Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 100 of 168
Found at i:29376707 original size:51 final size:49
Alignment explanation
Indices: 29376638--29376965 Score: 172
Period size: 51 Copynumber: 6.8 Consensus size: 49
29376628 CATCATAGCA
* *
29376638 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAAAGCTACAA--TACG
* **
29376689 AATCTTATCTCTTTGAAGTTGCAGTGGAGTAGATTGAAA-CTA-AAT-C-
1 AATCTTATCTCTCTGAAGTTGCAGTGGAACAGATT-AAAGCTACAATACG
* * * * * *
29376735 ---C-TATAC-CTCTCAAGTTGCA-T-TAAGTCGGATTAAATCTACCATGGCG
1 AATCTTAT-CTCTCTGAAGTTGCAGTGGAA--CAGATTAAAGCTACAAT-ACG
* * *
29376781 AATCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGCAAC-A-A-G
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAACAGATTAAAGCTACAATACG
* ** * *
29376827 --TCATATAC-CTCTGAAGTTGCAGTGGTTCGGATTAAATCTACAATA-G
1 AATCTTAT-CTCTCTGAAGTTGCAGTGGAACAGATTAAAGCTACAATACG
* * *
29376873 CAAGTCTTATCTCTCTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCTACA
1 -AA-TCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAAAGCTACAA--TACG
* * * *
29376926 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
1 AATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAAAGC
29376966 GATAAGTCCC
Statistics
Matches: 207, Mismatches: 41, Indels: 58
0.68 0.13 0.19
Matches are distributed among these distances:
40 1 0.00
41 4 0.02
42 21 0.10
43 4 0.02
44 30 0.14
45 4 0.02
46 3 0.01
47 1 0.00
48 1 0.00
49 5 0.02
50 59 0.29
51 66 0.32
52 8 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (49 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTAAAGCTACAATACG
Found at i:29376918 original size:50 final size:49
Alignment explanation
Indices: 29376783--29377093 Score: 150
Period size: 50 Copynumber: 6.4 Consensus size: 49
29376773 CCATGGCGAA
** *
29376783 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAG---C-A-ACAAG
1 TCTTATCTCTC-TGAAGTTGCAGTGGAATAGATTAAAGCTACAATACAAG
* * * *
29376827 TCATATAC-CTCTGAAGTTGCAGTGG-TTCGGATTAAATCTACAATAGCAAG
1 TCTTAT-CTCTCTGAAGTTGCAGTGGAAT-AGATTAAAGCTACAATA-CAAG
* *
29376877 TCTTATCTCTCTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAATAGATTAAAGCTACAA--TACAAG
* * ** * *
29376928 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG---CGAT--AAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAATAGATTAAAGCTACAATACAAG
** * * * * * *
29376972 TCCCATAC-CTCTGAAGTTGTAGAGG-GTCGGATTAAATCTACCATAGCAAG
1 TCTTAT-CTCTCTGAAGTTGCAGTGGAAT-AGATTAAAGCTACAATA-CAAG
* * * * *
29377022 TCTTATCTCCCTGAAGTTACACTGGAATAGACTAAAGCTACAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAATAGATTAAAGCTACAA--TACAAG
*
29377073 TCTTATCTC-CTAAAGTTGCAG
1 TCTTATCTCTCTGAAGTTGCAG
29377094 CAGAATAGGT
Statistics
Matches: 195, Mismatches: 47, Indels: 44
0.68 0.16 0.15
Matches are distributed among these distances:
43 1 0.01
44 51 0.26
45 3 0.02
46 1 0.01
47 4 0.02
48 3 0.02
49 3 0.02
50 77 0.39
51 48 0.25
52 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (49 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAATAGATTAAAGCTACAATACAAG
Found at i:29376920 original size:94 final size:93
Alignment explanation
Indices: 29376650--29376920 Score: 293
Period size: 94 Copynumber: 2.9 Consensus size: 93
29376640 TCTTATTTCC
* * * *
29376650 CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA-CGAATCTTATCTCTTTGAAGTTGCAGT
1 CTGAAGTTGCAGTGG-TCGGATTAAATCTACAA--TAGCGAATCTTATCTCTCTGAAGTTGCAGT
*
29376714 GGAGTAGATTGAAA-CTA-AA-TCCTATACCT
63 GGAGTAGATT-AAAGCTACAAGTCATATACCT
* * * * *
29376743 CTCAAGTTGCATTAAGTCGGATTAAATCTACCATGGCGAATCTTATCTC-CTTGAAGTTGCAGTG
1 CTGAAGTTGCAGT-GGTCGGATTAAATCTACAATAGCGAATCTTATCTCTC-TGAAGTTGCAGTG
* * *
29376807 GAGCAGATTGAAGCAACAAGTCATATACCT
64 GAGTAGATTAAAGCTACAAGTCATATACCT
29376837 CTGAAGTTGCAGTGGTTCGGATTAAATCTACAATAGC-AAGTCTTATCTCTCTGAAGTTGCAGTG
1 CTGAAGTTGCAGTGG-TCGGATTAAATCTACAATAGCGAA-TCTTATCTCTCTGAAGTTGCAGTG
* *
29376901 GAATAGACTAAAGCTACAAG
64 GAGTAGATTAAAGCTACAAG
29376921 CTACAAATCT
Statistics
Matches: 146, Mismatches: 23, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
91 3 0.02
92 36 0.25
93 29 0.20
94 77 0.53
95 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (93 bp):
CTGAAGTTGCAGTGGTCGGATTAAATCTACAATAGCGAATCTTATCTCTCTGAAGTTGCAGTGGA
GTAGATTAAAGCTACAAGTCATATACCT
Found at i:29377048 original size:145 final size:145
Alignment explanation
Indices: 29376781--29377093 Score: 502
Period size: 145 Copynumber: 2.2 Consensus size: 145
29376771 TACCATGGCG
* * *
29376781 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCAACAAGTCATATACCTCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAACAAGTCACATACCTCTGAAGTTG
* * * * *
29376846 CAGTGGTTCGGATTAAATCTACAATAGCAAGTCTTATCTCTCTGAAGTTGCAGTGGAATAGACTA
66 CAGAGGGTCGGATTAAATCTACAATAGCAAGTCTTATCTCCCTGAAGTTACACTGGAATAGACTA
29376911 AAGCTACAAGCTACA
131 AAGCTACAAGCTACA
* * *
29376926 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCGATAAGTCCCATACCTCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAACAAGTCACATACCTCTGAAGTTG
* *
29376991 TAGAGGGTCGGATTAAATCTACCATAGCAAGTCTTATCTCCCTGAAGTTACACTGGAATAGACTA
66 CAGAGGGTCGGATTAAATCTACAATAGCAAGTCTTATCTCCCTGAAGTTACACTGGAATAGACTA
29377056 AAGCTACAAGCTACA
131 AAGCTACAAGCTACA
29377071 AATCTTATCT-CCTAAAGTTGCAG
1 AATCTTATCTCCCTAAAGTTGCAG
29377094 CAGAATAGGT
Statistics
Matches: 155, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
144 13 0.08
145 142 0.92
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (145 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAACAAGTCACATACCTCTGAAGTTG
CAGAGGGTCGGATTAAATCTACAATAGCAAGTCTTATCTCCCTGAAGTTACACTGGAATAGACTA
AAGCTACAAGCTACA
Found at i:29377778 original size:2 final size:2
Alignment explanation
Indices: 29377771--29377822 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
29377761 TTTTCCCTTT
* *
29377771 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29377813 T- TA TA TA TA T
1 TA TA TA TA TA T
29377823 GAAAAATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:29378917 original size:21 final size:23
Alignment explanation
Indices: 29378870--29378919 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 23
29378860 TTTTTTATTA
29378870 TTTTAGATCATGTTTATTTATCCT
1 TTTTAGATCATG-TTATTTATCCT
29378894 TTTTA-ATCATG-TATTT-TCCAT
1 TTTTAGATCATGTTATTTATCC-T
29378915 TTTTA
1 TTTTA
29378920 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.12
21 11 0.44
23 6 0.24
24 5 0.20
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTTAGATCATGTTATTTATCCT
Found at i:29382009 original size:19 final size:20
Alignment explanation
Indices: 29381972--29382008 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29381962 GTTACTCATT
*
29381972 TTTTTTTAGAATTAATTTTA
1 TTTTTTTAGAATGAATTTTA
29381992 TTTTTTTA-AATG-ATTTT
1 TTTTTTTAGAATGAATTTT
29382009 TTACAGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 3 0.19
20 8 0.50
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTTTTAGAATGAATTTTA
Found at i:29382351 original size:21 final size:22
Alignment explanation
Indices: 29382318--29382358 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29382308 ACAAAAGAAT
*
29382318 TTTTTCATGTAAAAACTCAAAC
1 TTTTTCATATAAAAACTCAAAC
*
29382340 TTTTTC-TATAAAATCTCAA
1 TTTTTCATATAAAAACTCAA
29382359 GTAACTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTTTCATATAAAAACTCAAAC
Found at i:29385525 original size:35 final size:36
Alignment explanation
Indices: 29385481--29385557 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
29385471 GAGGGTCCAA
* *
29385481 GTTCAAGGG-TCTAGGGTTTAAGGTCCAAGGTTTATG
1 GTTCAAGGGTTC-AGGGTTCAAGGTCCAAGATTTATG
*
29385517 GTTC-AGGGTTCAGGGTTCAAGGTCTAAGATTTA-G
1 GTTCAAGGGTTCAGGGTTCAAGGTCCAAGATTTATG
*
29385551 GGTCAAG
1 GTTCAAG
29385558 AGTTTAAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.11
35 25 0.71
36 6 0.17
ACGTcount: A:0.23, C:0.12, G:0.34, T:0.31
Consensus pattern (36 bp):
GTTCAAGGGTTCAGGGTTCAAGGTCCAAGATTTATG
Found at i:29385552 original size:21 final size:21
Alignment explanation
Indices: 29385528--29385572 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
29385518 TTCAGGGTTC
29385528 AGGGTTCAAG-GTCTAAGATTT
1 AGGG-TCAAGAGTCTAAGATTT
* *
29385549 AGGGTCAAGAGTTTAAGGTTT
1 AGGGTCAAGAGTCTAAGATTT
29385570 AGG
1 AGG
29385573 ATCCAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.31
Consensus pattern (21 bp):
AGGGTCAAGAGTCTAAGATTT
Found at i:29385582 original size:21 final size:21
Alignment explanation
Indices: 29385533--29385588 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
29385523 GGTTCAGGGT
* * *
29385533 TCAAG-GTCTAAGATTTAGGG
1 TCAAGAGTTTAAGGTTTAGGA
29385553 TCAAGAGTTTAAGGTTTAGGA
1 TCAAGAGTTTAAGGTTTAGGA
*
29385574 TCCAA-AGTTCAAGGT
1 T-CAAGAGTTTAAGGT
29385589 CGAGGGTCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 22 0.73
22 3 0.10
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (21 bp):
TCAAGAGTTTAAGGTTTAGGA
Found at i:29399121 original size:25 final size:24
Alignment explanation
Indices: 29399062--29399130 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
29399052 TGTTATTAGC
* * *
29399062 TCTTATGAGCATCCCGATATTTGG
1 TCTTATGAGCTTCCCGTTATATGG
* *
29399086 CCTTCTCGAGCTTCCCGTTATATGG
1 TCTTAT-GAGCTTCCCGTTATATGG
29399111 TTCTTATGAGCTTCCCGTTA
1 -TCTTATGAGCTTCCCGTTA
29399131 ATAGCTTTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 4 0.11
25 28 0.78
26 4 0.11
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (24 bp):
TCTTATGAGCTTCCCGTTATATGG
Found at i:29404759 original size:21 final size:21
Alignment explanation
Indices: 29404733--29404776 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
29404723 TAGACCAAGT
29404733 GGGGGTCAACACGACCGTGTG
1 GGGGGTCAACACGACCGTGTG
* * *
29404754 GGGGGTCAATAGGCCCGTGTG
1 GGGGGTCAACACGACCGTGTG
29404775 GG
1 GG
29404777 CCAGGGATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.20, G:0.48, T:0.16
Consensus pattern (21 bp):
GGGGGTCAACACGACCGTGTG
Found at i:29408613 original size:37 final size:38
Alignment explanation
Indices: 29408562--29408634 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
29408552 TACTCAGCTA
* ** *
29408562 AGCTCTATTTAGTATAACGGTATGATTT-GCTCGATTG
1 AGCTCTATTCAGTATAACAATAAGATTTGGCTCGATTG
*
29408599 AGCTTTATTCAGTATAACAATAAGATTTGGCTCGAT
1 AGCTCTATTCAGTATAACAATAAGATTTGGCTCGAT
29408635 AAAGCGTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 23 0.77
38 7 0.23
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (38 bp):
AGCTCTATTCAGTATAACAATAAGATTTGGCTCGATTG
Found at i:29411704 original size:31 final size:31
Alignment explanation
Indices: 29411669--29412269 Score: 348
Period size: 31 Copynumber: 19.6 Consensus size: 31
29411659 GTCTTATACG
* *
29411669 AATCATATACAAATTAATTTTAGTAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * * *
29411700 AATCATATACGAATTAA-TTCGGAAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * * **
29411730 -GTCCATTTACAAATCAAATTCAATAAT-ATAT
1 AAT-CATATACAAATTAATTTCAGCAATGA-AT
*
29411761 AACCATATACAAATTAATTTCAGCAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * *
29411792 AATCATATACGAATTAA-TTCGGCAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * * *
29411822 -ATCCATTTACAAATCAAATTCAACAATGTAT
1 AAT-CATATACAAATTAATTTCAGCAATGAAT
*
29411853 AACCATATACAAATTAATTTCAGCAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * * *
29411884 AATCATATACGAATTAA-TTCGGCCACT-TAT
1 AATCATATACAAATTAATTTCAG-CAATGAAT
* * * *
29411914 -ATCCATTTACAAATCAAATTCAACAAT-ATAT
1 AAT-CATATACAAATTAATTTCAGCAATGA-AT
29411945 AATCATATACAAATTAATTTCAGCAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * * *
29411976 AATCATATACGACTTAA-TTCGGCAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * *
29412006 -ATCCATTTACAAATCAAATTCAACAAT-ATAT
1 AAT-CATATACAAATTAATTTCAGCAATGA-AT
* * * *
29412037 AACCTTATAGAAATTAATTTCAACAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
* * *
29412068 AATCATATACGAATTAA-TTCGGCAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * *
29412098 -ATCCATTTACAAATCAAATTCAACAAT-ATAT
1 AAT-CATATACAAATTAATTTCAGCAATGA-AT
29412129 AA-CGATATACAAATTAATTTCAGCAATGAAT
1 AATC-ATATACAAATTAATTTCAGCAATGAAT
* * *
29412160 AATCATATACGAATTAA-TTCGGCAACT-TAT
1 AATCATATACAAATTAATTTCAGCAA-TGAAT
* * * * *
29412190 -ATCTATTTACAAATCAAATTCAACAATGTAT
1 AATC-ATATACAAATTAATTTCAGCAATGAAT
* *
29412221 AACCATATACAAATTAATTTCAACAATGAAT
1 AATCATATACAAATTAATTTCAGCAATGAAT
*
29412252 AATCATATACGAATTAAT
1 AATCATATACAAATTAAT
29412270 ACGGCATCCT
Statistics
Matches: 434, Mismatches: 100, Indels: 72
0.72 0.17 0.12
Matches are distributed among these distances:
29 12 0.03
30 121 0.28
31 289 0.67
32 12 0.03
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (31 bp):
AATCATATACAAATTAATTTCAGCAATGAAT
Found at i:29412362 original size:92 final size:92
Alignment explanation
Indices: 29411672--29412361 Score: 1083
Period size: 92 Copynumber: 7.5 Consensus size: 92
29411662 TTATACGAAT
* * * *
29411672 CATATACAAATTAATTTTAGTAATGAATAATCATATACGAATTAATTCGGAAACTTATGTCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
*
29411737 TACAAATCAAATTCAATAATATATAAC
66 TACAAATCAAATTCAACAATATATAAC
29411764 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
*
29411829 TACAAATCAAATTCAACAATGTATAAC
66 TACAAATCAAATTCAACAATATATAAC
*
29411856 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCCACTTATATCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
*
29411921 TACAAATCAAATTCAACAATATATAAT
66 TACAAATCAAATTCAACAATATATAAC
*
29411948 CATATACAAATTAATTTCAGCAATGAATAATCATATACGACTTAATTCGGCAACTTATATCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
29412013 TACAAATCAAATTCAACAATATATAAC
66 TACAAATCAAATTCAACAATATATAAC
* * *
29412040 CTTATAGAAATTAATTTCAACAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
29412105 TACAAATCAAATTCAACAATATATAAC
66 TACAAATCAAATTCAACAATATATAAC
* *
29412132 GATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCTATT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
*
29412197 TACAAATCAAATTCAACAATGTATAAC
66 TACAAATCAAATTCAACAATATATAAC
* * * * ** *
29412224 CATATACAAATTAATTTCAACAATGAATAATCATATACGAATTAATACGGCATCCTATATTTATA
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
* * * * *
29412289 AACAATTCAATTTCGACAATGTATAAC
66 TACAAATCAAATTCAACAATATATAAC
* * * * * *
29412316 CATGTACAAATTAATTTCAGCAAGGTACAACCATATATGAATTAAT
1 CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAAT
29412362 ATATCTATAT
Statistics
Matches: 558, Mismatches: 40, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 558 1.00
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (92 bp):
CATATACAAATTAATTTCAGCAATGAATAATCATATACGAATTAATTCGGCAACTTATATCCATT
TACAAATCAAATTCAACAATATATAAC
Found at i:29415595 original size:37 final size:38
Alignment explanation
Indices: 29415518--29415596 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
29415508 AACTTTGATC
* * * *
29415518 TTCAAGGACTGAATTATAAAACTGTGTAAATTTGGGAT
1 TTCAAGGACTAAATCATAAAAATGTGTAAATTTGGAAT
29415556 TTCAAGGACTAAATCATAAAAAT-TGTAAAATTT-GAAT
1 TTCAAGGACTAAATCATAAAAATGTGT-AAATTTGGAAT
29415593 TTCA
1 TTCA
29415597 GGTTGTTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 10 0.28
38 26 0.72
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (38 bp):
TTCAAGGACTAAATCATAAAAATGTGTAAATTTGGAAT
Found at i:29416186 original size:21 final size:21
Alignment explanation
Indices: 29416118--29416193 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
29416108 TGCATAGAAC
*
29416118 AATGTATCGGTACATGC-AAGA
1 AATGTATCGATACAT-CTAAGA
* * * *
29416139 AATGTATTGATACCTTTAAGG
1 AATGTATCGATACATCTAAGA
**
29416160 CGTGTATCGATACATCTAAGA
1 AATGTATCGATACATCTAAGA
*
29416181 AATGTACCGATAC
1 AATGTATCGATAC
29416194 CTTACCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATCTAAGA
Found at i:29418767 original size:28 final size:28
Alignment explanation
Indices: 29418727--29418782 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
29418717 TTCACTCATA
29418727 GGAATGAAGTTACCTGTTGGAATTAGTC
1 GGAATGAAGTTACCTGTTGGAATTAGTC
29418755 GGAATGAAGTTACCTGTTGGAATTAGTC
1 GGAATGAAGTTACCTGTTGGAATTAGTC
29418783 AATGCTACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (28 bp):
GGAATGAAGTTACCTGTTGGAATTAGTC
Found at i:29420684 original size:28 final size:28
Alignment explanation
Indices: 29420652--29420707 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
29420642 TAAAGCATGT
29420652 AAATTCATCCCACATCGAATACGAAGAG
1 AAATTCATCCCACATCGAATACGAAGAG
29420680 AAATTCATCCCACATCGAATACGAAGAG
1 AAATTCATCCCACATCGAATACGAAGAG
29420708 GAAGAAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (28 bp):
AAATTCATCCCACATCGAATACGAAGAG
Found at i:29425163 original size:39 final size:39
Alignment explanation
Indices: 29425109--29425185 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
29425099 AATGAGGCGG
* *
29425109 GCCCACGTGAGTAGCTGTCAAATTTGAAAATCCATACGA
1 GCCCACGTGAGTAGCTGTCAAACTTGAAAAACCATACGA
* * *
29425148 GCCCATGTGAGTAGCTGTTACACTTGAAAAACCATACG
1 GCCCACGTGAGTAGCTGTCAAACTTGAAAAACCATACG
29425186 CTTGGGCCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCCACGTGAGTAGCTGTCAAACTTGAAAAACCATACGA
Found at i:29425459 original size:29 final size:28
Alignment explanation
Indices: 29425415--29425490 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
29425405 TATAATGAAT
* *
29425415 ATATATTTTTATTTTTAAAATACTTTAAA
1 ATATTTTTTTAATTTTAAAAT-CTTTAAA
*** *
29425444 ATATTTTTTTAATTTTTTTATTTTTAAA
1 ATATTTTTTTAATTTTAAAATCTTTAAA
29425472 ATAATTTTTTTAATGTTTA
1 AT-ATTTTTTTAAT-TTTA
29425491 TTAAAAAATG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 8 0.21
29 27 0.71
30 3 0.08
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (28 bp):
ATATTTTTTTAATTTTAAAATCTTTAAA
Found at i:29431546 original size:27 final size:27
Alignment explanation
Indices: 29431490--29431689 Score: 202
Period size: 27 Copynumber: 7.3 Consensus size: 27
29431480 GTGAGGTCAA
* * *
29431490 TAAAATGATCGAAATACCCCCCGTAGGG
1 TAAAATGACCAAAATA-CCCCCATAGGG
* *
29431518 TAAAATGACTAAAATACCCCCATAAGG
1 TAAAATGACCAAAATACCCCCATAGGG
* * *
29431545 TAAAATGACCAAAATACCCTCGTAGGA
1 TAAAATGACCAAAATACCCCCATAGGG
* * **
29431572 TTAAATAACCAAAATACCCCTGTAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
29431599 TAAAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCCCATAGGG
* *
29431626 TAAAATGATCGAAATACCCCCCATAGGG
1 TAAAATGACCAAAATA-CCCCCATAGGG
* * * *
29431654 TAAAATAACCGAAATACCCTCATAAGG
1 TAAAATGACCAAAATACCCCCATAGGG
29431681 TAAAATGAC
1 TAAAATGAC
29431690 TGTTATACCC
Statistics
Matches: 143, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
27 106 0.74
28 37 0.26
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCCCATAGGG
Found at i:29431591 original size:54 final size:54
Alignment explanation
Indices: 29431490--29431689 Score: 238
Period size: 54 Copynumber: 3.7 Consensus size: 54
29431480 GTGAGGTCAA
* * * *
29431490 TAAAATGATCGAAATACCCCCCGTAGGGTAAAATGACTAAAATACCCCCATAAGG
1 TAAAATGACCGAAATA-CCCTCGTAGGGTAAAATGACCAAAATACCCCCATAGGG
* * * * **
29431545 TAAAATGACCAAAATACCCTCGTAGGATTAAATAACCAAAATACCCCTGTAGGG
1 TAAAATGACCGAAATACCCTCGTAGGGTAAAATGACCAAAATACCCCCATAGGG
* * *
29431599 TAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCCCATAGGG
1 TAAAATGACCGAAATACCCTCGTAGGGTAAAATGACCAAAATA-CCCCCATAGGG
* * *
29431654 TAAAATAACCGAAATACCCTCATAAGGTAAAATGAC
1 TAAAATGACCGAAATACCCTCGTAGGGTAAAATGAC
29431690 TGTTATACCC
Statistics
Matches: 122, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
54 66 0.54
55 56 0.46
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (54 bp):
TAAAATGACCGAAATACCCTCGTAGGGTAAAATGACCAAAATACCCCCATAGGG
Found at i:29431893 original size:26 final size:26
Alignment explanation
Indices: 29431864--29431917 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
29431854 CTGCCACATC
* *
29431864 TACTGTTACTGGCAGTTTTGCTGCGA
1 TACTATTACTGGCAGCTTTGCTGCGA
29431890 TACTATTACTGGCAGCTTTGCTGCGA
1 TACTATTACTGGCAGCTTTGCTGCGA
29431916 TA
1 TA
29431918 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGCTGCGA
Found at i:29442814 original size:19 final size:18
Alignment explanation
Indices: 29442777--29442815 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
29442767 CCAGGATTAT
*
29442777 AAAAATCTTTTATTTTTG
1 AAAAATCTTTTATTCTTG
29442795 AAAAATCTTTTATATCTTG
1 AAAAATCTTTTAT-TCTTG
29442814 AA
1 AA
29442816 TTTGTTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (18 bp):
AAAAATCTTTTATTCTTG
Found at i:29448206 original size:11 final size:11
Alignment explanation
Indices: 29448192--29448218 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29448182 AAATAATAAA
29448192 AAAATTATTTT
1 AAAATTATTTT
29448203 AAAATTATTTT
1 AAAATTATTTT
29448214 AAAAT
1 AAAAT
29448219 AAAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:29451494 original size:20 final size:20
Alignment explanation
Indices: 29451465--29451509 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
29451455 TCTTTAAAAC
* * *
29451465 TTTCATGTTTTAAGTAGTTA
1 TTTCAAGTTTTAAATAATTA
29451485 TTTCAAGTTTTAAATAATTA
1 TTTCAAGTTTTAAATAATTA
29451505 TTTCA
1 TTTCA
29451510 TGTATCACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (20 bp):
TTTCAAGTTTTAAATAATTA
Found at i:29455322 original size:72 final size:73
Alignment explanation
Indices: 29455205--29455413 Score: 339
Period size: 72 Copynumber: 2.9 Consensus size: 73
29455195 TCTCGGGTTT
* *
29455205 AAAAATGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
*
29455270 CTTGAG-A
66 ATTGAGAA
**
29455277 AAAAAATTGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
29455342 ATTGAGAAA
66 ATTGAG-AA
* *
29455351 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTCGAGATTGTTTAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAA
29455414 CTTGAGTTTG
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
72 66 0.52
74 60 0.48
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (73 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
ATTGAGAA
Found at i:29462495 original size:50 final size:50
Alignment explanation
Indices: 29461957--29462498 Score: 394
Period size: 50 Copynumber: 10.9 Consensus size: 50
29461947 TCTGTTCGCC
* * ** * ****
29461957 AGGGAAGTAAGATTTGCTGTTGTAGTTTCAATCTATTTAACTGTAATTTT
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
* * * * * *
29462007 GGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCATTGCATCACT
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
* ** *
29462057 AGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCGA-TG-T
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGC-ACCGCT
* * * * *
29462106 CGGGAAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCT
1 AGGG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
* * * * ** **
29462157 AAGGAAGTAAGATTCGATATTGTAGCTTAAATCTATTTAACTGCAATG-T
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
* ** ** * * * *
29462206 CGGGGAAACAAGATTTACTATTGTAGCTTCAATCTGTTCCACTGCACCACC
1 -AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
* * * ** **
29462257 AGGGAAGTCAGACTCGCTGTTTTAGCTTCAATCTATTTAACTGCAGTG-T
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
* * * * * *
29462306 CGGGGAAGCAAGATTCACT-TTGTAGCTTCAATCTGTTCCACTGCACCACC
1 -AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
* ** * **
29462356 AGGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATG-T
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
* * * * * *
29462405 CAGGGAAGCAAGATTTGCTGTTCTAGCTTCATTTTGTTCCACTGCACCGCT
1 -AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
*
29462456 AGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTCCACTG
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTG
29462499 TAATGCCAAA
Statistics
Matches: 362, Mismatches: 119, Indels: 22
0.72 0.24 0.04
Matches are distributed among these distances:
49 42 0.12
50 315 0.87
51 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (50 bp):
AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCT
Found at i:29462503 original size:100 final size:100
Alignment explanation
Indices: 29461957--29462492 Score: 741
Period size: 100 Copynumber: 5.4 Consensus size: 100
29461947 TCTGTTCGCC
* * * * *
29461957 AGGGAAGTAAGATTTGCTGTTGTAGTTTCAATCTATTTAACTGTAATTTTGGGGAAGCAAGATTC
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTC
* * *
29462022 GCTGTTGTAGCTTCAATCTGTTCCATTGCATCACT
66 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
* * *
29462057 AGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTATTTAACTGCGATGTCGGGAAAGCAAGATTC
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTC
* *
29462122 ACTGTTGTAGCTTCAATCTGTTCCACTACACCGCT
66 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
* * * * * *
29462157 AAGGAAGTAAGATTCGATATTGTAGCTTAAATCTATTTAACTGCAATGTCGGGGAAACAAGATTT
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTC
* *
29462222 ACTATTGTAGCTTCAATCTGTTCCACTGCACCACC
66 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
* * * *
29462257 AGGGAAGTCAGACTCGCTGTTTTAGCTTCAATCTATTTAACTGCAGTGTCGGGGAAGCAAGATTC
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTC
*
29462322 ACT-TTGTAGCTTCAATCTGTTCCACTGCACCACC
66 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
* * * *
29462356 AGGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTT
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTC
* * * * *
29462421 GCTGTTCTAGCTTCATTTTGTTCCACTGCACCGCT
66 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
*
29462456 AGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATT
1 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
29462493 CCACTGTAAT
Statistics
Matches: 386, Mismatches: 49, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
99 92 0.24
100 294 0.76
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (100 bp):
AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGATTC
ACTGTTGTAGCTTCAATCTGTTCCACTGCACCACT
Found at i:29462520 original size:299 final size:300
Alignment explanation
Indices: 29461955--29462523 Score: 791
Period size: 299 Copynumber: 1.9 Consensus size: 300
29461945 GATCTGTTCG
* * * * * *
29461955 CCAGGGAAGTAAGATTTGCTGTTGTAGTTTCAATCTATTTAACTGTAATTTTGGGGAAGCAAGAT
1 CCAGGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGAT
* * * * *
29462020 TCGCTGTTGTAGCTTCAATCTGTTCCATTGCATCACTAGGGAAGTAAGATTCGCTGTTGTAGCTT
66 TCACTGTTGTAGCTTCAATCTGTTCCACTGCACCACCAGGGAAGTAAGACTCGCTGTTGTAGCTT
* * *
29462085 TAATCTATTTAACTGCGATGTCGGGAAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTA
131 CAATCTATTTAACTGCAATGTCGGGAAAGCAAGATTCACTGTTCTAGCTTCAATCTGTTCCACTA
* * ***
29462150 CACCGCTAAGGAAGTAAGATTCGATATTGTAGCTTAAATCTATTTAACTGCAATGTCGGGGAAAC
196 CACCGCTAAGGAAGTAAGATTCGATATTGTAGCTTAAATCTATTCAACTGCAATGCCAAAGAAAC
29462215 AAGATTTACTATTGTAGCTTCAATCTGTTCCACTGCACCA
261 AAGATTTACTATTGTAGCTTCAATCTGTTCCACTGCACCA
* * *
29462255 CCAGGGAAGTCAGACTCGCTGTTTTAGCTTCAATCTATTTAACTGCAGTGTCGGGGAAGCAAGAT
1 CCAGGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGAT
29462320 TCACT-TTGTAGCTTCAATCTGTTCCACTGCACCACCAGGGAAGTAAGACTCGCTGTTGTAGCTT
66 TCACTGTTGTAGCTTCAATCTGTTCCACTGCACCACCAGGGAAGTAAGACTCGCTGTTGTAGCTT
* ** * *
29462384 CAATCTATTTAACTGTAATGTCAGGG-AAGCAAGATTTGCTGTTCTAGCTTCATTTTGTTCCACT
131 CAATCTATTTAACTGCAATGTC-GGGAAAGCAAGATTCACTGTTCTAGCTTCAATCTGTTCCACT
* * * * * * * *
29462448 GCACCGCTAGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAAAGAGA
195 ACACCGCTAAGGAAGTAAGATTCGATATTGTAGCTTAAATCTATTCAACTGCAATGCCAAAGAAA
*
29462513 TAAGATTTACT
260 CAAGATTTACT
29462524 GCCCACAACT
Statistics
Matches: 232, Mismatches: 36, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
299 169 0.73
300 63 0.27
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (300 bp):
CCAGGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAGCAAGAT
TCACTGTTGTAGCTTCAATCTGTTCCACTGCACCACCAGGGAAGTAAGACTCGCTGTTGTAGCTT
CAATCTATTTAACTGCAATGTCGGGAAAGCAAGATTCACTGTTCTAGCTTCAATCTGTTCCACTA
CACCGCTAAGGAAGTAAGATTCGATATTGTAGCTTAAATCTATTCAACTGCAATGCCAAAGAAAC
AAGATTTACTATTGTAGCTTCAATCTGTTCCACTGCACCA
Found at i:29464314 original size:20 final size:21
Alignment explanation
Indices: 29464277--29464317 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
29464267 TATGTAATCA
29464277 TTATTTTCATAATATATATAT
1 TTATTTTCATAATATATATAT
29464298 TTATTTT-ATAACT-TATATAT
1 TTATTTTCATAA-TATATATAT
29464318 GTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTCATAATATATATAT
Found at i:29473678 original size:45 final size:45
Alignment explanation
Indices: 29473444--29474035 Score: 424
Period size: 45 Copynumber: 13.5 Consensus size: 45
29473434 AGATGGTGAA
* * * * * *
29473444 TCTTATCTCCCTTAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAG-AAAGCAAG
* * * **
29473488 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-ACTG-ATAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCA-AG
* * * *
29473531 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TC--G-TATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
* * *
29473572 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
* * * *
29473616 TCTTATCCCCCT-AAGGTTGCAGTGGGGTAGACTCAAGAAAGCAAG
1 TCTTATCTCCCTGAA-GTTGCAGTAGAGCAGACTCAAGAAAGCAAG
* * *
29473661 TCTTATCTTCCTGAGGTTGCAGTAGAGCAGATTCAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
*
29473706 TCTTATCTCCCTGAAATTGCAGTAGAGCAGACTCAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
* * * * *
29473751 TCTTATC-CCTCTGAAATTGCAGTAGGGCAGACTGAATAAA-CAAA
1 TCTTATCTCC-CTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
* * * * * ** * * *
29473795 TCCTATCTCCCTAAAGTTGTAGTGGAG-TGGGT-TAGAATG-ATGG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCA-AG
* * * * *
29473838 ATCTTATATCTCTGAAGTTGCAGTAGAGCAGA-TC---ATATCAAA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
* *
29473880 TCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
* *
29473925 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
* * * * *
29473970 TCTTATC-CCCTTGACA-TTGCAATAGGGCAGACTGAATAAA--AAA
1 TCTTATCTCCC-TGA-AGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
*
29474013 TCTTATCTCTCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
29474036 GGAGTAGATT
Statistics
Matches: 433, Mismatches: 85, Indels: 61
0.75 0.15 0.11
Matches are distributed among these distances:
40 21 0.05
41 37 0.09
42 10 0.02
43 35 0.08
44 130 0.30
45 198 0.46
46 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTCAAGAAAGCAAG
Found at i:29473911 original size:129 final size:132
Alignment explanation
Indices: 29473572--29473943 Score: 310
Period size: 134 Copynumber: 2.8 Consensus size: 132
29473562 TCGTATCTAG
* * * * * * * *
29473572 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGCAAGTCTTATCCCCCT-AAGGTTGC
1 TCTTATATCCCTGAAATTGCAGTAGAGCAGACTCA-AAAGCAAATCTTATCCCTCTGAA-ATTGC
* * * * * * * * * ** * *
29473636 AGTGGGGTAGACTCAAGAAAGCAAGTCTTATCTTCCTGAGGTTGCAGTAGAGCAGATTCAAGAAA
64 AGTAGGGCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGGTT--AGAAT
*
29473701 GCA-AG-
127 G-ATGGA
* *
29473706 TCTTATCTCCCTGAAATTGCAGTAGAGCAGACTCAAGAAAGCAAGTCTTATCCCTCTGAAATTGC
1 TCTTATATCCCTGAAATTGCAGTAGAGCAGACTC-A-AAAGCAAATCTTATCCCTCTGAAATTGC
* *
29473771 AGTAGGGCAGACTGAATAAA-CAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGGTTAGAATGA
64 AGTAGGGCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGGTTAGAATGA
29473835 TGGA
129 TGGA
* * * *
29473839 TCTTATATCTCTGAAGTTGCAGTAGAGCAGA-TC-ATATCAAATCTTATCTCC-CTGAAATTGCA
1 TCTTATATCCCTGAAATTGCAGTAGAGCAGACTCAAAAGCAAATCTTATC-CCTCTGAAATTGCA
* * *
29473901 GT-GGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAGTTG
65 GTAGG-GCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTG
29473944 CAGTAGAGCA
Statistics
Matches: 198, Mismatches: 33, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
128 2 0.01
129 37 0.19
130 22 0.11
131 1 0.01
132 8 0.04
133 28 0.14
134 58 0.29
135 40 0.20
136 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (132 bp):
TCTTATATCCCTGAAATTGCAGTAGAGCAGACTCAAAAGCAAATCTTATCCCTCTGAAATTGCAG
TAGGGCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGGTTAGAATGATG
GA
Found at i:29474018 original size:174 final size:171
Alignment explanation
Indices: 29473486--29474044 Score: 472
Period size: 174 Copynumber: 3.2 Consensus size: 171
29473476 TAAAGCCAAT
* * * * * * *
29473486 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACTG-ATAGATCTTATCTCTCTGAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAA-AGCA-A-ATCTTATCTCCCTGAAATT
* * * * * *
29473550 GCAG-AGAGCAGA-TC--G-TATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTA
63 GCAGTAGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAA
* * *
29473610 AGCAAGTCTTATCCCCCTAAGGTTGCAGTGGGGTAGACTCAAGAAAGCA
128 AGCAAGTCTTAT-CCCCTAA-ATTGCAGT-GGGTAGACTGAATAAA--A
* * *
29473659 AGTCTTATCT-TCCTGAGGTTGCAGTAGAGCAGATTCAAGAAAGCAAGTCTTATCTCCCTGAAAT
1 AATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGA-TC-A-AAAGCAAATCTTATCTCCCTGAAAT
* *
29473723 TGCAGTAGAGCAGACTCAAGAAAGCAAGTCTTATC-CCTCTGAAATTGCAGTAGGGCAGACTGAA
62 TGCAGTAGAGCAGACTCAAGAAAGCAAGTCTTATCTCC-CTGAAGTTGCAGTAGAGCAGACT-AA
* * * * * ** * **
29473787 TAAA-CAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGGTTAGAATGATG
125 GAAAGCAAGTCTTATC-CCCTAAA-TTGCAGTGG-GTAGACT-GAATAAAA
* * * *
29473837 GATCTTATATCTCTGAAGTTGCAGTAGAGCAGATC-ATATCAAATCTTATCTCCCTGAAATTGCA
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAAGCAAATCTTATCTCCCTGAAATTGCA
* *
29473901 GTGGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGAAAG
66 GTAGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AAGAAAG
* * *
29473966 CAAGTCTTATCCCCTTGACATTGCAATAGGGCAGACTGAATAAAA
130 CAAGTCTTATCCCC-T-AAATTGCAGT-GGGTAGACTGAATAAAA
* *
29474011 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGAT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
29474045 TGAGAAAACC
Statistics
Matches: 304, Mismatches: 60, Indels: 43
0.75 0.15 0.11
Matches are distributed among these distances:
173 27 0.09
174 140 0.46
175 31 0.10
176 9 0.03
177 2 0.01
178 33 0.11
179 56 0.18
180 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (171 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAAGCAAATCTTATCTCCCTGAAATTGCA
GTAGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGAAAGC
AAGTCTTATCCCCTAAATTGCAGTGGGTAGACTGAATAAAA
Found at i:29474929 original size:50 final size:50
Alignment explanation
Indices: 29474853--29475335 Score: 425
Period size: 50 Copynumber: 9.7 Consensus size: 50
29474843 TCTGTTCGCT
* * * *
29474853 AGGGAAGTAAGATTTGTTGTTGTAGCTTCAATCTATTTAACTACAATGTC
1 AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* * ** * *
29474903 GGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTG-TATCGCC
1 AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAAT-GTC
* * * *
29474953 AGGGAAGTAAGATTCGATGTTGTAGCTTTAATCTATTTAACTGCGATGTC
1 AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* *
29475003 -GGGAAAGCAAGATTCACTATTGTAGCTTCAATCTATTTAACTGCAATGTC
1 AGGG-AAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* * * * ** * * ** *
29475053 GGGGAAACAAGATTCACTGTTGTAGCTTCAATCTGTTCCATTACACCGCC
1 AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* * * *
29475103 AGGGAAGTAAGATTTGTTGTTGTAGCTTCAATCTATTTAACTGCAATGTT
1 AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* * * ** * ****
29475153 GGGGAAGCAAGATTCACT-TTGTAGCTTCAATCTGTTCCATTGCACCACC
1 AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* *
29475202 AGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTC
1 AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* * * * ** **
29475252 AGGTAAGCAAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCG-C
1 AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
* * *
29475301 TAGGTAAGTAAGATTCGCTGTTGTAACTTCAATCT
1 -AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
29475336 GTTCCACTGT
Statistics
Matches: 337, Mismatches: 90, Indels: 12
0.77 0.21 0.03
Matches are distributed among these distances:
49 43 0.13
50 289 0.86
51 5 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (50 bp):
AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTC
Found at i:29475136 original size:150 final size:149
Alignment explanation
Indices: 29474872--29475185 Score: 502
Period size: 150 Copynumber: 2.1 Consensus size: 149
29474862 AGATTTGTTG
* *
29474872 TTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
1 TTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCACTGTTGTAGCTTCAATCT
** * * *
29474937 GTTCCACTGTATCGCCAGGGAAGTAAGATTCGATGTTGTAGCTTTAATCTATTTAACTGCGATGT
66 GTTCCACTACACCGCCAGGGAAGTAAGATTCGATGTTGTAGCTTCAATCTATTTAACTGCAATGT
29475002 CGGGAAAGCAAGATTCACT
131 CGGGAAAGCAAGATTCACT
*
29475021 ATTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCACTGTTGTAGCTTCAATC
1 -TTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCACTGTTGTAGCTTCAATC
* * *
29475086 TGTTCCATTACACCGCCAGGGAAGTAAGATTTGTTGTTGTAGCTTCAATCTATTTAACTGCAATG
65 TGTTCCACTACACCGCCAGGGAAGTAAGATTCGATGTTGTAGCTTCAATCTATTTAACTGCAATG
* *
29475151 TTGGGGAAGCAAGATTCACT
130 TCGGGAAAGCAAGATTCACT
29475171 TTGTAGCTTCAATCT
1 TTGTAGCTTCAATCT
29475186 GTTCCATTGC
Statistics
Matches: 151, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
149 15 0.10
150 136 0.90
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TTGTAGCTTCAATCTATTTAACTACAATGTCGGGGAAACAAGATTCACTGTTGTAGCTTCAATCT
GTTCCACTACACCGCCAGGGAAGTAAGATTCGATGTTGTAGCTTCAATCTATTTAACTGCAATGT
CGGGAAAGCAAGATTCACT
Found at i:29475345 original size:100 final size:100
Alignment explanation
Indices: 29474904--29475349 Score: 488
Period size: 100 Copynumber: 4.5 Consensus size: 100
29474894 TACAATGTCG
* * ** * *
29474904 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGT-ATCGCCAGGGAAGTAAGATTC
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAAT-GTCAGGGAAGCAAGATTC
* * ** * *
29474968 GA-TGTTGTAGCTTTAATCTATTTAACTGCGA-TGTC-
65 -ACTGTTGTAGCTTCAATCTGTTCCACTGC-ACCGCCA
* * * * * *
29475003 GGGAAAGCAAGATTCACTATTGTAGCTTCAATCTATTTAACTGCAATGTCGGGGAAACAAGATTC
1 GGG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTC
* *
29475068 ACTGTTGTAGCTTCAATCTGTTCCATTACACCGCCA
65 ACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * **
29475104 GGGAAGTAAGATTTGTTGTTGTAGCTTCAATCTATTTAACTGCAATGTTGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCA
* *
29475169 CT-TTGTAGCTTCAATCTGTTCCATTGCACCACCA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* *
29475203 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGTAAGCAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCA
* * *
29475268 CTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTA
66 CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * **
29475303 GGTAAGTAAGATTCGCTGTTGTAACTTCAATCTGTTCCACTGTAATG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATG
29475350 CCAAAGAGAT
Statistics
Matches: 297, Mismatches: 44, Indels: 11
0.84 0.12 0.03
Matches are distributed among these distances:
99 95 0.32
100 197 0.66
101 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (100 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCA
CTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
Found at i:29475582 original size:361 final size:361
Alignment explanation
Indices: 29475110--29475872 Score: 1312
Period size: 361 Copynumber: 2.1 Consensus size: 361
29475100 GCCAGGGAAG
** * *
29475110 TAAGATTTGTTGTTGTAGCTTCAATCTATTTAACTGCAATGTTGGGGAAGCAAGATTCACTTTGT
1 TAAGATTTACTGTTGTAGCTTCAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTTTGT
* * *
29475175 AGCTTCAATCTGTTCCATTGCACCACCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTT
66 AGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTT
*
29475240 AACTGTAATGTCAGGTAAGCAAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGG
131 AACTGTAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGG
* *
29475305 TAAGTAAGATTCGCTGTTGTAACTTCAATCTGTTCCACTGTAATGCCAAAGAGATAGGATTCACT
196 GAAGTAAGATTCGCTGTTGTAACTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTCACT
*
29475370 GCCCATAACTTTAATCCGCTCCACTTCAGCTATTCCAAGCCTTAACGCCAGAGAGATAAGATTCG
261 GCCCACAACTTTAATCCGCTCCACTTCAGCTATTCCAAGCCTTAACGCCAGAGAGATAAGATTCG
*
29475435 CTGCCCTCAGCTTTAATCTGCTCTGCTGCAACACCA
326 CTGCCCTCAGCTTTAATCTGCTCCGCTGCAACACCA
*
29475471 TAAGATTCT-CTGTTGTAGCTTCAATCTGTTTAACTGCAGTGTCGGGGAAGCAAGATTCACTTTG
1 TAAGATT-TACTGTTGTAGCTTCAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTTTG
* *
29475535 TAGCTTCAATTTGTTCCACTACACCACTAGGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATT
65 TAGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATT
29475600 TAACTGTAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAG
130 TAACTGTAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAG
*
29475665 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTCAC
195 GGAAGTAAGATTCGCTGTTGTAACTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTCAC
* *
29475730 TGCCCACAACTTTAATCCGCTCCACTTCAGTTATTTCAAGCCTTAACGCCAGAGAGATAAGATTC
260 TGCCCACAACTTTAATCCGCTCCACTTCAGCTATTCCAAGCCTTAACGCCAGAGAGATAAGATTC
* *
29475795 GTTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCCA
325 GCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACACCA
**
29475832 TAAGATTTACTGTTGTAGCTTCAATCTGTTCCACTGCAATG
1 TAAGATTTACTGTTGTAGCTTCAATCTGTTTAACTGCAATG
29475873 CCAATGCGAC
Statistics
Matches: 378, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
360 1 0.00
361 376 0.99
362 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (361 bp):
TAAGATTTACTGTTGTAGCTTCAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTTTGT
AGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTT
AACTGTAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGG
GAAGTAAGATTCGCTGTTGTAACTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGATTCACT
GCCCACAACTTTAATCCGCTCCACTTCAGCTATTCCAAGCCTTAACGCCAGAGAGATAAGATTCG
CTGCCCTCAGCTTTAATCTGCTCCGCTGCAACACCA
Found at i:29475593 original size:50 final size:50
Alignment explanation
Indices: 29475515--29475705 Score: 208
Period size: 50 Copynumber: 3.8 Consensus size: 50
29475505 TGCAGTGTCG
* * * *
29475515 GGGAAGCAAGATTCACT-TTGTAGCTTCAATTTGTTCCACTACACCACTA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCACTA
* * ** * *
29475564 GGGAAGTAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTA--ATGTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCA-CT-A
* * * *
29475614 GGGAAGCAAGATTCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCACTA
*
29475664 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTG
29475706 TAATGCCAAA
Statistics
Matches: 113, Mismatches: 24, Indels: 9
0.77 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 15 0.13
50 96 0.85
51 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCACTA
Found at i:29475680 original size:100 final size:99
Alignment explanation
Indices: 29475471--29475710 Score: 363
Period size: 100 Copynumber: 2.4 Consensus size: 99
29475461 TGCAACACCA
* * * * *
29475471 TAAGATTCTCTGTTGTAGCTTCAATCTGTTTAACTGCAGTGTCGGGGAAGCAAGATTCACTTTGT
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCACTTTGT
29475536 AGCTTCAATTTGTTCCACTACACCACTAGGGAAG
66 AGCTTCAATTTGTTCCACTACACCACTAGGGAAG
* *
29475570 TAAGACTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCGCTGTTG
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCACT-TTG
* * *
29475635 TAGCTTCATTTTGTTCCACTGCACCGCTAGGGAAG
65 TAGCTTCAATTTGTTCCACTACACCACTAGGGAAG
**
29475670 TAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGTAATG
1 TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATG
29475711 CCAAAGAGAT
Statistics
Matches: 127, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 54 0.43
100 73 0.57
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (99 bp):
TAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAGATTCACTTTGT
AGCTTCAATTTGTTCCACTACACCACTAGGGAAG
Found at i:29475727 original size:50 final size:49
Alignment explanation
Indices: 29475576--29475727 Score: 137
Period size: 50 Copynumber: 3.0 Consensus size: 49
29475566 GAAGTAAGAC
** *
29475576 TCGCTGTTGTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCA-AGAT
1 TCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAGGG-AG-ATAGAT
* * * * ** *
29475626 TCGCTGTTGTAGCTTCATTTTGTTCCACTGCACCGCTAGGGA-AGTAAGAT
1 TCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAGGGAGA-T-AGAT
**
29475676 TCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAAAGAGATAGGAT
1 TCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAGGGAGATA-GAT
29475726 TC
1 TC
29475728 ACTGCCCACA
Statistics
Matches: 78, Mismatches: 19, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
47 1 0.01
49 2 0.03
50 74 0.95
51 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (49 bp):
TCGCTGTTGTAGCTTCAATCTATTCCACTGTAATGCCAGGGAGATAGAT
Found at i:29490115 original size:45 final size:45
Alignment explanation
Indices: 29489845--29490528 Score: 498
Period size: 45 Copynumber: 15.5 Consensus size: 45
29489835 CAAATCCTAA
** * ** *
29489845 CTCCCTGAAGTTATAGT-GAGACAGACTGAAGATGGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAG-CAGACTCAAGAAAGCAAGTCTTAT
* * * * *
29489890 CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAAGCAAGTCTTAT
* **
29489934 CTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AGTG-ATAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTAT
* * * * * * * *
29489978 CTCTCTAAAGTTGCAG-AGAGCA-AATC--G-CATCTAGTCTTAG
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * *
29490018 CTCCCTGAAGTTGCAGTGGAACAGACT-GAGTAAGCAGGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
*
29490062 C-CCTCTGAGGTTGCAGTGTG-GCAGACTCAAGAAAGCAAGTCTTAT
1 CTCC-CTGAAGTTGCAGTG-GAGCAGACTCAAGAAAGCAAGTCTTAT
* * *
29490107 CTTCCTGAGGTTGCAGTGGAGCAGATTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
*
29490152 CTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * * * * *
29490197 CCCCCTAAAATTGCAGTAGG-GCAGACTGAATAAA-CAAATCCTAT
1 CTCCCTGAAGTTGCAGT-GGAGCAGACTCAAGAAAGCAAGTCTTAT
* * ** * * *
29490241 CTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGAATG-ATGGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTAT
* * *
29490285 ATCTCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * ** * * *
29490330 CTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGAATG-ATGGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTAT
* *
29490374 ATCTCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
*
29490419 CTCCCTGAAGTTGCAGTGGAGCAGACTCGAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * * * *
29490464 C-CCCTTGAAATTGCACTGGGGCAGACTGAATAAA-CAAATCTTAT
1 CTCCC-TGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* *
29490508 CTCCTTGAAGTTGCAATGGAG
1 CTCCCTGAAGTTGCAGTGGAG
29490529 TAGATTGAGA
Statistics
Matches: 501, Mismatches: 104, Indels: 69
0.74 0.15 0.10
Matches are distributed among these distances:
40 19 0.04
41 7 0.01
42 9 0.02
43 21 0.04
44 178 0.36
45 247 0.49
46 18 0.04
47 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (45 bp):
CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
Found at i:29490506 original size:89 final size:90
Alignment explanation
Indices: 29489879--29490528 Score: 423
Period size: 89 Copynumber: 7.4 Consensus size: 90
29489869 ACTGAAGATG
* * * * * * * * *
29489879 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTATCTCCCTGA
1 GCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAG-AAAGCAAGTCTTATCACCTTGA
* **
29489942 AGTTGCAGTGGAGCAGA-TTAA-AGT
65 AGTTGCAGTGGAGCAGACTCAAGAAA
* * * * * * * * *
29489966 G-ATAGATCTTATCTCTCTAAAGTTGCAG-AGAGCA-AATC--G-CATCTAGTCTTAGCTCCCTG
1 GCA-AG-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCACCTTG
* * *
29490025 AAGTTGCAGTGGAACAGACT-GAGTAA
64 AAGTTGCAGTGGAGCAGACTCAAGAAA
* * * *
29490051 GCAGGTCTTATC-CCTCTGAGGTTGCAGTGTG-GCAGACTCAAGAAAGCAAGTCTTATCTTCC-T
1 GCAAGTCTTATCTCC-CTAAAGTTGCAGTG-GAGCAGACTCAAGAAAGCAAGTCTTATC-ACCTT
* *
29490113 GAGGTTGCAGTGGAGCAGATTCAAGAAA
63 GAAGTTGCAGTGGAGCAGACTCAAGAAA
* * *
29490141 GCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTAAA
1 GCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCACCTTGAA
* * *
29490206 ATTGCAGTAGG-GCAGACTGAATAAA
66 GTTGCAGT-GGAGCAGACTCAAGAAA
* * * ** * * * *
29490231 -CAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGAATG-ATGGATCTTAT-ATCTCT
1 GCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTATCACCT-T
29490291 GAAGTTGCAGTGGAGCAGACTCAAGAAA
63 GAAGTTGCAGTGGAGCAGACTCAAGAAA
* * ** * * * *
29490319 GCAAGTCCTATCTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGAATG-ATGGATCTTAT-ATCTCT
1 GCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTATCACCT-T
29490380 GAAGTTGCAGTGGAGCAGACTCAAGAAA
63 GAAGTTGCAGTGGAGCAGACTCAAGAAA
* * *
29490408 GCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCGAGAAAGCAAGTCTTATCCCCTTGAA
1 GCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCACCTTGAA
* * * * *
29490473 ATTGCACTGGGGCAGACTGAATAAA
66 GTTGCAGTGGAGCAGACTCAAGAAA
* * * *
29490498 -CAAATCTTATCTCCTTGAAGTTGCAATGGAG
1 GCAAGTCTTATCTCCCTAAAGTTGCAGTGGAG
29490529 TAGATTGAGA
Statistics
Matches: 459, Mismatches: 75, Indels: 56
0.78 0.13 0.09
Matches are distributed among these distances:
82 1 0.00
83 2 0.00
84 47 0.10
85 6 0.01
86 9 0.02
87 16 0.03
88 50 0.11
89 208 0.45
90 107 0.23
91 12 0.03
92 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (90 bp):
GCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCACCTTGAA
GTTGCAGTGGAGCAGACTCAAGAAA
Found at i:29499041 original size:73 final size:72
Alignment explanation
Indices: 29498784--29499063 Score: 488
Period size: 72 Copynumber: 3.9 Consensus size: 72
29498774 TATCGGGTTT
*
29498784 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
29498849 CTTGAGA
66 CTTGAGA
* * *
29498856 AAAAAAGGGATCATGCCCAGTAAGTTAGGACATGGTCTCTTCTTAATTCCCGAGATCGTCTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
29498921 CTTGAGA
66 CTTGAGA
29498928 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
29498993 CTTGAGAA
66 CTTGAG-A
** *
29499001 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTTTCGAGATCATTTAA
1 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAA
29499064 CTTGAGTTTG
Statistics
Matches: 197, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
72 136 0.69
73 61 0.31
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (72 bp):
AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
CTTGAGA
Found at i:29499556 original size:10 final size:10
Alignment explanation
Indices: 29499538--29499567 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
29499528 AAAAATGTAC
*
29499538 GTATGTATAT
1 GTATATATAT
29499548 GTATATATAT
1 GTATATATAT
29499558 GTATATATAT
1 GTATATATAT
29499568 AAAGTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (10 bp):
GTATATATAT
Found at i:29499744 original size:19 final size:18
Alignment explanation
Indices: 29499716--29499752 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
29499706 ACATAGATGA
29499716 GTAAATAATAATAATAAT
1 GTAAATAATAATAATAAT
*
29499734 GTAATATAATAGTAATAAT
1 GTAA-ATAATAATAATAAT
29499753 AATATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (18 bp):
GTAAATAATAATAATAAT
Found at i:29501682 original size:23 final size:23
Alignment explanation
Indices: 29501658--29501730 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
29501648 ATTTTTCAAT
29501658 TTTA-AATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
*
29501680 TTTAGAATTATTTGGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
*
29501703 TTTAGGATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTGATAATA
29501726 TTTAG
1 TTTAG
29501731 TAAAAATTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
22 4 0.09
23 43 0.91
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (23 bp):
TTTAGAATTATTTAGTGATAATA
Found at i:29501683 original size:13 final size:13
Alignment explanation
Indices: 29501665--29501731 Score: 74
Period size: 13 Copynumber: 5.6 Consensus size: 13
29501655 AATTTTAAAT
29501665 TATTTAGTGATAA
1 TATTTAGTGATAA
*
29501678 TATTTA--GA-AT
1 TATTTAGTGATAA
*
29501688 TATTTGGTGATAA
1 TATTTAGTGATAA
29501701 TATTTAG-GAT--
1 TATTTAGTGATAA
29501711 TATTTAGTGATAA
1 TATTTAGTGATAA
29501724 TATTTAGT
1 TATTTAGT
29501732 AAAAATTTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.11
12 5 0.11
13 21 0.48
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:29502532 original size:30 final size:31
Alignment explanation
Indices: 29502484--29502547 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
29502474 ACTTAACAAG
*
29502484 CAAATGCCTCTAAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAAATAATAACAAAATTAA
*
29502515 CAAATGCCT-TTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAAATAATAACAAAATTAA
29502545 CAA
1 CAA
29502548 TAAAATATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAATGCCTCTAAAAATAATAACAAAATTAA
Found at i:29503347 original size:5 final size:6
Alignment explanation
Indices: 29503330--29503355 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
29503320 TTAAACCCCC
29503330 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
29503356 GCATTTCTAC
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:29506476 original size:20 final size:19
Alignment explanation
Indices: 29506430--29506487 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
29506420 TACACCTAGG
* *
29506430 ACTGAACTGACCAGAATCG
1 ACTGAACTGACCAGAACCA
29506449 ACTAGAACTGACCAGAACCA
1 ACT-GAACTGACCAGAACCA
*
29506469 ACCTGAACTGCCCA-AACCA
1 A-CTGAACTGACCAGAACCA
29506488 CCTTCCGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.24
20 24 0.71
21 2 0.06
ACGTcount: A:0.40, C:0.33, G:0.16, T:0.12
Consensus pattern (19 bp):
ACTGAACTGACCAGAACCA
Found at i:29507778 original size:13 final size:13
Alignment explanation
Indices: 29507760--29507814 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
29507750 AATTTTGAAT
29507760 TATTTAGTGATAA
1 TATTTAGTGATAA
*
29507773 TATTTAGTAATAA
1 TATTTAGTGATAA
* *
29507786 CATTTA-AGAT--
1 TATTTAGTGATAA
29507796 TATTTAGTGATAA
1 TATTTAGTGATAA
29507809 TATTTA
1 TATTTA
29507815 AGAAAAATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
10 5 0.15
11 3 0.09
12 2 0.06
13 23 0.70
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:29507799 original size:23 final size:23
Alignment explanation
Indices: 29507773--29507817 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
29507763 TTAGTGATAA
29507773 TATTTAGTAATAACATTTAAGAT
1 TATTTAGTAATAACATTTAAGAT
* *
29507796 TATTTAGTGATAATATTTAAGA
1 TATTTAGTAATAACATTTAAGA
29507818 AAAATCTAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (23 bp):
TATTTAGTAATAACATTTAAGAT
Found at i:29509945 original size:30 final size:30
Alignment explanation
Indices: 29509873--29509935 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
29509863 GGATGTGGAG
* *
29509873 CTTCTATAGGCGACGGTGCAGGTGATGGCA
1 CTTCTACAGGTGACGGTGCAGGTGATGGCA
*
29509903 CTTCTACAGGTGACGGTGCTGGTGA-GGACA
1 CTTCTACAGGTGACGGTGCAGGTGATGG-CA
29509933 CTT
1 CTT
29509936 GTAGTGGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.19, C:0.21, G:0.35, T:0.25
Consensus pattern (30 bp):
CTTCTACAGGTGACGGTGCAGGTGATGGCA
Found at i:29511539 original size:18 final size:17
Alignment explanation
Indices: 29511512--29511547 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
29511502 TTTAATTATT
*
29511512 TTTAAAAATTTTAAAAA
1 TTTAAAAATTATAAAAA
29511529 TTTAAATAATTATAAAAA
1 TTTAAA-AATTATAAAAA
29511547 T
1 T
29511548 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAAAATTATAAAAA
Found at i:29512426 original size:30 final size:30
Alignment explanation
Indices: 29512341--29512427 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
29512331 GGATGTGGAG
* * * *
29512341 CTTCGACAGGCGACGGTGCCGGTGAGGGCA
1 CTTCTACAGGTGACGGTGCCGGTGATGACA
*
29512371 CTTCTACAGGTGACGGTGCTGGTGATGACA
1 CTTCTACAGGTGACGGTGCCGGTGATGACA
* *
29512401 CTTGTACAGGTGATGGTGCCGGTGATG
1 CTTCTACAGGTGACGGTGCCGGTGATG
29512428 GAGATGGTGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.17, C:0.21, G:0.39, T:0.23
Consensus pattern (30 bp):
CTTCTACAGGTGACGGTGCCGGTGATGACA
Found at i:29515683 original size:26 final size:27
Alignment explanation
Indices: 29515644--29515698 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
29515634 ATTCTTTTAT
*
29515644 TTGTGCATTTTTA-TTTATTTATTATTA
1 TTGTGCATTATTATTTTATTT-TTATTA
29515671 TTGT-CATTATTATTTTATTTTTATTA
1 TTGTGCATTATTATTTTATTTTTATTA
29515697 TT
1 TT
29515699 TTGTTCTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.69
Consensus pattern (27 bp):
TTGTGCATTATTATTTTATTTTTATTA
Found at i:29515690 original size:31 final size:30
Alignment explanation
Indices: 29515652--29515729 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
29515642 ATTTGTGCAT
29515652 TTTTATTTATTTATTATTATTG-TCATTATTA
1 TTTTA-TTATTTATTATTATTGTTC-TTATTA
*
29515683 TTTTATT-TTTATTATT-TTGTTCTTGTTA
1 TTTTATTATTTATTATTATTGTTCTTATTA
*
29515711 TTTTATTATTTCTT-TTATT
1 TTTTATTATTTATTATTATT
29515730 ATTTTTGGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 17 0.40
29 18 0.43
30 2 0.05
31 5 0.12
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (30 bp):
TTTTATTATTTATTATTATTGTTCTTATTA
Found at i:29515700 original size:14 final size:14
Alignment explanation
Indices: 29515677--29515735 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
29515667 ATTATTGTCA
29515677 TTATTATTTTATTT
1 TTATTATTTTATTT
* *
29515691 TTATTATTTTGTTC
1 TTATTATTTTATTT
*
29515705 TTGTTATTTTATTAT
1 TTATTATTTTATT-T
*
29515720 TTCTT-TTATTATTT
1 TTATTATT-TTATTT
29515734 TT
1 TT
29515736 GGTACTTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 28 0.76
15 9 0.24
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (14 bp):
TTATTATTTTATTT
Found at i:29525911 original size:35 final size:35
Alignment explanation
Indices: 29525872--29525942 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
29525862 ATGTGCCTCA
29525872 TTCACCTCTTCATGTTATGAATTCTCCATGGTCTT
1 TTCACCTCTTCATGTTATGAATTCTCCATGGTCTT
*
29525907 TTCACCTCTTCATGTTATGACTTCTCCATGGTCTT
1 TTCACCTCTTCATGTTATGAATTCTCCATGGTCTT
29525942 T
1 T
29525943 CTCTATGTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.15, C:0.27, G:0.11, T:0.46
Consensus pattern (35 bp):
TTCACCTCTTCATGTTATGAATTCTCCATGGTCTT
Found at i:29526389 original size:29 final size:29
Alignment explanation
Indices: 29526300--29526389 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
29526290 TGACTAAGAC
29526300 TTATAAAAATTGGCATGTAAAGTTACCAT
1 TTATAAAAATTGGCATGTAAAGTTACCAT
** * * *
29526329 TT-T-CCATTTATGCTTATCG-AACGTTACCAT
1 TTATAAAAATT-GGC--AT-GTAAAGTTACCAT
29526359 TTATAAAAATTGGCATGTAAAGTTACCAT
1 TTATAAAAATTGGCATGTAAAGTTACCAT
29526388 TT
1 TT
29526390 TCTCATTTGT
Statistics
Matches: 44, Mismatches: 10, Indels: 14
0.65 0.15 0.21
Matches are distributed among these distances:
27 3 0.07
28 4 0.09
29 16 0.36
30 14 0.32
31 4 0.09
32 3 0.07
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (29 bp):
TTATAAAAATTGGCATGTAAAGTTACCAT
Found at i:29527777 original size:44 final size:44
Alignment explanation
Indices: 29527705--29528270 Score: 396
Period size: 44 Copynumber: 12.6 Consensus size: 44
29527695 TACCATAGTG
* * *
29527705 AATCTTATCTCCCTGAAGTTGCATTGGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
* * * * *
29527749 AACCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
* * * * ** * * *
29527793 AGTCTTATCTCTCTAAAGTTGTAGTGGAACAGATTAAGGCCATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
* * * *
29527837 AGTCTTATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
* * * * * *
29527881 AATCTTGTTTCCTTGAAGTTGTAGTAGAATAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG---C----TACA
* *
29527932 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGA-TACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTA-AAGCTACA
*
29527976 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGA-TACAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTA-AAGCTACA
* * * * *
29528020 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
* * *
29528064 AGTCTTATCTCCCCGAAGTTGCAGTAGAGTAGATTGAAA-CT--A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGCTACA
* * * *
29528106 AATCCTATACAT--CTGAAGTTGCAGTAGA-TCGGATTAAATCTACCATA
1 AATCTTAT-C-TCCCTGAAGTTGCAGTGGAGT-AGATTAAAGCTA-C--A
* * * *
29528153 GCGAATCTTATCTCCTTGAAGTGGCAGTGGAGTAGATTGAAGCTACG
1 ---AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
* * *
29528200 AGTCTCATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAA-CTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGCTACA
** * *
29528244 CTTCTTATAC-CCCTAAAGTTACAGTGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGG
29528271 GTTAGAATAA
Statistics
Matches: 418, Mismatches: 77, Indels: 54
0.76 0.14 0.10
Matches are distributed among these distances:
41 4 0.01
42 28 0.07
43 1 0.00
44 307 0.73
45 6 0.01
47 2 0.00
48 1 0.00
49 2 0.00
50 31 0.07
51 36 0.09
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACA
Found at i:29528100 original size:227 final size:223
Alignment explanation
Indices: 29527656--29528270 Score: 603
Period size: 227 Copynumber: 2.7 Consensus size: 223
29527646 GAAACTACCG
* * * * * * * **
29527656 ATCCTATACCTCTGAAATTGCAGTGGGA-CAAATTGAATCTACCATAGTGAATCTTATCTCCCTG
1 ATCCTATACATCTGAAGTTGCAGT-AGATCAGATTAAAGCTACAATAGCAAATCTTATCTCCCTG
* * * * *
29527720 AAGTTGCATTGGAGCAGATTAAAGCTATAAACCTAATCTCCCTGAAGTTGCAGTGGAGCAGATTG
65 AAGTTGCAGTGGAGTAGA-TAAAGCTACAAATCTAATCTCCCTGAAGTTGCAGTGGAGTAGATTG
* * * ** * *
29527785 AAGCCACAAGTCTTATCTCTCTAAAGTTGTAGTGGAACAGATTAAGGCCATAAGTCTTATTTCCC
129 AAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAGGCCACAAGTCTTATCTCCC
* * *
29527850 TGAAGTTGCAGTGGAATAGATTGAAGCTACAA
194 CGAAGTTGCAGTAGAATAGATTGAAACT--AA
* * * * *
29527882 ATCTTGTTTCCT-TGAAGTTGTAGTAGAAT-AGATTAAAGCTACAAGTTA-CAAATCTTATCTCC
1 ATCCT-ATACATCTGAAGTTGCAGTAG-ATCAGATTAAAGCTACAA--TAGCAAATCTTATCTCC
* * * *
29527944 CTGAAGTTGCAGTGGAATAGATACAAGTTACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGA
62 CTGAAGTTGCAGTGGAGTAGATA-AAGCTACAAATCTAATCTCCCTGAAGTTGCAGTGGAGTAGA
** * **
29528009 TACAAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAA-GTTACAAGTCTTATC
126 TTGAAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATT-AAGGCCACAAGTCTTATC
*
29528073 TCCCCGAAGTTGCAGTAGAGTAGATTGAAACTAA
190 TCCCCGAAGTTGCAGTAGAATAGATTGAAACTAA
* * * * *
29528107 ATCCTATACATCTGAAGTTGCAGTAGATCGGATTAAATCTACCATAGCGAATCTTATCTCCTTGA
1 ATCCTATACATCTGAAGTTGCAGTAGATCAGATTAAAGCTACAATAGCAAATCTTATCTCCCTGA
* * * * * *
29528172 AGTGGCAGTGGAGTAGATTGAAGCTACGAGTCTCATCTCCCTGAAGTTGCAGCGGAGTAGATTGA
66 AGTTGCAGTGGAGTAGA-TAAAGCTACAAATCTAATCTCCCTGAAGTTGCAGTGGAGTAGATTGA
* **
29528237 AACTACACTTCTTATAC-CCCTAAAGTTACAGTGG
130 AGCTACAAATCTTAT-CTCCCTAAAGTTACAGTGG
29528271 GTTAGAATAA
Statistics
Matches: 316, Mismatches: 61, Indels: 26
0.78 0.15 0.06
Matches are distributed among these distances:
223 2 0.01
224 102 0.32
225 34 0.11
226 28 0.09
227 146 0.46
228 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (223 bp):
ATCCTATACATCTGAAGTTGCAGTAGATCAGATTAAAGCTACAATAGCAAATCTTATCTCCCTGA
AGTTGCAGTGGAGTAGATAAAGCTACAAATCTAATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA
GCTACAAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTAAGGCCACAAGTCTTATCTCCCCG
AAGTTGCAGTAGAATAGATTGAAACTAA
Found at i:29529132 original size:26 final size:27
Alignment explanation
Indices: 29529093--29529144 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
29529083 ATTCTTTTAT
*
29529093 TTGTGCATTTTTA-TTTATTTATTATTA
1 TTGTGCATTATTATTTTATTT-TTATTA
29529120 TTGT-CATTATTATTTTATTTTTATT
1 TTGTGCATTATTATTTTATTTTTATT
29529145 CTTTTGGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (27 bp):
TTGTGCATTATTATTTTATTTTTATTA
Found at i:29530475 original size:22 final size:22
Alignment explanation
Indices: 29530445--29530486 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29530435 AGTCACTATA
*
29530445 AATTATAGTGACTAGTTTTTAT
1 AATTATAGTGACTAATTTTTAT
*
29530467 AATTTTAGTGACTAATTTTT
1 AATTATAGTGACTAATTTTT
29530487 TTCTCCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (22 bp):
AATTATAGTGACTAATTTTTAT
Found at i:29531106 original size:25 final size:25
Alignment explanation
Indices: 29531077--29531124 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
29531067 TATTATGAAT
29531077 TTGATTCCTCAGATATGGAAATTTA
1 TTGATTCCTCAGATATGGAAATTTA
29531102 TTGATTCCTCAGATATGGAAATT
1 TTGATTCCTCAGATATGGAAATT
29531125 CAACAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (25 bp):
TTGATTCCTCAGATATGGAAATTTA
Found at i:29532690 original size:10 final size:10
Alignment explanation
Indices: 29532675--29532699 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29532665 TAGTCTAAAA
29532675 TATTGTTTTT
1 TATTGTTTTT
29532685 TATTGTTTTT
1 TATTGTTTTT
29532695 TATTG
1 TATTG
29532700 CTTGTTTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (10 bp):
TATTGTTTTT
Found at i:29533086 original size:96 final size:96
Alignment explanation
Indices: 29532911--29533330 Score: 407
Period size: 93 Copynumber: 4.4 Consensus size: 96
29532901 GGTTATTTCC
* * * * *
29532911 GTTTAAGTTTATAGCTTTCTGTCACCTTTTAAAGCTCTTC-T-TT-GGGTTTA-TCAGTCTTCTT
1 GTTTAAGTTTATACCTTTTTGTCACCTTTTCAAGCTCTTCTTCTTCGGGTTTACTGA-TCTCCTT
* * * *
29532972 TTCGGGTT-TCAATAAAGACGATAGTCGCCTTC
65 TTCGGGTTCT-GATGAAGACGATAGTCGCTTTT
* * * *
29533004 ATTTAAATTTATACCTTTTTGTTACCTTTTCAAGCTCTTCTTCTTCAGGTTTACTGATCTCCTTT
1 GTTTAAGTTTATACCTTTTTGTCACCTTTTCAAGCTCTTCTTCTTCGGGTTTACTGATCTCCTTT
* **
29533069 TCGGGTTCTGATGAAGACGATAGCCATTTTT
66 TCGGGTTCTGATGAAGACGATAGTCGCTTTT
** * * *
29533100 GTTTAAGAATGTACCTTTCTGTCACCTTTTCAAG--C-TCTTCTTCGGGTTTACCGATCTCCTTT
1 GTTTAAGTTTATACCTTTTTGTCACCTTTTCAAGCTCTTCTTCTTCGGGTTTACTGATCTCCTTT
** * * *
29533162 TCAAGTTCTGATGAAGACAATGGTCTCTTTT
66 TCGGGTTCTGATGAAGACGATAGTCGCTTTT
*
29533193 GTTTAAGTTTATACCTTTTTG-CTACCTTTTCAAGCTCTTCTTCTTCGGGTTTATTGATCTCCTT
1 GTTTAAGTTTATACCTTTTTGTC-ACCTTTTCAAGCTCTTCTTCTTCGGGTTTACTGATCTCCTT
* *
29533257 CTT-GGTTTC-GAT-AACAACGATAGTCGCTTTT
65 -TTCGGGTTCTGATGAA-GACGATAGTCGCTTTT
* *
29533288 GTTTAAGTTTATA-GTTTGTTGCCACCTTTTTCAAGCTCTTCTT
1 GTTTAAGTTTATACCTTT-TTGTCACC-TTTTCAAGCTCTTCTT
29533331 TGGGTTTCTT
Statistics
Matches: 267, Mismatches: 46, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
92 1 0.00
93 111 0.42
94 7 0.03
95 37 0.14
96 106 0.40
97 5 0.02
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (96 bp):
GTTTAAGTTTATACCTTTTTGTCACCTTTTCAAGCTCTTCTTCTTCGGGTTTACTGATCTCCTTT
TCGGGTTCTGATGAAGACGATAGTCGCTTTT
Found at i:29533682 original size:18 final size:18
Alignment explanation
Indices: 29533659--29533694 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29533649 CAATTCGAGC
29533659 AATTATCTTATTTAGAGT
1 AATTATCTTATTTAGAGT
29533677 AATTATCTTATTTAGAGT
1 AATTATCTTATTTAGAGT
29533695 GACCAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
AATTATCTTATTTAGAGT
Found at i:29539894 original size:21 final size:21
Alignment explanation
Indices: 29539845--29539888 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
29539835 CATTTTAATA
29539845 ATCCAATGGTTGAATTTGTTG
1 ATCCAATGGTTGAATTTGTTG
29539866 ATCCAATGGTTGAATTTGTTG
1 ATCCAATGGTTGAATTTGTTG
29539887 AT
1 AT
29539889 GTAATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (21 bp):
ATCCAATGGTTGAATTTGTTG
Found at i:29542317 original size:49 final size:48
Alignment explanation
Indices: 29542258--29542358 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 48
29542248 TAAATTTTTA
*
29542258 ATTTATCAAACACTAGTTCAGTTTTAACCTATGTTACTCTTAACTCATC
1 ATTTATCAAACACTAGTTCAATTTTAACCTATGTTACTC-TAACTCATC
29542307 ATTTATCAAACACTAGTTCAATTTTAACCTATGTTACTCTAACTCATC
1 ATTTATCAAACACTAGTTCAATTTTAACCTATGTTACTCTAACTCATC
29542355 ATTT
1 ATTT
29542359 TTCTTTAAGT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 13 0.25
49 38 0.75
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.42
Consensus pattern (48 bp):
ATTTATCAAACACTAGTTCAATTTTAACCTATGTTACTCTAACTCATC
Found at i:29544095 original size:3 final size:3
Alignment explanation
Indices: 29544087--29544112 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29544077 TCCTCTTTCT
29544087 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
29544113 ATTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:29551284 original size:21 final size:24
Alignment explanation
Indices: 29551234--29551285 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
29551224 GGCACAAATT
*
29551234 ATTTATGTCATATTTCCATTACAA
1 ATTTATATCATATTTCCATTACAA
*
29551258 ACTTATAT-ATATTTCCA-TAC-A
1 ATTTATATCATATTTCCATTACAA
29551279 ATTTATA
1 ATTTATA
29551286 ATTTACGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 7 0.28
22 3 0.12
23 9 0.36
24 6 0.24
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (24 bp):
ATTTATATCATATTTCCATTACAA
Found at i:29552814 original size:17 final size:17
Alignment explanation
Indices: 29552780--29552827 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
29552770 AAAATAAATT
* * *
29552780 ATATAAAATCTAATAAA
1 ATATAAATTATAAAAAA
29552797 ATATAAATTATAAAAAA
1 ATATAAATTATAAAAAA
*
29552814 ATAATTAATTATAA
1 AT-ATAAATTATAA
29552828 TAAATATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAATTATAAAAAA
Found at i:29559168 original size:37 final size:37
Alignment explanation
Indices: 29559118--29559196 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
29559108 ATACGACAGG
29559118 GTTATATGGTTGCGTGTCACTTTTTATTTCAAGTATA
1 GTTATATGGTTGCGTGTCACTTTTTATTTCAAGTATA
29559155 GTTATATGGTTGCGTGTCACTTTTTATTTCAAGTATA
1 GTTATATGGTTGCGTGTCACTTTTTATTTCAAGTATA
29559192 GTTAT
1 GTTAT
29559197 CACATGGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.49
Consensus pattern (37 bp):
GTTATATGGTTGCGTGTCACTTTTTATTTCAAGTATA
Found at i:29569950 original size:27 final size:27
Alignment explanation
Indices: 29569920--29569979 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
29569910 ACCTACCGTT
*
29569920 CCTTTAGAGTTTGCCGTACATACTATC
1 CCTTCAGAGTTTGCCGTACATACTATC
29569947 CCTTCAGAGTTTGCCGTACATACTATC
1 CCTTCAGAGTTTGCCGTACATACTATC
29569974 CCTTCA
1 CCTTCA
29569980 ATGTTCGTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (27 bp):
CCTTCAGAGTTTGCCGTACATACTATC
Found at i:29570199 original size:27 final size:27
Alignment explanation
Indices: 29570128--29570200 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
29570118 CCTCAGATCT
** * *
29570128 CCACAAAGGCTTCCACATCATAAATCG
1 CCACAAAGGCTTCCATTTTATAAATCA
** *
29570155 CCACAAAGAATTCCATTTTATAAATTA
1 CCACAAAGGCTTCCATTTTATAAATCA
*
29570182 CCACAAAGGCTTCTATTTT
1 CCACAAAGGCTTCCATTTT
29570201 TTTGGCGTGT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (27 bp):
CCACAAAGGCTTCCATTTTATAAATCA
Found at i:29575043 original size:12 final size:12
Alignment explanation
Indices: 29575026--29575090 Score: 57
Period size: 12 Copynumber: 5.4 Consensus size: 12
29575016 ATATTTTAAT
29575026 AATTTAATATTA
1 AATTTAATATTA
29575038 AATTTAAT-TTA
1 AATTTAATATTA
29575049 ATATTT-ATATTA
1 A-ATTTAATATTA
*
29575061 ATAGTATT-TTATT-
1 A-A-T-TTAATATTA
29575074 AATTTAATATTA
1 AATTTAATATTA
29575086 AATTT
1 AATTT
29575091 TATTTAATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
10 2 0.04
11 11 0.24
12 24 0.53
13 2 0.04
14 6 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
AATTTAATATTA
Found at i:29575047 original size:17 final size:17
Alignment explanation
Indices: 29575025--29575098 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 17
29575015 AATATTTTAA
29575025 TAATTTAATATTAAATT
1 TAATTTAATATTAAATT
*
29575042 TAATTTAATATT-TATAT
1 TAATTTAATATTAAAT-T
* **
29575059 TAA--TAGTATTTTA-T
1 TAATTTAATATTAAATT
29575073 TAATTTAATATTAAATT
1 TAATTTAATATTAAATT
*
29575090 TTATTTAAT
1 TAATTTAAT
29575099 GTTTATCTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
14 4 0.09
15 6 0.13
16 11 0.24
17 25 0.54
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (17 bp):
TAATTTAATATTAAATT
Found at i:29575063 original size:48 final size:48
Alignment explanation
Indices: 29575011--29575104 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
29575001 TTCAAAAAAA
29575011 TAATAATATTTTAATAATTTAATATTAAATTTAATTTAATATTTATAT
1 TAATAATATTTTAATAATTTAATATTAAATTTAATTTAATATTTATAT
* * * *
29575059 TAATAGTATTTTATTAATTTAATATTAAATTTTATTTAATGTTTAT
1 TAATAATATTTTAATAATTTAATATTAAATTTAATTTAATATTTAT
29575105 CTTGTAGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (48 bp):
TAATAATATTTTAATAATTTAATATTAAATTTAATTTAATATTTATAT
Found at i:29575212 original size:21 final size:22
Alignment explanation
Indices: 29575172--29575212 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
29575162 TTTATCTTGA
29575172 TAAAATTATATTAATTTAATAT
1 TAAAATTATATTAATTTAATAT
29575194 TAAAA-TA-ATTAAGTTTAAT
1 TAAAATTATATTAA-TTTAAT
29575213 CATAGTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TAAAATTATATTAATTTAATAT
Found at i:29575349 original size:23 final size:25
Alignment explanation
Indices: 29575302--29575350 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
29575292 AGTTGTAGAG
*
29575302 AGAAAATTCTCTAAAGAGATTATTTT
1 AGAAAATTCTCT-AAGAGATAATTTT
29575328 AGAAAATT-TCT-AGAGATAATTTT
1 AGAAAATTCTCTAAGAGATAATTTT
29575351 CTTATTTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
25 3 0.14
26 8 0.36
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (25 bp):
AGAAAATTCTCTAAGAGATAATTTT
Found at i:29579133 original size:322 final size:322
Alignment explanation
Indices: 29578535--29579183 Score: 1118
Period size: 322 Copynumber: 2.0 Consensus size: 322
29578525 GGCTAGAACT
* *
29578535 TTAGTTAGGCAAACCGTGCGGCCTTAGGTCATTCCTTTGCTTTAAATCTGCCTAAGTCATCCTAC
1 TTAGTTAGGCAAACCGTGCGGCCTTAGGCCATTCCTTTGCTTTAAATCCGCCTAAGTCATCCTAC
* * *
29578600 CTTTCGAAAGTGATAATTCTCAAGAGAGATTCTCTAATGCATCGAAGTAAAGCGTAAGATACTCG
66 CTTTCGAAAGTGAGAATTCTCAAGAGAGATTCTCCAATGCATCGAAGTAAAGCGGAAGATACTCG
*
29578665 AAAAGACAAATGGACTTGAATTGAACAACAAAGCCACAAAAAAACAATAGCACACCAAATGTTTG
131 AAAAGACAAATGGACTTGAATTGAACAACAAAGCCACAAAAAAACAATAACACACCAAATGTTTG
* *
29578730 AGTAAATGCTCTCAAAATTATTCTCTTACTTTGAATGGAATGCTTACAAATGAAGAGGGAGAACT
196 AGTAAATGCTCTCAAAAGTATTCTCTTAATTTGAATGGAATGCTTACAAATGAAGAGGGAGAACT
* *
29578795 CTATTTATAGTTGATCTCCCCCAGATCCAATGGTACATATTGAATTACATCAACAGCTAAGA
261 CTATTTATAATTGATCTCCCCCAGATCCAACGGTACATATTGAATTACATCAACAGCTAAGA
* * * *
29578857 TTAGTTTGGCAAACCGTGTGGCCTTAGGCCATTCCTTTGCTTTAAATCCGCCTAAGTTATCCTAT
1 TTAGTTAGGCAAACCGTGCGGCCTTAGGCCATTCCTTTGCTTTAAATCCGCCTAAGTCATCCTAC
*
29578922 CTTTCGAAAGTGAGAATTCTCAAGAGAGATTCTCCAATGCATCGAAGTAAAGCGGAATATACTCG
66 CTTTCGAAAGTGAGAATTCTCAAGAGAGATTCTCCAATGCATCGAAGTAAAGCGGAAGATACTCG
* *
29578987 AAAAGACAAATGGACTTGAATTGAACAATAAAGCCACAAGAAAACAATAACACACCAAATGTTTG
131 AAAAGACAAATGGACTTGAATTGAACAACAAAGCCACAAAAAAACAATAACACACCAAATGTTTG
29579052 AGTAAATGCTCTCAAAAGTATTCTCTTAATTTGAATGGAATGCTTACAAATGAAGAGGGAGAACT
196 AGTAAATGCTCTCAAAAGTATTCTCTTAATTTGAATGGAATGCTTACAAATGAAGAGGGAGAACT
* * *
29579117 CTATTTATAATTGATCTCCCCTAGATCCGACGGTACATATTGAATTATATCAACAGCTAAGA
261 CTATTTATAATTGATCTCCCCCAGATCCAACGGTACATATTGAATTACATCAACAGCTAAGA
29579179 TTAGT
1 TTAGT
29579184 GCCTATCTAC
Statistics
Matches: 307, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
322 307 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (322 bp):
TTAGTTAGGCAAACCGTGCGGCCTTAGGCCATTCCTTTGCTTTAAATCCGCCTAAGTCATCCTAC
CTTTCGAAAGTGAGAATTCTCAAGAGAGATTCTCCAATGCATCGAAGTAAAGCGGAAGATACTCG
AAAAGACAAATGGACTTGAATTGAACAACAAAGCCACAAAAAAACAATAACACACCAAATGTTTG
AGTAAATGCTCTCAAAAGTATTCTCTTAATTTGAATGGAATGCTTACAAATGAAGAGGGAGAACT
CTATTTATAATTGATCTCCCCCAGATCCAACGGTACATATTGAATTACATCAACAGCTAAGA
Found at i:29581192 original size:16 final size:17
Alignment explanation
Indices: 29581163--29581204 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
29581153 TATTTGTATA
29581163 TATTATATGCATATATG
1 TATTATATGCATATATG
*
29581180 TATT-TATGTATATATG
1 TATTATATGCATATATG
29581196 TATGTATAT
1 TAT-TATAT
29581205 AGTAAGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 14 0.64
17 5 0.23
18 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (17 bp):
TATTATATGCATATATG
Found at i:29581312 original size:27 final size:27
Alignment explanation
Indices: 29581260--29581321 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
29581250 GGAATACATA
* * *
29581260 ATGTATGTGTGTATATGTAATATATTT
1 ATGTATTTCTGTATATGTAATATATTC
*
29581287 ATGTATTTCTGTATATGTTAA-GTATTC
1 ATGTATTTCTGTATATG-TAATATATTC
*
29581314 ATGCATTT
1 ATGTATTT
29581322 TCCATGTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (27 bp):
ATGTATTTCTGTATATGTAATATATTC
Found at i:29589646 original size:46 final size:46
Alignment explanation
Indices: 29589575--29589736 Score: 249
Period size: 46 Copynumber: 3.6 Consensus size: 46
29589565 TACGTATGAT
* * *
29589575 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
*
29589619 CACTTATCATTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
*
29589665 CGCTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
*
29589711 CACTTATCACTTTGCCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
29589737 AGTACTCAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
44 9 0.08
45 13 0.12
46 86 0.80
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
Found at i:29609288 original size:2 final size:2
Alignment explanation
Indices: 29609268--29609333 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
29609258 CTTTTGATTA
* *
29609268 AT AT A- AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29609309 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
29609334 AATGGGTGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:29612106 original size:25 final size:25
Alignment explanation
Indices: 29612045--29612123 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
29612035 ATTCGAGAAT
29612045 GCTCATATGAGCACATA-AACGGGAA
1 GCTCATATGAGC-CATATAACGGGAA
* *
29612070 TCTC-TTTCGAGCCATATAACGGGAA
1 GCTCATAT-GAGCCATATAACGGGAA
* *
29612095 GCTCATATGAGCCATGTAGCGGGAA
1 GCTCATATGAGCCATATAACGGGAA
29612120 GCTC
1 GCTC
29612124 CGAAAAGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 6 0.13
25 37 0.82
26 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (25 bp):
GCTCATATGAGCCATATAACGGGAA
Found at i:29614314 original size:10 final size:10
Alignment explanation
Indices: 29614299--29614330 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
29614289 AAATCCTAAT
29614299 CCAAAATAAA
1 CCAAAATAAA
29614309 CCAAAATAAA
1 CCAAAATAAA
29614319 --AAAATAAA
1 CCAAAATAAA
29614327 CCAA
1 CCAA
29614331 CCCAAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (10 bp):
CCAAAATAAA
Found at i:29615666 original size:29 final size:30
Alignment explanation
Indices: 29615607--29615664 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
29615597 TCCGAGCCTT
*
29615607 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
29615637 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
29615665 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:29619400 original size:15 final size:14
Alignment explanation
Indices: 29619365--29619407 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
29619355 TTCCTGTAGC
*
29619365 GATTTTTAGGTTTA
1 GATTTTTAGTTTTA
*
29619379 GACTTTTAGTTTTA
1 GATTTTTAGTTTTA
*
29619393 GGATTTTTATTTTTA
1 -GATTTTTAGTTTTA
29619408 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.21, C:0.02, G:0.16, T:0.60
Consensus pattern (14 bp):
GATTTTTAGTTTTA
Found at i:29623477 original size:24 final size:22
Alignment explanation
Indices: 29623449--29623501 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 22
29623439 AAAAATACTA
29623449 AAAAAATT-AAAATAAATATTTCT
1 AAAAAATTAAAAATAAAT-TTT-T
29623472 GAAAAAATTAAAAATAAATTTTT
1 -AAAAAATTAAAAATAAATTTTT
29623495 AAAAAAT
1 AAAAAAT
29623502 ATGTATACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.25
23 1 0.04
24 11 0.39
25 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAAAATTAAAAATAAATTTTT
Found at i:29625286 original size:23 final size:23
Alignment explanation
Indices: 29625234--29625287 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
29625224 ATCGGAATTT
* *
29625234 AATTATAAATTTTTTATATATTA
1 AATTATAAATTTATTATATATGA
* *
29625257 AAATATAAATTTATTATGTATGA
1 AATTATAAATTTATTATATATGA
*
29625280 ATTTATAA
1 AATTATAA
29625288 TTTCATCATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
AATTATAAATTTATTATATATGA
Found at i:29628859 original size:33 final size:33
Alignment explanation
Indices: 29628817--29628916 Score: 137
Period size: 33 Copynumber: 3.0 Consensus size: 33
29628807 CAAACCTTCC
*
29628817 ACGGAAACCGCTGATTCCAAACCACCGGAGACG
1 ACGGAAACCGCTGATTCCAAACCACCGGCGACG
* *
29628850 ACGGAAACCGCTGGTTCCAAACCGCCGGCGACG
1 ACGGAAACCGCTGATTCCAAACCACCGGCGACG
* * * *
29628883 ACAGAAACCGCTGACTCCAAGCAACCGGCGACG
1 ACGGAAACCGCTGATTCCAAACCACCGGCGACG
29628916 A
1 A
29628917 AACCTTCGTC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.31, C:0.35, G:0.26, T:0.08
Consensus pattern (33 bp):
ACGGAAACCGCTGATTCCAAACCACCGGCGACG
Found at i:29628951 original size:42 final size:42
Alignment explanation
Indices: 29628898--29629055 Score: 217
Period size: 42 Copynumber: 3.8 Consensus size: 42
29628888 AACCGCTGAC
* *
29628898 TCCAAGCAACCGGCGACGAAACCTTCGTCGGAAACCCCGGAA
1 TCCAAACAACCGGCGACGAAACCTTCGACGGAAACCCCGGAA
*
29628940 TCCAAAAAACCGGCGACGAAACCTTCGACGGAAACCCCGGAA
1 TCCAAACAACCGGCGACGAAACCTTCGACGGAAACCCCGGAA
* ** *
29628982 TCCAAACCACCGGCGACGAAACCTTCGAAAGAAACCTCGGAA
1 TCCAAACAACCGGCGACGAAACCTTCGACGGAAACCCCGGAA
* * * *
29629024 TCTAAACAATCAGCGACGAAACCGTCGACGGA
1 TCCAAACAACCGGCGACGAAACCTTCGACGGA
29629056 CACAGCAGAA
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 101 1.00
ACGTcount: A:0.36, C:0.33, G:0.22, T:0.09
Consensus pattern (42 bp):
TCCAAACAACCGGCGACGAAACCTTCGACGGAAACCCCGGAA
Found at i:29630284 original size:15 final size:17
Alignment explanation
Indices: 29630247--29630286 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
29630237 GGTTTATGTA
29630247 ATTATTTTTTAAAGAAG
1 ATTATTTTTTAAAGAAG
*
29630264 A-CATTTTTT-AAG-AG
1 ATTATTTTTTAAAGAAG
29630278 ATTATTTTT
1 ATTATTTTT
29630287 CTTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
14 3 0.15
15 9 0.45
16 7 0.35
17 1 0.05
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (17 bp):
ATTATTTTTTAAAGAAG
Found at i:29646218 original size:20 final size:18
Alignment explanation
Indices: 29646171--29646219 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
29646161 CAAGATAAAC
29646171 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
29646188 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
29646208 ATTAAATTAATA
1 ATTAAATTAATA
29646220 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:29647913 original size:15 final size:15
Alignment explanation
Indices: 29647889--29647920 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29647879 TATGCATGCA
*
29647889 AAATATAAAAGACAT
1 AAATACAAAAGACAT
29647904 AAATACAAAAGACAT
1 AAATACAAAAGACAT
29647919 AA
1 AA
29647921 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:29652686 original size:26 final size:26
Alignment explanation
Indices: 29652657--29652726 Score: 61
Period size: 26 Copynumber: 2.7 Consensus size: 26
29652647 CTTGATATAT
29652657 GGCTCTTCATGAGCTTCCCAATTAAA
1 GGCTCTTCATGAGCTTCCCAATTAAA
* ** ** * *
29652683 GGCTGTTTGTGAGCTTCCTGATTTAT
1 GGCTCTTCATGAGCTTCCCAATTAAA
*
29652709 GGCTCTCCA-GAGCTTCCC
1 GGCTCTTCATGAGCTTCCC
29652727 GATATAACTC
Statistics
Matches: 32, Mismatches: 12, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
25 8 0.25
26 24 0.75
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.34
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCCAATTAAA
Found at i:29655684 original size:22 final size:24
Alignment explanation
Indices: 29655636--29655690 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
29655626 TTCATTTGTT
*
29655636 TAAA-AAATACATAAATTTTATAA
1 TAAATAAATACATAAATTATATAA
29655659 -AAATAAATACA-AAATTATA-AA
1 TAAATAAATACATAAATTATATAA
*
29655680 TAAATGAATAC
1 TAAATAAATAC
29655691 CCATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 19 0.68
23 7 0.25
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (24 bp):
TAAATAAATACATAAATTATATAA
Found at i:29657818 original size:24 final size:23
Alignment explanation
Indices: 29657751--29657819 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
29657741 CTAATAGTTG
*
29657751 ATTTTAACT-TTAATGTTTAATTTA
1 ATTTTAAATCTTAAT-TTTAA-TTA
* * * *
29657775 ATTTTAATTTTTTATCTTAATTA
1 ATTTTAAATCTTAATTTTAATTA
29657798 ATTATTAAATCTTAATTTTAAT
1 ATT-TTAAATCTTAATTTTAAT
29657820 ATTCAATTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 6 0.17
24 26 0.72
25 4 0.11
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (23 bp):
ATTTTAAATCTTAATTTTAATTA
Found at i:29667874 original size:2 final size:2
Alignment explanation
Indices: 29667867--29667892 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
29667857 CTGAATATTC
29667867 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
29667893 TCCTCCTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29674210 original size:30 final size:30
Alignment explanation
Indices: 29674162--29674325 Score: 90
Period size: 30 Copynumber: 5.4 Consensus size: 30
29674152 CAAAAAATAC
29674162 AAATTACATTTTAGCCCCTGA-ATTTTTCAA
1 AAATTACATTTTAGCCCCT-ATATTTTTCAA
*
29674192 AAATTACATTTT-GACCCCTATATTTTTTTCTA
1 AAATTACATTTTAG-CCCCTATA--TTTTTCAA
* * * *
29674224 AATTTACATCTTAACCCCTAATAATTTGT---
1 AAATTACATTTTAGCCCCT-AT-ATTTTTCAA
** **
29674253 AAATTACATTTGGGCCCCTA-AACTTTCTAA
1 AAATTACATTTTAGCCCCTATATTTTTC-AA
* * *
29674283 AAATTACATTTTGGCCCC-ATATTTTCCTA
1 AAATTACATTTTAGCCCCTATATTTTTCAA
*
29674312 AAATTGCACTTTTA
1 AAATTACA-TTTTA
29674326 CCCTAGAAAT
Statistics
Matches: 101, Mismatches: 20, Indels: 26
0.69 0.14 0.18
Matches are distributed among these distances:
26 3 0.03
28 1 0.01
29 25 0.25
30 43 0.43
32 26 0.26
33 2 0.02
34 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (30 bp):
AAATTACATTTTAGCCCCTATATTTTTCAA
Found at i:29674840 original size:8 final size:7
Alignment explanation
Indices: 29674821--29674874 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
29674811 AGGTCGAAGG
*
29674821 GAAGGAA
1 GAAGAAA
29674828 GAAGAAGA
1 GAAGAA-A
29674836 GAAGAAA
1 GAAGAAA
*
29674843 GAAGGAA
1 GAAGAAA
29674850 -AA-AAA
1 GAAGAAA
29674855 GAA-AAA
1 GAAGAAA
29674861 -AAGAAA
1 GAAGAAA
29674867 GAAGAAA
1 GAAGAAA
29674874 G
1 G
29674875 GGAAAGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.10
6 10 0.25
7 19 0.47
8 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
GAAGAAA
Found at i:29674844 original size:12 final size:12
Alignment explanation
Indices: 29674821--29674874 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 12
29674811 AGGTCGAAGG
29674821 GAAG-GAAG-AA
1 GAAGAGAAGAAA
29674831 GAAGAGAAGAAA
1 GAAGAGAAGAAA
29674843 GAAG-GAA-AAA
1 GAAGAGAAGAAA
*
29674853 -AAGA-AAAAAA
1 GAAGAGAAGAAA
29674863 GAA-AGAAGAAA
1 GAAGAGAAGAAA
29674874 G
1 G
29674875 GGAAAGAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
9 5 0.14
10 11 0.30
11 15 0.41
12 6 0.16
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (12 bp):
GAAGAGAAGAAA
Found at i:29674864 original size:24 final size:24
Alignment explanation
Indices: 29674837--29674888 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
29674827 AGAAGAAGAG
29674837 AAGAAAGAAGGAAA-AAAAGAAAAA
1 AAGAAAGAA-GAAAGAAAAGAAAAA
*
29674861 AAGAAAGAAGAAAGGGAAAGAAAAA
1 AAGAAAGAAGAAA-GAAAAGAAAAA
29674886 AAG
1 AAG
29674889 GGAAAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 4 0.16
24 9 0.36
25 12 0.48
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (24 bp):
AAGAAAGAAGAAAGAAAAGAAAAA
Found at i:29674881 original size:13 final size:14
Alignment explanation
Indices: 29674852--29674897 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
29674842 AGAAGGAAAA
29674852 AAAGAAAAAAA--G
1 AAAGAAAAAAAGGG
*
29674864 AAAG-AAGAAAGGG
1 AAAGAAAAAAAGGG
29674877 AAAGAAAAAAAGGG
1 AAAGAAAAAAAGGG
29674891 AAA-AAAA
1 AAAGAAAA
29674898 GAAAAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 5 0.17
12 4 0.14
13 9 0.31
14 11 0.38
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAGGG
Found at i:29674901 original size:8 final size:8
Alignment explanation
Indices: 29674837--29674909 Score: 58
Period size: 8 Copynumber: 8.6 Consensus size: 8
29674827 AGAAGAAGAG
*
29674837 AAGAAAGA
1 AAGAAAAA
*
29674845 AGGAAAAA
1 AAGAAAAA
29674853 AAGAAAAA
1 AAGAAAAA
*
29674861 AAG-AAAG
1 AAGAAAAA
*
29674868 AAGAAAGGGA
1 AAGAAA--AA
29674878 AAGAAAAA
1 AAGAAAAA
29674886 AAGGGAAAAA
1 AA--GAAAAA
29674896 AAGAAAAA
1 AAGAAAAA
29674904 ATAGAA
1 A-AGAA
29674910 TAGTCGGGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
7 6 0.12
8 28 0.54
9 4 0.08
10 14 0.27
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.01
Consensus pattern (8 bp):
AAGAAAAA
Found at i:29675076 original size:25 final size:23
Alignment explanation
Indices: 29675021--29675076 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
29675011 AACACAACTC
* *
29675021 AAGCAGTCCAAAGCAAAAAAAAG
1 AAGCAGGCAAAAGCAAAAAAAAG
*
29675044 AAGAAGGCAAAAGCAAAAAAAAAGG
1 AAGCAGGCAAAAGC-AAAAAAAA-G
29675069 AAGCAGGC
1 AAGCAGGC
29675077 CAACAGCAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 11 0.41
24 8 0.30
25 8 0.30
ACGTcount: A:0.61, C:0.14, G:0.23, T:0.02
Consensus pattern (23 bp):
AAGCAGGCAAAAGCAAAAAAAAG
Found at i:29675198 original size:7 final size:7
Alignment explanation
Indices: 29675186--29675238 Score: 65
Period size: 7 Copynumber: 7.7 Consensus size: 7
29675176 CCGCCCAGCC
29675186 AAAAAAG
1 AAAAAAG
29675193 AAAAAAG
1 AAAAAAG
29675200 AGAAAAA-
1 A-AAAAAG
*
29675207 AAGAAA-
1 AAAAAAG
29675213 AAAAAAG
1 AAAAAAG
29675220 AAAAAAG
1 AAAAAAG
*
29675227 AAGAAAG
1 AAAAAAG
29675234 AAAAA
1 AAAAA
29675239 GGGCCCAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
6 9 0.22
7 26 0.65
8 5 0.12
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:29675208 original size:10 final size:9
Alignment explanation
Indices: 29675186--29675239 Score: 65
Period size: 10 Copynumber: 5.8 Consensus size: 9
29675176 CCGCCCAGCC
29675186 AAAAAAGAA
1 AAAAAAGAA
*
29675195 AAAAGAG-A
1 AAAAAAGAA
29675203 AAAAAAGAAA
1 AAAAAAG-AA
29675213 AAAAAAGAA
1 AAAAAAGAA
29675222 AAAAGAAGAA
1 AAAA-AAGAA
29675232 AGAAAAAG
1 A-AAAAAG
29675240 GGCCCAAGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 7 0.18
9 12 0.31
10 17 0.44
11 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:29675208 original size:17 final size:16
Alignment explanation
Indices: 29675186--29675238 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
29675176 CCGCCCAGCC
29675186 AAAAAAGAAAAAAGAGA
1 AAAAAAGAAAAAAGA-A
*
29675203 AAAAAAGAAAAAAAAA
1 AAAAAAGAAAAAAGAA
*
29675219 GAAAAAAGAAGAAAGAA
1 -AAAAAAGAAAAAAGAA
29675236 AAA
1 AAA
29675239 GGGCCCAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 4 0.12
17 28 0.88
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAA
Found at i:29675586 original size:19 final size:18
Alignment explanation
Indices: 29675556--29675591 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
29675546 AAATATTCAC
29675556 AAATTTTCGTGTGTTAAA
1 AAATTTTCGTGTGTTAAA
*
29675574 AAATTTCTCGTGTTTTAA
1 AAATTT-TCGTGTGTTAA
29675592 TATAATCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (18 bp):
AAATTTTCGTGTGTTAAA
Found at i:29675822 original size:17 final size:16
Alignment explanation
Indices: 29675796--29676061 Score: 176
Period size: 17 Copynumber: 15.3 Consensus size: 16
29675786 TTTCTTTTAA
*
29675796 AAAAAATTCGTGTTTC
1 AAAAATTTCGTGTTTC
29675812 AAAAATCTTCGTGTTTTC
1 AAAAAT-TTCGTG-TTTC
29675830 AAAAATTTCTGTGTTTC
1 AAAAATTTC-GTGTTTC
29675847 AAAAATCTTCGTGTTTTC
1 AAAAAT-TTCGTG-TTTC
*
29675865 -AAAATTTCCGATGTTTT
1 AAAAATTT-CG-TGTTTC
29675882 AAAAATTTTCGTGTTTTC
1 AAAAA-TTTCGTG-TTTC
* *
29675900 AAAAAATTCCTGTCTTTC
1 -AAAAATTTC-GTGTTTC
29675918 AAAAATTTCGTTGTTTTC
1 AAAAATTTCG-TG-TTTC
29675936 AAAAATTTTCGTGTTTTC
1 AAAAA-TTTCGTG-TTTC
* * *
29675954 AACAATTCCCATGTTTC
1 AAAAATT-TCGTGTTTC
*
29675971 ACAAATTTCCGTGTTTTC
1 AAAAATTT-CGTG-TTTC
* *
29675989 AAAAATTTTCGTATTTT
1 AAAAA-TTTCGTGTTTC
*
29676006 AAAAATTT-TTGTGTTC
1 AAAAATTTCGTGT-TTC
* * *
29676022 TTAAAATGCTCGTATTTC
1 -AAAAAT-TTCGTGTTTC
*
29676040 AAAAGTTTTCGTGTTTC
1 AAAA-ATTTCGTGTTTC
29676057 AAAAA
1 AAAAA
29676062 AAATTCTCAT
Statistics
Matches: 197, Mismatches: 29, Indels: 48
0.72 0.11 0.18
Matches are distributed among these distances:
15 2 0.01
16 13 0.07
17 85 0.43
18 77 0.39
19 20 0.10
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (16 bp):
AAAAATTTCGTGTTTC
Found at i:29675829 original size:18 final size:17
Alignment explanation
Indices: 29675796--29676013 Score: 214
Period size: 18 Copynumber: 12.5 Consensus size: 17
29675786 TTTCTTTTAA
*
29675796 AAAAAATTCGTG-TTTC
1 AAAAATTTCGTGTTTTC
29675812 AAAAATCTTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
29675830 AAAAATTTC-TGTGTTTC
1 AAAAATTTCGTGT-TTTC
29675847 AAAAATCTTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
29675865 -AAAATTTCCGATGTTTT-
1 AAAAATTT-CG-TGTTTTC
29675882 AAAAATTTTCGTGTTTTC
1 AAAAA-TTTCGTGTTTTC
* *
29675900 AAAAAATTCCTGTCTTTC
1 AAAAATTTCGTGT-TTTC
29675918 AAAAATTTCGTTGTTTTC
1 AAAAATTTCG-TGTTTTC
29675936 AAAAATTTTCGTGTTTTC
1 AAAAA-TTTCGTGTTTTC
* * *
29675954 AACAATTCCCATG-TTTC
1 AAAAATT-TCGTGTTTTC
*
29675971 ACAAATTTCCGTGTTTTC
1 AAAAATTT-CGTGTTTTC
*
29675989 AAAAATTTTCGTATTTT-
1 AAAAA-TTTCGTGTTTTC
29676006 AAAAATTT
1 AAAAATTT
29676014 TTGTGTTCTT
Statistics
Matches: 171, Mismatches: 14, Indels: 34
0.78 0.06 0.16
Matches are distributed among these distances:
16 13 0.08
17 57 0.33
18 84 0.49
19 17 0.10
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.45
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:29675844 original size:35 final size:35
Alignment explanation
Indices: 29675796--29676061 Score: 212
Period size: 35 Copynumber: 7.6 Consensus size: 35
29675786 TTTCTTTTAA
*
29675796 AAAAAATTC-GTGTTTCAAAAATCTTCGTGTTTTC
1 AAAAATTTCTGTGTTTCAAAAATCTTCGTGTTTTC
29675830 AAAAATTTCTGTGTTTCAAAAATCTTCGTGTTTTC
1 AAAAATTTCTGTGTTTCAAAAATCTTCGTGTTTTC
* * *
29675865 -AAAATTTCCGATGTTTTAAAAATTTTCGTGTTTTC
1 AAAAATTTCTG-TGTTTCAAAAATCTTCGTGTTTTC
* *
29675900 AAAAAATTCCTGTCTTTCAAAAAT-TTCGTTGTTTTC
1 -AAAAATTTCTGTGTTTCAAAAATCTTCG-TGTTTTC
* * *
29675936 AAAAATTT-TCGTGTTTTCAACAAT-TCCCATG-TTTC
1 AAAAATTTCT-GTG-TTTCAAAAATCT-TCGTGTTTTC
* * * *
29675971 ACAAATTTCCGTGTTTTCAAAAATTTTCGTATTTT-
1 AAAAATTTCTGTG-TTTCAAAAATCTTCGTGTTTTC
* * *
29676006 AAAAATTTTTGTG-TTCTTAAAATGC-TCGT-ATTTC
1 AAAAATTTCTGTGTTTC-AAAAAT-CTTCGTGTTTTC
*
29676040 AAAAGTTT-TCGTGTTTCAAAAA
1 AAAAATTTCT-GTGTTTCAAAAA
29676062 AAATTCTCAT
Statistics
Matches: 189, Mismatches: 27, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
33 7 0.04
34 41 0.22
35 99 0.52
36 33 0.17
37 9 0.05
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (35 bp):
AAAAATTTCTGTGTTTCAAAAATCTTCGTGTTTTC
Found at i:29675880 original size:53 final size:51
Alignment explanation
Indices: 29675796--29676061 Score: 233
Period size: 53 Copynumber: 5.1 Consensus size: 51
29675786 TTTCTTTTAA
*
29675796 AAAAAATTCGTGTTTCAAAAATCTTCGTGTTTTCAAAAA-TTTC-TGTGTTTC
1 AAAAATTTCGTGTTTCAAAAAT-TTCGTGTTTTCAAAAATTTTCGTGT-TTTC
29675847 AAAAATCTTCGTGTTTTC-AAAATTTCCGATGTTTT-AAAAATTTTCGTGTTTTC
1 AAAAAT-TTCGTG-TTTCAAAAATTT-CG-TGTTTTCAAAAATTTTCGTGTTTTC
* *
29675900 AAAAAATTCCTGTCTTTCAAAAATTTCGTTGTTTTCAAAAATTTTCGTGTTTTC
1 -AAAAATTTC-GTGTTTCAAAAATTTCG-TGTTTTCAAAAATTTTCGTGTTTTC
* * * * *
29675954 AACAATTCCCATGTTTCACAAATTTCCGTGTTTTCAAAAATTTTCGTATTTT-
1 AAAAATT-TCGTGTTTCAAAAATTT-CGTGTTTTCAAAAATTTTCGTGTTTTC
* * * * *
29676006 AAAAATTT-TTGTGTTCTTAAAATGCTCGT-ATTTCAAAAGTTTTCGTG-TTTC
1 AAAAATTTCGTGT-TTC-AAAAAT-TTCGTGTTTTCAAAAATTTTCGTGTTTTC
29676057 AAAAA
1 AAAAA
29676062 AAATTCTCAT
Statistics
Matches: 181, Mismatches: 18, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
50 6 0.03
51 30 0.17
52 31 0.17
53 74 0.41
54 40 0.22
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (51 bp):
AAAAATTTCGTGTTTCAAAAATTTCGTGTTTTCAAAAATTTTCGTGTTTTC
Found at i:29688038 original size:75 final size:75
Alignment explanation
Indices: 29687802--29688486 Score: 754
Period size: 75 Copynumber: 9.0 Consensus size: 75
29687792 TGTTTTTTTT
* * **
29687802 AAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTGGGCACATGCCAAGGTATTTCTCAATTTC
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC-CATGCTGAGGTATTT-TCAATTTC
*
29687867 TGTTTTTCAAAAAA
64 TATTTTTC--AAAA
* * * *
29687881 AAATTTAACTCATAATGCGAGAGGTGGGTTGAGCCTCGAGTCACATCCTGAGGTATTTTCAATTT
1 AAA-TCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG-GGC-CATGCTGAGGTATTTTCAATTT
29687946 CTATTTTTC--AA
63 CTATTTTTCAAAA
* *
29687957 AAATCAACTCATAATGCGAGAAGTGAGTTAAGCCTCGGGCCATGCTGAGGTATTTTCAATTTCTA
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCTGAGGTATTTTCAATTTCTA
*
29688022 CTTTTCAAAA
66 TTTTTCAAAA
* * * * *
29688032 ATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCTGAGGTATTTTCAATTTCTA
29688097 TTTTTCAAAA
66 TTTTTCAAAA
* ** * * *
29688107 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGTCACATGTTGAGGTATATTTTAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGGC-CATGCTGAGGTAT-TTTCAATTT
*
29688172 CTA-TTTTC-CAA
63 CTATTTTTCAAAA
** * * * *
29688183 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTTACGCTGAGGTATTTTTAATTCCTG
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCTGAGGTATTTTCAATTTCTA
*
29688248 TTTTCCAAAAA
66 TTTTTC-AAAA
** * *
29688259 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTTACGCTGAGGTATTTTTAATTTCT-
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCTGAGGTATTTTCAATTTCTA
29688323 TGTTTTCCAAAA
66 T-TTTT-CAAAA
* * * *
29688335 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCTATACGCCGAGGCATTTTTAATTTC
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCAT--GCTGAGGTATTTTCAATTTC
*
29688400 TGTTTTTC--AA
64 TATTTTTCAAAA
* * * * *
29688410 AAATCAACTCATATTGCGAGATGTGAGTTGAGCCTAGGGTCATATGCCGAGGTATTTTTCAATTT
1 AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-C-CATGCTGAGGTA-TTTTCAATTT
29688475 CTATTTTTCAAA
63 CTATTTTTCAAA
29688487 GGTCAACTCA
Statistics
Matches: 528, Mismatches: 58, Indels: 41
0.84 0.09 0.07
Matches are distributed among these distances:
73 39 0.07
74 16 0.03
75 181 0.34
76 173 0.33
77 21 0.04
78 34 0.06
79 4 0.01
80 45 0.09
81 15 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (75 bp):
AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCATGCTGAGGTATTTTCAATTTCTA
TTTTTCAAAA
Done.