Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 92 of 325
Found at i:29347465 original size:22 final size:22
Alignment explanation
Indices: 29347438--29347559 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
29347428 CATGTGTATG
29347438 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
29347460 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
29347485 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
29347507 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
29347532 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
29347554 TGTGAT
1 TGTGAT
29347560 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:29351390 original size:43 final size:43
Alignment explanation
Indices: 29351335--29351499 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
29351325 TATTGAGATG
*
29351335 TGATTACATGTAAGACCATGTCTAGGACATTGGCATTA-T-AT
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATTATTAAT
*
29351376 TGAGATTAT-GTGTAAGACCATGTC-AGGGACATTGGCATTATTAAT
1 T--GATT-TCATGTAAGACCATGTCTA-GGACATTGGCATTATTAAT
* * * * * *
29351421 TGATTTCATGTAAGACCCTGTCTAGGACAGTGGTATCAATAAG
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATTATTAAT
** * * *
29351464 TGATAGCATGTAAGACCATATCTGGGATA-TGGCATT
1 TGATTTCATGTAAGACCATGTCTAGGACATTGGCATT
29351500 GTACAAGCTA
Statistics
Matches: 99, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 86 0.87
44 2 0.02
45 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTAGGACATTGGCATTATTAAT
Found at i:29354677 original size:41 final size:43
Alignment explanation
Indices: 29354609--29354714 Score: 126
Period size: 41 Copynumber: 2.5 Consensus size: 43
29354599 TGGCATTGGT
* * * * * *
29354609 ATATGTGATTACGTGTAAAATCATGTCTGGGACATTTGCATC-
1 ATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCATCA
* *
29354651 GTATTTGATT-CATGTAAGACCCTGTCTGGGACAGTGGCATCA
1 ATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCATCA
29354693 ATATGTGATTACATGTAAGACC
1 ATATGTGATTACATGTAAGACC
29354715 ACGTCTACGA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 25 0.48
42 16 0.31
43 11 0.21
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCCTGTCTGGGACAGTGGCATCA
Found at i:29358595 original size:20 final size:21
Alignment explanation
Indices: 29358545--29358595 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
29358535 ACCCATCCCC
*
29358545 ATGCAATATGTCATACATCGT
1 ATGCAATATATCATACATCGT
29358566 AT-C-ATAATATCATACAT-GT
1 ATGCAAT-ATATCATACATCGT
29358585 ATGCAATATAT
1 ATGCAATATAT
29358596 ATAATATGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 6 0.23
20 16 0.62
21 4 0.15
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (21 bp):
ATGCAATATATCATACATCGT
Found at i:29361713 original size:43 final size:41
Alignment explanation
Indices: 29361650--29361730 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
29361640 TGAGATTATG
* * *
29361650 TGTAAGACCCTGTCTGGGATAGAGGCATCGTTATGTGATAACA
1 TGTAAGACCATATCTAGGATA-AGGCATCG-TATGTGATAACA
* *
29361693 TGTAAGACCATATCTAGGATATGGCATTGTATGTGATA
1 TGTAAGACCATATCTAGGATAAGGCATCGTATGTGATA
29361731 TATGTGTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 9 0.27
42 6 0.18
43 18 0.55
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.31
Consensus pattern (41 bp):
TGTAAGACCATATCTAGGATAAGGCATCGTATGTGATAACA
Found at i:29368826 original size:25 final size:27
Alignment explanation
Indices: 29368791--29368851 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
29368781 TAGATAATGA
29368791 AAAAATAATGA-ATAAATG-AAATTTGT
1 AAAAATAATGATA-AAATGAAAATTTGT
29368817 AAAAA-AATGATAAAATGAAAATTTGATT
1 AAAAATAATGATAAAATGAAAATTTG--T
29368845 AAAAATA
1 AAAAATA
29368852 TTCAAGTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 10 0.33
26 13 0.43
28 6 0.20
29 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (27 bp):
AAAAATAATGATAAAATGAAAATTTGT
Found at i:29375612 original size:15 final size:15
Alignment explanation
Indices: 29375592--29375624 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
29375582 CTATTAAATT
29375592 ACACAATGTAAGTTA
1 ACACAATGTAAGTTA
29375607 ACACAATGTAAGTTA
1 ACACAATGTAAGTTA
29375622 ACA
1 ACA
29375625 TGATATTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.24
Consensus pattern (15 bp):
ACACAATGTAAGTTA
Found at i:29376094 original size:43 final size:43
Alignment explanation
Indices: 29376033--29376118 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
29376023 GTCACAGGCA
*
29376033 TCGCATCCACAATGAACTCAAACCACTCAACGAGCTGGAATGC
1 TCGCATCCACAATGAACTCAAACCACTCAACGAGCTCGAATGC
* **
29376076 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCGAATGC
1 TCGCATCCACAATGAACTCAAACCACTCAACGAGCTCGAATGC
29376119 CACATATCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (43 bp):
TCGCATCCACAATGAACTCAAACCACTCAACGAGCTCGAATGC
Found at i:29379649 original size:29 final size:29
Alignment explanation
Indices: 29379612--29379694 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
29379602 AATCTCATTT
*
29379612 ATATGGCCCATCAGGCCCAATTTACATCC
1 ATATGGCCCATCAGGCCCAATTCACATCC
* * * *
29379641 ATATGGCCCACCAGACCCAATTCATATTC
1 ATATGGCCCATCAGGCCCAATTCACATCC
* * * *
29379670 ATTTGTCCCATTAGGCCCAAATCAC
1 ATATGGCCCATCAGGCCCAATTCAC
29379695 CTTTATATGG
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.29, C:0.34, G:0.12, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATCAGGCCCAATTCACATCC
Found at i:29380257 original size:34 final size:34
Alignment explanation
Indices: 29380219--29380286 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
29380209 AAATCTGACA
29380219 TAGTCTCTGCATCTAGGCAGAAAGTCCCTAACGG
1 TAGTCTCTGCATCTAGGCAGAAAGTCCCTAACGG
29380253 TAGTCTCTGCATCTAGGCAGAAAGTCCCTAACGG
1 TAGTCTCTGCATCTAGGCAGAAAGTCCCTAACGG
29380287 CTGACACCTT
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:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (34 bp):
TAGTCTCTGCATCTAGGCAGAAAGTCCCTAACGG
Found at i:29389690 original size:43 final size:43
Alignment explanation
Indices: 29389629--29389710 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
29389619 CAGGCATCGT
*
29389629 ATCCATAATGAACTCGGACCAGTCAACGAGCTCGGATGCTCTC
1 ATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCTC
29389672 ATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
1 ATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
29389711 CACATATCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (43 bp):
ATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCTCTC
Found at i:29393303 original size:27 final size:26
Alignment explanation
Indices: 29393243--29393349 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
29393233 CATGGCTGCC
* *
29393243 AGAACAGATAATGTGACAGAGTCA-A
1 AGAACAGATAATGTGGCAGAGCCACA
* *
29393268 CTGATACAGATAATCGTGGCAGTGCCACA
1 -AGA-ACAGATAAT-GTGGCAGAGCCACA
* *
29393297 AGAACAGATATATGTGACAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACA
* * *
29393324 AGATCAAATAATTGTGGCATAGCCAC
1 AGAACAGATAA-TGTGGCAGAGCCAC
29393350 CAGGATGCTT
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
26 3 0.05
27 47 0.73
28 13 0.20
29 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACA
Found at i:29394543 original size:16 final size:16
Alignment explanation
Indices: 29394518--29394550 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29394508 CTAAAAGAAA
29394518 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
29394534 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
29394550 A
1 A
29394551 GAATTTGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:29401169 original size:27 final size:26
Alignment explanation
Indices: 29401111--29401215 Score: 77
Period size: 27 Copynumber: 3.9 Consensus size: 26
29401101 TGGTTGCCAG
* ** *
29401111 AACAGATAATATGATAGAGTCACCAGA
1 AACAGATAATGTGGCAGAGCCACCA-A
* *
29401138 TACAGATAATCGTGGCAGTGCCA-CAA
1 AACAGATAAT-GTGGCAGAGCCACCAA
*
29401164 GAACAGATATATGTGACAGAGCCACCAA
1 -AACAGATA-ATGTGGCAGAGCCACCAA
* *
29401192 ATCAGATAATTGTGGCATAGCCAC
1 AACAGATAA-TGTGGCAGAGCCAC
29401216 TAGGACGCTT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
26 2 0.03
27 47 0.77
28 12 0.20
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAA
Found at i:29403297 original size:53 final size:53
Alignment explanation
Indices: 29403214--29403358 Score: 202
Period size: 53 Copynumber: 2.7 Consensus size: 53
29403204 TTCTTTAAAT
* * * *
29403214 TTTCCTATATGATGTCATAACCTACCAGTTAC-AGTCTTACACGATATGGTCTTG
1 TTTCC-ATATGATGTCATAACCCACCAGTTACGA-TCTTACACAATATGGTATTC
*
29403268 TTTCCATATGATGTCATAACCCACTAGTTACGATCTTACACAATATGGTATTC
1 TTTCCATATGATGTCATAACCCACCAGTTACGATCTTACACAATATGGTATTC
* *
29403321 TTTCCATATGATGTCATAACCCATCAGTTAAGATCTTA
1 TTTCCATATGATGTCATAACCCACCAGTTACGATCTTA
29403359 TATGATTTGG
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 76 0.93
54 6 0.07
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (53 bp):
TTTCCATATGATGTCATAACCCACCAGTTACGATCTTACACAATATGGTATTC
Found at i:29404407 original size:16 final size:16
Alignment explanation
Indices: 29404386--29404420 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
29404376 TTAAGGTTGG
29404386 AATTGAATAGAGCTGT
1 AATTGAATAGAGCTGT
29404402 AATTGAATAGAGCTGT
1 AATTGAATAGAGCTGT
29404418 AAT
1 AAT
29404421 CAGTAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (16 bp):
AATTGAATAGAGCTGT
Found at i:29409863 original size:22 final size:22
Alignment explanation
Indices: 29409824--29409946 Score: 115
Period size: 22 Copynumber: 5.5 Consensus size: 22
29409814 GAGTCATGGT
*
29409824 CAGTAAGCTCCT-TCGAGCTGAA
1 CAGTAAGCT-CTATTGAGCTGAA
29409846 CAGTAAGCTCTATTGAGCTGAA
1 CAGTAAGCTCTATTGAGCTGAA
* * *
29409868 -ATGGTAAGCTCTAATAAGTTGAA
1 CA--GTAAGCTCTATTGAGCTGAA
*
29409891 TAGTAAGCTCTATTGAGCTGAA
1 CAGTAAGCTCTATTGAGCTGAA
* * *
29409913 CAATAAGCTCCAATGAGCTGAAA
1 CAGTAAGCTCTATTGAGCTG-AA
*
29409936 TAGTAAGCTCT
1 CAGTAAGCTCT
29409947 TACGAGCTAT
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
21 3 0.04
22 51 0.62
23 27 0.33
24 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (22 bp):
CAGTAAGCTCTATTGAGCTGAA
Found at i:29409896 original size:45 final size:44
Alignment explanation
Indices: 29409839--29409946 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 44
29409829 AGCTCCTTCG
* * *
29409839 AGCTGAACAGTAAGCTCTATTGAGCTGAA-ATGGTAAGCTCTAATA
1 AGCTGAATAGTAAGCTCTATTGAGCTGAACA--ATAAGCTCCAATA
* *
29409884 AGTTGAATAGTAAGCTCTATTGAGCTGAACAATAAGCTCCAATG
1 AGCTGAATAGTAAGCTCTATTGAGCTGAACAATAAGCTCCAATA
29409928 AGCTGAAATAGTAAGCTCT
1 AGCTG-AATAGTAAGCTCT
29409947 TACGAGCTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 14 0.25
45 40 0.73
46 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (44 bp):
AGCTGAATAGTAAGCTCTATTGAGCTGAACAATAAGCTCCAATA
Found at i:29415882 original size:51 final size:51
Alignment explanation
Indices: 29415827--29415926 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
29415817 CTACCACATA
*
29415827 ACATGTAA-CACATCCATAATGAACTCGGACCTCTCAACAAGCTTGGATGTT
1 ACATG-AATCACATCCATAATGAACTCAGACCTCTCAACAAGCTTGGATGTT
* * *
29415878 ACATGAATCGCATCCATTATGAACTCAGACCTCTCAACGAGCTTGGATG
1 ACATGAATCACATCCATAATGAACTCAGACCTCTCAACAAGCTTGGATG
29415927 CTCGCATCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 42 0.95
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCAGACCTCTCAACAAGCTTGGATGTT
Found at i:29420916 original size:51 final size:50
Alignment explanation
Indices: 29420796--29421040 Score: 296
Period size: 49 Copynumber: 4.9 Consensus size: 50
29420786 GCTATTGTGA
* *
29420796 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGAT-ATTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* * * *
29420845 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTC
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTC
* * * ** *
29420896 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* **
29420946 GGTCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACTGGATAATT-
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* * * *
29420995 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
29421041 GCTTCGGCTA
Statistics
Matches: 163, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 79 0.48
50 44 0.27
51 40 0.25
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTC
Found at i:29420992 original size:101 final size:98
Alignment explanation
Indices: 29420798--29421027 Score: 309
Period size: 100 Copynumber: 2.3 Consensus size: 98
29420788 TATTGTGAGG
* * * *
29420798 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATATTTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATATTAGGTCACATGTGTACTACT
*
29420863 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCTGATAA-TT-GA
* * *
29420898 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTACTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGAT-ATTAGGTCACATGTGTACTAC
* *
29420963 TAAGTGCAGGCTACTACGTGTA-CTGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCT-GATAATTGA
* *
29420997 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
29421028 TGCGTACCAG
Statistics
Matches: 116, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
99 30 0.26
100 44 0.38
101 42 0.36
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATATTAGGTCACATGTGTACTACT
AAGTGCAGGCTACTACGCGTACCTGATAATTGA
Found at i:29426382 original size:49 final size:51
Alignment explanation
Indices: 29426305--29426447 Score: 191
Period size: 49 Copynumber: 2.8 Consensus size: 51
29426295 TATTGTGAGG
* * *
29426305 TCACGTGTGTAGTACTAACTGCAGGCTACTACGTGTACCAGATAA-TT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTTCGA
* * * *
29426354 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTTCGA
* *
29426405 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
29426448 GGTTAGTGTG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 39 0.49
50 2 0.03
51 38 0.48
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (51 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTTCGA
Found at i:29428109 original size:40 final size:40
Alignment explanation
Indices: 29428051--29428246 Score: 270
Period size: 40 Copynumber: 4.9 Consensus size: 40
29428041 GGACTAAGAT
* *
29428051 CCAAAGGCATTTGTGCTAGTGATTATATCCGGGTTAAGTC
1 CCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
29428091 CCGAAGGCATTTGTGCTAGTGATTATATTCGGGCTAAGTC
1 CCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
29428131 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
29428171 CCAAAGGCATTTGTGCTAGTGGCTATGTCCGGGCTAAGTC
1 CCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
** *
29428211 CCAAAGGCATTCATGCGAGTTG-CTATATCC-GGCTAA
1 CCAAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
29428247 ATTCCGAAGG
Statistics
Matches: 143, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 6 0.04
40 135 0.94
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCAAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:29432799 original size:68 final size:68
Alignment explanation
Indices: 29432649--29432806 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
29432639 CTAGCCAATT
* * *
29432649 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
29432714 TTTA
65 CATA
* * *
29432718 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
29432780 CTACATA
63 C-ACATA
*
29432787 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
29432807 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:29437275 original size:40 final size:40
Alignment explanation
Indices: 29437221--29437454 Score: 353
Period size: 40 Copynumber: 5.9 Consensus size: 40
29437211 GATATAGCTT
*
29437221 CTCGCTCAAATGCCTTCGAGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAA
* *
29437261 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAA
* * * *
29437301 CTAGCACAATTGCCTTCGGGACTTAGCCCGATTATAGTAA
1 CTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAA
* * * *
29437341 CTCGCACAATTGCCTTCGGGACTTGGCCAGGTTATAGTAA
1 CTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAA
*
29437381 CTCGCACAAATGCCTTCGAGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAA
29437421 CTCGCACAAATGCCTTCGAG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGAGACTTAGCCCGGTTAT
29437455 CAATCCGAAT
Statistics
Matches: 179, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.07
40 166 0.93
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTAA
Found at i:29445251 original size:40 final size:40
Alignment explanation
Indices: 29445207--29445436 Score: 380
Period size: 40 Copynumber: 5.9 Consensus size: 40
29445197 GATATAGCTT
*
29445207 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
29445247 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
29445287 CTCGCACAATTGCCTTC-GGACTTAG-CCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
29445325 CTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
29445365 CTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
29445404 CTCGCACAAATGCCTTC-GG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
29445437 CAATCCGAAT
Statistics
Matches: 180, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
37 10 0.06
38 33 0.18
39 39 0.22
40 98 0.54
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:29445322 original size:78 final size:80
Alignment explanation
Indices: 29445207--29445436 Score: 380
Period size: 78 Copynumber: 2.9 Consensus size: 80
29445197 GATATAGCTT
* *
29445207 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
29445272 GCCCGGTTATAGTAA
66 GCCCGGTTATAGTAA
* *
29445287 CTCGCACAATTGCCTTC-GGACTTAG-CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTG
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
29445350 GCCCGGTTATAGTAA
66 GCCCGGTTATAGTAA
*
29445365 CTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATAGTAACTCGCACAAATGCCTTC-GG-CTTA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
29445427 GCCCGGTTAT
66 GCCCGGTTAT
29445437 CAATCCGAAT
Statistics
Matches: 141, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
77 13 0.09
78 69 0.49
79 40 0.28
80 19 0.13
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (80 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
GCCCGGTTATAGTAA
Found at i:29445389 original size:118 final size:116
Alignment explanation
Indices: 29445181--29445436 Score: 388
Period size: 118 Copynumber: 2.2 Consensus size: 116
29445171 AAACCAAGTA
* * * *
29445181 CCTTCGGGTTTAGCCGGATATAGCTTCTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 CCTTC-GGCTTAGCCGGTTATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
29445246 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
65 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATAGTAACTCGCACAAATG
*
29445299 CCTTCGGACTTAGCCGGTTATAG-TAACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAGT
1 CCTTCGG-CTTAGCCGGTTATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
29445363 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
64 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
29445416 CCTTCGGCTTAGCCCGGTTAT
1 CCTTCGGCTTAG-CCGGTTAT
29445437 CAATCCGAAT
Statistics
Matches: 127, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
116 5 0.04
117 36 0.28
118 86 0.68
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (116 bp):
CCTTCGGCTTAGCCGGTTATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
CTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
Found at i:29453253 original size:40 final size:40
Alignment explanation
Indices: 29453199--29453392 Score: 309
Period size: 40 Copynumber: 4.9 Consensus size: 40
29453189 GATATAGCTT
* *
29453199 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
29453239 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
29453279 CTAGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
29453319 CTCGCACAATTTCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
29453359 CTCGCACAAATGCCTTCGGG-CTTCGCTCGGTTAT
1 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTAT
29453393 CAATCCGAAT
Statistics
Matches: 144, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.08
40 132 0.92
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (40 bp):
CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:29459475 original size:68 final size:68
Alignment explanation
Indices: 29459308--29459483 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 68
29459298 TAGTACCACC
* * *
29459308 CATGTGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTAGAAT
1 CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TAGAAT
29459370 CACA
65 CACA
** * * *
29459374 CATGTGACCTAGCTACATTTATCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGTGACCTAGCTACACATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTAGA
29459436 ATCACA
63 ATCACA
*
29459442 CATGTGACCTAGCTACTACATAGTATCTCGTAGCTTTCTTGT
1 CATGTGACCTAGCTAC-ACATA-TATCTCGTAGCTCTCTTGT
29459484 ACACATGATG
Statistics
Matches: 91, Mismatches: 11, Indels: 14
0.78 0.09 0.12
Matches are distributed among these distances:
66 13 0.14
68 38 0.42
69 8 0.09
70 6 0.07
71 26 0.29
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (68 bp):
CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTAGAATC
ACA
Found at i:29462714 original size:24 final size:24
Alignment explanation
Indices: 29462687--29462734 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
29462677 AGCTAAGAGA
29462687 AGGAATAGAAATTTGTTTGACATG
1 AGGAATAGAAATTTGTTTGACATG
*
29462711 AGGAATAGAACTTTGTTTGACATG
1 AGGAATAGAAATTTGTTTGACATG
29462735 GTTTTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (24 bp):
AGGAATAGAAATTTGTTTGACATG
Found at i:29466280 original size:19 final size:19
Alignment explanation
Indices: 29466247--29466286 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
29466237 AAAATATCAT
*
29466247 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
29466266 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
29466285 AT
1 AT
29466287 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:29468396 original size:61 final size:61
Alignment explanation
Indices: 29468321--29468443 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
29468311 CCATCATCAA
29468321 ACATCCATAGCCACAACACATTCCATCACATACATACAATAATCAACCACATTACAATTGC
1 ACATCCATAGCCACAACACATTCCATCACATACATACAATAATCAACCACATTACAATTGC
29468382 ACATCCATAGCCACAACACATTCCATCACATACATACAATAATCAACCACATTACAATTGC
1 ACATCCATAGCCACAACACATTCCATCACATACATACAATAATCAACCACATTACAATTGC
29468443 A
1 A
29468444 TAGACACATG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.21
Consensus pattern (61 bp):
ACATCCATAGCCACAACACATTCCATCACATACATACAATAATCAACCACATTACAATTGC
Found at i:29475869 original size:21 final size:20
Alignment explanation
Indices: 29475837--29475881 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
29475827 GCCATTCAGC
*
29475837 CGTGTACAATAATACACGGG
1 CGTGTACAATAACACACGGG
*
29475857 CGTGCTACCATAACACACGGG
1 CGTG-TACAATAACACACGGG
29475878 CGTG
1 CGTG
29475882 GGAGAAGCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (20 bp):
CGTGTACAATAACACACGGG
Found at i:29477832 original size:19 final size:20
Alignment explanation
Indices: 29477808--29477853 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
29477798 CCTCCTATCT
29477808 TTTTATTCTTATTTT-TTTA
1 TTTTATTCTTATTTTATTTA
* *
29477827 TTTTATTTTTATTTTATTTT
1 TTTTATTCTTATTTTATTTA
29477847 TTTTATT
1 TTTTATT
29477854 TTCATTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTATTCTTATTTTATTTA
Found at i:29477847 original size:25 final size:25
Alignment explanation
Indices: 29477807--29477880 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 25
29477797 TCCTCCTATC
29477807 TTTTTATTCTTATTTTTTTATTTT-A
1 TTTTTATT-TTATTTTTTTATTTTCA
29477832 TTTTTATTTTATTTTTTTTATTTTCA
1 TTTTTATTTTA-TTTTTTTATTTTCA
** *
29477858 TTTCAATTTTATTATTTTATTTT
1 TTTTTATTTTATTTTTTTATTTT
29477881 GAAAGACATA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 3 0.07
25 31 0.70
26 10 0.23
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTATTTTATTTTTTTATTTTCA
Found at i:29477852 original size:20 final size:20
Alignment explanation
Indices: 29477807--29477880 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
29477797 TCCTCCTATC
*
29477807 TTTTTATTCTTATTTT-TTT
1 TTTTTATTTTTATTTTATTT
*
29477826 ATTTTATTTTTATTTTATTT
1 TTTTTATTTTTATTTTATTT
* * *
29477846 TTTTTATTTTCATTTCAATT
1 TTTTTATTTTTATTTTATTT
*
29477866 TTATTA-TTTTATTTT
1 TTTTTATTTTTATTTT
29477881 GAAAGACATA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 21 0.47
20 24 0.53
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTATTTTTATTTTATTT
Found at i:29477860 original size:6 final size:5
Alignment explanation
Indices: 29477808--29477880 Score: 66
Period size: 5 Copynumber: 14.8 Consensus size: 5
29477798 CCTCCTATCT
29477808 TTTTA TTCTTA -TTT- TTTTA TTTTA TTTTTA TTTTA TTTT- TTTTA TTTTCA
1 TTTTA TT-TTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT-A
*
29477858 TTTCAA TTTTA --TTA TTTTA TTTT
1 TTT-TA TTTTA TTTTA TTTTA TTTT
29477881 GAAAGACATA
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
3 3 0.05
4 9 0.16
5 29 0.51
6 16 0.28
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:29480783 original size:13 final size:13
Alignment explanation
Indices: 29480767--29480799 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29480757 TTTAATTAAA
*
29480767 TTAGTTAATTAGT
1 TTAGATAATTAGT
29480780 TTAGATAATTAGT
1 TTAGATAATTAGT
29480793 TTA-ATAA
1 TTAGATAA
29480800 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:29484591 original size:14 final size:14
Alignment explanation
Indices: 29484569--29484611 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
29484559 TTTCATTTTG
29484569 TAACATAAAATTAT
1 TAACATAAAATTAT
*
29484583 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
29484596 TAACACAAAATAAT
1 TAACATAAAATTAT
29484610 TA
1 TA
29484612 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:29484605 original size:13 final size:13
Alignment explanation
Indices: 29484569--29484607 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
29484559 TTTCATTTTG
29484569 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
29484583 TAGCATAAAATAT
1 TAACATAAAATAT
*
29484596 TAACACAAAATA
1 TAACATAAAATA
29484608 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:29488795 original size:68 final size:64
Alignment explanation
Indices: 29488678--29488932 Score: 230
Period size: 68 Copynumber: 3.9 Consensus size: 64
29488668 ATACAGATGG
** * * *
29488678 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACGAGACAT
1 TATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTGTACAAGAGAGCTACGAG--A-
29488743 TA
63 TA
* * * *
29488745 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGT-GTACAAGAGAGCTACGAGAT
29488809 A
64 A
* * * * * * *
29488810 TATGTAGCTAGATCGCATGCGTGGTTCTAGGTGAAGGACACAATGTAG-ACAAGAGAGCTACGAG
1 TATGTAGCTAGGTCACATGGGTGGTACTAAGT---GTACACCATGT-GTACAAGAGAGCTACGAG
29488874 ATA
62 ATA
* *
29488877 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGCTA
1 TA-TGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTGTACAAGAGAGCTA
29488933 AAATTATGTG
Statistics
Matches: 155, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.13
64 26 0.17
65 3 0.02
66 22 0.14
67 31 0.20
68 51 0.33
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTGTACAAGAGAGCTACGAGATA
Found at i:29491686 original size:42 final size:43
Alignment explanation
Indices: 29491617--29491698 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
29491607 GAGATTTACA
*
29491617 TGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTTTG
1 TGTAAGACCATGTCTGGGACATCGGCATCGATACTTGATTTTG
* * *
29491659 TGTAAGACCCTGTTTGGGATAGT-GGCATCGATACTTGATT
1 TGTAAGACCATGTCTGGGACA-TCGGCATCGATACTTGATT
29491699 ACATGTAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 25 0.74
43 9 0.26
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATACTTGATTTTG
Found at i:29504996 original size:46 final size:46
Alignment explanation
Indices: 29504946--29505121 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
29504936 TGGCTGAGCA
*
29504946 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
29504992 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
29505039 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
29505085 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29505122 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 65 0.59
47 28 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:29505102 original size:93 final size:93
Alignment explanation
Indices: 29504943--29505113 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
29504933 GGATGGCTGA
* *
29504943 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
29505008 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
29505036 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
29505101 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
29505114 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:29506738 original size:85 final size:85
Alignment explanation
Indices: 29506632--29506804 Score: 312
Period size: 85 Copynumber: 2.0 Consensus size: 85
29506622 TCAACTTGCC
29506632 TTTTCGGCCAAATCTCAGAATCTTCTTCCATGGTGACACCTTCAAGAACACTTTATCACCCACCT
1 TTTTCGGCCAAATCTCAGAATCTTCTTCCATGGTGACACCTTCAAGAACACTTTATCACCCACCT
*
29506697 GAAATTCAATCTC-TTTTCTT
66 AAAATTCAATC-CATTTTCTT
*
29506717 TTTTCGGCCAAATCTTAGAATCTTCTTCCATGGTGACACCTTCAAGAACACTTTATCACCCACCT
1 TTTTCGGCCAAATCTCAGAATCTTCTTCCATGGTGACACCTTCAAGAACACTTTATCACCCACCT
29506782 AAAATTCAATCCATTTTCTT
66 AAAATTCAATCCATTTTCTT
29506802 TTT
1 TTT
29506805 AAATCTAAAT
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
84 1 0.01
85 84 0.99
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (85 bp):
TTTTCGGCCAAATCTCAGAATCTTCTTCCATGGTGACACCTTCAAGAACACTTTATCACCCACCT
AAAATTCAATCCATTTTCTT
Found at i:29514026 original size:25 final size:26
Alignment explanation
Indices: 29513970--29514027 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 26
29513960 CCGAAATTCT
29513970 GATA-TCATGGCCCGAAGCCAAATCAACC
1 GATATTCATGGCCCGAAGCCAAAT--A-C
29513998 GATATTCATGGCCCGAAGCCAAAT-C
1 GATATTCATGGCCCGAAGCCAAATAC
29514023 GATAT
1 GATAT
29514028 AACTCGCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.21
28 4 0.14
29 19 0.66
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (26 bp):
GATATTCATGGCCCGAAGCCAAATAC
Found at i:29519169 original size:31 final size:31
Alignment explanation
Indices: 29519133--29519194 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
29519123 ATTTTTAAAA
*
29519133 GAACTAATTTACTTAATATCAAAATTGAGAG
1 GAACTAATTTACTCAATATCAAAATTGAGAG
* *
29519164 GAACTAATTTGCTCAATTTCAAAATTGAGAG
1 GAACTAATTTACTCAATATCAAAATTGAGAG
29519195 AGTTAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (31 bp):
GAACTAATTTACTCAATATCAAAATTGAGAG
Found at i:29519646 original size:18 final size:21
Alignment explanation
Indices: 29519611--29519653 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
29519601 AATTTTATCC
29519611 TAAAAAATTATATAAAAAT-A
1 TAAAAAATTATATAAAAATAA
*
29519631 TAAAACATTAT-T-AAAATAA
1 TAAAAAATTATATAAAAATAA
29519650 TAAA
1 TAAA
29519654 TTAATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAAAAATTATATAAAAATAA
Found at i:29520899 original size:17 final size:17
Alignment explanation
Indices: 29520877--29520910 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29520867 AAGATTGTCC
*
29520877 AAAAATGGCAGAGAATA
1 AAAAATGACAGAGAATA
29520894 AAAAATGACAGAGAATA
1 AAAAATGACAGAGAATA
29520911 TTGTAGGACA
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:0.62, C:0.06, G:0.21, T:0.12
Consensus pattern (17 bp):
AAAAATGACAGAGAATA
Found at i:29523008 original size:13 final size:13
Alignment explanation
Indices: 29522990--29523019 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
29522980 TAAACAGGCC
29522990 ATGTGATATGGTT
1 ATGTGATATGGTT
29523003 ATGTGATATGGTT
1 ATGTGATATGGTT
29523016 ATGT
1 ATGT
29523020 TACGAGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (13 bp):
ATGTGATATGGTT
Found at i:29528084 original size:47 final size:47
Alignment explanation
Indices: 29527965--29528312 Score: 528
Period size: 47 Copynumber: 7.4 Consensus size: 47
29527955 CGGCCAAGAC
29527965 AAAGTGTATATATGTGATAAGG--TAAT-G--GATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29528007 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29528056 AAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29528102 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29528151 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
29528198 AAAGTGTATATATATGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * * * *
29528245 AAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
29528292 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
29528313 TCCCGAAGGG
Statistics
Matches: 282, Mismatches: 14, Indels: 15
0.91 0.05 0.05
Matches are distributed among these distances:
42 6 0.02
44 16 0.06
46 24 0.09
47 169 0.60
48 26 0.09
49 41 0.15
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (47 bp):
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:29528109 original size:95 final size:96
Alignment explanation
Indices: 29527965--29528312 Score: 554
Period size: 95 Copynumber: 3.7 Consensus size: 96
29527955 CGGCCAAGAC
29527965 AAAGTGTATATATGTGATAAGG--TAATGG---ATGTGATGAATGTGAAAGTGTATATATATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
29528025 ATAAGGCCTAATGGCCGATGTGATGAATGTG
66 ATAAGGCCTAATGGCCGATGTGATGAATGTG
29528056 AAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
29528120 ATAAGGCCTAATGGCCGATGTGATGAATGTG
66 ATAAGGCCTAATGGCCGATGTGATGAATGTG
*
29528151 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA--TG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
*
29528214 ATGAGGCCTAATGGCCGATGTGATGAATGTG
66 ATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * * *
29528245 AAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
29528308 ATAAG
66 ATAAG
29528313 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 9, Indels: 11
0.92 0.03 0.04
Matches are distributed among these distances:
91 22 0.09
92 1 0.00
93 7 0.03
94 88 0.37
95 95 0.39
96 28 0.12
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (96 bp):
AAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
ATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:29530588 original size:40 final size:40
Alignment explanation
Indices: 29530529--29530834 Score: 467
Period size: 40 Copynumber: 7.7 Consensus size: 40
29530519 AGGTCTCGAC
29530529 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
29530568 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
29530608 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
29530648 GATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
29530688 GATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
29530728 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
29530768 AATATATCCGTGCTAA-ACCTCGAAGAGCA-T-GTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
29530806 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
29530835 ATCATGCTGG
Statistics
Matches: 248, Mismatches: 16, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
38 28 0.11
39 8 0.03
40 212 0.85
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:29534274 original size:49 final size:47
Alignment explanation
Indices: 29534204--29534605 Score: 635
Period size: 47 Copynumber: 8.4 Consensus size: 47
29534194 CGGCCAAGAC
*
29534204 AAAGTGTATATATGTGTTAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
29534251 AAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
29534300 AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29534347 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29534396 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
29534445 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
29534492 AAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * *
29534539 AAAGTGTATATATGTGA-CAGGCCGAGTGGCCAATGTGATGGATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
29534585 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
29534606 TCCCGAAGGG
Statistics
Matches: 333, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
46 40 0.12
47 154 0.46
49 139 0.42
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:29534368 original size:96 final size:94
Alignment explanation
Indices: 29534204--29534605 Score: 635
Period size: 96 Copynumber: 4.2 Consensus size: 94
29534194 CGGCCAAGAC
*
29534204 AAAGTGTATATATGTGTTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
29534269 ATAAGGCCTAATAGCCGATGTGATGAATGTG
64 ATAAGGCCTAATAGCCGATGTGATGAATGTG
* *
29534300 AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
*
29534365 ATAAGGCCTAATGGCCGATGTGATGAATGTG
64 ATAAGGCCTAATAGCCGATGTGATGAATGTG
29534396 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
29534461 ATAAGGCCTAATAGCCGATGTGATGAATGTG
64 ATAAGGCCTAATAGCCGATGTGATGAATGTG
*
29534492 AAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
* * * * * *
29534556 CAGGCCGAGTGGCCAATGTGATGGATGTG
66 AAGGCCTAATAGCCGATGTGATGAATGTG
*
29534585 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
29534606 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
93 42 0.15
94 57 0.20
96 144 0.50
98 45 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCTAATAGCCGATGTGATGAATGTG
Found at i:29538608 original size:20 final size:20
Alignment explanation
Indices: 29538583--29538621 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29538573 ACAATTTCAA
29538583 TTATTTGAC-ACATTTACAAC
1 TTATTTGACAAC-TTTACAAC
*
29538603 TTATTTTACAACTTTACAA
1 TTATTTGACAACTTTACAA
29538622 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.44
Consensus pattern (20 bp):
TTATTTGACAACTTTACAAC
Found at i:29550170 original size:6 final size:6
Alignment explanation
Indices: 29550149--29550194 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
29550139 GTTTAAAAAC
* * *
29550149 TTTTTA TTTATTA TTTTTA TTTTTA TTTTCA CTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
29550195 ATCTTCGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:29550184 original size:18 final size:19
Alignment explanation
Indices: 29550149--29550197 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
29550139 GTTTAAAAAC
* *
29550149 TTTTTATTTATTATTTTTA
1 TTTTTATTTATCACTTTTA
29550168 TTTTTATTT-TCACTTTTA
1 TTTTTATTTATCACTTTTA
*
29550186 TCTTTATTTATC
1 TTTTTATTTATC
29550198 TTCGTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTATTTATCACTTTTA
Found at i:29555108 original size:17 final size:17
Alignment explanation
Indices: 29555086--29555119 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29555076 TTCTTTCTTC
*
29555086 ATGAACACCCATTTACA
1 ATGAACAACCATTTACA
*
29555103 ATGAACAACCTTTTACA
1 ATGAACAACCATTTACA
29555120 CTTAGGAAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.26
Consensus pattern (17 bp):
ATGAACAACCATTTACA
Found at i:29571711 original size:14 final size:14
Alignment explanation
Indices: 29571675--29571713 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
29571665 CCATGAGCAT
29571675 TTCTTTTCTTT-TA
1 TTCTTTTCTTTATA
29571688 TTCTTTTCTTTATA
1 TTCTTTTCTTTATA
29571702 -TCTCTTTCTTTA
1 TTCT-TTTCTTTA
29571714 ACATTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (14 bp):
TTCTTTTCTTTATA
Found at i:29573047 original size:23 final size:23
Alignment explanation
Indices: 29573021--29573070 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
29573011 ACCACATTGG
*
29573021 TAAGGCTACATATTCATACATCA
1 TAAGGATACATATTCATACATCA
* * *
29573044 TAAGTATAGATATTTATACATCA
1 TAAGGATACATATTCATACATCA
29573067 TAAG
1 TAAG
29573071 TATAGACCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (23 bp):
TAAGGATACATATTCATACATCA
Found at i:29573071 original size:23 final size:23
Alignment explanation
Indices: 29573030--29573076 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
29573020 GTAAGGCTAC
29573030 ATATTCATACATCATAAGTATAG
1 ATATTCATACATCATAAGTATAG
*
29573053 ATATTTATACATCATAAGTATAG
1 ATATTCATACATCATAAGTATAG
29573076 A
1 A
29573077 CCTATAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (23 bp):
ATATTCATACATCATAAGTATAG
Found at i:29574057 original size:27 final size:27
Alignment explanation
Indices: 29573955--29574059 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
29573945 AATACTTTAG
* *
29573955 TTTACCAAATTA-CTGAAATACCCTCAA
1 TTTACAAAATTATC-GAAATACCCTCGA
* ** * *
29573982 CTTGTAAAATTA-CCAAAGTACCCCCGA
1 TTTACAAAATTATCGAAA-TACCCTCGA
* ***
29574009 TTTACAGAATTATCGTTTTACCCTCGA
1 TTTACAAAATTATCGAAATACCCTCGA
*
29574036 TTTACAAAATTATTGAAATACCCT
1 TTTACAAAATTATCGAAATACCCT
29574060 TGTAGGGTAG
Statistics
Matches: 55, Mismatches: 21, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
26 3 0.05
27 51 0.93
28 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTATCGAAATACCCTCGA
Found at i:29574073 original size:27 final size:27
Alignment explanation
Indices: 29574043--29574183 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
29574033 CGATTTACAA
*
29574043 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
29574070 AATTACTGAAATACCCCTATAGGGTTG
1 AATTACTGAAATACCCTTGTAGGGTAG
29574097 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* ** *
29574124 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
29574151 AATTAGC-GAGATACCCTTGTGGGGTAA
1 AATTA-CTGAAATACCCTTGTAGGGTAG
29574178 AATTAC
1 AATTAC
29574184 CATTTTGCCC
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 94 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:29574101 original size:54 final size:54
Alignment explanation
Indices: 29574043--29574185 Score: 189
Period size: 54 Copynumber: 2.6 Consensus size: 54
29574033 CGATTTACAA
* ** *
29574043 AATTATTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTTG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
* *
29574097 AATTACTGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
* * *
29574151 AATTAGC-GAGATACCCTTGTGGGGTAAAATTACCA
1 AATTA-CTGAAATACCCTTGTAGGGTAGAATTACCA
29574186 TTTTGCCCCT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 77 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
Found at i:29574610 original size:22 final size:22
Alignment explanation
Indices: 29574579--29574636 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
29574569 ATTCTGAGTG
*
29574579 TGGCTTTGTGCCAACCT-ACATA
1 TGGCTCTGTGCCAACCTGA-ATA
*
29574601 TGGCTCTGTGCCAACCTGATTA
1 TGGCTCTGTGCCAACCTGAATA
*
29574623 TGGCTGTGTGCCAA
1 TGGCTCTGTGCCAA
29574637 ACGTACTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (22 bp):
TGGCTCTGTGCCAACCTGAATA
Found at i:29574969 original size:6 final size:6
Alignment explanation
Indices: 29574960--29575040 Score: 76
Period size: 6 Copynumber: 13.3 Consensus size: 6
29574950 TTGCATTCAC
* * *
29574960 ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TCACCAG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
29575009 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
29575041 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
5 2 0.03
6 54 0.90
7 3 0.05
8 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:29577097 original size:27 final size:27
Alignment explanation
Indices: 29576995--29577098 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
29576985 AATATTTTAG
* *
29576995 TTTACCAAATTATTGAAATACCCTCGA
1 TTTACAAAATTATCGAAATACCCTCGA
* ** * *
29577022 CTTGTAAAATTA-CCAAAGTACCCCCGA
1 TTTACAAAATTATCGAAA-TACCCTCGA
* * ***
29577049 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTATCGAAATACCCTCGA
*
29577076 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTATCGAAATACCC
29577099 CTGTAGGGTA
Statistics
Matches: 53, Mismatches: 22, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
26 3 0.06
27 49 0.92
28 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTATCGAAATACCCTCGA
Found at i:29577113 original size:27 final size:27
Alignment explanation
Indices: 29577090--29577191 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 27
29577080 CAAAATTATT
*
29577090 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
29577117 GAAATATCCCTGTAGGGTTGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
29577144 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
29577171 AAAATACCCCTTTAGGGTAGA
1 GAAATACCCCTGTAGGGTAGA
29577192 CGGATTTGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:29577141 original size:54 final size:54
Alignment explanation
Indices: 29577083--29577188 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
29577073 CGATTTACAA
* * ** *
29577083 AATTATTGAAATACCCCTGTAGGGTAGAATTACTGAAATATCCCTGTAGGGTTG
1 AATTATCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTTG
* *
29577137 AATTATCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTTTAGGGT
1 AATTATCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGT
29577189 AGACGGATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (54 bp):
AATTATCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTTG
Found at i:29577545 original size:22 final size:22
Alignment explanation
Indices: 29577514--29577573 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
29577504 ATTCTGATTG
*
29577514 TGGCTTTGTGCCAAACT-ACATA
1 TGGCTCTGTGCCAAACTGA-ATA
* *
29577536 TGGCTCTGTGCCAACCTGATTA
1 TGGCTCTGTGCCAAACTGAATA
*
29577558 TGGCTGTGTGCCAAAC
1 TGGCTCTGTGCCAAAC
29577574 GTACTTGCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (22 bp):
TGGCTCTGTGCCAAACTGAATA
Found at i:29577904 original size:6 final size:6
Alignment explanation
Indices: 29577895--29577974 Score: 65
Period size: 6 Copynumber: 13.0 Consensus size: 6
29577885 TTGCATTCAC
* * * *
29577895 ATTCTG ATTCTG ATTCTG -TTAGTTG ATGCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
29577945 ATTCTG ATTCTG ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
29577975 TCACCTGGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 3 0.05
6 49 0.84
7 4 0.07
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:29577926 original size:25 final size:25
Alignment explanation
Indices: 29577898--29577961 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
29577888 CATTCACATT
* ** *
29577898 CTGATTCTGATTCTGTTAGTTGATG
1 CTGATTCTGATTCTGTCACCTAATG
*
29577923 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATG
29577948 CTGATTCTGATTCT
1 CTGATTCTGATTCT
29577962 AATTCTGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATG
Found at i:29577948 original size:19 final size:19
Alignment explanation
Indices: 29577926--29577990 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
29577916 GTTGATGCTG
29577926 ATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGTCACCTA
*
29577945 ATTCTGATTCTG--ATTCTA
1 ATTCTGATTCTGTCA-CCTA
*
29577963 ATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGTCACCTA
*
29577982 GTTCTGATT
1 ATTCTGATT
29577991 ATGATTCTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 1 0.03
18 15 0.38
19 22 0.56
20 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (19 bp):
ATTCTGATTCTGTCACCTA
Found at i:29577967 original size:37 final size:37
Alignment explanation
Indices: 29577926--29578007 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
29577916 GTTGATGCTG
*
29577926 ATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTA
1 ATTCTGATTCTGTCACCTAATTCTGATTATGATTCTA
**
29577963 ATTCTGATTCTGTCACCTGGTTCTGATTATGATTCTA
1 ATTCTGATTCTGTCACCTAATTCTGATTATGATTCTA
*
29578000 GTTCTGAT
1 ATTCTGAT
29578008 AATGTTTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (37 bp):
ATTCTGATTCTGTCACCTAATTCTGATTATGATTCTA
Found at i:29578016 original size:18 final size:19
Alignment explanation
Indices: 29577982--29578028 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
29577972 CTGTCACCTG
*
29577982 GTTCTGATTATGATTC-TA
1 GTTCTGATAATGATTCTTA
*
29578000 GTTCTGATAATGTTTCTTA
1 GTTCTGATAATGATTCTTA
29578019 -TTCT-ATAATG
1 GTTCTGATAATG
29578029 GGCTAAGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 18 0.69
19 2 0.08
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (19 bp):
GTTCTGATAATGATTCTTA
Found at i:29579132 original size:48 final size:46
Alignment explanation
Indices: 29578956--29579181 Score: 210
Period size: 48 Copynumber: 4.8 Consensus size: 46
29578946 ACATAGGGTA
*
29578956 TAATGCCAATGCCATGTCCCAGACATGGTCTTACTCTAGCTCTCA-CAT
1 TAATGCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATC-T
* ** *
29579004 ATCCATGCTGATGCATGTCCCAGACATGTCTTACACTAG--CACATC-
1 -T-AATGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT
* *
29579049 TCATAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT
1 TAAT-GCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT
* * **
29579096 TAATGCCAATGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATAA
1 TAATGCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCT
* * *
29579144 T-GTGGTCGATGCATGTCCCAGACATGTCTTACACTAGC
1 TAAT-GCCAATGCATGTCCCAGACATGTCTTACACTAGC
29579182 ACACACATCA
Statistics
Matches: 150, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
43 3 0.02
44 33 0.22
46 26 0.17
47 31 0.21
48 35 0.23
49 15 0.10
50 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
TAATGCCAATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT
Found at i:29579159 original size:47 final size:46
Alignment explanation
Indices: 29578955--29579181 Score: 228
Period size: 44 Copynumber: 4.8 Consensus size: 46
29578945 AACATAGGGT
* * *
29578955 ATAATGCCAATGCCATGTCCCAGACATGGTCTTACTCTAGCTCTCACA
1 ATAATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATA
* * * *
29579003 TATCCATGCTGATGCATGTCCCAGACATGTCTTACACTAGCACATC-TC
1 -AT-AATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC-TCATA
*
29579051 AT-A-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATC
1 ATAATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATA
* * * *
29579095 TTAATGCCAATGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATA
1 ATAATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATA
* *
29579143 AT-GTGGTCGATGCATGTCCCAGACATGTCTTACACTAGC
1 ATAAT-GCCGATGCATGTCCCAGACATGTCTTACACTAGC
29579182 ACACACATCA
Statistics
Matches: 150, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
43 2 0.01
44 37 0.25
45 2 0.01
46 18 0.12
47 29 0.19
48 37 0.25
49 18 0.12
50 7 0.05
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
ATAATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATA
Found at i:29582485 original size:15 final size:16
Alignment explanation
Indices: 29582465--29582505 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
29582455 TTATTGACAC
29582465 TTCTTATTGTTT-TTT
1 TTCTTATTGTTTGTTT
29582480 TTCTTATT-TTTGTTT
1 TTCTTATTGTTTGTTT
*
29582495 TTATT-TTGTTT
1 TTCTTATTGTTT
29582506 ACATTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (16 bp):
TTCTTATTGTTTGTTT
Found at i:29606014 original size:14 final size:13
Alignment explanation
Indices: 29605995--29606024 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
29605985 TTTAGTTGAA
29605995 TTAGTTAATTAAGT
1 TTAGTTAATT-AGT
29606009 TTAGTTAATTAGT
1 TTAGTTAATTAGT
29606022 TTA
1 TTA
29606025 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:29608779 original size:93 final size:93
Alignment explanation
Indices: 29608671--29608841 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
29608661 GCCCCTAAGT
*
29608671 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29608736 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
29608764 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29608829 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29608842 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:29608838 original size:46 final size:46
Alignment explanation
Indices: 29608666--29608838 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
29608656 AACCCGCCCC
* * *
29608666 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
29608712 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
29608760 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29608805 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29608839 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:29609292 original size:30 final size:30
Alignment explanation
Indices: 29609258--29609316 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
29609248 CATTTAATAC
29609258 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
29609288 AAACTTTTGCATAATTACACTTTTGCCCC
1 AAACTTTGGAAAAATTACACTTTTGCCCC
29609317 GAGGCTCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:29610484 original size:48 final size:48
Alignment explanation
Indices: 29610410--29610664 Score: 316
Period size: 48 Copynumber: 5.3 Consensus size: 48
29610400 AAGTACCAAC
* * * *
29610410 ACATGGTCTTACATGAATC-CACATATCATTGCCGATGCCATGTCCCAG
1 ACATGGTCTTACA-CAAGCACATATATCATCGCCGATGCCATGTCCCAG
** *
29610458 ACATGGTCTTACACAAGCACATATATCATCATCGATGCCATGTCCCAC
1 ACATGGTCTTACACAAGCACATATATCATCGCCGATGCCATGTCCCAG
* * *
29610506 ACATGGTCTTACAC-AGACAAATATATCATTGCCGATGCCATGTCCTAG
1 ACATGGTCTTACACAAG-CACATATATCATCGCCGATGCCATGTCCCAG
* *
29610554 ACATGGTCTTACACAAGCACATATATCATCGTCGATGCCATGTCCCAA
1 ACATGGTCTTACACAAGCACATATATCATCGCCGATGCCATGTCCCAG
* * * * * *
29610602 ACATGGTCTTACACAGGCATATAAATCATCACCGATGCCATCTCCTAG
1 ACATGGTCTTACACAAGCACATATATCATCGCCGATGCCATGTCCCAG
29610650 ACATGGTCTTACACA
1 ACATGGTCTTACACA
29610665 TGCGCACTTC
Statistics
Matches: 178, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
47 5 0.03
48 171 0.96
49 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (48 bp):
ACATGGTCTTACACAAGCACATATATCATCGCCGATGCCATGTCCCAG
Found at i:29610572 original size:96 final size:96
Alignment explanation
Indices: 29610432--29610664 Score: 385
Period size: 96 Copynumber: 2.4 Consensus size: 96
29610422 ATGAATCCAC
*
29610432 ATATCATTGCCGATGCCATGTCCCAGACATGGTCTTACACAAGCACATATATCATCATCGATGCC
1 ATATCATTGCCGATGCCATGTCCTAGACATGGTCTTACACAAGCACATATATCATCATCGATGCC
*
29610497 ATGTCCCACACATGGTCTTACACAGACAAAT
66 ATGTCCCAAACATGGTCTTACACAGACAAAT
*
29610528 ATATCATTGCCGATGCCATGTCCTAGACATGGTCTTACACAAGCACATATATCATCGTCGATGCC
1 ATATCATTGCCGATGCCATGTCCTAGACATGGTCTTACACAAGCACATATATCATCATCGATGCC
* *
29610593 ATGTCCCAAACATGGTCTTACACAGGCATAT
66 ATGTCCCAAACATGGTCTTACACAGACAAAT
* ** *
29610624 AAATCATCACCGATGCCATCTCCTAGACATGGTCTTACACA
1 ATATCATTGCCGATGCCATGTCCTAGACATGGTCTTACACA
29610665 TGCGCACTTC
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 128 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (96 bp):
ATATCATTGCCGATGCCATGTCCTAGACATGGTCTTACACAAGCACATATATCATCATCGATGCC
ATGTCCCAAACATGGTCTTACACAGACAAAT
Found at i:29625325 original size:52 final size:52
Alignment explanation
Indices: 29625247--29625354 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
29625237 TTCTGTGGAT
29625247 GTTTGCAAACTGCAACTGTGTATATAATATCAGTGCTGGTAAATGAAGTTGG
1 GTTTGCAAACTGCAACTGTGTATATAATATCAGTGCTGGTAAATGAAGTTGG
29625299 GTTTGCAAACTGCAACTGTGTATATAATATCAGTGCTGGTAAATGAAGTTGG
1 GTTTGCAAACTGCAACTGTGTATATAATATCAGTGCTGGTAAATGAAGTTGG
29625351 GTTT
1 GTTT
29625355 TGGTTAGAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (52 bp):
GTTTGCAAACTGCAACTGTGTATATAATATCAGTGCTGGTAAATGAAGTTGG
Found at i:29625913 original size:21 final size:21
Alignment explanation
Indices: 29625887--29625929 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
29625877 AAATTCAATT
*
29625887 ATTTTTTTATATCGAAAT-TTG
1 ATTTTTTT-TATCCAAATCTTG
29625908 ATTTTTTTTATCCAAATCTTG
1 ATTTTTTTTATCCAAATCTTG
29625929 A
1 A
29625930 ACTTGGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTTTTTTTATCCAAATCTTG
Found at i:29625914 original size:20 final size:21
Alignment explanation
Indices: 29625889--29625929 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
29625879 ATTCAATTAT
*
29625889 TTTTTTATATCGAAAT-TTGA
1 TTTTTTATATCCAAATCTTGA
*
29625909 TTTTTTTTATCCAAATCTTGA
1 TTTTTTATATCCAAATCTTGA
29625930 ACTTGGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTTTATATCCAAATCTTGA
Found at i:29633809 original size:41 final size:41
Alignment explanation
Indices: 29633750--29633934 Score: 207
Period size: 41 Copynumber: 4.6 Consensus size: 41
29633740 CGAGCTTGGG
* * *
29633750 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAAT
1 TTCGAAGGGCTTTCGAGCCAGTGCTAATAACCGAACTTAGT
29633791 TTCGAAGGGCTTTCGAGCCAGTGCTAATAACCGAACTTAGT
1 TTCGAAGGGCTTTCGAGCCAGTGCTAATAACCGAACTTAGT
* * * * *
29633832 TTTGAAGGGCTTTTGAGCCAGTG-TCATAACCGGACTTGGT
1 TTCGAAGGGCTTTCGAGCCAGTGCTAATAACCGAACTTAGT
* * * *
29633872 TCCGAAGGGCCTTCGAGCCAGTGGCCTAAT--CCGAGCTTGGT
1 TTCGAAGGGCTTTCGAGCCAGT-G-CTAATAACCGAACTTAGT
*
29633913 CTCGAAGGGCTTT-GAGCCAGTG
1 TTCGAAGGGCTTTCGAGCCAGTG
29633935 TTAAGAATCG
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 40 0.33
41 79 0.64
43 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TTCGAAGGGCTTTCGAGCCAGTGCTAATAACCGAACTTAGT
Found at i:29633956 original size:81 final size:77
Alignment explanation
Indices: 29633736--29633958 Score: 223
Period size: 81 Copynumber: 2.8 Consensus size: 77
29633726 TCGGGGTGTA
** * *
29633736 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAATTTCGAAGGGC
1 AATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAACC-GGCTTGATTCCGAAGGGC
*
29633801 TTTCGAGCCAGTGCT
63 CTTCGAGCCAGTGCT
* * * * *
29633816 AATAACCGAACTTAGTTTTGAAGGGCTTTTGAGCCAGTGTCATAACCGGACTTGGTTCCGAAGGG
1 AAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGG-CTTGATTCCGAAGGG
29633881 CCTTCGAGCCAGTGGCCT
62 CCTTCGAGCCAGT-G-CT
* *
29633899 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGTTAAGAATCGTGCTTGATTCCGAA
1 AATCCGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTG-TAATAACCG-GCTTGATTCCGAA
29633959 CGGTGGTTGT
Statistics
Matches: 117, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
80 17 0.15
81 63 0.54
82 32 0.27
83 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (77 bp):
AATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGGCTTGATTCCGAAGGGCCTT
CGAGCCAGTGCT
Found at i:29641439 original size:41 final size:41
Alignment explanation
Indices: 29641382--29641486 Score: 192
Period size: 41 Copynumber: 2.6 Consensus size: 41
29641372 CGAGCTTGGG
29641382 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAAT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAAT
* *
29641423 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAAT
29641464 TTCGAAGGGCTTTTGAGCCAGTG
1 TTCGAAGGGCTTTTGAGCCAGTG
29641487 TCATAACTGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (41 bp):
TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAAT
Found at i:29641510 original size:40 final size:40
Alignment explanation
Indices: 29641363--29641567 Score: 184
Period size: 41 Copynumber: 5.1 Consensus size: 40
29641353 GTTAATCGGG
* *
29641363 GTGTAA-ATCCGAGCTTGGGTT-CGAAGGGCTTTTGAGCCA
1 GTGTAATAACCGAACTT-GGTTCCGAAGGGCTTTTGAGCCA
* ** *
29641402 GTGCTAATAACCAAACTTAATTTCGAAGGGCTTTTGAGCCA
1 GTG-TAATAACCGAACTTGGTTCCGAAGGGCTTTTGAGCCA
* *
29641443 GTGCTAATAACCGAACTTAGTTTCGAAGGGCTTTTGAGCCA
1 GTG-TAATAACCGAACTTGGTTCCGAAGGGCTTTTGAGCCA
* * * * *
29641484 GTGTCATAACTGGACTTGGTTCCGAAGGGCCTTCGAGCCA
1 GTGTAATAACCGAACTTGGTTCCGAAGGGCTTTTGAGCCA
*** *
29641524 GTGGCCTAATCCGAGCTTGG-TCTCGAAGGGC-TTTGAGCCA
1 GTGTAATAA-CCGAACTTGGTTC-CGAAGGGCTTTTGAGCCA
29641564 GTGT
1 GTGT
29641568 TAAGAATCGT
Statistics
Matches: 140, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 55 0.39
41 82 0.59
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GTGTAATAACCGAACTTGGTTCCGAAGGGCTTTTGAGCCA
Found at i:29641550 original size:81 final size:78
Alignment explanation
Indices: 29641368--29641567 Score: 222
Period size: 81 Copynumber: 2.5 Consensus size: 78
29641358 TCGGGGTGTA
*
29641368 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAATTTCGAAGGGC
1 AATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAACCAAACTTAATTCCGAAGGGC
* *
29641433 TTTTGAGCCAGTGCT
64 CTTCGAGCCAGTGCT
* * * *** **
29641448 AATAACCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACTGGACTTGGTTCCGAAGGG
1 AAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCAAACTTAATTCCGAAGGG
29641513 CCTTCGAGCCAGTGGCCT
63 CCTTCGAGCCAGT-G-CT
29641531 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGT
1 AATCCGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTGT
29641568 TAAGAATCGT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
80 18 0.18
81 46 0.46
82 32 0.32
83 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (78 bp):
AATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCAAACTTAATTCCGAAGGGCCT
TCGAGCCAGTGCT
Found at i:29641588 original size:81 final size:76
Alignment explanation
Indices: 29641368--29641590 Score: 205
Period size: 81 Copynumber: 2.8 Consensus size: 76
29641358 TCGGGGTGTA
** * *
29641368 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACCAAACTTAATTTCGAAGGGC
1 AATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAA-C-TGCTTGATTCCGAAGGGC
* *
29641433 TTTTGAGCCAGTGCT
62 CTTCGAGCCAGTGCT
* * * *
29641448 AATAACCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACTGGACTTGGTTCCGAAGGG
1 AAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAACT-G-CTTGATTCCGAAGGG
29641513 CCTTCGAGCCAGTGGCCT
61 CCTTCGAGCCAGT-G-CT
*
29641531 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGTTAAGAATCGTGCTTGATTCCGAA
1 AATCCGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTG-TAATAA-C-TGCTTGATTCCGAA
29641591 TGGTGGTTGT
Statistics
Matches: 117, Mismatches: 16, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
80 18 0.15
81 59 0.50
82 34 0.29
83 6 0.05
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (76 bp):
AATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACTGCTTGATTCCGAAGGGCCTTC
GAGCCAGTGCT
Found at i:29643126 original size:79 final size:81
Alignment explanation
Indices: 29643026--29643210 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
29643016 GCTACTCGTT
* * * *
29643026 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTTCCTTCGGGAT-TTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29643089 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* * **
29643106 CAAATCCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
29643170 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
29643186 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29643211 CATCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 4 0.05
79 51 0.58
80 33 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:29643143 original size:39 final size:40
Alignment explanation
Indices: 29643026--29643210 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
29643016 GCTACTCGTT
*
29643026 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * * *
29643066 CAATTTCCTTCGGGATTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
29643106 CAAATCCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
29643145 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
29643186 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29643211 CATCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29655436 original size:17 final size:17
Alignment explanation
Indices: 29655414--29655447 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29655404 CACTAACATT
*
29655414 AAAATGTAATGACAATG
1 AAAATGCAATGACAATG
29655431 AAAATGCAATGACAATG
1 AAAATGCAATGACAATG
29655448 TATAGTTATC
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:0.53, C:0.09, G:0.18, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATG
Found at i:29655847 original size:21 final size:21
Alignment explanation
Indices: 29655821--29655871 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
29655811 TTATTTTTAG
*
29655821 CAACTTCCTCTTCTTCAGCAAT
1 CAACTTCCTCTTCTGCAGC-AT
*
29655843 -AACTTCATCTTCTGCAGCAT
1 CAACTTCCTCTTCTGCAGCAT
29655863 CAACTTCCT
1 CAACTTCCT
29655872 TCTAAACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (21 bp):
CAACTTCCTCTTCTGCAGCAT
Found at i:29658662 original size:55 final size:54
Alignment explanation
Indices: 29658577--29658689 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 54
29658567 AGGAAGCGTC
* *
29658577 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTG-CAACATATATTTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGTC-ACAT-TATCTGTT
* * *
29658632 CTGGTGGCTCTGCCAC-GATTATTTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGTCACATTATCTGTT
29658686 CTGG
1 CTGG
29658690 CAGCCATACT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 18 0.35
55 32 0.63
56 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGTCACATTATCTGTT
Found at i:29658671 original size:28 final size:26
Alignment explanation
Indices: 29658577--29658689 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
29658567 AGGAAGCGTC
* *
29658577 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
* *
29658605 CTGGTGGCTCTGCAACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
29658632 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
29658660 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
29658686 CTGG
1 CTGG
29658690 CAGCCATACT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.09
27 36 0.49
28 31 0.42
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:29663315 original size:28 final size:28
Alignment explanation
Indices: 29663284--29663351 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
29663274 TCAATGCCTT
* *
29663284 GCACACTTAGTGCCATACTCGATATCTC
1 GCACACTAAGTGCCACACTCGATATCTC
*
29663312 GCACACTAAGTGCCACACTCGATATCTT
1 GCACACTAAGTGCCACACTCGATATCTC
29663340 GCACACTAAGTG
1 GCACACTAAGTG
29663352 TCGTACATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (28 bp):
GCACACTAAGTGCCACACTCGATATCTC
Found at i:29670871 original size:28 final size:28
Alignment explanation
Indices: 29670840--29670907 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
29670830 AAATGCCTCG
* * * *
29670840 CACACCAAGTTCCATACTCGATGTCTCA
1 CACACTAAGTGCCACACTCGATATCTCA
*
29670868 CACACTAAGTGCCACACTCGATATCTCG
1 CACACTAAGTGCCACACTCGATATCTCA
29670896 CACACTAAGTGC
1 CACACTAAGTGC
29670908 TGTACATAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.22
Consensus pattern (28 bp):
CACACTAAGTGCCACACTCGATATCTCA
Found at i:29670957 original size:40 final size:40
Alignment explanation
Indices: 29670893--29670989 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
29670883 ACTCGATATC
** * * *
29670893 TCGCACACTAAGTGCTGTACATAGCCGAAGTTATTTCAAA
1 TCGCACACTAAGTGCCATACATAGCCAAAGCTATGTCAAA
* * *
29670933 TTGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATACATAGCCAAAGCTATGTCAAA
*
29670973 TCGTACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
29670990 CAAATAGCTA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCAAAGCTATGTCAAA
Found at i:29674889 original size:17 final size:17
Alignment explanation
Indices: 29674867--29674902 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
29674857 GCCCTGTGTA
29674867 ACTCCCTGACTTGGATC
1 ACTCCCTGACTTGGATC
29674884 ACTCCCTGACTTGGATC
1 ACTCCCTGACTTGGATC
29674901 AC
1 AC
29674903 ACGGCCAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.28
Consensus pattern (17 bp):
ACTCCCTGACTTGGATC
Found at i:29682889 original size:41 final size:41
Alignment explanation
Indices: 29682843--29682927 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
29682833 ATGGCCGAGC
*
29682843 ACACGCCCATGTCCCTGGCCCGTATCCTTCACACGACAATG
1 ACACGCCCATGTCCCTGGCCCGTATCCTTAACACGACAATG
* * * *
29682884 ACACGCTCATGTCCCTGGCCCGTGTCCTTAACACGGCCATG
1 ACACGCCCATGTCCCTGGCCCGTATCCTTAACACGACAATG
29682925 ACA
1 ACA
29682928 TGTCCGTGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.20
Consensus pattern (41 bp):
ACACGCCCATGTCCCTGGCCCGTATCCTTAACACGACAATG
Found at i:29684021 original size:46 final size:45
Alignment explanation
Indices: 29683925--29684140 Score: 174
Period size: 46 Copynumber: 4.7 Consensus size: 45
29683915 GCATATCTGT
* * *
29683925 GCCGATGCCATGTCCCATACATGGTCTTACACTGAC-TCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTC-AAG
* *
29683971 GCTGATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCAAG
* * * * * * *
29684017 GCTGATGCATGTCTCAAACATG-CTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCAAG
*
29684062 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GTTTC-TCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCATC-TCAA---G
29684110 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
29684141 AGCTCACACA
Statistics
Matches: 141, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.08
45 41 0.29
46 58 0.41
47 16 0.11
48 15 0.11
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCAAG
Found at i:29690771 original size:29 final size:28
Alignment explanation
Indices: 29690735--29690812 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
29690725 TCATGAGATT
29690735 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
29690765 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
29690792 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
29690813 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:29691086 original size:173 final size:174
Alignment explanation
Indices: 29690765--29691091 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
29690755 AAATTGTACA
* *
29690765 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
29690830 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
29690895 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
29690939 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
29691004 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
29691068 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
29691092 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:29695575 original size:94 final size:96
Alignment explanation
Indices: 29695329--29695646 Score: 270
Period size: 94 Copynumber: 3.4 Consensus size: 96
29695319 AAATGCCAAC
* * *
29695329 GCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAAAT-TCGATGCCATGTCCCAGATAG
1 GCCATGTCCCAGACAT-GTCTTACACTAGCT--CACATCCAATGCCGATGCCATGTCCCAGATAA
* *
29695393 GTCTTACAC-AGGCTATGATCTATCGGTGTCGAT
63 GTCTTACACTAGGCTATGATATATCGGTGCCGAT
* * * * * *
29695426 GCCATGTCCCAGACAGGTCTTACACT-GACACACTTAACAA-GCTGTTGCCATGTCCCAGATAAG
1 GCCATGTCCCAGACATGTCTTACACTAG-CTCACAT-CCAATGCCGATGCCATGTCCCAGATAAG
29695489 TCTTACACTA-GCT-TG-TATATCCCGAG-GCCGAT
64 TCTTACACTAGGCTATGATATAT--CG-GTGCCGAT
* * *
29695521 G-CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG-CATGTCCCAGACATGT
1 GCCATGTCCCAGACATGTCTTACACTAGCTCACATC-CAATGCCGATGCCATGTCCCAGATAAGT
*
29695584 CTTACACT-GGCTATCATGATAT--G-GCCGAT
65 CTTACACTAGGCTATGAT-ATATCGGTGCCGAT
* * * *
29695613 G-CTTGTCCGAGAGATGTCTTACACTAGCACACAT
1 GCCATGTCCCAGACATGTCTTACACTAGCTCACAT
29695647 ATCACCACAT
Statistics
Matches: 181, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
92 36 0.20
93 4 0.02
94 61 0.34
95 47 0.26
96 14 0.08
97 19 0.10
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (96 bp):
GCCATGTCCCAGACATGTCTTACACTAGCTCACATCCAATGCCGATGCCATGTCCCAGATAAGTC
TTACACTAGGCTATGATATATCGGTGCCGAT
Found at i:29695580 original size:46 final size:46
Alignment explanation
Indices: 29695331--29695640 Score: 183
Period size: 46 Copynumber: 6.6 Consensus size: 46
29695321 ATGCCAACGC
* *
29695331 CATGTCCCAGACATGGTCTTACACTAGCTAGCA-CATCAAAT-TCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATCATC-TC-AATGCCGATG
* * * ** *
29695378 CCATGTCCCAGATAGGTCTTACAC-AGGCTATGATCTATCGGTGTCGATG
1 -CATGTCCCAGACATGTCTTACACTA-GCTATCATC--TCAATGCCGATG
* * *
29695427 CCATGTCCCAGACAGGTCTTACACT-GAC-A-CA-CTTAACAA-GCTGTTG
1 -CATGTCCCAGACATGTCTTACACTAG-CTATCATC-T--CAATGCCGATG
* * * * *
29695473 CCATGTCCCAGATAAGTCTTACACTAGCTTGTAT-ATCCCGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAGC---TATCATCTCAATGCCGATG
*
29695522 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCTCAATGCCGATG
* *
29695568 CATGTCCCAGACATGTCTTACACTGGCTATCA--TGATATGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCTCA-AT-GCCGATG
* * *
29695614 CTTGTCCGAGAGATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
29695641 ACACATATCA
Statistics
Matches: 210, Mismatches: 33, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
44 2 0.01
45 5 0.02
46 102 0.49
47 17 0.08
48 43 0.20
49 38 0.18
50 2 0.01
51 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCTCAATGCCGATG
Found at i:29700434 original size:27 final size:27
Alignment explanation
Indices: 29700404--29700581 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
29700394 ATATTGAGCC
* * *
29700404 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
29700431 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
29700458 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
29700486 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
29700513 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
29700540 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
29700567 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29700582 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:29700497 original size:55 final size:55
Alignment explanation
Indices: 29700404--29700581 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
29700394 ATATTGAGCC
* * *
29700404 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
29700458 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
29700513 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
29700567 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29700582 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:29700543 original size:82 final size:81
Alignment explanation
Indices: 29700425--29700580 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
29700415 TGCTATACAA
* * *
29700425 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
29700490 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
29700507 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
29700571 CACTTAGTGC
65 CACTTAGTGC
29700581 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29708506 original size:27 final size:27
Alignment explanation
Indices: 29708476--29708653 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
29708466 ATATTGAGCC
* * *
29708476 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
29708503 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
29708530 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
29708558 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
29708585 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
29708612 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
29708639 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29708654 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 101 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:29708615 original size:82 final size:81
Alignment explanation
Indices: 29708497--29708652 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
29708487 TGCTATACAA
* * *
29708497 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
29708562 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29708579 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
29708643 CACTTAGTGC
65 CACTTAGTGC
29708653 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29717825 original size:49 final size:48
Alignment explanation
Indices: 29717721--29717941 Score: 152
Period size: 49 Copynumber: 4.6 Consensus size: 48
29717711 CATCAAAGTT
* *
29717721 GATGCCATGTCCCAGACAAGTCTTATACTGACTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGAC-AGTCTTACACTGACTCTCATATATCGAGGCC
* * * *
29717770 GTTGCCATGTCCCAGACAGTTCTTACACT-AGCTCTCATCTATTG-GTGTC
1 GATGCCATGTCCCAGACAG-TCTTACACTGA-CTCTCATATATCGAG-GCC
* * * * * *
29717819 GATGCCATGTCTCAGACAGGTCTTACACTGACACACTTA-AT--AAGCT
1 GATGCCATGTCCCAGACA-GTCTTACACTGACTCTCATATATCGAGGCC
* * *
29717865 GACGCCATGTCCCAGACAGGTCTTACACT-AGCT-TGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACA-GTCTTACACTGA-CTCT-CATATATCGAGGCC
* *
29717914 GACG-CATGTCCTAGACATGTCTTACACT
1 GATGCCATGTCCCAGACA-GTCTTACACT
29717942 AGCTCTCGTC
Statistics
Matches: 135, Mismatches: 26, Indels: 23
0.73 0.14 0.12
Matches are distributed among these distances:
45 1 0.01
46 31 0.23
47 1 0.01
48 28 0.21
49 72 0.53
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGTCTTACACTGACTCTCATATATCGAGGCC
Found at i:29730099 original size:21 final size:23
Alignment explanation
Indices: 29730049--29730101 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 23
29730039 TGATCAAATA
29730049 TCAA-CATC-TAGCATTCATTTG
1 TCAAGCATCATAGCATTCATTTG
*
29730070 TCAATCATCATAGCA-TCA-TTG
1 TCAAGCATCATAGCATTCATTTG
*
29730091 TCACGCATCAT
1 TCAAGCATCAT
29730102 TATAAAGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 16 0.57
22 7 0.25
23 5 0.18
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.34
Consensus pattern (23 bp):
TCAAGCATCATAGCATTCATTTG
Found at i:29733691 original size:22 final size:22
Alignment explanation
Indices: 29733666--29733710 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
29733656 GGGATATGTT
29733666 AAACTAAAAGAATTGAGAGAGA
1 AAACTAAAAGAATTGAGAGAGA
29733688 AAACTAAAAGAATTGAGAGAGA
1 AAACTAAAAGAATTGAGAGAGA
29733710 A
1 A
29733711 GGAGAATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.22, T:0.13
Consensus pattern (22 bp):
AAACTAAAAGAATTGAGAGAGA
Found at i:29733750 original size:39 final size:39
Alignment explanation
Indices: 29733707--29733788 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
29733697 GAATTGAGAG
29733707 AGAAGGAGAATAAGACATTC-AGCTAAAGAGAAAAAGAAA
1 AGAAGGAGAATAAGACATTCGA-CTAAAGAGAAAAAGAAA
*
29733746 AGAAGGAGAATAGGACATTCGACTAAAGAGAAAAAGAAA
1 AGAAGGAGAATAAGACATTCGACTAAAGAGAAAAAGAAA
29733785 AGAA
1 AGAA
29733789 TGTCAGTCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 40 0.98
40 1 0.02
ACGTcount: A:0.59, C:0.07, G:0.24, T:0.10
Consensus pattern (39 bp):
AGAAGGAGAATAAGACATTCGACTAAAGAGAAAAAGAAA
Done.