Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_pilon, whole genome shotgun sequence
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: 3477501
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 18
Found at i:2736870 original size:21 final size:21
Alignment explanation
Indices: 2736838--2736894 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2736828 ACAATAAAAC
2736838 AAATAAAT-AAATAAATA-AT
1 AAATAAATAAAATAAATATAT
2736857 AAATGAAATAAAATAAATATAT
1 AAAT-AAATAAAATAAATATAT
* *
2736879 ATATAAATAAATTAAA
1 AAATAAATAAAATAAA
2736895 AACCTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 20 0.61
22 5 0.15
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AAATAAATAAAATAAATATAT
Found at i:2736890 original size:25 final size:25
Alignment explanation
Indices: 2736838--2736895 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
2736828 ACAATAAAAC
2736838 AAAT-AAATAAATAAATAATAAATG
1 AAATAAAATAAATAAATAATAAATG
*
2736862 AAATAAAATAAATATATATATAAAT-
1 AAATAAAATAAATAAATA-ATAAATG
2736887 AAATTAAAA
1 AAA-TAAAA
2736896 ACCTTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 15 0.50
26 11 0.37
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (25 bp):
AAATAAAATAAATAAATAATAAATG
Found at i:2737032 original size:39 final size:37
Alignment explanation
Indices: 2736905--2737038 Score: 207
Period size: 37 Copynumber: 3.6 Consensus size: 37
2736895 AACCTTTTAT
* * * *
2736905 AAAACTATACAATATAT-GTTTTAAAAAATAGTTTTC
1 AAAACTATATAATATATATTTTTAAAAACTAATTTTC
*
2736941 AAAACCATATAATATATATTTTTAAAAACTAATTTTC
1 AAAACTATATAATATATATTTTTAAAAACTAATTTTC
2736978 AAAACTATATAATATATATTTTTAAAAACTAATTTTC
1 AAAACTATATAATATATATTTTTAAAAACTAATTTTC
2737015 AAAACTATATAATATATATGTTTT
1 AAAACTATATAATATATAT-TTTT
2737039 TCAAAAATGT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 15 0.17
37 71 0.79
38 4 0.04
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (37 bp):
AAAACTATATAATATATATTTTTAAAAACTAATTTTC
Found at i:2737063 original size:39 final size:38
Alignment explanation
Indices: 2736916--2737072 Score: 194
Period size: 37 Copynumber: 4.2 Consensus size: 38
2736906 AAACTATACA
* * * *
2736916 ATATATGTTTTAAAAAATAGTTTTCAAAACCATATAAT
1 ATATATTTTTTAAAAACTAATTTTCAAAACTATATAAT
2736954 ATATA-TTTTTAAAAACTAATTTTCAAAACTATATAAT
1 ATATATTTTTTAAAAACTAATTTTCAAAACTATATAAT
2736991 ATATA-TTTTTAAAAACTAATTTTCAAAACTATATAAT
1 ATATATTTTTTAAAAACTAATTTTCAAAACTATATAAT
** * * *
2737028 ATATATGTTTTTCAAAAA-TGTTTTTAAAAATTATATATT
1 ATATAT-TTTTT-AAAAACTAATTTTCAAAACTATATAAT
2737067 ATATAT
1 ATATAT
2737073 ATATTTTTTT
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
37 70 0.65
38 5 0.05
39 27 0.25
40 5 0.05
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (38 bp):
ATATATTTTTTAAAAACTAATTTTCAAAACTATATAAT
Found at i:2738275 original size:17 final size:17
Alignment explanation
Indices: 2738255--2738313 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
2738245 TCTTATTTCA
*
2738255 TTTCTTTTGAACTCAAT
1 TTTCTTTTGAATTCAAT
*
2738272 TTTC-TTT-CATTCAGTACT
1 TTTCTTTTGAATTCA--A-T
2738290 TTTCTTTTGAATTCAAT
1 TTTCTTTTGAATTCAAT
2738307 TTTCTTT
1 TTTCTTT
2738314 CATTCCATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 4 0.12
16 3 0.09
17 13 0.38
18 6 0.18
19 3 0.09
20 5 0.15
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTCTTTTGAATTCAAT
Found at i:2741889 original size:43 final size:43
Alignment explanation
Indices: 2741805--2741890 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
2741795 AAAAATATTT
* * *
2741805 TGTTTAGGGTGAAAACCCGAAAGGGAACCCTAAGTTGAAAAAA
1 TGTTTAGGGTGAAAACCCCAAAGGGAACCCTAAATTAAAAAAA
*** *
2741848 TGTTTAGGGTGAAAACCCCAAAGGGCGTCTTAAATTAAAAAAA
1 TGTTTAGGGTGAAAACCCCAAAGGGAACCCTAAATTAAAAAAA
2741891 AGATGCATCC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (43 bp):
TGTTTAGGGTGAAAACCCCAAAGGGAACCCTAAATTAAAAAAA
Found at i:2743453 original size:37 final size:37
Alignment explanation
Indices: 2743376--2743806 Score: 375
Period size: 37 Copynumber: 12.3 Consensus size: 37
2743366 AATAATATAC
* * *
2743376 ATATATAATATATAATTTTT-TAAATGTTTTGAAAACAT
1 ATATATAATATATAGTTTTTGAAAATATTTTG-AAA-AT
2743414 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
* *
2743451 ATATAT-ATA-ATA-----TG-TAGT-TTTTGAAAAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
* *
2743479 ATATATAATATATAATTTTTGAAAACATTTTGAAAAAAT
1 ATATATAATATATAGTTTTTGAAAATATTTTG--AAAAT
* * * *
2743518 ATATATAGTAAATAGGTTTTGAAAACATTTTGAAAA-
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
* * *
2743554 A-ATAT-ATATA-A---TAT-ATAGT-TTTTGAAAAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
* *
2743583 ATATATAATATATAGTTTTTGAAAACATTTTAAAAGCAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAA--AT
*
2743622 ATATATAATATATAGTTTTTGAAAATATTTTGAATAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
2743659 ATATATAATATATA------G----T-TTTTGAAAAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
*
2743685 ATATATAATATATAGATTTTGAAAATATTTTGAAAAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
**
2743722 ATATATAATATATAGTTTTCAAAAATATTTTGAAAAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
* * *
2743759 ATATATAATATATAATTTTTG-AAACATTTTGAAAAA
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
*
2743795 ATATATTATATA
1 ATATATAATATA
2743807 AAATATTTAT
Statistics
Matches: 323, Mismatches: 36, Indels: 70
0.75 0.08 0.16
Matches are distributed among these distances:
26 23 0.07
27 1 0.00
28 25 0.08
29 8 0.02
30 11 0.03
31 6 0.02
32 2 0.01
33 1 0.00
34 3 0.01
35 11 0.03
36 32 0.10
37 102 0.32
38 22 0.07
39 76 0.24
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (37 bp):
ATATATAATATATAGTTTTTGAAAATATTTTGAAAAT
Found at i:2743456 original size:39 final size:39
Alignment explanation
Indices: 2743376--2743686 Score: 277
Period size: 39 Copynumber: 8.7 Consensus size: 39
2743366 AATAATATAC
* * * *
2743376 ATATATAATATATAATTTTT-TAAATGTTTTGAAAACAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
2743414 ATATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
*
2743453 ATATATAATATGTAGTTTTTG-AAA-A---T----ATAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
* *
2743483 ATA-AT-ATATA-A-TTTTTGAAAACATTTTGAAAAAAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
* * * * *
2743518 ATATATAGTAAATAGGTTTTGAAAACATTTTGAAAAAAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
2743557 ATATATAATATATAGTTTTTG-AAA-A---T----ATAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
* *
2743587 ATA-AT-ATAT--AGTTTTTGAAAACATTTT-AAAAGCAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAA-TAT
2743622 ATATATAATATATAGTTTTTGAAAATATTTTG--AATAT
1 ATATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
2743659 ATATATAATATATAGTTTTTGAAAATAT
1 ATATATAATATATAGTTTTTGAAAATAT
2743687 ATATAATATA
Statistics
Matches: 228, Mismatches: 17, Indels: 57
0.75 0.06 0.19
Matches are distributed among these distances:
26 14 0.06
27 7 0.03
28 10 0.04
29 4 0.02
30 13 0.06
31 2 0.01
34 3 0.01
35 11 0.05
36 4 0.02
37 39 0.17
38 28 0.12
39 93 0.41
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (39 bp):
ATATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
Found at i:2743487 original size:26 final size:26
Alignment explanation
Indices: 2743441--2743712 Score: 111
Period size: 26 Copynumber: 10.5 Consensus size: 26
2743431 TTTGAAAATA
* *
2743441 TTTTGAAAATATATATATAATATGTAGT
1 TTTTG-AAA-ATATATATAATATATAAT
2743469 TTTTGAAAATATATATAATATATAAT
1 TTTTGAAAATATATATAATATATAAT
* * * *
2743495 TTTTGAAAACAT-TTTGAAAAAAT-AT
1 TTTTGAAAATATATAT-AATATATAAT
* * * * *
2743520 ATATAGTAAATAGGT-TTTGAA-A-A-CAT
1 -TTTTGAAAATA--TATAT-AATATATAAT
*
2743546 T-TTGAAAAAATATATATAATATATAGT
1 TTTTGA-AAA-TATATATAATATATAAT
*
2743573 TTTTGAAAATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATAAT
* * **
2743599 TTTTGAAAACAT-TTTAA-A-AGCAT
1 TTTTGAAAATATATATAATATATAAT
* * * * * *
2743622 ATAT-ATAATATATAGT-TTTTGAAAAT
1 TTTTGAAAATATATA-TAATAT-ATAAT
* *
2743648 ATTTTGAATATATATATAATATATAGT
1 -TTTTGAAAATATATATAATATATAAT
2743675 TTTTGAAAATATATATAATATATAGA-
1 TTTTGAAAATATATATAATATATA-AT
2743701 TTTTGAAAATAT
1 TTTTGAAAATAT
2743713 TTTGAAAATA
Statistics
Matches: 184, Mismatches: 39, Indels: 44
0.69 0.15 0.16
Matches are distributed among these distances:
22 5 0.03
23 5 0.03
24 7 0.04
25 15 0.08
26 111 0.60
27 15 0.08
28 26 0.14
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.43
Consensus pattern (26 bp):
TTTTGAAAATATATATAATATATAAT
Found at i:2743492 original size:65 final size:64
Alignment explanation
Indices: 2743402--2743800 Score: 263
Period size: 65 Copynumber: 5.8 Consensus size: 64
2743392 TTTTTAAATG
*
2743402 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATATTTTGAAAATATATATATAATATGTA
1 TTTTG-AAA-ATATATATAATATATA-TTTTTGAAAATATTTTGAAAATATATATATAATATATA
2743467 GT
63 GT
* * * * *
2743469 TTTTGAAAATATATATAATATATAATTTTTGAAAACATTTTGAAAAAATATATATAGTAAATAGG
1 TTTTGAAAATATATATAATATAT-ATTTTTGAAAATATTTTGAAAATATATATATAATATATAGT
* * * * * *
2743534 TTTTGAAAACAT-TTTGAAAAAATATATAT-AATATATAGTTTTTG-AAA-ATATATATAATATA
1 TTTTGAAAATATATAT-AATATATATTTTTGAA-A-ATA--TTTTGAAAATATATATATAATATA
2743595 TAGT
61 TAGT
* * *
2743599 TTTTGAAAACATTTTAAAAGCATATATATAATATATAGTTTTTGAAAATATTTTG--AATATATA
1 TTTTG-AAA-A---T---A-TATATA-AT-ATATAT-TTTTG--AAAATATTTTGAAAATATATA
2743662 TATAATATATAGT
52 TATAATATATAGT
*
2743675 TTTTGAAAATATATATAATATATAGATTTTGAAAATATTTTGAAAATATATATAATATATAGTTT
1 TTTTGAAAATATATATAATATATA-TTTTTGAAAATATTTTGAAAATATATAT-ATA-ATA----
* *
2743740 TCAAAAAT
59 T--ATAGT
* *
2743748 ATTTTGAAAATATATATAATATATAATTTTTG-AAACATTTTGAAAAAATATAT
1 -TTTTGAAAATATATATAATATAT-ATTTTTGAAAATATTTTGAAAATATATAT
2743801 TATATAAAAT
Statistics
Matches: 264, Mismatches: 32, Indels: 66
0.73 0.09 0.18
Matches are distributed among these distances:
63 13 0.05
64 7 0.03
65 104 0.39
66 15 0.06
67 19 0.07
68 1 0.00
71 2 0.01
73 23 0.09
74 30 0.11
75 9 0.03
76 33 0.12
77 2 0.01
78 3 0.01
79 1 0.00
80 2 0.01
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (64 bp):
TTTTGAAAATATATATAATATATATTTTTGAAAATATTTTGAAAATATATATATAATATATAGT
Found at i:2743577 original size:28 final size:28
Alignment explanation
Indices: 2743545--2743607 Score: 112
Period size: 26 Copynumber: 2.3 Consensus size: 28
2743535 TTTGAAAACA
2743545 TTTTGAAAAAATATATATAATATATAGT
1 TTTTGAAAAAATATATATAATATATAGT
2743573 TTTTG--AAAATATATATAATATATAGT
1 TTTTGAAAAAATATATATAATATATAGT
2743599 TTTTGAAAA
1 TTTTGAAAA
2743608 CATTTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 26 0.79
28 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (28 bp):
TTTTGAAAAAATATATATAATATATAGT
Found at i:2743687 original size:63 final size:62
Alignment explanation
Indices: 2743552--2743749 Score: 183
Period size: 63 Copynumber: 3.1 Consensus size: 62
2743542 ACATTTTGAA
* ** * **
2743552 AAAATATATATAATATATAGTTTTTGAAAATATATAT-AATATATAGT-TTTTGA-AAACATTTT
1 AAAATATATATAATATATAGTTTTTGAAAATAT-TTTGAATATATA-TATAAT-ATATAGTTTTT
*
2743614 AAAAGCATATAT-ATAATATA-TAGTTTTTGAAAATATTTTGAATATATATATAATATATAGTTT
1 AAAA-TATATATAAT-ATATAGT--TTTT-GAAAATATTTTGAATATATATATAATATATAGTTT
2743677 TT
61 TT
* * *
2743679 GAAAATATATATAATATATAGATTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTC
1 -AAAATATATATAATATATAGTTTTTGAAAATATTTTGAATATATATATAATATATAGTTTTT
2743742 AAAA-ATAT
1 AAAATATAT
2743750 TTTGAAAATA
Statistics
Matches: 114, Mismatches: 11, Indels: 23
0.77 0.07 0.16
Matches are distributed among these distances:
61 4 0.04
62 11 0.10
63 46 0.40
64 12 0.11
65 35 0.31
66 6 0.05
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (62 bp):
AAAATATATATAATATATAGTTTTTGAAAATATTTTGAATATATATATAATATATAGTTTTT
Found at i:2743714 original size:11 final size:11
Alignment explanation
Indices: 2743700--2743760 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
2743690 TAATATATAG
2743700 ATTTTGAAAAT
1 ATTTTGAAAAT
2743711 ATTTTGAAAAT
1 ATTTTGAAAAT
*
2743722 ATATAT-AATATAT
1 AT-TTTGAA-A-AT
*
2743735 AGTTTTCAAAAAT
1 A-TTTT-GAAAAT
2743748 ATTTTGAAAAT
1 ATTTTGAAAAT
2743759 AT
1 AT
2743761 ATATAATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
11 22 0.54
12 7 0.17
13 8 0.20
14 2 0.05
15 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (11 bp):
ATTTTGAAAAT
Found at i:2743761 original size:63 final size:63
Alignment explanation
Indices: 2743620--2743749 Score: 206
Period size: 63 Copynumber: 2.1 Consensus size: 63
2743610 TTTTAAAAGC
* * * **
2743620 ATATATATAATATATAGTTTTTGAAAATATTTTGAATATATATATAATATATAGTTTTTGAAA
1 ATATATATAAAATATAGATTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTCAAAA
*
2743683 ATATATATAATATATAGATTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTCAAAA
1 ATATATATAAAATATAGATTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTCAAAA
2743746 ATAT
1 ATAT
2743750 TTTGAAAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.45
Consensus pattern (63 bp):
ATATATATAAAATATAGATTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTCAAAA
Found at i:2743836 original size:21 final size:19
Alignment explanation
Indices: 2743810--2743867 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
2743800 TTATATAAAA
2743810 TATTTATGTATTATATTTTAT
1 TATTTAT-TATT-TATTTTAT
*
2743831 TATTTATTATTTATTTTCT
1 TATTTATTATTTATTTTAT
2743850 T-TTTATTTTATTTATTTT
1 TATTTA--TTATTTATTTT
2743868 TGTTATTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.12
19 8 0.24
20 15 0.44
21 7 0.21
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
TATTTATTATTTATTTTAT
Found at i:2743867 original size:15 final size:15
Alignment explanation
Indices: 2743823--2743868 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2743813 TTATGTATTA
2743823 TATTTTA-TTATTTAT
1 TATTTTATTTATTT-T
*
2743838 TA-TTTATTTTCTTTT
1 TATTTTA-TTTATTTT
2743853 TATTTTATTTATTTT
1 TATTTTATTTATTTT
2743868 T
1 T
2743869 GTTATTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.15
15 13 0.50
16 9 0.35
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTTTATTTATTTT
Found at i:2758036 original size:35 final size:36
Alignment explanation
Indices: 2757950--2758161 Score: 295
Period size: 35 Copynumber: 5.9 Consensus size: 36
2757940 TTCTCAAGTC
2757950 AATCAAGCCTTCACAAAAGAGTAGTGAAGCAATGCA
1 AATCAAGCCTTCACAAAAGAGTAGTGAAGCAATGCA
*
2757986 AATCAAGCCTTCACAAAAGAGTAGTGAAACAATGCA
1 AATCAAGCCTTCACAAAAGAGTAGTGAAGCAATGCA
2758022 AAT-AAGCCTTCACAAAAGAGTAGTGAAGCAATGCA
1 AATCAAGCCTTCACAAAAGAGTAGTGAAGCAATGCA
* *
2758057 AAT-AAGCCTTCACAAAAGAGTAGTAAAGCGATGCA
1 AATCAAGCCTTCACAAAAGAGTAGTGAAGCAATGCA
* * *
2758092 CATCCAGCCTTCACAAAAAGAGTAGTGAAGCAATGAA
1 AATCAAGCCTTCAC-AAAAGAGTAGTGAAGCAATGCA
* * *
2758129 AATTC-AGTCTTCAGAAAAATAGTAGTGAAGCAA
1 AA-TCAAGCCTTCA-CAAAAGAGTAGTGAAGCAA
2758162 GATCATATCA
Statistics
Matches: 159, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
35 66 0.42
36 47 0.30
37 44 0.28
38 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (36 bp):
AATCAAGCCTTCACAAAAGAGTAGTGAAGCAATGCA
Found at i:2758101 original size:71 final size:71
Alignment explanation
Indices: 2757954--2758157 Score: 279
Period size: 71 Copynumber: 2.8 Consensus size: 71
2757944 CAAGTCAATC
2757954 AAGCCTTCACAAAAGAGTAGTGAAGCAATGCAAATCAAGCCTTCACAAAAGAGTAGTGAAACAAT
1 AAGCCTTCACAAAAGAGTAGTGAAGCAATGCAAATCAAGCCTTCACAAAAGAGTAGTGAAACAAT
2758019 GCAAAT
66 GCAAAT
*
2758025 AAGCCTTCACAAAAGAGTAGTGAAGCAATGCAAAT-AAGCCTTCACAAAAGAGTAGT-AAAGCGA
1 AAGCCTTCACAAAAGAGTAGTGAAGCAATGCAAATCAAGCCTTCACAAAAGAGTAGTGAAA-CAA
*
2758088 TGCACAT
65 TGCAAAT
* * * * *
2758095 CCAGCCTTCACAAAAAGAGTAGTGAAGCAATGAAAATTC-AGTCTTCAGAAAAATAGTAGTGAA
1 -AAGCCTTCAC-AAAAGAGTAGTGAAGCAATGCAAA-TCAAGCCTTCA-CAAAAGAGTAGTGAA
2758158 GCAAGATCAT
Statistics
Matches: 119, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
69 3 0.03
70 29 0.24
71 44 0.37
72 23 0.19
73 8 0.07
74 10 0.08
75 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (71 bp):
AAGCCTTCACAAAAGAGTAGTGAAGCAATGCAAATCAAGCCTTCACAAAAGAGTAGTGAAACAAT
GCAAAT
Found at i:2758983 original size:423 final size:423
Alignment explanation
Indices: 2758197--2759041 Score: 1591
Period size: 423 Copynumber: 2.0 Consensus size: 423
2758187 CGGAAGAGTA
2758197 GTGGAATGAATTTTTGTCAAATAAAAAAGCCACTCGACAAAAATTTTGTCTTTTATCTTTGCTTT
1 GTGGAATGAATTTTTGTCAAATAAAAAAGCCACTCGACAAAAATTTTGTCTTTTATCTTTGCTTT
*
2758262 ATTCTTGTTAACACAAAAATAAGCAAAGAGGGGCAGCTGTCGACAGTCGTTTTCGTCCGAGTCTT
66 ATTCTTGTTAACACAAAAATAAGCAAAGAGGGGCAGCTGTCAACAGTCGTTTTCGTCCGAGTCTT
*
2758327 TATTTATTTATATTATTATTATAACATTATTATATTATTAGTTTTCTTTCTATTTAATTATAATA
131 TATTTATTTATATTATTATTATAACATTATTATATTATTAGTTTTATTTCTATTTAATTATAATA
*
2758392 ATTTTATTACAGGTCCAAATTACAAACCTAAGGCCCAAATTACAAAGTTAAATCCTAAAGCTCGA
196 ATTTTATTACAGGTCCAAATTACAAACCGAAGGCCCAAATTACAAAGTTAAATCCTAAAGCTCGA
2758457 TTACAACCCAAGACTATCAGACCATGATCCAGTTTAAACTTGGATCCAATCCGAGCAGCCCAGCT
261 TTACAACCCAAGACTATCAGACCATGATCCAGTTTAAACTTGGATCCAATCCGAGCAGCCCAGCT
* *
2758522 GGCTCAGTCTAGGAACAGACTTGAACTAAACAGCTCTACAGGCCCAGAAGCGAACCCTTGTTCAG
326 GGCTCAGTCCAGGAACAGACTTGAACTAAACAGCTCTACAAGCCCAGAAGCGAACCCTTGTTCAG
2758587 CTAGGGTTTCCACGCAAGGTTCCAGCGACCCAT
391 CTAGGGTTTCCACGCAAGGTTCCAGCGACCCAT
*
2758620 GTGGAATGAATTTTTGTCAAATAAAAATGCCACTCGACAAAAATTTTGTCTTTTATCTTTGCTTT
1 GTGGAATGAATTTTTGTCAAATAAAAAAGCCACTCGACAAAAATTTTGTCTTTTATCTTTGCTTT
*
2758685 ATTCTTGTTAACACAAAAATAAGCAAAGAGGGGCAGCTGTCAACAGTCGTTTTCGTCCGATTCTT
66 ATTCTTGTTAACACAAAAATAAGCAAAGAGGGGCAGCTGTCAACAGTCGTTTTCGTCCGAGTCTT
2758750 TATTTATTTATATTATTATTATAACATTATTATATTATTAGTTTTATTTCTATTTAATTATAATA
131 TATTTATTTATATTATTATTATAACATTATTATATTATTAGTTTTATTTCTATTTAATTATAATA
*
2758815 ATTTTATTACAGGTCCAAATTACAACCCGAAGGCCCAAATTACAAAGTTAAATCCTAAAGCTCGA
196 ATTTTATTACAGGTCCAAATTACAAACCGAAGGCCCAAATTACAAAGTTAAATCCTAAAGCTCGA
*
2758880 TTACAACCCAAGACTATCAGACCATGATCCAGTTTGAACTTGGATCCAATCCGAGCAGCCCAGCT
261 TTACAACCCAAGACTATCAGACCATGATCCAGTTTAAACTTGGATCCAATCCGAGCAGCCCAGCT
**
2758945 GGCTCAGTCCAGGCCCAGACTTGAACTAAACAGCTCTACAAGCCCAGAAGCGAACCCTTGTTCAG
326 GGCTCAGTCCAGGAACAGACTTGAACTAAACAGCTCTACAAGCCCAGAAGCGAACCCTTGTTCAG
2759010 CTAGGGTTTCCACGCAAGGTTCCAGCGACCCA
391 CTAGGGTTTCCACGCAAGGTTCCAGCGACCCA
2759042 AGCTTCCACA
Statistics
Matches: 411, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
423 411 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (423 bp):
GTGGAATGAATTTTTGTCAAATAAAAAAGCCACTCGACAAAAATTTTGTCTTTTATCTTTGCTTT
ATTCTTGTTAACACAAAAATAAGCAAAGAGGGGCAGCTGTCAACAGTCGTTTTCGTCCGAGTCTT
TATTTATTTATATTATTATTATAACATTATTATATTATTAGTTTTATTTCTATTTAATTATAATA
ATTTTATTACAGGTCCAAATTACAAACCGAAGGCCCAAATTACAAAGTTAAATCCTAAAGCTCGA
TTACAACCCAAGACTATCAGACCATGATCCAGTTTAAACTTGGATCCAATCCGAGCAGCCCAGCT
GGCTCAGTCCAGGAACAGACTTGAACTAAACAGCTCTACAAGCCCAGAAGCGAACCCTTGTTCAG
CTAGGGTTTCCACGCAAGGTTCCAGCGACCCAT
Found at i:2764232 original size:44 final size:44
Alignment explanation
Indices: 2764116--2764282 Score: 115
Period size: 45 Copynumber: 3.7 Consensus size: 44
2764106 TTCAAAGTTG
* * *
2764116 AATTTGCTTCCACTACTCTTCCGTGAAGTTTTATACTTTGCTGAAA
1 AATTTGCTTCCACTACTCTTCCGTGGAG-TTCAGACTTTGC-GAAA
* ** * *
2764162 AATCTG-TTCCACTACTCTTTTGTGGAGTTCAGATTTTG-GATTA
1 AATTTGCTTCCACTACTCTTCCGTGGAGTTCAGACTTTGCGA-AA
* * * *
2764205 AATTTGCTTCCACTACTCTTCCATGGAGTATGACACTTTGCTAAA
1 AATTTGCTTCCACTACTCTTCCGTGGAGT-TCAGACTTTGCGAAA
** **
2764250 AAACT-CAGTTCCACTACTCTTTTGTGGAGTTCA
1 AATTTGC--TTCCACTACTCTTCCGTGGAGTTCA
2764283 TATTTTGGTC
Statistics
Matches: 92, Mismatches: 23, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
42 2 0.02
43 6 0.07
44 28 0.30
45 31 0.34
46 25 0.27
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (44 bp):
AATTTGCTTCCACTACTCTTCCGTGGAGTTCAGACTTTGCGAAA
Found at i:2764243 original size:89 final size:90
Alignment explanation
Indices: 2764116--2764290 Score: 271
Period size: 89 Copynumber: 2.0 Consensus size: 90
2764106 TTCAAAGTTG
* * * * * *
2764116 AATTTGCTTCCACTACTCTTCCGTGAAGTTTTATACTTTGCTGAAAAA-TCTGTTCCACTACTCT
1 AATTTGCTTCCACTACTCTTCCATGAAGTATGACACTTTGCTAAAAAACTCAGTTCCACTACTCT
2764180 TTTGTGGAGTTCAGATTTTGGATTA
66 TTTGTGGAGTTCAGATTTTGGATTA
*
2764205 AATTTGCTTCCACTACTCTTCCATGGAGTATGACACTTTGCTAAAAAACTCAGTTCCACTACTCT
1 AATTTGCTTCCACTACTCTTCCATGAAGTATGACACTTTGCTAAAAAACTCAGTTCCACTACTCT
*
2764270 TTTGTGGAGTTCATATTTTGG
66 TTTGTGGAGTTCAGATTTTGG
2764291 TCTTATTCTT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 42 0.55
90 35 0.45
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (90 bp):
AATTTGCTTCCACTACTCTTCCATGAAGTATGACACTTTGCTAAAAAACTCAGTTCCACTACTCT
TTTGTGGAGTTCAGATTTTGGATTA
Found at i:2764592 original size:18 final size:18
Alignment explanation
Indices: 2764557--2764597 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2764547 CAAATGTATC
2764557 TATGAAATGCATGATCTT
1 TATGAAATGCATGATCTT
*
2764575 TATGCAAATG-ATGTTC-T
1 TATG-AAATGCATGATCTT
2764592 TATGAA
1 TATGAA
2764598 TGTATGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 5 0.24
18 9 0.43
19 5 0.24
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (18 bp):
TATGAAATGCATGATCTT
Found at i:2765864 original size:42 final size:42
Alignment explanation
Indices: 2765803--2765909 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
2765793 GATTTGAATA
* * *
2765803 AAATGGGCCTTCAGAATGCCCCACATGGATTATTTCTGTCTG
1 AAATGGGCCTTCAGCATGCCCCACATAGATTATTTCTGACTG
*
2765845 AAATGGGCCTTCAGCATGCCCCATATAGATTATTTCTGACTG
1 AAATGGGCCTTCAGCATGCCCCACATAGATTATTTCTGACTG
* *
2765887 TAATGGGCCTTCATCATGCCCCA
1 AAATGGGCCTTCAGCATGCCCCA
2765910 GCATTATAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (42 bp):
AAATGGGCCTTCAGCATGCCCCACATAGATTATTTCTGACTG
Found at i:2770991 original size:12 final size:12
Alignment explanation
Indices: 2770974--2770998 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2770964 AGTAAAATAA
2770974 TTAAAACCAATT
1 TTAAAACCAATT
2770986 TTAAAACCAATT
1 TTAAAACCAATT
2770998 T
1 T
2770999 ATTATTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAAAACCAATT
Found at i:2776086 original size:11 final size:11
Alignment explanation
Indices: 2776066--2776110 Score: 74
Period size: 11 Copynumber: 4.2 Consensus size: 11
2776056 TAAAAAACAG
2776066 TAAA-ATAAAA
1 TAAACATAAAA
2776076 TAAACATAAAA
1 TAAACATAAAA
*
2776087 TAAAAATAAAA
1 TAAACATAAAA
2776098 TAAACATAAAA
1 TAAACATAAAA
2776109 TA
1 TA
2776111 TGAGGACCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 4 0.12
11 28 0.88
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (11 bp):
TAAACATAAAA
Found at i:2776092 original size:22 final size:22
Alignment explanation
Indices: 2776067--2776110 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2776057 AAAAAACAGT
2776067 AAAATAAAATAAACATAAAATA
1 AAAATAAAATAAACATAAAATA
2776089 AAAATAAAATAAACATAAAATA
1 AAAATAAAATAAACATAAAATA
2776111 TGAGGACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAATAAAATAAACATAAAATA
Found at i:2781953 original size:15 final size:16
Alignment explanation
Indices: 2781933--2781973 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2781923 GTTTACTTCA
*
2781933 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
2781948 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
2781964 GAATGATTCA
1 GAATGATTCA
2781974 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:2788540 original size:9 final size:9
Alignment explanation
Indices: 2788518--2788578 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
2788508 AAAAAGAGAG
*
2788518 GAAATAAAA
1 GAAAGAAAA
*
2788527 TAAAGAAAA
1 GAAAGAAAA
2788536 GAAAGAAGAA
1 GAAAGAA-AA
2788546 -AAA-AAAGA
1 GAAAGAAA-A
*
2788554 GAAAAAAAA
1 GAAAGAAAA
2788563 GAAAGAAAA
1 GAAAGAAAA
*
2788572 GGAAGAA
1 GAAAGAA
2788579 GAAAAAAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 1 0.02
8 3 0.07
9 34 0.79
10 5 0.12
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:2788568 original size:36 final size:36
Alignment explanation
Indices: 2788486--2788590 Score: 117
Period size: 36 Copynumber: 2.9 Consensus size: 36
2788476 AAGATATAGC
* * *
2788486 AAAAAG-AAGAAAA-ACAAAAACAAAAAAGAGAGGAAA
1 AAAAAGAAAGAAAAGA-AAGAAGAAAAAAAAGA-GAAA
* *
2788522 TAAAATAAAGAAAAGAAAGAAGAAAAAAAAGAGAAA
1 AAAAAGAAAGAAAAGAAAGAAGAAAAAAAAGAGAAA
*
2788558 AAAAAGAAAGAAAAGGAAGAAG-AAAAAAAGAGA
1 AAAAAGAAAGAAAAGAAAGAAGAAAAAAAAGAGA
2788591 TCAGACAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
35 11 0.19
36 27 0.46
37 20 0.34
38 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (36 bp):
AAAAAGAAAGAAAAGAAAGAAGAAAAAAAAGAGAAA
Found at i:2788583 original size:24 final size:24
Alignment explanation
Indices: 2788486--2788588 Score: 74
Period size: 24 Copynumber: 4.3 Consensus size: 24
2788476 AAGATATAGC
*
2788486 AAAAAG-AAGAAAAACAAA-AA-CA
1 AAAAAGAAAGAAAAA-AAAGAAGAA
*
2788508 AAAAAGAGAGGAAATAAAATA-AAGAA
1 AAAAAGA-AAGAAA-AAAA-AGAAGAA
2788534 AAGAAAG-AAGAAAAAAAAG-AGAAA
1 AA-AAAGAAAGAAAAAAAAGAAG-AA
**
2788558 AAAAAGAAAGAAAAGGAAGAAGAA
1 AAAAAGAAAGAAAAAAAAGAAGAA
2788582 AAAAAGA
1 AAAAAGA
2788589 GATCAGACAA
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
22 6 0.09
23 7 0.11
24 34 0.52
25 12 0.18
26 3 0.05
27 4 0.06
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (24 bp):
AAAAAGAAAGAAAAAAAAGAAGAA
Found at i:2790622 original size:54 final size:54
Alignment explanation
Indices: 2790537--2790648 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
2790527 CTAAACAATG
* *
2790537 TGATGTTTTCAAATGAATTTTGAGAGAAACTAAGCCGGATTTTAAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTGGAGAGAAACTAAGCCGAATTTTAAGGGGTTTCT
* * * *
2790591 TGATGTTTTCAAATGGATTTGG-GAAGGAACTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTTTTCAAATGAATTTGGAG-AGAAACTAAGCCGAATTTTAAGGGGTTTCT
2790645 TGAT
1 TGAT
2790649 TACTTCTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (54 bp):
TGATGTTTTCAAATGAATTTGGAGAGAAACTAAGCCGAATTTTAAGGGGTTTCT
Found at i:2792228 original size:135 final size:135
Alignment explanation
Indices: 2791986--2792378 Score: 479
Period size: 135 Copynumber: 2.9 Consensus size: 135
2791976 CAAACCAATC
* * * *
2791986 AACATTTCCAGTAGAGATTTCATAATGAGAAGAACTCATCCGATAGATGGAGAAAAAGTTCATAA
1 AACATTTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCGATAGAGGGAGAAAAAGTTCATAA
* * * * ** * *
2792051 TGAGAATAACTTATTCAATATTTTCTCGATTCACAACATTTTGAATCAGAGATGCCTCACTTGAT
66 TGAGAAGAACTTGTTCAAAATTTGCTCGATTCATGACATTTTGAAACAGAGATGCCTCACTTGAG
2792116 GGATT
131 GGATT
* * *
2792121 AACATTTCCAATGGAGAGTTCATAATGAGAAAAACGCATCCGATAGAGGGAGAATAAGTTCATAA
1 AACATTTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCGATAGAGGGAGAAAAAGTTCATAA
** * *
2792186 TGAGAAGAACTTGTTCAACCTTTGCTCGATTCATGACATTTTGAAACA-ACAATACCTCACTTGA
66 TGAGAAGAACTTGTTCAAAATTTGCTCGATTCATGACATTTTGAAACAGA-GATGCCTCACTTGA
2792250 GGGATT
130 GGGATT
* * * * *
2792256 ATCATTTCCAATTGAGAGTTCATAAT--G-ATAACTCATCTGATAGAGGGAGAAGAAGTTCATAA
1 AACATTTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCGATAGAGGGAGAAAAAGTTCATAA
* ** * * *
2792318 TGAGAAGAACTTGTTCAAAATTTGCTCAATTCATGGTATTTCGAACCAGCGATGCCTCACT
66 TGAGAAGAACTTGTTCAAAATTTGCTCGATTCATGACATTTTGAAACAGAGATGCCTCACT
2792379 CGTGGGACCA
Statistics
Matches: 222, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
132 81 0.36
133 1 0.00
134 1 0.00
135 139 0.63
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (135 bp):
AACATTTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCGATAGAGGGAGAAAAAGTTCATAA
TGAGAAGAACTTGTTCAAAATTTGCTCGATTCATGACATTTTGAAACAGAGATGCCTCACTTGAG
GGATT
Found at i:2795232 original size:39 final size:39
Alignment explanation
Indices: 2795178--2795267 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 39
2795168 ACACATCCAT
2795178 TAAAATCCAAATGACTCTCCATGTGCATACAATAGCCTA
1 TAAAATCCAAATGACTCTCCATGTGCATACAATAGCCTA
* *
2795217 TAAAATCCAAATGACTCTCTATGTGCATACAATAGCCTT
1 TAAAATCCAAATGACTCTCCATGTGCATACAATAGCCTA
2795256 TAAAATCCAAAT
1 TAAAATCCAAAT
2795268 CGAATGTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (39 bp):
TAAAATCCAAATGACTCTCCATGTGCATACAATAGCCTA
Found at i:2798981 original size:16 final size:17
Alignment explanation
Indices: 2798957--2798994 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2798947 ATTTGTTTTT
2798957 AAATATTTAAAATAATA
1 AAATATTTAAAATAATA
*
2798974 AAAT-TTTAAATTAATA
1 AAATATTTAAAATAATA
*
2798990 TAATA
1 AAATA
2798995 AAAAAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATTTAAAATAATA
Found at i:2804894 original size:60 final size:60
Alignment explanation
Indices: 2804774--2804929 Score: 149
Period size: 60 Copynumber: 2.6 Consensus size: 60
2804764 GTTGGGGGAG
* * * * * * * *
2804774 TCAAAAAAATAGTACCCTATAGTTTAGTGACCATTTTGTAACTTTTAATAGTTACAAGAC
1 TCAACAAAATAGAAACCTATAGATGAGAGACCATTTTATAACTTCTAATAGTTACAAGAC
* *
2804834 TCAATAAAATA-AAACCCTATA-ATTAGGAGACCATTTTATAACTTCTAATAG-T-CGAGAGAC
1 TCAACAAAATAGAAA-CCTATAGATGA-GAGACCATTTTATAACTTCTAATAGTTAC-A-AGAC
*
2804894 TCAACAAAATAGTAACCTATAGATGAGAGACCATTT
1 TCAACAAAATAGAAACCTATAGATGAGAGACCATTT
2804930 GTGCACTTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
58 1 0.01
59 6 0.08
60 68 0.85
61 5 0.06
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (60 bp):
TCAACAAAATAGAAACCTATAGATGAGAGACCATTTTATAACTTCTAATAGTTACAAGAC
Found at i:2807921 original size:26 final size:25
Alignment explanation
Indices: 2807853--2807941 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 25
2807843 GGTTATTATT
*
2807853 AAATATAGTTTTATAGTATAGTTCTATAA
1 AAATATAG-TTTATAGT-T-TTTCTA-AA
2807882 ATAATATTAG--TATAGTTTTTCTAATA
1 A-AATA-TAGTTTATAGTTTTTCTAA-A
*
2807908 AAATATAGTTTATAGTTTTTGTAAA
1 AAATATAGTTTATAGTTTTTCTAAA
*
2807933 TAATATAGT
1 AAATATAGT
2807942 AGTTTTAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
24 3 0.06
25 14 0.27
26 20 0.38
27 1 0.02
28 6 0.12
29 1 0.02
30 4 0.08
31 3 0.06
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.47
Consensus pattern (25 bp):
AAATATAGTTTATAGTTTTTCTAAA
Found at i:2807934 original size:27 final size:27
Alignment explanation
Indices: 2807892--2807946 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
2807882 ATAATATTAG
2807892 TATAGTTTTTCTAATAAAATA-TAGTT
1 TATAGTTTTTCTAATAAAATAGTAGTT
* *
2807918 TATAGTTTTTGTAAATAATATAGTAGTT
1 TATAGTTTTTCT-AATAAAATAGTAGTT
2807946 T
1 T
2807947 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 8 0.32
28 6 0.24
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (27 bp):
TATAGTTTTTCTAATAAAATAGTAGTT
Found at i:2807937 original size:25 final size:24
Alignment explanation
Indices: 2807879--2807941 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
2807869 TATAGTTCTA
2807879 TAAATAATATTAG-TATAGTTTTTC
1 TAAATAATA-TAGTTATAGTTTTTC
* *
2807903 TAATAAAATATAGTTTATAGTTTTTG
1 TAA-ATAATATAG-TTATAGTTTTTC
2807929 TAAATAATATAGT
1 TAAATAATATAGT
2807942 AGTTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 7 0.21
25 13 0.39
26 13 0.39
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.48
Consensus pattern (24 bp):
TAAATAATATAGTTATAGTTTTTC
Found at i:2819088 original size:32 final size:32
Alignment explanation
Indices: 2819052--2819146 Score: 109
Period size: 32 Copynumber: 3.0 Consensus size: 32
2819042 GATTCAACCT
2819052 AAGGGAGTACCTTGGGGCCGTAGAGCCTACCA
1 AAGGGAGTACCTTGGGGCCGTAGAGCCTACCA
* *** *
2819084 AAGGGAGTACCTTGGGGCCTTAGTTTCTACCC
1 AAGGGAGTACCTTGGGGCCGTAGAGCCTACCA
* * * *
2819116 AAGGTAGTACTTTGGGGCCGAAAAGCCTACC
1 AAGGGAGTACCTTGGGGCCGTAGAGCCTACC
2819147 CAATGGTCAC
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (32 bp):
AAGGGAGTACCTTGGGGCCGTAGAGCCTACCA
Found at i:2821842 original size:12 final size:12
Alignment explanation
Indices: 2821825--2821855 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2821815 GACTATGACT
2821825 TATTGTTATTAC
1 TATTGTTATTAC
*
2821837 TATTGTTATTAT
1 TATTGTTATTAC
2821849 TATTGTT
1 TATTGTT
2821856 TATTTTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.65
Consensus pattern (12 bp):
TATTGTTATTAC
Found at i:2833932 original size:27 final size:26
Alignment explanation
Indices: 2833902--2833956 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
2833892 ATATAGTTCT
*
2833902 ATAAATAATATTA-TTATATTTTTTGTA
1 ATAAA-AATA-TAGTTATAGTTTTTGTA
2833929 ATAAAAATATAGTTTATAGTTTTTGTA
1 ATAAAAATATAG-TTATAGTTTTTGTA
2833956 A
1 A
2833957 ATAATATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 2 0.08
26 4 0.16
27 19 0.76
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (26 bp):
ATAAAAATATAGTTATAGTTTTTGTA
Found at i:2837540 original size:32 final size:32
Alignment explanation
Indices: 2837499--2837582 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
2837489 GAGTCAACCT
* * **
2837499 AAGGTAGTACCTTGGGGCCTTAGGGCCTAGTC
1 AAGGGAGTACCTTGGGGCCTTAGAGCCTACCC
2837531 AAGGGAGTACCTTGGGGCCTTAGAGCCTACCC
1 AAGGGAGTACCTTGGGGCCTTAGAGCCTACCC
* *
2837563 AATGGAGTACTTTGGGGCCT
1 AAGGGAGTACCTTGGGGCCT
2837583 ACCCAAGGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.24
Consensus pattern (32 bp):
AAGGGAGTACCTTGGGGCCTTAGAGCCTACCC
Found at i:2857297 original size:104 final size:106
Alignment explanation
Indices: 2857117--2857329 Score: 412
Period size: 104 Copynumber: 2.0 Consensus size: 106
2857107 GAATGATCCT
2857117 AAAGTGTCATATTGGACCGCTGAAGCAACCCCTAAATTTCAAAACATGTTTATTTTCATTTCAAA
1 AAAGTGTCATATTGGACCGCTGAAGCAACCCCTAAATTTCAAAACATGTTTATTTTCATTTCAAA
2857182 CATACTAAATGGTATAATAAAAGACGTATATAAT-ATTA-A
66 CATACTAAATGGTATAATAAAAGACGTATATAATAATTATA
2857221 AAAGTGTCATATTGGACCGCTGAAGCAACCCCTAAATTTCAAAACATGTTTATTTTCATTTCAAA
1 AAAGTGTCATATTGGACCGCTGAAGCAACCCCTAAATTTCAAAACATGTTTATTTTCATTTCAAA
2857286 CATACTAAATGGTATAATAAAAGACGTATATAATAATTATA
66 CATACTAAATGGTATAATAAAAGACGTATATAATAATTATA
2857327 AAA
1 AAA
2857330 CATTTTATAA
Statistics
Matches: 107, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
104 99 0.93
105 4 0.04
106 4 0.04
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.31
Consensus pattern (106 bp):
AAAGTGTCATATTGGACCGCTGAAGCAACCCCTAAATTTCAAAACATGTTTATTTTCATTTCAAA
CATACTAAATGGTATAATAAAAGACGTATATAATAATTATA
Found at i:2868616 original size:29 final size:29
Alignment explanation
Indices: 2868580--2868647 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
2868570 GTGAGGCATT
2868580 TTCGAGTGCATACATGACTACGTGGCACC
1 TTCGAGTGCATACATGACTACGTGGCACC
2868609 TTCGAGTGCATACATGACTACGTGGCACC
1 TTCGAGTGCATACATGACTACGTGGCACC
2868638 TTCGAGTGCA
1 TTCGAGTGCA
2868648 ATTATATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (29 bp):
TTCGAGTGCATACATGACTACGTGGCACC
Found at i:2872554 original size:163 final size:166
Alignment explanation
Indices: 2872275--2872605 Score: 641
Period size: 163 Copynumber: 2.0 Consensus size: 166
2872265 TGGTTGTTTT
2872275 TTTTTTATTTATGAAAATGGTTATAAATGATTGGGAATGGATGAAATTGAGTTGTAGGTGACGAA
1 TTTTTTATTTATGAAAATGGTTATAAATGATTGGGAATGGATGAAATTGAGTTGTAGGTGACGAA
2872340 ATTGAGCTTGAAACAAAGTTGGATACCATTGGAGAAATGCTTGAAAGATTAAGCCTAGTTAGAAA
66 ATTGAGCTTGAAACAAAGTTGGATACCATTGGAGAAATGCTTGAAAGATTAAGCCTAGTTAGAAA
2872405 TAATTAGGAAAAGTTTTGT-AAAATTTCTTTAAGGC
131 TAATTAGGAAAAGTTTTGTAAAAATTTCTTTAAGGC
2872440 TTTTTTA-TTATGAAAATGGTTAT-AATGATTGGGAATGGATGAAATTGAGTTGTAGGTGACGAA
1 TTTTTTATTTATGAAAATGGTTATAAATGATTGGGAATGGATGAAATTGAGTTGTAGGTGACGAA
2872503 ATTGAGCTTGAAACAAAGTTGGATACCATTGGAGAAATGCTTGAAAGATTAAGCCTAGTTAGAAA
66 ATTGAGCTTGAAACAAAGTTGGATACCATTGGAGAAATGCTTGAAAGATTAAGCCTAGTTAGAAA
2872568 TAATTAGGAAAAGTTTTGTAAAAATTTCTTTAAGGC
131 TAATTAGGAAAAGTTTTGTAAAAATTTCTTTAAGGC
2872604 TT
1 TT
2872606 ATAATGGATG
Statistics
Matches: 165, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
163 124 0.75
164 34 0.21
165 7 0.04
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (166 bp):
TTTTTTATTTATGAAAATGGTTATAAATGATTGGGAATGGATGAAATTGAGTTGTAGGTGACGAA
ATTGAGCTTGAAACAAAGTTGGATACCATTGGAGAAATGCTTGAAAGATTAAGCCTAGTTAGAAA
TAATTAGGAAAAGTTTTGTAAAAATTTCTTTAAGGC
Found at i:2873838 original size:22 final size:23
Alignment explanation
Indices: 2873795--2873838 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
2873785 CTGTATTTTT
*
2873795 AATTAAATGAAAAGTACGAGTTG
1 AATTAAATGAAAAGTACAAGTTG
* *
2873818 AATTAAAT-AATAGTATAAGTT
1 AATTAAATGAAAAGTACAAGTT
2873839 TACATGAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.50, C:0.02, G:0.16, T:0.32
Consensus pattern (23 bp):
AATTAAATGAAAAGTACAAGTTG
Found at i:2874916 original size:18 final size:18
Alignment explanation
Indices: 2874893--2874954 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
2874883 CAACATTCCA
*
2874893 GTAATCTTATTCCAGTCG
1 GTAATCTTATTCCAGCCG
2874911 GTAATCTTATTCCAGCCG
1 GTAATCTTATTCCAGCCG
* * * *
2874929 ATAATCCTATT-CTGCTG
1 GTAATCTTATTCCAGCCG
2874946 GTAATCTTA
1 GTAATCTTA
2874955 CATTTCTTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 11 0.30
18 26 0.70
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (18 bp):
GTAATCTTATTCCAGCCG
Found at i:2878136 original size:25 final size:25
Alignment explanation
Indices: 2878107--2878156 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2878097 GATTAGGGGT
*
2878107 ACTGAAGCATAAACATGTAGGGATA
1 ACTGAAGCAAAAACATGTAGGGATA
*
2878132 ACTGAAGCAAAAACATGTAGTGATA
1 ACTGAAGCAAAAACATGTAGGGATA
2878157 TGGTTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (25 bp):
ACTGAAGCAAAAACATGTAGGGATA
Found at i:2878683 original size:46 final size:46
Alignment explanation
Indices: 2878630--2878760 Score: 235
Period size: 46 Copynumber: 2.8 Consensus size: 46
2878620 AGATTCGAGG
*
2878630 GTTCTACGTGGTCCTACGGGACATAGTGGTCCTACGGGACATATGT
1 GTTCTACGTGGTCCTACGGGACATAGTGGTCCTACGGGACATATAT
2878676 GTTCTACGTGGTCCTACGGGACATAGTGGTCCTACGGGACATATAT
1 GTTCTACGTGGTCCTACGGGACATAGTGGTCCTACGGGACATATAT
* *
2878722 GTTCTACGTCGTCCTACGGGACATAGTGGTCCTAGGGGA
1 GTTCTACGTGGTCCTACGGGACATAGTGGTCCTACGGGA
2878761 AAAATTCTTT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (46 bp):
GTTCTACGTGGTCCTACGGGACATAGTGGTCCTACGGGACATATAT
Found at i:2878710 original size:28 final size:28
Alignment explanation
Indices: 2878655--2878711 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
2878645 ACGGGACATA
*
2878655 GTGGTCCTACGGGACATATGTGTTCTAC
1 GTGGTCCTACGGGACATATGTGTCCTAC
2878683 GTGGTCCTACGGGACATA-GTGGTCCTAC
1 GTGGTCCTACGGGACATATGT-GTCCTAC
2878711 G
1 G
2878712 GGACATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.28
Consensus pattern (28 bp):
GTGGTCCTACGGGACATATGTGTCCTAC
Found at i:2878729 original size:18 final size:18
Alignment explanation
Indices: 2878637--2878718 Score: 83
Period size: 18 Copynumber: 5.0 Consensus size: 18
2878627 AGGGTTCTAC
2878637 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
2878655 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
*
2878673 -TGTGT--T-C--TAC---
1 GTG-GTCCTACGGGACATA
2878683 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
2878701 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
2878719 TATGTTCTAC
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 1 0.02
13 3 0.06
15 3 0.06
16 1 0.02
17 2 0.04
18 38 0.73
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.26
Consensus pattern (18 bp):
GTGGTCCTACGGGACATA
Found at i:2882688 original size:28 final size:28
Alignment explanation
Indices: 2882648--2882714 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
2882638 ATAGTGGTCT
*
2882648 TACGGGACATATGTGTTCTACATCGTCC
1 TACGGGACATATGTATTCTACATCGTCC
* ** *
2882676 TACGGTACATATGTATTCTATGTGGTCC
1 TACGGGACATATGTATTCTACATCGTCC
2882704 TACGGGACATA
1 TACGGGACATA
2882715 GTGGTCCTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (28 bp):
TACGGGACATATGTATTCTACATCGTCC
Found at i:2890296 original size:19 final size:19
Alignment explanation
Indices: 2890272--2890316 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2890262 AATTTTTCTA
2890272 AAACACCGGTTAAGAAAAG
1 AAACACCGGTTAAGAAAAG
*
2890291 AAACACCGGTTATGAAAAG
1 AAACACCGGTTAAGAAAAG
*
2890310 AAGCACC
1 AAACACC
2890317 ATAAGGATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.11
Consensus pattern (19 bp):
AAACACCGGTTAAGAAAAG
Found at i:2891056 original size:32 final size:32
Alignment explanation
Indices: 2891007--2891198 Score: 138
Period size: 32 Copynumber: 6.2 Consensus size: 32
2890997 GTCTCTAACC
* *
2891007 CTAATCACTCATATGCATTATCTTATTGCAACA
1 CTAA-CACTCATGTGCATTATCTTAATGCAACA
*
2891040 CTAACACTCATGTGCATTATCTTAATACAACA
1 CTAACACTCATGTGCATTATCTTAATGCAACA
** * *
2891072 CTAA-ATCTGTTATGCATTATGTTAATGTC-ACA
1 CTAACA-CTCATGTGCATTATCTTAATG-CAACA
* * *
2891104 CT----CT--TGTGCATGATCTAAATGCGACA
1 CTAACACTCATGTGCATTATCTTAATGCAACA
*
2891130 CTAACACTCATGTGCATTATCTTAATACAACA
1 CTAACACTCATGTGCATTATCTTAATGCAACA
2891162 CTAA-A-T-ATGTTATGCATTATCTTAATGTC-ACA
1 CTAACACTCATG---TGCATTATCTTAATG-CAACA
2891194 CTAAC
1 CTAAC
2891199 TAGTATATGA
Statistics
Matches: 128, Mismatches: 17, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
25 1 0.01
26 18 0.14
28 2 0.02
29 3 0.02
30 3 0.02
31 2 0.02
32 93 0.73
33 6 0.05
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (32 bp):
CTAACACTCATGTGCATTATCTTAATGCAACA
Found at i:2892307 original size:20 final size:20
Alignment explanation
Indices: 2892282--2892377 Score: 138
Period size: 20 Copynumber: 4.8 Consensus size: 20
2892272 ATTCTTATGA
2892282 AAAGTATGGATACTCTTAGG
1 AAAGTATGGATACTCTTAGG
*
2892302 AAAGTATGGATACTCTTGGG
1 AAAGTATGGATACTCTTAGG
* *
2892322 AAAGTATTGATACTCTTAGA
1 AAAGTATGGATACTCTTAGG
* *
2892342 AAAGTATTGATACTCTTGGG
1 AAAGTATGGATACTCTTAGG
*
2892362 AAAGTATCGATACTCT
1 AAAGTATGGATACTCT
2892378 CAACTAGAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.32
Consensus pattern (20 bp):
AAAGTATGGATACTCTTAGG
Found at i:2892337 original size:40 final size:40
Alignment explanation
Indices: 2892282--2892377 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
2892272 ATTCTTATGA
* *
2892282 AAAGTATGGATACTCTTAGGAAAGTATGGATACTCTTGGG
1 AAAGTATCGATACTCTTAGAAAAGTATGGATACTCTTGGG
* *
2892322 AAAGTATTGATACTCTTAGAAAAGTATTGATACTCTTGGG
1 AAAGTATCGATACTCTTAGAAAAGTATGGATACTCTTGGG
2892362 AAAGTATCGATACTCT
1 AAAGTATCGATACTCT
2892378 CAACTAGAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.32
Consensus pattern (40 bp):
AAAGTATCGATACTCTTAGAAAAGTATGGATACTCTTGGG
Found at i:2903968 original size:2 final size:2
Alignment explanation
Indices: 2903961--2904033 Score: 121
Period size: 2 Copynumber: 37.0 Consensus size: 2
2903951 ACATTTATTT
2903961 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
2904003 TA TA TA TA TA TA TG TA TG TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2904034 ATTTTGAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2904061 original size:36 final size:35
Alignment explanation
Indices: 2904021--2904293 Score: 291
Period size: 37 Copynumber: 7.5 Consensus size: 35
2904011 TATATGTATG
*
2904021 TATATAT-TATATAATTTTGAAAACATTTTGAAAA
1 TATATATATATATAATTTTTAAAACATTTTGAAAA
*
2904055 TATATATGATATATAGTTTTTAAAACATTTTGAAAA
1 TATATAT-ATATATAATTTTTAAAACATTTTGAAAA
2904091 TATATATA-ATATAAAGTTTTTAAAACATTTTGAAAACA
1 TATATATATATAT-AA-TTTTTAAAACATTTTG-AAA-A
* * *
2904129 TTTATATATTATATAGTTTTTAAAACGTTTTTGAAAA
1 TATATATA-TATATAATTTTTAAAAC-ATTTTGAAAA
* * *
2904166 TAAATATAATATATAAATTTTAAAACATTTTTAAATA
1 TATATAT-ATATATAATTTTTAAAACATTTTGAAA-A
* *
2904203 TATATATATTATATAGTTTTTAAAATATTTTGAAAA
1 TATATATA-TATATAATTTTTAAAACATTTTGAAAA
* * *
2904239 TATATA-ATATATAGTTTTTTAAAAAGTATTTTGAATA
1 TATATATATATATA-ATTTTT-AAAA-CATTTTGAAAA
2904276 TATATATATATATAATTT
1 TATATATATATATAATTT
2904294 ATATTATATA
Statistics
Matches: 203, Mismatches: 20, Indels: 29
0.81 0.08 0.12
Matches are distributed among these distances:
34 17 0.08
35 8 0.04
36 67 0.33
37 72 0.35
38 29 0.14
39 6 0.03
40 4 0.02
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (35 bp):
TATATATATATATAATTTTTAAAACATTTTGAAAA
Found at i:2904187 original size:37 final size:36
Alignment explanation
Indices: 2904021--2904293 Score: 261
Period size: 36 Copynumber: 7.5 Consensus size: 36
2904011 TATATGTATG
* * *
2904021 TATATATTATATAATTTTGAAAACATTTTGAAAATA
1 TATATAATATATAATTTTTAAAACTTTTTGAAAATA
* * *
2904057 TATATGATATATAGTTTTTAAAACATTTTGAAAATA
1 TATATAATATATAATTTTTAAAACTTTTTGAAAATA
* *
2904093 TATATAATATA-AAGTTTTTAAAACATTTTGAAAACATT
1 TATATAATATATAA-TTTTTAAAACTTTTTG-AAA-ATA
* *
2904131 TATATATTATATAGTTTTTAAAACGTTTTTGAAAATA
1 TATATAATATATAATTTTTAAAAC-TTTTTGAAAATA
* *
2904168 AATATAATATATAAATTTTAAAACATTTTT-AAATATA
1 TATATAATATATAATTTTTAAAAC-TTTTTGAAA-ATA
* *
2904205 TATATATTATATAGTTTTTAAAA-TATTTTG-AAA-A
1 TATATAATATATAATTTTTAAAACT-TTTTGAAAATA
* * *
2904239 TATATAATATATAGTTTTTTAAAAAGTATTTTGAATATA
1 TATATAATATATA-ATTTTT-AAAACT-TTTTGAAAATA
2904278 TATAT-ATATATAATTT
1 TATATAATATATAATTT
2904294 ATATTATATA
Statistics
Matches: 200, Mismatches: 24, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
34 13 0.06
35 8 0.04
36 71 0.35
37 62 0.31
38 34 0.17
39 12 0.06
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (36 bp):
TATATAATATATAATTTTTAAAACTTTTTGAAAATA
Found at i:2904402 original size:29 final size:29
Alignment explanation
Indices: 2904348--2904406 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
2904338 TAACATTTAG
* *
2904348 TTTTAAAAACATTTTTGAAAACTATATAA
1 TTTTAAAAACATTTTTAAAAAATATATAA
*
2904377 TTTTGAAAAC-TTTTTAAAAATATATATAA
1 TTTTAAAAACATTTTTAAAAA-ATATATAA
2904406 T
1 T
2904407 ATATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTAAAAACATTTTTAAAAAATATATAA
Found at i:2904436 original size:34 final size:36
Alignment explanation
Indices: 2904370--2904445 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
2904360 TTTTGAAAAC
2904370 TATATAATTTTGAAAACTTTTTAAAAATATATATAA
1 TATATAATTTTGAAAACTTTTTAAAAATATATATAA
* *
2904406 TATATAATTTT-AAAATATTTTTAAAAATATATATTA
1 TATATAATTTTGAAAA-CTTTTTAAAAATATATATAA
2904442 TATA
1 TATA
2904446 GATTTTTGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 4 0.11
36 33 0.89
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
TATATAATTTTGAAAACTTTTTAAAAATATATATAA
Found at i:2904459 original size:38 final size:36
Alignment explanation
Indices: 2904370--2904462 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 36
2904360 TTTTGAAAAC
* *
2904370 TATATAATTTTGAAAA-CTTTTTAAAAATATATATAA
1 TATAGAATTTT-AAAATATTTTTAAAAATATATATAA
* *
2904406 TATATAATTTTAAAATATTTTTAAAAATATATATTA
1 TATAGAATTTTAAAATATTTTTAAAAATATATATAA
*
2904442 TATAGATTTTTGGAAAATATT
1 TATAGAATTTT--AAAATATT
2904463 ATTTTTTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 4 0.08
36 38 0.76
38 8 0.16
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TATAGAATTTTAAAATATTTTTAAAAATATATATAA
Found at i:2904479 original size:13 final size:13
Alignment explanation
Indices: 2904461--2904529 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 13
2904451 TTGGAAAATA
2904461 TTATTTTTTATTT
1 TTATTTTTTATTT
2904474 TTA---TTTATTT
1 TTATTTTTTATTT
***
2904484 ACCTTTTTTATTT
1 TTATTTTTTATTT
*
2904497 TTATTTTTTATTA
1 TTATTTTTTATTT
**
2904510 TTATTACTTATTT
1 TTATTTTTTATTT
*
2904523 TAATTTT
1 TTATTTT
2904530 ATTTTCATTT
Statistics
Matches: 40, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
10 7 0.17
13 33 0.82
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.75
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:2904490 original size:23 final size:22
Alignment explanation
Indices: 2904464--2904506 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
2904454 GAAAATATTA
2904464 TTTTTTATTTTTATTTATTTACC
1 TTTTTTATTTTTATTT-TTTACC
2904487 TTTTTTATTTTTATTTTTTA
1 TTTTTTATTTTTATTTTTTA
2904507 TTATTATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTATTTTTATTTTTTACC
Found at i:2904530 original size:31 final size:30
Alignment explanation
Indices: 2904466--2904534 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
2904456 AAATATTATT
*
2904466 TTTTA-TTTTTATTTATTTACCTTTTTTAT
1 TTTTATTTTTTATTTATTTACCTTTTTTAA
2904495 TTTTATTTTTTA-TTATTATTA-CTTATTTTAA
1 TTTTATTTTTTATTTA-T-TTACCTT-TTTTAA
2904526 TTTTATTTT
1 TTTTATTTT
2904535 CATTTTGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 8 0.23
30 10 0.29
31 17 0.49
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.75
Consensus pattern (30 bp):
TTTTATTTTTTATTTATTTACCTTTTTTAA
Found at i:2906067 original size:12 final size:12
Alignment explanation
Indices: 2906037--2906069 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2906027 CTTTCTTTTG
2906037 ATTCATTTA-GT
1 ATTCATTTATGT
*
2906048 ATTTATTTATGT
1 ATTCATTTATGT
2906060 ATTCATTTAT
1 ATTCATTTAT
2906070 TCCCTCTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (12 bp):
ATTCATTTATGT
Found at i:2909621 original size:86 final size:86
Alignment explanation
Indices: 2909476--2909706 Score: 283
Period size: 86 Copynumber: 2.7 Consensus size: 86
2909466 TTATAATATA
* * * * *
2909476 TATACCATAAAGCTTGAGTTGTCCCTCTAGAACAATTGGTTAAACGCCCTGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
**
2909541 ATTCAGCTTGCCTGATAAAGG
66 ATTCAGCTAACCTGATAAAGG
2909562 TATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAACGCCCCGACTTTATGGATAA
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGA-GCAATTGGTTAAACGCCCCGACTTTATGGATAA
2909626 GATTCAGCTAACCTGATAAAGG
65 GATTCAGCTAACCTGATAAAGG
* ** * * * *
2909648 TGT-TTATATA--TTAAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCTC-AGCTTTATGGAT
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGA-CTTTATGGAT
2909707 CCAGCTAGCT
Statistics
Matches: 128, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
82 1 0.01
83 42 0.33
84 1 0.01
85 5 0.04
86 79 0.62
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (86 bp):
TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGATAAG
ATTCAGCTAACCTGATAAAGG
Found at i:2910927 original size:84 final size:84
Alignment explanation
Indices: 2910786--2911256 Score: 527
Period size: 84 Copynumber: 5.6 Consensus size: 84
2910776 TTTTTTTTCT
* *
2910786 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
*
2910851 CTCAGCTCCAAGGTACATC
66 CTCAGCTCCAAGGCACATC
* * ** * * *
2910870 ATTTGCATCATAACTCAAGGCAAGAATAGCTATCTGCC-ACTAAAAGACCTTCGAGTTCAACTAC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAAC-CAAAGACCTTTGAGTTCGACTAC
2910934 GCTCAGCTCCAAGGCACATC
65 GCTCAGCTCCAAGGCACATC
* *
2910954 ATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
* * * *
2911019 CTCAACT-CAACAGTACATT
66 CTCAGCTCCAA-GGCACATC
** * * * * **
2911038 ATTTGCAGCATAGTTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGACCCTCAAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
* * * *
2911103 TTCAGCTTCGAGGGCACATT
66 CTCAGC-TCCAAGGCACATC
** * *
2911123 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTATCAA-TAAAGACCTTTAAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
* *
2911187 CTCAGCT-TAACGACACATC
66 CTCAGCTCCAA-GGCACATC
* * * * *
2911206 ATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAACCAAAGACCTT
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTT
2911257 CAAGGGCACA
Statistics
Matches: 318, Mismatches: 62, Indels: 14
0.81 0.16 0.04
Matches are distributed among these distances:
82 1 0.00
83 45 0.14
84 229 0.72
85 42 0.13
86 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (84 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:2911072 original size:168 final size:168
Alignment explanation
Indices: 2910786--2911260 Score: 632
Period size: 168 Copynumber: 2.8 Consensus size: 168
2910776 TTTTTTTTCT
*
2910786 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
* * * * * ** *
2910851 CTCAGCTCCAAGGTACATCATTTGCATCATAACTCAAGGCAAGAATAGCTATCTGCC-ACTAAAA
66 CTCAGCT-CAACGTACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAC-CAAA
*
2910915 GACCTTCGAGTTCAACTACGCTCAGC-TCCAAGGCACATC
129 GACCTTCAAGTTCAACTACGCTCAGCTTCCAAGGCACATC
*
2910954 ATTTGCAGTATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
* * *
2911019 CTCAACTCAACAGTACATTATTTGCAGCATAGTTTAAGTCAAGAAGGGCTATCTGCCAACCAAAG
66 CTCAGCTCAAC-GTACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAAG
* * * * * *
2911084 ACCCTCAAGTTCGACTACGTTCAGCTTCGAGGGCACATT
130 ACCTTCAAGTTCAACTACGCTCAGCTTCCAAGGCACATC
* ** * *
2911123 ATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTATCAA-TAAAGACCTTTAAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
* * * *
2911187 CTCAGCTTAACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAACCAAAG
66 CTCAGCTCAACG-TACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAAG
2911252 ACCTTCAAG
130 ACCTTCAAG
2911261 GGCACATCAT
Statistics
Matches: 269, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
167 4 0.01
168 217 0.81
169 48 0.18
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (168 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
CTCAGCTCAACGTACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGA
CCTTCAAGTTCAACTACGCTCAGCTTCCAAGGCACATC
Found at i:2911303 original size:63 final size:62
Alignment explanation
Indices: 2911200--2911318 Score: 202
Period size: 63 Copynumber: 1.9 Consensus size: 62
2911190 AGCTTAACGA
*
2911200 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAACCAAAGACCTTCAAGGG
1 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGATATCTGCCAA-CAAAGACCTTCAAGGG
* *
2911263 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAGACCTT
1 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGATATCTGCCAACAAAGACCTT
2911319 TGAGTTTGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
62 10 0.19
63 43 0.81
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (62 bp):
CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGATATCTGCCAACAAAGACCTTCAAGGG
Found at i:2911377 original size:146 final size:146
Alignment explanation
Indices: 2911108--2911406 Score: 447
Period size: 146 Copynumber: 2.0 Consensus size: 146
2911098 CTACGTTCAG
* * * * ** *
2911108 CTTCGAGGGCACATTATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTATCAATAAAGACCTT
1 CTTCGAGGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTT
* * *
2911173 TAAGTTCGACTACGCTCAGCTTAACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATA
66 TGAGTTCGACTACGCTCAGCTCAACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
2911238 TCTGCCAACCAAAGAC
131 TCTGCCAACCAAAGAC
* * *
2911254 CTTCAAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAGACCTT
1 CTTCGAGGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTT
* *
2911319 TGAGTTTGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
66 TGAGTTCGACTACGCTCAGCT-CAACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
2911383 ATCTGCCAACCAAAGAC
130 ATCTGCCAACCAAAGAC
2911400 CTTCGAG
1 CTTCGAG
2911407 TTCGACTACG
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
146 134 0.99
147 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (146 bp):
CTTCGAGGGCACATCATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGCCAACAAAGACCTT
TGAGTTCGACTACGCTCAGCTCAACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
TCTGCCAACCAAAGAC
Found at i:2911420 original size:84 final size:84
Alignment explanation
Indices: 2911261--2912054 Score: 667
Period size: 84 Copynumber: 9.5 Consensus size: 84
2911251 GACCTTCAAG
* * * *
2911261 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGA-CAAAGACCTTTGAGTT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
*
2911325 TGACTACGCTCAGCTCCAA
66 CGACTACGCTCAGCTCCAA
2911344 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
2911409 CGACTACGCTCAGCTCCAA
66 CGACTACGCTCAGCTCCAA
* * * * * * *
2911428 GGCATATCATTTGCATCATAACTTAAGTCGAGAAGGGTTATATG-CACACCAAAGGCCTTCGAAT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCA-ACCAAAGACCTTCGAGT
*
2911492 TCGACTACACTCAGCTCCAA
65 TCGACTACGCTCAGCTCCAA
* * * * * * *
2911512 GGCATATCATTTGCAGCATAGATTAAGTTGATAAGGGCTATATG----CCAAAGACCCTCGATTT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
* * * * * *
2911573 CAATTACACTCAACTTCGAG
66 CGACTACGCTCAGC-TCCAA
* * * * * * * * *
2911593 GGCACATCATTTACAGCATAACATAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGATTT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
2911658 CGACTACGCTCAGCT-CAA
66 CGACTACGCTCAGCTCCAA
* * *
2911676 CGACACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGTCAACCAAAGACCTTCGAGT
1 -GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGT
* * * * *
2911741 TTGATTACACTCAGCTTCGAG
65 TCGACTACGCTCAGC-TCCAA
* * * * * * * * * **
2911762 GGCACATTATTTACATCATAACTCAAGGCTAGAAGGGTTATATGTTAA-CAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
* * * *
2911826 TGACTATGCTCAGCTTCGAG
66 CGACTACGCTCAGC-TCCAA
* * * *
2911846 GGCAAATCATTTGCAGTATAGCTTAAGTCGAGAAGGACTATCT----ACCAAAGACCCTCGAGTT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
* * ** ** *
2911907 TGATTATACTCAGCTTTGAG
66 CGACTACGCTCAGC-TCCAA
* * * *** * * *
2911927 GGCATATCATTTGCAACATAGCTCAAGGAAAAAAGGGCTATTTGCCAACAAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
* *
2911992 CGACCACGCTCAGTTCCAA
66 CGACTACGCTCAGCTCCAA
* ** * * * *
2912011 GGAACATCATTTATAGCATAGCTCAAGGCAAGAAGGGTTATCTG
1 GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
2912055 TCACTAAGAT
Statistics
Matches: 571, Mismatches: 125, Indels: 29
0.79 0.17 0.04
Matches are distributed among these distances:
80 26 0.05
81 101 0.18
83 48 0.08
84 310 0.54
85 85 0.15
86 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (84 bp):
GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTT
CGACTACGCTCAGCTCCAA
Found at i:2911442 original size:230 final size:231
Alignment explanation
Indices: 2911033--2911736 Score: 584
Period size: 249 Copynumber: 3.0 Consensus size: 231
2911023 ACTCAACAGT
* **
2911033 ACATTATTTGCAGCATAGTTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGACCCTCAAGTTCGA
1 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGACCCTCAAGTTCGA
* * * * * *
2911098 CTACGTTCAGCTTCGAGGGCACATTATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTATCAA
66 CTACGCTCAGCTTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTACCAA
* * * *
2911163 TAAAGACCTTTAAGTTCGACTACGCTCAGCTTAACGACACATCATTTGCAGCATAGCTTAAGTCG
131 CAAAGACCTTCAAGTTCGACTACGCTCAGCTCAACGACACATCATTTGCAGCATAACTTAAGTCG
*
2911228 AGAAGGGATATCTGC-CAACCAAAGACCTTCAAGGGC
196 AGAAGGGATATATGCAC-ACCAAAGACCTTCAAGGGC
* * * * ** *
2911264 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGA-CAAAGACCTTTGAGTTTGA
1 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGACCCTCAAGTTCGA
* * * *
2911328 CTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
66 CTACGCTCAGCTTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTACCAA
* * * *
2911392 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGCATCATAACTTAAGT
131 -CAAAGACCTTCAAGTTCGACTACGCTCAGCT-CAACGACACATCATTTGCAGCATAACTTAAGT
* *
2911456 CGAGAAGGGTTATATGCACACCAAAGGCCTTCGAATTCGACTACACTCAGCTCCAAGGC
194 CGAGAAGGGATATATGCACACCAAA-------G-A--C--CT----TCA-----AGGGC
* ** * * * * *
2911515 ATATCATTTGCAGCATAGA-TTAAGTTGATAAGGGCTATATG----CCAAAGACCCTCGATTTCA
1 ACATCATTTGCAGCATA-ACTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGACCCTCAAGTTCG
* * * * * * * * *
2911575 ATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACAT-AAGGCTAGAAGGGTTATCTGCC
65 ACTACGCTCAGCTTCCAAGGCACATCATTTGCAGCATAAC-TCAAGGCGAGAAGGGCTATCTACC
** * * *
2911639 AACAAAAGACCTTTGATTTCGACTACGCTCAGCTCAACGACACATCATTTGCAGTATAGCTTAAG
129 AAC-AAAGACCTTCAAGTTCGACTACGCTCAGCTCAACGACACATCATTTGCAGCATAACTTAAG
* *
2911704 TCGAGAAGGGCTATCTGTCA-ACCAAAGACCTTC
193 TCGAGAAGGGATATATG-CACACCAAAGACCTTC
2911737 GAGTTTGATT
Statistics
Matches: 382, Mismatches: 60, Indels: 60
0.76 0.12 0.12
Matches are distributed among these distances:
229 44 0.12
230 98 0.26
231 42 0.11
233 2 0.01
237 3 0.01
238 1 0.00
239 1 0.00
240 1 0.00
241 1 0.00
242 3 0.01
246 3 0.01
248 26 0.07
249 115 0.30
250 3 0.01
251 38 0.10
252 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (231 bp):
ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAACCAAAGACCCTCAAGTTCGA
CTACGCTCAGCTTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGCTATCTACCAA
CAAAGACCTTCAAGTTCGACTACGCTCAGCTCAACGACACATCATTTGCAGCATAACTTAAGTCG
AGAAGGGATATATGCACACCAAAGACCTTCAAGGGC
Found at i:2911688 original size:165 final size:164
Alignment explanation
Indices: 2911254--2912054 Score: 806
Period size: 165 Copynumber: 4.8 Consensus size: 164
2911244 AACCAAAGAC
* * * *
2911254 CTTCAAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAGACCTT
1 CTTCGAGGGCACATCATTTGCAGCATAAC-TAAGGCGAGAAGGGTTATATGCCAACAAAGACCTT
*
2911319 TGAGTTT-GACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
65 CGA-TTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
* * * *
2911383 ATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
129 ATCTG---ACCAAAGACCCTCGAGTTTGATTACACTCAG
* * * * * * *
2911422 C-TCCAAGGCATATCATTTGCATCATAACTTAAGTCGAGAAGGGTTATATGCACACCAAAGGCCT
1 CTTCGAGGGCACATCATTTGCAGCATAAC-TAAGGCGAGAAGGGTTATATGC-CAACAAAGACCT
* * * * * *
2911486 TCGAATTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAGATTAAGTTGATAAGGGCT
64 TCGATTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
* * *
2911551 ATATG-CCAAAGACCCTCGA-TTTCAATTACACTCAA
129 ATCTGACCAAAGACCCTCGAGTTT-GATTACACTCAG
* * *
2911586 CTTCGAGGGCACATCATTTACAGCATAACATAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCT
1 CTTCGAGGGCACATCATTTGCAGCATAAC-TAAGGCGAGAAGGGTTATATGCCAAC-AAAGACCT
* * *
2911651 TTGATTTCGACTACGCTCAGCT-CAACGACACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGC
64 TCGATTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
*
2911715 TATCTGTCAACCAAAGACCTTCGAGTTTGATTACACTCAG
128 TATCTG---ACCAAAGACCCTCGAGTTTGATTACACTCAG
* * * * **
2911755 CTTCGAGGGCACATTATTTACATCATAACTCAAGGCTAGAAGGGTTATATGTTAACAAAGACCTT
1 CTTCGAGGGCACATCATTTGCAGCATAACT-AAGGCGAGAAGGGTTATATGCCAACAAAGACCTT
* * * * * *
2911820 CGAGTTT-GACTATGCTCAGCTTCGAGGGCAAATCATTTGCAGTATAGCTTAAGTCGAGAAGGAC
65 CGA-TTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
*
2911884 TATCT-ACCAAAGACCCTCGAGTTTGATTATACTCAG
128 TATCTGACCAAAGACCCTCGAGTTTGATTACACTCAG
* * * * ** * * *
2911920 CTTTGAGGGCATATCATTTGCAACATAGCTCAAGGAAAAAAGGGCTATTTGCCAACAAAAGACCT
1 CTTCGAGGGCACATCATTTGCAGCATAACT-AAGGCGAGAAGGGTTATATGCCAAC-AAAGACCT
* * * * ** * * * *
2911985 TCGAGTTCGACCACGCTCAGTTCCAAGGAACATCATTTATAGCATAGCTCAAGGCAAGAAGGGTT
64 TCGATTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
2912050 ATCTG
129 ATCTG
2912055 TCACTAAGAT
Statistics
Matches: 526, Mismatches: 89, Indels: 38
0.81 0.14 0.06
Matches are distributed among these distances:
163 2 0.00
164 28 0.05
165 214 0.41
166 22 0.04
167 47 0.09
168 93 0.18
169 116 0.22
170 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (164 bp):
CTTCGAGGGCACATCATTTGCAGCATAACTAAGGCGAGAAGGGTTATATGCCAACAAAGACCTTC
GATTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
CTGACCAAAGACCCTCGAGTTTGATTACACTCAG
Found at i:2911921 original size:249 final size:244
Alignment explanation
Indices: 2911261--2912051 Score: 698
Period size: 249 Copynumber: 3.2 Consensus size: 244
2911251 GACCTTCAAG
* * * * * *
2911261 GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAGACCTTTGAGTTT
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATAT---GACAAAGACCTTCGAGTTT
* *
2911326 GACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
63 GACTACGCTCAGCTTCGAGGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT--C
* *
2911390 AACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCATCATAACTTAAG
126 -ACCAAAGACCTTCGAGTTTGACTACGCTCAGCT-CAAGGCATATCATTTGCAT-ATAGCTTAAG
* * *
2911455 TCGAGAAGGGTTATATGCACACCAAAGGCCTTCGAATTCGACTACACTCAGC-TCCAA
188 TCGAGAAGGGCTATATGCA-ACCAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAA
* * * * * * * *
2911512 GGCATATCATTTGCAGCATAGA-TTAA-GTTGATAAGGGCTATATGCCAAAGACCCTCGA-TTTC
1 GGCACATCATTTACAGCATA-ACTCAAGGCT-AGAAGGGTTATATGACAAAGACCTTCGAGTTT-
* * * * * * * * * *
2911574 AATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACATAAGGCTAGAAGGGTTATCTGCC
63 GACTACGCTCAGCTTCGAGGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT--C
* * * *
2911639 AACAAAAGACCTTTGA-TTTCGACTACGCTCAGCTCAACGACACATCATTTGCAGTATAGCTTAA
126 -ACCAAAGACCTTCGAGTTT-GACTACGCTCAGCTCAA-GGCATATCATTTGCA-TATAGCTTAA
* * * * *
2911703 GTCGAGAAGGGCTATCTGTCAACCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAG
187 GTCGAGAAGGGCTATATG-CAACCAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAA
* *
2911762 GGCACATTATTTACATCATAACTCAAGGCTAGAAGGGTTATATGTTAACAAAGACCTTCGAGTTT
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATG---ACAAAGACCTTCGAGTTT
* * * *
2911827 GACTATGCTCAGCTTCGAGGGCAAATCATTTGCAGTATAGCTTAAGTCGAGAAGGACTATCT-AC
63 GACTACGCTCAGCTTCGAGGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTCAC
* * ** * * * * **
2911891 CAAAGACCCTCGAGTTTGATTATACTCAGCTTTGAGGGCATATCATTTGCAACATAGCTCAAGGA
128 CAAAGACCTTCGAGTTTGACTACGCTCAGC--TCAAGGCATATCATTTGC-ATATAGCTTAAGTC
* * * * * *
2911956 AAAAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACCACGCTCAG-TTCCAA
190 GAGAAGGGCTATATG-CAACCAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAA
* * * *
2912011 GGAACATCATTTATAGCATAGCTCAAGGCAAGAAGGGTTAT
1 GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTAT
2912052 CTGTCACTAA
Statistics
Matches: 430, Mismatches: 91, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
247 3 0.01
248 26 0.06
249 198 0.46
250 101 0.23
251 38 0.09
252 1 0.00
253 60 0.14
254 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (244 bp):
GGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGACAAAGACCTTCGAGTTTGAC
TACGCTCAGCTTCGAGGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTCACCAA
AGACCTTCGAGTTTGACTACGCTCAGCTCAAGGCATATCATTTGCATATAGCTTAAGTCGAGAAG
GGCTATATGCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTTCCAA
Found at i:2912020 original size:334 final size:333
Alignment explanation
Indices: 2911254--2912057 Score: 936
Period size: 334 Copynumber: 2.4 Consensus size: 333
2911244 AACCAAAGAC
* * * * *** * *
2911254 CTTCAAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGAC-AAAGACCT
1 CTTCGAGGGCACATCATTTACAACATAACATAAGGAAAAAAGGGTTATCTGCCAACAAAAGACCT
* *
2911318 TTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
66 TTGAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
* * * *
2911383 ATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCATCATA
131 ATCTGTCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACATCATA
* * *
2911448 ACTTAAGTCGAGAAGGGTTATATGCACACCAAAGGCCTTCGAATTCGACTACACTCAGCTCCAAG
196 ACTCAAGGCGAGAAGGGTTATATGCACACCAAAGACCTTCGAATTCGACTACACTCAGCTCCAAG
* * * * *
2911513 GCATATCATTTGCAGCATAGATTAAGTTGATAAGGGCTATATGCCAAAGACCCTCGATTTCAATT
261 GCAAATCATTTGCAGCATAGATTAAGTCGAGAAGGACTATATACCAAAGACCCTCGATTTCAATT
2911578 ACACTCAA
326 ACACTCAA
* ** *
2911586 CTTCGAGGGCACATCATTTACAGCATAACATAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCT
1 CTTCGAGGGCACATCATTTACAACATAACATAAGGAAAAAAGGGTTATCTGCCAACAAAAGACCT
* * *
2911651 TTGATTTCGACTACGCTCAGCT-CAACGACACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGC
66 TTGAGTTCGACTACGCTCAGCTCCAAGGA-ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
* * * * *
2911715 TATCTGTCAACCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAGGGCACATTATTTACATCA
130 TATCTGTCAACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACATCA
* * * * **
2911780 TAACTCAAGGCTAGAAGGGTTATATGTTA-A-CAAAGACCTTCGAGTTTGACTATGCTCAGCTTC
194 TAACTCAAGGCGAGAAGGGTTATATG-CACACCAAAGACCTTCGAATTCGACTACACTCAGC-TC
* * * * *
2911843 GAGGGCAAATCATTTGCAGTATAGCTTAAGTCGAGAAGGACTATCTACCAAAGACCCTCGAGTTT
257 CAAGGCAAATCATTTGCAGCATAGATTAAGTCGAGAAGGACTATATACCAAAGACCCTCGA-TTT
* * *
2911908 -GATTATACTCAG
321 CAATTACACTCAA
* * * * * *
2911920 CTTTGAGGGCATATCATTTGCAACATAGC-TCAAGGAAAAAAGGGCTATTTGCCAACAAAAGACC
1 CTTCGAGGGCACATCATTTACAACATAACAT-AAGGAAAAAAGGGTTATCTGCCAACAAAAGACC
* * * ** * * * *
2911984 TTCGAGTTCGACCACGCTCAGTTCCAAGGAACATCATTTATAGCATAGCTCAAGGCAAGAAGGGT
65 TTTGAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
2912049 TATCTGTCA
130 TATCTGTCA
2912058 CTAAGATTGT
Statistics
Matches: 400, Mismatches: 64, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
332 54 0.14
333 125 0.31
334 212 0.53
335 9 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (333 bp):
CTTCGAGGGCACATCATTTACAACATAACATAAGGAAAAAAGGGTTATCTGCCAACAAAAGACCT
TTGAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
ATCTGTCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACATCATA
ACTCAAGGCGAGAAGGGTTATATGCACACCAAAGACCTTCGAATTCGACTACACTCAGCTCCAAG
GCAAATCATTTGCAGCATAGATTAAGTCGAGAAGGACTATATACCAAAGACCCTCGATTTCAATT
ACACTCAA
Found at i:2912658 original size:36 final size:36
Alignment explanation
Indices: 2912618--2913154 Score: 350
Period size: 37 Copynumber: 14.5 Consensus size: 36
2912608 TATATAAGTG
*
2912618 TATATATTATATAATTTTGAAAACATTTTGAAAATA
1 TATATATTATATAATTTTTAAAACATTTTGAAAATA
* * *
2912654 TATATGA-TATAT-AGTTCTAAAACATTTTTCAAAACATA
1 TATAT-ATTATATAATTTTTAAAACA-TTTT-GAAA-ATA
*
2912692 TATATATTATATAGTTTTTAAAACATTTTGAAAATA
1 TATATATTATATAATTTTTAAAACATTTTGAAAATA
*
2912728 TATATGA-TATATAGTTTTTAAAACATTTTTGAAAACATA
1 TATAT-ATTATATAATTTTTAAAACA-TTTTG-AAA-ATA
* *
2912767 TATATATATATTTTATGATTTTTAAAACATTTTAAAAATA
1 TATATAT-TA---TATAATTTTTAAAACATTTTGAAAATA
* * * * *
2912807 TATATAATATAT-AGTTTCAAAATATTTTGAAAACATT
1 TATATATTATATAATTTTTAAAACATTTTG-AAA-ATA
*
2912844 TATATATTATATAGTTTTTAAAACATTTTTGAAAATA
1 TATATATTATATAATTTTTAAAACA-TTTTGAAAATA
* * *
2912881 AATATAATATATAGTTTTTAAAACATTTTTGAAAAAAATA
1 TATATATTATATAATTTTTAAAACA-TTTTG---AAAATA
*
2912921 TATATATTATATAGTTTTTAAAACATTTTGAAAATA
1 TATATATTATATAATTTTTAAAACATTTTGAAAATA
* * *
2912957 TATA-A-TGTATAGTTTTTAAAAAGCATTTTCAAAACATA
1 TATATATTATATAATTTTT-AAAA-CATTTT-GAAA-ATA
** *
2912995 TATATATTATATAGATTTAAAAAAAAATCTTTTGAAAA-A
1 TATATATTATATA-ATTT-TTAAAACA--TTTTGAAAATA
* ** * *
2913034 CATATAACATATAGTTTTAAAAACATTTT-----T-
1 TATATATTATATAATTTTTAAAACATTTTGAAAATA
* * * * *
2913064 GA-ATACTATATAATTTTGAAAATATTTTTAAAAAATA
1 TATATATTATATAATTTTTAAAACA-TTTT-GAAAATA
* * * *
2913101 TACATAATATATAA-TTTTAAAATATTTTTAAAA-A
1 TATATATTATATAATTTTTAAAACATTTTGAAAATA
2913135 TATATATTATATAGATTTTT
1 TATATATTATATA-ATTTTT
2913155 GGAAAAAATT
Statistics
Matches: 404, Mismatches: 53, Indels: 88
0.74 0.10 0.16
Matches are distributed among these distances:
29 17 0.04
30 5 0.01
34 23 0.06
35 36 0.09
36 71 0.18
37 77 0.19
38 52 0.13
39 41 0.10
40 47 0.12
41 13 0.03
42 8 0.02
43 14 0.03
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (36 bp):
TATATATTATATAATTTTTAAAACATTTTGAAAATA
Found at i:2912698 original size:74 final size:75
Alignment explanation
Indices: 2912618--2913063 Score: 519
Period size: 74 Copynumber: 5.9 Consensus size: 75
2912608 TATATAAGTG
* * *
2912618 TATATATTATATAATTTTGAAAACATTTTGAAAATATATATGATATATAG-TTCTAAAACATTTT
1 TATATATTATATAATTTTTAAAACATTTTGAAAATATATATAATATATAGTTTTTAAAACATTTT
2912682 TCAAAACATA
66 TCAAAACATA
* *
2912692 TATATATTATATAGTTTTTAAAACATTTTGAAAATATATATGATATATAGTTTTTAAAACATTTT
1 TATATATTATATAATTTTTAAAACATTTTGAAAATATATATAATATATAGTTTTTAAAACATTTT
*
2912757 TGAAAACATA
66 TCAAAACATA
* * * *
2912767 TATATATATATTTTATGATTTTTAAAACATTTTAAAAATATATATAATATATAG-TTTCAAAATA
1 TATATAT-TA---TATAATTTTTAAAACATTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
2912831 -TTTTGAAAACATT
62 TTTTTCAAAACATA
* *
2912844 TATATATTATATAGTTTTTAAAACATTTTTGAAAATAAATATAATATATAGTTTTTAAAACATTT
1 TATATATTATATAATTTTTAAAACA-TTTTGAAAATATATATAATATATAGTTTTTAAAACATTT
* *
2912909 TTGAAAAAAATA
65 TT-CAAAACATA
* *
2912921 TATATATTATATAGTTTTTAAAACATTTTG-AAA-ATATATAATGTATAGTTTTTAAAAAGCA-T
1 TATATATTATATAATTTTTAAAACATTTTGAAAATATATATAATATATAGTTTTT-AAAA-CATT
2912983 TTTCAAAACATA
64 TTTCAAAACATA
** * * * *
2912995 TATATATTATATAGATTTAAAAAAAAATCTTTTGAAAA-ACATATAACATATAGTTTTAAAAACA
1 TATATATTATATA-ATTT-TTAAAACA--TTTTGAAAATATATATAATATATAGTTTTTAAAACA
2913059 TTTTT
62 TTTTT
2913064 GAATACTATA
Statistics
Matches: 323, Mismatches: 32, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
73 14 0.04
74 109 0.34
75 51 0.16
76 20 0.06
77 52 0.16
78 21 0.07
79 56 0.17
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (75 bp):
TATATATTATATAATTTTTAAAACATTTTGAAAATATATATAATATATAGTTTTTAAAACATTTT
TCAAAACATA
Found at i:2912805 original size:153 final size:151
Alignment explanation
Indices: 2912618--2913075 Score: 583
Period size: 153 Copynumber: 3.0 Consensus size: 151
2912608 TATATAAGTG
*
2912618 TATATATTATATAATTTTGAAAACATTTTGAAAATATATATGATATATAGTTCTAAAACATTTTT
1 TATATATTATAT-ATTTTTAAAACATTTTGAAAATATATAT-ATATATAGTT-TAAAACATTTTT
* *
2912683 CAAAACATATATATATTATATAGTTTTTAAAACA-TTTTGAAAATATATATGATATATAGTTTTT
63 CAAAACATATATATATTATATAGTTTTTAAAACATTTTTGAAAATAAATATAATATATAGTTTTT
2912747 AAAACATTTTTGAAAACATATATA
128 AAAACATTTTTGAAAACATATATA
* * *
2912771 TATATATTTTATGATTTTTAAAACATTTTAAAAATATATATAATATATAGTTTCAAA-ATATTTT
1 TATATATTATAT-ATTTTTAAAACATTTTGAAAATATATAT-ATATATAGTTTAAAACAT-TTTT
* *
2912835 GAAAACATTTATATATTATATAGTTTTTAAAACATTTTTGAAAATAAATATAATATATAGTTTTT
63 CAAAACATATATATATTATATAGTTTTTAAAACATTTTTGAAAATAAATATAATATATAGTTTTT
2912900 AAAACATTTTTGAAAA-A-A-ATA
128 AAAACATTTTTGAAAACATATATA
*
2912921 TATATATTATATAGTTTTTAAAACATTTTGAAAATATATA-ATGTATAGTTTTTAAAAAGCA-TT
1 TATATATTATATA-TTTTTAAAACATTTTGAAAATATATATATATATAG--TTT-AAAA-CATTT
** * * *
2912984 TTCAAAACATATATATATTATATAGATTTAAAAAAAAATCTTTTGAAAA-ACATATAACATATAG
61 TTCAAAACATATATATATTATATAG-TTT-TTAAAACAT-TTTTGAAAATAAATATAATATATAG
* *
2913048 TTTTAAAAACATTTTTGAATAC-TATATA
123 TTTTTAAAACATTTTTGAAAACATATATA
2913076 ATTTTGAAAA
Statistics
Matches: 268, Mismatches: 23, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
148 7 0.03
149 1 0.00
150 42 0.16
151 31 0.12
152 44 0.16
153 130 0.49
154 10 0.04
155 3 0.01
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (151 bp):
TATATATTATATATTTTTAAAACATTTTGAAAATATATATATATATAGTTTAAAACATTTTTCAA
AACATATATATATTATATAGTTTTTAAAACATTTTTGAAAATAAATATAATATATAGTTTTTAAA
ACATTTTTGAAAACATATATA
Found at i:2913102 original size:29 final size:29
Alignment explanation
Indices: 2913042--2913102 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
2913032 AACATATAAC
* * * *
2913042 ATATAGTTTTAAAAACATTTTTGAATACT
1 ATATAATTTTAAAAACATTTTTAAAAAAT
* *
2913071 ATATAATTTTGAAAATATTTTTAAAAAAT
1 ATATAATTTTAAAAACATTTTTAAAAAAT
2913100 ATA
1 ATA
2913103 CATAATATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (29 bp):
ATATAATTTTAAAAACATTTTTAAAAAAT
Found at i:2913241 original size:11 final size:11
Alignment explanation
Indices: 2913167--2913241 Score: 55
Period size: 11 Copynumber: 6.4 Consensus size: 11
2913157 AAAAAATTCT
*
2913167 TTTTTAGTTTA
1 TTTTTATTTTA
2913178 TTTTTA-TTTA
1 TTTTTATTTTA
2913188 TTTACCTT-TTTTA
1 TTT---TTATTTTA
2913201 TTTTTTATTATTA
1 -TTTTTATT-TTA
*
2913214 TTAATTATTTTA
1 TT-TTTATTTTA
2913226 TTTTTATTTTCA
1 TTTTTATTTT-A
2913238 TTTT
1 TTTT
2913242 GTTGCAGGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 17
0.74 0.03 0.24
Matches are distributed among these distances:
10 7 0.13
11 15 0.28
12 14 0.26
13 14 0.26
14 3 0.06
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:2914546 original size:3 final size:3
Alignment explanation
Indices: 2914538--2914587 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
2914528 ATATATACAT
2914538 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2914586 TT
1 TT
2914588 TACTTCTTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2914786 original size:12 final size:12
Alignment explanation
Indices: 2914756--2914788 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2914746 CTTTCTTTTG
2914756 ATTCATTTA-GT
1 ATTCATTTATGT
*
2914767 ATTTATTTATGT
1 ATTCATTTATGT
2914779 ATTCATTTAT
1 ATTCATTTAT
2914789 TCCGTCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (12 bp):
ATTCATTTATGT
Found at i:2920947 original size:24 final size:24
Alignment explanation
Indices: 2920920--2920967 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
2920910 GGCCAGAAAT
*
2920920 TCCTCAGCACCAACAGCATATGAC
1 TCCTCAGCACCAACAACATATGAC
2920944 TCCTCAGCACCAACAACATATGAC
1 TCCTCAGCACCAACAACATATGAC
2920968 GTGAGAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.38, G:0.10, T:0.17
Consensus pattern (24 bp):
TCCTCAGCACCAACAACATATGAC
Found at i:2932164 original size:21 final size:21
Alignment explanation
Indices: 2932139--2932186 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
2932129 GTTAAAGAAT
2932139 GTACTTAGTGCCAATCCTAAG
1 GTACTTAGTGCCAATCCTAAG
*
2932160 GTACTTAGTGCCAATCCTGAG
1 GTACTTAGTGCCAATCCTAAG
*
2932181 GCACTT
1 GTACTT
2932187 TTGAATATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (21 bp):
GTACTTAGTGCCAATCCTAAG
Found at i:2933517 original size:25 final size:25
Alignment explanation
Indices: 2933456--2933577 Score: 112
Period size: 25 Copynumber: 5.0 Consensus size: 25
2933446 CAACTCATAT
*
2933456 AATTT-TCACCGAAGTG-CCACATAG-
1 AATTTGTC-CCGAAG-GACCACGTAGA
* **
2933480 AATTTGTCTCGAAGGACCGTGTAGA
1 AATTTGTCCCGAAGGACCACGTAGA
2933505 AATTTGTCCCGAAGGACCACGTAGA
1 AATTTGTCCCGAAGGACCACGTAGA
* *
2933530 AATTTGTCCCAAAGGACCACATAG-
1 AATTTGTCCCGAAGGACCACGTAGA
* *
2933554 -A-TTGTCTCGAAGGACCGCGTAGA
1 AATTTGTCCCGAAGGACCACGTAGA
2933577 A
1 A
2933578 CCCTCGAATC
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
22 17 0.21
23 2 0.03
24 15 0.19
25 46 0.57
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
AATTTGTCCCGAAGGACCACGTAGA
Found at i:2939966 original size:46 final size:46
Alignment explanation
Indices: 2939914--2940047 Score: 207
Period size: 46 Copynumber: 2.9 Consensus size: 46
2939904 TTCATTTATA
* *
2939914 CATTTAAATTATGGCAT-CTTTCATGCCTTAATGTATCATTTCACG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCACG
*
2939959 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCACG
* * *
2940005 CATTTTAATTATGACATCCTTTCATGCCTTAAGGCATCCTTTC
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTC
2940048 GTGCCTTAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 16 0.20
46 66 0.80
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (46 bp):
CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCACG
Found at i:2940001 original size:20 final size:20
Alignment explanation
Indices: 2939972--2940071 Score: 110
Period size: 20 Copynumber: 4.7 Consensus size: 20
2939962 TTTAATTATG
2939972 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
2939992 GCATCATTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
*
2940017 GACATCCTTTCATGCCTTAAG
1 G-CATCCTTTCATGCCTTAAT
*
2940038 GCATCCTTTCGTGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
2940058 GCATCCTTTCATGC
1 GCATCCTTTCATGC
2940072 ACTTTACATA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
20 43 0.65
21 2 0.03
22 2 0.03
23 2 0.03
24 2 0.03
25 3 0.05
26 12 0.18
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:2940029 original size:26 final size:25
Alignment explanation
Indices: 2939952--2940031 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 25
2939942 TAATGTATCA
*
2939952 TTTCACGCATTTTAATTATGGCATCC
1 TTTCATGCATTTTAATTAT-GCATCC
* *
2939978 TTTCATGC--CTT-A--ATGCATCA
1 TTTCATGCATTTTAATTATGCATCC
2939998 TTTCATGCATTTTAATTATGACATCC
1 TTTCATGCATTTTAATTATG-CATCC
2940024 TTTCATGC
1 TTTCATGC
2940032 CTTAAGGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 2 0.05
23 2 0.05
24 2 0.05
25 3 0.07
26 19 0.44
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (25 bp):
TTTCATGCATTTTAATTATGCATCC
Found at i:2940606 original size:95 final size:94
Alignment explanation
Indices: 2940475--2940679 Score: 231
Period size: 95 Copynumber: 2.2 Consensus size: 94
2940465 GATACTTCTA
* * * *
2940475 TACTATGGTACCGATACCCCCTTCCGATATCGATACCAATTTTA-ACTTCGATGTTTCCTAGTAT
1 TACTATGGTATCGATACCCCCTTCAGATATCGATACCAATTTTAGA-TTCGATGTTGCATAGTAT
2940539 CGATAACC-TTACCATGGTATCAATACTACCC
65 CGAT-ACCTTTACCATGGTATCAATACTA-CC
* ** * *
2940570 TACTATGGTATCGATACCCCCTTACAG-TTTTTATACCGATTTTAGATTCGATGTTGCATGGTAT
1 TACTATGGTATCGATACCCCCTT-CAGATATCGATACCAATTTTAGATTCGATGTTGCATAGTAT
**
2940634 CGATACCTTTACCATGGTATTGATACTACC
65 CGATACCTTTACCATGGTATCAATACTACC
2940664 T-C-ATAGGTATCGATAC
1 TACTAT-GGTATCGATAC
2940680 TGATTGAATC
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
92 2 0.02
93 12 0.13
94 6 0.06
95 72 0.76
96 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (94 bp):
TACTATGGTATCGATACCCCCTTCAGATATCGATACCAATTTTAGATTCGATGTTGCATAGTATC
GATACCTTTACCATGGTATCAATACTACC
Found at i:2946754 original size:20 final size:20
Alignment explanation
Indices: 2946725--2946921 Score: 88
Period size: 26 Copynumber: 8.7 Consensus size: 20
2946715 TAAATTATGG
* *
2946725 CATCCATTCATGCCCTAATA
1 CATCCTTTCATGCCTTAATA
*
2946745 CATCCTTTCATGCATTTTAATTA
1 CATCCTTTCATGC--CTTAA-TA
2946768 TGTCATCCTTTCATGCCTTAATA
1 ---CATCCTTTCATGCCTTAATA
*
2946791 CATCCTTTCATGCATTTTAATTA
1 CATCCTTTCATGC--CTTAA-TA
*
2946814 TGGCATCCTTTCATGCATTTTAATTA
1 ---CATCCTTTCATGC--CTTAA-TA
*
2946840 TGGCATCCTTTCATGCCTTAATG
1 ---CATCCTTTCATGCCTTAATA
* *
2946863 CATCCTTTTATGCATTTTAATTA
1 CATCCTTTCATGC--CTTAA-TA
* *
2946886 TGGAATCCTTTCATGCCTTAATT
1 ---CATCCTTTCATGCCTTAATA
2946909 CATCCTTTCATGC
1 CATCCTTTCATGC
2946922 ATTTTACATT
Statistics
Matches: 144, Mismatches: 15, Indels: 36
0.74 0.08 0.18
Matches are distributed among these distances:
20 49 0.34
22 11 0.08
23 9 0.06
24 12 0.08
26 63 0.44
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATA
Found at i:2946767 original size:46 final size:46
Alignment explanation
Indices: 2946698--2946829 Score: 203
Period size: 46 Copynumber: 2.9 Consensus size: 46
2946688 ACGTATTAAA
* * *
2946698 ACATCCATTT-ATACATTTAAATTATGGCATCCATTCATGCCCTAAT
1 ACATCC-TTTCATGCATTTTAATTATGGCATCCTTTCATGCCCTAAT
* *
2946744 ACATCCTTTCATGCATTTTAATTATGTCATCCTTTCATGCCTTAAT
1 ACATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCCTAAT
2946790 ACATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGC
1 ACATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGC
2946830 ATTTTAATTA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 3 0.04
46 76 0.96
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.42
Consensus pattern (46 bp):
ACATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCCTAAT
Found at i:2946824 original size:72 final size:72
Alignment explanation
Indices: 2946745--2946901 Score: 278
Period size: 72 Copynumber: 2.2 Consensus size: 72
2946735 TGCCCTAATA
*
2946745 CATCCTTTCATGCATTTTAATTATGTCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTA
1 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTA
2946810 ATTATGG
66 ATTATGG
* *
2946817 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTTATGCATTTTA
1 CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTA
2946882 ATTATGG
66 ATTATGG
*
2946889 AATCCTTTCATGC
1 CATCCTTTCATGC
2946902 CTTAATTCAT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 81 1.00
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (72 bp):
CATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTA
ATTATGG
Found at i:2946866 original size:46 final size:46
Alignment explanation
Indices: 2946816--2946927 Score: 197
Period size: 46 Copynumber: 2.4 Consensus size: 46
2946806 TTTAATTATG
*
2946816 GCATCCTTTCATGCATTTTAATTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
*
2946862 GCATCCTTTTATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
*
2946908 TCATCCTTTCATGCATTTTA
1 GCATCCTTTCATGCATTTTA
2946928 CATTCTCTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTAATTATGGAATCCTTTCATGCCTTAAT
Found at i:2946867 original size:118 final size:118
Alignment explanation
Indices: 2946711--2946927 Score: 362
Period size: 118 Copynumber: 1.8 Consensus size: 118
2946701 TCCATTTATA
**
2946711 CATTTAAATTATGGCATCCATTCATGCCCTAATACATCCTTTCATGCATTTTAATTATGTCATCC
1 CATTTAAATTATGGCATCCATTCATGCCCTAATACATCCTTTCATGCATTTTAATTATGGAATCC
2946776 TTTCATGCCTTAATACATCCTTTCATGCATTTTAATTATGGCATCCTTTCATG
66 TTTCATGCCTTAATACATCCTTTCATGCATTTTAATTATGGCATCCTTTCATG
* * * * *
2946829 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTTATGCATTTTAATTATGGAATCC
1 CATTTAAATTATGGCATCCATTCATGCCCTAATACATCCTTTCATGCATTTTAATTATGGAATCC
*
2946894 TTTCATGCCTTAATTCATCCTTTCATGCATTTTA
66 TTTCATGCCTTAATACATCCTTTCATGCATTTTA
2946928 CATTCTCTAA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 91 1.00
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (118 bp):
CATTTAAATTATGGCATCCATTCATGCCCTAATACATCCTTTCATGCATTTTAATTATGGAATCC
TTTCATGCCTTAATACATCCTTTCATGCATTTTAATTATGGCATCCTTTCATG
Found at i:2947389 original size:22 final size:22
Alignment explanation
Indices: 2947314--2947382 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
2947304 TACTACCCTA
2947314 GTATCGATACTTCTATACTATG
1 GTATCGATACTTCTATACTATG
2947336 GTATCGATACTTCTATACTATG
1 GTATCGATACTTCTATACTATG
*
2947358 GTATCGATACTTATATACTATG
1 GTATCGATACTTCTATACTATG
2947380 GTA
1 GTA
2947383 CTGATACCCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (22 bp):
GTATCGATACTTCTATACTATG
Found at i:2947485 original size:95 final size:95
Alignment explanation
Indices: 2947373--2947561 Score: 281
Period size: 95 Copynumber: 2.0 Consensus size: 95
2947363 GATACTTATA
* *
2947373 TACTATGGTACTGATACCCCCTTCCGGTATCGATACCAATTTTA-ACTTCGATGTTTCCTGATAT
1 TACTATGGTACTGATACCCCCTTACGGTATCGATACCAATTTTAGA-TTCGATGTTGCCTGATAT
*
2947437 TGATACCCTTACCATGGTATCAATACTACCC
65 CGATACCCTTACCATGGTATCAATACTACCC
* ** *
2947468 TACTATGGTATTGATACCCCCTTACGGTATCGATACTGATTTTAGATTCGATGTTGCCTGGTATC
1 TACTATGGTACTGATACCCCCTTACGGTATCGATACCAATTTTAGATTCGATGTTGCCTGATATC
* *
2947533 GATACCCTTACCATGGTATCGATATTACC
66 GATACCCTTACCATGGTATCAATACTACC
2947562 TCATAGGTAT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
95 83 0.99
96 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (95 bp):
TACTATGGTACTGATACCCCCTTACGGTATCGATACCAATTTTAGATTCGATGTTGCCTGATATC
GATACCCTTACCATGGTATCAATACTACCC
Found at i:2951785 original size:29 final size:29
Alignment explanation
Indices: 2951749--2951834 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 29
2951739 ATAAAATATC
2951749 TATTTTAATAATATATTTATTTATTATTA
1 TATTTTAATAATATATTTATTTATTATTA
* * *
2951778 TATTTTAATTATTTATTATATTAATTA-TA
1 TATTTTAATAATATATT-TATTTATTATTA
*
2951807 -ATTAATTAGA-ATTATATTTATTTATTAT
1 TATT--TTA-ATAATATATTTATTTATTAT
2951835 ATTTATTTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
28 3 0.07
29 25 0.56
30 16 0.36
31 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (29 bp):
TATTTTAATAATATATTTATTTATTATTA
Found at i:2951801 original size:16 final size:16
Alignment explanation
Indices: 2951772--2951837 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 16
2951762 TATTTATTTA
2951772 TTATTATATTTTAATTAT
1 TTATTATA--TTAATTAT
2951790 TTATTATATTAATTAT
1 TTATTATATTAATTAT
*
2951806 AATTAATTAGAATTATATTTAT
1 --TT-ATTA-TATTA-A-TTAT
2951828 TTATTATATT
1 TTATTATATT
2951838 TATTTGTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
16 8 0.20
18 13 0.32
19 8 0.20
20 6 0.15
21 1 0.03
22 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATTATATTAATTAT
Found at i:2951835 original size:13 final size:13
Alignment explanation
Indices: 2951762--2951847 Score: 61
Period size: 13 Copynumber: 6.5 Consensus size: 13
2951752 TTTAATAATA
2951762 TATT-TATTTA-T
1 TATTATATTTATT
*
2951773 TATTATATTTTAAT
1 TATTATA-TTTATT
2951787 TATT-TATTATATT
1 TATTATATT-TATT
* *
2951800 AATTATAATTAATT
1 TATTAT-ATTTATT
*
2951814 AGAATTATATTTATT
1 --TATTATATTTATT
2951829 TATTATATTTATT
1 TATTATATTTATT
*
2951842 TGTTAT
1 TATTAT
2951848 TAATTTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
11 4 0.07
12 4 0.07
13 29 0.48
14 9 0.15
15 9 0.15
16 6 0.10
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTATATTTATT
Found at i:2951849 original size:16 final size:16
Alignment explanation
Indices: 2951760--2951853 Score: 73
Period size: 17 Copynumber: 5.4 Consensus size: 16
2951750 ATTTTAATAA
2951760 TATATTTATTTATTAT
1 TATATTTATTTATTAT
*
2951776 TATATTTTAATTATTTAT
1 TATA-TTTATTTA-TTAT
*
2951794 TATATTAATTATAATTAAT
1 TATATTTATT-T-ATT-AT
*
2951813 TAGAATTATATTTATTTAT
1 TA-TATT-TATTTA-TTAT
*
2951832 TATATTTATTTGTTAT
1 TATATTTATTTATTAT
2951848 TA-ATTT
1 TATATTT
2951854 CAATTTGGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
15 4 0.06
16 10 0.16
17 16 0.25
18 14 0.22
19 10 0.16
20 6 0.10
21 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TATATTTATTTATTAT
Found at i:2952337 original size:24 final size:24
Alignment explanation
Indices: 2952309--2952355 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2952299 AATGATAAGC
* *
2952309 GAACACAAATGAATGAACGTAAAT
1 GAACACAAACGAATGAACATAAAT
2952333 GAACACAAACGAATGAACATAAA
1 GAACACAAACGAATGAACATAAA
2952356 ATTAATTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.13
Consensus pattern (24 bp):
GAACACAAACGAATGAACATAAAT
Found at i:2953724 original size:3 final size:3
Alignment explanation
Indices: 2953718--2953759 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
2953708 TTTTTTTTAT
* *
2953718 TTA TTA TTTA TTA TAA TTA ATA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2953760 TTCTTTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2955343 original size:4 final size:4
Alignment explanation
Indices: 2955334--2955360 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2955324 ATATATTCAT
2955334 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
2955361 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:2961282 original size:14 final size:14
Alignment explanation
Indices: 2961263--2961293 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2961253 GCAAATCTCC
2961263 GAGGACATAATATT
1 GAGGACATAATATT
2961277 GAGGACATAATATT
1 GAGGACATAATATT
2961291 GAG
1 GAG
2961294 AAGTGTCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (14 bp):
GAGGACATAATATT
Found at i:2967001 original size:19 final size:19
Alignment explanation
Indices: 2966977--2967040 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
2966967 GAAGAAGAAG
* *
2966977 AAAAAAAAGGGAAAAATGA
1 AAAAAAAAGGAAAAAAAGA
*
2966996 AAAAAAAATGAAAAAAAG-
1 AAAAAAAAGGAAAAAAAGA
*
2967014 AAAAGAAAGAGAAAAGAAAGA
1 AAAAAAAAG-GAAAA-AAAGA
2967035 AAAAAA
1 AAAAAA
2967041 TAAAGGAGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 7 0.19
19 20 0.56
20 4 0.11
21 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAAAAAGGAAAAAAAGA
Found at i:2967002 original size:11 final size:11
Alignment explanation
Indices: 2966988--2967012 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2966978 AAAAAAAGGG
2966988 AAAAATGAAAA
1 AAAAATGAAAA
2966999 AAAAATGAAAA
1 AAAAATGAAAA
2967010 AAA
1 AAA
2967013 GAAAAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAATGAAAA
Found at i:2967008 original size:18 final size:18
Alignment explanation
Indices: 2966976--2967010 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2966966 AGAAGAAGAA
*
2966976 GAAAAAAAAGGGAAAAAT
1 GAAAAAAAAAGGAAAAAT
*
2966994 GAAAAAAAAATGAAAAA
1 GAAAAAAAAAGGAAAAA
2967011 AAGAAAAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
GAAAAAAAAAGGAAAAAT
Found at i:2968520 original size:3 final size:3
Alignment explanation
Indices: 2968506--2968567 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
2968496 TTTTATTTAT
*
2968506 TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2968554 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
2968568 TTCTTTATTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2970857 original size:42 final size:42
Alignment explanation
Indices: 2970794--2970913 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
2970784 TTTCCCCGAA
*
2970794 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
2970836 TTCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
2970878 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
2970914 TGTAATTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:2971149 original size:22 final size:23
Alignment explanation
Indices: 2971102--2971162 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
2971092 TAATTATTAA
* *
2971102 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
2971123 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
2971146 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
2971163 TAAAATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:2971525 original size:20 final size:20
Alignment explanation
Indices: 2971447--2971516 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
2971437 TTTCCATATG
2971447 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
2971467 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
* *
2971487 TTTTACATAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
2971507 TTTTCCAGAA
1 TTTTCCAGAA
2971517 TTCAAATTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:2971535 original size:15 final size:15
Alignment explanation
Indices: 2971499--2971580 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
2971489 TTACATAAAT
**
2971499 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
*
2971514 G-AATTCAAATTCTA
1 GTAATTCAAATTCCA
**
2971528 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
2971543 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
2971558 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
2971573 GTAATTCA
1 GTAATTCA
2971581 TTTTCTGGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 11 0.19
15 47 0.81
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:2971551 original size:30 final size:30
Alignment explanation
Indices: 2971499--2971580 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
2971489 TTACATAAAT
*
2971499 GTAATTCATTTTCCAG-AATTCAAATTCTA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
2971528 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
2971558 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
2971581 TTTTCTGGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.39
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:2971576 original size:45 final size:44
Alignment explanation
Indices: 2971499--2971585 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
2971489 TTACATAAAT
** *
2971499 GTAATTCATTTTCCAGAATTCAAATTCTAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
2971543 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTC
2971586 TGGAAAACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.41
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:2971906 original size:20 final size:20
Alignment explanation
Indices: 2971863--2971906 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2971853 AAAGTTGTAA
* * *
2971863 TTATTTTTTAAAAATAATAT
1 TTATTTTTCAAAAAAAATAG
*
2971883 TTATTTTTCAAAAAAAATGG
1 TTATTTTTCAAAAAAAATAG
2971903 TTAT
1 TTAT
2971907 GACTCTGATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (20 bp):
TTATTTTTCAAAAAAAATAG
Found at i:2976648 original size:29 final size:30
Alignment explanation
Indices: 2976610--2976677 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
2976600 GTCCATTGGT
*
2976610 TATCATTTTTTTTTAAACTTTTTAATAAGA
1 TATCATTTTTTTTCAAACTTTTTAATAAGA
2976640 TATCATTTTTTTTCAAACTTTTTAATAAGA
1 TATCATTTTTTTTCAAACTTTTTAATAAGA
*
2976670 -ATAATTTT
1 TATCATTTT
2976678 GCATTGTGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 7 0.19
30 29 0.81
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (30 bp):
TATCATTTTTTTTCAAACTTTTTAATAAGA
Found at i:2976952 original size:20 final size:19
Alignment explanation
Indices: 2976904--2976954 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
2976894 AAATAACCAA
* *
2976904 CAAATTCGCAACGCGATCT
1 CAAATTCGCAACACGAACT
2976923 CAAATTCGCAACACGAACT
1 CAAATTCGCAACACGAACT
*
2976942 CCAATTTCGCAAC
1 -CAAATTCGCAAC
2976955 TCAGTTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.20
Consensus pattern (19 bp):
CAAATTCGCAACACGAACT
Found at i:2976990 original size:20 final size:21
Alignment explanation
Indices: 2976905--2977023 Score: 88
Period size: 20 Copynumber: 5.9 Consensus size: 21
2976895 AATAACCAAC
*
2976905 AAATTCGCAACGCG-ATCTC-
1 AAATTCGCAACGCGAATTTCT
* * *
2976924 AAATTCGCAACACGAA-CTCC
1 AAATTCGCAACGCGAATTTCT
* * *
2976944 AATTTCGCAACTC-AGTTT-T
1 AAATTCGCAACGCGAATTTCT
*
2976963 GAAATTCGCAACTCGAATTTCT
1 -AAATTCGCAACGCGAATTTCT
** *
2976985 -TTTTCGCAACGCGATTTTCT
1 AAATTCGCAACGCGAATTTCT
2977005 AAATTCGCAACGCGAATTT
1 AAATTCGCAACGCGAATTT
2977024 GGAATTCACA
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
19 17 0.22
20 41 0.53
21 19 0.24
22 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (21 bp):
AAATTCGCAACGCGAATTTCT
Found at i:2977014 original size:41 final size:40
Alignment explanation
Indices: 2976908--2977023 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
2976898 AACCAACAAA
* * *
2976908 TTCGCAACGCGA-TCTCAAATTCGCAACACGAACTCCAAT
1 TTCGCAACGCGATTTTCAAATTCGCAACACGAATTTCAAT
* * * **
2976947 TTCGCAACTC-AGTTTTGAAATTCGCAACTCGAATTTCTTT
1 TTCGCAACGCGA-TTTTCAAATTCGCAACACGAATTTCAAT
*
2976987 TTCGCAACGCGATTTTCTAAATTCGCAACGCGAATTT
1 TTCGCAACGCGATTTTC-AAATTCGCAACACGAATTT
2977024 GGAATTCACA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.02
39 9 0.15
40 33 0.53
41 19 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (40 bp):
TTCGCAACGCGATTTTCAAATTCGCAACACGAATTTCAAT
Done.