
17148441 TAAATTAAAA
17148451 TTTATAAACTTTGATAT
1 TTTATAAACTTTGATAT
* *
17148468 TTTATAAAATCTGATAT
1 TTTATAAACTTTGATAT
* *
17148485 TTTAT-ACCTTTTTATAT
1 TTTATAAAC-TTTGATAT
17148502 TTTATAAA
1 TTTATAAA
17148510 AATTATATCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTATAAACTTTGATAT
Found at i:17148828 original size:24 final size:21
Alignment explanation
Indices: 17148794--17148840 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
17148784 ATATTTTTAA
17148794 TATTTTATAAACTTATAAACATTT
1 TATTTTATAAA-TTA-AAA-ATTT
*
17148818 TATTTTTTAAATTAAAAATTT
1 TATTTTATAAATTAAAAATTT
17148839 TA
1 TA
17148841 AAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 3 0.14
23 3 0.14
24 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTTATAAATTAAAAATTT
Found at i:17149163 original size:14 final size:14
Alignment explanation
Indices: 17149144--17149176 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
17149134 TGTTTGAATG
*
17149144 AAAATGGTTTCTGA
1 AAAATGATTTCTGA
17149158 AAAATGATTTCTGA
1 AAAATGATTTCTGA
17149172 AAAAT
1 AAAAT
17149177 TACTTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:17152242 original size:11 final size:11
Alignment explanation
Indices: 17152226--17152252 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17152216 TTAATTGGTA
17152226 TGTTTGAAAAG
1 TGTTTGAAAAG
17152237 TGTTTGAAAAG
1 TGTTTGAAAAG
17152248 TGTTT
1 TGTTT
17152253 AGGTCTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (11 bp):
TGTTTGAAAAG
Found at i:17152937 original size:47 final size:47
Alignment explanation
Indices: 17152884--17152980 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
17152874 AGTAAAAGAT
17152884 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
*
17152931 TAAGTGAGGTAACAATATGTTCCTACATTGAAACAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
17152978 TAA
1 TAA
17152981 TCTTGCAAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (47 bp):
TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
Found at i:17158317 original size:28 final size:28
Alignment explanation
Indices: 17158256--17158319 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
17158246 GACTCCAACA
* *
17158256 ATCATATTGTAACGGTTAGATTCCAATG
1 ATCATATTGTAACAGTCAGATTCCAATG
** *
17158284 GCCATATTGTAACAGTCAGATTCTAATG
1 ATCATATTGTAACAGTCAGATTCCAATG
17158312 ATCATATT
1 ATCATATT
17158320 TTTGCATTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (28 bp):
ATCATATTGTAACAGTCAGATTCCAATG
Found at i:17169753 original size:27 final size:27
Alignment explanation
Indices: 17169723--17169900 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17169713 ATATTGAGTC
* * * *
17169723 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17169750 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17169777 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17169805 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17169832 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17169859 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17169886 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17169901 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17169862 original size:82 final size:81
Alignment explanation
Indices: 17169744--17169899 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17169734 TGCTATATAA
* *
17169744 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17169809 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17169826 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17169890 CACTTAGTGC
65 CACTTAGTGC
17169900 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17175701 original size:12 final size:13
Alignment explanation
Indices: 17175684--17175712 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17175674 CTCATACATG
17175684 AATAAATAAA-GC
1 AATAAATAAATGC
17175696 AATAAATAAATGC
1 AATAAATAAATGC
17175709 AATA
1 AATA
17175713 GTTATAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:17181463 original size:33 final size:33
Alignment explanation
Indices: 17181425--17181501 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
17181415 CTATCTATTC
* * *
17181425 TATGTTTACTATCCCAGCAAATTATCT-TTGTTT
1 TATGTTTACTATACCAACAAACTATCTCTT-TTT
* *
17181458 TATGTTTACCATACCAACGAACTATCTCTTTTT
1 TATGTTTACTATACCAACAAACTATCTCTTTTT
*
17181491 TGTGTTTACTA
1 TATGTTTACTA
17181502 CTCCTATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 34 0.94
34 2 0.06
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (33 bp):
TATGTTTACTATACCAACAAACTATCTCTTTTT
Found at i:17181524 original size:18 final size:18
Alignment explanation
Indices: 17181497--17181533 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17181487 TTTTTGTGTT
*
17181497 TACTACTCCTATGAACTA
1 TACTACTCCTACGAACTA
*
17181515 TACTATTCCTACGAACTA
1 TACTACTCCTACGAACTA
17181533 T
1 T
17181534 CTCCATGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (18 bp):
TACTACTCCTACGAACTA
Found at i:17187910 original size:40 final size:38
Alignment explanation
Indices: 17187866--17187966 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 38
17187856 CGAATATAAT
*
17187866 AATTATAATTACCATAATTATAATAATTTTTGA-CCAAAAA
1 AATTATAATTACCATAATTATAATAATATTTGATCC---AA
* *
17187906 AATTACAATTA-CAGTAATTATAATAATATTTGATCCTA
1 AATTATAATTACCA-TAATTATAATAATATTTGATCCAA
*
17187944 AATTATAATTACAATAATTATAA
1 AATTATAATTACCATAATTATAA
17187967 CAAGGATTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
38 20 0.38
39 3 0.06
40 28 0.53
41 2 0.04
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTTGATCCAA
Found at i:17190233 original size:13 final size:13
Alignment explanation
Indices: 17190215--17190240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17190205 CATATATATT
17190215 TTATAAAAAAATA
1 TTATAAAAAAATA
17190228 TTATAAAAAAATA
1 TTATAAAAAAATA
17190241 AAAACATACC
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTATAAAAAAATA
Found at i:17193007 original size:17 final size:18
Alignment explanation
Indices: 17192976--17193017 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
17192966 GAGAAAATGA
17192976 AAAATGAAGAAAT-GGAG
1 AAAATGAAGAAATGGGAG
17192993 AAAATGAA-AATATGGGAG
1 AAAATGAAGAA-ATGGGAG
*
17193011 CAAATGA
1 AAAATGA
17193018 GTGGTATGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 10 0.45
18 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.26, T:0.14
Consensus pattern (18 bp):
AAAATGAAGAAATGGGAG
Found at i:17193587 original size:15 final size:15
Alignment explanation
Indices: 17193563--17193597 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
17193553 CACTCTCTCA
*
17193563 TTTTATTAACCCAAT
1 TTTTACTAACCCAAT
17193578 TTTTACTAACCCAAT
1 TTTTACTAACCCAAT
17193593 TTTTA
1 TTTTA
17193598 GGATGTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTACTAACCCAAT
Found at i:17199944 original size:41 final size:41
Alignment explanation
Indices: 17199896--17199978 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
17199886 ATTCAAGTGA
17199896 ATTATGTTTGAATGCACAAACATGTGTTGTTAATGGTGCTT
1 ATTATGTTTGAATGCACAAACATGTGTTGTTAATGGTGCTT
17199937 ATTATGTTTGAATGCACAAACATGTGTTGTTAATGGTGCTT
1 ATTATGTTTGAATGCACAAACATGTGTTGTTAATGGTGCTT
17199978 A
1 A
17199979 GGCTTGTGCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.41
Consensus pattern (41 bp):
ATTATGTTTGAATGCACAAACATGTGTTGTTAATGGTGCTT
Found at i:17207958 original size:102 final size:102
Alignment explanation
Indices: 17207837--17208138 Score: 480
Period size: 102 Copynumber: 3.0 Consensus size: 102
17207827 CAATGAGTCG
* **
17207837 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
*
17207902 CAATGATTCAGGGAATCAGCACTTAGCAACCCCTCGA
66 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGA
17207939 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
* * * * *
17208004 CAATGAGTCGGGGAATCAGCAGTTAGCAACCCCTTGG
66 CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGA
* *
17208041 GGGAATCAGCACTTAGCAACCCCCTTCACATTCAAGATACGGCGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
*
17208106 CAACGAAT-AGGGGAATCAGCACTTAGCAACCCC
66 CAATGAATCA-GGGAATCAGCACTTAGCAACCCC
17208139 CTTTTTATTC
Statistics
Matches: 185, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
102 185 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
CAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGA
Found at i:17213442 original size:50 final size:50
Alignment explanation
Indices: 17213331--17213577 Score: 221
Period size: 50 Copynumber: 4.8 Consensus size: 50
17213321 ATTTGGGTAA
**
17213331 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTGTCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATT-G-G-CACCGAG---ATG
* * *
17213387 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *** * *
17213437 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
17213487 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * * *
17213536 AAACATCCCATATAAGACCATGTCTAGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17213578 TGTTATTATC
Statistics
Matches: 161, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 81 0.50
53 5 0.03
54 1 0.01
55 1 0.01
56 35 0.22
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:17213527 original size:100 final size:105
Alignment explanation
Indices: 17213343--17213528 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 105
17213333 AGATCCCATG
* **
17213343 TAAGACCATGTCTGGGACATGGCATTGGTGTCATTGAGATTATGAGAGGTCCCATGTAAGACCAT
1 TAAGACCATGTCTGGGACATGGCATTGGTGTCA-TCAGATTATGAGAACTCCCATGTAAGACCAT
* *
17213408 GTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCA
65 ATCTAGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCA
*
17213449 TAAGACCATGTCTGGGACATGGCA-TGG-G-CA-CCGA-TATGAGAACTCCCATGTAAGACCATA
1 TAAGACCATGTCTGGGACATGGCATTGGTGTCATCAGATTATGAGAACTCCCATGTAAGACCATA
* *
17213509 TCTGGGATATGGCATTGGCA
66 TCTAGGACATGGCATTGGCA
17213529 GTACAAGAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 40 0.56
101 2 0.03
103 2 0.03
104 1 0.01
105 3 0.04
106 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (105 bp):
TAAGACCATGTCTGGGACATGGCATTGGTGTCATCAGATTATGAGAACTCCCATGTAAGACCATA
TCTAGGACATGGCATTGGCACCGAGATGAGAGGTCCCCCA
Found at i:17220153 original size:26 final size:26
Alignment explanation
Indices: 17220124--17220174 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
17220114 TTATTAAATT
*
17220124 TTTAATCTAAATTGAATTAAATCAAA
1 TTTAATCTAAATTGAATCAAATCAAA
* * *
17220150 TTTAATTTTAATTTAATCAAATCAA
1 TTTAATCTAAATTGAATCAAATCAA
17220175 TTTTTTAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (26 bp):
TTTAATCTAAATTGAATCAAATCAAA
Found at i:17220179 original size:21 final size:21
Alignment explanation
Indices: 17220138--17220178 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17220128 ATCTAAATTG
*
17220138 AATTAAATCAAATTTAATTTT
1 AATTAAATCAAATTCAATTTT
*
17220159 AATTTAATCAAA-TCAATTTT
1 AATTAAATCAAATTCAATTTT
17220179 TTAAGTCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTAAATCAAATTCAATTTT
Found at i:17224187 original size:13 final size:13
Alignment explanation
Indices: 17224169--17224194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17224159 GGCTTCCCCT
17224169 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
17224182 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
17224195 AGTTTAGCTG
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:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:17224239 original size:13 final size:13
Alignment explanation
Indices: 17224221--17224246 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17224211 AACTTAGTCG
17224221 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
17224234 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
17224247 AGTTTAGCTG
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:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:17225054 original size:127 final size:127
Alignment explanation
Indices: 17224871--17225125 Score: 492
Period size: 127 Copynumber: 2.0 Consensus size: 127
17224861 TTATCCAGCT
*
17224871 TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGTTGCTG
1 TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGCTGCTG
*
17224936 GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTGATTCACCGATAAACCATGTGAA
66 GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTAATTCACCGATAAACCATGTGAA
17224998 TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGCTGCTG
1 TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGCTGCTG
17225063 GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTAATTCACCGATAAACCATGTGAA
66 GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTAATTCACCGATAAACCATGTGAA
17225125 T
1 T
17225126 ACTTTAGCTC
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 126 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (127 bp):
TTAGTGAGATGTTTCTGATTTAAAGATTCTAAATTACAGCTTGCATAGATATTCAGTGGCTGCTG
GAAAAGGAAAAGGGGGAAGTGATTTTATAATTAGAAACTAATTCACCGATAAACCATGTGAA
Found at i:17227023 original size:24 final size:26
Alignment explanation
Indices: 17226999--17227048 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17226989 ACAACGCATT
17226999 AATTAAAAATATT-TTTAAATAATTAA
1 AATTAAAAATATTATTTAAATAATT-A
* *
17227025 AATTAAAAATTTTATTTTAATAAT
1 AATTAAAAATATTATTTAAATAAT
17227049 ATTACATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AATTAAAAATATTATTTAAATAATTA
Found at i:17227196 original size:16 final size:16
Alignment explanation
Indices: 17227172--17227202 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17227162 GTTATTATGA
*
17227172 TTGATTAAAAAACAAC
1 TTGAGTAAAAAACAAC
17227188 TTGAGTAAAAAACAA
1 TTGAGTAAAAAACAA
17227203 ATATTTGGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (16 bp):
TTGAGTAAAAAACAAC
Found at i:17230532 original size:91 final size:91
Alignment explanation
Indices: 17230385--17230592 Score: 310
Period size: 91 Copynumber: 2.3 Consensus size: 91
17230375 TTGATTTTAG
* *
17230385 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
17230450 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
17230477 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
17230542 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
17230568 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
17230593 GTTATAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
91 87 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:17230559 original size:47 final size:46
Alignment explanation
Indices: 17230417--17230560 Score: 106
Period size: 47 Copynumber: 3.1 Consensus size: 46
17230407 ATTATTAAGA
*
17230417 ATTTTATGAAATTATATATCATTATTAAATTATATTTAAT-ATTAATT
1 ATTTTATGAAATTATATATTATTATTAAATTATA-TTAATAATT-ATT
* * ** *
17230464 ATTTTA--AATTGTATAAATTCATATAAGAAAATT-TATT-ATCAA-GA--
1 ATTTTATGAAAT-TATATATT-AT-T-ATTAAATTATATTAAT-AATTATT
17230508 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATTATT
1 ATTTTATGAAATTATATATTATTATTAAATTATAT-TAATAATTATT
17230555 ATTTTA
1 ATTTTA
17230561 AATTATACAA
Statistics
Matches: 72, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
42 6 0.08
43 4 0.06
44 11 0.15
45 13 0.18
46 12 0.17
47 16 0.22
48 4 0.06
49 6 0.08
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (46 bp):
ATTTTATGAAATTATATATTATTATTAAATTATATTAATAATTATT
Found at i:17230567 original size:44 final size:43
Alignment explanation
Indices: 17230425--17230567 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 43
17230415 GAATTTTATG
*
17230425 AAATTATATATCATTATTAAATTATATTTAAT-ATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATT-ATTATTTT
* ** ** *
17230469 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATTATTATT-TT
17230516 AAATTATATATTATTATTAAATTATATGTAATAATTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATTATTATTTT
17230560 AAATTATA
1 AAATTATA
17230568 CAAATTCATA
Statistics
Matches: 74, Mismatches: 13, Indels: 24
0.67 0.12 0.22
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 20 0.27
45 12 0.16
46 11 0.15
47 11 0.15
48 4 0.05
49 6 0.08
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATTATTATTTT
Found at i:17230687 original size:59 final size:57
Alignment explanation
Indices: 17230619--17230897 Score: 153
Period size: 66 Copynumber: 4.7 Consensus size: 57
17230609 ATTTTATTAA
17230619 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTT-TTTTATAGT
* * ** * *
17230678 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATTTTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-ATTTTTTTTATAGT
* * *
17230739 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTT-T-TTTTATAGT
* * ** * *
17230798 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATTTTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAA-ATTTTTTTTATAGT
* *
17230859 ATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT
17230898 GTTTAAATAT
Statistics
Matches: 165, Mismatches: 30, Indels: 54
0.66 0.12 0.22
Matches are distributed among these distances:
54 23 0.14
55 10 0.06
56 8 0.05
57 6 0.04
59 21 0.13
60 16 0.10
61 20 0.12
63 7 0.04
64 14 0.08
65 16 0.10
66 24 0.15
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTTTTTTATAGT
Found at i:17230732 original size:66 final size:63
Alignment explanation
Indices: 17230646--17230853 Score: 184
Period size: 66 Copynumber: 3.3 Consensus size: 63
17230636 AAATATATTT
*
17230646 AATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTA-TT-AAAATTT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
17230711 G
63 G
* * * * **
17230712 AATATTAATTATTAAGAATTTTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTAA-AATTTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* * *
17230766 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TAAAATT-T-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
17230831 G
63 G
17230832 AATATTAATTATTAAGAATTTT
1 AATATTAATTATTAA-AATTTT
17230854 ATTAAATTAT
Statistics
Matches: 108, Mismatches: 19, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.13
55 7 0.06
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 8 0.07
65 13 0.12
66 25 0.23
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAAATTTTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:17230732 original size:120 final size:120
Alignment explanation
Indices: 17230608--17230900 Score: 518
Period size: 120 Copynumber: 2.4 Consensus size: 120
17230598 AATTATTTTA
* * *
17230608 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
17230671 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
17230728 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
17230793 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
17230848 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
17230901 TAAATATGAT
Statistics
Matches: 166, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
119 5 0.03
120 159 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:17230768 original size:15 final size:15
Alignment explanation
Indices: 17230733--17230784 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17230723 TTAAGAATTT
*
17230733 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17230747 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17230761 TATTTAATAATAAT-
1 TATTTAATTATAATA
17230775 TATGTTAATT
1 TAT-TTAATT
17230785 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17230866 original size:61 final size:61
Alignment explanation
Indices: 17230681--17230868 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
17230671 TTATAGTATC
17230681 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
17230742 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
17230800 C
61 T
17230801 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
17230862 ATATATT
1 ATATATT
17230869 TTAATTAAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.16
61 25 0.26
62 8 0.08
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:17230877 original size:18 final size:17
Alignment explanation
Indices: 17230849--17230883 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17230839 ATTATTAAGA
*
17230849 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17230866 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17230884 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17231001 original size:157 final size:157
Alignment explanation
Indices: 17230837--17231154 Score: 600
Period size: 157 Copynumber: 2.0 Consensus size: 157
17230827 ATAAGAATAT
17230837 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
17230902 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
17230967 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
*
17230994 TAATTATTAATAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
17231059 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
17231124 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
17231151 TAAT
1 TAAT
17231155 GGTATTCTAG
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:17231034 original size:18 final size:17
Alignment explanation
Indices: 17231006--17231040 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17230996 ATTATTAATA
*
17231006 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17231023 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17231041 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17231074 original size:75 final size:75
Alignment explanation
Indices: 17230838--17231076 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
17230828 TAAGAATATT
*
17230838 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAATAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
17230903 AATATGATTA
66 AATATGATTA
* * * * * * * *
17230913 AATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAATAATT--T--TATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
17230975 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
17230995 AATTATTAATAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAATAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
17231060 AATATGATTA
66 AATATGATTA
17231070 AATTATT
1 AATTATT
17231077 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 12 0.10
77 8 0.07
78 19 0.16
79 19 0.16
80 8 0.07
81 12 0.10
82 16 0.14
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
AATTATTAATAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:17231300 original size:16 final size:16
Alignment explanation
Indices: 17231279--17231311 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17231269 TTGCTATTAT
*
17231279 ACCTCTAATTCAATAC
1 ACCTCTAATCCAATAC
17231295 ACCTCTAATCCAATAC
1 ACCTCTAATCCAATAC
17231311 A
1 A
17231312 GCGAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.27
Consensus pattern (16 bp):
ACCTCTAATCCAATAC
Found at i:17242204 original size:86 final size:85
Alignment explanation
Indices: 17242050--17242214 Score: 219
Period size: 86 Copynumber: 1.9 Consensus size: 85
17242040 AGCTCGTACA
*
17242050 ATGCCAACGTCCCAGACGAGGTCTTACATGTAATCAAAAATCGATGCCACTATCCCAAACAGGGT
1 ATGCCAACGTCCCAGACGAGGTCTTACACGTAATCAAAAATCGATGCCACTATCCCAAACAGGGT
*
17242115 CTTACACGAAATCATATACG
66 CTTACACAAAATCATATACG
* ** *
17242135 ATGCCAATGTCCCAGAC-ATGGTCTTACACGTAAATCTCAAATCGATGCCAAC-ATCCCAGAC-G
1 ATGCCAACGTCCCAGACGA-GGTCTTACACGT-AATCAAAAATCGATGCC-ACTATCCCAAACAG
17242197 TGGTCTTACACAAAATCA
63 -GGTCTTACACAAAATCA
17242215 CATATCAGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
84 1 0.01
85 28 0.40
86 39 0.56
87 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGAGGTCTTACACGTAATCAAAAATCGATGCCACTATCCCAAACAGGGT
CTTACACAAAATCATATACG
Found at i:17249218 original size:15 final size:15
Alignment explanation
Indices: 17249198--17249226 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17249188 GATTACCGTG
17249198 TTATTTAATTTGTTT
1 TTATTTAATTTGTTT
17249213 TTATTTAATTTGTT
1 TTATTTAATTTGTT
17249227 GCTATGGGAT
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:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TTATTTAATTTGTTT
Found at i:17253734 original size:11 final size:11
Alignment explanation
Indices: 17253704--17253778 Score: 78
Period size: 11 Copynumber: 6.7 Consensus size: 11
17253694 AAACTAATCC
17253704 TCTCTCAATTAT
1 TCTCTCAATT-T
*
17253716 TTTCTCAATTT
1 TCTCTCAATTT
*
17253727 TCTCTCAAATT
1 TCTCTCAATTT
*
17253738 GCTCTCAATTT
1 TCTCTCAATTT
*
17253749 GCTCTCAATTT
1 TCTCTCAATTT
* * *
17253760 CCTTTCAAATT
1 TCTCTCAATTT
17253771 TCTCTCAA
1 TCTCTCAA
17253779 ATCCATATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
11 44 0.83
12 9 0.17
ACGTcount: A:0.23, C:0.27, G:0.03, T:0.48
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:17257765 original size:125 final size:125
Alignment explanation
Indices: 17257439--17257876 Score: 662
Period size: 125 Copynumber: 3.5 Consensus size: 125
17257429 AACATGCTAA
* * *
17257439 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTACTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
* * *
17257504 AGCATTTTTTATACTATTCACTCAGAAACGTCAACTCGAAATTA-TTTTTCAGAACCTAC
66 AGCATTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCAAC
* * *
17257563 TTTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTATTCTGATAAAGCATCTTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
* *
17257628 AGCATTTTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTAAGGACCAAC
66 AGCA-TTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCAAC
*
17257689 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
* * *
17257754 AGCGTTTTTTATACTATTCGCTCATAAATGTCAACTCGAAATTATTTTTTCAGGACCAAC
66 AGCATTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCAAC
** * * * * *
17257814 TGTAGCAAAAAAGCATCCACGTGGGCACGATTTAAAAAATTCTTCTGATAAAGCATCATGCTT
1 TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
17257877 TGATTTTATC
Statistics
Matches: 285, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
124 63 0.22
125 146 0.51
126 76 0.27
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
AGCATTTTTTATACTATTCGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCAAC
Found at i:17258037 original size:21 final size:22
Alignment explanation
Indices: 17257994--17258039 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17257984 ATTTCTCTAA
* *
17257994 AACCCTAAAAACCTTAAACCCT
1 AACCCTAAAAACCTCAAAACCT
*
17258016 AACCCTAAAAGCC-CAAAACCT
1 AACCCTAAAAACCTCAAAACCT
17258037 AAC
1 AAC
17258040 GTGGAGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.37, G:0.02, T:0.13
Consensus pattern (22 bp):
AACCCTAAAAACCTCAAAACCT
Found at i:17258305 original size:28 final size:29
Alignment explanation
Indices: 17258240--17258305 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
17258230 ATTTTTGGGG
*
17258240 AAAAAGGGCCCATTCCGGTAAATAATAAA
1 AAAAAGGGCCCATTCCGATAAATAATAAA
* ** * *
17258269 ATACCGGGCCCATTTCGATAAAT-TTAAA
1 AAAAAGGGCCCATTCCGATAAATAATAAA
17258297 AAAAAGGGC
1 AAAAAGGGC
17258306 TTTTTTTGGT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (29 bp):
AAAAAGGGCCCATTCCGATAAATAATAAA
Found at i:17259975 original size:76 final size:76
Alignment explanation
Indices: 17259826--17260100 Score: 273
Period size: 74 Copynumber: 3.7 Consensus size: 76
17259816 TAAAAAAAAT
* *
17259826 TATTGTAT-TTTACATCAATAATATA-A-TTATTTACAGTCTACAAAAAAAATTTAAAAATTGTT
1 TATTGTATCTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAAA-TTAAAAATTGTT
* *
17259888 TGTTTTATATTC
65 TGTATTGTATTC
* * * **
17259900 TATTGTAT-TTTATATCAATAATATATACTTATTTACAATCTATGAAAACAATTAAAGTTTTGTT
1 TATTGTATCTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAAATTAAA-AATTGTT
17259964 TGTATTGTATTC
65 TGTATTGTATTC
* * *
17259976 TATCGTATGCCTTT---TCAAT-A-ATATACTTATTTACAATCAACGAAAAAAATGAAAAAAATT
1 TATTGTAT--CTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAAAT--TAAAAATT
*
17260036 GTTTATATTGTATTC
62 GTTTGTATTGTATTC
* * * *
17260051 TACTAT-TCTTTACATCAATAATATATACTTATTTACAATTTACCAAAAAA
1 TATTGTATCTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAA
17260101 TGAGAAGTAA
Statistics
Matches: 165, Mismatches: 23, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
72 4 0.02
74 52 0.32
75 31 0.19
76 50 0.30
77 25 0.15
79 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.44
Consensus pattern (76 bp):
TATTGTATCTTTACATCAATAATATATACTTATTTACAATCTACGAAAAAAATTAAAAATTGTTT
GTATTGTATTC
Found at i:17260136 original size:4 final size:4
Alignment explanation
Indices: 17260127--17260160 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
17260117 AATGAACAAA
*
17260127 TTGT TTGT TTGT TTGT TTGT TTGT TTGT ATGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
17260161 ATAAAAAAAT
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:0.03, C:0.00, G:0.24, T:0.74
Consensus pattern (4 bp):
TTGT
Found at i:17262926 original size:110 final size:111
Alignment explanation
Indices: 17262720--17262940 Score: 426
Period size: 110 Copynumber: 2.0 Consensus size: 111
17262710 TAAATTTAAT
*
17262720 TGCAACCACTGAAGCGATTTAATCTTCTGCATGTTATTTGAGAGATTTTTTATTGTTAAATTTGT
1 TGCAACCACTGAAGCGATTTAATCTTCTGCATGTTATTTGAGAGATTTTTTATGGTTAAATTTGT
17262785 TTTAGTAGTTTAGTTTTTATTTTACAATCTTAAGTTTTGTAATATG
66 TTTAGTAGTTTAGTTTTTATTTTACAATCTTAAGTTTTGTAATATG
17262831 TGCAACCACTGAAGCGATTTAATCTTCTGCATGTTATTTGAGAGA-TTTTTATGGTTAAATTTGT
1 TGCAACCACTGAAGCGATTTAATCTTCTGCATGTTATTTGAGAGATTTTTTATGGTTAAATTTGT
17262895 TTTAGTAGTTTAGTTTTTATTTTACAATCTTAAGTTTTGTAATATG
66 TTTAGTAGTTTAGTTTTTATTTTACAATCTTAAGTTTTGTAATATG
17262941 ATTTTTAGTG
Statistics
Matches: 109, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 64 0.59
111 45 0.41
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (111 bp):
TGCAACCACTGAAGCGATTTAATCTTCTGCATGTTATTTGAGAGATTTTTTATGGTTAAATTTGT
TTTAGTAGTTTAGTTTTTATTTTACAATCTTAAGTTTTGTAATATG
Found at i:17263188 original size:84 final size:84
Alignment explanation
Indices: 17263077--17263245 Score: 322
Period size: 84 Copynumber: 2.0 Consensus size: 84
17263067 TTTGACCTTT
17263077 TCACTTGTAGATACTGCGCTTATTTTTTATATTTTTATTTGCATGA-TTTTTACTCTAAACGTTC
1 TCACTTGTAGATACTGCGCTTATTTTTTATATTTTTATTTGCATGATTTTTTA-TCTAAACGTTC
17263141 GCATGTTTGGAGGTAGTCAC
65 GCATGTTTGGAGGTAGTCAC
17263161 TCACTTGTAGATACTGCGCTTATTTTTTATATTTTTATTTGCATGATTTTTTATCTAAACGTTCG
1 TCACTTGTAGATACTGCGCTTATTTTTTATATTTTTATTTGCATGATTTTTTATCTAAACGTTCG
17263226 CATGTTTGGAGGTAGTCAC
66 CATGTTTGGAGGTAGTCAC
17263245 T
1 T
17263246 TACAGTATCG
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 78 0.93
85 6 0.07
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (84 bp):
TCACTTGTAGATACTGCGCTTATTTTTTATATTTTTATTTGCATGATTTTTTATCTAAACGTTCG
CATGTTTGGAGGTAGTCAC
Found at i:17263367 original size:90 final size:89
Alignment explanation
Indices: 17263209--17263386 Score: 338
Period size: 90 Copynumber: 2.0 Consensus size: 89
17263199 TTGCATGATT
*
17263209 TTTTATCTAAACGTTCGCATGTTTGGAGGTAGTCACTTACAGTATCGGAATGTTGCTATACATGG
1 TTTTATCTAAACGTTCGCATGTTTGGAGGTAGTCACTTACAGTACCGGAATGTTGCTATACATGG
17263274 CTTGAATGTCCAAAAAAATACGAC
66 CTTGAATGTCCAAAAAAATACGAC
17263298 TTTTACTCTAAACGTTCGCATGTTTGGAGGTAGTCACTTACAGTACCGGAATGTTGCTATACATG
1 TTTTA-TCTAAACGTTCGCATGTTTGGAGGTAGTCACTTACAGTACCGGAATGTTGCTATACATG
17263363 GCTTGAATGTCCAAAAAAATACGA
65 GCTTGAATGTCCAAAAAAATACGA
17263387 TTTACAGTAC
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 5 0.06
90 82 0.94
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (89 bp):
TTTTATCTAAACGTTCGCATGTTTGGAGGTAGTCACTTACAGTACCGGAATGTTGCTATACATGG
CTTGAATGTCCAAAAAAATACGAC
Found at i:17263415 original size:53 final size:53
Alignment explanation
Indices: 17263335--17263437 Score: 206
Period size: 53 Copynumber: 1.9 Consensus size: 53
17263325 AGGTAGTCAC
17263335 TTACAGTACCGGAATGTTGCTATACATGGCTTGAATGTCCAAAAAAATACGAT
1 TTACAGTACCGGAATGTTGCTATACATGGCTTGAATGTCCAAAAAAATACGAT
17263388 TTACAGTACCGGAATGTTGCTATACATGGCTTGAATGTCCAAAAAAATAC
1 TTACAGTACCGGAATGTTGCTATACATGGCTTGAATGTCCAAAAAAATAC
17263438 AATGGAAAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (53 bp):
TTACAGTACCGGAATGTTGCTATACATGGCTTGAATGTCCAAAAAAATACGAT
Found at i:17263879 original size:122 final size:122
Alignment explanation
Indices: 17263662--17263904 Score: 477
Period size: 122 Copynumber: 2.0 Consensus size: 122
17263652 CCTTGATGTT
17263662 TTCCAACTTTCAACCAAATGATCTTCTTTGCTATTCTCGTACCATGAAATCCTTCGAGTGTGGGC
1 TTCCAACTTTCAACCAAATGATCTTCTTTGCTATTCTCGTACCATGAAATCCTTCGAGTGTGGGC
*
17263727 TAGAACCAATTGAACTAAAACACATGACTAGTAAAAGTTTTCTTTTTGGGGTGAAAG
66 TAGAACCAATTGAACTAAAACACATGACTAGAAAAAGTTTTCTTTTTGGGGTGAAAG
17263784 TTCCAACTTTCAACCAAATGATCTTCTTTGCTATTCTCGTACCATGAAATCCTTCGAGTGTGGGC
1 TTCCAACTTTCAACCAAATGATCTTCTTTGCTATTCTCGTACCATGAAATCCTTCGAGTGTGGGC
17263849 TAGAACCAATTGAACTAAAACACATGACTAGAAAAAGTTTTCTTTTTGGGGTGAAA
66 TAGAACCAATTGAACTAAAACACATGACTAGAAAAAGTTTTCTTTTTGGGGTGAAA
17263905 AAAATTCTTC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (122 bp):
TTCCAACTTTCAACCAAATGATCTTCTTTGCTATTCTCGTACCATGAAATCCTTCGAGTGTGGGC
TAGAACCAATTGAACTAAAACACATGACTAGAAAAAGTTTTCTTTTTGGGGTGAAAG
Found at i:17263961 original size:76 final size:76
Alignment explanation
Indices: 17263830--17263981 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
17263820 TCGTACCATG
17263830 AAATCCTTCGAGTGTGGGCTAGAACCAATTGAACTAAAACACATGACTAGAAAAAGTTTTCTTTT
1 AAATCCTTCGAGTGTGGGCTAGAACCAATTGAACTAAAACACATGACTAGAAAAAGTTTTCTTTT
*
17263895 TGGGGTGAAAA
66 TGAGGTGAAAA
*
17263906 AAATTCTTCGAGTGTGGGCTAGAACCAATTGAACTAAAACACATGACTAGAAAAAGTTTTCTTTT
1 AAATCCTTCGAGTGTGGGCTAGAACCAATTGAACTAAAACACATGACTAGAAAAAGTTTTCTTTT
17263971 TGAGGTGAAAA
66 TGAGGTGAAAA
17263982 CTGAAAGTCT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (76 bp):
AAATCCTTCGAGTGTGGGCTAGAACCAATTGAACTAAAACACATGACTAGAAAAAGTTTTCTTTT
TGAGGTGAAAA
Found at i:17265031 original size:143 final size:143
Alignment explanation
Indices: 17264773--17265056 Score: 532
Period size: 143 Copynumber: 2.0 Consensus size: 143
17264763 ATTGTATTTC
*
17264773 TACTAGGGTTGCAGTCCCCTATCATGTTATATGAGGGGTTTTGGGGCTCTCTCACATCGGGTCCA
1 TACTAGGGTTGCAGTCCCCCATCATGTTATATGAGGGGTTTTGGGGCTCTCTCACATCGGGTCCA
*
17264838 ATTATGAGTACTTCTTGGGCCTTTTTGACCAAGTACTCTGTAATATGATCCAACCCAATTCGGTT
66 ATTATGAGTACTTCTTGGGCCTTTTTGACCAAGTACTCTGCAATATGATCCAACCCAATTCGGTT
17264903 TTTCTATTTCCTA
131 TTTCTATTTCCTA
*
17264916 TACTAGGGTTGCAGTCCCCCATCATGTTATATGAGGGGTTTTGGGGCTTTCTCACATCGGGTCCA
1 TACTAGGGTTGCAGTCCCCCATCATGTTATATGAGGGGTTTTGGGGCTCTCTCACATCGGGTCCA
*
17264981 ATTATGAGTTCTTCTTGGGCCTTTTTGACCAAGTACTCTGCAATATGATCCAACCCAATTCGGTT
66 ATTATGAGTACTTCTTGGGCCTTTTTGACCAAGTACTCTGCAATATGATCCAACCCAATTCGGTT
17265046 TTTCTATTTCC
131 TTTCTATTTCC
17265057 CAAAATAAAC
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 137 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (143 bp):
TACTAGGGTTGCAGTCCCCCATCATGTTATATGAGGGGTTTTGGGGCTCTCTCACATCGGGTCCA
ATTATGAGTACTTCTTGGGCCTTTTTGACCAAGTACTCTGCAATATGATCCAACCCAATTCGGTT
TTTCTATTTCCTA
Found at i:17265159 original size:26 final size:25
Alignment explanation
Indices: 17265101--17265162 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
17265091 TTTCTTACTC
*
17265101 CAATTTTACCCTACTAAAATTTTGA
1 CAATTTTACCCTACTAAAATTTTAA
* * **
17265126 TAAATTTACCCTTGGTAAAATTTTAA
1 CAATTTTACCC-TACTAAAATTTTAA
17265152 CAATTTTACCC
1 CAATTTTACCC
17265163 CCAATAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (25 bp):
CAATTTTACCCTACTAAAATTTTAA
Found at i:17265343 original size:68 final size:68
Alignment explanation
Indices: 17265234--17265370 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
17265224 AATGATTTAT
* *
17265234 TTTCCTTTTTTGTCTTCAAAACAATCCAAAAACATAAACTCATTCTTCCATTATTTTTTAAGTAA
1 TTTCCTTTTTTGTCTTCAAAACAATCCAAAAACATAAACTCATTCTTCCATCATTTTTTAAATAA
17265299 TCC
66 TCC
17265302 TTTCCTTTTTTGTCTTCAAAACAATCCAAAAACATAAACTCATTCTTCCATCATTTTTTAAATAA
1 TTTCCTTTTTTGTCTTCAAAACAATCCAAAAACATAAACTCATTCTTCCATCATTTTTTAAATAA
17265367 TCC
66 TCC
17265370 T
1 T
17265371 ATATAGGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (68 bp):
TTTCCTTTTTTGTCTTCAAAACAATCCAAAAACATAAACTCATTCTTCCATCATTTTTTAAATAA
TCC
Found at i:17267319 original size:28 final size:28
Alignment explanation
Indices: 17267256--17267381 Score: 164
Period size: 28 Copynumber: 4.5 Consensus size: 28
17267246 ATATTAAGTC
*
17267256 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
17267283 CGCACACTTAGTACTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
17267311 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
17267339 TGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
17267368 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17267382 CAATCTCATG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.24
28 48 0.55
29 18 0.21
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17277369 original size:46 final size:46
Alignment explanation
Indices: 17277297--17277562 Score: 451
Period size: 46 Copynumber: 5.8 Consensus size: 46
17277287 TGAACCTTAG
* *
17277297 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
17277343 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
17277389 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
*
17277435 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * *
17277481 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * *
17277527 CCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17277563 GCGGGTTACA
Statistics
Matches: 211, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 211 1.00
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
Found at i:17280277 original size:37 final size:37
Alignment explanation
Indices: 17280218--17280356 Score: 206
Period size: 37 Copynumber: 3.8 Consensus size: 37
17280208 AGCTCGGACG
* * *
17280218 AAATCTCTACACGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
* **
17280255 AAATCTCCACACGTAGTCATCGGGTCTTACTCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
17280292 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
* *
17280329 TACTCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
17280357 TAGAGCTCGG
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 91 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
Found at i:17280304 original size:74 final size:74
Alignment explanation
Indices: 17280218--17280356 Score: 233
Period size: 74 Copynumber: 1.9 Consensus size: 74
17280208 AGCTCGGACG
* *
17280218 AAATCTCTACACGAAGTTATCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
17280283 ACTCGGGCA
66 ACTCGGGCA
* * *
17280292 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACATACTCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
17280357 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
ACTCGGGCA
Found at i:17280616 original size:25 final size:25
Alignment explanation
Indices: 17280587--17280713 Score: 76
Period size: 25 Copynumber: 5.3 Consensus size: 25
17280577 CCATTCGGCC
17280587 TCATCACACATACACATGTTCACAT
1 TCATCACACATACACATGTTCACAT
* * * *
17280612 TCATCACA-TTGGC-CA--TTCGGC-C
1 TCATCACACAT-ACACATGTTC-ACAT
17280634 TCATCACACATACACATGTTCACAT
1 TCATCACACATACACATGTTCACAT
* * * *
17280659 TCATCACA-TTGGC-CA--TTCGGC-C
1 TCATCACACAT-ACACATGTTC-ACAT
17280681 TCATCACACATACACATGTTCACAT
1 TCATCACACATACACATGTTCACAT
17280706 TCATCACA
1 TCATCACA
17280714 TTGGCCATTC
Statistics
Matches: 72, Mismatches: 16, Indels: 28
0.62 0.14 0.24
Matches are distributed among these distances:
22 24 0.33
23 8 0.11
24 8 0.11
25 32 0.44
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.28
Consensus pattern (25 bp):
TCATCACACATACACATGTTCACAT
Found at i:17281032 original size:273 final size:273
Alignment explanation
Indices: 17280539--17281055 Score: 964
Period size: 273 Copynumber: 1.9 Consensus size: 273
17280529 GCCATTCGGC
17280539 CTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACAT
1 CTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACAT
17280604 GTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATT
66 GTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATT
*
17280669 GGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
131 GGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTCATCA
* * *
17280734 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCA
196 CACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATATACACTTTCA
17280799 CATCCATCACATT
261 CATCCATCACATT
17280812 CTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACAT
1 CTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACAT
17280877 GTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATT
66 GTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATT
17280942 GGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTCATCA
131 GGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTCATCA
* *
17281007 CACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTCATCACA
196 CACATACACACT-TTCACATTCATCACATCGGCCATTAGGCCTCATCACA
17281056 CATACACATG
Statistics
Matches: 237, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
272 1 0.00
273 236 1.00
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.29
Consensus pattern (273 bp):
CTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACAT
GTTCACATTCATCACATTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATT
GGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTCATCA
CACATACACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATATACACTTTCA
CATCCATCACATT
Found at i:17281170 original size:47 final size:47
Alignment explanation
Indices: 17280526--17281149 Score: 970
Period size: 47 Copynumber: 13.5 Consensus size: 47
17280516 CTCGGCCCTG
17280526 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
17280573 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
17280620 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
17280667 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
* * *
17280714 TTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACA-TGTTCACATTCATCACA
* * * * * *
17280761 TCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATCCAT--CA
1 TTGGCCATTCGGCCTCATCAC--ACATACACA-TGTTCACATTCATCACA
17280808 -----CATT----CTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
17280846 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
17280893 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
17280940 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
17280987 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
17281034 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
* * *
17281081 TTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCACA
1 TTGGCCATTCGGCCTCATCACACATACACA-TGTTCACATTCATCACA
* * *
17281128 TCGGCCATTAGGCCTTATCACA
1 TTGGCCATTCGGCCTCATCACA
17281150 TATATACACT
Statistics
Matches: 546, Mismatches: 15, Indels: 32
0.92 0.03 0.05
Matches are distributed among these distances:
35 1 0.00
36 17 0.03
38 9 0.02
42 4 0.01
43 4 0.01
47 488 0.89
48 2 0.00
49 21 0.04
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (47 bp):
TTGGCCATTCGGCCTCATCACACATACACATGTTCACATTCATCACA
Found at i:17283503 original size:85 final size:85
Alignment explanation
Indices: 17283363--17283710 Score: 671
Period size: 85 Copynumber: 4.1 Consensus size: 85
17283353 TATTTTATTG
* *
17283363 CCCATGCCCTTTATTTTATTAATCCTTA-ATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCTCAACATGTTTATGACATGTTTT
17283427 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
17283447 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCTCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCTCAACATGTTTATGACATGTTTT
17283512 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
17283532 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCTCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCTCAACATGTTTATGACATGTTTT
17283597 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
17283617 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCTCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCTCAACATGTTTATGACATGTTTT
17283682 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
17283702 CCCATGCTC
1 CCCATGCTC
17283711 ATGGCCGGCC
Statistics
Matches: 261, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
84 27 0.10
85 234 0.90
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCTCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:17284408 original size:33 final size:33
Alignment explanation
Indices: 17284369--17284469 Score: 81
Period size: 33 Copynumber: 3.2 Consensus size: 33
17284359 ACTTAAAGAA
17284369 AAGAAAAAGGTAGAGGCTGAGACTAGAAATTGG
1 AAGAAAAAGGTAGAGGCTGAGACTAGAAATTGG
* * ** **
17284402 AAG-AAAAGACT-GA---TGAG-C-GGTTCATTAA
1 AAGAAAAAG-GTAGAGGCTGAGACTAG-AAATTGG
17284430 AAGAAAAAGGTAGAGGCTGAGACTAGAAATTGG
1 AAGAAAAAGGTAGAGGCTGAGACTAGAAATTGG
17284463 AAGAAAA
1 AAGAAAA
17284470 GACCAATGAG
Statistics
Matches: 47, Mismatches: 12, Indels: 18
0.61 0.16 0.23
Matches are distributed among these distances:
27 1 0.02
28 8 0.17
29 11 0.23
32 11 0.23
33 15 0.32
34 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.30, T:0.16
Consensus pattern (33 bp):
AAGAAAAAGGTAGAGGCTGAGACTAGAAATTGG
Found at i:17284434 original size:61 final size:61
Alignment explanation
Indices: 17284367--17284488 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
17284357 CTACTTAAAG
**
17284367 AAAAGAAAAAGGTAGAGGCTGAGACTAGAAATTGGAAGAAAAGACTGATGAGCGGTTCATT
1 AAAAGAAAAAGGTAGAGGCTGAGACTAGAAATTGGAAGAAAAGACCAATGAGCGGTTCATT
17284428 AAAAGAAAAAGGTAGAGGCTGAGACTAGAAATTGGAAGAAAAGACCAATGAGCGGTTCATT
1 AAAAGAAAAAGGTAGAGGCTGAGACTAGAAATTGGAAGAAAAGACCAATGAGCGGTTCATT
17284489 TTCACAGCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.45, C:0.09, G:0.29, T:0.17
Consensus pattern (61 bp):
AAAAGAAAAAGGTAGAGGCTGAGACTAGAAATTGGAAGAAAAGACCAATGAGCGGTTCATT
Found at i:17284685 original size:92 final size:92
Alignment explanation
Indices: 17284528--17284711 Score: 359
Period size: 92 Copynumber: 2.0 Consensus size: 92
17284518 TGAATCCTCG
17284528 TTCCCAAGCTTCAGCTAGGCAATCATATGGGAATTATATGAAGCAAAATGTGGGTCCTAAATCCC
1 TTCCCAAGCTTCAGCTAGGCAATCATATGGGAATTATATGAAGCAAAATGTGGGTCCTAAATCCC
*
17284593 AGACTACTTCGGCAGCCAGTGTAGGGA
66 AGACTACTTCGGCAGCCAGCGTAGGGA
17284620 TTCCCAAGCTTCAGCTAGGCAATCATATGGGAATTATATGAAGCAAAATGTGGGTCCTAAATCCC
1 TTCCCAAGCTTCAGCTAGGCAATCATATGGGAATTATATGAAGCAAAATGTGGGTCCTAAATCCC
17284685 AGACTACTTCGGCAGCCAGCGTAGGGA
66 AGACTACTTCGGCAGCCAGCGTAGGGA
17284712 ACTCGAGATT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (92 bp):
TTCCCAAGCTTCAGCTAGGCAATCATATGGGAATTATATGAAGCAAAATGTGGGTCCTAAATCCC
AGACTACTTCGGCAGCCAGCGTAGGGA
Found at i:17289749 original size:46 final size:46
Alignment explanation
Indices: 17289696--17289871 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
17289686 TGGTTGAGCA
17289696 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
17289742 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17289787 AATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17289835 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17289872 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17289854 original size:93 final size:93
Alignment explanation
Indices: 17289695--17289864 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
17289685 ATGGTTGAGC
* * *
17289695 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGCCCGAACTCGTTGAGTTG
17289760 AGTCCGAGTTCGTGAGATGTAACTAGGA
66 AGTCCGAGTTCGTGAGATGTAACTAGGA
*
17289788 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGCCCGAACTCGTTGAGTTG
17289853 AGTCCGAGTTCG
66 AGTCCGAGTTCG
17289865 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGA
Found at i:17293078 original size:47 final size:47
Alignment explanation
Indices: 17292079--17293074 Score: 1875
Period size: 47 Copynumber: 21.2 Consensus size: 47
17292069 ACAAGATATG
* * *
17292079 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292126 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292173 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292220 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292267 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292314 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292361 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292408 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292455 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292502 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292549 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292596 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292643 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292690 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292737 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292784 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292831 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292878 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
17292925 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * *
17292972 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * *
17293019 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
17293066 TAAATGTGA
1 TATATGTGA
17293075 TAAGTCCCGA
Statistics
Matches: 935, Mismatches: 14, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 935 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:17295043 original size:27 final size:27
Alignment explanation
Indices: 17295013--17295066 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
17295003 AATCAAGCTA
*
17295013 ATAGTGTGCCGAACCTAAGAACCCTTC
1 ATAGTGTGCCGAACCCAAGAACCCTTC
*
17295040 ATAGTGTGCCGAACCCAAGAACTCTTC
1 ATAGTGTGCCGAACCCAAGAACCCTTC
17295067 CATGGATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
ATAGTGTGCCGAACCCAAGAACCCTTC
Found at i:17297302 original size:10 final size:11
Alignment explanation
Indices: 17297287--17297349 Score: 53
Period size: 10 Copynumber: 6.0 Consensus size: 11
17297277 ATATTGATAT
*
17297287 ACATGATA-GG
1 ACATGATATGC
17297297 ACATGATATGC
1 ACATGATATGC
17297308 ACATGATATG-
1 ACATGATATGC
** *
17297318 TTATGATATGTT
1 ACATGATATG-C
17297330 AC--GATATGC
1 ACATGATATGC
17297339 ACATGATATGC
1 ACATGATATGC
17297350 TATGATATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
9 2 0.05
10 22 0.52
11 18 0.43
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:17297325 original size:31 final size:31
Alignment explanation
Indices: 17297281--17297356 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
17297271 CATGAGATAT
* *
17297281 TGATATAC-ATGATAGGACATGATATGCACA
1 TGATATGCTATGATAGGACACGATATGCACA
* * **
17297311 TGATATGTTATGATATGTTACGATATGCACA
1 TGATATGCTATGATAGGACACGATATGCACA
17297342 TGATATGCTATGATA
1 TGATATGCTATGATA
17297357 TACTCATTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 6 0.16
31 32 0.84
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (31 bp):
TGATATGCTATGATAGGACACGATATGCACA
Found at i:17297354 original size:10 final size:10
Alignment explanation
Indices: 17297299--17297357 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
17297289 ATGATAGGAC
*
17297299 ATGATATGCAC
1 ATGATATGC-T
*
17297310 ATGATATGTT
1 ATGATATGCT
*
17297320 ATGATATGTT
1 ATGATATGCT
* *
17297330 ACGATATGCAC
1 ATGATATGC-T
17297341 ATGATATGCT
1 ATGATATGCT
17297351 ATGATAT
1 ATGATAT
17297358 ACTCATTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
10 24 0.60
11 16 0.40
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (10 bp):
ATGATATGCT
Found at i:17303057 original size:40 final size:40
Alignment explanation
Indices: 17303002--17303122 Score: 188
Period size: 40 Copynumber: 3.0 Consensus size: 40
17302992 AGAATTGAGA
17303002 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
17303042 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* ** * * *
17303082 GTTACATATGGGCTAAGTCCTGAAGGGCATTCGTGCCGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
17303122 G
1 G
17303123 ATGTGTAATC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:17303181 original size:43 final size:43
Alignment explanation
Indices: 17303111--17303241 Score: 190
Period size: 43 Copynumber: 3.0 Consensus size: 43
17303101 CTGAAGGGCA
* * *
17303111 TTCGTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* * *
17303154 TTTGTGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* *
17303197 TTCGTGCCGGTGATGTGTATTTGGGTCTTCGTGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
17303240 TT
1 TT
17303242 AATACCGGTG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.11, C:0.22, G:0.32, T:0.34
Consensus pattern (43 bp):
TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
Found at i:17303411 original size:25 final size:25
Alignment explanation
Indices: 17303372--17303426 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
17303362 TGTGTAATAA
17303372 CGAATGAATATAGGCACTATGGGTG
1 CGAATGAATATAGGCACTATGGGTG
* *
17303397 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGCACTATGGGTG
17303422 CGAAT
1 CGAAT
17303427 TCTTTAACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGGGTG
Found at i:17303442 original size:53 final size:53
Alignment explanation
Indices: 17303385--17303508 Score: 178
Period size: 53 Copynumber: 2.3 Consensus size: 53
17303375 ATGAATATAG
* * *
17303385 GCACTATGGGTGCGA-ATGAATTGAGGCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAGAT-AAGTCAGGCACTGTGTGTGCGAATTCTTTAACCGA
* *
17303438 GCACTATGTGTGCGAGATAGGTCAGGCACTGTGTGTGCGAATTCTTTAATCGA
1 GCACTATGTGTGCGAGATAAGTCAGGCACTGTGTGTGCGAATTCTTTAACCGA
*
17303491 GCAATATGTGTGCGAGAT
1 GCACTATGTGTGCGAGAT
17303509 CGGTCAGTGG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 62 0.97
54 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (53 bp):
GCACTATGTGTGCGAGATAAGTCAGGCACTGTGTGTGCGAATTCTTTAACCGA
Found at i:17303447 original size:28 final size:28
Alignment explanation
Indices: 17303410--17303505 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 28
17303400 ATGAATTGAG
*
17303410 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
*** *
17303438 GCACTATGTGTGCGAGA-TAGGT--CAG-
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* *
17303463 GCACTGTGTGTGCGAATTCTTTAATCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
*
17303491 GCAATATGTGTGCGA
1 GCACTATGTGTGCGA
17303506 GATCGGTCAG
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
24 1 0.02
25 16 0.32
26 2 0.04
27 1 0.02
28 29 0.58
29 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:17303514 original size:53 final size:53
Alignment explanation
Indices: 17303408--17303515 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
17303398 GAATGAATTG
*
17303408 AGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATAGGTC
1 AGGCACTGTGTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATAGGTC
* *
17303461 AGGCACTGTGTGTGCGAATTCTTTAATCGAGCAATATGTGTGCGAGATCGGTC
1 AGGCACTGTGTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATAGGTC
17303514 AG
1 AG
17303516 TGGGCAATGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (53 bp):
AGGCACTGTGTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATAGGTC
Found at i:17316530 original size:45 final size:45
Alignment explanation
Indices: 17316431--17316557 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
17316421 TTTTCTCAAA
* * *
17316431 TCACCGGCATT-TCGCCTGTTAGGCTC-GAGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATCAGT
*
17316473 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA-TCAGT
** *
17316517 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
17316558 ATCAAGTCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 10 0.14
43 13 0.18
44 8 0.11
45 40 0.56
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATCAGT
Found at i:17316942 original size:43 final size:43
Alignment explanation
Indices: 17316890--17317062 Score: 251
Period size: 43 Copynumber: 4.1 Consensus size: 43
17316880 GCATTACGCT
*
17316890 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCC
* * *
17316933 TGCCAGGCACGAAGGCTCGAATACACATCACCAGCACTAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCC
*
17316976 TGCTAGGCACGAATGCCCGAATACACATCACCGGCACTAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCC
* * * *
17317019 TGCTAGGCACGAAGGCCTGAATATA-AT-ACCAGCACTAGGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCC
17317060 TGC
1 TGC
17317063 GGGATTTATC
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
41 15 0.13
42 2 0.02
43 100 0.85
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCC
Found at i:17317088 original size:38 final size:38
Alignment explanation
Indices: 17317039--17317113 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
17317029 GAAGGCCTGA
* * *
17317039 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
17317077 ATATAATACCAGCACGAAGCCTGCTGGATTTAACCCG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
17317114 AATACACATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:17319838 original size:20 final size:21
Alignment explanation
Indices: 17319799--17319838 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
17319789 AAGGGCTATT
*
17319799 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTGTGTAAAATAAG
*
17319820 TTGTAAA-TGTGTGAAATAA
1 TTGTAAAGTGTGTAAAATAA
17319839 TTAAAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (21 bp):
TTGTAAAGTGTGTAAAATAAG
Found at i:17320650 original size:49 final size:49
Alignment explanation
Indices: 17320593--17320768 Score: 189
Period size: 49 Copynumber: 3.6 Consensus size: 49
17320583 GACATGTATT
*
17320593 AGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATATATGAGAGCC
* * * * * **
17320642 AGTGTAAGACCTGCCTGGGACATGGCATTGGC-CTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACAC-CGATATATGAGAGCC
** *
17320691 AGTGTAAGACCTGTCTAGGACATGGCATC-A-ACTTAGATATGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATATATGAGAGCC
*
17320738 AGTGTAAGACCATGT-TTGGAACATGGCATCG
1 AGTGTAAGACC-TGTCTAGG-ACATGGCATCG
17320769 GCATCGTACC
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
47 23 0.22
48 15 0.15
49 65 0.63
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATATATGAGAGCC
Found at i:17320660 original size:93 final size:95
Alignment explanation
Indices: 17320504--17320748 Score: 268
Period size: 93 Copynumber: 2.6 Consensus size: 95
17320494 GTGTGTGCTG
* * * * * *
17320504 GTGTAAGACATGTCTAGGACAT-GCATTAGCC-ACATTATGAGAGCCAGTGTAAGACCTATCTGG
1 GTGTAAGACCTGTCTAGGACATGGCATCAACCGAGA-GATGAGAGCCAGTGTAAGACCTACCTGG
* * *
17320567 GACATGGCGTCGG-CTTG-ACATG-TA-TTA
65 GACATGGCATCGGCCTCGAACATGAAAGTTA
* *
17320594 GTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACCTGCCTG
1 GTGTAAGACCTGTCTAGGACATGGCATC-A-ACCGAGAGATGAGAGCCAGTGTAAGACCTACCTG
* *
17320659 GGACATGGCATTGGCCTCGATATATGAAAGTTA
64 GGACATGGCATCGGCCTCGA-ACATGAAAGTTA
** *
17320692 GTGTAAGACCTGTCTAGGACATGGCATCAACTTAGATATGAGAGCCAGTGTAAGACC
1 GTGTAAGACCTGTCTAGGACATGGCATCAACCGAGAGATGAGAGCCAGTGTAAGACC
17320749 ATGTTTGGAA
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
90 21 0.16
91 4 0.03
92 1 0.01
93 38 0.29
94 5 0.04
96 28 0.22
97 2 0.02
98 31 0.24
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (95 bp):
GTGTAAGACCTGTCTAGGACATGGCATCAACCGAGAGATGAGAGCCAGTGTAAGACCTACCTGGG
ACATGGCATCGGCCTCGAACATGAAAGTTA
Found at i:17326623 original size:11 final size:10
Alignment explanation
Indices: 17326586--17326621 Score: 56
Period size: 9 Copynumber: 3.6 Consensus size: 10
17326576 AAACAAATCA
17326586 TAAAAACTATT
1 TAAAAA-TATT
17326597 TAAAAAT-TT
1 TAAAAATATT
17326606 TAAAAATATT
1 TAAAAATATT
17326616 TAAAAA
1 TAAAAA
17326622 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 9 0.38
11 6 0.25
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAAATATT
Done.