Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 39 of 126
Found at i:11712553 original size:21 final size:21
Alignment explanation
Indices: 11712529--11712573 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
11712519 ATTTGTACCT
11712529 ATACAAGTGACTCTTCTACAG
1 ATACAAGTGACTCTTCTACAG
*
11712550 ATACAAGTGACTCTTCTACCG
1 ATACAAGTGACTCTTCTACAG
11712571 ATA
1 ATA
11712574 TTAAAAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (21 bp):
ATACAAGTGACTCTTCTACAG
Found at i:11715058 original size:57 final size:57
Alignment explanation
Indices: 11714970--11715085 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
11714960 TCAATTATGT
* *
11714970 TATAAGTATTATTGAAGTGTTATGAAAATAATTTGTAAATACCATAAGTTGTATTTA
1 TATAAGTATTATTGAAGTGTTATGAAAATAATGTGTAAATACCATAAGTCGTATTTA
* *
11715027 TATAAGTATTATTGAAGTGTTATGGAAATAATGTGTAGATACCATAAGTCGTATTTA
1 TATAAGTATTATTGAAGTGTTATGAAAATAATGTGTAAATACCATAAGTCGTATTTA
11715084 TA
1 TA
11715086 ATTTGATAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (57 bp):
TATAAGTATTATTGAAGTGTTATGAAAATAATGTGTAAATACCATAAGTCGTATTTA
Found at i:11722640 original size:9 final size:9
Alignment explanation
Indices: 11722626--11722650 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11722616 ATTTTCATTT
11722626 AAATTTTTA
1 AAATTTTTA
11722635 AAATTTTTA
1 AAATTTTTA
11722644 AAATTTT
1 AAATTTT
11722651 AAATTAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AAATTTTTA
Found at i:11724891 original size:18 final size:19
Alignment explanation
Indices: 11724852--11724898 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
11724842 TTTTTAAATT
11724852 TATAATGTTTTATATATGTTA
1 TATAAT-TTTTATATA-GTTA
11724873 TATAATTTTTATATA-TTA
1 TATAATTTTTATATAGTTA
*
11724891 TGTAATTT
1 TATAATTT
11724899 ATAACATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
20 9 0.36
21 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (19 bp):
TATAATTTTTATATAGTTA
Found at i:11726831 original size:24 final size:25
Alignment explanation
Indices: 11726763--11726861 Score: 75
Period size: 24 Copynumber: 4.1 Consensus size: 25
11726753 ATTGAGTCTT
*
11726763 CCAAA-AATTTAGCTCA-TACGAGC
1 CCAAATAAGTTAGCTCATTACGAGC
* *
11726786 CCAGACA-AAATTAGTTCA-TACGAGC
1 CCA-A-ATAAGTTAGCTCATTACGAGC
**
11726811 CCAAATGGGTTAGCTC-TTACGAGC
1 CCAAATAAGTTAGCTCATTACGAGC
* *
11726835 CTAGATAAGTTAGCTCATT-CGAGC
1 CCAAATAAGTTAGCTCATTACGAGC
11726859 CCA
1 CCA
11726862 GACAAAGTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
23 4 0.07
24 34 0.57
25 22 0.37
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (25 bp):
CCAAATAAGTTAGCTCATTACGAGC
Found at i:11727030 original size:82 final size:82
Alignment explanation
Indices: 11726880--11727031 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 82
11726870 TTAACTAGCA
* *
11726880 TACGATGCTACTCACACAAACTGATGAGAATCCGCAACATATGCAGAAACTCAACCATCGATACG
1 TACGATGCTACTCACACAAACTGATGAGAATCCACAACATATGCAGAAACTCAACCATCGATAAG
11726945 GTCCAGAATTACCCACT
66 GTCCAGAATTACCCACT
* * * ** *
11726962 TACGATGCTGCTCACACAAGCTGATGAGAATCCATAATGTATGTAGAAACTCAACCATCG-TAGA
1 TACGATGCTACTCACACAAACTGATGAGAATCCACAACATATGCAGAAACTCAACCATCGATA-A
11727026 GGTCCA
65 GGTCCA
11727032 TATAATCAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 2 0.03
82 59 0.97
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (82 bp):
TACGATGCTACTCACACAAACTGATGAGAATCCACAACATATGCAGAAACTCAACCATCGATAAG
GTCCAGAATTACCCACT
Found at i:11730444 original size:3 final size:3
Alignment explanation
Indices: 11730436--11730468 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11730426 TTTCTCTCTA
11730436 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11730469 TTAATTCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11735047 original size:19 final size:21
Alignment explanation
Indices: 11735005--11735049 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
11734995 TTAGATCAAT
*
11735005 ATTTTTATATACAATTTTAGA
1 ATTTTTATATACAATTTTAAA
*
11735026 ATTTTTATTTA-AA-TTTAAA
1 ATTTTTATATACAATTTTAAA
11735045 ATTTT
1 ATTTT
11735050 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 2 0.09
21 10 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTTATATACAATTTTAAA
Found at i:11735050 original size:14 final size:15
Alignment explanation
Indices: 11735031--11735072 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
11735021 TTAGAATTTT
11735031 TATTTAAATTTAAAA
1 TATTTAAATTTAAAA
* *
11735046 T-TTTAAAATAAAAA
1 TATTTAAATTTAAAA
*
11735060 TATTAAAATTTAA
1 TATTTAAATTTAA
11735073 GATAAAAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATTTAAATTTAAAA
Found at i:11735071 original size:21 final size:22
Alignment explanation
Indices: 11735036--11735086 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
11735026 ATTTTTATTT
11735036 AAAT-TTAAAATTTTAAAATAA
1 AAATATTAAAATTTTAAAATAA
*
11735057 AAATATTAAAA-TTTAAGATAA
1 AAATATTAAAATTTTAAAATAA
11735078 AAATATTAA
1 AAATATTAA
11735087 TGTGAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATATTAAAATTTTAAAATAA
Found at i:11747735 original size:6 final size:6
Alignment explanation
Indices: 11747721--11747750 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11747711 TAATTATCTG
*
11747721 TGCTGC TGCTAC TGCTAC TGCTAC TGCTAC
1 TGCTAC TGCTAC TGCTAC TGCTAC TGCTAC
11747751 ACCCCGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.33, G:0.20, T:0.33
Consensus pattern (6 bp):
TGCTAC
Found at i:11748078 original size:28 final size:28
Alignment explanation
Indices: 11748018--11748113 Score: 68
Period size: 28 Copynumber: 3.3 Consensus size: 28
11748008 ATGTAATTTA
* * ***
11748018 AAATACATTAAAAATATATAAAAAAATT
1 AAATAAATAAAAAATATATAAATTTATT
*
11748046 TAATAAATAAAAAATATATAAATTTATT
1 AAATAAATAAAAAATATATAAATTTATT
*
11748074 AAATATTAA-AATAAAATCATATAAATATTTTT
1 AAATA--AATAA-AAAAT-ATATAAAT-TTATT
*
11748106 AAAAAAAT
1 AAATAAAT
11748114 TTTAAAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
28 26 0.49
29 2 0.04
30 9 0.17
31 8 0.15
32 8 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
AAATAAATAAAAAATATATAAATTTATT
Found at i:11754914 original size:146 final size:146
Alignment explanation
Indices: 11754650--11754944 Score: 554
Period size: 146 Copynumber: 2.0 Consensus size: 146
11754640 GAGACATCTA
* * *
11754650 ATAAGGGACAGAGTATTCTCATTGGAATATTTGAGGTCAGAAAGGAACCTAGTTGATCCACTTAC
1 ATAAGGAACAGAGTATTCTCATTGGAATATTTGAGGTCAAAAAGGAACCTAATTGATCCACTTAC
*
11754715 TAAGAGGTTAAGTAGGAAATTGGTTCTAGATTCGTCAAGAGGGATGGGTCTTATACCCATTGGTT
66 TAAGAGGTTAAGTAGGAAATTGGTTCTAGATTCGTCAAGAAGGATGGGTCTTATACCCATTGGTT
11754780 GAGGAATTCATAGTAG
131 GAGGAATTCATAGTAG
11754796 ATAAGGAACAGAGTATTCTCATTGGAATATTTGAGGTCAAAAAGGAACCTAATTGATCCACTTAC
1 ATAAGGAACAGAGTATTCTCATTGGAATATTTGAGGTCAAAAAGGAACCTAATTGATCCACTTAC
11754861 TAAGAGGTTAAGTAGGAAATTGGTTCTAGATTCGTCAAGAAGGATGGGTCTTATACCCATTGGTT
66 TAAGAGGTTAAGTAGGAAATTGGTTCTAGATTCGTCAAGAAGGATGGGTCTTATACCCATTGGTT
11754926 GAGGAATTCATAGTAG
131 GAGGAATTCATAGTAG
11754942 ATA
1 ATA
11754945 CTCAACTTAG
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
146 145 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (146 bp):
ATAAGGAACAGAGTATTCTCATTGGAATATTTGAGGTCAAAAAGGAACCTAATTGATCCACTTAC
TAAGAGGTTAAGTAGGAAATTGGTTCTAGATTCGTCAAGAAGGATGGGTCTTATACCCATTGGTT
GAGGAATTCATAGTAG
Found at i:11762850 original size:27 final size:26
Alignment explanation
Indices: 11762818--11762877 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
11762808 ATTTTTATAG
11762818 TTCAAAT-CAATAAAATGCAAATTCCAAA
1 TTCAAATGC-ATAAAAT-C-AATTCCAAA
*
11762846 -TCAAATGCATAAAATCAATTTCAAA
1 TTCAAATGCATAAAATCAATTCCAAA
11762871 TTCAAAT
1 TTCAAAT
11762878 ATCAACCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 8 0.28
26 7 0.24
27 13 0.45
28 1 0.03
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (26 bp):
TTCAAATGCATAAAATCAATTCCAAA
Found at i:11764339 original size:29 final size:29
Alignment explanation
Indices: 11764307--11764376 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
11764297 TACGGAAAAA
**
11764307 TAGGGTTAAAAATGAAAGTTTGGAAAGTT
1 TAGGGTTAAAAACAAAAGTTTGGAAAGTT
* *
11764336 TAGGGGTCAAAAACAAAATTTTGGAAAGTT
1 TA-GGGTTAAAAACAAAAGTTTGGAAAGTT
11764366 TAGGAGTTAAA
1 TAGG-GTTAAA
11764377 TTCAAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.29
Consensus pattern (29 bp):
TAGGGTTAAAAACAAAAGTTTGGAAAGTT
Found at i:11764406 original size:29 final size:29
Alignment explanation
Indices: 11764338--11764464 Score: 94
Period size: 29 Copynumber: 4.3 Consensus size: 29
11764328 GGAAAGTTTA
** * * *
11764338 GGGGTCAAAAACAAAATTTTGGAAAGTTT
1 GGGGTCAAATTCAAATTTTTGAAAAGTCT
* * *
11764367 AGGAGTTAAATTCAAATATTTGAAAAGCTCT
1 -GGGGTCAAATTCAAATTTTTGAAAAG-TCT
** ** *
11764398 -GGGTCAAATTTGAATTTTTGGGAAGTTT
1 GGGGTCAAATTCAAATTTTTGAAAAGTCT
*
11764426 GGGGTCAAATTCAAATTTTTGAAAAGTTT
1 GGGGTCAAATTCAAATTTTTGAAAAGTCT
11764455 AGGGGTCAAA
1 -GGGGTCAAA
11764465 ACTTAATTTT
Statistics
Matches: 74, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
28 2 0.03
29 42 0.57
30 28 0.38
31 2 0.03
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (29 bp):
GGGGTCAAATTCAAATTTTTGAAAAGTCT
Found at i:11764417 original size:59 final size:59
Alignment explanation
Indices: 11764354--11764494 Score: 164
Period size: 59 Copynumber: 2.4 Consensus size: 59
11764344 AAAAACAAAA
* *
11764354 TTTTGGAAAGTTTAGGAGTTAAATTCAAATATTTGAAAAGCTCT-GGGTC-AAATTTGAAT
1 TTTTGGAAAGTTTAGGAGTCAAATTCAAATATTTGAAAAG-TCTAGGGTCAAAACTT-AAT
* * * *
11764413 TTTTGGGAAGTTT-GGGGTCAAATTCAAATTTTTGAAAAGTTTAGGGGTCAAAACTTAAT
1 TTTTGGAAAGTTTAGGAGTCAAATTCAAATATTTGAAAAGTCTA-GGGTCAAAACTTAAT
*
11764472 TTTTGGAAAGTTAAGGA-TCAAAT
1 TTTTGGAAAGTTTAGGAGTCAAAT
11764495 CTGAATCTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
57 2 0.03
58 23 0.33
59 37 0.54
60 7 0.10
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (59 bp):
TTTTGGAAAGTTTAGGAGTCAAATTCAAATATTTGAAAAGTCTAGGGTCAAAACTTAAT
Found at i:11764462 original size:30 final size:30
Alignment explanation
Indices: 11764325--11764483 Score: 148
Period size: 30 Copynumber: 5.4 Consensus size: 30
11764315 AAAATGAAAG
** *
11764325 TTTGGAAAGTTTAGGGGTCAAAAACAAAAT
1 TTTGGAAAGTTTAGGGGTCAAATTCAAATT
* * *
11764355 TTTGGAAAGTTTAGGAGTTAAATTCAAATA
1 TTTGGAAAGTTTAGGGGTCAAATTCAAATT
* * **
11764385 TTTGAAAAGCTCT--GGGTCAAATTTGAATT
1 TTTGGAAAG-TTTAGGGGTCAAATTCAAATT
*
11764414 TTTGGGAAGTTT-GGGGTCAAATTCAAATT
1 TTTGGAAAGTTTAGGGGTCAAATTCAAATT
*
11764443 TTTGAAAAGTTTAGGGGTCAAAACTT--AATT
1 TTTGGAAAGTTTAGGGGTC-AAA-TTCAAATT
11764473 TTTGGAAAGTT
1 TTTGGAAAGTT
11764484 AAGGATCAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
28 2 0.02
29 42 0.41
30 52 0.50
31 5 0.05
32 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (30 bp):
TTTGGAAAGTTTAGGGGTCAAATTCAAATT
Found at i:11765512 original size:19 final size:18
Alignment explanation
Indices: 11765479--11765515 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
11765469 ATAAAAAAAA
*
11765479 GTCTTTTTCTTTTTCTTT
1 GTCTTTTTCTCTTTCTTT
11765497 GTCTTGTTTCTCTTTCTTT
1 GTCTT-TTTCTCTTTCTTT
11765516 TTGCAGGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (18 bp):
GTCTTTTTCTCTTTCTTT
Found at i:11767805 original size:29 final size:30
Alignment explanation
Indices: 11767765--11767824 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
11767755 AGACTAGAGT
*
11767765 TTTCATTCATTTGTTTTAT-TTAGATTTAA
1 TTTCATTCATTTGTTTTATATTAGACTTAA
11767794 TTTCTATT-ATTTGTTTTATATTAGACTTAA
1 TTTC-ATTCATTTGTTTTATATTAGACTTAA
11767824 T
1 T
11767825 CCTCTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.62
Consensus pattern (30 bp):
TTTCATTCATTTGTTTTATATTAGACTTAA
Found at i:11769050 original size:22 final size:23
Alignment explanation
Indices: 11769011--11769053 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
11769001 GTGGTTTGAC
**
11769011 AAAAAAATACAAGTTTAAATATT
1 AAAAAAATACAAAATTAAATATT
11769034 AAAAAAATA-AAAATTAAATA
1 AAAAAAATACAAAATTAAATA
11769054 AAAAACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAAAAATACAAAATTAAATATT
Found at i:11771097 original size:21 final size:22
Alignment explanation
Indices: 11771073--11771116 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
11771063 ATCAATTCAA
11771073 ATATTATAA-TACAAA-ATTTTT
1 ATATTATAATTA-AAACATTTTT
11771094 ATATTATAATTAAAACATTTTT
1 ATATTATAATTAAAACATTTTT
11771116 A
1 A
11771117 ACATATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTATAATTAAAACATTTTT
Found at i:11771439 original size:22 final size:22
Alignment explanation
Indices: 11771404--11771447 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11771394 TAATTTTTAA
11771404 ATAATATTTATAAAT-TAAATT
1 ATAATATTTATAAATATAAATT
*
11771425 ATAATTATTTTTAAATATAAATT
1 ATAA-TATTTATAAATATAAATT
11771448 TCGTAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 10 0.50
23 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATATTTATAAATATAAATT
Found at i:11772612 original size:18 final size:18
Alignment explanation
Indices: 11772575--11772613 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11772565 AATATGAATT
*
11772575 TGTTAAATATATATATTA
1 TGTTAAATATATATAATA
11772593 TGTTAAATATA-ATAAATA
1 TGTTAAATATATAT-AATA
11772611 TGT
1 TGT
11772614 GCATCGCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (18 bp):
TGTTAAATATATATAATA
Found at i:11775423 original size:30 final size:31
Alignment explanation
Indices: 11775387--11775458 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
11775377 GCTACGTGTA
*
11775387 ACAAAACAGTCACTCAA-CT-TTGAAAATGTG
1 ACAAAACAGTCACTAAAGCTATTGAAAA-GTG
* *
11775417 ACAAAACAATCACTAAAGTTATTGAAAAGTG
1 ACAAAACAGTCACTAAAGCTATTGAAAAGTG
*
11775448 ACAAAATAGTC
1 ACAAAACAGTC
11775459 CTCTTGTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 15 0.43
31 13 0.37
32 7 0.20
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (31 bp):
ACAAAACAGTCACTAAAGCTATTGAAAAGTG
Found at i:11776980 original size:30 final size:31
Alignment explanation
Indices: 11776923--11776988 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
11776913 GGCGGAAAAG
*
11776923 GACTGTTTTGTCATATTTTCAAAAGTTGAGA
1 GACTGTTTTGTCACATTTTCAAAAGTTGAGA
*
11776954 GACTGTTTTGTCACATTTTC-AAAGTTGAGG
1 GACTGTTTTGTCACATTTTCAAAAGTTGAGA
11776984 GACTG
1 GACTG
11776989 AAATATAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 14 0.42
31 19 0.58
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (31 bp):
GACTGTTTTGTCACATTTTCAAAAGTTGAGA
Found at i:11781204 original size:6 final size:6
Alignment explanation
Indices: 11781193--11781221 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11781183 CAAAAGGGAA
11781193 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
11781222 AGATAAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:11781840 original size:2 final size:2
Alignment explanation
Indices: 11781833--11781870 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
11781823 TATACTCCAC
*
11781833 TA TA TA TA TA TA TA TA TA -A GGA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
11781871 GGGATTAGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:11781857 original size:20 final size:20
Alignment explanation
Indices: 11781834--11781875 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
11781824 ATACTCCACT
11781834 ATATATATATATATATAAGG
1 ATATATATATATATATAAGG
*
11781854 ATATATATATATATATAGGG
1 ATATATATATATATATAAGG
11781874 AT
1 AT
11781876 TAGACTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
ATATATATATATATATAAGG
Found at i:11781955 original size:17 final size:17
Alignment explanation
Indices: 11781920--11781953 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11781910 AATGGGTTAC
11781920 AAGGAGATGAAAGGTTT
1 AAGGAGATGAAAGGTTT
*
11781937 AAGGAAGATGGAAGGTT
1 AAGG-AGATGAAAGGTT
11781954 AAATGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (17 bp):
AAGGAGATGAAAGGTTT
Found at i:11785105 original size:36 final size:36
Alignment explanation
Indices: 11785059--11785169 Score: 168
Period size: 36 Copynumber: 3.1 Consensus size: 36
11785049 TGACTATTGA
* *
11785059 GACAATAAATATGTGGGTATGTTATTTATGCCATAT
1 GACAATAAATATGTGGATATGTTATTTATGCCATGT
* * *
11785095 GACAGTAAATATGTTGATATGTTATTCATGCCATGT
1 GACAATAAATATGTGGATATGTTATTTATGCCATGT
*
11785131 GACAATAAATATGTGGATATGTTATTTATGTCATGT
1 GACAATAAATATGTGGATATGTTATTTATGCCATGT
11785167 GAC
1 GAC
11785170 GGTGAATATA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (36 bp):
GACAATAAATATGTGGATATGTTATTTATGCCATGT
Found at i:11785564 original size:22 final size:22
Alignment explanation
Indices: 11785539--11785591 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
11785529 GACAAATATT
11785539 GATTAATAATAGGAATT-ATTAA
1 GATTAATAATAGG-ATTAATTAA
* *
11785561 GATTAAAAAATATGATTAATTAA
1 GATT-AATAATAGGATTAATTAA
11785584 G-TTAATAA
1 GATTAATAA
11785592 AGTACAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.15
22 9 0.35
23 13 0.50
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (22 bp):
GATTAATAATAGGATTAATTAA
Found at i:11786556 original size:53 final size:51
Alignment explanation
Indices: 11786440--11786684 Score: 211
Period size: 52 Copynumber: 4.7 Consensus size: 51
11786430 AATGAAAAAG
* * *
11786440 GGTCCGATGACTAAGTGCCATCGTGAGTAAATGAATCCTTTACGGATTATGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTA-AA
* * **
11786492 GGTCCGTTGACTAAGTGTCATTGTGAGTATATGAAATCCTTTATTGATTTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATG-AATCCTTTACGGA-TTAAA
* * * *
11786545 GGTCTGATGACTAAGTGTCATTGTGTGCATATGAATCCTTTACGGATTAAGA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA-A
** * ** * * ***
11786597 GGTTTGATAACTCTGTGTCATCGTGAGTATACGAATCCCTCGTGGATTATAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTA-AA
* ** * *
11786649 GCTCCGATGGTTATGTGTCATCGTAAGTATATGAAT
1 GGTCCGATGACTAAGTGTCATCGTGAGTATATGAAT
11786685 GAAGTGAAAT
Statistics
Matches: 155, Mismatches: 34, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
51 4 0.03
52 106 0.68
53 42 0.27
54 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAA
Found at i:11787326 original size:21 final size:21
Alignment explanation
Indices: 11787300--11787340 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11787290 GGTAGTTGTA
* *
11787300 TGTATAGATGTATCGGTAGAT
1 TGTATACATGTATCGATAGAT
*
11787321 TGTATACTTGTATCGATAGA
1 TGTATACATGTATCGATAGA
11787341 AGTTGCAGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.39
Consensus pattern (21 bp):
TGTATACATGTATCGATAGAT
Found at i:11797415 original size:18 final size:17
Alignment explanation
Indices: 11797392--11797446 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
11797382 TATGTGTTAT
11797392 AAATTACATAATATATAA
1 AAATTACATAATATA-AA
11797410 AAATTACATAATATAAA
1 AAATTACATAATATAAA
*
11797427 ATATTACA-AACT-TAAA
1 AAATTACATAA-TATAAA
11797443 AAAT
1 AAAT
11797447 AATTGATTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 9 0.26
17 10 0.29
18 15 0.44
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATTACATAATATAAA
Found at i:11798124 original size:7 final size:7
Alignment explanation
Indices: 11798112--11798136 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11798102 GAAAGAAAAT
11798112 TTTCTTC
1 TTTCTTC
11798119 TTTCTTC
1 TTTCTTC
11798126 TTTCTTC
1 TTTCTTC
11798133 TTTC
1 TTTC
11798137 ATTGTTACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCTTC
Found at i:11803303 original size:16 final size:18
Alignment explanation
Indices: 11803258--11803294 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11803248 TTTGTGATCA
* *
11803258 AAATTGAAAGTGAAAGTG
1 AAATTGGAATTGAAAGTG
11803276 AAATTGGAATTGAAAGTG
1 AAATTGGAATTGAAAGTG
11803294 A
1 A
11803295 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGGAATTGAAAGTG
Found at i:11807000 original size:15 final size:15
Alignment explanation
Indices: 11806977--11807039 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
11806967 CATACGGATT
*
11806977 CACAAGTAAGGTTTG
1 CACATGTAAGGTTTG
**
11806992 CACATGTAAGGTTCA
1 CACATGTAAGGTTTG
* *
11807007 CTCATATAAGGTTTG
1 CACATGTAAGGTTTG
*
11807022 CACATGTAGGGTTTG
1 CACATGTAAGGTTTG
11807037 CAC
1 CAC
11807040 CTATAGGATT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (15 bp):
CACATGTAAGGTTTG
Found at i:11807046 original size:15 final size:15
Alignment explanation
Indices: 11806986--11807046 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 15
11806976 TCACAAGTAA
* *
11806986 GGTTTGCACATGTAA
1 GGTTTGCACATATAG
** * *
11807001 GGTTCACTCATATAA
1 GGTTTGCACATATAG
*
11807016 GGTTTGCACATGTAG
1 GGTTTGCACATATAG
*
11807031 GGTTTGCACCTATAG
1 GGTTTGCACATATAG
11807046 G
1 G
11807047 ATTCACATAC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (15 bp):
GGTTTGCACATATAG
Found at i:11807257 original size:23 final size:23
Alignment explanation
Indices: 11807230--11807278 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
11807220 TTAACACATG
* *
11807230 TAGGGTTCGTATGTTTAAACAGA
1 TAGGGTTCGAATGTTTAAAAAGA
11807253 TAGGGTTCGAATGTTTAAAAAGA
1 TAGGGTTCGAATGTTTAAAAAGA
11807276 TAG
1 TAG
11807279 AGTTTACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (23 bp):
TAGGGTTCGAATGTTTAAAAAGA
Found at i:11807300 original size:22 final size:22
Alignment explanation
Indices: 11807269--11807316 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11807259 TCGAATGTTT
11807269 AAAAAGATAGAGTTTACAT-GA
1 AAAAAGATAGAGTTTACATGGA
*
11807290 AAAATAGATAGAGTTTGCATGGA
1 AAAA-AGATAGAGTTTACATGGA
11807313 AAAA
1 AAAA
11807317 CAATTAGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.17
22 14 0.58
23 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.21, T:0.23
Consensus pattern (22 bp):
AAAAAGATAGAGTTTACATGGA
Found at i:11807324 original size:23 final size:22
Alignment explanation
Indices: 11807269--11807332 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
11807259 TCGAATGTTT
*
11807269 AAAA-AGATAGAGTTTACATGA
1 AAAACAGATAGAGTTTGCATGA
*
11807290 AAAATAGATAGAGTTTGCATGGA
1 AAAACAGATAGAGTTTGCAT-GA
*
11807313 AAAACA-ATTAGAGTTCGCAT
1 AAAACAGA-TAGAGTTTGCAT
11807333 TTATATTCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 4 0.11
22 15 0.41
23 18 0.49
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.25
Consensus pattern (22 bp):
AAAACAGATAGAGTTTGCATGA
Found at i:11808837 original size:26 final size:27
Alignment explanation
Indices: 11808808--11808863 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
11808798 TTTTTTGAAG
11808808 TTTAACA-AGGGTAAAATCATCAAAAT
1 TTTAACATAGGGTAAAATCATCAAAAT
11808834 TTT-ACATAGGGTAAAATCATCAAAAT
1 TTTAACATAGGGTAAAATCATCAAAAT
11808860 TTTA
1 TTTA
11808864 TTGGGGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (27 bp):
TTTAACATAGGGTAAAATCATCAAAAT
Found at i:11813767 original size:43 final size:43
Alignment explanation
Indices: 11813717--11813855 Score: 206
Period size: 43 Copynumber: 3.2 Consensus size: 43
11813707 TTATGCGAAA
*
11813717 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
* *
11813760 AAGCGCCGCTGAAGGCCATGTTTTTTAGCGGCGCTTTTTCCAC
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
* * * *
11813803 AAGCGCCACTGAAGGTCATGTTCTTTAGCGACGCTTTATCCAA
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
*
11813846 AAGCGTCGCT
1 AAGCGCCGCT
11813856 AATATAACAG
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.27
Consensus pattern (43 bp):
AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
Found at i:11814299 original size:66 final size:66
Alignment explanation
Indices: 11814193--11814340 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
11814183 CTCGCTGCTG
* * *
11814193 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTACTTCTCTCACTGCA
11814258 A
66 A
* * **
11814259 CCTCCTCTTTAAGTTTTA-GATGGAGTTCATCATATTTTTTTTGAGCCTCTACTTCTCTCGTTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCATCATATTTTTTTTGAGACTCTACTTCTCTCACTGC
*
11814323 AG
65 AA
*
11814325 CCTCCTTTTTAAGTTG
1 CCTCCTCTTTAAGTTG
11814341 AGCAATTTGC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
65 1 0.01
66 70 0.99
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTACTTCTCTCACTGCA
A
Found at i:11820870 original size:42 final size:41
Alignment explanation
Indices: 11820808--11821192 Score: 432
Period size: 41 Copynumber: 9.3 Consensus size: 41
11820798 TTTAAATAAA
11820808 TTAGCGGCGCTT-ATGGGAAAGCGCCGCTAATGACCCGACCTT
1 TTAGCGGCGCTTGA-GGGAAAGCGCCGCTAATGACCCGACC-T
** * *
11820850 TTAGCGGCGCTTGAATGAAAGCGCCGCTAAATGATCCTACCT
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCT-AATGACCCGACCT
*
11820892 TTAGCGGTGCTTGAGGGAAAGCGCCGCTAATGACCCGACCTT
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCGACC-T
* * * * **
11820934 TTCGTGGCGCTTCAGGGAAAGCGCCGCTAATGATCATACCT
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCGACCT
** * * * *
11820975 TTAGCGGCGCTTGAGTTAAAGCGCCGTTAATTACCTGGCCT
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCGACCT
* *
11821016 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATTACCCTACCT
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCGACCT
* * ** *
11821057 TTAGCGGCGCATT-AGAGAAAGTGCCGCTAATGACTTGAACT
1 TTAGCGGCGC-TTGAGGGAAAGCGCCGCTAATGACCCGACCT
* ** *
11821098 TTAGCGGCGCTTGTGATAAAGCGCCGCTAATGACCCCACCT
1 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCGACCT
* *
11821139 TTAGCGGCGCTTGTGGGTAAAGCGCCGCTAATGACCCCACCT
1 TTAGCGGCGCTTGAGGG-AAAGCGCCGCTAATGACCCGACCT
11821181 TTAGCGGCGCTT
1 TTAGCGGCGCTT
11821193 TTGTTAAGCA
Statistics
Matches: 288, Mismatches: 49, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
40 2 0.01
41 153 0.53
42 122 0.42
43 11 0.04
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (41 bp):
TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCGACCT
Found at i:11821227 original size:39 final size:39
Alignment explanation
Indices: 11821177--11821273 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 39
11821167 TAATGACCCC
* ** *
11821177 ACCTTTAGCGGCGCTTTTGTTAAGCACCGCTAATGCTTT
1 ACCTTTTGCGGCGCTTTTGAAAAGCACAGCTAATGCTTT
** ** *
11821216 ACCTTTTGCGGCGCATTAAGAAAAGGGCAGCTAATGTTTT
1 ACCTTTTGCGGCGC-TTTTGAAAAGCACAGCTAATGCTTT
11821256 ACCTTTTGCGGCGCTTTT
1 ACCTTTTGCGGCGCTTTT
11821274 TTTTCCAAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
39 15 0.33
40 31 0.67
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (39 bp):
ACCTTTTGCGGCGCTTTTGAAAAGCACAGCTAATGCTTT
Found at i:11822911 original size:16 final size:16
Alignment explanation
Indices: 11822887--11822936 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
11822877 AATTTTATCA
*
11822887 TTATTAATTTAAAATT
1 TTATAAATTTAAAATT
11822903 TTATAAATTATAAAA-T
1 TTATAAATT-TAAAATT
* *
11822919 GTCTAAA-TTAAAATT
1 TTATAAATTTAAAATT
11822934 TTA
1 TTA
11822937 CCGTTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
14 5 0.19
15 3 0.11
16 14 0.52
17 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TTATAAATTTAAAATT
Found at i:11836101 original size:3 final size:3
Alignment explanation
Indices: 11836093--11836120 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11836083 GTGGAAAAAT
11836093 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11836121 AACTTGTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11842183 original size:3 final size:3
Alignment explanation
Indices: 11842175--11842202 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11842165 TGGAAAAAAT
11842175 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11842203 AACTTGTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11844237 original size:13 final size:13
Alignment explanation
Indices: 11844219--11844262 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
11844209 CCAATTCGAT
11844219 TTGACTAGACTTG
1 TTGACTAGACTTG
*
11844232 TTGACT-GACTCG
1 TTGACTAGACTTG
* *
11844244 TTGACCAGACCTG
1 TTGACTAGACTTG
11844257 TTGACT
1 TTGACT
11844263 TACCCGTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (13 bp):
TTGACTAGACTTG
Found at i:11844253 original size:25 final size:25
Alignment explanation
Indices: 11844219--11844273 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
11844209 CCAATTCGAT
* * *
11844219 TTGACTAGACTTGTTGACTGACTCG
1 TTGACCAGACCTGTTGACTGACCCG
*
11844244 TTGACCAGACCTGTTGACTTACCCG
1 TTGACCAGACCTGTTGACTGACCCG
11844269 TTGAC
1 TTGAC
11844274 TTCTTGTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (25 bp):
TTGACCAGACCTGTTGACTGACCCG
Found at i:11846249 original size:15 final size:14
Alignment explanation
Indices: 11846217--11846258 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
11846207 CATACGAATG
11846217 AATAAATATACGAA
1 AATAAATATACGAA
11846231 AATAAATATGA-GAAA
1 AATAAATAT-ACG-AA
11846246 AATAAA-ATACGAA
1 AATAAATATACGAA
11846259 TCATGAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.12
14 13 0.52
15 9 0.36
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.19
Consensus pattern (14 bp):
AATAAATATACGAA
Found at i:11846440 original size:29 final size:29
Alignment explanation
Indices: 11846408--11846722 Score: 272
Period size: 29 Copynumber: 11.0 Consensus size: 29
11846398 GAAAATTTTA
*
11846408 GGGGTAAAAATGTCA-TTTTGAGAGAGTTC
1 GGGGTAAAAATGTAATTTTTGAGA-AGTTC
*
11846437 GGGGT-AAAATGTGATTTTTGAGAAGTTC
1 GGGGTAAAAATGTAATTTTTGAGAAGTTC
* * * *
11846465 GAGGCAAAAATGTGATTTTTGA-AAGTTTG
1 GGGGTAAAAATGTAATTTTTGAGAAG-TTC
*
11846494 GGGGT-AAAATGTAATTTTTG-GAAGATC
1 GGGGTAAAAATGTAATTTTTGAGAAGTTC
** *
11846521 AAGGTAAAAATGTAATTTTT-TGAAGTTC
1 GGGGTAAAAATGTAATTTTTGAGAAGTTC
* *
11846549 GAGGGTAAAAATGTGATTTTTG-GAGGTTC
1 G-GGGTAAAAATGTAATTTTTGAGAAGTTC
* *
11846578 GGGGGCAAAAATGTAATTTTTG-GAAGTTAG
1 -GGGGTAAAAATGTAATTTTTGAGAAGTT-C
** *
11846608 GGGGGCAAAATGTAATTTTTGAAAAGTTC
1 GGGGTAAAAATGTAATTTTTGAGAAGTTC
* *
11846637 GAGGGTAAAAATATGATTTTT--GAAGTTC
1 G-GGGTAAAAATGTAATTTTTGAGAAGTTC
* * * *
11846665 AAGGGCAAAAATGTAATTTTTGAAAAGTTT
1 -GGGGTAAAAATGTAATTTTTGAGAAGTTC
* *
11846695 GGGGTAAAAATGTAATTTTGGAAAAGTT
1 GGGGTAAAAATGTAATTTTTGAGAAGTT
11846723 TTAAAGGTTA
Statistics
Matches: 233, Mismatches: 38, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
27 4 0.02
28 78 0.33
29 125 0.54
30 26 0.11
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGAGAAGTTC
Found at i:11847734 original size:27 final size:28
Alignment explanation
Indices: 11847678--11847738 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
11847668 CTCTTCCCTT
*
11847678 TTTATTTATTAATATGTATTATTAATTA
1 TTTATTTATTAATATATATTATTAATTA
*
11847706 TTTATTTATTAA-A-ATACTTATTATTTA
1 TTTATTTATTAATATATA-TTATTAATTA
11847733 TTTATT
1 TTTATT
11847739 ACCATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 16 0.53
28 12 0.40
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTATTTATTAATATATATTATTAATTA
Found at i:11848248 original size:6 final size:6
Alignment explanation
Indices: 11848237--11848317 Score: 71
Period size: 6 Copynumber: 13.8 Consensus size: 6
11848227 TGACTTTTAA
* *
11848237 TTAAAT TTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTAAA- ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
11848283 TTAAAC TCAAA- AT-AAT TTAAAAT TTAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TT-AAAT TTAAA
11848318 ATCTAAAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
4 2 0.03
5 9 0.15
6 38 0.62
7 12 0.20
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:11848264 original size:17 final size:17
Alignment explanation
Indices: 11848244--11848312 Score: 104
Period size: 17 Copynumber: 4.1 Consensus size: 17
11848234 TAATTAAATT
11848244 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
11848261 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
11848278 TAAATTTAAACTCAAAA
1 TAAATTTAAATTTAAAA
11848295 T-AATTTAAAATTTAAAA
1 TAAATTT-AAATTTAAAA
11848312 T
1 T
11848313 TTAAAATCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
16 5 0.11
17 42 0.89
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:11848278 original size:7 final size:7
Alignment explanation
Indices: 11848239--11848327 Score: 61
Period size: 7 Copynumber: 13.7 Consensus size: 7
11848229 ACTTTTAATT
11848239 AAATTT-
1 AAATTTA
11848245 AAATTT-
1 AAATTTA
11848251 AAATTTA
1 AAATTTA
11848258 AAA--T-
1 AAATTTA
11848262 AAATTT-
1 AAATTTA
11848268 AAATTTA
1 AAATTTA
11848275 AAA--T-
1 AAATTTA
11848279 AAATTTA
1 AAATTTA
* **
11848286 AACTCAAA
1 AAAT-TTA
11848294 ATAATTTA
1 A-AATTTA
11848302 AAATTTA
1 AAATTTA
11848309 AAATTTA
1 AAATTTA
*
11848316 AAATCTA
1 AAATTTA
11848323 AAATT
1 AAATT
11848328 AGGTTCAATT
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
4 6 0.09
5 2 0.03
6 20 0.30
7 32 0.48
8 4 0.06
9 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATTTA
Found at i:11848899 original size:78 final size:78
Alignment explanation
Indices: 11848784--11849715 Score: 998
Period size: 78 Copynumber: 12.0 Consensus size: 78
11848774 AAGATATTGG
* * * * *
11848784 ATGGTTGCAATC-TGCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGG
1 ATGGCTGCAATCTTCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCGA
*
11848848 GGTAAAATATCGA
66 GGTAAAAGATCGA
* * * * * **
11848861 ATGGCTACAATCTTCCCCAGGCTCGGGGTAAAAAATTGGCTGATGATGATCTGCCTCATGCTTAA
1 ATGGCTGCAATCTTCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCGA
11848926 GGTAAAAGATCGA
66 GGTAAAAGATCGA
* * * * * *
11848939 ATGGCTGCAATCTGT-CCCGGGCTCGGAGTAAGAAATTGACTGATGGTGATGTGCCTCATGCTCG
1 ATGGCTGCAATCT-TCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCG
11849003 AGGTAAAAGATCGA
65 AGGTAAAAGATCGA
* * *
11849017 ATGACTGTAAT-TTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCATGCTCG
1 ATGGCTGCAATCTT-CCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCG
11849081 AGGTAAAAGATCGA
65 AGGTAAAAGATCGA
* * * *
11849095 ATGGCTACAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGG
1 ATGGCTGCAATCTTCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCGA
* *
11849160 GGTAAGAGATCGG
66 GGTAAAAGATCGA
* * * * * *
11849173 ATAGCTGCAATCTTCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCTCAAGCTCGG
1 ATGGCTGCAATCTTCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCGA
* *
11849238 GGTAAGAGATCGG
66 GGTAAAAGATCGA
** * * * * ** * * * *
11849251 ATGGCTATAATCTGCCCTAGGCACGAGGTAAGAGATTGGCTGATAATGATCTGCTCTAGGCTCGG
1 ATGGCTGCAATCTTCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCGA
* * *
11849316 GGTAAGAGATTGG
66 GGTAAAAGATCGA
* * * * * * *
11849329 ATGTCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACT-GTAATCTGCCCTAAGCT-T
1 ATGGCTGCAATCTTCCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCATGCTCG
*
11849392 AGGTTAAGAGATCGA
65 AGG-TAAAAGATCGA
* * ** * * *
11849407 ATGGCTGCAATCTAT-CTCGGGCTCGAAGTAAGAGATTGGCTAATGGTGATCTGCTCCATGCTCA
1 ATGGCTGCAATCT-TCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCG
11849471 AGGTAAAAGATCGA
65 AGGTAAAAGATCGA
* ** * * * * *
11849485 ATGGCTGTAATCTGT-CTTAAGCTCGGGATAAGAGATTGGTTGATGGTGATCTACCTCATGCTCG
1 ATGGCTGCAATCT-TCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCG
11849549 AGGTAAAAGATCGA
65 AGGTAAAAGATCGA
* *
11849563 ATGGCTGTAAT-TTGCCCCAGGCTCAGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCG
1 ATGGCTGCAATCTT-CCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCG
11849627 AGGTAAAAGATCGA
65 AGGTAAAAGATCGA
* * * * * *
11849641 ATGGCTGCAATCTACCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGG
1 ATGGCTGCAATCTTCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCGA
*
11849706 GGTAAGAGAT
66 GGTAAAAGAT
11849716 TGGCTAATGG
Statistics
Matches: 724, Mismatches: 118, Indels: 25
0.84 0.14 0.03
Matches are distributed among these distances:
76 2 0.00
77 15 0.02
78 700 0.97
79 7 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (78 bp):
ATGGCTGCAATCTTCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCGA
GGTAAAAGATCGA
Found at i:11849047 original size:39 final size:39
Alignment explanation
Indices: 11848792--11850144 Score: 550
Period size: 39 Copynumber: 34.7 Consensus size: 39
11848782 GGATGGTTGC
* * *
11848792 AATCTG-CCTAGGCTCGGGGTAAGAGATTGGCTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * **
11848830 GATCTGCCCCAGGCTCGGGGTAAAATATCGAATGGCTAC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * * * *
11848869 AATCTTCCCCAGGCTCGGGGTAAAAAATTGGCTGA-TGAT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTG-T
* * * *** * * * *
11848908 GATCTGCCTCATGCTTAAGGTAAAAGATCGAATGGCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * * * *
11848947 AATCTGTCCCGGGCTCGGAGTAAGAAAT-TGACTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGA-TGACT-GT
* * * * * * *
11848986 GATGTGCCTCATGCTCGAGGTAAAAGATCGAATGACTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * * *
11849025 AATTTACCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * * * **
11849064 GATCTGCCTCATGCTCGAGGTAAAAGATCGAATGGCTAC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* *
11849103 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * *
11849142 GATCTGCCCCAAGCTCGGGGTAAGAGATCGGAT-AGCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGA-CTGT
* * * *
11849181 AATCTTCCCTAGGCTCGGGGTAAGAGATTGGCTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * *
11849220 GATTTGCCTCAAGCTCGGGGTAAGAGATCGGATGGCTAT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * * * * *
11849259 AATCTGCCCTAGGCACGAGGTAAGAGATTGGCTGA-TAAT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * *
11849298 GATCTGCTCTAGGCTCGGGGTAAGAGATTGGATGTCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * *
11849337 AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * ** * * * *
11849376 AATCTGCCCTAAGCTTAGGTTAAGAGATCGAATGGCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
** * * ** * * *
11849415 AATCTATCTCGGGCTCGAAGTAAGAGATTGGCT-AATGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * ** * * *
11849454 GATCTGCTCCATGCTCAAGGTAAAAGATCGAATGGCTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* ** * * * *
11849493 AATCTGTCTTAAGCTCGGGATAAGAGATTGGTTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * * * *
11849532 GATCTACCTCATGCTCGAGGTAAAAGATCGAATGGCTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * * *
11849571 AATTTGCCCCAGGCTCAGGGTAAGAGATTGGCTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * * *
11849610 GATCTGCCCCATGCTCGAGGTAAAAGATCGAATGGCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * * * *
11849649 AATCTACCCTAGGCTCGAGGTAAGAGATTGGCTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * *
11849688 GATCTGCCTCAAGCTCGGGGTAAGAGATTGGCT-AATGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * ** * * * ** *
11849727 GATCTGTCTTATGCTCGAGGTAAAAGATCAAATGGCTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* ** * * *
11849766 AATTTATCCCAAGCTCGGGGTAAGAGATTGGCTGA-TAGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * *
11849805 GATCTGCCCCATGCTCGAGGTAAAAGATCGAATGACTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * * *
11849844 AATCTGCCCCAAGCTCTGGGTAAGAGATTGGCTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * * *
11849883 GATCTGCCCCATGCTCGAGGTAAAAGATCGAATGGCTGC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * *
11849922 AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * * * *
11849961 GATCTACCTCAAGCTTGGGGTAAAAGATCGAATGGCTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
** * * * *
11850000 AATCTGCCATAGACTCGGGGTAATAGATTGGCTGA-TGGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACT-GT
* * * * * *
11850039 GATTTGCCCTAGGCTCGGGGTAA-AGATCAGATGTCTAT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * * * *
11850077 AGTCTGTCCCAAGCTCGGGGTAAGAGATTGGCTGACTGT
1 AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
* * * *
11850116 GATCTACCCCAAGCTCGGGGTAAAAGATC
1 AATCTGCCCCAGGCTCGGGGTAAGAGATC
11850145 AGAATCTTCA
Statistics
Matches: 925, Mismatches: 354, Indels: 71
0.69 0.26 0.05
Matches are distributed among these distances:
38 47 0.05
39 861 0.93
40 17 0.02
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (39 bp):
AATCTGCCCCAGGCTCGGGGTAAGAGATCGGATGACTGT
Found at i:11849218 original size:234 final size:234
Alignment explanation
Indices: 11848792--11849715 Score: 1115
Period size: 234 Copynumber: 4.0 Consensus size: 234
11848782 GGATGGTTGC
* * *
11848792 AATCTG-CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAAAAT
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAG
* * * * * *
11848856 ATCGAATGGCTACAATCTTCCCCAGGCTCGGGGTAAAAAATTGGCTGATGATGATCTGCCTCATG
66 ATCGAATGGCTACAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAG
* * * * * *
11848921 CTTAAGGTAAAAGATCGAATGGCTGCAATCTGTCCCGGGCTCGGAGTAAGAAATTGACTGATGGT
131 CTCAAGGTAAAAGATCGAATGGCTGCAATCTATCCCAGGCTCGAAGTAAGAGATTGGCTGATGGT
* * *
11848986 GATGTGCCTCATGCTCGAGGTAAAAGATCGAATGACTGT
196 GATCTGCCTCAAGCTCGAGGTAAAAGATCGAATGGCTGT
* * * *
11849025 AATTTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCATGCTCGAGGTAAAAG
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAG
11849090 ATCGAATGGCTACAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAG
66 ATCGAATGGCTACAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAG
** * * * **
11849155 CTCGGGGTAAGAGATCGGATAGCTGCAATCT-TCCCTAGGCTCGGGGTAAGAGATTGGCTGATGG
131 CTCAAGGTAAAAGATCGAATGGCTGCAATCTATCCC-AGGCTCGAAGTAAGAGATTGGCTGATGG
* * * * *
11849219 TGATTTGCCTCAAGCTCGGGGTAAGAGATCGGATGGCTAT
195 TGATCTGCCTCAAGCTCGAGGTAAAAGATCGAATGGCTGT
* * ** * *
11849259 AATCTGCCCTAGGCACGAGGTAAGAGATTGGCTGATAATGATCTG-CTCTAGGCTCGGGGTAAGA
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTC-AGGCTCGAGGTAAAA
* * * * * * *
11849323 GATTGGATGTCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACT-GTAATCTGCCCTA
65 GATCGAATGGCTACAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCA
* * * * *
11849387 AGCT-TAGGTTAAGAGATCGAATGGCTGCAATCTATCTCGGGCTCGAAGTAAGAGATTGGCTAAT
129 AGCTCAAGG-TAAAAGATCGAATGGCTGCAATCTATCCCAGGCTCGAAGTAAGAGATTGGCTGAT
* *
11849451 GGTGATCTG-CTCCATGCTCAAGGTAAAAGATCGAATGGCTGT
193 GGTGATCTGCCT-CAAGCTCGAGGTAAAAGATCGAATGGCTGT
* * * * * * *
11849493 AATCTGTCTTAAGCTCGGGATAAGAGATTGGTTGATGGTGATCTACCTCATGCTCGAGGTAAAAG
1 AATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAG
** * * *
11849558 ATCGAATGGCTGTAATTTGCCCCAGGCTCAGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATG
66 ATCGAATGGCTACAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAG
* *
11849623 CTCGAGGTAAAAGATCGAATGGCTGCAATCTA-CCCTAGGCTCGAGGTAAGAGATTGGCTGATGG
131 CTCAAGGTAAAAGATCGAATGGCTGCAATCTATCCC-AGGCTCGAAGTAAGAGATTGGCTGATGG
* *
11849687 TGATCTGCCTCAAGCTCGGGGTAAGAGAT
195 TGATCTGCCTCAAGCTCGAGGTAAAAGAT
11849716 TGGCTAATGG
Statistics
Matches: 583, Mismatches: 96, Indels: 23
0.83 0.14 0.03
Matches are distributed among these distances:
233 18 0.03
234 553 0.95
235 12 0.02
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (234 bp):
AATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAG
ATCGAATGGCTACAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAG
CTCAAGGTAAAAGATCGAATGGCTGCAATCTATCCCAGGCTCGAAGTAAGAGATTGGCTGATGGT
GATCTGCCTCAAGCTCGAGGTAAAAGATCGAATGGCTGT
Found at i:11849743 original size:78 final size:80
Alignment explanation
Indices: 11848792--11849953 Score: 732
Period size: 78 Copynumber: 14.9 Consensus size: 80
11848782 GGATGGTTGC
* * * *
11848792 AATCTG-CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGGGGTAA-A-
1 AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAG
*
11848854 ATAT--CGAATGGCTAC
66 AT-TGGCGAATGGCT-G
* * * * * * *** *
11848869 AATCTTCCCCAGGCTCGGGGTAAAAAATTGGCTGATGATGATCTGCCTCATGCTTAAGGTAAAAG
1 AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAG
11848934 A-T--CGAATGGCTG
66 ATTGGCGAATGGCTG
* * * * * * * *
11848946 CAATCTGTCCCGGGCTCG-GAGTAAGAAATTGACTGATGGTGATGTGCCTCATGCTCGAGGTAAA
1 -AATCTGCCCCAGGCTCGAG-GTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAG
*
11849010 AGA-T--CGAATGACTG
64 AGATTGGCGAATGGCTG
* * * * * *
11849024 TAATTTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCATGCTCGAGGTAAAA
1 -AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGA
*
11849089 GA-T--CGAATGGCTAC
65 GATTGGCGAATGGCT-G
* *
11849103 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
1 AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAG
* *
11849168 A-T--CGGATAGCTG
66 ATTGGCGAATGGCTG
* * * *
11849180 CAATCTTCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCTCAAGCTCGGGGTAAGA
1 -AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGA
* *
11849245 GA-T--CGGATGGCTAT
65 GATTGGCGAATGGCT-G
* * ** *
11849259 AATCTGCCCTAGGCACGAGGTAAGAGATTGGCTGATAATGATCTG-CTCTAGGCTCGGGGTAAGA
1 AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTC-AAGCTCGGGGTAAGA
*
11849323 GATT-G-G-ATGTCTG
65 GATTGGCGAATGGCTG
* * * ** *
11849336 CAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACT-GTAATCTGCC-CTAAGCTTAGGTTAA
1 -AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGA-TGGTGATCTGCCTC-AAGCTCGGGGTAA
11849399 GAGA-T--CGAATGGCTG
63 GAGATTGGCGAATGGCTG
** * * * * * ** *
11849414 CAATCTATCTCGGGCTCGAAGTAAGAGATTGGCTAATGGTGATCTG-CTCCATGCTCAAGGTAAA
1 -AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCT-CAAGCTCGGGGTAAG
11849478 AGA-T--CGAATGGCTG
64 AGATTGGCGAATGGCTG
* ** * * * * * *
11849492 TAATCTGTCTTAAGCTCG-GGATAAGAGATTGGTTGATGGTGATCTACCTCATGCTCGAGGTAAA
1 -AATCTGCCCCAGGCTCGAGG-TAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAG
11849556 AGA-T--CGAATGGCTG
64 AGATTGGCGAATGGCTG
* * * * *
11849570 TAATTTGCCCCAGGCTC-AGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCGAGGTAAA
1 -AATCTGCCCCAGGCTCGA-GGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAG
11849634 AGA-T--CGAATGGCTG
64 AGATTGGCGAATGGCTG
* *
11849648 CAATCTACCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGA
1 -AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGA
*
11849713 GATTGGCTAATGG-TG
65 GATTGGCGAATGGCTG
* ** * * ** * *
11849728 -ATCTGTCTTATGCTCGAGGTAAAAGA-T--CAAATGGCTGTAATTTATCC-CAAGCTCGGGGTA
1 AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGG-TG--ATCT-GCCTCAAGCTCGGGGTA
*
11849788 AGAGATTGGCTG-ATAG-TG
62 AGAGATTGGC-GAATGGCTG
* * * ** * * *
11849806 -ATCTGCCCCATGCTCGAGGTAAAAGATCGAATGACT-GTAATCTGCCCCAAGCTCTGGGTAAGA
1 AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGA-TGGTGATCTGCCTCAAGCTCGGGGTAAGA
11849869 GATTGGCTG-ATGG-TG
65 GATTGGC-GAATGGCTG
* * *
11849884 -ATCTGCCCCATGCTCGAGGTAAAAGA-T--C-GAATGGCTGCAATCTGCCCCAAGCTCGGGGTA
1 AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTG-ATGG-TG--ATCTGCCTCAAGCTCGGGGTA
11849944 AGAGATTGGC
62 AGAGATTGGC
11849954 TGATGGTGAT
Statistics
Matches: 908, Mismatches: 134, Indels: 85
0.81 0.12 0.08
Matches are distributed among these distances:
74 2 0.00
75 7 0.01
76 3 0.00
77 17 0.02
78 851 0.94
79 15 0.02
80 4 0.00
81 8 0.01
82 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (80 bp):
AATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAG
ATTGGCGAATGGCTG
Found at i:11849815 original size:234 final size:232
Alignment explanation
Indices: 11849104--11850104 Score: 723
Period size: 234 Copynumber: 4.3 Consensus size: 232
11849094 AATGGCTACA
* *
11849104 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCAAGCTCGGGGTAAGAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGACT-GTAATCTGCCCCAAGCTCGAGGTAAGAG
* * * * *
11849168 ATCGGATAGCTGCAATCTTCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCTCAAG
65 ATCGAATGGCTGCAATCTACCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAG
* * * * * *
11849233 CTCGGGGTAAGAGATCGG---ATGGCTATAATCTGCCCTAGGCACGAGGTAAGAGAT--TGGCTG
130 CTCGGGGTAAGAGATTGGCTAATGGC--TGATCTGCCTTAAGCTCGAGGTAAAAGATAATGGCTG
* * *
11849293 ATAATGATCTGCTCTAGGCTCGGGGTAAGAGATTGGATG-TCTG
193 -TAATTATC--CTC-AAGCTCGGGGTAAGAGATTGGATGATGTG
* * *
11849336 CAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACTGTAATCTGCCCTAAGCT-TAGGTTAAG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGACTGTAATCTGCCCCAAGCTCGAGG-TAAG
* * * *
11849400 AGATCGAATGGCTGCAATCTA-TCTCGGGCTCGAAGTAAGAGATTGGCTAATGGTGATCTG-CTC
63 AGATCGAATGGCTGCAATCTACCCT-AGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCT-
* ** * * * * **
11849463 CATGCTCAAGGTAAAAGA-T--CGAATGGCTGTAATCTGTCTTAAGCTCG-GGATAAGAGATTGG
126 CAAGCTCGGGGTAAGAGATTGGCTAATGGCTG--ATCTGCCTTAAGCTCGAGG-TAAAAGA-TAA
* * * * * * * * * *
11849524 TTGATGGTGATCTA-CCTCATGCTCGAGGTAAAAGATCGAATGGCTGTA
187 TGGCT-GTAAT-TATCCTCAAGCTCGGGGTAAGAGATTGGAT-GATGTG
* * * * *
11849572 ATTTGCCCCAGGCTCAGGGTAAGAGATTGGCTGA-TGGTGATCTGCCCCATGCTCGAGGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGACT-GTAATCTGCCCCAAGCTCGAGGTAAGAG
11849636 ATCGAATGGCTGCAATCTACCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAG
65 ATCGAATGGCTGCAATCTACCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAG
* *
11849701 CTCGGGGTAAGAGATTGGCTAATGG-TGATCTGTCTTATGCTCGAGGTAAAAGATCAAATGGCTG
130 CTCGGGGTAAGAGATTGGCTAATGGCTGATCTGCCTTAAGCTCGAGGTAAAAGAT--AATGGCTG
*
11849765 TAATTTATCC-CAAGCTCGGGGTAAGAGATTGGCTGATAGTG
193 TAA-TTATCCTCAAGCTCGGGGTAAGAGATTGGATGAT-GTG
* * * * **
11849806 ATCTGCCCCATGCTCGAGGTAAAAGATCGAATGACTGTAATCTGCCCCAAGCTCTG-GGTAAGAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGACTGTAATCTGCCCCAAGCTC-GAGGTAAGAG
* * * *
11849870 ATTGGCTG-ATGG-TG--ATCTGCCCCATGCTCGAGGTAAAAGA-T--C-GAATGGCTGCAATCT
65 A-T--C-GAATGGCTGCAATCTACCCTAGGCTCGAGGTAAGAGATTGGCTG-ATGG-TG--ATCT
* * * * * *
11849927 GCCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TGATCTACCTCAAGCTTGGGGTAAAAGATCG
122 GCCTCAAGCTCGGGGTAAGAGATTGGCTAATGGCTGATCTGCCTTAAGCTCGAGGTAAAAGAT--
* * * *
11849991 AATGGCTGTAA-TCTGC-CATAGACTCGGGGTAATAGATTGGCTGATGGTG
185 AATGGCTGTAATTATCCTCA-AG-CTCGGGGTAAGAGATTGGATGAT-GTG
* * ** * * * * * *
11850040 ATTTGCCCTAGGCTCGGGGTAA-AGATCAGATGTCTATAGTCTGTCCCAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGACTGTAATCTGCCCCAAGCTCGAGGTAAGAGA
11850104 T
66 T
11850105 TGGCTGACTG
Statistics
Matches: 619, Mismatches: 105, Indels: 88
0.76 0.13 0.11
Matches are distributed among these distances:
230 1 0.00
231 5 0.01
232 10 0.02
233 49 0.08
234 502 0.81
235 25 0.04
236 6 0.01
237 18 0.03
238 3 0.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (232 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGACTGTAATCTGCCCCAAGCTCGAGGTAAGAGA
TCGAATGGCTGCAATCTACCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGC
TCGGGGTAAGAGATTGGCTAATGGCTGATCTGCCTTAAGCTCGAGGTAAAAGATAATGGCTGTAA
TTATCCTCAAGCTCGGGGTAAGAGATTGGATGATGTG
Found at i:11849950 original size:156 final size:154
Alignment explanation
Indices: 11849689--11850149 Score: 613
Period size: 156 Copynumber: 3.0 Consensus size: 154
11849679 GCTGATGGTG
* * * *
11849689 ATCTGCCTCAAGCTCGGGGTAAGAGATTGGCTAATGGTGATCTGTCTTATGCTCGAGGTAAAAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTATGCTCGAGGTAAAAGA
* * * *
11849754 TCAAATGGCTGTAATTTATCCCAAGCTCGGGGTAAGAGATTGGCTGATAGTGATCTGCCCCATGC
66 TC-AATGGCTGTAATCTGTCCCAAGCTCGGGGTAAGAGATTGGCTGAT-GTGATCTACCCCAAGC
*
11849819 TCGAGGTAAAAGATCGAATGACTGTA
129 TCGGGGTAAAAGATCGAATGACTGTA
* *
11849845 ATCTGCCCCAAGCTCTGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGCTCGAGGTAAAAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTATGCTCGAGGTAAAAGA
* * *
11849910 TCGAATGGCTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCTCAAGC
66 TC-AATGGCTGTAATCTGTCCCAAGCTCGGGGTAAGAGATTGGCTGAT-GTGATCTACCCCAAGC
* *
11849975 TTGGGGTAAAAGATCGAATGGCTGTA
129 TCGGGGTAAAAGATCGAATGACTGTA
* * * *
11850001 ATCTG--CCATAGACTCGGGGTAATAGATTGGCTGATGGTGATTTGCCCTAGGCTCGGGGT-AAA
1 ATCTGCCCCA-AG-CTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTATGCTCGAGGTAAAA
* * *
11850063 GATCAGATGTCTATAGTCTGTCCCAAGCTCGGGGTAAGAGATTGGCTGACTGTGATCTACCCCAA
64 GATCA-ATGGCTGTAATCTGTCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGTGATCTACCCCAA
11850128 GCTCGGGGTAAAAGATCAGAAT
127 GCTCGGGGTAAAAGATC-GAAT
11850150 CTTCATTCTG
Statistics
Matches: 269, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
154 4 0.01
155 76 0.28
156 189 0.70
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (154 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTATGCTCGAGGTAAAAGA
TCAATGGCTGTAATCTGTCCCAAGCTCGGGGTAAGAGATTGGCTGATGTGATCTACCCCAAGCTC
GGGGTAAAAGATCGAATGACTGTA
Found at i:11850550 original size:49 final size:49
Alignment explanation
Indices: 11850428--11850772 Score: 300
Period size: 49 Copynumber: 7.0 Consensus size: 49
11850418 TGTTTTCTAA
* * * ** * *
11850428 GGTACCGGGTTCGTCGTTCCGATCTCAACCTTTCCCTTCATATCTTCTAA
1 GGTACCAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTC-AT
* * *
11850478 GGTACCAGGTTCGTCGTTACGGCCTCAACCTTTCCCTTAAAATCTTCAT
1 GGTACCAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCAT
* * * * * *
11850527 GGTACCGGGTTCACCATTGCGGCCTCAACCTTTCCCATCATAT-TTCAT
1 GGTACCAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCAT
* ** * * * * *
11850575 GGTATC-GGATTCGCCGTTGTGGCCTCAATCTTTCCCATCACATTTTTAA
1 GGTACCAGG-TTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCAT
* * * *
11850624 GGTACTAGGTTCGCCGTTACGGCATCAACCTTTCCCTTTAAATCTTCAT
1 GGTACCAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCAT
* * * *
11850673 GGTACC-GAGTTCGCCGTTACGACCTCAACCTTTTCCGTCACATCTTCTAA
1 GGTACCAG-GTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTC-AT
* * * * *
11850723 GGTACCAGGTCCACCGTTGCGGCCTGAGCCTTTCCCTTCACATCTTCAT
1 GGTACCAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCAT
11850772 G
1 G
11850773 TTTGTCTCAG
Statistics
Matches: 237, Mismatches: 52, Indels: 13
0.78 0.17 0.04
Matches are distributed among these distances:
47 2 0.01
48 40 0.17
49 113 0.48
50 81 0.34
51 1 0.00
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (49 bp):
GGTACCAGGTTCGCCGTTACGGCCTCAACCTTTCCCTTCACATCTTCAT
Found at i:11851786 original size:11 final size:11
Alignment explanation
Indices: 11851749--11851792 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
11851739 TTTATTTTTC
11851749 CTTTTTTCTTTT
1 CTTTTTTC-TTT
*
11851761 CTTTTCTT-TTC
1 CTTTT-TTCTTT
11851772 CTTTTTTCTTT
1 CTTTTTTCTTT
11851783 CTTTTTTCTT
1 CTTTTTTCTT
11851793 CATTGAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 2 0.07
11 19 0.68
12 5 0.18
13 2 0.07
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
CTTTTTTCTTT
Found at i:11851788 original size:23 final size:23
Alignment explanation
Indices: 11851714--11851787 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
11851704 TCGACCTCTC
*
11851714 CTTTTCTTTTTCTCGTTTTTTCTATT
1 CTTTTC-TTTTC-C-TTTTTTCTTTT
*
11851740 -TTAT-TTTTCCTTTTTTCTTTT
1 CTTTTCTTTTCCTTTTTTCTTTT
11851761 CTTTTCTTTTCCTTTTTTC-TTT
1 CTTTTCTTTTCCTTTTTTCTTTT
11851783 CTTTT
1 CTTTT
11851788 TTCTTCATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
21 10 0.23
22 12 0.28
23 18 0.42
25 3 0.07
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (23 bp):
CTTTTCTTTTCCTTTTTTCTTTT
Found at i:11854778 original size:8 final size:8
Alignment explanation
Indices: 11854765--11854812 Score: 60
Period size: 8 Copynumber: 5.5 Consensus size: 8
11854755 GGCTTGTATA
11854765 GAATGCAT
1 GAATGCAT
11854773 GAATGCTTAT
1 GAATGC--AT
11854783 GAATGCAT
1 GAATGCAT
11854791 GAATGCTTAT
1 GAATGC--AT
11854801 GAATGCAT
1 GAATGCAT
11854809 GAAT
1 GAAT
11854813 TTATAAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
8 20 0.56
10 16 0.44
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.31
Consensus pattern (8 bp):
GAATGCAT
Found at i:11854786 original size:10 final size:10
Alignment explanation
Indices: 11854771--11854806 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
11854761 TATAGAATGC
11854771 ATGAATGCTT
1 ATGAATGCTT
11854781 ATGAATGC--
1 ATGAATGCTT
11854789 ATGAATGCTT
1 ATGAATGCTT
11854799 ATGAATGC
1 ATGAATGC
11854807 ATGAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (10 bp):
ATGAATGCTT
Found at i:11854788 original size:18 final size:18
Alignment explanation
Indices: 11854765--11854812 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
11854755 GGCTTGTATA
11854765 GAATGCATGAATGCTTAT
1 GAATGCATGAATGCTTAT
11854783 GAATGCATGAATGCTTAT
1 GAATGCATGAATGCTTAT
11854801 GAATGCATGAAT
1 GAATGCATGAAT
11854813 TTATAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.31
Consensus pattern (18 bp):
GAATGCATGAATGCTTAT
Found at i:11856507 original size:14 final size:15
Alignment explanation
Indices: 11856488--11856522 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
11856478 CATACAAATG
*
11856488 AATAAATATATG-AA
1 AATAAATATAAGAAA
11856502 AATAAATATAAGAAA
1 AATAAATATAAGAAA
11856517 AATAAA
1 AATAAA
11856523 ATGCGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AATAAATATAAGAAA
Found at i:11856755 original size:57 final size:57
Alignment explanation
Indices: 11856680--11857041 Score: 396
Period size: 57 Copynumber: 6.3 Consensus size: 57
11856670 GAAAATTTTA
* * * *
11856680 GGGGTAAAAATGTCATTTTAGGAGAGTTC-GCGAAAAAATGTGATTTTTGAGAAGTTT
1 GGGGTAAAAATGTGATTTTTGGA-AGTTCAGGGTAAAAATGTGATTTTTGAGAAGTTT
* * * *
11856737 GGGATAAAAATGTGATTTTTGGAAGTTTAGGAGCAAAAATGTAATTTTTG-GAAGTTT
1 GGGGTAAAAATGTGATTTTTGGAAGTTCAGG-GTAAAAATGTGATTTTTGAGAAGTTT
* * * *
11856794 AGGGTAAAAATGAGATTTTTGGAAGATCAGGGTAAAAATGTGATTTTTGA-AAGTTCG
1 GGGGTAAAAATGTGATTTTTGGAAGTTCAGGGTAAAAATGTGATTTTTGAGAAGTT-T
* * *
11856851 GGGGTAAAAATGTGATTTGTAGAAGTTCAAGGGTAAAAATGTGATTTTTG-GAAGTTAA
1 GGGGTAAAAATGTGATTTTTGGAAGTTC-AGGGTAAAAATGTGATTTTTGAGAAGTT-T
* * *
11856909 AGGG-AAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGA-AAGTTC
1 GGGGTAAAAATGTGATTTTTG-GAAGTTC-AGGGTAAAAATGTGATTTTTGAGAAGTTT
* * *
11856966 GAGGGTAAAAATGTGATTTTTGGAAGTTCGGGGT-AAAATGTAATTTTTGAAAAGTTT
1 G-GGGTAAAAATGTGATTTTTGGAAGTTCAGGGTAAAAATGTGATTTTTGAGAAGTTT
*
11857023 GGTGGTAAAAATGTAATTT
1 GG-GGTAAAAATGTGATTT
11857042 GGAAAAGTTT
Statistics
Matches: 259, Mismatches: 34, Indels: 24
0.82 0.11 0.08
Matches are distributed among these distances:
56 41 0.16
57 115 0.44
58 88 0.34
59 15 0.06
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (57 bp):
GGGGTAAAAATGTGATTTTTGGAAGTTCAGGGTAAAAATGTGATTTTTGAGAAGTTT
Found at i:11857049 original size:86 final size:84
Alignment explanation
Indices: 11856637--11857081 Score: 380
Period size: 86 Copynumber: 5.1 Consensus size: 84
11856627 AAAAATAAAG
* * * * *
11856637 TTTTGGAGAGTTCGAGGTTAAAACGTAATTTTAGAAAATTTTAGGGGTAAAAATGTCATTTTAGG
1 TTTTGGA-AGTTCG-GGGTAAAATGTAATTTTTGAAAAGTTT-GGGGTAAAAATGT-AATTT-GG
* * *
11856702 AGAGTTC--GCGAAAAAATGTGAT
61 AAAGTTCGAGGGTAAAAATGTGAT
* * * * * *
11856724 TTTTGAGAAGTTTGGGATAAAAATGTGATTTTTG-GAAGTTTAGGAGCAAAAATGTAATTTTTGG
1 TTTTG-GAAGTTCGGGGT-AAAATGTAATTTTTGAAAAGTTT-GGGGTAAAAATGTAA--TTTGG
* *
11856788 -AAGTT-TAGGGTAAAAATGAGAT
61 AAAGTTCGAGGGTAAAAATGTGAT
* * * * * *
11856810 TTTTGGAAGATCAGGGTAAAAATGTGATTTTTG-AAAGTTCGGGGGTAAAAATGTGATTTGTAGA
1 TTTTGGAAGTTCGGGGT-AAAATGTAATTTTTGAAAAGTT-TGGGGTAAAAATGTAATTTGGA-A
*
11856874 AGTTCAAGGGTAAAAATGTGAT
63 AGTTCGAGGGTAAAAATGTGAT
** * * * * *
11856896 TTTTGGAAGTTAAAGGGAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGAA
1 TTTTGGAAGTT-CGGGGTAAAATGTAATTTTTGAAAAGTTTG-GGGTAAAAATGT-AATTTGGAA
11856961 AGTTCGAGGGTAAAAATGTGAT
63 AGTTCGAGGGTAAAAATGTGAT
11856983 TTTTGGAAGTTCGGGGTAAAATGTAATTTTTGAAAAGTTTGGTGGTAAAAATGTAATTTGGAAAA
1 TTTTGGAAGTTCGGGGTAAAATGTAATTTTTGAAAAGTTTGG-GGTAAAAATGTAATTTGG-AAA
* * *
11857048 GTTTGAGGGTCAAAATATGAT
64 GTTCGAGGGTAAAAATGTGAT
11857069 TTTTGGAAAGTTC
1 TTTTGG-AAGTTC
11857082 AGGGACCTTT
Statistics
Matches: 294, Mismatches: 47, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
83 4 0.01
85 57 0.19
86 142 0.48
87 85 0.29
88 6 0.02
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (84 bp):
TTTTGGAAGTTCGGGGTAAAATGTAATTTTTGAAAAGTTTGGGGTAAAAATGTAATTTGGAAAGT
TCGAGGGTAAAAATGTGAT
Found at i:11857085 original size:29 final size:28
Alignment explanation
Indices: 11856681--11857085 Score: 381
Period size: 29 Copynumber: 14.1 Consensus size: 28
11856671 AAAATTTTAG
* *
11856681 GGGTAAAAATGTCATTTTAGGAGAGTTC-
1 GGGTAAAAATGTGATTTTTGGA-AGTTCA
* * *
11856709 GCGAAAAAATGTGATTTTTGAGAAGTT-T
1 GGGTAAAAATGTGATTTTTG-GAAGTTCA
*
11856737 GGGATAAAAATGTGATTTTTGGAAGTTTA
1 GGG-TAAAAATGTGATTTTTGGAAGTTCA
* * *
11856766 GGAGCAAAAATGTAATTTTTGGAAGTTTA
1 GG-GTAAAAATGTGATTTTTGGAAGTTCA
* *
11856795 GGGTAAAAATGAGATTTTTGGAAGATCA
1 GGGTAAAAATGTGATTTTTGGAAGTTCA
* *
11856823 GGGTAAAAATGTGATTTTTGAAAGTTCGG
1 GGGTAAAAATGTGATTTTTGGAAGTTC-A
* *
11856852 GGGTAAAAATGTGATTTGTAGAAGTTCAA
1 GGGTAAAAATGTGATTTTTGGAAGTTC-A
*
11856881 GGGTAAAAATGTGATTTTTGGAAGTTAAA
1 GGGTAAAAATGTGATTTTTGGAAGTT-CA
*
11856910 GGG-AAAAATGTAATTTTTGAGAAGTTCGA
1 GGGTAAAAATGTGATTTTTG-GAAGTTC-A
*
11856939 GGGTAAAAATGTGATTTTTGAAAGTTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTC-A
*
11856968 GGGTAAAAATGTGATTTTTGGAAGTTCG
1 GGGTAAAAATGTGATTTTTGGAAGTTCA
* * **
11856996 GGGT-AAAATGTAATTTTTGAAAAGTTTG
1 GGGTAAAAATGTGATTTTTG-GAAGTTCA
* *
11857024 GTGGTAAAAATGT-A-ATTTGGAAAAGTTTGA
1 G-GGTAAAAATGTGATTTTTGG--AAG-TTCA
* *
11857054 GGGTCAAAATATGATTTTTGGAAAGTTCA
1 GGGTAAAAATGTGATTTTTGG-AAGTTCA
11857083 GGG
1 GGG
11857086 ACCTTTTAGG
Statistics
Matches: 316, Mismatches: 43, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
27 14 0.04
28 103 0.33
29 163 0.52
30 31 0.10
31 5 0.02
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (28 bp):
GGGTAAAAATGTGATTTTTGGAAGTTCA
Found at i:11858103 original size:27 final size:28
Alignment explanation
Indices: 11858048--11858108 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
11858038 CTCTTCCCTT
* *
11858048 TTTATTTATTAATATGTATTATTAATTA
1 TTTATTTATTAAAATGAATTATTAATTA
*
11858076 TTTATTTATTAAAAT-AATTATTATTTA
1 TTTATTTATTAAAATGAATTATTAATTA
11858103 TTTATT
1 TTTATT
11858109 ACCATTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTATTTATTAAAATGAATTATTAATTA
Found at i:11858597 original size:15 final size:15
Alignment explanation
Indices: 11858577--11858607 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11858567 GGGTTTGTGA
11858577 TTTTGGACTTGTAAT
1 TTTTGGACTTGTAAT
*
11858592 TTTTGGACTTTTAAT
1 TTTTGGACTTGTAAT
11858607 T
1 T
11858608 AAATTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.06, G:0.16, T:0.58
Consensus pattern (15 bp):
TTTTGGACTTGTAAT
Found at i:11858623 original size:6 final size:6
Alignment explanation
Indices: 11858606--11858698 Score: 59
Period size: 6 Copynumber: 15.8 Consensus size: 6
11858596 GGACTTTTAA
* * * * * *
11858606 TTAAATT TTAAAT TTAAAT TTAAA- ATAAAT TTAAAC TCAAAA ATAAGT
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
11858654 TTAAAT TTAAA- ATAAAT TTAAAC TTAAA- AT-AAT TTAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAA
11858699 ATTGGGTTCA
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
4 2 0.03
5 10 0.15
6 43 0.66
7 10 0.15
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:11858634 original size:17 final size:17
Alignment explanation
Indices: 11858614--11858700 Score: 113
Period size: 17 Copynumber: 5.1 Consensus size: 17
11858604 AATTAAATTT
11858614 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
**
11858631 TAAATTTAAACTCAAAAA
1 TAAATTTAAA-TTTAAAA
*
11858649 TAAGTTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
11858666 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
11858683 T-AATTTAAAATTTAAAA
1 TAAATTT-AAATTTAAAA
11858700 T
1 T
11858701 TGGGTTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
16 5 0.08
17 41 0.68
18 14 0.23
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:11858657 original size:35 final size:33
Alignment explanation
Indices: 11858616--11858700 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 33
11858606 TTAAATTTTA
11858616 AATTTAAATTTAAAATAAATTTAAACTCAAAAAT
1 AATTTAAATTTAAAATAAATTTAAACT-AAAAAT
*
11858650 AAGTTTAAATTTAAAATAAATTTAAACTTAAAAT
1 AA-TTTAAATTTAAAATAAATTTAAACTAAAAAT
11858684 AATTTAAAATTTAAAAT
1 AATTT-AAATTTAAAAT
11858701 TGGGTTCAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
33 3 0.06
34 20 0.42
35 25 0.52
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.38
Consensus pattern (33 bp):
AATTTAAATTTAAAATAAATTTAAACTAAAAAT
Found at i:11859634 original size:30 final size:30
Alignment explanation
Indices: 11859567--11859727 Score: 180
Period size: 30 Copynumber: 5.3 Consensus size: 30
11859557 ATTAAAAATC
** *
11859567 GGGTTAAATTTGAATTTTTAGAAAGTTCGA
1 GGGTTAAATTCAAATTTTTAGAAAGTTTGA
11859597 GGGGTTAAATTCAAATTTTTAGAAAGTTTGA
1 -GGGTTAAATTCAAATTTTTAGAAAGTTTGA
*
11859628 GGGTTAAATTCAAATTTTTGGAAAGTTTGA
1 GGGTTAAATTCAAATTTTTAGAAAGTTTGA
* ** * *
11859658 GGGTTAAATTTAGCTTTTTTA-AAAATTTTA
1 GGGTTAAATTCA-AATTTTTAGAAAGTTTGA
* * *
11859688 GGGTCAAATTCAAATTTTTGGAAAGTTTGG
1 GGGTTAAATTCAAATTTTTAGAAAGTTTGA
*
11859718 GGGCTAAATT
1 GGGTTAAATT
11859728 TGAATATTTG
Statistics
Matches: 108, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
29 5 0.05
30 71 0.66
31 32 0.30
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.40
Consensus pattern (30 bp):
GGGTTAAATTCAAATTTTTAGAAAGTTTGA
Found at i:11859691 original size:60 final size:60
Alignment explanation
Indices: 11859567--11859751 Score: 201
Period size: 60 Copynumber: 3.1 Consensus size: 60
11859557 ATTAAAAATC
** * * * *
11859567 GGGTTAAATTTGAATTTTTAGAAAGTTCGAGGGGTTAAATTCAAATTTTTAGAAAGTTTGA
1 GGGTTAAATTCAAATTTTTGGAAAGTTTGA-GGGTTAAATTTAAATTTTTAGAAAATTTGA
** *
11859628 GGGTTAAATTCAAATTTTTGGAAAGTTTGAGGGTTAAATTTAGCTTTTTTA-AAAATTTTA
1 GGGTTAAATTCAAATTTTTGGAAAGTTTGAGGGTTAAATTTA-AATTTTTAGAAAATTTGA
* * * * * * *
11859688 GGGTCAAATTCAAATTTTTGGAAAGTTTGGGGGCTAAATTTGAATATTTGGAATATTTGA
1 GGGTTAAATTCAAATTTTTGGAAAGTTTGAGGGTTAAATTTAAATTTTTAGAAAATTTGA
11859748 GGGT
1 GGGT
11859752 AAAAACATAA
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
59 4 0.04
60 67 0.65
61 32 0.31
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (60 bp):
GGGTTAAATTCAAATTTTTGGAAAGTTTGAGGGTTAAATTTAAATTTTTAGAAAATTTGA
Found at i:11860892 original size:50 final size:49
Alignment explanation
Indices: 11860818--11860974 Score: 147
Period size: 50 Copynumber: 3.0 Consensus size: 49
11860808 TAATTTGGGT
*
11860818 TTATTATT-TATTTATTTATCTATATTCATAAAATAATAAAAAAATTAATA
1 TTATT-TTATATTTATTTATTTATATTCATAAAATAATAAAAAAA-TAATA
*
11860868 TTATTTTATATTTATTTATTTATATTCATACAATAATAAATAAATAATAAAATAAAA
1 TTATTTTATATTTATTTATTTATATTCAT--AA-AAT-AAT--A-AA-AAAATAATA
* * *
11860925 TTAATATTATTTTATATTTATTTATATTCATAAAATAA-AATAAAATAATA
1 TT-ATTTTATATT-TATTTATTTATATTCATAAAATAATAAAAAAATAATA
11860975 AGAAAAATGG
Statistics
Matches: 90, Mismatches: 6, Indels: 22
0.76 0.05 0.19
Matches are distributed among these distances:
49 2 0.02
50 33 0.37
51 1 0.01
52 3 0.03
53 3 0.03
54 3 0.03
55 2 0.02
56 4 0.04
57 10 0.11
58 12 0.13
59 17 0.19
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (49 bp):
TTATTTTATATTTATTTATTTATATTCATAAAATAATAAAAAAATAATA
Found at i:11861579 original size:40 final size:40
Alignment explanation
Indices: 11861533--11861798 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 40
11861523 ATAGCTTTAG
* * *
11861533 GGGTAAAAGATTTGATGGTCTTTAATCTGCCCTC-TGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-CATGATCA
* * * *
11861573 AGGTAAAAGATTGGATGGTCTTCAATGTACCCCATGGTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGATCA
* * * * *
11861613 GGGTAAAAGACTAGATTG-CTTCAATCTACCCCATGATCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGATCA
11861652 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGATCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGATCA
* * **
11861692 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTTG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGATCA
* * *
11861731 GGGTAAAAGATTGGATGGTCTTCAATCTGTTCTC-TGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CCCCATGATCA
11861771 GGGTAAAAGATTGGATGGTCTTCAATCT
1 GGGTAAAAGATTGGATGGTCTTCAATCT
11861799 ACCTCATGGT
Statistics
Matches: 194, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
39 69 0.36
40 123 0.63
41 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGATCA
Found at i:11861754 original size:119 final size:119
Alignment explanation
Indices: 11861532--11861798 Score: 333
Period size: 119 Copynumber: 2.2 Consensus size: 119
11861522 TATAGCTTTA
* * *
11861532 GGGGTAAAAGATTTGATGGTCTTTAATCTGCCCTCTGATTAAGGTAAAAGATTGGATGGTCTTCA
1 GGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATCAAGGTAAAAGATTGGATGGTCTTCA
* *
11861597 ATGTACCCCATGGTCAGGGTAAAAGACTAGATTGCTTCAATCT-ACCCCATGATC
66 ATCTACCCCATGGTCAGGGTAAAAGACTAGATGGCTTCAATCTGACCCC-TGATC
* *
11861651 GGGGTAAAAGATTGGATGGTCTTCAATCTGCCC-CATGATCAGGGTAAAAGATTGGATTG-CTTC
1 GGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGATCAAGGTAAAAGATTGGATGGTCTTC
* ** * * ** * *
11861714 AATCTGCCCCATGGTTGGGGTAAAAGATTGGATGGTCTTCAATCTGTTCTCTGATT
65 AATCTACCCCATGGTCAGGGTAAAAGACTAGATGG-CTTCAATCTGACCCCTGATC
*
11861770 AGGGTAAAAGATTGGATGGTCTTCAATCT
1 GGGGTAAAAGATTGGATGGTCTTCAATCT
11861799 ACCTCATGGT
Statistics
Matches: 128, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
118 33 0.26
119 93 0.73
120 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (119 bp):
GGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATCAAGGTAAAAGATTGGATGGTCTTCA
ATCTACCCCATGGTCAGGGTAAAAGACTAGATGGCTTCAATCTGACCCCTGATC
Found at i:11861759 original size:79 final size:80
Alignment explanation
Indices: 11861533--11861806 Score: 331
Period size: 79 Copynumber: 3.5 Consensus size: 80
11861523 ATAGCTTTAG
* * * **
11861533 GGGTAAAAGATTTGATGGTCTTTAATCTGCCCTC-TGATTAAGGTAAAAGATTGGATGGTCTTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTACCC-CATGATTGGGGTAAAAGATTGGATGGTCTTCA
* * *
11861597 ATGTACCCCATGGTCA
65 ATCTGCCCCATGATCA
* * * *
11861613 GGGTAAAAGACTAGATTG-CTTCAATCTACCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTACCCCATGATTGGGGTAAAAGATTGGATGGTCTTCAA
11861677 TCTGCCCCATGATCA
66 TCTGCCCCATGATCA
* * *
11861692 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTTGGGGTAAAAGATTGGATGGTCTTCAA
1 GGGTAAAAGATTGGATGGTCTTCAATCTACCCCATGATTGGGGTAAAAGATTGGATGGTCTTCAA
* * *
11861756 TCTGTTCTC-TGATTA
66 TCTG-CCCCATGATCA
*
11861771 GGGTAAAAGATTGGATGGTCTTCAATCTACCTCATG
1 GGGTAAAAGATTGGATGGTCTTCAATCTACCCCATG
11861807 GTCGAAGTAA
Statistics
Matches: 169, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
78 1 0.01
79 136 0.80
80 32 0.19
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (80 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTACCCCATGATTGGGGTAAAAGATTGGATGGTCTTCAA
TCTGCCCCATGATCA
Found at i:11862050 original size:50 final size:49
Alignment explanation
Indices: 11861996--11862162 Score: 164
Period size: 50 Copynumber: 3.4 Consensus size: 49
11861986 TACCCTTTTT
*
11861996 CAGCTTCAGGAGTATAAGATTCGCTC-TTGCAGCTTTAATCTGCCCCTCTA
1 CAGCTTTAGGAGTATAAGATTCGC-CATTGC-GCTTTAATCTGCCCCTCTA
* *
11862046 CAGCTTT---AG-ATGAGATTCGCCATTGTGGCTTTAATCTGCCCCTCTA
1 CAGCTTTAGGAGTATAAGATTCGCCATTG-CGCTTTAATCTGCCCCTCTA
* * * **
11862092 CAGCTTTAGGTGTATGAGATTTGCCATTGCGACTTTAATCTGTTCCTCTA
1 CAGCTTTAGGAGTATAAGATTCGCCATTGCG-CTTTAATCTGCCCCTCTA
* * *
11862142 CAGTTTTAGGGGTATAGGATT
1 CAGCTTTAGGAGTATAAGATT
11862163 TGATGTTCTA
Statistics
Matches: 98, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 39 0.40
47 2 0.02
49 2 0.02
50 54 0.55
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (49 bp):
CAGCTTTAGGAGTATAAGATTCGCCATTGCGCTTTAATCTGCCCCTCTA
Found at i:11862077 original size:46 final size:47
Alignment explanation
Indices: 11862006--11862150 Score: 168
Period size: 46 Copynumber: 3.0 Consensus size: 47
11861996 CAGCTTCAGG
* *
11862006 AGTATAAGATTCGCTC-TTGCAGCTTTAATCTGCCCCTCTACAGCTTT
1 AGTATGAGATTCGC-CATTGCGGCTTTAATCTGCCCCTCTACAGCTTT
*
11862053 AG-ATGAGATTCGCCATTGTGGCTTTAATCTGCCCCTCTACAGCTTT
1 AGTATGAGATTCGCCATTGCGGCTTTAATCTGCCCCTCTACAGCTTT
* * ** *
11862099 AGGTGTATGAGATTTGCCATTGCGACTTTAATCTGTTCCTCTACAGTTTT
1 A---GTATGAGATTCGCCATTGCGGCTTTAATCTGCCCCTCTACAGCTTT
11862149 AG
1 AG
11862151 GGGTATAGGA
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
45 1 0.01
46 40 0.48
47 3 0.04
49 1 0.01
50 39 0.46
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (47 bp):
AGTATGAGATTCGCCATTGCGGCTTTAATCTGCCCCTCTACAGCTTT
Found at i:11862163 original size:50 final size:50
Alignment explanation
Indices: 11862028--11862164 Score: 167
Period size: 50 Copynumber: 2.8 Consensus size: 50
11862018 GCTCTTGCAG
* * *
11862028 CTTTAATCTGCCCCTCTACAGCTTTA---G-ATGAGATTCGCCATTGTGG
1 CTTTAATCTGCCCCTCTACAGCTTTAGGGGTATGAGATTTGCCATTGCGA
*
11862074 CTTTAATCTGCCCCTCTACAGCTTTAGGTGTATGAGATTTGCCATTGCGA
1 CTTTAATCTGCCCCTCTACAGCTTTAGGGGTATGAGATTTGCCATTGCGA
** *
11862124 CTTTAATCTGTTCCTCTACAGTTTTAGGGGTAT-AGGATTTG
1 CTTTAATCTGCCCCTCTACAGCTTTAGGGGTATGA-GATTTG
11862165 ATGTTCTATA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
46 26 0.33
49 2 0.03
50 51 0.65
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (50 bp):
CTTTAATCTGCCCCTCTACAGCTTTAGGGGTATGAGATTTGCCATTGCGA
Found at i:11866321 original size:14 final size:14
Alignment explanation
Indices: 11866302--11866330 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11866292 GGAGATAAAC
11866302 TACAATCTTGGGCT
1 TACAATCTTGGGCT
11866316 TACAATCTTGGGCT
1 TACAATCTTGGGCT
11866330 T
1 T
11866331 CTTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (14 bp):
TACAATCTTGGGCT
Found at i:11873684 original size:29 final size:30
Alignment explanation
Indices: 11873555--11873698 Score: 148
Period size: 30 Copynumber: 4.8 Consensus size: 30
11873545 ACATTAAAAT
* *
11873555 AGGGTCAAATTTGAATTTTAAGAAAGTTCA
1 AGGGTCAAATTTGAATTTTTAGAAAGTTCG
* *
11873585 AGGGTTAAATTTGAATTTTTAGAAAGTT-T
1 AGGGTCAAATTTGAATTTTTAGAAAGTTCG
* * * *
11873614 AGGGGTTAAATTAGAATTTTTAGAAAATTTG
1 A-GGGTCAAATTTGAATTTTTAGAAAGTTCG
* ** *
11873645 AGGGTAAAATTCAAATTTTTGGAAAGTTCG
1 AGGGTCAAATTTGAATTTTTAGAAAGTTCG
*
11873675 A-GGTCAAATTTGAATTTTTTGAAA
1 AGGGTCAAATTTGAATTTTTAGAAA
11873699 ATTTAGGGGT
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
29 20 0.21
30 75 0.78
31 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (30 bp):
AGGGTCAAATTTGAATTTTTAGAAAGTTCG
Found at i:11873709 original size:59 final size:60
Alignment explanation
Indices: 11873557--11873712 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 60
11873547 ATTAAAATAG
* * * * * ** *
11873557 GGTCAAATTTGAATTTTAAGAAAGTTCAAGGGTTAAATTTGAATTTTTAGAAAGTTTAGG
1 GGTCAAATTTGAATTTTTAGAAAATTTAGGGGTAAAATTCAAATTTTTAGAAAGTTTAGA
* * * *
11873617 GGTTAAATTAGAATTTTTAGAAAATTT-GAGGGTAAAATTCAAATTTTTGGAAAG-TTCGA
1 GGTCAAATTTGAATTTTTAGAAAATTTAG-GGGTAAAATTCAAATTTTTAGAAAGTTTAGA
*
11873676 GGTCAAATTTGAATTTTTTGAAAATTTAGGGGTAAAA
1 GGTCAAATTTGAATTTTTAGAAAATTTAGGGGTAAAA
11873713 ACATAATTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
59 35 0.44
60 44 0.56
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (60 bp):
GGTCAAATTTGAATTTTTAGAAAATTTAGGGGTAAAATTCAAATTTTTAGAAAGTTTAGA
Found at i:11874776 original size:23 final size:22
Alignment explanation
Indices: 11874730--11874776 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
11874720 TTTTTTTGTT
* *
11874730 TTTGAGTTTGTATTTTGGTATA
1 TTTGAGCTTGTATTTGGGTATA
*
11874752 TTTGAGCTTGTAATTTGGGTTTA
1 TTTGAGCTTGT-ATTTGGGTATA
11874775 TT
1 TT
11874777 ATTTATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.57
Consensus pattern (22 bp):
TTTGAGCTTGTATTTGGGTATA
Found at i:11875295 original size:26 final size:27
Alignment explanation
Indices: 11875265--11875329 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 27
11875255 AAATAACATA
*
11875265 CCACAAAGGCTTTT-TCACAAGATTAG
1 CCACAAAGGCTTTTACCACAAGATTAG
* *
11875291 CCACAAAAG-TTTTACCATAAGATTAG
1 CCACAAAGGCTTTTACCACAAGATTAG
11875317 CCACAAAGGCTTT
1 CCACAAAGGCTTT
11875330 CTGCGTAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 4 0.12
26 26 0.79
27 3 0.09
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (27 bp):
CCACAAAGGCTTTTACCACAAGATTAG
Found at i:11881468 original size:21 final size:20
Alignment explanation
Indices: 11881439--11881481 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
11881429 AAACGGCAGA
11881439 GAGAAGAAAGAAAGAAAGAAG
1 GAGAAGAAAGAAAG-AAGAAG
*
11881460 GAGAGGAAAGAAAGAAGAAG
1 GAGAAGAAAGAAAGAAGAAG
11881480 GA
1 GA
11881482 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
GAGAAGAAAGAAAGAAGAAG
Found at i:11881859 original size:5 final size:5
Alignment explanation
Indices: 11881820--11881862 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
11881810 GTAAGTTTGG
* * *
11881820 TTATT TTAATT TAATT TAAAT TTATT TTATT TTATT TTATT TT
1 TTATT TT-ATT TTATT TTATT TTATT TTATT TTATT TTATT TT
11881863 GTTAGTAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (5 bp):
TTATT
Found at i:11882311 original size:3 final size:3
Alignment explanation
Indices: 11882303--11882335 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11882293 AATTAAACAA
11882303 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11882336 CAAAGATCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11894430 original size:52 final size:54
Alignment explanation
Indices: 11894323--11894451 Score: 174
Period size: 52 Copynumber: 2.4 Consensus size: 54
11894313 GGCCAATGCA
* * * *
11894323 TGGTCGACACCACTTTTTTTGTCAGACAAAAGAATTTTGGTGTTGGTCTTTCAT
1 TGGTCGACACCACTTTTTTTATCAGACAAAAGAATTTTGATGTTGGTCATACAT
*
11894377 TGGTCGACACCAGTATTTTTTATCA-A-AAAA-AATTTTGATGTTGGTCATACAT
1 TGGTCGACACCACT-TTTTTTATCAGACAAAAGAATTTTGATGTTGGTCATACAT
*
11894429 TGGTCGACACCACCTTTTTTATC
1 TGGTCGACACCACTTTTTTTATC
11894452 TGATAAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
51 9 0.13
52 31 0.46
53 4 0.06
54 14 0.21
55 9 0.13
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (54 bp):
TGGTCGACACCACTTTTTTTATCAGACAAAAGAATTTTGATGTTGGTCATACAT
Found at i:11894503 original size:43 final size:42
Alignment explanation
Indices: 11894428--11894512 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
11894418 TGGTCATACA
* *
11894428 TTGGTCGACACCACCTTTTTTATCTGATAAAAAATGATTTTTT
1 TTGGCCGACACCACCTTTTTTATCAGATAAAAAAT-ATTTTTT
*
11894471 TTGGCCGACACTA-CTTTTTTATCAGATAAAAAATATTTTTT
1 TTGGCCGACACCACCTTTTTTATCAGATAAAAAATATTTTTT
11894512 T
1 T
11894513 GGGTGTTAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
41 8 0.21
42 20 0.51
43 11 0.28
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (42 bp):
TTGGCCGACACCACCTTTTTTATCAGATAAAAAATATTTTTT
Found at i:11895042 original size:116 final size:117
Alignment explanation
Indices: 11894909--11895218 Score: 351
Period size: 118 Copynumber: 2.6 Consensus size: 117
11894899 AATTTTTTTT
** *
11894909 TTTTTTATTTGATAAAAAAGATGGTGTCGGCCAAGCAATGGTCAACACCAAAAAAATATTTTTTA
1 TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAGCAATGG-CAACACCAAAAAAA-ATTTTTTA
* * *
11894974 TTTGATAAAAAATGTTGGTGTCGGCCAA-C-CGCTAACAC-AAAAAAATTTAAA
64 TCTGATAAAAAATATTGGTGTCGGCCAAGCACGCCAACACTAAAAAAATTTAAA
*
11895025 TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAACAATGGCCAACACCAAAAAAAA--TTTTAT
1 TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAGCAATGG-CAACACCAAAAAAAATTTTTTAT
* * * * *
11895088 CTAATAAAAAATATTGGTGTCTGCCAATGCATGGCCAATACTAAAAAAATTTGAA
65 CTGATAAAAAATATTGGTGTCGGCCAA-GCA-CGCCAACACTAAAAAAATTTAAA
* * * * * * *
11895143 TTTTTTGTCAAATAAAAATGGTGGTGTAGTCCAAGTAATGGCTAACATCAAAAAAAATATTTTTA
1 TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAGCAATGGC-AACACCAAAAAAAAT-TTTTTA
11895208 TCTGATAAAAA
64 TCTGATAAAAA
11895219 GGTGGTGTCA
Statistics
Matches: 163, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
113 29 0.18
115 2 0.01
116 51 0.31
117 7 0.04
118 59 0.36
121 15 0.09
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (117 bp):
TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAGCAATGGCAACACCAAAAAAAATTTTTTATC
TGATAAAAAATATTGGTGTCGGCCAAGCACGCCAACACTAAAAAAATTTAAA
Found at i:11895083 original size:57 final size:57
Alignment explanation
Indices: 11894909--11895233 Score: 218
Period size: 58 Copynumber: 5.6 Consensus size: 57
11894899 AATTTTTTTT
** * *
11894909 TTTTTTATTTGATAAAAAAGATGGTGTCGGCCAAGCAATGGTCAACACCAAAAAAATA
1 TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAGCAATGGCCAACACCAAAAAAA-A
** * * * *
11894967 TTTTTTATTTGATAAAAAATGTTGGTGTCGGCCAA-C---CGCTAACACAAAAAAATTTAAA
1 TTTTTTATCAGATAAAAAA-GGTGGTGTCGGCCAAGCAATGGCCAACAC-CAAAAA---AAA
*
11895025 TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAACAATGGCCAACACCAAAAAAAA
1 TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAGCAATGGCCAACACCAAAAAAAA
** * * *
11895082 --TTTTATCTA-ATAAAAAATATTGGTGTCTGCCAATGC-ATGGCCAATACTAAAAAAATTTGAA
1 TTTTTTATC-AGATAAAAAA-GGTGGTGTCGGCCAA-GCAATGGCCAACAC-CAAAAAA----AA
* * * * * * * *
11895143 TTTTTTGTCAAATAAAAATGGTGGTGTAGTCCAAGTAATGGCTAACATCAAAAAAAA
1 TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAGCAATGGCCAACACCAAAAAAAA
* *
11895200 TATTTTTATCTGAT-AAAAAGGTGGTGTCAGCCAA
1 T-TTTTTATCAGATAAAAAAGGTGGTGTCGGCCAA
11895234 TGCATTTAGG
Statistics
Matches: 209, Mismatches: 36, Indels: 45
0.72 0.12 0.16
Matches are distributed among these distances:
55 21 0.10
56 28 0.13
57 43 0.21
58 48 0.23
59 16 0.08
60 5 0.02
61 16 0.08
62 19 0.09
63 13 0.06
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (57 bp):
TTTTTTATCAGATAAAAAAGGTGGTGTCGGCCAAGCAATGGCCAACACCAAAAAAAA
Found at i:11895388 original size:36 final size:37
Alignment explanation
Indices: 11895327--11895397 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
11895317 TACCCGAGTG
11895327 AATAATATTAGATTTGATTTAAAAATTCGATAAAAAC
1 AATAATATTAGATTTGATTTAAAAATTCGATAAAAAC
11895364 AATAATATTAGATTTGATTT-AAAATTCGATAAAA
1 AATAATATTAGATTTGATTTAAAAATTCGATAAAA
11895398 CATTTTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (37 bp):
AATAATATTAGATTTGATTTAAAAATTCGATAAAAAC
Found at i:11896720 original size:6 final size:6
Alignment explanation
Indices: 11896711--11896736 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11896701 TTGGGAGTCA
11896711 TCTACT TCTACT TCTACT TCTACT TC
1 TCTACT TCTACT TCTACT TCTACT TC
11896737 AACTCCAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTACT
Found at i:11908940 original size:17 final size:17
Alignment explanation
Indices: 11908907--11908940 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11908897 AGCCAATGTA
11908907 TGTGGACCACCATACTG
1 TGTGGACCACCATACTG
11908924 TGTGGCACCACCA-ACTG
1 TGTGG-ACCACCATACTG
11908941 ATGGCATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (17 bp):
TGTGGACCACCATACTG
Found at i:11914744 original size:18 final size:18
Alignment explanation
Indices: 11914721--11914759 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11914711 TCCGTTGCCC
*
11914721 CTTCTTCCTCGGCTGCAT
1 CTTCTTCCTCAGCTGCAT
*
11914739 CTTCTTCCTCAGCTGCGT
1 CTTCTTCCTCAGCTGCAT
11914757 CTT
1 CTT
11914760 TATTATCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.38, G:0.15, T:0.41
Consensus pattern (18 bp):
CTTCTTCCTCAGCTGCAT
Found at i:11915533 original size:49 final size:49
Alignment explanation
Indices: 11915459--11915552 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
11915449 GGCCTTTCGC
* *
11915459 CATGCACCTAGGAGTAAGGTAACTTTAATACCTTCTATAAGCCTCCCCT
1 CATGCACCTAGGAGCAAGGTAACTTTAATACCTTCTACAAGCCTCCCCT
* * *
11915508 CATGCACCT-GAGAGCAAGGTCACTTTAATATCTTTTACAAGCCTC
1 CATGCACCTAG-GAGCAAGGTAACTTTAATACCTTCTACAAGCCTC
11915553 TGTCCATGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 1 0.03
49 38 0.97
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (49 bp):
CATGCACCTAGGAGCAAGGTAACTTTAATACCTTCTACAAGCCTCCCCT
Found at i:11920332 original size:25 final size:25
Alignment explanation
Indices: 11920304--11920352 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
11920294 AATAAATTTC
*
11920304 AATAGGAAATTAATTACATTATAAA
1 AATAGGAAATAAATTACATTATAAA
*
11920329 AATATGAAATAAATTACATTATAA
1 AATAGGAAATAAATTACATTATAA
11920353 GGATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
AATAGGAAATAAATTACATTATAAA
Found at i:11920507 original size:18 final size:18
Alignment explanation
Indices: 11920486--11920520 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11920476 TGTTTAGTAT
*
11920486 TGCTTATGACTTCAAAAA
1 TGCTTATGACTCCAAAAA
*
11920504 TGCTTTTGACTCCAAAA
1 TGCTTATGACTCCAAAA
11920521 TCACTCTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (18 bp):
TGCTTATGACTCCAAAAA
Found at i:11922862 original size:30 final size:30
Alignment explanation
Indices: 11922828--11922892 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
11922818 ACTTATTTTA
* *
11922828 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTACTATTTTAGAGACAT
11922858 TTGTTAATTTTGTTACTATTTTAGAGACAT
1 TTGTTAATTTTGTTACTATTTTAGAGACAT
11922888 TTGTT
1 TTGTT
11922893 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTACTATTTTAGAGACAT
Found at i:11926941 original size:142 final size:142
Alignment explanation
Indices: 11926685--11926956 Score: 535
Period size: 142 Copynumber: 1.9 Consensus size: 142
11926675 TTTTCTTATA
11926685 TTTGTTTAGATTTAATAAATGGTGTTGTTTGAGTCTTTTATTGACCTTTGAGGTTGAATAAGTCT
1 TTTGTTTAGATTTAATAAATGGTGTTGTTTGAGTCTTTTATTGACCTTTGAGGTTGAATAAGTCT
*
11926750 TAAAGTTGAGCTAATATACTTTATGAGTGTGCAAGAGACCACTAGAAGGTGTACTAACTCGATAT
66 TAAAGGTGAGCTAATATACTTTATGAGTGTGCAAGAGACCACTAGAAGGTGTACTAACTCGATAT
11926815 ACTTTATTGACC
131 ACTTTATTGACC
11926827 TTTGTTTAGATTTAATAAATGGTGTTGTTTGAGTCTTTTATTGACCTTTGAGGTTGAATAAGTCT
1 TTTGTTTAGATTTAATAAATGGTGTTGTTTGAGTCTTTTATTGACCTTTGAGGTTGAATAAGTCT
11926892 TAAAGGTGAGCTAATATACTTTATGAGTGTGCAAGAGACCACTAGAAGGTGTACTAACTCGATAT
66 TAAAGGTGAGCTAATATACTTTATGAGTGTGCAAGAGACCACTAGAAGGTGTACTAACTCGATAT
11926957 CGGTCACTAT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 129 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (142 bp):
TTTGTTTAGATTTAATAAATGGTGTTGTTTGAGTCTTTTATTGACCTTTGAGGTTGAATAAGTCT
TAAAGGTGAGCTAATATACTTTATGAGTGTGCAAGAGACCACTAGAAGGTGTACTAACTCGATAT
ACTTTATTGACC
Found at i:11929827 original size:13 final size:13
Alignment explanation
Indices: 11929811--11929836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11929801 AATAAATAGG
11929811 AATATTAAAATAA
1 AATATTAAAATAA
11929824 AATATTAAAATAA
1 AATATTAAAATAA
11929837 TTATAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATATTAAAATAA
Found at i:11935360 original size:73 final size:74
Alignment explanation
Indices: 11935202--11935405 Score: 218
Period size: 73 Copynumber: 2.8 Consensus size: 74
11935192 AGATTGTTTT
* * * * * * * * *
11935202 CACTAAAATTTTAAGCAACTGTGCCAA-AAAAAATAGGTCACAGGCATTTAAATTTTTGCGACCA
1 CACTAAAATTATAAACAATTGTGACAATAATAAATA-GTCACAAGTATTCAATTTTTTGCGACCA
11935266 AATTGTTGAA
65 AATTGTTGAA
* * *
11935276 CACTAAAATTATAAGA-AATTGTGATAGTAATAAATTGTCACAAGTATTCAATTTTTTGTC-ACC
1 CACTAAAATTATAA-ACAATTGTGACAATAATAAATAGTCACAAGTATTCAATTTTTTG-CGACC
*
11935339 AAATTTTTG-A
64 AAATTGTTGAA
* *
11935349 CACTAAAATTATAAACAATTTTGACAATAATAAATAGTCACATGTATTCAATTTTTT
1 CACTAAAATTATAAACAATTGTGACAATAATAAATAGTCACAAGTATTCAATTTTTT
11935406 TTATGATAAG
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
72 1 0.01
73 51 0.47
74 49 0.45
75 7 0.06
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (74 bp):
CACTAAAATTATAAACAATTGTGACAATAATAAATAGTCACAAGTATTCAATTTTTTGCGACCAA
ATTGTTGAA
Found at i:11956471 original size:26 final size:26
Alignment explanation
Indices: 11956441--11956493 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11956431 CTTTACTTTC
11956441 TTTA-TTATTTATTTCATAATATTTTT
1 TTTATTTATTTATTT-ATAATATTTTT
* *
11956467 TTTATTTTTTTATTTTTAATATTTTT
1 TTTATTTATTTATTTATAATATTTTT
11956493 T
1 T
11956494 ATAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTATTTATTTATTTATAATATTTTT
Found at i:11956480 original size:17 final size:17
Alignment explanation
Indices: 11956469--11956512 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 17
11956459 ATATTTTTTT
11956469 TATTTTTTTATTTTTAA
1 TATTTTTTTATTTTTAA
*
11956486 TATTTTTTATAAATTTTAAA
1 TATTTTTT-T--ATTTTTAA
11956506 TATTTTT
1 TATTTTT
11956513 CTATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 1 0.04
20 14 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTTTTTATTTTTAA
Found at i:11956502 original size:26 final size:27
Alignment explanation
Indices: 11956448--11956502 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
11956438 TTCTTTATTA
* **
11956448 TTTATTTCATAATATTTTTTTTATTTT
1 TTTATTTCATAATATTTTTTATAAATT
*
11956475 TTTATTT-TTAATATTTTTTATAAATT
1 TTTATTTCATAATATTTTTTATAAATT
11956501 TT
1 TT
11956503 AAATATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTATTTCATAATATTTTTTATAAATT
Found at i:11956507 original size:20 final size:21
Alignment explanation
Indices: 11956478--11956517 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11956468 TTATTTTTTT
*
11956478 ATTTTTAATATTTTT-TATAA
1 ATTTTAAATATTTTTCTATAA
11956498 ATTTTAAATATTTTTCTATA
1 ATTTTAAATATTTTTCTATA
11956518 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTAAATATTTTTCTATAA
Found at i:11956549 original size:28 final size:28
Alignment explanation
Indices: 11956518--11956586 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
11956508 TTTTTCTATA
* *
11956518 TTATTTTTTTTATAAATTTTAATGATTT
1 TTATTTTTTCTATAAATTTTAATAATTT
**
11956546 TTATTTTTTCTATATTTTTTAATAATTT
1 TTATTTTTTCTATAAATTTTAATAATTT
*
11956574 TCTATATTTTCTA
1 T-TATTTTTTCTA
11956587 ATTTTTTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 25 0.71
29 10 0.29
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.68
Consensus pattern (28 bp):
TTATTTTTTCTATAAATTTTAATAATTT
Found at i:11956563 original size:9 final size:9
Alignment explanation
Indices: 11956542--11956591 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
11956532 AATTTTAATG
11956542 ATTTT-TAT
1 ATTTTCTAT
*
11956550 TTTTTCTAT
1 ATTTTCTAT
*
11956559 ATTTTTTAAT
1 ATTTTCT-AT
11956569 AATTTTCTAT
1 -ATTTTCTAT
11956579 ATTTTCTA-
1 ATTTTCTAT
11956587 ATTTT
1 ATTTT
11956592 TTTCTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 9 0.26
9 16 0.46
10 4 0.11
11 6 0.17
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (9 bp):
ATTTTCTAT
Found at i:11956576 original size:20 final size:20
Alignment explanation
Indices: 11956551--11956603 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
11956541 GATTTTTATT
*
11956551 TTTTCTATATTTTTTAATAA
1 TTTTCTATATTTTCTAATAA
**
11956571 TTTTCTATATTTTCTAATTT
1 TTTTCTATATTTTCTAATAA
*
11956591 TTTTCTAAATTTT
1 TTTTCTATATTTT
11956604 AAAAACTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTCTATATTTTCTAATAA
Found at i:11956590 original size:28 final size:28
Alignment explanation
Indices: 11956534--11956593 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
11956524 TTTTTATAAA
* *
11956534 TTTTAATGATTTTTATTTTTTCTATATT
1 TTTTAATAATTTTTATATTTTCTATATT
11956562 TTTTAATAATTTTCTATATTTTCTA-ATT
1 TTTTAATAATTTT-TATATTTTCTATATT
11956590 TTTT
1 TTTT
11956594 TCTAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTTAATAATTTTTATATTTTCTATATT
Found at i:11961761 original size:29 final size:30
Alignment explanation
Indices: 11961728--11961786 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
11961718 TATAGTTTAA
*
11961728 TGTGTAATTGTATATA-TAAATTTTGATTT
1 TGTGTAATTGTATACATTAAATTTTGATTT
*
11961757 TGTGTAATTTTATACATTAAATTTTGATTT
1 TGTGTAATTGTATACATTAAATTTTGATTT
11961787 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (30 bp):
TGTGTAATTGTATACATTAAATTTTGATTT
Done.