Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 54 of 356
Found at i:17648482 original size:14 final size:14
Alignment explanation
Indices: 17648465--17648496 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
17648455 GTTGAAGCAG
17648465 AAATGTGTGGGCAA
1 AAATGTGTGGGCAA
17648479 AAATGTGTGGGCAA
1 AAATGTGTGGGCAA
17648493 AAAT
1 AAAT
17648497 ATAGATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.31, T:0.22
Consensus pattern (14 bp):
AAATGTGTGGGCAA
Found at i:17658070 original size:12 final size:12
Alignment explanation
Indices: 17658048--17658096 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
17658038 CCGTCAGACC
17658048 AATAA-TAATTA
1 AATAATTAATTA
17658059 AATAATTAATTA
1 AATAATTAATTA
*
17658071 AA-AATTATAATA
1 AATAATTA-ATTA
*
17658083 AA-AATTTATTA
1 AATAATTAATTA
17658094 AAT
1 AAT
17658097 TGGTTCAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 15 0.47
12 17 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATAATTAATTA
Found at i:17659658 original size:151 final size:150
Alignment explanation
Indices: 17659385--17659689 Score: 502
Period size: 151 Copynumber: 2.0 Consensus size: 150
17659375 TTGAGGGTAC
* * * *
17659385 TTTAGTATTTTTATTTTAATAAAAACCAATAAAAATATACATATAGTAGGATTTGAACTCATGCT
1 TTTAGTATTTTAATTTTAATAAAAACCAATAAAAATATACATATAATAGGAGTTGAACTCACGCT
* *
17659450 AATTAAATTAATAAGATCTTAAATTTACCATTCAACTAAAGTTTCATTTTATTATTTTCGTATGT
66 AATTAAATTAATAAGATCTTAAATTTACCATTCAACTAAAATTTCATTTTATTATTTTCATATGT
*
17659515 TTTTAAATTACTATGCACAA
131 TTTTAAATTACTACGCACAA
* *
17659535 TTTAGTCTTTTAATTTTAATAAAAACCAATAAAAAATATACATATAATAGGAGTTGAATTCACGC
1 TTTAGTATTTTAATTTTAATAAAAACCAAT-AAAAATATACATATAATAGGAGTTGAACTCACGC
*
17659600 TAATTAAATTAATAATATCTTAAATTTACCATTCAACTAAAATTTCATTTTATTATTTTCATATG
65 TAATTAAATTAATAAGATCTTAAATTTACCATTCAACTAAAATTTCATTTTATTATTTTCATATG
*
17659665 TTTTTAAATTACTACGCACGA
130 TTTTTAAATTACTACGCACAA
17659686 TTTA
1 TTTA
17659690 TTACTTTGTC
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
150 28 0.20
151 115 0.80
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (150 bp):
TTTAGTATTTTAATTTTAATAAAAACCAATAAAAATATACATATAATAGGAGTTGAACTCACGCT
AATTAAATTAATAAGATCTTAAATTTACCATTCAACTAAAATTTCATTTTATTATTTTCATATGT
TTTTAAATTACTACGCACAA
Found at i:17661371 original size:14 final size:14
Alignment explanation
Indices: 17661333--17661373 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
17661323 TTATTATTAA
*
17661333 AATAGTTATAATTT
1 AATAGTTAAAATTT
17661347 AAT--TT-AAATTT
1 AATAGTTAAAATTT
17661358 AATAGTTAAAATTT
1 AATAGTTAAAATTT
17661372 AA
1 AA
17661374 CTTAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 2 0.09
14 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (14 bp):
AATAGTTAAAATTT
Found at i:17663668 original size:6 final size:6
Alignment explanation
Indices: 17663659--17663687 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
17663649 CTTTCCTCTC
17663659 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
17663688 CTCTTGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:17667625 original size:22 final size:23
Alignment explanation
Indices: 17667574--17667622 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
17667564 ATGAAATAGC
17667574 AAAATAGTGAAAAAACAACAAAA
1 AAAATAGTGAAAAAACAACAAAA
*
17667597 AAAATAGT-AACAAAACAATAAAA
1 AAAATAGTGAA-AAAACAACAAAA
17667620 AAA
1 AAA
17667623 TAGGAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.76, C:0.08, G:0.06, T:0.10
Consensus pattern (23 bp):
AAAATAGTGAAAAAACAACAAAA
Found at i:17667634 original size:23 final size:23
Alignment explanation
Indices: 17667574--17667643 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
17667564 ATGAAATAGC
17667574 AAAATAGTGAAAAAACAAC-A-AAA
1 AAAATAG-GAAAAAA-AACAATAAA
* *
17667597 AAAATA-GTAACAAAACAATAAA
1 AAAATAGGAAAAAAAACAATAAA
*
17667619 AAAATAGGAAGAAAAAAAAATAAA
1 AAAATAGGAA-AAAAAACAATAAA
17667643 A
1 A
17667644 GTTTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.08
21 6 0.16
22 9 0.24
23 8 0.21
24 12 0.32
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.10
Consensus pattern (23 bp):
AAAATAGGAAAAAAAACAATAAA
Found at i:17667643 original size:22 final size:21
Alignment explanation
Indices: 17667574--17667643 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
17667564 ATGAAATAGC
17667574 AAAATAGTGAAAAAACAACAAAA
1 AAAATAG-GAAAAAACAA-AAAA
* *
17667597 AAAATAGTAACAAAACAATAAA
1 AAAATAGGAA-AAAACAAAAAA
*
17667619 AAAATAGGAAGAAAA-AAAAAT
1 AAAATAGGAA-AAAACAAAAAA
17667640 AAAA
1 AAAA
17667644 GTTTTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 8 0.20
22 18 0.45
23 14 0.35
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.10
Consensus pattern (21 bp):
AAAATAGGAAAAAACAAAAAA
Found at i:17669163 original size:50 final size:50
Alignment explanation
Indices: 17669039--17669282 Score: 283
Period size: 50 Copynumber: 4.7 Consensus size: 50
17669029 GATAATAACA
* * ** * *
17669039 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
17669090 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
17669140 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
17669190 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
*
17669245 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA
17669283 TCCCTTTACC
Statistics
Matches: 166, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.55
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 35 0.21
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:17669217 original size:100 final size:105
Alignment explanation
Indices: 17669038--17669285 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 105
17669028 TGATAATAAC
**
17669038 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
* *
17669103 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
17669140 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCATGCCAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGAT-GGTGCCCATGCCAT
17669202 GTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
17669245 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCC
17669286 CTTTACCCAA
Statistics
Matches: 131, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 36 0.27
107 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.25
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:17669403 original size:13 final size:13
Alignment explanation
Indices: 17669382--17669413 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17669372 GCTTGGATCA
*
17669382 TCATCAAATAAAT
1 TCATAAAATAAAT
17669395 TCATAAAATAAAT
1 TCATAAAATAAAT
17669408 TCATAA
1 TCATAA
17669414 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17669660 original size:30 final size:30
Alignment explanation
Indices: 17669625--17669682 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17669615 CCTCGACTCT
*
17669625 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
17669655 AACTTTTACATAATTATATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
17669683 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:17677366 original size:55 final size:55
Alignment explanation
Indices: 17677282--17677430 Score: 253
Period size: 55 Copynumber: 2.7 Consensus size: 55
17677272 ATATTAAGTC
* * *
17677282 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
17677337 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
17677392 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGT
17677431 ACTGCACAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:17677429 original size:27 final size:27
Alignment explanation
Indices: 17677282--17677430 Score: 235
Period size: 27 Copynumber: 5.4 Consensus size: 27
17677272 ATATTAAGTC
* * *
17677282 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
17677309 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
17677337 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
17677364 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
17677392 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
17677419 CGCACACTTAGT
1 CGCACACTTAGT
17677431 ACTGCACAAT
Statistics
Matches: 116, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 63 0.54
28 53 0.46
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:17679945 original size:50 final size:50
Alignment explanation
Indices: 17679821--17680064 Score: 283
Period size: 50 Copynumber: 4.7 Consensus size: 50
17679811 GATAATAACA
* * ** * *
17679821 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
17679872 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
17679922 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
17679972 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
*
17680027 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA
17680065 TCCCTTTACC
Statistics
Matches: 166, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.55
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 35 0.21
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:17679999 original size:100 final size:105
Alignment explanation
Indices: 17679820--17680067 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 105
17679810 TGATAATAAC
**
17679820 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
* *
17679885 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
17679922 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCATGCCAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGAT-GGTGCCCATGCCAT
17679984 GTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
17680027 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCC
17680068 CTTTACCCAA
Statistics
Matches: 131, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 36 0.27
107 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.25
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:17680185 original size:13 final size:13
Alignment explanation
Indices: 17680164--17680195 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17680154 GCTTGGATCA
*
17680164 TCATCAAATAAAT
1 TCATAAAATAAAT
17680177 TCATAAAATAAAT
1 TCATAAAATAAAT
17680190 TCATAA
1 TCATAA
17680196 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17680442 original size:30 final size:30
Alignment explanation
Indices: 17680407--17680464 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17680397 CCTCGACTCT
*
17680407 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
17680437 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
17680465 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:17688908 original size:54 final size:57
Alignment explanation
Indices: 17688801--17688908 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 57
17688791 AAGGTAAAAT
**
17688801 TACATTATTTTGATAAATGTTCACCTTTTTTAAAGTTAAAAATCAAAACCATTAAAC
1 TACATTATTTTGATAAATGTTCACCTTCATTAAAGTTAAAAATCAAAACCATTAAAC
* *
17688858 TACATTGTTTTGATAAATGTTTA-C-TCATT-AAGTTAAAAGA-CAAAACCATTA
1 TACATTATTTTGATAAATGTTCACCTTCATTAAAGTTAAAA-ATCAAAACCATTA
17688909 TATTGTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
54 20 0.43
55 4 0.09
56 1 0.02
57 21 0.46
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (57 bp):
TACATTATTTTGATAAATGTTCACCTTCATTAAAGTTAAAAATCAAAACCATTAAAC
Found at i:17690594 original size:3 final size:3
Alignment explanation
Indices: 17690573--17690648 Score: 73
Period size: 3 Copynumber: 25.7 Consensus size: 3
17690563 ATTAAAATTA
* * * * *
17690573 ATT ATT TTT ATT TTT ATT ATT AAT ATT ATT ATT ATT ACT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
17690621 -GT ATT ACT ATT ATT ATT ATC ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17690649 ATTTTCTTTT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
2 1 0.02
3 55 0.98
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:17690627 original size:17 final size:17
Alignment explanation
Indices: 17690605--17690637 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17690595 ATATTATTAT
17690605 TATTACTATTACTATTG
1 TATTACTATTACTATTG
*
17690622 TATTACTATTATTATT
1 TATTACTATTACTATT
17690638 ATCATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTACTATTACTATTG
Found at i:17693508 original size:15 final size:15
Alignment explanation
Indices: 17693488--17693517 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17693478 TAAAAACAAC
*
17693488 AAAAAAAAGTAAAGT
1 AAAAAAAACTAAAGT
17693503 AAAAAAAACTAAAGT
1 AAAAAAAACTAAAGT
17693518 TACTTAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAAAAAACTAAAGT
Found at i:17694516 original size:115 final size:114
Alignment explanation
Indices: 17694260--17694607 Score: 608
Period size: 115 Copynumber: 3.0 Consensus size: 114
17694250 ATATAAATTG
*
17694260 TTTTATTAGTAATTTAAGATTAGGTTAAATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG
*
17694325 TATTGT-AATTTTTTTAGTAATATATTTTAAAAAATAATTTTATAGCTA
66 TATTGTGATTTTTTTTAGTAATATATTTTAAAAAATAATTTTATAGCTA
*
17694373 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGAATTAGTG
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG
17694438 TATTGTGATTTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
66 TATTGTGATTTTTTTTAGTAATATATTTT-AAAAAATAATTTTATAGCTA
*
17694488 TTTTATTAGTAATTTAAGATTAGGTTATATATATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAG
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTGTATTAG
* *
17694553 TGTATTGTGATTTTTTTTAGTAATGTATTTTAAAAAATAATTTTATAGTTA
64 TGTATTGTGATTTTTTTTAGTAATATATTTTAAAAAATAATTTTATAGCTA
17694604 TTTT
1 TTTT
17694608 GTGTTAGTAT
Statistics
Matches: 224, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
113 69 0.31
114 21 0.09
115 73 0.33
116 23 0.10
117 38 0.17
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.52
Consensus pattern (114 bp):
TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG
TATTGTGATTTTTTTTAGTAATATATTTTAAAAAATAATTTTATAGCTA
Found at i:17699777 original size:108 final size:108
Alignment explanation
Indices: 17699583--17699831 Score: 374
Period size: 108 Copynumber: 2.3 Consensus size: 108
17699573 CTAATTAATA
*
17699583 TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTAGTTTAACAAAACAATAATATGTTAAGCTG
1 TTGTTAATTACTCTGAT-AAATTTTT----TGATTAGTTTAACAAAACAATAATATGTTAAGCTG
17699648 TGACAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
61 TGACAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
* * * * *
17699696 TTGTTAATTACTTTGATAAATTTTTTGATTAGTTTAACAAAATAATGATATGTTAAGTTG-GAAT
1 TTGTTAATTACTCTGATAAATTTTTTGATTAGTTTAACAAAACAATAATATGTTAAGCTGTG-AC
17699760 AAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
65 AAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
*
17699804 TTGTTAATTACTCTGATAAAATTTTTGA
1 TTGTTAATTACTCTGATAAATTTTTTGA
17699832 CGTGTTTTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
107 1 0.01
108 102 0.80
112 8 0.06
113 16 0.13
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.43
Consensus pattern (108 bp):
TTGTTAATTACTCTGATAAATTTTTTGATTAGTTTAACAAAACAATAATATGTTAAGCTGTGACA
AGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
Found at i:17700913 original size:32 final size:33
Alignment explanation
Indices: 17700860--17700924 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
17700850 TTTATTTCAT
*
17700860 TTTATTAATATAATTATACTACAGTAGTTCAAA
1 TTTATTAATATAATTATACTACAGTAGCTCAAA
17700893 TTTATTAATAT-ATTATACTACAGTAGCTCAAA
1 TTTATTAATATAATTATACTACAGTAGCTCAAA
17700925 ATATACATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (33 bp):
TTTATTAATATAATTATACTACAGTAGCTCAAA
Found at i:17711657 original size:50 final size:51
Alignment explanation
Indices: 17711580--17711708 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
17711570 GACCATGGCA
* *
17711580 ACAAGTGATAAGTGATAGCTTCGGCTACTCTTATCTGATCAAAGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
*
17711631 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
* *
17711681 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
17711709 CTAATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
Found at i:17711722 original size:31 final size:31
Alignment explanation
Indices: 17711684--17711801 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
17711674 ACAAATGACA
*
17711684 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
17711715 AGTGAAAAGTTGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
17711746 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
17711777 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
17711802 AAGTGACAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:17711975 original size:49 final size:49
Alignment explanation
Indices: 17711823--17712041 Score: 187
Period size: 47 Copynumber: 4.7 Consensus size: 49
17711813 GATTTCCGTA
* * * * * * *
17711823 TAAGACCATATCTGGGATATGGCGTCG--GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-GTG
* * * *
17711870 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
*
17711916 TAAGTCCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
* *
17711965 TAAGACCATAGCTGGGCTATGGCATCGATA--T-ATA----AATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
*
17712007 TAAGACCATAGCTGGGCTATGACATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
17712042 AGATGTGTAA
Statistics
Matches: 149, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 33 0.22
44 1 0.01
45 1 0.01
46 28 0.19
47 38 0.26
48 14 0.09
49 33 0.22
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (49 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
Found at i:17712009 original size:42 final size:42
Alignment explanation
Indices: 17711962--17712059 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 42
17711952 ATGTGATTAC
* *
17711962 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATAAATAT
1 GTGTAAGACCATAGCTGGGCTATGACATC-ATTATATAAAGAT
* *
17712004 GTGTAAGACCATAGCTGGGCTATGACATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGACATCATTATATAAAGAT
17712046 GTGTAAGACCATAG
1 GTGTAAGACCATAG
17712060 TTAAACTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGACATCATTATATAAAGAT
Found at i:17713672 original size:16 final size:17
Alignment explanation
Indices: 17713643--17713683 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
17713633 ATATATATAT
*
17713643 AAAGTAAAAGGAATA-AA
1 AAAG-AAAAAGAATAGAA
17713660 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAGAA
17713677 AAAGAAA
1 AAAGAAA
17713684 GAAAGGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAGAAAAAGAATAGAA
Found at i:17713739 original size:16 final size:16
Alignment explanation
Indices: 17713711--17713750 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
17713701 CAGAGAGCAG
*
17713711 GGGAAAGAAAGAAGGAA
1 GGGAAA-AAAGAAAGAA
17713728 GGGAAAAAAGAAAGAA
1 GGGAAAAAAGAAAGAA
17713744 -GGAAAAA
1 GGGAAAAA
17713751 GGGAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 9 0.41
17 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
GGGAAAAAAGAAAGAA
Found at i:17715898 original size:46 final size:46
Alignment explanation
Indices: 17715831--17716014 Score: 296
Period size: 46 Copynumber: 4.0 Consensus size: 46
17715821 AGTGTGCTCT
*
17715831 CTGATATGAAAAGAATAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
17715877 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
17715923 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
17715969 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
17716015 ATGACAGAAA
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:17716074 original size:92 final size:90
Alignment explanation
Indices: 17715836--17716055 Score: 235
Period size: 92 Copynumber: 2.4 Consensus size: 90
17715826 GCTCTCTGAT
* * * * * * **
17715836 ATGAAAAGAATAAGACCATTGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATAGTTGAAAGACACCATGACAA-CT-ACATGAAAAGAATAAGACCAT
* *
17715901 GGTTGAAAGATACCATGGCAACCTGAT
64 GGTTGAAAGATACCATGGCAACATGAC
* *
17715928 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAAAGAATAAGACCAT
1 ATGAAATGAATAAGACCATAGTTGAAAGACACCATGACAAC-T-ACATGAAAAGAATAAGACCAT
17715993 GGTTGAAAGATACCATGGCAACATGAC
64 GGTTGAAAGATACCATGGCAACATGAC
*
17716020 A-GAAAATGAATGAGTAAGACTATAGTTGAAAGACAC
1 ATG-AAATG-A--A-TAAGACCATAGTTGAAAGACAC
17716056 TATGGCATCA
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
91 2 0.02
92 87 0.79
93 1 0.01
95 1 0.01
96 19 0.17
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (90 bp):
ATGAAATGAATAAGACCATAGTTGAAAGACACCATGACAACTACATGAAAAGAATAAGACCATGG
TTGAAAGATACCATGGCAACATGAC
Found at i:17716634 original size:56 final size:56
Alignment explanation
Indices: 17716548--17716660 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
17716538 ATGAAATGTG
17716548 TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
1 TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
17716604 TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
1 TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
17716660 T
1 T
17716661 TGAACGGTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (56 bp):
TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
Found at i:17717164 original size:10 final size:10
Alignment explanation
Indices: 17717112--17717137 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
17717102 GAAGAGAATG
17717112 AGAAAAAAAA
1 AGAAAAAAAA
17717122 AGAAAAAAAA
1 AGAAAAAAAA
17717132 AGAAAA
1 AGAAAA
17717138 GGTAAAAAAA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:17718445 original size:18 final size:18
Alignment explanation
Indices: 17718418--17718457 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
17718408 GTGTTATCTA
17718418 TTTT-TTTCTCCGTTTTC
1 TTTTCTTTCTCCGTTTTC
17718435 TTTTCTTTCTCCGTTTTC
1 TTTTCTTTCTCCGTTTTC
17718453 TTTTC
1 TTTTC
17718458 ATTATCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTCTTTCTCCGTTTTC
Found at i:17723421 original size:25 final size:25
Alignment explanation
Indices: 17723392--17723443 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
17723382 AAGAATAATT
**
17723392 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
17723417 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
17723442 TG
1 TG
17723444 TCAAGTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:17733118 original size:24 final size:24
Alignment explanation
Indices: 17733065--17733123 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
17733055 ATGATTATTA
*
17733065 ATTATTATTATTATTAAAGATATC
1 ATTATTATTATTATTAAACATATC
* *
17733089 AGTATTATTATTATTAAACATATT
1 ATTATTATTATTATTAAACATATC
*
17733113 TTTATTATTAT
1 ATTATTATTAT
17733124 AGGATTATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (24 bp):
ATTATTATTATTATTAAACATATC
Found at i:17740132 original size:118 final size:118
Alignment explanation
Indices: 17739919--17740165 Score: 343
Period size: 118 Copynumber: 2.1 Consensus size: 118
17739909 GCCTATTTAT
* ** * *
17739919 TGTATTAATTATAACAAAATTAATTTTTCTCATTTTTTAAGATATTGACTCTAATTGTTTTGACT
1 TGTATTAATTACAACAAAATTAAAATTTCCCATTTTTAAAGATATTGACTCTAATTGTTTTGACT
* * * * * *
17739984 AAATTGATTACGCTAATTAATTTAAAATGTTGAAAATGAAGATATTTGGAAAA
66 AAATTGATTACACTAATTAATTTAAAATGTTAAAAATAAAAATATCTAGAAAA
* * *
17740037 TGTACTAATTACAACAAAATTAAAATTTCCCCTTTTTAAAGATGTTGACTCTAATT-TTTTGAAC
1 TGTATTAATTACAACAAAATTAAAATTTCCCATTTTTAAAGATATTGACTCTAATTGTTTTG-AC
*
17740101 TAAATTGATTACACTAATTAATTTAAGATGTTAAAAATAAAAATATCTAGAAAA
65 TAAATTGATTACACTAATTAATTTAAAATGTTAAAAATAAAAATATCTAGAAAA
17740155 TGTATTAATTA
1 TGTATTAATTA
17740166 ATTTTTTGGA
Statistics
Matches: 112, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
117 5 0.04
118 107 0.96
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (118 bp):
TGTATTAATTACAACAAAATTAAAATTTCCCATTTTTAAAGATATTGACTCTAATTGTTTTGACT
AAATTGATTACACTAATTAATTTAAAATGTTAAAAATAAAAATATCTAGAAAA
Found at i:17740669 original size:16 final size:16
Alignment explanation
Indices: 17740648--17740704 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
17740638 TTTAGTTCGC
*
17740648 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
17740664 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
17740680 TGTAATAGAATAGAGG
1 TGTAATGGATTAGAGG
17740696 TGTAATGGA
1 TGTAATGGA
17740705 AAAGCTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:17740971 original size:18 final size:17
Alignment explanation
Indices: 17740950--17740984 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17740940 TTATTATTAA
*
17740950 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17740968 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17740985 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17741121 original size:16 final size:16
Alignment explanation
Indices: 17741084--17741218 Score: 54
Period size: 16 Copynumber: 8.7 Consensus size: 16
17741074 TTAATCATAT
*
17741084 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
17741100 TT-AAATATATTATAA
1 TTAAAATATATTATAA
*
17741115 TTAAAATATATAATTTAA
1 TTAAAATATAT--TATAA
** * *
17741133 TTTGAATTTACTCA-AA
1 TTAAAATATA-TTATAA
* * * *
17741149 TCATAATATATGATAC
1 TTAAAATATATTATAA
17741165 TGTAAAATATA--A--A
1 T-TAAAATATATTATAA
* *
17741178 TTAACATA-ATTATTA
1 TTAAAATATATTATAA
17741193 TT-AAATATATTATAA
1 TTAAAATATATTATAA
17741208 TTAAAATATAT
1 TTAAAATATAT
17741219 AATTTAATAA
Statistics
Matches: 87, Mismatches: 19, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
11 1 0.01
12 6 0.07
13 2 0.02
14 7 0.08
15 24 0.28
16 28 0.32
17 7 0.08
18 11 0.13
19 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:17741123 original size:154 final size:156
Alignment explanation
Indices: 17740837--17741133 Score: 544
Period size: 154 Copynumber: 1.9 Consensus size: 156
17740827 TAGAATACCC
17740837 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
17740902 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
17740967 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
17740994 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
17741057 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
17741122 ATATAATTTAAT
131 ATATAATTTAAT
17741134 TTGAATTTAC
Statistics
Matches: 137, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 76 0.55
155 1 0.01
157 60 0.44
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:17741132 original size:14 final size:15
Alignment explanation
Indices: 17741093--17741227 Score: 61
Period size: 15 Copynumber: 8.9 Consensus size: 15
17741083 TTTAAACATA
*
17741093 ATTATTATTAAATAT
1 ATTATAATTAAATAT
17741108 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
* *
17741122 A-TATAATTTAATTT
1 ATTATAATTAAATAT
*
17741136 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
17741158 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
17741173 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
17741186 ATTATTATTAAATAT
1 ATTATAATTAAATAT
17741201 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
17741215 A-TATAATTTAATA
1 ATTATAATTAAATA
17741228 AAATTCTTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 33
0.66 0.10 0.24
Matches are distributed among these distances:
12 3 0.03
13 22 0.24
14 15 0.17
15 30 0.33
16 5 0.06
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 4 0.04
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:17741191 original size:154 final size:155
Alignment explanation
Indices: 17740876--17741191 Score: 392
Period size: 154 Copynumber: 2.0 Consensus size: 155
17740866 ATTGTTATTG
17740876 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
17740941 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
17741006 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
17741033 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
** * *
17741096 ATTATTAAATATATTATAATTAAAATATATAATTTAATTTGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAA-TAAAATTCTTAAT-AATAGCATAA-AT
17741158 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
17741187 TTATT
1 TTATT
17741192 ATTAAATATA
Statistics
Matches: 139, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.12
154 90 0.65
155 4 0.03
157 23 0.17
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:17741270 original size:120 final size:119
Alignment explanation
Indices: 17741135--17741351 Score: 341
Period size: 120 Copynumber: 1.8 Consensus size: 119
17741125 TAATTTAATT
* * *
17741135 TGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTAAA
1 TGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATTAAA
17741198 TAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTA
64 TATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTA
17741255 TGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAATA
1 TGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAATA
*
17741320 TGATTTAATTAAATATATGATTTAATAAAATT
66 TGATTTAATTAAATATATAATTTAATAAAATT
17741352 TAAAATTATT
Statistics
Matches: 90, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 24 0.27
120 61 0.68
121 5 0.06
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAATA
TGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTA
Found at i:17741332 original size:15 final size:15
Alignment explanation
Indices: 17741312--17741350 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
17741302 AATAATTAAT
17741312 ATTAAATATGATTTA
1 ATTAAATATGATTTA
17741327 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
17741344 ATAAAAT
1 ATTAAAT
17741351 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:17741337 original size:17 final size:17
Alignment explanation
Indices: 17741317--17741350 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17741307 TTAATATTAA
*
17741317 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
17741334 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
17741351 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:17741493 original size:93 final size:92
Alignment explanation
Indices: 17741383--17741577 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
17741373 GATTATAGTT
* * *
17741383 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
17741446 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
17741476 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
17741541 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
17741568 TATGAATTTA
1 TATGAATTTA
17741578 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:17743178 original size:34 final size:34
Alignment explanation
Indices: 17743140--17743207 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
17743130 TCTGAAATTC
17743140 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
17743174 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
17743208 CTACATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
Found at i:17743480 original size:78 final size:78
Alignment explanation
Indices: 17743351--17743507 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
17743341 TATTAGTCAA
* * *
17743351 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
17743416 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
17743429 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
17743494 GACAGCAACACTC
66 GACAGCAACACTC
17743507 G
1 G
17743508 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:17749106 original size:26 final size:26
Alignment explanation
Indices: 17749077--17749136 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
17749067 TCCCTTTGAA
* * *
17749077 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
17749103 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
17749131 CCATTC
1 TCATTC
17749137 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:17749122 original size:28 final size:28
Alignment explanation
Indices: 17749091--17749162 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
17749081 TCGATATTTT
*
17749091 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
17749119 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
17749147 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
17749163 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:17752016 original size:131 final size:129
Alignment explanation
Indices: 17751825--17752216 Score: 520
Period size: 131 Copynumber: 3.0 Consensus size: 129
17751815 GAATTTGGAG
* * *
17751825 AACATGAATGAAATTCTAAAGGAATACTCGATTA-TTTGAAACAAACAGGAGATCGCAACCCAGC
1 AACATGAATGAAATTCTAAAGGAATATTCGATTATTTTG-AACAAATAGGAAATCGCAACCCAGC
17751889 ACGATAGAGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
65 ACGATAG-GCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
17751954 A
129 A
* * * * *
17751955 AGACATGAATGAAATTCCAAAGGAATGTTTGATTATTTTGAATAAATAGGAAATCGTAACCCAGC
1 A-ACATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAATAGGAAATCGCAACCCAGC
* *
17752020 ACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTACCTTCATTTTGAAGAATTTTTA
65 ACGATA-GGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
17752085 A
129 A
* * *
17752086 AAGCATGAGTGAAATTCTAAGGGAATATTCGATTGTTTTGAACAAAT-GAGAAATCGCAACCCAG
1 AA-CATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAATAG-GAAATCGCAACCCAG
* ** * * * *
17752150 CACGATAGGACACGATT-CCCGAATTGCCAAACACCGAGTATTGCTTTCGTTTTAAAGAATTCTT
64 CACGATAGG-CACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTT
17752214 AA
128 AA
17752216 A
1 A
17752217 TGAATAATCA
Statistics
Matches: 229, Mismatches: 27, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
130 46 0.20
131 178 0.78
132 5 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (129 bp):
AACATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAATAGGAAATCGCAACCCAGCA
CGATAGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTAA
Found at i:17756925 original size:16 final size:14
Alignment explanation
Indices: 17756888--17756926 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
17756878 GTTTTTCTTT
17756888 TTATAAAAATAATA
1 TTATAAAAATAATA
17756902 TT-TAAAAATAATTAA
1 TTATAAAAATAA-T-A
17756917 TTATAAAAAT
1 TTATAAAAAT
17756927 TGTGTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
14 3 0.14
15 3 0.14
16 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTATAAAAATAATA
Found at i:17757319 original size:18 final size:19
Alignment explanation
Indices: 17757278--17757320 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
17757268 TTAAAAAAAT
**
17757278 ATTTTTTTTACTT-TTTTA
1 ATTTTTTTTACTTATTAAA
*
17757296 ATTTTTTTTTCTTATTAAA
1 ATTTTTTTTACTTATTAAA
17757315 ATTTTT
1 ATTTTT
17757321 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (19 bp):
ATTTTTTTTACTTATTAAA
Found at i:17758869 original size:21 final size:23
Alignment explanation
Indices: 17758834--17758875 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
17758824 TATCTTTGAT
17758834 TTTTTATATAAATTTTAAATATA
1 TTTTTATATAAATTTTAAATATA
17758857 TTTTTA-A-AAATTTTAAATA
1 TTTTTATATAAATTTTAAATA
17758876 ATAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
22 1 0.05
23 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTTATATAAATTTTAAATATA
Found at i:17760111 original size:14 final size:15
Alignment explanation
Indices: 17760092--17760147 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
17760082 AATCTTCAAT
17760092 GATATG-CAATCTTA
1 GATATGACAATCTTA
17760106 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
17760123 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
17760141 GATATGA
1 GATATGA
17760148 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:17760136 original size:35 final size:37
Alignment explanation
Indices: 17760090--17760168 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
17760080 ATAATCTTCA
17760090 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
17760126 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
17760162 A-GATATG
1 ATGATATG
17760169 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:17760168 original size:17 final size:19
Alignment explanation
Indices: 17760090--17760161 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
17760080 ATAATCTTCA
17760090 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
17760109 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
17760126 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
17760144 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
17760162 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:17760187 original size:22 final size:22
Alignment explanation
Indices: 17760090--17760184 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
17760080 ATAATCTTCA
17760090 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
17760109 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
17760126 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
17760144 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
17760166 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
17760185 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:17760462 original size:17 final size:18
Alignment explanation
Indices: 17760440--17760475 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17760430 TGTTTCCCTG
*
17760440 ATTTTTTTATAT-ATTTT
1 ATTTTTTTAAATAATTTT
17760457 ATTTTTTTAAATAATTTT
1 ATTTTTTTAAATAATTTT
17760475 A
1 A
17760476 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAAATAATTTT
Found at i:17774527 original size:133 final size:132
Alignment explanation
Indices: 17774105--17774730 Score: 469
Period size: 131 Copynumber: 4.7 Consensus size: 132
17774095 TGAAATTCTG
* * * * * *
17774105 AGGAGATATTCGATTGTTTTG-GACAAATGAAAAAGCGCAACCCAGCACGATAGGACTCGATTCT
1 AGGA-ATATTCGATTGTTTTGAG-CAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCT
* * * * * * * * *
17774169 CAAATCGCCAAATATCGGACATCGCCTTCATTTTTAAATATTTTTTTATAAACATGAGTGAGAAT
64 CGAATTGCCAAATATCGAATATTGCCTTCGTTTTTAAATATATTTTTATAAACATGAGTGAAAAC
*
17774234 ATAA
129 CTAA
* * * * * **
17774238 AGGAATGTTCGATCGTTTTGAGCAAACGAGAAATCATAACCCAGCATGATAGAGCATAATTCTCG
1 AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCTCG
* ** * * * *
17774303 AATTGTCAAATGCCGAATATTGCCTTCG-TTTTAAA-A-AGTTTTTAGAAAACACGAATGAAATT
66 AATTGCCAAATATCGAATATTGCCTTCGTTTTTAAATATA-TTTTTA-TAAACATGAGTGAAA-A
17774365 CC-AA
128 CCTAA
* * * * ** *
17774369 AGGGATATTCGATTATCTTGCGCAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCCCC
1 AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATT-CTC
* *
17774434 GAATTGCCAAACATCGAATATTTCCTTCGTTTTTAAATATATATTTT-TAAACATGAGTGAAAAC
65 GAATTGCCAAATATCGAATATTGCCTTCGTTTTTAAATATAT-TTTTATAAACATGAGTGAAAAC
17774498 CTAA
129 CTAA
* * *
17774502 AGGAATATTCTATTGTTTTGAGCAAACGAGGAATCACAACCCAGCACGATAGGGCATGATTCTCG
1 AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCTCG
** * * ** * * * **
17774567 AATTATCAAACA-CCAAGTATCACCTTTG-TTTTAAA-AGATTTTTAGAAGACATGAGTGAAATT
66 AATTGCCAAATATCGAA-TATTGCCTTCGTTTTTAAATATATTTTTATAA-ACATGAGTGAAAAC
* *
17774629 TTGA
129 CTAA
* * * * * * * * * * * *
17774633 AGTAATATTCGATTATTTTGAGTAAATGCGAAATTACAACCCAACTCGTTAAGGCACTATTTCGC
1 AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGA-TTCTC
* * *
17774698 GAATTGCCAAATATCGAATCTCGTCTTCGTTTT
65 GAATTGCCAAATATCGAATATTGCCTTCGTTTT
17774731 AAAAAATTCT
Statistics
Matches: 379, Mismatches: 98, Indels: 32
0.74 0.19 0.06
Matches are distributed among these distances:
129 4 0.01
130 12 0.03
131 137 0.36
132 135 0.36
133 84 0.22
134 2 0.01
135 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (132 bp):
AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCTCG
AATTGCCAAATATCGAATATTGCCTTCGTTTTTAAATATATTTTTATAAACATGAGTGAAAACCT
AA
Found at i:17774566 original size:264 final size:263
Alignment explanation
Indices: 17774141--17774730 Score: 646
Period size: 264 Copynumber: 2.2 Consensus size: 263
17774131 ATGAAAAAGC
* * * * * * *
17774141 GCAACCCAGCACGATAGGACTCGATTCTCAAATCGCCAAATATCGGACATCGCCTTCATTTTTAA
1 GCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAATATCGAATATCGCCTTCATTTTTAA
* * * *
17774206 ATATTTTTTTATAAACATGAGTGAGAATATAAAGGAATGTTCGATCGTTTTGAGCAAACGAGAAA
66 ATATTATTTTATAAACATGAGTGAAAACATAAAGGAATATTCGATCGTTTTGAGCAAACGAGAAA
* * * ** **
17774271 TCATAACCCAGCATGATAGAGCATAATTCTCGAATTGTCAAATGCCGAA-TATTGCCTTCGTTTT
131 TCACAACCCAGCACGATAGAGCATAATTCTCGAATTATCAAACACC-AAGTATCACCTTCGTTTT
* *
17774335 AAAA-AGTTTTTAGAAAACACGAATGAAATTCCAAAGGGATATTCGATTATCTTGCGCAAACGAG
195 AAAAGA-TTTTTAGAAAACACGAATGAAATTCCAAAGGAATATTCGATTATCTTGAGCAAACGAG
17774399 AAATT
259 AAATT
* ** *
17774404 GCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAATATTTCCTTCGTTTTTA
1 GCAACCCAGCACGATAGGGCACGATT-CCCGAATTGCCAAATATCGAATATCGCCTTCATTTTTA
* * * *
17774469 AATATATATTTT-TAAACATGAGTGAAAACCTAAAGGAATATTCTATTGTTTTGAGCAAACGAGG
65 AATAT-TATTTTATAAACATGAGTGAAAACATAAAGGAATATTCGATCGTTTTGAGCAAACGAGA
* * *
17774533 AATCACAACCCAGCACGATAGGGCATGATTCTCGAATTATCAAACACCAAGTATCACCTTTGTTT
129 AATCACAACCCAGCACGATAGAGCATAATTCTCGAATTATCAAACACCAAGTATCACCTTCGTTT
* * * *** * * * * *
17774598 TAAAAGATTTTTAGAAGACATGAGTGAAATTTTGAAGTAATATTCGATTATTTTGAGTAAATGCG
194 TAAAAGATTTTTAGAAAACACGAATGAAATTCCAAAGGAATATTCGATTATCTTGAGCAAACGAG
17774663 AAATT
259 AAATT
* * * * * * * * * *
17774668 ACAACCCAACTCGTTAAGGCACTATTTCGCGAATTGCCAAATATCGAATCTCGTCTTCGTTTT
1 GCAACCCAGCACGATAGGGCACGA-TTCCCGAATTGCCAAATATCGAATATCGCCTTCATTTT
17774731 AAAAAATTCT
Statistics
Matches: 268, Mismatches: 54, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
263 26 0.10
264 234 0.87
265 8 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (263 bp):
GCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAATATCGAATATCGCCTTCATTTTTAA
ATATTATTTTATAAACATGAGTGAAAACATAAAGGAATATTCGATCGTTTTGAGCAAACGAGAAA
TCACAACCCAGCACGATAGAGCATAATTCTCGAATTATCAAACACCAAGTATCACCTTCGTTTTA
AAAGATTTTTAGAAAACACGAATGAAATTCCAAAGGAATATTCGATTATCTTGAGCAAACGAGAA
ATT
Found at i:17790145 original size:20 final size:20
Alignment explanation
Indices: 17790120--17790160 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
17790110 AAGGAAGAAG
*
17790120 AAATAAAACATAAAAAGGAA
1 AAATAAAAAATAAAAAGGAA
17790140 AAATAAAAAATAAAAAGGAA
1 AAATAAAAAATAAAAAGGAA
17790160 A
1 A
17790161 TAATGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (20 bp):
AAATAAAAAATAAAAAGGAA
Found at i:17790578 original size:30 final size:31
Alignment explanation
Indices: 17790542--17790599 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
17790532 ATGGTTGCCT
17790542 AACTATTCAAAAT-TTTTCA-TTAAGTCACTG
1 AACTATTC-AAATGTTTTCATTTAAGTCACTG
*
17790572 AACTATTCAAATGTTTTTATTTAAGTCA
1 AACTATTCAAATGTTTTCATTTAAGTCA
17790600 TTAGATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 13 0.52
31 8 0.32
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (31 bp):
AACTATTCAAATGTTTTCATTTAAGTCACTG
Found at i:17798872 original size:51 final size:51
Alignment explanation
Indices: 17798769--17798881 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
17798759 TAGCCTTCAA
* ** *
17798769 ATTTATACATTTTGTCAGTTTGCTCTTAATTTAACAAAGTTATTTCACAAT
1 ATTTATACATTTTGTCAATTTAATCTTAATTTAACAAAGTTATCTCACAAT
* *
17798820 ATTTATACATTTTGTCAATTTAATCTTAATTTAACAAATTTAGTCT-ATAAT
1 ATTTATACATTTTGTCAATTTAATCTTAATTTAACAAAGTTA-TCTCACAAT
*
17798871 ATTTACACATT
1 ATTTATACATT
17798882 CTATTAACAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 52 0.96
52 2 0.04
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.48
Consensus pattern (51 bp):
ATTTATACATTTTGTCAATTTAATCTTAATTTAACAAAGTTATCTCACAAT
Found at i:17800735 original size:21 final size:22
Alignment explanation
Indices: 17800708--17800760 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
17800698 AAAATTTTAA
17800708 ATTTAAAAAAAATTTAAAATTT
1 ATTTAAAAAAAATTTAAAATTT
** *
17800730 -TTTAAAAAGTATTTAAATTTT
1 ATTTAAAAAAAATTTAAAATTT
17800751 ATATTAAAAA
1 AT-TTAAAAA
17800761 TCGTAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 18 0.69
22 1 0.04
23 7 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTAAAAAAAATTTAAAATTT
Found at i:17800737 original size:18 final size:18
Alignment explanation
Indices: 17800694--17800729 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17800684 ATTAAAAATC
*
17800694 AATAAAAATTTTAAATTT
1 AATAAAAATTTAAAATTT
*
17800712 AAAAAAAATTTAAAATTT
1 AATAAAAATTTAAAATTT
17800730 TTTAAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAAAAATTTAAAATTT
Found at i:17801828 original size:17 final size:20
Alignment explanation
Indices: 17801804--17801848 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
17801794 GTTTTACGAT
17801804 TAATTTTTA-T-AAATTTTA
1 TAATTTTTATTAAAATTTTA
17801822 T-ATTTTTATTAAAATTTTA
1 TAATTTTTATTAAAATTTTA
17801841 TAATTTTT
1 TAATTTTT
17801849 TGATGCAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.29
18 2 0.08
19 9 0.38
20 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TAATTTTTATTAAAATTTTA
Found at i:17802815 original size:20 final size:20
Alignment explanation
Indices: 17802777--17802824 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
17802767 TAAATTCTAA
* **
17802777 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
17802797 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
17802817 AAA-ATAAA
1 AAAGATAAA
17802825 ATCTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:17802849 original size:27 final size:27
Alignment explanation
Indices: 17802819--17802876 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
17802809 AGATAATTAA
17802819 AATAA-AATCTTAA-ATTTGAATAATCCT
1 AATAATAATCTTAATA-TT-AATAATCCT
* *
17802846 AATAATTATCTTAATATTAATTATCCT
1 AATAATAATCTTAATATTAATAATCCT
17802873 AATA
1 AATA
17802877 TATATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 17 0.63
28 9 0.33
29 1 0.04
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (27 bp):
AATAATAATCTTAATATTAATAATCCT
Found at i:17802868 original size:15 final size:15
Alignment explanation
Indices: 17802848--17802877 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17802838 ATAATCCTAA
*
17802848 TAATTATCTTAATAT
1 TAATTATCCTAATAT
17802863 TAATTATCCTAATAT
1 TAATTATCCTAATAT
17802878 ATATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:17804316 original size:8 final size:8
Alignment explanation
Indices: 17804295--17804360 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
17804285 TTAGTATCTG
17804295 AAAATAAT
1 AAAATAAT
17804303 -AAATAAT
1 AAAATAAT
17804310 AAAATAAT
1 AAAATAAT
*
17804318 AAGATAA-
1 AAAATAAT
*
17804325 AATA-AAT
1 AAAATAAT
*
17804332 AAAATAAA
1 AAAATAAT
*
17804340 AATAAAAAT
1 AA-AATAAT
17804349 AGAAA-AAT
1 A-AAATAAT
17804357 AAAA
1 AAAA
17804361 ATTGGGTTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
6 2 0.04
7 16 0.34
8 21 0.45
9 7 0.15
10 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (8 bp):
AAAATAAT
Found at i:17804335 original size:22 final size:19
Alignment explanation
Indices: 17804303--17804362 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 19
17804293 TGAAAATAAT
17804303 AAATAATAAAATAATAAGATA
1 AAATAATAAAATAA-AA-ATA
17804324 AAATAAATAAAATAAAAATAA
1 AAAT-AATAAAATAAAAAT-A
17804345 AAATAGA-AAAATAAAAAT
1 AAATA-ATAAAATAAAAAT
17804363 TGGGTTGCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 14 0.39
21 12 0.33
22 10 0.28
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (19 bp):
AAATAATAAAATAAAAATA
Found at i:17804354 original size:14 final size:13
Alignment explanation
Indices: 17804295--17804362 Score: 59
Period size: 15 Copynumber: 4.8 Consensus size: 13
17804285 TTAGTATCTG
17804295 AAAATAATAAATAA
1 AAAATAA-AAATAA
17804309 TAAAATAATAAGATAA
1 -AAAATAA-AA-ATAA
17804325 AATAA-ATAAAAT-A
1 AA-AATA-AAAATAA
17804338 AAAATAAAAATAGA
1 AAAATAAAAATA-A
17804352 AAAATAAAAAT
1 AAAATAAAAAT
17804363 TGGGTTGCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
12 7 0.15
13 4 0.09
14 14 0.30
15 15 0.32
16 7 0.15
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:17810000 original size:17 final size:19
Alignment explanation
Indices: 17809964--17810002 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
17809954 AATAGTATTT
*
17809964 AAATTAAATTGAAATTACG
1 AAATTAAATTGAAATGACG
17809983 AAATTAAA-T-AAATGACG
1 AAATTAAATTGAAATGACG
17810000 AAA
1 AAA
17810003 ATTGAGATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (19 bp):
AAATTAAATTGAAATGACG
Found at i:17810796 original size:15 final size:15
Alignment explanation
Indices: 17810776--17810805 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17810766 ATAATCCTAA
*
17810776 TAATTATCTTAATAT
1 TAATTATCCTAATAT
17810791 TAATTATCCTAATAT
1 TAATTATCCTAATAT
17810806 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:17812935 original size:15 final size:15
Alignment explanation
Indices: 17812915--17812945 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17812905 CACCTATACT
17812915 TGGTGTGCAAACGAG
1 TGGTGTGCAAACGAG
17812930 TGGTGTGCAAACGAG
1 TGGTGTGCAAACGAG
17812945 T
1 T
17812946 TTCAAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.39, T:0.23
Consensus pattern (15 bp):
TGGTGTGCAAACGAG
Found at i:17817689 original size:31 final size:31
Alignment explanation
Indices: 17817653--17817730 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
17817643 GTTACAAATT
* *
17817653 AGTCACTAAATTATTCGAAAGTTTTCATTTA
1 AGTCACTAAATTATTCAAAAGTTTTCATCTA
* *
17817684 AGTCACTAAATTATGCAAAAGTTTTTATCTA
1 AGTCACTAAATTATTCAAAAGTTTTCATCTA
* *
17817715 AGTCATTAAACTATTC
1 AGTCACTAAATTATTC
17817731 CGCCAATGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (31 bp):
AGTCACTAAATTATTCAAAAGTTTTCATCTA
Found at i:17828361 original size:15 final size:14
Alignment explanation
Indices: 17828335--17828380 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
17828325 TAAAAACATT
17828335 AAATTTAA-ATTAA
1 AAATTTAATATTAA
17828348 AAATTATAATATTAA
1 AAATT-TAATATTAA
*
17828363 ATATTTAAATATTAA
1 AAATTT-AATATTAA
17828378 AAA
1 AAA
17828381 ATGCTATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 5 0.18
14 4 0.14
15 19 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTTAATATTAA
Found at i:17828362 original size:20 final size:19
Alignment explanation
Indices: 17828317--17828365 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
17828307 AATTAAATTT
17828317 ATTTAAAATAAAAACATTAA
1 ATTT-AAATAAAAACATTAA
*
17828337 ATTTAAATTAAAA-ATTATA
1 ATTTAAATAAAAACATTA-A
17828356 ATATTAAATA
1 AT-TTAAATA
17828366 TTTAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.16
19 11 0.44
20 10 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTTAAATAAAAACATTAA
Found at i:17828764 original size:28 final size:27
Alignment explanation
Indices: 17828708--17828764 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
17828698 ATAAAGAAAT
**
17828708 ATTTTTAAACTTTTAATTTTTTTTCTA
1 ATTTTTAAACTTTTAATTTTTTTAATA
*
17828735 ATTTTTAATTCTTTTACA-TTTTTTAATA
1 ATTTTTAA-ACTTTTA-ATTTTTTTAATA
17828763 AT
1 AT
17828765 ATTTGTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 8 0.32
28 16 0.64
29 1 0.04
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTTAAACTTTTAATTTTTTTAATA
Found at i:17834695 original size:11 final size:11
Alignment explanation
Indices: 17834679--17834709 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17834669 AAGTATGGGT
17834679 AGGTATGGGAA
1 AGGTATGGGAA
*
17834690 AGGTATGGGCA
1 AGGTATGGGAA
17834701 AGGTATGGG
1 AGGTATGGG
17834710 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:17838658 original size:18 final size:18
Alignment explanation
Indices: 17838635--17838727 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
17838625 CCCAACTACT
*
17838635 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
17838653 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
17838671 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
17838689 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
17838707 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
17838725 GTA
1 GTA
17838728 AACGATCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:17838687 original size:36 final size:36
Alignment explanation
Indices: 17838635--17838727 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
17838625 CCCAACTACT
*
17838635 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
17838671 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
17838707 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
17838728 AACGATCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:17839289 original size:11 final size:11
Alignment explanation
Indices: 17839273--17839303 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17839263 AAGTATGGGT
17839273 AGGTATGGGAA
1 AGGTATGGGAA
*
17839284 AGGTATGGGCA
1 AGGTATGGGAA
17839295 AGGTATGGG
1 AGGTATGGG
17839304 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:17843953 original size:15 final size:16
Alignment explanation
Indices: 17843918--17843947 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17843908 TAAAAGTATT
17843918 TTAAAAATTAAAAATA
1 TTAAAAATTAAAAATA
17843934 TTAAAAA-TAAAAAT
1 TTAAAAATTAAAAAT
17843948 TCTAAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAAAAATA
Found at i:17846801 original size:21 final size:21
Alignment explanation
Indices: 17846777--17846816 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
17846767 TAATTTGTCT
17846777 CCAGTGTTGCAACATTAGAAA
1 CCAGTGTTGCAACATTAGAAA
17846798 CCAGTGTTGCAACATTAGA
1 CCAGTGTTGCAACATTAGA
17846817 CATGCAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (21 bp):
CCAGTGTTGCAACATTAGAAA
Found at i:17847162 original size:24 final size:24
Alignment explanation
Indices: 17847130--17847178 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
17847120 AGTGGAGTAG
17847130 CCTTAGTTTCCAAATGTAACATTC
1 CCTTAGTTTCCAAATGTAACATTC
*
17847154 CCTTAGTTTCCAAATGTGACATTC
1 CCTTAGTTTCCAAATGTAACATTC
17847178 C
1 C
17847179 TTGTTAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (24 bp):
CCTTAGTTTCCAAATGTAACATTC
Found at i:17850747 original size:20 final size:20
Alignment explanation
Indices: 17850724--17850768 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17850714 AGGGACTAAA
* *
17850724 ATGAAAATTTGTAAAATTTG
1 ATGAAAACTTCTAAAATTTG
*
17850744 ATGAAAACTTCTAAAATTTT
1 ATGAAAACTTCTAAAATTTG
17850764 ATGAA
1 ATGAA
17850769 TACATGTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGAAAACTTCTAAAATTTG
Found at i:17855398 original size:44 final size:44
Alignment explanation
Indices: 17855335--17855434 Score: 191
Period size: 44 Copynumber: 2.3 Consensus size: 44
17855325 CTGATCACAT
17855335 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
*
17855379 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
17855423 TTATCACTTGTC
1 TTATCACTTGTC
17855435 GCTTGTCGCT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCAC
Found at i:17855439 original size:7 final size:7
Alignment explanation
Indices: 17855429--17855455 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17855419 CCACTTATCA
17855429 CTTGTCG
1 CTTGTCG
17855436 CTTGTCG
1 CTTGTCG
17855443 CTTGTCG
1 CTTGTCG
17855450 CTTGTC
1 CTTGTC
17855456 ACTTATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.30, G:0.26, T:0.44
Consensus pattern (7 bp):
CTTGTCG
Found at i:17859060 original size:14 final size:14
Alignment explanation
Indices: 17859041--17859067 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17859031 CATGATAAAA
17859041 TAAAATACAAGTGG
1 TAAAATACAAGTGG
17859055 TAAAATACAAGTG
1 TAAAATACAAGTG
17859068 TGCAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:17864192 original size:42 final size:42
Alignment explanation
Indices: 17864158--17864365 Score: 206
Period size: 49 Copynumber: 4.6 Consensus size: 42
17864148 CATAGTTCAA
*
17864158 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGATGCCATAGCCCAG
*
17864200 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGATGCCATAGCCCAG
*
17864242 CTATAGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---AT---AT-TCACATATCGATGCCATAGCCCAG
* *
17864291 CTATGGTCTTACACGTAATCACATATCACATATTGATGCCATAACCCAG
1 CTATGGTCTTACAC---AT---AT-TCACATATCGATGCCATAGCCCAG
17864340 CTATGGTCTTACACGA-A-TCACATATC
1 CTATGGTCTTACAC-ATATTCACATATC
17864366 TCACTGATGC
Statistics
Matches: 149, Mismatches: 9, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
41 10 0.07
42 50 0.34
43 1 0.01
45 2 0.01
47 1 0.01
48 2 0.01
49 83 0.56
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGATGCCATAGCCCAG
Found at i:17864284 original size:49 final size:49
Alignment explanation
Indices: 17864211--17864443 Score: 280
Period size: 49 Copynumber: 4.8 Consensus size: 49
17864201 TATGGTCTTA
* *
17864211 CACATATTCATATATCGATGCCATAGCCCAGCTATAGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
17864261 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* *
17864310 CACATATCACATATTGATGCCATAACCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * * * *
17864358 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
* * * *
17864405 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
17864444 TACGGAAATC
Statistics
Matches: 166, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
46 26 0.16
47 37 0.22
48 13 0.08
49 84 0.51
50 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:17864285 original size:91 final size:92
Alignment explanation
Indices: 17864176--17864396 Score: 279
Period size: 91 Copynumber: 2.4 Consensus size: 92
17864166 TTACACATCT
* *
17864176 TCACATAATGATGCCATAGCCCAGCTATGGTCTTACAC-AT-AT-TCATATATCGATGCCATAGC
1 TCACAT-ATGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAAC
17864238 CCAGCTATAGTCTTACACGTAATCACATA
65 CCAGCTATAGTCTTACACG-AATCACATA
*
17864267 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATTGATGCCA
1 TCACATAT-GATGCCATAGCCCAGCTATGGTCTTACAC--AAT--CATATCACATATCGATGCCA
*
17864332 TAACCCAGCTATGGTCTTACACGAATCACATA
61 TAACCCAGCTATAGTCTTACACGAATCACATA
* * * *
17864364 TCTCA-CTGATGCCATATCCCAGATATGGTCTTA
1 TCACATATGATGCCATAGCCCAGCTATGGTCTTA
17864397 TACAGTAGCA
Statistics
Matches: 114, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
90 2 0.02
91 35 0.31
94 2 0.02
95 24 0.21
96 1 0.01
97 15 0.13
98 35 0.31
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (92 bp):
TCACATATGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAACC
CAGCTATAGTCTTACACGAATCACATA
Found at i:17864455 original size:95 final size:96
Alignment explanation
Indices: 17864226--17864443 Score: 264
Period size: 95 Copynumber: 2.3 Consensus size: 96
17864216 ATTCATATAT
* *
17864226 CGATGCCATAGCCCAGCTATAGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CGATGCCATAACCCAGCTATGGTCTTACACG-AATCACATATCACATATCGATGCCATAGCCCAG
* * *
17864291 CTATGGTCTTACACGTAATCACATATCACATAT
65 ATATGGTCTTACACGTAAGCACATATCACA-AC
* * * *
17864324 TGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATCTCA-CT-GATGCCATATCCCAGA
1 CGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATCACATATCGATGCCATAGCCCAGA
* *
17864387 TATGGTCTTATACAGT-AGCATATATCAC-AC
66 TATGGTCTTACAC-GTAAGCACATATCACAAC
* *
17864417 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATAACCCAGCTATGGTCTTA
17864444 TACGGAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
93 25 0.24
95 36 0.34
96 3 0.03
97 13 0.12
98 28 0.27
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (96 bp):
CGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATCACATATCGATGCCATAGCCCAGA
TATGGTCTTACACGTAAGCACATATCACAAC
Found at i:17864500 original size:31 final size:31
Alignment explanation
Indices: 17864465--17864579 Score: 185
Period size: 31 Copynumber: 3.7 Consensus size: 31
17864455 CTTGTCACTT
*
17864465 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
17864496 GTAGCCGGAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
17864527 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
17864558 GTAGCAGAAGCTACCACTTTTC
1 GTAGCCGAAGCTACCACTTTTC
17864580 TCTTGTCATT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:17869408 original size:42 final size:46
Alignment explanation
Indices: 17869345--17869569 Score: 211
Period size: 49 Copynumber: 4.9 Consensus size: 46
17869335 CTTCGTTTTC
*
17869345 TCGATGCCATAATTCAA-CTATGGTCTTACAC-AT-C-T-TCACATAA
1 TCGATGCCATAA-CCAAGCTATGGTCTTACACAATACATATCACAT-A
*
17869388 T-GATGCCATAACCAAGCTATGGTCTTACAC-AT--AT-TCATATA
1 TCGATGCCATAACCAAGCTATGGTCTTACACAATACATATCACATA
*
17869429 TCGATGCCATAGTCCAA-CTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATA-ACCAAGCTATGGTCTTACAC--AAT-ACATATCACATA
* * *
17869478 TCGATGCCATAGCCCAGCTGTGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAACCAAGCTATGGTCTTACAC--AAT-ACATATCACATA
*
17869527 TCGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATC
1 TCGATGCCATAACCAAGCTATGGTCTTACAC-AAT-ACATATC
17869570 TCACTGATGC
Statistics
Matches: 160, Mismatches: 10, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
41 5 0.03
42 55 0.34
43 5 0.03
45 2 0.01
48 16 0.10
49 77 0.48
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.29
Consensus pattern (46 bp):
TCGATGCCATAACCAAGCTATGGTCTTACACAATACATATCACATA
Found at i:17869488 original size:49 final size:49
Alignment explanation
Indices: 17869415--17869647 Score: 253
Period size: 49 Copynumber: 4.8 Consensus size: 49
17869405 TATGGTCTTA
* * *
17869415 CACATATTCATATATCGATGCCATAGTCCAACTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
17869465 CACATATCACATATCGATGCCATAGCCCAGCTGTGGTCTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
17869514 CACATATCACATATCGATGCCATAACCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * ** * * *
17869562 CACATATCTCA-CT-GATGCCATTTCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
* * * * *
17869609 CATATATCAC--ACCGATGACATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
17869648 TACGGAAATC
Statistics
Matches: 161, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
46 25 0.16
47 35 0.22
48 13 0.08
49 82 0.51
50 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:17869503 original size:91 final size:93
Alignment explanation
Indices: 17869345--17869569 Score: 245
Period size: 98 Copynumber: 2.5 Consensus size: 93
17869335 CTTCGTTTTC
**
17869345 TCGATGCCATAATTCAACTATGGTCTTACAC--AT--C-T-TCACATAATGATGCCATAACCAAG
1 TCGATGCCATAACCCAACTATGGTCTTACACGAATCACATATCACATAATGATGCCATAACCAAG
*
17869404 CTATGGTCTTACAC-AT-AT-TCATATA
66 CTATGGTCTTACACAATCATATCACATA
** * *
17869429 TCGATGCCATAGTCCAACTATGGTCTTACACGTAATCACATATCACAT-ATCGATGCCATAGCCC
1 TCGATGCCATAACCCAACTATGGTCTTACACG-AATCACATATCACATAAT-GATGCCATAACCA
*
17869493 AGCTGTGGTCTTACACGTAATCACATATCACATA
64 AGCTATGGTCTTACAC--AAT--CATATCACATA
*
17869527 TCGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATC
1 TCGATGCCATAACCCAACTATGGTCTTACACGAATCACATATC
17869570 TCACTGATGC
Statistics
Matches: 117, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
84 29 0.25
87 2 0.02
89 1 0.01
90 3 0.03
91 32 0.27
94 2 0.02
97 13 0.11
98 35 0.30
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.29
Consensus pattern (93 bp):
TCGATGCCATAACCCAACTATGGTCTTACACGAATCACATATCACATAATGATGCCATAACCAAG
CTATGGTCTTACACAATCATATCACATA
Found at i:17869712 original size:31 final size:31
Alignment explanation
Indices: 17869677--17869786 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
17869667 TTGTAGTCGA
*
17869677 AGCTACCACTATTCACTGATCAGGTAGCTGG
1 AGCTACCACTTTTCACTGATCAGGTAGCTGG
* * *
17869708 AGCTACCACTTTTCATTGATCAAGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCTGG
* *
17869739 AGCTACCACTTTTCACGGATCAGGTAG-TAGA
1 AGCTACCACTTTTCACTGATCAGGTAGCT-GG
17869770 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
17869787 TGTCATTTGT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCTGG
Found at i:17869856 original size:50 final size:51
Alignment explanation
Indices: 17869768--17869890 Score: 212
Period size: 50 Copynumber: 2.4 Consensus size: 51
17869758 TCAGGTAGTA
* *
17869768 GAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCC
*
17869819 GAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCT
1 GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCC
17869869 GAAGCTATCACTTATCACTTGT
1 GAAGCTATCACTTATCACTTGT
17869891 TGCCATGGTC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 49 0.72
51 19 0.28
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCC
Found at i:17876668 original size:18 final size:18
Alignment explanation
Indices: 17876636--17876684 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
17876626 TGAGAATTTT
** *
17876636 AAAAAAAAATTAAAAAAG
1 AAAAAAAAAGAAAAAAAC
*
17876654 AAAAAAAAAGAAAAAATC
1 AAAAAAAAAGAAAAAAAC
17876672 AAAAAAAGAAGAA
1 AAAAAAA-AAGAA
17876685 GAAAGAATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.84, C:0.02, G:0.08, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAC
Found at i:17876676 original size:26 final size:26
Alignment explanation
Indices: 17876639--17876723 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
17876629 GAATTTTAAA
*
17876639 AAAAAAT-TAAAAAAGAAAAAAAAAG
1 AAAAAATCAAAAAAAGAAAAAAAAAG
* *
17876664 AAAAAATCAAAAAAAGAAGAAGAAAG
1 AAAAAATCAAAAAAAGAAAAAAAAAG
** *
17876690 AATCAATCAAAGAAATTGAAAAAAGAAAG
1 AAAAAATCAAA-AAA-AGAAAAAA-AAAG
17876719 AAAAA
1 AAAAA
17876724 TGATAGGCCA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
25 7 0.15
26 24 0.52
27 3 0.07
28 5 0.11
29 7 0.15
ACGTcount: A:0.76, C:0.04, G:0.12, T:0.08
Consensus pattern (26 bp):
AAAAAATCAAAAAAAGAAAAAAAAAG
Found at i:17876703 original size:22 final size:22
Alignment explanation
Indices: 17876654--17876695 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17876644 ATTAAAAAAG
17876654 AAAAA-AA-AAGAAAAAATCAA
1 AAAAAGAAGAAGAAAAAATCAA
*
17876674 AAAAAGAAGAAGAAAGAATCAA
1 AAAAAGAAGAAGAAAAAATCAA
17876696 TCAAAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAAAGAAGAAGAAAAAATCAA
Found at i:17877901 original size:24 final size:23
Alignment explanation
Indices: 17877811--17877905 Score: 55
Period size: 23 Copynumber: 4.3 Consensus size: 23
17877801 GGAGCATTTG
17877811 ATTCATTTTGATCATAGCATCCTA
1 ATTCATTTTGATCATAGCAT-CTA
17877835 ATT-A-TTTGA-CATAAGCATC--
1 ATTCATTTTGATCAT-AGCATCTA
* * * *
17877854 A--CATCTAG-TCAGGAGCATTTA
1 ATTCATTTTGATCA-TAGCATCTA
17877875 ATTCATTTTGATCATAGCATCCTA
1 ATTCATTTTGATCATAGCAT-CTA
17877899 ATT-ATTT
1 ATTCATTT
17877906 GACATAAGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 23
0.63 0.10 0.28
Matches are distributed among these distances:
18 1 0.02
19 10 0.19
21 5 0.10
22 10 0.19
23 15 0.29
24 11 0.21
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (23 bp):
ATTCATTTTGATCATAGCATCTA
Found at i:17878668 original size:146 final size:147
Alignment explanation
Indices: 17878349--17878786 Score: 616
Period size: 146 Copynumber: 3.0 Consensus size: 147
17878339 GAGTAGATTT
* * * * *
17878349 AAGATGGCGAATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCT
1 AAGA-GGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCT
** * * *
17878414 CT-ATGGTAGCAAGAGAGCAGGTTGGCGATTGTAGCCTTATCTTCCTGAGGTAGCAAGGAGGCAG
65 CTGA-GGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTCCTGAAGTAGCAAGGAAGCAG
* *
17878478 ACTGGAGATT-AAAGATCGG
128 ACTGAAGATTGAAAGATCAG
*
17878497 AAGAGGCAAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAGCCCCAAGCCTTATCTCTC
1 AAGAGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTC
* *
17878562 TGAGGTAGCAAGAGAGCATGTTGAAGATTGAGTATTATCTTCCTGAAGTAGCAAGGAAGCAGACT
66 TGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACT
17878627 GAAGATTGAAA-ATCAG
131 GAAGATTGAAAGATCAG
17878643 AAGAGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTC
1 AAGAGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTC
* * * * *
17878708 TGAGGTAGCAAGAGAGTAGGTTAAAGATTGAGTCTTATCTTCCTG-AGATAGCAAAGAAGGAGAT
66 TGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAAG-TAGCAAGGAAGCAGAC
*
17878772 TAAAGATTG-AAGATC
130 TGAAGATTGAAAGATC
17878787 TTATCTCCCT
Statistics
Matches: 262, Mismatches: 24, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
145 4 0.02
146 170 0.65
147 83 0.32
148 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (147 bp):
AAGAGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTC
TGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACT
GAAGATTGAAAGATCAG
Found at i:17878760 original size:43 final size:46
Alignment explanation
Indices: 17878698--17878792 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 46
17878688 AGCCCCAAGC
* * *
17878698 CTTATC-TCTCTGAGGTAGC-AAGAGAGTAGGTTAAAGATTG-AG-T
1 CTTATCTTCTCTGAGATAGCAAAGA-AGGAGATTAAAGATTGAAGAT
17878741 CTTATCTTC-CTGAGATAGCAAAGAAGGAGATTAAAGATTGAAGAT
1 CTTATCTTCTCTGAGATAGCAAAGAAGGAGATTAAAGATTGAAGAT
17878786 CTTATCT
1 CTTATCT
17878793 CCCTAAACAG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
43 29 0.64
44 8 0.18
45 8 0.18
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (46 bp):
CTTATCTTCTCTGAGATAGCAAAGAAGGAGATTAAAGATTGAAGAT
Found at i:17883147 original size:19 final size:19
Alignment explanation
Indices: 17883125--17883166 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
17883115 CTTTCTTTTA
17883125 CATT-CATTCCATACATTTG
1 CATTGCATTCCAT-CATTTG
*
17883144 CATTGCATTGCATCATTTG
1 CATTGCATTCCATCATTTG
17883163 CATT
1 CATT
17883167 AGATTTTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.43
Consensus pattern (19 bp):
CATTGCATTCCATCATTTG
Found at i:17887632 original size:64 final size:64
Alignment explanation
Indices: 17887531--17887658 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
17887521 TATATCATAA
17887531 CACATCTAGTTAGGAGCAGTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCAGTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
17887595 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCAGTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
17887659 AGATACATGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCAGTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:17887830 original size:44 final size:44
Alignment explanation
Indices: 17887775--17888272 Score: 347
Period size: 44 Copynumber: 11.0 Consensus size: 44
17887765 GCTACAAATC
* * *
17887775 ACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * ** *
17887819 ACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGCCTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * *
17887863 AGCAAATCTTATTTCCCTGAAGATGCAGTGGAACAGATTGAAGCTACAAAT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-----T
* * *
17887914 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTT
1 -ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
** * * *
17887959 ACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * *
17888003 AGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * * * *
17888048 ACAAATCCTATAC-CTCTGAAGTTTCAGTAGG-TCGGA-TCAAATCT
1 ACAAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGT-T
* * * * * **
17888092 ACCATGGTGGATCTTATCTTCCTGAATTTGTAGTGGAGTAGATTGAAGCC
1 A-CA-----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * *** *
17888142 ACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAGGCCGAAATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * **
17888186 ACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGCCTGAA-TAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-T
*
17888230 ATCAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
17888273 CTATAAATTA
Statistics
Matches: 349, Mismatches: 81, Indels: 46
0.73 0.17 0.10
Matches are distributed among these distances:
43 4 0.01
44 168 0.48
45 112 0.32
49 5 0.01
50 20 0.06
51 39 0.11
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
Found at i:17887980 original size:140 final size:140
Alignment explanation
Indices: 17887728--17888054 Score: 528
Period size: 140 Copynumber: 2.3 Consensus size: 140
17887718 GAATTTGCAG
* *
17887728 ATCTTGTCTCCCTGAAGATGCAGTGGAACAAATTGAAGCTACAAATCACAAACCTTATCTCCCTG
1 ATCTTATCTCCCTGAAGATGCAGTGGAACAGATTGAAGCTACAAATCACAAACCTTATCTCCCTG
* * * *
17887793 AAGTTGCAGTGAAGCAGGTTGAAGTTACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGCCTG
66 AAGTTGCAGTGAAGCAGGTTGAAGTTACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
17887858 AAGATAGCAA
131 AAGATAGCAA
*
17887868 ATCTTATTTCCCTGAAGATGCAGTGGAACAGATTGAAGCTACAAATCACAAACCTTATCTCCCTG
1 ATCTTATCTCCCTGAAGATGCAGTGGAACAGATTGAAGCTACAAATCACAAACCTTATCTCCCTG
* *
17887933 AAGTTGCAGTGGAGTAGGTTGAAGTTACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
66 AAGTTGCAGTGAAGCAGGTTGAAGTTACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
17887998 AAGATAGCAA
131 AAGATAGCAA
* * * * *
17888008 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATC
1 ATCTTATCTCCCTGAAGATGCAGTGGAACAGATTGAAGCTACAAATC
17888055 CTATACCTCT
Statistics
Matches: 172, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 172 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (140 bp):
ATCTTATCTCCCTGAAGATGCAGTGGAACAGATTGAAGCTACAAATCACAAACCTTATCTCCCTG
AAGTTGCAGTGAAGCAGGTTGAAGTTACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
AAGATAGCAA
Found at i:17888009 original size:96 final size:96
Alignment explanation
Indices: 17887825--17888010 Score: 248
Period size: 96 Copynumber: 1.9 Consensus size: 96
17887815 AGTTACGAGT
* *
17887825 CTTATCTCCCTGAAGTTGCAGTGGAGCAGCCTGAAGATAGCAAATCTTATTTCCCTGAAGATGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGCCTGAAGATAGCAAACCTTATCTCCCTGAAGATGCA
* * *
17887890 GTGGAACAGATTGAAGCTACAAATCACAAAC
66 GTGGAACAGACTAAAGATACAAATCACAAAC
* ** * * *
17887921 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTA-CAAGCCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGCCTGAAGATAGCAAACCTTATCTCCCTGAAGATGCA
*
17887985 GTGGAGCAGACTAAAGATAGCAAATC
66 GTGGAACAGACTAAAGATA-CAAATC
17888011 TTATCTCTCT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 36 0.47
96 41 0.53
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (96 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGCCTGAAGATAGCAAACCTTATCTCCCTGAAGATGCA
GTGGAACAGACTAAAGATACAAATCACAAAC
Found at i:17890218 original size:20 final size:20
Alignment explanation
Indices: 17890189--17890241 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
17890179 TTTCTTTATT
*
17890189 TATTTATTTTATAATCAGTC
1 TATTTTTTTTATAATCAGTC
*
17890209 TATTTTTTTTATAATCAGTT
1 TATTTTTTTTATAATCAGTC
17890229 TATTTTATTTTAT
1 TATTTT-TTTTAT
17890242 TTTTTACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (20 bp):
TATTTTTTTTATAATCAGTC
Found at i:17890493 original size:16 final size:18
Alignment explanation
Indices: 17890472--17890512 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17890462 TTTATTTCAA
17890472 ATTTTACATAAT-A-TAT
1 ATTTTACATAATCATTAT
17890488 ATTTTA-ATAATCATTTAT
1 ATTTTACATAATCA-TTAT
17890506 ATTTTAC
1 ATTTTAC
17890513 TAGTTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
18 9 0.43
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTACATAATCATTAT
Found at i:17892677 original size:189 final size:183
Alignment explanation
Indices: 17892329--17892679 Score: 463
Period size: 189 Copynumber: 1.9 Consensus size: 183
17892319 TGAATGCCCA
* *
17892329 TTTTGTGATAAGGTGTTTCAATAGGGTCAAGCACTTGGTAGCCATAAAAAATTTCATTTTGGTTA
1 TTTTGTGATAAGGTGTTTCAACAGGGTCAAGCACTTGGTAGCCATAAAAAAGTTCATTTTGGTTA
* * * * * *
17892394 CCACCAGTTGCTTATAATAAGATTTTCATTAAGTCGTCTATTGTTTAACCATTTGATCTTAATTT
66 CCACCAGTTGCTCATAATAAGACTTTAATCAAGTCGTCTATTATTTAACCATTCGATCTTAATTT
*
17892459 ACTAACTTCAGAACAACATGTTAATGAAGTTAACTTAGCTCTGCTAATGCTCG
131 ACTAACTTCAGAACAACATGATAATGAAGTTAACTTAGCTCTGCTAATGCTCG
* * * *
17892512 TTTTGTGATAAGGTGTTTCAACCGGGTCAAGCA-TTTGTGGCCATAAGAAAGTTCATTTTGGTTA
1 TTTTGTGATAAGGTGTTTCAACAGGGTCAAGCACTTGGTAGCCATAAAAAAGTTCATTTTGGTTA
* *
17892576 CTTACCATCGGTTGCTCATAATAAGACTTTAATCAAGTCGCCATCTATTATTTAGCCATTCGATC
66 C-CACCA---GTTGCTCATAATAAGACTTTAATCAAGTCG---TCTATTATTTAACCATTCGATC
* *
17892641 TTAATTTA-TCAAGTTCAGAACAAGATGATAATGAAGTTA
124 TTAATTTACT-AACTTCAGAACAACATGATAATGAAGTTA
17892680 GCCTAGTTCT
Statistics
Matches: 143, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
182 28 0.20
183 35 0.24
186 26 0.18
188 1 0.01
189 53 0.37
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (183 bp):
TTTTGTGATAAGGTGTTTCAACAGGGTCAAGCACTTGGTAGCCATAAAAAAGTTCATTTTGGTTA
CCACCAGTTGCTCATAATAAGACTTTAATCAAGTCGTCTATTATTTAACCATTCGATCTTAATTT
ACTAACTTCAGAACAACATGATAATGAAGTTAACTTAGCTCTGCTAATGCTCG
Found at i:17893032 original size:26 final size:26
Alignment explanation
Indices: 17892997--17893046 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17892987 ATATATGTGA
*
17892997 TTTTACATATT-TAATATTTAATTAAT
1 TTTTAAATATTAT-ATATTTAATTAAT
*
17893023 TTTTAAATATTATATTTTTAATTA
1 TTTTAAATATTATATATTTAATTA
17893047 TAATAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTAAATATTATATATTTAATTAAT
Found at i:17893485 original size:18 final size:17
Alignment explanation
Indices: 17893456--17893489 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
17893446 TAGCTGTAAA
17893456 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
17893473 TTAAATGTATAATTATT
1 TTAAAT-TATAATTATT
17893490 AGAAGTCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Done.